Index (PSI :: JAMI - Java framework for molecular interactions 3.3.0 API)

A B C D E F G H I J K L M N O P Q R S T U V W X Y
All Classes All Packages

A

abandonJob(String, String) - Method in class psidev.psi.mi.jami.batch.MIBatchJobManager: Stops a job and returns the jobexecution
ABSTRACT_INTERACTION_TAG - Static variable in class psidev.psi.mi.jami.xml.utils.PsiXmlUtils: Constant ABSTRACT_INTERACTION_TAG="abstractInteraction"
AbstractAvailability - Class in psidev.psi.mi.jami.xml.model.extension: A text describing the availability of data, e.g.
AbstractAvailability() - Constructor for class psidev.psi.mi.jami.xml.model.extension.AbstractAvailability: Constructor for AbstractAvailability.
AbstractAvailabilityRef - Class in psidev.psi.mi.jami.xml.model.reference.xml253: Abstract class for Availability ref
AbstractAvailabilityRef - Class in psidev.psi.mi.jami.xml.model.reference.xml254: Abstract class for Availability ref
AbstractAvailabilityRef - Class in psidev.psi.mi.jami.xml.model.reference.xml300: Abstract class for Availability ref
AbstractAvailabilityRef(int) - Constructor for class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractAvailabilityRef: Constructor for AbstractAvailabilityRef.
AbstractAvailabilityRef(int) - Constructor for class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractAvailabilityRef: Constructor for AbstractAvailabilityRef.
AbstractAvailabilityRef(int) - Constructor for class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractAvailabilityRef: Constructor for AbstractAvailabilityRef.
AbstractBaseEntry<T extends Interaction> - Class in psidev.psi.mi.jami.xml.model: Abstract class for Entry
AbstractBaseEntry() - Constructor for class psidev.psi.mi.jami.xml.model.AbstractBaseEntry: Constructor for AbstractBaseEntry.
AbstractBaseEntry.AbstractJAXBAnnotationsWrapper - Class in psidev.psi.mi.jami.xml.model
AbstractBaseEntry.AbstractJAXBInteractionsWrapper<T> - Class in psidev.psi.mi.jami.xml.model
AbstractBaseEntry.AbstractJAXBInteractorsWrapper - Class in psidev.psi.mi.jami.xml.model
AbstractBaseXmlInteractor - Class in psidev.psi.mi.jami.xml.model.extension: The Xml implementation of Interactor
AbstractBaseXmlInteractor() - Constructor for class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: Constructor for AbstractBaseXmlInteractor.
AbstractBaseXmlInteractor(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: Constructor for AbstractBaseXmlInteractor.
AbstractBaseXmlInteractor(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: Constructor for AbstractBaseXmlInteractor.
AbstractBaseXmlInteractor(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: Constructor for AbstractBaseXmlInteractor.
AbstractBaseXmlInteractor(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: Constructor for AbstractBaseXmlInteractor.
AbstractBaseXmlInteractor(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: Constructor for AbstractBaseXmlInteractor.
AbstractBaseXmlInteractor(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: Constructor for AbstractBaseXmlInteractor.
AbstractBaseXmlInteractor(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: Constructor for AbstractBaseXmlInteractor.
AbstractBaseXmlInteractor(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: Constructor for AbstractBaseXmlInteractor.
AbstractBaseXmlInteractor(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: Constructor for AbstractBaseXmlInteractor.
AbstractBaseXmlInteractor(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: Constructor for AbstractBaseXmlInteractor.
AbstractBaseXmlInteractor(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: Constructor for AbstractBaseXmlInteractor.
AbstractBaseXmlInteractor(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: Constructor for AbstractBaseXmlInteractor.
AbstractBaseXmlInteractor(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: Constructor for AbstractBaseXmlInteractor.
AbstractBaseXmlInteractor(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: Constructor for AbstractBaseXmlInteractor.
AbstractBaseXmlInteractor(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: Constructor for AbstractBaseXmlInteractor.
AbstractBaseXmlInteractor(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: Constructor for AbstractBaseXmlInteractor.
AbstractBaseXmlInteractor.AbstractJAXBAttributeWrapper - Class in psidev.psi.mi.jami.xml.model.extension
AbstractBinaryInteraction<T extends Participant> - Class in psidev.psi.mi.jami.binary.impl: Abstract class for BinaryInteraction.
AbstractBinaryInteraction() - Constructor for class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteraction: Constructor for AbstractBinaryInteraction.
AbstractBinaryInteraction(String) - Constructor for class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteraction: Constructor for AbstractBinaryInteraction.
AbstractBinaryInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteraction: Constructor for AbstractBinaryInteraction.
AbstractBinaryInteraction(String, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteraction: Constructor for AbstractBinaryInteraction.
AbstractBinaryInteraction(String, CvTerm, T, T) - Constructor for class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteraction: Constructor for AbstractBinaryInteraction.
AbstractBinaryInteraction(String, CvTerm, T, T, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteraction: Constructor for AbstractBinaryInteraction.
AbstractBinaryInteraction(String, CvTerm, T, T, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteraction: Constructor for AbstractBinaryInteraction.
AbstractBinaryInteraction(String, T, T) - Constructor for class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteraction: Constructor for AbstractBinaryInteraction.
AbstractBinaryInteraction(String, T, T, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteraction: Constructor for AbstractBinaryInteraction.
AbstractBinaryInteraction(CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteraction: Constructor for AbstractBinaryInteraction.
AbstractBinaryInteraction(T, T) - Constructor for class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteraction: Constructor for AbstractBinaryInteraction.
AbstractBinaryInteraction(T, T, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteraction: Constructor for AbstractBinaryInteraction.
AbstractBinaryInteractionWrapper,T extends Participant> - Class in psidev.psi.mi.jami.binary.impl: Abstract class for binary interactions that wrap an Interaction.
AbstractBinaryInteractionWrapper(I) - Constructor for class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteractionWrapper: Constructor for AbstractBinaryInteractionWrapper.
AbstractBinaryInteractionWrapper(I, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteractionWrapper: Constructor for AbstractBinaryInteractionWrapper.
AbstractBipartiteExpansion<T extends Interaction,B extends BinaryInteraction> - Class in psidev.psi.mi.jami.binary.expansion: Abstract class for BipartiteExpansion.
AbstractBipartiteExpansion() - Constructor for class psidev.psi.mi.jami.binary.expansion.AbstractBipartiteExpansion: Constructor for AbstractBipartiteExpansion.
AbstractCachedFetcher - Class in psidev.psi.mi.jami.bridges.fetcher: Abstract class for fetchers
AbstractCachedFetcher(String) - Constructor for class psidev.psi.mi.jami.bridges.fetcher.AbstractCachedFetcher: Constructor for AbstractCachedFetcher.
AbstractCollectionWrapper<T> - Class in psidev.psi.mi.jami.utils.collection: Abstract list which is updating some properties when adding/removing elements.
AbstractCollectionWrapper(Collection<T>) - Constructor for class psidev.psi.mi.jami.utils.collection.AbstractCollectionWrapper: Constructor for AbstractCollectionWrapper.
AbstractCompactXmlMixWriter - Class in psidev.psi.mi.jami.xml.io.writer.compact: Abstract class for a compact PSI-XML writer of mixed interactions
AbstractCompactXmlMixWriter(PsiXmlVersion, Class) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlMixWriter: Constructor for AbstractCompactXmlMixWriter.
AbstractCompactXmlMixWriter(PsiXmlVersion, Class, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlMixWriter: Constructor for AbstractCompactXmlMixWriter.
AbstractCompactXmlMixWriter(PsiXmlVersion, Class, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlMixWriter: Constructor for AbstractCompactXmlMixWriter.
AbstractCompactXmlMixWriter(PsiXmlVersion, Class, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlMixWriter: Constructor for AbstractCompactXmlMixWriter.
AbstractCompactXmlWriter<T extends Interaction> - Class in psidev.psi.mi.jami.xml.io.writer.compact: Abstract class for Compact XML writers.
AbstractCompactXmlWriter(PsiXmlVersion, Class<T>) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: Constructor for AbstractCompactXmlWriter.
AbstractCompactXmlWriter(PsiXmlVersion, Class<T>, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: Constructor for AbstractCompactXmlWriter.
AbstractCompactXmlWriter(PsiXmlVersion, Class<T>, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: Constructor for AbstractCompactXmlWriter.
AbstractCompactXmlWriter(PsiXmlVersion, Class<T>, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: Constructor for AbstractCompactXmlWriter.
AbstractCompactXmlWriter(PsiXmlVersion, Class<T>, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: Constructor for AbstractCompactXmlWriter.
AbstractComplexExpansionMethod<T extends Interaction,B extends BinaryInteraction> - Class in psidev.psi.mi.jami.binary.expansion: Abstract class for ComplexExpansionMethod.
AbstractComplexExpansionMethod(CvTerm) - Constructor for class psidev.psi.mi.jami.binary.expansion.AbstractComplexExpansionMethod: Constructor for AbstractComplexExpansionMethod.
AbstractComplexRef - Class in psidev.psi.mi.jami.xml.model.reference.xml253: Abstract class for references to a complex
AbstractComplexRef - Class in psidev.psi.mi.jami.xml.model.reference.xml254: Abstract class for references to a complex
AbstractComplexRef - Class in psidev.psi.mi.jami.xml.model.reference.xml300: Abstract class for references to a complex
AbstractComplexRef(int) - Constructor for class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: Constructor for AbstractComplexRef.
AbstractComplexRef(int) - Constructor for class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: Constructor for AbstractComplexRef.
AbstractComplexRef(int) - Constructor for class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: Constructor for AbstractComplexRef.
AbstractCsvInteractionEvidenceParser<T extends InteractionEvidence> - Class in psidev.psi.mi.jami.crosslink.io.parser: Abstract class for crosslink CSV parser
AbstractCsvInteractionEvidenceParser() - Constructor for class psidev.psi.mi.jami.crosslink.io.parser.AbstractCsvInteractionEvidenceParser
AbstractCsvSource<T extends InteractionEvidence> - Class in psidev.psi.mi.jami.crosslink.extension.datasource: Abstract class for an InteractionSource coming from a Crosslink CSV file.
AbstractCsvSource() - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Empty constructor for the factory
AbstractCsvSource(File) - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Constructor for AbstractCsvSource.
AbstractCsvSource(InputStream) - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Constructor for AbstractCsvSource.
AbstractCsvSource(Reader) - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Constructor for AbstractCsvSource.
AbstractCsvSource(URL) - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Constructor for AbstractCsvSource.
AbstractCsvStreamSource<T extends InteractionEvidence> - Class in psidev.psi.mi.jami.crosslink.extension.datasource: abstract class for Crosslink Csv datasource.
AbstractCsvStreamSource() - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Empty constructor for the factory
AbstractCsvStreamSource(File) - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Constructor for AbstractCsvStreamSource.
AbstractCsvStreamSource(InputStream) - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Constructor for AbstractCsvStreamSource.
AbstractCsvStreamSource(Reader) - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Constructor for AbstractCsvStreamSource.
AbstractCsvStreamSource(URL) - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Constructor for AbstractCsvStreamSource.
AbstractEntity<F extends Feature> - Class in psidev.psi.mi.jami.model.impl: Abstract class for Entity
AbstractEntity(Interactor) - Constructor for class psidev.psi.mi.jami.model.impl.AbstractEntity: Constructor for AbstractEntity.
AbstractEntity(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.model.impl.AbstractEntity: Constructor for AbstractEntity.
AbstractEntityRef<T extends Feature> - Class in psidev.psi.mi.jami.xml.model.reference.xml253: Abstract entity reference
AbstractEntityRef<T extends Feature> - Class in psidev.psi.mi.jami.xml.model.reference.xml254: Abstract entity reference
AbstractEntityRef<T extends Feature> - Class in psidev.psi.mi.jami.xml.model.reference.xml300: Abstract entity reference
AbstractEntityRef(int) - Constructor for class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractEntityRef: Constructor for AbstractEntityRef.
AbstractEntityRef(int) - Constructor for class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractEntityRef: Constructor for AbstractEntityRef.
AbstractEntityRef(int) - Constructor for class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractEntityRef: Constructor for AbstractEntityRef.
AbstractEntry<T extends Interaction> - Class in psidev.psi.mi.jami.xml.model.xml253: Abstract class for Entry
AbstractEntry<T extends Interaction> - Class in psidev.psi.mi.jami.xml.model.xml254: Abstract class for Entry
AbstractEntry<T extends Interaction> - Class in psidev.psi.mi.jami.xml.model.xml30: Abstract class for Entry
AbstractEntry() - Constructor for class psidev.psi.mi.jami.xml.model.xml253.AbstractEntry: Constructor for AbstractEntry.
AbstractEntry() - Constructor for class psidev.psi.mi.jami.xml.model.xml254.AbstractEntry: Constructor for AbstractEntry.
AbstractEntry() - Constructor for class psidev.psi.mi.jami.xml.model.xml30.AbstractEntry: Constructor for AbstractEntry.
AbstractEntry.JAXBAnnotationsWrapper - Class in psidev.psi.mi.jami.xml.model.xml253
AbstractEntry.JAXBAnnotationsWrapper - Class in psidev.psi.mi.jami.xml.model.xml254
AbstractEntry.JAXBAnnotationsWrapper - Class in psidev.psi.mi.jami.xml.model.xml30
AbstractEntry.JAXBInteractionsWrapper<T> - Class in psidev.psi.mi.jami.xml.model.xml253
AbstractEntry.JAXBInteractionsWrapper<T> - Class in psidev.psi.mi.jami.xml.model.xml254
AbstractEntry.JAXBInteractionsWrapper<T> - Class in psidev.psi.mi.jami.xml.model.xml30
AbstractEntry.JAXBInteractorsWrapper - Class in psidev.psi.mi.jami.xml.model.xml253
AbstractEntry.JAXBInteractorsWrapper - Class in psidev.psi.mi.jami.xml.model.xml254
AbstractEntry.JAXBInteractorsWrapper - Class in psidev.psi.mi.jami.xml.model.xml30
AbstractEntrySet<T extends AbstractBaseEntry> - Class in psidev.psi.mi.jami.xml.model: Abstract class for Psi-XML root node.
AbstractEntrySet() - Constructor for class psidev.psi.mi.jami.xml.model.AbstractEntrySet
AbstractExpandedXmlMixWriter - Class in psidev.psi.mi.jami.xml.io.writer.expanded: Abstract class for an expanded PSI-XML writer of mixed interactions
AbstractExpandedXmlMixWriter(PsiXmlVersion, Class) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlMixWriter: Constructor for AbstractExpandedXmlMixWriter.
AbstractExpandedXmlMixWriter(PsiXmlVersion, Class, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlMixWriter: Constructor for AbstractExpandedXmlMixWriter.
AbstractExpandedXmlMixWriter(PsiXmlVersion, Class, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlMixWriter: Constructor for AbstractExpandedXmlMixWriter.
AbstractExpandedXmlMixWriter(PsiXmlVersion, Class, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlMixWriter: Constructor for AbstractExpandedXmlMixWriter.
AbstractExpandedXmlWriter<T extends Interaction> - Class in psidev.psi.mi.jami.xml.io.writer.expanded: Abstract class for expanded PSI-xml writers
AbstractExpandedXmlWriter(PsiXmlVersion, Class<T>) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlWriter: Constructor for AbstractExpandedXmlWriter.
AbstractExpandedXmlWriter(PsiXmlVersion, Class<T>, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlWriter: Constructor for AbstractExpandedXmlWriter.
AbstractExpandedXmlWriter(PsiXmlVersion, Class<T>, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlWriter: Constructor for AbstractExpandedXmlWriter.
AbstractExpandedXmlWriter(PsiXmlVersion, Class<T>, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlWriter: Constructor for AbstractExpandedXmlWriter.
AbstractExpandedXmlWriter(PsiXmlVersion, Class<T>, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlWriter: Constructor for AbstractExpandedXmlWriter.
AbstractExperimentalInteractor - Class in psidev.psi.mi.jami.xml.model.extension: Java class for experimentalInteractor complex type.
AbstractExperimentalInteractor() - Constructor for class psidev.psi.mi.jami.xml.model.extension.AbstractExperimentalInteractor: Constructor for AbstractExperimentalInteractor.
AbstractExperimentalInteractor.AbstractJAXBExperimentRefWrapper - Class in psidev.psi.mi.jami.xml.model.extension
AbstractExperimentRef - Class in psidev.psi.mi.jami.xml.model.reference.xml253: Abstract class for an ModelledInteractionRef
AbstractExperimentRef - Class in psidev.psi.mi.jami.xml.model.reference.xml254: Abstract class for an ModelledInteractionRef
AbstractExperimentRef - Class in psidev.psi.mi.jami.xml.model.reference.xml300: Abstract class for an ModelledInteractionRef
AbstractExperimentRef(int) - Constructor for class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: Constructor for AbstractExperimentRef.
AbstractExperimentRef(int) - Constructor for class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: Constructor for AbstractExperimentRef.
AbstractExperimentRef(int) - Constructor for class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: Constructor for AbstractExperimentRef.
AbstractExtendedXmlBinaryInteraction - Class in psidev.psi.mi.jami.xml.model.extension.binary: Abstract class for xml binary interactions
AbstractExtendedXmlBinaryInteraction() - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.AbstractExtendedXmlBinaryInteraction: Constructor for AbstractExtendedXmlBinaryInteraction.
AbstractExtendedXmlBinaryInteraction(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.AbstractExtendedXmlBinaryInteraction: Constructor for AbstractExtendedXmlBinaryInteraction.
AbstractExtendedXmlBinaryInteraction(String, P, P) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.AbstractExtendedXmlBinaryInteraction: Constructor for AbstractExtendedXmlBinaryInteraction.
AbstractExtendedXmlBinaryInteraction(String, P, P, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.AbstractExtendedXmlBinaryInteraction: Constructor for AbstractExtendedXmlBinaryInteraction.
AbstractExtendedXmlBinaryInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.AbstractExtendedXmlBinaryInteraction: Constructor for AbstractExtendedXmlBinaryInteraction.
AbstractExtendedXmlBinaryInteraction(String, CvTerm, P, P) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.AbstractExtendedXmlBinaryInteraction: Constructor for AbstractExtendedXmlBinaryInteraction.
AbstractExtendedXmlBinaryInteraction(String, CvTerm, P, P, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.AbstractExtendedXmlBinaryInteraction: Constructor for AbstractExtendedXmlBinaryInteraction.
AbstractExtendedXmlBinaryInteraction(String, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.AbstractExtendedXmlBinaryInteraction: Constructor for AbstractExtendedXmlBinaryInteraction.
AbstractExtendedXmlBinaryInteraction(P, P) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.AbstractExtendedXmlBinaryInteraction: Constructor for AbstractExtendedXmlBinaryInteraction.
AbstractExtendedXmlBinaryInteraction(P, P, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.AbstractExtendedXmlBinaryInteraction: Constructor for AbstractExtendedXmlBinaryInteraction.
AbstractExtendedXmlBinaryInteraction(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.AbstractExtendedXmlBinaryInteraction: Constructor for AbstractExtendedXmlBinaryInteraction.
AbstractFailingFetcher<T> - Class in psidev.psi.mi.jami.bridges.fetcher.mock: A mock fetcher for testing behaviour of bridgeFailedExceptions.
AbstractFailingFetcher(int) - Constructor for class psidev.psi.mi.jami.bridges.fetcher.mock.AbstractFailingFetcher: Sets up the mock fetcher with a number of times to throw exceptions before returning the solution to the query.
AbstractFeature - Class in psidev.psi.mi.jami.model.impl: Abstract class for Feature
AbstractFeature() - Constructor for class psidev.psi.mi.jami.model.impl.AbstractFeature: Constructor for AbstractFeature.
AbstractFeature(String, String) - Constructor for class psidev.psi.mi.jami.model.impl.AbstractFeature: Constructor for AbstractFeature.
AbstractFeature(String, String, String) - Constructor for class psidev.psi.mi.jami.model.impl.AbstractFeature: Constructor for AbstractFeature.
AbstractFeature(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.AbstractFeature: Constructor for AbstractFeature.
AbstractFeature(String, String, CvTerm, String) - Constructor for class psidev.psi.mi.jami.model.impl.AbstractFeature: Constructor for AbstractFeature.
AbstractFeature(CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.AbstractFeature: Constructor for AbstractFeature.
AbstractFeature(CvTerm, String) - Constructor for class psidev.psi.mi.jami.model.impl.AbstractFeature: Constructor for AbstractFeature.
AbstractFeature.FeatureIdentifierList - Class in psidev.psi.mi.jami.model.impl
AbstractFeatureRef<E extends Entity,F extends Feature> - Class in psidev.psi.mi.jami.xml.model.reference: Abstract feature reference
AbstractFeatureRef(int) - Constructor for class psidev.psi.mi.jami.xml.model.reference.AbstractFeatureRef: Constructor for AbstractFeatureRef.
AbstractFullPsiXmlParser<T extends Interaction> - Class in psidev.psi.mi.jami.xml.io.parser: This class if for parser that will load the all file in memory
AbstractFullPsiXmlParser(File) - Constructor for class psidev.psi.mi.jami.xml.io.parser.AbstractFullPsiXmlParser: Constructor for AbstractFullPsiXmlParser.
AbstractFullPsiXmlParser(InputStream) - Constructor for class psidev.psi.mi.jami.xml.io.parser.AbstractFullPsiXmlParser: Constructor for AbstractFullPsiXmlParser.
AbstractFullPsiXmlParser(Reader) - Constructor for class psidev.psi.mi.jami.xml.io.parser.AbstractFullPsiXmlParser: Constructor for AbstractFullPsiXmlParser.
AbstractFullPsiXmlParser(URL) - Constructor for class psidev.psi.mi.jami.xml.io.parser.AbstractFullPsiXmlParser: Constructor for AbstractFullPsiXmlParser.
AbstractInferredInteraction - Class in psidev.psi.mi.jami.xml.model.extension: Java class for inferredInteraction complex type.
AbstractInferredInteraction() - Constructor for class psidev.psi.mi.jami.xml.model.extension.AbstractInferredInteraction: Constructor for AbstractInferredInteraction.
AbstractInferredInteraction.AbstractJAXBExperimentRefWrapper - Class in psidev.psi.mi.jami.xml.model.extension
AbstractInferredInteractionParticipant - Class in psidev.psi.mi.jami.xml.model.extension: Participant of the inferred interaction.
AbstractInferredInteractionParticipant() - Constructor for class psidev.psi.mi.jami.xml.model.extension.AbstractInferredInteractionParticipant: Constructor for AbstractInferredInteractionParticipant.
AbstractInteraction<T extends Participant> - Class in psidev.psi.mi.jami.model.impl: Abstract class for interactions
AbstractInteraction() - Constructor for class psidev.psi.mi.jami.model.impl.AbstractInteraction: Constructor for AbstractInteraction.
AbstractInteraction(String) - Constructor for class psidev.psi.mi.jami.model.impl.AbstractInteraction: Constructor for AbstractInteraction.
AbstractInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.AbstractInteraction: Constructor for AbstractInteraction.
AbstractInteractionEvidenceLineParser<T extends InteractionEvidence> - Class in psidev.psi.mi.jami.tab.io.parser: Abstract class for Interaction evidence parsers
AbstractInteractionEvidenceLineParser(InputStream) - Constructor for class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionEvidenceLineParser: Constructor for AbstractInteractionEvidenceLineParser.
AbstractInteractionEvidenceLineParser(InputStream, String) - Constructor for class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionEvidenceLineParser: Constructor for AbstractInteractionEvidenceLineParser.
AbstractInteractionEvidenceLineParser(Reader) - Constructor for class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionEvidenceLineParser: Constructor for AbstractInteractionEvidenceLineParser.
AbstractInteractionEvidenceLineParser(MitabLineParserTokenManager) - Constructor for class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionEvidenceLineParser: Constructor for AbstractInteractionEvidenceLineParser.
AbstractInteractionLineParser<T extends Interaction,P extends Participant,F extends Feature> - Class in psidev.psi.mi.jami.tab.io.parser: Abstract mitab line parser
AbstractInteractionLineParser(InputStream) - Constructor for class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionLineParser: Constructor for AbstractInteractionLineParser.
AbstractInteractionLineParser(InputStream, String) - Constructor for class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionLineParser: Constructor for AbstractInteractionLineParser.
AbstractInteractionLineParser(Reader) - Constructor for class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionLineParser: Constructor for AbstractInteractionLineParser.
AbstractInteractionLineParser(MitabLineParserTokenManager) - Constructor for class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionLineParser: Constructor for AbstractInteractionLineParser.
AbstractInteractorEnricher<T extends Interactor> - Class in psidev.psi.mi.jami.enricher.impl: Abstract class for enricher of interactors Minimal enrichment: - enrich fullname of an interactor.
AbstractInteractorEnricher() - Constructor for class psidev.psi.mi.jami.enricher.impl.AbstractInteractorEnricher: Constructor for AbstractInteractorEnricher.
AbstractInteractorEnricher(InteractorFetcher<T>) - Constructor for class psidev.psi.mi.jami.enricher.impl.AbstractInteractorEnricher: Constructor for AbstractInteractorEnricher.
AbstractInteractorRef - Class in psidev.psi.mi.jami.xml.model.reference.xml253: An implementation of XmlIdReference for interactors
AbstractInteractorRef - Class in psidev.psi.mi.jami.xml.model.reference.xml254: An implementation of XmlIdReference for interactors
AbstractInteractorRef - Class in psidev.psi.mi.jami.xml.model.reference.xml300: An implementation of XmlIdReference for interactors
AbstractInteractorRef(int) - Constructor for class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractInteractorRef: Constructor for AbstractInteractorRef.
AbstractInteractorRef(int) - Constructor for class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractInteractorRef: Constructor for AbstractInteractorRef.
AbstractInteractorRef(int) - Constructor for class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractInteractorRef: Constructor for AbstractInteractorRef.
AbstractInteractorUpdater<T extends Interactor> - Class in psidev.psi.mi.jami.enricher.impl: Abstract class for updater of interactors Minimal update: - enrich shortname of an interactor.
AbstractInteractorUpdater(AbstractInteractorEnricher<T>) - Constructor for class psidev.psi.mi.jami.enricher.impl.AbstractInteractorUpdater: Constructor for AbstractInteractorUpdater.
AbstractJAXBAnnotationsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.AbstractBaseEntry.AbstractJAXBAnnotationsWrapper
AbstractJAXBAttributeWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor.AbstractJAXBAttributeWrapper
AbstractJAXBExperimentRefWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.AbstractExperimentalInteractor.AbstractJAXBExperimentRefWrapper
AbstractJAXBExperimentRefWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.AbstractInferredInteraction.AbstractJAXBExperimentRefWrapper
AbstractJAXBInteractionsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.AbstractBaseEntry.AbstractJAXBInteractionsWrapper
AbstractJAXBInteractorsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.AbstractBaseEntry.AbstractJAXBInteractorsWrapper
AbstractLightInteractionLineParser<T extends Interaction> - Class in psidev.psi.mi.jami.tab.io.parser: Abstract class for InteractionLine parsers
AbstractLightInteractionLineParser(InputStream) - Constructor for class psidev.psi.mi.jami.tab.io.parser.AbstractLightInteractionLineParser: Constructor for AbstractLightInteractionLineParser.
AbstractLightInteractionLineParser(InputStream, String) - Constructor for class psidev.psi.mi.jami.tab.io.parser.AbstractLightInteractionLineParser: Constructor for AbstractLightInteractionLineParser.
AbstractLightInteractionLineParser(Reader) - Constructor for class psidev.psi.mi.jami.tab.io.parser.AbstractLightInteractionLineParser: Constructor for AbstractLightInteractionLineParser.
AbstractLightInteractionLineParser(MitabLineParserTokenManager) - Constructor for class psidev.psi.mi.jami.tab.io.parser.AbstractLightInteractionLineParser: Constructor for AbstractLightInteractionLineParser.
AbstractListHavingProperties<T> - Class in psidev.psi.mi.jami.utils.collection: Abstract list which is updating some properties when adding/removing elements.
AbstractListHavingProperties() - Constructor for class psidev.psi.mi.jami.utils.collection.AbstractListHavingProperties: Constructor for AbstractListHavingProperties.
AbstractMatrixExpansion<T extends Interaction,B extends BinaryInteraction> - Class in psidev.psi.mi.jami.binary.expansion: Abstract class for Matrix expansion
AbstractMatrixExpansion() - Constructor for class psidev.psi.mi.jami.binary.expansion.AbstractMatrixExpansion: Constructor for AbstractMatrixExpansion.
AbstractMIEdge<T> - Class in psidev.psi.mi.jami.analysis.graph.model: Abstract class for MIEdge interface.
AbstractMIEdge(T, T, MIComparator<T>) - Constructor for class psidev.psi.mi.jami.analysis.graph.model.AbstractMIEdge: Constructor for AbstractMIEdge.
AbstractMIEnricher<T> - Class in psidev.psi.mi.jami.enricher.impl: Abstract implementation of a MIEnricher
AbstractMIEnricher() - Constructor for class psidev.psi.mi.jami.enricher.impl.AbstractMIEnricher
AbstractMIHtmlWriter<T extends Interaction,P extends Participant,F extends Feature> - Class in psidev.psi.mi.jami.html: Abstract class for MI HTML writer
AbstractMIHtmlWriter(File, AbstractMIHtmlWriter<ModelledInteraction, ModelledParticipant, ModelledFeature>) - Constructor for class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: Constructor for AbstractMIHtmlWriter.
AbstractMIHtmlWriter(OutputStream, AbstractMIHtmlWriter<ModelledInteraction, ModelledParticipant, ModelledFeature>) - Constructor for class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: Constructor for AbstractMIHtmlWriter.
AbstractMIHtmlWriter(Writer, AbstractMIHtmlWriter<ModelledInteraction, ModelledParticipant, ModelledFeature>) - Constructor for class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: Constructor for AbstractMIHtmlWriter.
AbstractMIHtmlWriter(AbstractMIHtmlWriter<ModelledInteraction, ModelledParticipant, ModelledFeature>) - Constructor for class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: Constructor for AbstractMIHtmlWriter.
AbstractMIJsonBinaryWriter - Class in psidev.psi.mi.jami.json.binary: Abstract JSON writer for binary interactions (binary json format)
AbstractMIJsonBinaryWriter() - Constructor for class psidev.psi.mi.jami.json.binary.AbstractMIJsonBinaryWriter: Constructor for AbstractMIJsonBinaryWriter.
AbstractMIJsonBinaryWriter(File, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.binary.AbstractMIJsonBinaryWriter: Constructor for AbstractMIJsonBinaryWriter.
AbstractMIJsonBinaryWriter(OutputStream, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.binary.AbstractMIJsonBinaryWriter: Constructor for AbstractMIJsonBinaryWriter.
AbstractMIJsonBinaryWriter(Writer, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.binary.AbstractMIJsonBinaryWriter: Constructor for AbstractMIJsonBinaryWriter.
AbstractMIJsonBinaryWriter(Writer, OntologyTermFetcher, Map<String, String>, Map<Feature, Integer>, Map<Entity, Integer>, IncrementalIdGenerator) - Constructor for class psidev.psi.mi.jami.json.binary.AbstractMIJsonBinaryWriter: Constructor for AbstractMIJsonBinaryWriter.
AbstractMIJsonBinaryWriter(Map<String, String>, Map<Feature, Integer>, Map<Entity, Integer>, IncrementalIdGenerator) - Constructor for class psidev.psi.mi.jami.json.binary.AbstractMIJsonBinaryWriter: Constructor for AbstractMIJsonBinaryWriter.
AbstractMIJsonWriter - Class in psidev.psi.mi.jami.json.binary: The jsonWriter which writes the interactions
AbstractMIJsonWriter - Class in psidev.psi.mi.jami.json.nary: Abstract JSON writer for interactions (n-ary json format)
AbstractMIJsonWriter() - Constructor for class psidev.psi.mi.jami.json.binary.AbstractMIJsonWriter: Constructor for AbstractMIJsonWriter.
AbstractMIJsonWriter() - Constructor for class psidev.psi.mi.jami.json.nary.AbstractMIJsonWriter: Constructor for AbstractMIJsonWriter.
AbstractMIJsonWriter(File, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.binary.AbstractMIJsonWriter: Constructor for AbstractMIJsonWriter.
AbstractMIJsonWriter(File, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.nary.AbstractMIJsonWriter: Constructor for AbstractMIJsonWriter.
AbstractMIJsonWriter(File, OntologyTermFetcher, ComplexExpansionMethod<I, B>) - Constructor for class psidev.psi.mi.jami.json.binary.AbstractMIJsonWriter: Constructor for AbstractMIJsonWriter.
AbstractMIJsonWriter(OutputStream, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.binary.AbstractMIJsonWriter: Constructor for AbstractMIJsonWriter.
AbstractMIJsonWriter(OutputStream, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.nary.AbstractMIJsonWriter: Constructor for AbstractMIJsonWriter.
AbstractMIJsonWriter(OutputStream, OntologyTermFetcher, ComplexExpansionMethod<I, B>) - Constructor for class psidev.psi.mi.jami.json.binary.AbstractMIJsonWriter: Constructor for AbstractMIJsonWriter.
AbstractMIJsonWriter(Writer, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.binary.AbstractMIJsonWriter: Constructor for AbstractMIJsonWriter.
AbstractMIJsonWriter(Writer, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.nary.AbstractMIJsonWriter: Constructor for AbstractMIJsonWriter.
AbstractMIJsonWriter(Writer, OntologyTermFetcher, Map<String, String>, Map<Feature, Integer>, Map<Entity, Integer>, IncrementalIdGenerator) - Constructor for class psidev.psi.mi.jami.json.nary.AbstractMIJsonWriter: Constructor for AbstractMIJsonWriter.
AbstractMIJsonWriter(Writer, OntologyTermFetcher, ComplexExpansionMethod<I, B>) - Constructor for class psidev.psi.mi.jami.json.binary.AbstractMIJsonWriter: Constructor for AbstractMIJsonWriter.
AbstractMIJsonWriter(Map<String, String>, Map<Feature, Integer>, Map<Entity, Integer>, IncrementalIdGenerator) - Constructor for class psidev.psi.mi.jami.json.nary.AbstractMIJsonWriter: Constructor for AbstractMIJsonWriter.
AbstractMIOntologyAccess - Class in psidev.psi.mi.jami.bridges.ontologymanager.impl: abstract class for OntologyAccess
AbstractMIOntologyAccess() - Constructor for class psidev.psi.mi.jami.bridges.ontologymanager.impl.AbstractMIOntologyAccess: Constructor for AbstractMIOntologyAccess.
AbstractMIOntologyAccess(String, String, Pattern, String) - Constructor for class psidev.psi.mi.jami.bridges.ontologymanager.impl.AbstractMIOntologyAccess: Constructor for AbstractMIOntologyAccess.
AbstractMIOntologyAccess(OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.bridges.ontologymanager.impl.AbstractMIOntologyAccess: Constructor for AbstractMIOntologyAccess.
AbstractMIOntologyAccess(OntologyTermFetcher, String, String, Pattern, String) - Constructor for class psidev.psi.mi.jami.bridges.ontologymanager.impl.AbstractMIOntologyAccess: Constructor for AbstractMIOntologyAccess.
AbstractMitab25BinaryWriter<T extends BinaryInteraction,P extends Participant> - Class in psidev.psi.mi.jami.tab.io.writer: Abstract class for BinaryInteraction writer.
AbstractMitab25BinaryWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.AbstractMitab25BinaryWriter: Constructor for AbstractMitab25BinaryWriter.
AbstractMitab25BinaryWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.AbstractMitab25BinaryWriter: Constructor for AbstractMitab25BinaryWriter.
AbstractMitab25BinaryWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.AbstractMitab25BinaryWriter: Constructor for AbstractMitab25BinaryWriter.
AbstractMitab25BinaryWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.AbstractMitab25BinaryWriter: Constructor for AbstractMitab25BinaryWriter.
AbstractMitab26BinaryWriter<T extends BinaryInteraction,P extends Participant> - Class in psidev.psi.mi.jami.tab.io.writer: Abstract class for MITAB 2.6 writer of binary interactions
AbstractMitab26BinaryWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.AbstractMitab26BinaryWriter: Constructor for AbstractMitab26BinaryWriter.
AbstractMitab26BinaryWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.AbstractMitab26BinaryWriter: Constructor for AbstractMitab26BinaryWriter.
AbstractMitab26BinaryWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.AbstractMitab26BinaryWriter: Constructor for AbstractMitab26BinaryWriter.
AbstractMitab26BinaryWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.AbstractMitab26BinaryWriter: Constructor for AbstractMitab26BinaryWriter.
AbstractMitab27BinaryWriter<T extends BinaryInteraction,P extends Participant> - Class in psidev.psi.mi.jami.tab.io.writer: Abstract mitab 2.7 writer for binary interactions
AbstractMitab27BinaryWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.AbstractMitab27BinaryWriter: Constructor for AbstractMitab27BinaryWriter.
AbstractMitab27BinaryWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.AbstractMitab27BinaryWriter: Constructor for AbstractMitab27BinaryWriter.
AbstractMitab27BinaryWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.AbstractMitab27BinaryWriter: Constructor for AbstractMitab27BinaryWriter.
AbstractMitab27BinaryWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.AbstractMitab27BinaryWriter: Constructor for AbstractMitab27BinaryWriter.
AbstractMitab28BinaryWriter<T extends BinaryInteraction,P extends Participant> - Class in psidev.psi.mi.jami.tab.io.writer: Abstract mitab 2.8 writer for binary interactions
AbstractMitab28BinaryWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.AbstractMitab28BinaryWriter: Constructor for AbstractMitab28BinaryWriter.
AbstractMitab28BinaryWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.AbstractMitab28BinaryWriter: Constructor for AbstractMitab28BinaryWriter.
AbstractMitab28BinaryWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.AbstractMitab28BinaryWriter: Constructor for AbstractMitab28BinaryWriter.
AbstractMitab28BinaryWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.AbstractMitab28BinaryWriter: Constructor for AbstractMitab28BinaryWriter.
AbstractMitabColumnFeeder<T extends BinaryInteraction,P extends Participant> - Class in psidev.psi.mi.jami.tab.io.writer.feeder: Abstract Mitab 2.5 column feeder
AbstractMitabColumnFeeder(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.feeder.AbstractMitabColumnFeeder: Constructor for AbstractMitabColumnFeeder.
AbstractMitabIterator<T extends Interaction,P extends Participant,F extends Feature> - Class in psidev.psi.mi.jami.tab.io.iterator: Abstract class for mitab iterator
AbstractMitabIterator(MitabLineParser<T, P, F>) - Constructor for class psidev.psi.mi.jami.tab.io.iterator.AbstractMitabIterator: Constructor for AbstractMitabIterator.
AbstractMitabSource<T extends Interaction,P extends Participant,F extends Feature> - Class in psidev.psi.mi.jami.tab.extension.datasource: Abstract class for an InteractionSource coming from a MITAB file.
AbstractMitabSource(AbstractMitabStreamSource<T, P, F>) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: Constructor for AbstractMitabSource.
AbstractMitabStreamSource<T extends Interaction,P extends Participant,F extends Feature> - Class in psidev.psi.mi.jami.tab.extension.datasource: abstract class for Mitab datasource.
AbstractMitabStreamSource() - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Empty constructor for the factory
AbstractMitabStreamSource(File) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Constructor for AbstractMitabStreamSource.
AbstractMitabStreamSource(InputStream) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Constructor for AbstractMitabStreamSource.
AbstractMitabStreamSource(Reader) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Constructor for AbstractMitabStreamSource.
AbstractMitabStreamSource(URL) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Constructor for AbstractMitabStreamSource.
AbstractMitabWriter<T extends Interaction,B extends BinaryInteraction,P extends Participant> - Class in psidev.psi.mi.jami.tab.io.writer: Abstract writer for Mitab 2.5.
AbstractMitabWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.AbstractMitabWriter: Constructor for AbstractMitabWriter.
AbstractMitabWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.AbstractMitabWriter: Constructor for AbstractMitabWriter.
AbstractMitabWriter(File, ComplexExpansionMethod<T, B>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.AbstractMitabWriter: Constructor for AbstractMitabWriter.
AbstractMitabWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.AbstractMitabWriter: Constructor for AbstractMitabWriter.
AbstractMitabWriter(OutputStream, ComplexExpansionMethod<T, B>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.AbstractMitabWriter: Constructor for AbstractMitabWriter.
AbstractMitabWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.AbstractMitabWriter: Constructor for AbstractMitabWriter.
AbstractMitabWriter(Writer, ComplexExpansionMethod<T, B>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.AbstractMitabWriter: Constructor for AbstractMitabWriter.
AbstractMockFetcher<T> - Class in psidev.psi.mi.jami.bridges.fetcher.mock: A general mock fetcher which can be used to quickly make new mocks with predictable behaviour.
AbstractMockFetcher() - Constructor for class psidev.psi.mi.jami.bridges.fetcher.mock.AbstractMockFetcher: Constructor for AbstractMockFetcher.
AbstractModelledInteractionLineParser<T extends ModelledInteraction> - Class in psidev.psi.mi.jami.tab.io.parser: Abstract class for ModelledInteraction line parsers
AbstractModelledInteractionLineParser(InputStream) - Constructor for class psidev.psi.mi.jami.tab.io.parser.AbstractModelledInteractionLineParser: Constructor for AbstractModelledInteractionLineParser.
AbstractModelledInteractionLineParser(InputStream, String) - Constructor for class psidev.psi.mi.jami.tab.io.parser.AbstractModelledInteractionLineParser: Constructor for AbstractModelledInteractionLineParser.
AbstractModelledInteractionLineParser(Reader) - Constructor for class psidev.psi.mi.jami.tab.io.parser.AbstractModelledInteractionLineParser: Constructor for AbstractModelledInteractionLineParser.
AbstractModelledInteractionLineParser(MitabLineParserTokenManager) - Constructor for class psidev.psi.mi.jami.tab.io.parser.AbstractModelledInteractionLineParser: Constructor for AbstractModelledInteractionLineParser.
AbstractNamesContainer - Class in psidev.psi.mi.jami.xml.model.extension: A container for aliases, shortname and fullname The JAXB binding is designed to be read-only and is not designed for writing
AbstractNamesContainer() - Constructor for class psidev.psi.mi.jami.xml.model.extension.AbstractNamesContainer
AbstractOboLoader<T extends CvTerm> - Class in psidev.psi.mi.jami.bridges.obo: Abstract obo loader
AbstractOboLoader(String) - Constructor for class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Constructor for AbstractOboLoader.
AbstractOboLoader(CvTerm) - Constructor for class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Constructor for AbstractOboLoader.
AbstractOlsFetcher<T extends CvTerm> - Class in psidev.psi.mi.jami.bridges.ols: Abstract class for OlsCvTermFetcher
AbstractOlsFetcher() - Constructor for class psidev.psi.mi.jami.bridges.ols.AbstractOlsFetcher: Constructor for AbstractOlsFetcher.
AbstractParticipant - Class in psidev.psi.mi.jami.model.impl: Abstract class for Participant
AbstractParticipant(Interactor) - Constructor for class psidev.psi.mi.jami.model.impl.AbstractParticipant: Constructor for AbstractParticipant.
AbstractParticipant(Interactor, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.AbstractParticipant: Constructor for AbstractParticipant.
AbstractParticipant(Interactor, CvTerm, CvTerm, Stoichiometry) - Constructor for class psidev.psi.mi.jami.model.impl.AbstractParticipant: Constructor for AbstractParticipant.
AbstractParticipant(Interactor, CvTerm, Stoichiometry) - Constructor for class psidev.psi.mi.jami.model.impl.AbstractParticipant: Constructor for AbstractParticipant.
AbstractParticipant(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.model.impl.AbstractParticipant: Constructor for AbstractParticipant.
AbstractParticipantCandidate - Class in psidev.psi.mi.jami.model.impl: Abstract class for participant candidate
AbstractParticipantCandidate(Interactor) - Constructor for class psidev.psi.mi.jami.model.impl.AbstractParticipantCandidate: Constructor for AbstractParticipantCandidate.
AbstractParticipantCandidate(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.model.impl.AbstractParticipantCandidate: Constructor for AbstractParticipantCandidate.
AbstractParticipantPool - Class in psidev.psi.mi.jami.model.impl: Abstract class for Participant pool
AbstractParticipantPool(String) - Constructor for class psidev.psi.mi.jami.model.impl.AbstractParticipantPool: Constructor for AbstractParticipantPool.
AbstractParticipantPool(String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.AbstractParticipantPool: Constructor for AbstractParticipantPool.
AbstractParticipantPool(String, CvTerm, Stoichiometry) - Constructor for class psidev.psi.mi.jami.model.impl.AbstractParticipantPool: Constructor for AbstractParticipantPool.
AbstractParticipantPool(String, Stoichiometry) - Constructor for class psidev.psi.mi.jami.model.impl.AbstractParticipantPool: Constructor for AbstractParticipantPool.
AbstractParticipantRef - Class in psidev.psi.mi.jami.xml.model.reference.xml253: Abstract participant reference
AbstractParticipantRef - Class in psidev.psi.mi.jami.xml.model.reference.xml254: Abstract participant reference
AbstractParticipantRef - Class in psidev.psi.mi.jami.xml.model.reference.xml300: Abstract participant reference
AbstractParticipantRef(int) - Constructor for class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractParticipantRef: Constructor for AbstractParticipantRef.
AbstractParticipantRef(int) - Constructor for class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractParticipantRef: Constructor for AbstractParticipantRef.
AbstractParticipantRef(int) - Constructor for class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractParticipantRef: Constructor for AbstractParticipantRef.
AbstractPsixmlBinaryParser<T extends Interaction,B extends BinaryInteraction> - Class in psidev.psi.mi.jami.xml.io.parser: Abstract class for a binary interaction parser
AbstractPsixmlBinaryParser(PsiXmlParser<T>) - Constructor for class psidev.psi.mi.jami.xml.io.parser.AbstractPsixmlBinaryParser: Constructor for AbstractPsixmlBinaryParser.
AbstractPsiXmlBinarySource<T extends Interaction,B extends BinaryInteraction> - Class in psidev.psi.mi.jami.xml.model.extension.datasource: Abstract class for Psi-XML binary interaction data source which loads the full interaction dataset
AbstractPsiXmlBinarySource() - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlBinarySource: Constructor for AbstractPsiXmlBinarySource.
AbstractPsiXmlBinarySource(File) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlBinarySource: Constructor for AbstractPsiXmlBinarySource.
AbstractPsiXmlBinarySource(InputStream) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlBinarySource: Constructor for AbstractPsiXmlBinarySource.
AbstractPsiXmlBinarySource(Reader) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlBinarySource: Constructor for AbstractPsiXmlBinarySource.
AbstractPsiXmlBinarySource(URL) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlBinarySource: Constructor for AbstractPsiXmlBinarySource.
AbstractPsiXmlBinaryStream<T extends Interaction,B extends BinaryInteraction> - Class in psidev.psi.mi.jami.xml.model.extension.datasource: Abstract class for binary interaction datasources
AbstractPsiXmlBinaryStream() - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlBinaryStream: Constructor for AbstractPsiXmlBinaryStream.
AbstractPsiXmlBinaryStream(File) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlBinaryStream: Constructor for AbstractPsiXmlBinaryStream.
AbstractPsiXmlBinaryStream(InputStream) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlBinaryStream: Constructor for AbstractPsiXmlBinaryStream.
AbstractPsiXmlBinaryStream(Reader) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlBinaryStream: Constructor for AbstractPsiXmlBinaryStream.
AbstractPsiXmlBinaryStream(URL) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlBinaryStream: Constructor for AbstractPsiXmlBinaryStream.
AbstractPsiXmlInteraction<T extends Participant> - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Abstract class for xml interactions implementing ExtendedPsiXmlInteraction interface
AbstractPsiXmlInteraction<T extends Participant> - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Abstract class for xml interactions implementing ExtendedPsiXmlInteraction interface
AbstractPsiXmlInteraction<T extends Participant> - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Abstract class for xml interactions implementing ExtendedPsiXmlInteraction interface
AbstractPsiXmlInteraction() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractPsiXmlInteraction: Constructor for AbstractPsiXmlInteraction.
AbstractPsiXmlInteraction() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractPsiXmlInteraction: Constructor for AbstractPsiXmlInteraction.
AbstractPsiXmlInteraction() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractPsiXmlInteraction: Constructor for AbstractPsiXmlInteraction.
AbstractPsiXmlInteraction(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractPsiXmlInteraction: Constructor for AbstractPsiXmlInteraction.
AbstractPsiXmlInteraction(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractPsiXmlInteraction: Constructor for AbstractPsiXmlInteraction.
AbstractPsiXmlInteraction(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractPsiXmlInteraction: Constructor for AbstractPsiXmlInteraction.
AbstractPsiXmlInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractPsiXmlInteraction: Constructor for AbstractPsiXmlInteraction.
AbstractPsiXmlInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractPsiXmlInteraction: Constructor for AbstractPsiXmlInteraction.
AbstractPsiXmlInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractPsiXmlInteraction: Constructor for AbstractPsiXmlInteraction.
AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
AbstractPsiXmlParser<T extends Interaction> - Class in psidev.psi.mi.jami.xml.io.parser: Parser for PSI-XML Returns an Iterator of interactions.
AbstractPsiXmlParser(File) - Constructor for class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: Constructor for AbstractPsiXmlParser.
AbstractPsiXmlParser(InputStream) - Constructor for class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: Constructor for AbstractPsiXmlParser.
AbstractPsiXmlParser(Reader) - Constructor for class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: Constructor for AbstractPsiXmlParser.
AbstractPsiXmlParser(URL) - Constructor for class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: Constructor for AbstractPsiXmlParser.
AbstractPsiXmlSource<T extends Interaction> - Class in psidev.psi.mi.jami.xml.model.extension.datasource: Abstract class for a PSI-XML datasource that loads the full interaction dataset
AbstractPsiXmlSource() - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlSource: Constructor for AbstractPsiXmlSource.
AbstractPsiXmlSource(File) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlSource: Constructor for AbstractPsiXmlSource.
AbstractPsiXmlSource(InputStream) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlSource: Constructor for AbstractPsiXmlSource.
AbstractPsiXmlSource(Reader) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlSource: Constructor for AbstractPsiXmlSource.
AbstractPsiXmlSource(URL) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlSource: Constructor for AbstractPsiXmlSource.
AbstractPsiXmlStream<T extends Interaction> - Class in psidev.psi.mi.jami.xml.model.extension.datasource: Abstract class for psiXml data source
AbstractPsiXmlStream() - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Constructor for AbstractPsiXmlStream.
AbstractPsiXmlStream(File) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Constructor for AbstractPsiXmlStream.
AbstractPsiXmlStream(InputStream) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Constructor for AbstractPsiXmlStream.
AbstractPsiXmlStream(Reader) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Constructor for AbstractPsiXmlStream.
AbstractPsiXmlStream(URL) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Constructor for AbstractPsiXmlStream.
AbstractSpokeExpansion<T extends Interaction,B extends BinaryInteraction> - Class in psidev.psi.mi.jami.binary.expansion: Abstract class for SpokeExpansion
AbstractSpokeExpansion() - Constructor for class psidev.psi.mi.jami.binary.expansion.AbstractSpokeExpansion: Constructor for AbstractSpokeExpansion.
AbstractXmlAnnotation - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of an Annotation The JAXB binding is designed to be read-only and is not designed for writing
AbstractXmlAnnotation - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of an Annotation The JAXB binding is designed to be read-only and is not designed for writing
AbstractXmlAnnotation - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of an Annotation The JAXB binding is designed to be read-only and is not designed for writing
AbstractXmlAnnotation() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlAnnotation: Constructor for AbstractXmlAnnotation.
AbstractXmlAnnotation() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlAnnotation: Constructor for AbstractXmlAnnotation.
AbstractXmlAnnotation() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlAnnotation: Constructor for AbstractXmlAnnotation.
AbstractXmlAnnotation(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlAnnotation: Constructor for AbstractXmlAnnotation.
AbstractXmlAnnotation(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlAnnotation: Constructor for AbstractXmlAnnotation.
AbstractXmlAnnotation(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlAnnotation: Constructor for AbstractXmlAnnotation.
AbstractXmlAnnotation(CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlAnnotation: Constructor for AbstractXmlAnnotation.
AbstractXmlAnnotation(CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlAnnotation: Constructor for AbstractXmlAnnotation.
AbstractXmlAnnotation(CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlAnnotation: Constructor for AbstractXmlAnnotation.
AbstractXmlBasicInteraction - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of interaction
AbstractXmlBasicInteraction - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of interaction
AbstractXmlBasicInteraction - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of interaction
AbstractXmlBasicInteraction() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlBasicInteraction: Constructor for AbstractXmlBasicInteraction.
AbstractXmlBasicInteraction() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlBasicInteraction: Constructor for AbstractXmlBasicInteraction.
AbstractXmlBasicInteraction() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlBasicInteraction: Constructor for AbstractXmlBasicInteraction.
AbstractXmlBasicInteraction(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlBasicInteraction: Constructor for AbstractXmlBasicInteraction.
AbstractXmlBasicInteraction(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlBasicInteraction: Constructor for AbstractXmlBasicInteraction.
AbstractXmlBasicInteraction(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlBasicInteraction: Constructor for AbstractXmlBasicInteraction.
AbstractXmlBasicInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlBasicInteraction: Constructor for AbstractXmlBasicInteraction.
AbstractXmlBasicInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlBasicInteraction: Constructor for AbstractXmlBasicInteraction.
AbstractXmlBasicInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlBasicInteraction: Constructor for AbstractXmlBasicInteraction.
AbstractXmlBasicInteraction.JAXBParticipantWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
AbstractXmlBasicInteraction.JAXBParticipantWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
AbstractXmlBasicInteraction.JAXBParticipantWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
AbstractXmlBinaryInteraction - Class in psidev.psi.mi.jami.xml.model.extension.binary: Abstract class for xml binary interactions
AbstractXmlBinaryInteraction() - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteraction: Constructor for AbstractXmlBinaryInteraction.
AbstractXmlBinaryInteraction(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteraction: Constructor for AbstractXmlBinaryInteraction.
AbstractXmlBinaryInteraction(String, P, P) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteraction: Constructor for AbstractXmlBinaryInteraction.
AbstractXmlBinaryInteraction(String, P, P, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteraction: Constructor for AbstractXmlBinaryInteraction.
AbstractXmlBinaryInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteraction: Constructor for AbstractXmlBinaryInteraction.
AbstractXmlBinaryInteraction(String, CvTerm, P, P) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteraction: Constructor for AbstractXmlBinaryInteraction.
AbstractXmlBinaryInteraction(String, CvTerm, P, P, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteraction: Constructor for AbstractXmlBinaryInteraction.
AbstractXmlBinaryInteraction(String, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteraction: Constructor for AbstractXmlBinaryInteraction.
AbstractXmlBinaryInteraction(P, P) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteraction: Constructor for AbstractXmlBinaryInteraction.
AbstractXmlBinaryInteraction(P, P, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteraction: Constructor for AbstractXmlBinaryInteraction.
AbstractXmlBinaryInteraction(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteraction: Constructor for AbstractXmlBinaryInteraction.
AbstractXmlBinaryInteractionEvidence - Class in psidev.psi.mi.jami.xml.model.extension.binary: Abstract class for Xml BinaryInteractionEvidence
AbstractXmlBinaryInteractionEvidence() - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: Constructor for AbstractXmlBinaryInteractionEvidence.
AbstractXmlBinaryInteractionEvidence(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: Constructor for AbstractXmlBinaryInteractionEvidence.
AbstractXmlBinaryInteractionEvidence(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: Constructor for AbstractXmlBinaryInteractionEvidence.
AbstractXmlBinaryInteractionEvidence(String, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: Constructor for AbstractXmlBinaryInteractionEvidence.
AbstractXmlBinaryInteractionEvidence(String, CvTerm, ParticipantEvidence, ParticipantEvidence) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: Constructor for AbstractXmlBinaryInteractionEvidence.
AbstractXmlBinaryInteractionEvidence(String, CvTerm, ParticipantEvidence, ParticipantEvidence, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: Constructor for AbstractXmlBinaryInteractionEvidence.
AbstractXmlBinaryInteractionEvidence(String, ParticipantEvidence, ParticipantEvidence) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: Constructor for AbstractXmlBinaryInteractionEvidence.
AbstractXmlBinaryInteractionEvidence(String, ParticipantEvidence, ParticipantEvidence, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: Constructor for AbstractXmlBinaryInteractionEvidence.
AbstractXmlBinaryInteractionEvidence(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: Constructor for AbstractXmlBinaryInteractionEvidence.
AbstractXmlBinaryInteractionEvidence(ParticipantEvidence, ParticipantEvidence) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: Constructor for AbstractXmlBinaryInteractionEvidence.
AbstractXmlBinaryInteractionEvidence(ParticipantEvidence, ParticipantEvidence, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: Constructor for AbstractXmlBinaryInteractionEvidence.
AbstractXmlBinaryInteractionEvidence.ExperimentalBinaryInteractionXrefList - Class in psidev.psi.mi.jami.xml.model.extension.binary: Experimental interaction Xref list
AbstractXmlComplex - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation for complex
AbstractXmlComplex - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation for complex
AbstractXmlComplex - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation for complex
AbstractXmlComplex() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlComplex(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: Constructor for AbstractXmlComplex.
AbstractXmlConfidence - Class in psidev.psi.mi.jami.xml.model.extension.xml253: abstract Xml implementation of confidence
AbstractXmlConfidence - Class in psidev.psi.mi.jami.xml.model.extension.xml254: abstract Xml implementation of confidence
AbstractXmlConfidence - Class in psidev.psi.mi.jami.xml.model.extension.xml300: abstract Xml implementation of confidence
AbstractXmlConfidence() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlConfidence: Constructor for AbstractXmlConfidence.
AbstractXmlConfidence() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlConfidence: Constructor for AbstractXmlConfidence.
AbstractXmlConfidence() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlConfidence: Constructor for AbstractXmlConfidence.
AbstractXmlConfidence(CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlConfidence: Constructor for AbstractXmlConfidence.
AbstractXmlConfidence(CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlConfidence: Constructor for AbstractXmlConfidence.
AbstractXmlConfidence(CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlConfidence: Constructor for AbstractXmlConfidence.
AbstractXmlCooperativeEffect - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Abstract class for XML 3.0 cooperative effects
AbstractXmlCooperativeEffect() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect: Constructor for AbstractXmlCooperativeEffect.
AbstractXmlCooperativeEffect(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect: Constructor for AbstractXmlCooperativeEffect.
AbstractXmlCooperativeEffect(CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect: Constructor for AbstractXmlCooperativeEffect.
AbstractXmlCooperativeEffect.JAXBAffectedInteractionRefWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
AbstractXmlCooperativeEffect.JAXBAttributeWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
AbstractXmlCooperativeEffect.JAXBCooperativityEvidenceWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
AbstractXmlCooperativeEffectWriter<C extends CooperativeEffect> - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30: Abstract Xml 3.0 writer for cooperative effect
AbstractXmlCooperativeEffectWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlCooperativeEffectWriter: Constructor for AbstractXmlCooperativeEffectWriter.
AbstractXmlCvTerm - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Abstract cv term
AbstractXmlCvTerm - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Abstract cv term
AbstractXmlCvTerm - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Abstract cv term
AbstractXmlCvTerm() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm: Constructor for AbstractXmlCvTerm.
AbstractXmlCvTerm() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm: Constructor for AbstractXmlCvTerm.
AbstractXmlCvTerm() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm: Constructor for AbstractXmlCvTerm.
AbstractXmlCvTerm(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm: Constructor for AbstractXmlCvTerm.
AbstractXmlCvTerm(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm: Constructor for AbstractXmlCvTerm.
AbstractXmlCvTerm(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm: Constructor for AbstractXmlCvTerm.
AbstractXmlCvTerm(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm: Constructor for AbstractXmlCvTerm.
AbstractXmlCvTerm(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm: Constructor for AbstractXmlCvTerm.
AbstractXmlCvTerm(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm: Constructor for AbstractXmlCvTerm.
AbstractXmlCvTerm(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm: Constructor for AbstractXmlCvTerm.
AbstractXmlCvTerm(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm: Constructor for AbstractXmlCvTerm.
AbstractXmlCvTerm(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm: Constructor for AbstractXmlCvTerm.
AbstractXmlCvTerm(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm: Constructor for AbstractXmlCvTerm.
AbstractXmlCvTerm(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm: Constructor for AbstractXmlCvTerm.
AbstractXmlCvTerm(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm: Constructor for AbstractXmlCvTerm.
AbstractXmlCvTerm(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm: Constructor for AbstractXmlCvTerm.
AbstractXmlCvTerm(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm: Constructor for AbstractXmlCvTerm.
AbstractXmlCvTerm(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm: Constructor for AbstractXmlCvTerm.
AbstractXmlCvTerm.JAXBAttributeWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
AbstractXmlCvTerm.JAXBAttributeWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
AbstractXmlCvTerm.JAXBAttributeWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
AbstractXmlEntity<F extends Feature> - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Abstract class for XmlEntity
AbstractXmlEntity<F extends Feature> - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Abstract class for XmlEntity
AbstractXmlEntity<F extends Feature> - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Abstract class for XmlEntity
AbstractXmlEntity() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity: Constructor for AbstractXmlEntity.
AbstractXmlEntity() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity: Constructor for AbstractXmlEntity.
AbstractXmlEntity() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity: Constructor for AbstractXmlEntity.
AbstractXmlEntity(Interactor) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity: Constructor for AbstractXmlEntity.
AbstractXmlEntity(Interactor) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity: Constructor for AbstractXmlEntity.
AbstractXmlEntity(Interactor) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity: Constructor for AbstractXmlEntity.
AbstractXmlEntity(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity: Constructor for AbstractXmlEntity.
AbstractXmlEntity(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity: Constructor for AbstractXmlEntity.
AbstractXmlEntity(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity: Constructor for AbstractXmlEntity.
AbstractXmlEntity.JAXBFeatureWrapper<F extends Feature> - Class in psidev.psi.mi.jami.xml.model.extension.xml253
AbstractXmlEntity.JAXBFeatureWrapper<F extends Feature> - Class in psidev.psi.mi.jami.xml.model.extension.xml254
AbstractXmlEntity.JAXBFeatureWrapper<F extends Feature> - Class in psidev.psi.mi.jami.xml.model.extension.xml300
AbstractXmlExperiment - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml im
AbstractXmlExperiment - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml im
AbstractXmlExperiment - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml im
AbstractXmlExperiment() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: Constructor for AbstractXmlExperiment.
AbstractXmlExperiment() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: Constructor for AbstractXmlExperiment.
AbstractXmlExperiment() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: Constructor for AbstractXmlExperiment.
AbstractXmlExperiment(Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: Constructor for AbstractXmlExperiment.
AbstractXmlExperiment(Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: Constructor for AbstractXmlExperiment.
AbstractXmlExperiment(Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: Constructor for AbstractXmlExperiment.
AbstractXmlExperiment(Publication, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: Constructor for AbstractXmlExperiment.
AbstractXmlExperiment(Publication, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: Constructor for AbstractXmlExperiment.
AbstractXmlExperiment(Publication, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: Constructor for AbstractXmlExperiment.
AbstractXmlExperiment(Publication, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: Constructor for AbstractXmlExperiment.
AbstractXmlExperiment(Publication, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: Constructor for AbstractXmlExperiment.
AbstractXmlExperiment(Publication, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: Constructor for AbstractXmlExperiment.
AbstractXmlExperiment.JAXBAttributeWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
AbstractXmlExperiment.JAXBAttributeWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
AbstractXmlExperiment.JAXBAttributeWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
AbstractXmlExperiment.JAXBConfidenceWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
AbstractXmlExperiment.JAXBConfidenceWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
AbstractXmlExperiment.JAXBConfidenceWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
AbstractXmlExperiment.JAXBHostOrganismWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
AbstractXmlExperiment.JAXBHostOrganismWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
AbstractXmlExperiment.JAXBHostOrganismWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
AbstractXmlExperiment.JAXBVariableParameterWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
AbstractXmlExperiment.JAXBVariableParameterWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
AbstractXmlExperiment.JAXBVariableParameterWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
AbstractXmlExperimentalInteractorWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts: Abstract class for experimental interactor XML writer
AbstractXmlExperimentalInteractorWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentalInteractorWriter: Constructor for AbstractXmlExperimentalInteractorWriter.
AbstractXmlExperimentWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts: Abstract PSI-XML experiment writer
AbstractXmlExperimentWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: Constructor for AbstractXmlExperimentWriter.
AbstractXmlFeature - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Abstract class for Xml features
AbstractXmlFeature - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Abstract class for Xml features
AbstractXmlFeature - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Abstract class for Xml features
AbstractXmlFeature() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: Constructor for AbstractXmlFeature.
AbstractXmlFeature() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: Constructor for AbstractXmlFeature.
AbstractXmlFeature() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: Constructor for AbstractXmlFeature.
AbstractXmlFeature(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: Constructor for AbstractXmlFeature.
AbstractXmlFeature(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: Constructor for AbstractXmlFeature.
AbstractXmlFeature(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: Constructor for AbstractXmlFeature.
AbstractXmlFeature(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: Constructor for AbstractXmlFeature.
AbstractXmlFeature(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: Constructor for AbstractXmlFeature.
AbstractXmlFeature(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: Constructor for AbstractXmlFeature.
AbstractXmlFeature(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: Constructor for AbstractXmlFeature.
AbstractXmlFeature(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: Constructor for AbstractXmlFeature.
AbstractXmlFeature(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: Constructor for AbstractXmlFeature.
AbstractXmlFeature(String, String, CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: Constructor for AbstractXmlFeature.
AbstractXmlFeature(String, String, CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: Constructor for AbstractXmlFeature.
AbstractXmlFeature(String, String, CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: Constructor for AbstractXmlFeature.
AbstractXmlFeature(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: Constructor for AbstractXmlFeature.
AbstractXmlFeature(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: Constructor for AbstractXmlFeature.
AbstractXmlFeature(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: Constructor for AbstractXmlFeature.
AbstractXmlFeature(CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: Constructor for AbstractXmlFeature.
AbstractXmlFeature(CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: Constructor for AbstractXmlFeature.
AbstractXmlFeature(CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: Constructor for AbstractXmlFeature.
AbstractXmlFeature.JAXBAttributeWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
AbstractXmlFeature.JAXBAttributeWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
AbstractXmlFeature.JAXBAttributeWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
AbstractXmlFeature.JAXBRangeWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
AbstractXmlFeature.JAXBRangeWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
AbstractXmlFeature.JAXBRangeWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
AbstractXmlFeatureEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25: Abstract class for feature evidence 2.5 writers
AbstractXmlFeatureEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30: Abstract class for feature evidence 3.0 writers
AbstractXmlFeatureEvidenceWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlFeatureEvidenceWriter: Constructor for AbstractXmlFeatureEvidenceWriter.
AbstractXmlFeatureEvidenceWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlFeatureEvidenceWriter: Constructor for AbstractXmlFeatureEvidenceWriter.
AbstractXmlFeatureWriter<F extends Feature> - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts: Abstract writer for Xml25Feature.
AbstractXmlFeatureWriter<F extends Feature> - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25: Abstract writer for Xml25Feature.
AbstractXmlFeatureWriter<F extends Feature> - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30: Abstract writer for Xml30Feature.
AbstractXmlFeatureWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlFeatureWriter: Constructor for AbstractXmlFeatureWriter.
AbstractXmlFeatureWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlFeatureWriter: Constructor for AbstractXmlFeatureWriter.
AbstractXmlFeatureWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlFeatureWriter: Constructor for AbstractXmlFeatureWriter.
AbstractXmlIdReference - Class in psidev.psi.mi.jami.xml.model.reference: Abstract implementation for XmlIdReference
AbstractXmlIdReference(int) - Constructor for class psidev.psi.mi.jami.xml.model.reference.AbstractXmlIdReference: Constructor for AbstractXmlIdReference.
AbstractXmlInteraction<T extends Participant> - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Abstract class for xml interactions
AbstractXmlInteraction<T extends Participant> - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Abstract class for xml interactions
AbstractXmlInteraction<T extends Participant> - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Abstract class for xml interactions
AbstractXmlInteraction() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: Constructor for AbstractXmlInteraction.
AbstractXmlInteraction() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: Constructor for AbstractXmlInteraction.
AbstractXmlInteraction() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: Constructor for AbstractXmlInteraction.
AbstractXmlInteraction(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: Constructor for AbstractXmlInteraction.
AbstractXmlInteraction(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: Constructor for AbstractXmlInteraction.
AbstractXmlInteraction(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: Constructor for AbstractXmlInteraction.
AbstractXmlInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: Constructor for AbstractXmlInteraction.
AbstractXmlInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: Constructor for AbstractXmlInteraction.
AbstractXmlInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: Constructor for AbstractXmlInteraction.
AbstractXmlInteraction.JAXBAttributeWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
AbstractXmlInteraction.JAXBAttributeWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
AbstractXmlInteraction.JAXBAttributeWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
AbstractXmlInteraction.JAXBAttributeWrapper.JAXBAttributeList - Class in psidev.psi.mi.jami.xml.model.extension.xml253
AbstractXmlInteraction.JAXBAttributeWrapper.JAXBAttributeList - Class in psidev.psi.mi.jami.xml.model.extension.xml254
AbstractXmlInteraction.JAXBAttributeWrapper.JAXBAttributeList - Class in psidev.psi.mi.jami.xml.model.extension.xml300
AbstractXmlInteraction.JAXBParticipantWrapper<T extends Participant> - Class in psidev.psi.mi.jami.xml.model.extension.xml253
AbstractXmlInteraction.JAXBParticipantWrapper<T extends Participant> - Class in psidev.psi.mi.jami.xml.model.extension.xml254
AbstractXmlInteraction.JAXBParticipantWrapper<T extends Participant> - Class in psidev.psi.mi.jami.xml.model.extension.xml300
AbstractXmlInteractionEvidence - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of InteractionEvidence
AbstractXmlInteractionEvidence - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of InteractionEvidence
AbstractXmlInteractionEvidence - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of InteractionEvidence
AbstractXmlInteractionEvidence() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: Constructor for AbstractXmlInteractionEvidence.
AbstractXmlInteractionEvidence() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: Constructor for AbstractXmlInteractionEvidence.
AbstractXmlInteractionEvidence() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: Constructor for AbstractXmlInteractionEvidence.
AbstractXmlInteractionEvidence(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: Constructor for AbstractXmlInteractionEvidence.
AbstractXmlInteractionEvidence(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: Constructor for AbstractXmlInteractionEvidence.
AbstractXmlInteractionEvidence(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: Constructor for AbstractXmlInteractionEvidence.
AbstractXmlInteractionEvidence(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: Constructor for AbstractXmlInteractionEvidence.
AbstractXmlInteractionEvidence(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: Constructor for AbstractXmlInteractionEvidence.
AbstractXmlInteractionEvidence(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: Constructor for AbstractXmlInteractionEvidence.
AbstractXmlInteractionEvidence.JAXBConfidenceWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
AbstractXmlInteractionEvidence.JAXBConfidenceWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
AbstractXmlInteractionEvidence.JAXBConfidenceWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
AbstractXmlInteractionEvidence.JAXBExperimentWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
AbstractXmlInteractionEvidence.JAXBExperimentWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
AbstractXmlInteractionEvidence.JAXBExperimentWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
AbstractXmlInteractionEvidence.JAXBParameterWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
AbstractXmlInteractionEvidence.JAXBParameterWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
AbstractXmlInteractionEvidence.JAXBParameterWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
AbstractXmlInteractionEvidence.JAXBParticipantWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
AbstractXmlInteractionEvidence.JAXBParticipantWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
AbstractXmlInteractionEvidence.JAXBParticipantWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
AbstractXmlInteractionEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts: Abstract class for interaction evidence writers
AbstractXmlInteractionEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25: Abstract class for interaction evidence writers
AbstractXmlInteractionEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30: Abstract class for interaction evidence writers in PSI-MI XML 3.0
AbstractXmlInteractionEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended: Abstract class for interaction evidence writers that write expanded interactions (having modelled, intramolecular properties, list of experiments, list of interaction types, etc.)
AbstractXmlInteractionEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25: Abstract class for interaction evidence writers that write expanded interactions (having modelled, intramolecular properties, list of experiments, list of interaction types, etc.)
AbstractXmlInteractionEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30: Abstract class for interaction evidence writers that write expanded interactions (having modelled, intramolecular properties, list of experiments, list of interaction types, etc.)
AbstractXmlInteractionEvidenceWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlInteractionEvidenceWriter: Constructor for AbstractXmlInteractionEvidenceWriter.
AbstractXmlInteractionEvidenceWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlInteractionEvidenceWriter: Constructor for AbstractXmlInteractionEvidenceWriter.
AbstractXmlInteractionEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionEvidenceWriter: Constructor for AbstractXmlInteractionEvidenceWriter.
AbstractXmlInteractionEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlInteractionEvidenceWriter: Constructor for AbstractXmlInteractionEvidenceWriter.
AbstractXmlInteractionEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.AbstractXmlInteractionEvidenceWriter: Constructor for AbstractXmlInteractionEvidenceWriter.
AbstractXmlInteractionEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlInteractionEvidenceWriter: Constructor for AbstractXmlInteractionEvidenceWriter.
AbstractXmlInteractionWriter<T extends Interaction,P extends Participant> - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts: Abstract writer of interaction
AbstractXmlInteractionWriter<T extends Interaction> - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25: Abstract writer of interaction in PSI-XML 2.5
AbstractXmlInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25: Abstract class for extended XML 2.5 interaction writer
AbstractXmlInteractionWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: Constructor for AbstractXmlInteractionWriter.
AbstractXmlInteractionWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlInteractionWriter: Constructor for AbstractXmlInteractionWriter.
AbstractXmlInteractionWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlInteractionWriter: Constructor for AbstractXmlInteractionWriter.
AbstractXmlInteractor - Class in psidev.psi.mi.jami.xml.model.extension.xml253: The Xml implementation of Interactor
AbstractXmlInteractor - Class in psidev.psi.mi.jami.xml.model.extension.xml254: The Xml implementation of Interactor
AbstractXmlInteractor - Class in psidev.psi.mi.jami.xml.model.extension.xml300: The Xml implementation of Interactor
AbstractXmlInteractor() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractor: Constructor for AbstractXmlInteractor.
AbstractXmlInteractor.JAXBAttributeWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
AbstractXmlInteractor.JAXBAttributeWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
AbstractXmlInteractor.JAXBAttributeWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
AbstractXmlIterator<T extends Interaction> - Class in psidev.psi.mi.jami.xml.io.iterator: Abstract iterator for parsing xml interactions
AbstractXmlIterator(PsiXmlParser<T>) - Constructor for class psidev.psi.mi.jami.xml.io.iterator.AbstractXmlIterator: Constructor for AbstractXmlIterator.
AbstractXmlModelledInteraction - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of ModelledInteraction
AbstractXmlModelledInteraction - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of ModelledInteraction
AbstractXmlModelledInteraction - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of ModelledInteraction
AbstractXmlModelledInteraction() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction: Constructor for AbstractXmlModelledInteraction.
AbstractXmlModelledInteraction() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction: Constructor for AbstractXmlModelledInteraction.
AbstractXmlModelledInteraction() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction: Constructor for AbstractXmlModelledInteraction.
AbstractXmlModelledInteraction(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction: Constructor for AbstractXmlModelledInteraction.
AbstractXmlModelledInteraction(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction: Constructor for AbstractXmlModelledInteraction.
AbstractXmlModelledInteraction(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction: Constructor for AbstractXmlModelledInteraction.
AbstractXmlModelledInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction: Constructor for AbstractXmlModelledInteraction.
AbstractXmlModelledInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction: Constructor for AbstractXmlModelledInteraction.
AbstractXmlModelledInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction: Constructor for AbstractXmlModelledInteraction.
AbstractXmlModelledInteraction.JAXBConfidenceWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
AbstractXmlModelledInteraction.JAXBConfidenceWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
AbstractXmlModelledInteraction.JAXBConfidenceWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
AbstractXmlModelledInteraction.JAXBExperimentWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
AbstractXmlModelledInteraction.JAXBExperimentWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
AbstractXmlModelledInteraction.JAXBExperimentWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
AbstractXmlModelledInteraction.JAXBParameterWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
AbstractXmlModelledInteraction.JAXBParameterWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
AbstractXmlModelledInteraction.JAXBParameterWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
AbstractXmlModelledInteraction.JAXBParticipantWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
AbstractXmlModelledInteraction.JAXBParticipantWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
AbstractXmlModelledInteraction.JAXBParticipantWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
AbstractXmlModelledInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts: Abstract class for XML writers of modelled interaction
AbstractXmlModelledInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25: Abstract class for XML 2.5 writers of modelled interaction
AbstractXmlModelledInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30: Abstract class for XML 3.0 writers of modelled interaction
AbstractXmlModelledInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended: Abstract class for XML writers of modelled interaction
AbstractXmlModelledInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25: Abstract class for XML 2.5 writers of modelled interaction
AbstractXmlModelledInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30: Abstract class for XML 3.0 writers of modelled interaction
AbstractXmlModelledInteractionWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledInteractionWriter: Constructor for AbstractXmlModelledInteractionWriter.
AbstractXmlModelledInteractionWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlModelledInteractionWriter: Constructor for AbstractXmlModelledInteractionWriter.
AbstractXmlModelledInteractionWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlModelledInteractionWriter: Constructor for AbstractXmlModelledInteractionWriter.
AbstractXmlModelledInteractionWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlModelledInteractionWriter: Constructor for AbstractXmlModelledInteractionWriter.
AbstractXmlModelledInteractionWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.AbstractXmlModelledInteractionWriter: Constructor for AbstractXmlModelledInteractionWriter.
AbstractXmlModelledInteractionWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlModelledInteractionWriter: Constructor for AbstractXmlModelledInteractionWriter.
AbstractXmlModelledParticipantWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts: abstract writer for a modelled participant.
AbstractXmlModelledParticipantWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25: Abstract class for XML 2.5 writer of modelled participant
AbstractXmlModelledParticipantWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30: Abstract class for XML 3.0 writer of modelled participant
AbstractXmlModelledParticipantWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledParticipantWriter: Constructor for AbstractXmlModelledParticipantWriter.
AbstractXmlModelledParticipantWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlModelledParticipantWriter: Constructor for AbstractXmlModelledParticipantWriter.
AbstractXmlModelledParticipantWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlModelledParticipantWriter: Constructor for AbstractXmlModelledParticipantWriter.
AbstractXmlNamedParticipantWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25: Abstract class for a named participant XML 2.5 writer
AbstractXmlNamedParticipantWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlNamedParticipantWriter: Constructor for AbstractXmlNamedParticipantWriter.
AbstractXmlOrganismWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts: Abstract class forPSI-XML writer for organism
AbstractXmlOrganismWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlOrganismWriter: Constructor for AbstractXmlOrganismWriter.
AbstractXmlParameter - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Abstract Xml implementation of Parameter
AbstractXmlParameter - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Abstract Xml implementation of Parameter
AbstractXmlParameter - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Abstract Xml implementation of Parameter
AbstractXmlParameter() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParameter: Constructor for AbstractXmlParameter.
AbstractXmlParameter() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParameter: Constructor for AbstractXmlParameter.
AbstractXmlParameter() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParameter: Constructor for AbstractXmlParameter.
AbstractXmlParameter(CvTerm, ParameterValue, BigDecimal, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParameter: Constructor for AbstractXmlParameter.
AbstractXmlParameter(CvTerm, ParameterValue, BigDecimal, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParameter: Constructor for AbstractXmlParameter.
AbstractXmlParameter(CvTerm, ParameterValue, BigDecimal, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParameter: Constructor for AbstractXmlParameter.
AbstractXmlParameterWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts: Abstract XML writer of a parameter
AbstractXmlParameterWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParameterWriter: Constructor for AbstractXmlParameterWriter.
AbstractXmlParticipant - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Abstract class for XmlParticipant
AbstractXmlParticipant - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Abstract class for XmlParticipant
AbstractXmlParticipant - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Abstract class for XmlParticipant
AbstractXmlParticipant() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant: Constructor for AbstractXmlParticipant.
AbstractXmlParticipant() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant: Constructor for AbstractXmlParticipant.
AbstractXmlParticipant() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant: Constructor for AbstractXmlParticipant.
AbstractXmlParticipant(Interactor) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant: Constructor for AbstractXmlParticipant.
AbstractXmlParticipant(Interactor) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant: Constructor for AbstractXmlParticipant.
AbstractXmlParticipant(Interactor) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant: Constructor for AbstractXmlParticipant.
AbstractXmlParticipant(Interactor, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant: Constructor for AbstractXmlParticipant.
AbstractXmlParticipant(Interactor, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant: Constructor for AbstractXmlParticipant.
AbstractXmlParticipant(Interactor, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant: Constructor for AbstractXmlParticipant.
AbstractXmlParticipant(Interactor, CvTerm, Stoichiometry) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant: Constructor for AbstractXmlParticipant.
AbstractXmlParticipant(Interactor, CvTerm, Stoichiometry) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant: Constructor for AbstractXmlParticipant.
AbstractXmlParticipant(Interactor, CvTerm, Stoichiometry) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant: Constructor for AbstractXmlParticipant.
AbstractXmlParticipant(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant: Constructor for AbstractXmlParticipant.
AbstractXmlParticipant(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant: Constructor for AbstractXmlParticipant.
AbstractXmlParticipant(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant: Constructor for AbstractXmlParticipant.
AbstractXmlParticipant.JAXBAttributeWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
AbstractXmlParticipant.JAXBAttributeWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
AbstractXmlParticipant.JAXBAttributeWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
AbstractXmlParticipant.JAXBInteractorCandidateWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
AbstractXmlParticipant.JAXBInteractorCandidateWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
AbstractXmlParticipant.JAXBInteractorCandidateWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
AbstractXmlParticipantCandidateWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30: Abstract Xml writer for participant candidate
AbstractXmlParticipantCandidateWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlParticipantCandidateWriter: Constructor for AbstractXmlParticipantCandidateWriter.
AbstractXmlParticipantEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts: Abstract class for writer of participant evidences
AbstractXmlParticipantEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25: Abstract class for XML 2.5 writer of participant evidences
AbstractXmlParticipantEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30: Abstract class for XML 3.0 writer of participant evidences
AbstractXmlParticipantEvidenceWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlParticipantEvidenceWriter: Constructor for AbstractXmlParticipantEvidenceWriter.
AbstractXmlParticipantEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantEvidenceWriter: Constructor for AbstractXmlParticipantEvidenceWriter.
AbstractXmlParticipantEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlParticipantEvidenceWriter: Constructor for AbstractXmlParticipantEvidenceWriter.
AbstractXmlParticipantPool - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Abstract class for XML Participant pool
AbstractXmlParticipantPool - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Abstract class for XML Participant pool
AbstractXmlParticipantPool - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Abstract class for XML Participant pool
AbstractXmlParticipantPool() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: Constructor for AbstractXmlParticipantPool.
AbstractXmlParticipantPool() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: Constructor for AbstractXmlParticipantPool.
AbstractXmlParticipantPool() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: Constructor for AbstractXmlParticipantPool.
AbstractXmlParticipantPool(AbstractXmlParticipant<I, F>) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: Constructor for AbstractXmlParticipantPool.
AbstractXmlParticipantPool(AbstractXmlParticipant<I, F>) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: Constructor for AbstractXmlParticipantPool.
AbstractXmlParticipantPool(AbstractXmlParticipant<I, F>) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: Constructor for AbstractXmlParticipantPool.
AbstractXmlParticipantWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts: Abstract Xml writer for participant
AbstractXmlParticipantWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25: Xml 2.5 writer for participant
AbstractXmlParticipantWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: Constructor for AbstractXmlParticipantWriter.
AbstractXmlParticipantWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlParticipantWriter: Constructor for AbstractXmlParticipantWriter.
AbstractXmlPosition - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Abstract class for XmlPosition
AbstractXmlPosition - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Abstract class for XmlPosition
AbstractXmlPosition - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Abstract class for XmlPosition
AbstractXmlPosition() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlPosition: Constructor for AbstractXmlPosition.
AbstractXmlPosition() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlPosition: Constructor for AbstractXmlPosition.
AbstractXmlPosition() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlPosition: Constructor for AbstractXmlPosition.
AbstractXmlPosition(CvTerm, boolean) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlPosition: Constructor for AbstractXmlPosition.
AbstractXmlPosition(CvTerm, boolean) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlPosition: Constructor for AbstractXmlPosition.
AbstractXmlPosition(CvTerm, boolean) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlPosition: Constructor for AbstractXmlPosition.
AbstractXmlPositionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts: Abstract Xml writer for a range position
AbstractXmlPositionWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlPositionWriter: Constructor for AbstractXmlPositionWriter.
AbstractXmlPublicationWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts: Abstract Xml writer for publications (bibref objects)
AbstractXmlPublicationWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlPublicationWriter: Constructor for AbstractXmlPublicationWriter.
AbstractXmlRangeWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts: Abstract Xml writer for a feature range
AbstractXmlRangeWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlRangeWriter: Constructor for AbstractXmlRangeWriter.
AbstractXmlSource - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Desciption of the source of the entry, usually an organisation
AbstractXmlSource - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Desciption of the source of the entry, usually an organisation
AbstractXmlSource - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Desciption of the source of the entry, usually an organisation
AbstractXmlSource() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource: Constructor for AbstractXmlSource.
AbstractXmlSource() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource: Constructor for AbstractXmlSource.
AbstractXmlSource() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource: Constructor for AbstractXmlSource.
AbstractXmlSource(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource: Constructor for AbstractXmlSource.
AbstractXmlSource(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource: Constructor for AbstractXmlSource.
AbstractXmlSource(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource: Constructor for AbstractXmlSource.
AbstractXmlSource(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource: Constructor for AbstractXmlSource.
AbstractXmlSource(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource: Constructor for AbstractXmlSource.
AbstractXmlSource(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource: Constructor for AbstractXmlSource.
AbstractXmlSource(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource: Constructor for AbstractXmlSource.
AbstractXmlSource(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource: Constructor for AbstractXmlSource.
AbstractXmlSource(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource: Constructor for AbstractXmlSource.
AbstractXmlSource(String, String, String, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource: Constructor for AbstractXmlSource.
AbstractXmlSource(String, String, String, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource: Constructor for AbstractXmlSource.
AbstractXmlSource(String, String, String, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource: Constructor for AbstractXmlSource.
AbstractXmlSource(String, String, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource: Constructor for AbstractXmlSource.
AbstractXmlSource(String, String, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource: Constructor for AbstractXmlSource.
AbstractXmlSource(String, String, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource: Constructor for AbstractXmlSource.
AbstractXmlSource(String, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource: Constructor for AbstractXmlSource.
AbstractXmlSource(String, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource: Constructor for AbstractXmlSource.
AbstractXmlSource(String, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource: Constructor for AbstractXmlSource.
AbstractXmlSource(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource: Constructor for AbstractXmlSource.
AbstractXmlSource(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource: Constructor for AbstractXmlSource.
AbstractXmlSource(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource: Constructor for AbstractXmlSource.
AbstractXmlSource(String, String, Xref, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource: Constructor for AbstractXmlSource.
AbstractXmlSource(String, String, Xref, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource: Constructor for AbstractXmlSource.
AbstractXmlSource(String, String, Xref, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource: Constructor for AbstractXmlSource.
AbstractXmlSource(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource: Constructor for AbstractXmlSource.
AbstractXmlSource(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource: Constructor for AbstractXmlSource.
AbstractXmlSource(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource: Constructor for AbstractXmlSource.
AbstractXmlSource(String, Xref, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource: Constructor for AbstractXmlSource.
AbstractXmlSource(String, Xref, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource: Constructor for AbstractXmlSource.
AbstractXmlSource(String, Xref, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource: Constructor for AbstractXmlSource.
AbstractXmlSource.JAXBAttributeWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
AbstractXmlSource.JAXBAttributeWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
AbstractXmlSource.JAXBAttributeWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
AbstractXmlSourceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl: Abstract class for writer of a source in an entry.
AbstractXmlSourceWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.AbstractXmlSourceWriter: Constructor for AbstractXmlSourceWriter.
AbstractXmlVariableParameterValue - Class in psidev.psi.mi.jami.xml.model.extension: XML implementation of variable parameter value
AbstractXmlVariableParameterValue() - Constructor for class psidev.psi.mi.jami.xml.model.extension.AbstractXmlVariableParameterValue: Constructor for AbstractXmlVariableParameterValue.
AbstractXmlVariableParameterValue(String, VariableParameter) - Constructor for class psidev.psi.mi.jami.xml.model.extension.AbstractXmlVariableParameterValue: Constructor for AbstractXmlVariableParameterValue.
AbstractXmlVariableParameterValue(String, VariableParameter, Integer) - Constructor for class psidev.psi.mi.jami.xml.model.extension.AbstractXmlVariableParameterValue: Constructor for AbstractXmlVariableParameterValue.
AbstractXmlWriter<T extends Interaction> - Class in psidev.psi.mi.jami.xml.io.writer: Abstract class for XML writer of interactions
AbstractXmlWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Constructor for AbstractXmlWriter.
AbstractXmlWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Constructor for AbstractXmlWriter.
AbstractXmlWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Constructor for AbstractXmlWriter.
AbstractXmlWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Constructor for AbstractXmlWriter.
AbstractXmlWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Constructor for AbstractXmlWriter.
ACCEPTOR_ROLE - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant ACCEPTOR_ROLE="acceptor"
ACCEPTOR_ROLE_MI - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant ACCEPTOR_ROLE_MI="MI:0919"
accession - Variable in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Entry
active - Variable in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.DbReferenceType
add(int, Annotation) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction.JAXBAttributeWrapper.JAXBAttributeList
add(int, Annotation) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction.JAXBAttributeWrapper.JAXBAttributeList
add(int, Annotation) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction.JAXBAttributeWrapper.JAXBAttributeList
add(int, Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XrefContainer.JAXBSecondaryXrefList
add(int, Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XrefContainer.JAXBSecondaryXrefList
add(int, Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XrefContainer.JAXBSecondaryXrefList
add(int, T) - Method in class psidev.psi.mi.jami.utils.collection.AbstractListHavingProperties
add(P) - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipantPool: add
add(P) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: add.
add(P) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: add.
add(P) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: add.
add(Annotation) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction.JAXBAttributeWrapper.JAXBAttributeList
add(Annotation) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction.JAXBAttributeWrapper.JAXBAttributeList
add(Annotation) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction.JAXBAttributeWrapper.JAXBAttributeList
add(Interactor) - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractorPool: add
add(Interactor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractorPool: add.
add(Interactor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractorPool: add.
add(Interactor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractorPool: add.
add(ModelledParticipantCandidate) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantPoolWrapper
add(ModelledParticipantCandidate) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantPoolWrapper
add(ModelledParticipantCandidate) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantPoolWrapper
add(ModelledParticipantCandidate) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantPoolWrapper
add(ModelledParticipantCandidate) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantPoolWrapper
add(ModelledParticipantCandidate) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantPoolWrapper
add(VariableParameterValue) - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameterValueSet: add
add(VariableParameterValue) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameterValueSet: add.
add(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XrefContainer.JAXBSecondaryXrefList
add(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XrefContainer.JAXBSecondaryXrefList
add(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XrefContainer.JAXBSecondaryXrefList
add(T) - Method in class psidev.psi.mi.jami.utils.collection.AbstractCollectionWrapper: add
add(T) - Method in class psidev.psi.mi.jami.utils.collection.AbstractListHavingProperties
add(T) - Method in class psidev.psi.mi.jami.utils.collection.ListIteratorHavingProperties: add
ADD - psidev.psi.mi.jami.bridges.imex.Operation
addAffectedInteractionRef(int, PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAllostery: addAffectedInteractionRef.
addAffectedInteractionRef(int, PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPreAssembly: addAffectedInteractionRef.
addAffectedInteractionRef(int, PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAllostery: addAffectedInteractionRef.
addAffectedInteractionRef(int, PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPreAssembly: addAffectedInteractionRef.
addAffectedInteractionRef(int, PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect: addAffectedInteractionRef.
addAll(int, Collection<? extends Annotation>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction.JAXBAttributeWrapper.JAXBAttributeList
addAll(int, Collection<? extends Annotation>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction.JAXBAttributeWrapper.JAXBAttributeList
addAll(int, Collection<? extends Annotation>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction.JAXBAttributeWrapper.JAXBAttributeList
addAll(int, Collection<? extends Xref>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XrefContainer.JAXBSecondaryXrefList
addAll(int, Collection<? extends Xref>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XrefContainer.JAXBSecondaryXrefList
addAll(int, Collection<? extends Xref>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XrefContainer.JAXBSecondaryXrefList
addAll(int, Collection<? extends T>) - Method in class psidev.psi.mi.jami.utils.collection.AbstractListHavingProperties
addAll(Collection<? extends P>) - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipantPool
addAll(Collection<? extends P>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool
addAll(Collection<? extends P>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool
addAll(Collection<? extends P>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool
addAll(Collection<? extends Annotation>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction.JAXBAttributeWrapper.JAXBAttributeList
addAll(Collection<? extends Annotation>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction.JAXBAttributeWrapper.JAXBAttributeList
addAll(Collection<? extends Annotation>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction.JAXBAttributeWrapper.JAXBAttributeList
addAll(Collection<? extends Interactor>) - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractorPool
addAll(Collection<? extends Interactor>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractorPool
addAll(Collection<? extends Interactor>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractorPool
addAll(Collection<? extends Interactor>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractorPool
addAll(Collection<? extends ModelledParticipantCandidate>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantPoolWrapper
addAll(Collection<? extends ModelledParticipantCandidate>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantPoolWrapper
addAll(Collection<? extends ModelledParticipantCandidate>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantPoolWrapper
addAll(Collection<? extends ModelledParticipantCandidate>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantPoolWrapper
addAll(Collection<? extends ModelledParticipantCandidate>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantPoolWrapper
addAll(Collection<? extends ModelledParticipantCandidate>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantPoolWrapper
addAll(Collection<? extends VariableParameterValue>) - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameterValueSet
addAll(Collection<? extends VariableParameterValue>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameterValueSet
addAll(Collection<? extends Xref>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XrefContainer.JAXBSecondaryXrefList
addAll(Collection<? extends Xref>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XrefContainer.JAXBSecondaryXrefList
addAll(Collection<? extends Xref>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XrefContainer.JAXBSecondaryXrefList
addAll(Collection<? extends T>) - Method in class psidev.psi.mi.jami.utils.collection.AbstractCollectionWrapper
addAll(Collection<? extends T>) - Method in class psidev.psi.mi.jami.utils.collection.AbstractListHavingProperties
addAllExperiments(Collection<? extends Experiment>) - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: This method will add all the experiments and set the publication of the new experiments to this current publication
addAllExperiments(Collection<? extends Experiment>) - Method in interface psidev.psi.mi.jami.model.Publication: This method will add all the experiments and set the publication of the new experiments to this current publication
addAllExperiments(Collection<? extends Experiment>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: This method will add all the experiments and set the publication of the new experiments to this current publication
addAllExperiments(Collection<? extends Experiment>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: This method will add all the experiments and set the publication of the new experiments to this current publication
addAllExperiments(Collection<? extends Experiment>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: This method will add all the experiments and set the publication of the new experiments to this current publication
addAllFeatures(Collection<? extends F>) - Method in interface psidev.psi.mi.jami.model.Entity: This method will add all features and set the entity of the new features to this current entity
addAllFeatures(Collection<? extends F>) - Method in class psidev.psi.mi.jami.model.impl.AbstractEntity: This method will add all features and set the entity of the new features to this current entity
addAllFeatures(Collection<? extends F>) - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipant: This method will add all features and set the entity of the new features to this current entity
addAllFeatures(Collection<? extends F>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity: This method will add all features and set the entity of the new features to this current entity
addAllFeatures(Collection<? extends F>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: This method will add all features and set the entity of the new features to this current entity
addAllFeatures(Collection<? extends F>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity: This method will add all features and set the entity of the new features to this current entity
addAllFeatures(Collection<? extends F>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: This method will add all features and set the entity of the new features to this current entity
addAllFeatures(Collection<? extends F>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity: This method will add all features and set the entity of the new features to this current entity
addAllFeatures(Collection<? extends F>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: This method will add all features and set the entity of the new features to this current entity
addAllFeatures(Collection<? extends ModelledFeature>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidateWrapper: This method will add all features and set the entity of the new features to this current entity
addAllFeatures(Collection<? extends ModelledFeature>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantCandidateWrapper: This method will add all features and set the entity of the new features to this current entity
addAllFeatures(Collection<? extends ModelledFeature>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: This method will add all features and set the entity of the new features to this current entity
addAllFeatures(Collection<? extends ModelledFeature>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: This method will add all features and set the entity of the new features to this current entity
addAllFeatures(Collection<? extends ModelledFeature>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidateWrapper: This method will add all features and set the entity of the new features to this current entity
addAllFeatures(Collection<? extends ModelledFeature>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantCandidateWrapper: This method will add all features and set the entity of the new features to this current entity
addAllFeatures(Collection<? extends ModelledFeature>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: This method will add all features and set the entity of the new features to this current entity
addAllFeatures(Collection<? extends ModelledFeature>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: This method will add all features and set the entity of the new features to this current entity
addAllFeatures(Collection<? extends ModelledFeature>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidateWrapper: This method will add all features and set the entity of the new features to this current entity
addAllFeatures(Collection<? extends ModelledFeature>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantCandidateWrapper: This method will add all features and set the entity of the new features to this current entity
addAllFeatures(Collection<? extends ModelledFeature>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: This method will add all features and set the entity of the new features to this current entity
addAllFeatures(Collection<? extends ModelledFeature>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: This method will add all features and set the entity of the new features to this current entity
addAllFeatures(Collection<? extends T>) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractEntityRef: This method will add all features and set the entity of the new features to this current entity
addAllFeatures(Collection<? extends T>) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractParticipantRef: This method will add all features and set the entity of the new features to this current entity
addAllFeatures(Collection<? extends T>) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractEntityRef: This method will add all features and set the entity of the new features to this current entity
addAllFeatures(Collection<? extends T>) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractParticipantRef: This method will add all features and set the entity of the new features to this current entity
addAllFeatures(Collection<? extends T>) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractEntityRef: This method will add all features and set the entity of the new features to this current entity
addAllFeatures(Collection<? extends T>) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractParticipantRef: This method will add all features and set the entity of the new features to this current entity
addAllInteractionEvidences(Collection<? extends InteractionEvidence>) - Method in interface psidev.psi.mi.jami.model.Experiment: This method will add all the interaction evidences and set the experiment of the new interaction evidences to this current experiment
addAllInteractionEvidences(Collection<? extends InteractionEvidence>) - Method in class psidev.psi.mi.jami.model.impl.DefaultExperiment: This method will add all the interaction evidences and set the experiment of the new interaction evidences to this current experiment
addAllInteractionEvidences(Collection<? extends InteractionEvidence>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: This method will add all the interaction evidences and set the experiment of the new interaction evidences to this current experiment
addAllInteractionEvidences(Collection<? extends InteractionEvidence>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: This method will add all the interaction evidences and set the experiment of the new interaction evidences to this current experiment
addAllInteractionEvidences(Collection<? extends InteractionEvidence>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: This method will add all the interaction evidences and set the experiment of the new interaction evidences to this current experiment
addAllInteractionEvidences(Collection<? extends InteractionEvidence>) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: This method will add all the interaction evidences and set the experiment of the new interaction evidences to this current experiment
addAllInteractionEvidences(Collection<? extends InteractionEvidence>) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: This method will add all the interaction evidences and set the experiment of the new interaction evidences to this current experiment
addAllInteractionEvidences(Collection<? extends InteractionEvidence>) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: This method will add all the interaction evidences and set the experiment of the new interaction evidences to this current experiment
addAllOnly(int, Collection<? extends T>) - Method in class psidev.psi.mi.jami.utils.collection.AbstractListHavingProperties: addAllOnly
addAllOnly(Collection<? extends T>) - Method in class psidev.psi.mi.jami.utils.collection.AbstractListHavingProperties: addAllOnly
addAllParticipants(Collection<? extends ModelledParticipant>) - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: This method will add all the participant and set the interaction of the new participant to this current interaction
addAllParticipants(Collection<? extends ModelledParticipant>) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: This method will add all the participant and set the interaction of the new participant to this current interaction
addAllParticipants(Collection<? extends ModelledParticipant>) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: This method will add all the participant and set the interaction of the new participant to this current interaction
addAllParticipants(Collection<? extends ModelledParticipant>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: This method will add all the participant and set the interaction of the new participant to this current interaction
addAllParticipants(Collection<? extends ModelledParticipant>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: This method will add all the participant and set the interaction of the new participant to this current interaction
addAllParticipants(Collection<? extends ModelledParticipant>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: This method will add all the participant and set the interaction of the new participant to this current interaction
addAllParticipants(Collection<? extends ModelledParticipant>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: This method will add all the participant and set the interaction of the new participant to this current interaction
addAllParticipants(Collection<? extends ModelledParticipant>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: This method will add all the participant and set the interaction of the new participant to this current interaction
addAllParticipants(Collection<? extends ModelledParticipant>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: This method will add all the participant and set the interaction of the new participant to this current interaction
addAllParticipants(Collection<? extends ModelledParticipant>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: This method will add all the participant and set the interaction of the new participant to this current interaction
addAllParticipants(Collection<? extends ModelledParticipant>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: This method will add all the participant and set the interaction of the new participant to this current interaction
addAllParticipants(Collection<? extends ModelledParticipant>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: This method will add all the participant and set the interaction of the new participant to this current interaction
addAllParticipants(Collection<? extends ModelledParticipant>) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: This method will add all the participant and set the interaction of the new participant to this current interaction
addAllParticipants(Collection<? extends ModelledParticipant>) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: This method will add all the participant and set the interaction of the new participant to this current interaction
addAllParticipants(Collection<? extends ModelledParticipant>) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: This method will add all the participant and set the interaction of the new participant to this current interaction
addAllParticipants(Collection<? extends Participant>) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: This method will add all the participant and set the interaction of the new participant to this current interaction
addAllParticipants(Collection<? extends ParticipantEvidence>) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: This method will add all the participant and set the interaction of the new participant to this current interaction
addAllParticipants(Collection<? extends T>) - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteraction: This method will add all the participant and set the interaction of the new participant to this current interaction
addAllParticipants(Collection<? extends T>) - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteractionWrapper: This method will add all the participant and set the interaction of the new participant to this current interaction
addAllParticipants(Collection<? extends T>) - Method in class psidev.psi.mi.jami.model.impl.AbstractInteraction: This method will add all the participant and set the interaction of the new participant to this current interaction
addAllParticipants(Collection<? extends T>) - Method in interface psidev.psi.mi.jami.model.Interaction: This method will add all the participant and set the interaction of the new participant to this current interaction
addAllParticipants(Collection<? extends T>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: This method will add all the participant and set the interaction of the new participant to this current interaction
addAllParticipants(Collection<? extends T>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: This method will add all the participant and set the interaction of the new participant to this current interaction
addAllParticipants(Collection<? extends T>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: This method will add all the participant and set the interaction of the new participant to this current interaction
addAllVariableParameters(Collection<? extends VariableParameter>) - Method in interface psidev.psi.mi.jami.model.Experiment: This method will add all variableParameters and set the experiment of the new variableParameters to this current experiment
addAllVariableParameters(Collection<? extends VariableParameter>) - Method in class psidev.psi.mi.jami.model.impl.DefaultExperiment: This method will add all variableParameters and set the experiment of the new variableParameters to this current experiment
addAllVariableParameters(Collection<? extends VariableParameter>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: This method will add all variableParameters and set the experiment of the new variableParameters to this current experiment
addAllVariableParameters(Collection<? extends VariableParameter>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: This method will add all variableParameters and set the experiment of the new variableParameters to this current experiment
addAllVariableParameters(Collection<? extends VariableParameter>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: This method will add all variableParameters and set the experiment of the new variableParameters to this current experiment
addAllVariableParameters(Collection<? extends VariableParameter>) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: This method will add all variableParameters and set the experiment of the new variableParameters to this current experiment
addAllVariableParameters(Collection<? extends VariableParameter>) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: This method will add all variableParameters and set the experiment of the new variableParameters to this current experiment
addAllVariableParameters(Collection<? extends VariableParameter>) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: This method will add all variableParameters and set the experiment of the new variableParameters to this current experiment
addCvTermFetcher(String, F) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.CvTermCompositeFetcherTemplate: addCvTermFetcher.
addEntry(String, Gene) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.FailingGeneFetcher: addEntry.
addEntry(String, Protein) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.FailingProteinFetcher: addEntry.
addEntry(String, T) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.AbstractMockFetcher: addEntry.
addEntry(String, T) - Method in interface psidev.psi.mi.jami.bridges.fetcher.mock.MockFetcher: Adds an entry to the mock fetcher's internal fetching list with a given identifier as the key.
addEscapes(String) - Static method in error psidev.psi.mi.jami.tab.io.parser.TokenMgrError: Replaces unprintable characters by their escaped (or unicode escaped) equivalents in the given string
addExperiment(Experiment) - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: This method will add the experiment and set the publication of the new experiment to this current publication
addExperiment(Experiment) - Method in interface psidev.psi.mi.jami.model.Publication: This method will add the experiment and set the publication of the new experiment to this current publication
addExperiment(Experiment) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: This method will add the experiment and set the publication of the new experiment to this current publication
addExperiment(Experiment) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: This method will add the experiment and set the publication of the new experiment to this current publication
addExperiment(Experiment) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: This method will add the experiment and set the publication of the new experiment to this current publication
addFeature(F) - Method in interface psidev.psi.mi.jami.model.Entity: This method will add the feature and set the entity of the new feature to this current entity
addFeature(F) - Method in class psidev.psi.mi.jami.model.impl.AbstractEntity: addFeature
addFeature(F) - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipant: addFeature
addFeature(F) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity: addFeature.
addFeature(F) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: addFeature.
addFeature(F) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity: addFeature.
addFeature(F) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: addFeature.
addFeature(F) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity: addFeature.
addFeature(F) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: addFeature.
addFeature(ModelledFeature) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidateWrapper: This method will add the feature and set the entity of the new feature to this current entity
addFeature(ModelledFeature) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantCandidateWrapper: This method will add the feature and set the entity of the new feature to this current entity
addFeature(ModelledFeature) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: This method will add the feature and set the entity of the new feature to this current entity
addFeature(ModelledFeature) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: This method will add the feature and set the entity of the new feature to this current entity
addFeature(ModelledFeature) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidateWrapper: This method will add the feature and set the entity of the new feature to this current entity
addFeature(ModelledFeature) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantCandidateWrapper: This method will add the feature and set the entity of the new feature to this current entity
addFeature(ModelledFeature) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: This method will add the feature and set the entity of the new feature to this current entity
addFeature(ModelledFeature) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: This method will add the feature and set the entity of the new feature to this current entity
addFeature(ModelledFeature) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidateWrapper: This method will add the feature and set the entity of the new feature to this current entity
addFeature(ModelledFeature) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantCandidateWrapper: This method will add the feature and set the entity of the new feature to this current entity
addFeature(ModelledFeature) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: This method will add the feature and set the entity of the new feature to this current entity
addFeature(ModelledFeature) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: This method will add the feature and set the entity of the new feature to this current entity
addFeature(T) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractEntityRef: addFeature.
addFeature(T) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractParticipantRef: addFeature.
addFeature(T) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractEntityRef: addFeature.
addFeature(T) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractParticipantRef: addFeature.
addFeature(T) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractEntityRef: addFeature.
addFeature(T) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractParticipantRef: addFeature.
addInteractionEvidence(InteractionEvidence) - Method in interface psidev.psi.mi.jami.model.Experiment: This method will add the interaction evidence and set the experiment of the new interaction evidence to this current experiment
addInteractionEvidence(InteractionEvidence) - Method in class psidev.psi.mi.jami.model.impl.DefaultExperiment: This method will add the interaction evidence and set the experiment of the new interaction evidence to this current experiment
addInteractionEvidence(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: This method will add the interaction evidence and set the experiment of the new interaction evidence to this current experiment
addInteractionEvidence(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: This method will add the interaction evidence and set the experiment of the new interaction evidence to this current experiment
addInteractionEvidence(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: This method will add the interaction evidence and set the experiment of the new interaction evidence to this current experiment
addInteractionEvidence(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: This method will add the interaction evidence and set the experiment of the new interaction evidence to this current experiment
addInteractionEvidence(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: This method will add the interaction evidence and set the experiment of the new interaction evidence to this current experiment
addInteractionEvidence(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: This method will add the interaction evidence and set the experiment of the new interaction evidence to this current experiment
addLinkToTerm(String, String, Map<String, OntologyTerm>) - Method in class psidev.psi.mi.jami.bridges.obo.OntologyOboLoader: addLinkToTerm.
addListener(T) - Method in class psidev.psi.mi.jami.enricher.listener.impl.EnricherListenerManager: addListener.
addMappingResult(String, String) - Method in class psidev.psi.mi.jami.bridges.mapper.mock.MockProteinMapper: addMappingResult.
addOnly(int, T) - Method in class psidev.psi.mi.jami.utils.collection.AbstractListHavingProperties: addOnly
addOnly(T) - Method in class psidev.psi.mi.jami.utils.collection.AbstractListHavingProperties: addOnly
addOntologyTerm(String, OntologyTerm) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockOntologyTermFetcher: addOntologyTerm.
addOntologyTerm(String, Source) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockSourceFetcher: addOntologyTerm.
addParticipant(ModelledParticipant) - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: addParticipant
addParticipant(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: This method will add the participant and set the interaction of the new participant to this current interaction
addParticipant(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: This method will add the participant and set the interaction of the new participant to this current interaction
addParticipant(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: addParticipant.
addParticipant(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: addParticipant.
addParticipant(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: addParticipant.
addParticipant(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: addParticipant.
addParticipant(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: addParticipant.
addParticipant(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: addParticipant.
addParticipant(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: addParticipant.
addParticipant(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: addParticipant.
addParticipant(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: addParticipant.
addParticipant(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: addParticipant.
addParticipant(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: addParticipant.
addParticipant(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: addParticipant.
addParticipant(Participant) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: This method will add the participant and set the interaction of the new participant to this current interaction
addParticipant(ParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: This method will add the participant and set the interaction of the new participant to this current interaction
addParticipant(Participant, BinaryInteraction) - Method in class psidev.psi.mi.jami.tab.io.parser.BinaryLineParser: addParticipant.
addParticipant(Participant, Interaction) - Method in class psidev.psi.mi.jami.tab.io.parser.InteractionLineParser: addParticipant.
addParticipant(Participant, T) - Method in class psidev.psi.mi.jami.tab.io.parser.AbstractLightInteractionLineParser: addParticipant.
addParticipant(T) - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteraction: addParticipant
addParticipant(T) - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteractionWrapper: Adds a new Participant and set the Interaction of this participant if added.
addParticipant(T) - Method in class psidev.psi.mi.jami.model.impl.AbstractInteraction: addParticipant
addParticipant(T) - Method in interface psidev.psi.mi.jami.model.Interaction: This method will add the participant and set the interaction of the new participant to this current interaction
addParticipant(T) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: addParticipant.
addParticipant(T) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: addParticipant.
addParticipant(T) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: addParticipant.
addPublication(String, String, String, String) - Method in class psidev.psi.mi.jami.bridges.imex.mock.MockImexCentralClient: addPublication.
addPublication(Publication) - Method in class psidev.psi.mi.jami.bridges.imex.mock.MockImexCentralClient: addPublication.
addVariableParameter(VariableParameter) - Method in interface psidev.psi.mi.jami.model.Experiment: This method will add the variableParameter and set the experiment of the new variableParameter to this current experiment
addVariableParameter(VariableParameter) - Method in class psidev.psi.mi.jami.model.impl.DefaultExperiment: This method will add the variableParameter and set the experiment of the new variableParameter to this current experiment
addVariableParameter(VariableParameter) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: This method will add the variableParameter and set the experiment of the new variableParameter to this current experiment
addVariableParameter(VariableParameter) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: This method will add the variableParameter and set the experiment of the new variableParameter to this current experiment
addVariableParameter(VariableParameter) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: This method will add the variableParameter and set the experiment of the new variableParameter to this current experiment
addVariableParameter(VariableParameter) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: This method will add the variableParameter and set the experiment of the new variableParameter to this current experiment
addVariableParameter(VariableParameter) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: This method will add the variableParameter and set the experiment of the new variableParameter to this current experiment
addVariableParameter(VariableParameter) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: This method will add the variableParameter and set the experiment of the new variableParameter to this current experiment
addXref(Integer, Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XrefContainer.JAXBSecondaryXrefList
addXref(Integer, Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XrefContainer.JAXBSecondaryXrefList
addXref(Integer, Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XrefContainer.JAXBSecondaryXrefList
adjustBeginLineColumn(int, int) - Method in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream: Method to adjust line and column numbers for the start of a token.
adjustBeginLineColumn(int, int) - Method in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Method to adjust line and column numbers for the start of a token.
AdjustBuffSize() - Method in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream
AFFECTED_INTERACTION - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant AFFECTED_INTERACTION="affected interaction"
AFFECTED_INTERACTION_ID - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant AFFECTED_INTERACTION_ID="MI:1150"
afterChunk(ChunkContext) - Method in class psidev.psi.mi.jami.batch.BasicChunkLoggerListener
afterChunkError(ChunkContext) - Method in class psidev.psi.mi.jami.batch.BasicChunkLoggerListener
afterJob(JobExecution) - Method in class psidev.psi.mi.jami.batch.SimpleJobListener
afterPropertiesSet() - Method in class psidev.psi.mi.jami.batch.BatchDataSourceInitializer: afterPropertiesSet.
afterStep(StepExecution) - Method in class psidev.psi.mi.jami.batch.BasicChunkLoggerListener
alias(int) - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
Alias - Interface in psidev.psi.mi.jami.model: Alias is a synonym.
ALIAS_IDENTIFIER - Static variable in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Constant ALIAS_IDENTIFIER="Alternate label curated by PSI-MI"
ALIAS_INTERACTOR_A - psidev.psi.mi.jami.tab.MitabColumnName
ALIAS_INTERACTOR_B - psidev.psi.mi.jami.tab.MitabColumnName
AliasComparator - Class in psidev.psi.mi.jami.utils.comparator.alias: Simple comparator for aliases.
AliasComparator(Comparator<CvTerm>) - Constructor for class psidev.psi.mi.jami.utils.comparator.alias.AliasComparator: Creates a new AliasComparator.
aliases(int) - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
AliasesChangeListener<T> - Interface in psidev.psi.mi.jami.listener: A listener for changes to a bioactiveEntity.
AliasesCollectionComparator - Class in psidev.psi.mi.jami.utils.comparator.alias: Comparator for collection of aliases
AliasesCollectionComparator(AliasComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.alias.AliasesCollectionComparator: Creates a new alias CollectionComparator.
AliasUtils - Class in psidev.psi.mi.jami.utils: Utility class for aliases
AliasUtils() - Constructor for class psidev.psi.mi.jami.utils.AliasUtils
ALLOSTERIC_DYNAMIC_CHANGE - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant ALLOSTERIC_DYNAMIC_CHANGE="allosteric change in dynamics"
ALLOSTERIC_DYNAMIC_CHANGE_ID - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant ALLOSTERIC_DYNAMIC_CHANGE_ID="MI:1166"
ALLOSTERIC_EFFECTOR - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant ALLOSTERIC_EFFECTOR="allosteric effector"
ALLOSTERIC_EFFECTOR_ID - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant ALLOSTERIC_EFFECTOR_ID="MI:1160"
ALLOSTERIC_K_RESPONSE - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant ALLOSTERIC_K_RESPONSE="allosteric k-type response"
ALLOSTERIC_K_RESPONSE_ID - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant ALLOSTERIC_K_RESPONSE_ID="MI:1162"
ALLOSTERIC_MOLECULE - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant ALLOSTERIC_MOLECULE="allosteric molecule"
ALLOSTERIC_MOLECULE_ID - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant ALLOSTERIC_MOLECULE_ID="MI:1159"
ALLOSTERIC_PTM - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant ALLOSTERIC_PTM="allosteric ptm"
ALLOSTERIC_PTM - Static variable in interface psidev.psi.mi.jami.model.Feature: Constant ALLOSTERIC_PTM="allosteric post-translational modificat"{trunked}
ALLOSTERIC_PTM_ID - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant ALLOSTERIC_PTM_ID="MI:1175"
ALLOSTERIC_PTM_MI - Static variable in interface psidev.psi.mi.jami.model.Feature: Constant ALLOSTERIC_PTM_MI="MI:1175"
ALLOSTERIC_STRUCTURE_CHANE - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant ALLOSTERIC_STRUCTURE_CHANE="allosteric change in structure"
ALLOSTERIC_STRUCTURE_CHANE_ID - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant ALLOSTERIC_STRUCTURE_CHANE_ID="MI:1165"
ALLOSTERIC_V_RESPONSE - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant ALLOSTERIC_V_RESPONSE="allosteric v-type response"
ALLOSTERIC_V_RESPONSE_ID - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant ALLOSTERIC_V_RESPONSE_ID="MI:1163"
AllostericEffector - Interface in psidev.psi.mi.jami.model: The effector that elicits an allosteric response.
AllostericEffectorType - Enum in psidev.psi.mi.jami.model: The types of allosteryEffectors
Allostery<T extends AllostericEffector> - Interface in psidev.psi.mi.jami.model: The allostery cooperative Effect.
ALLOSTERY - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant ALLOSTERY="allostery"
ALLOSTERY_ID - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant ALLOSTERY_ID="MI:1157"
AllosteryComparator - Class in psidev.psi.mi.jami.utils.comparator.cooperativity: Basic comparator for Allostery It will first compare basic cooperative effect properties using CooperativeEffectBaseComparator.
AllosteryComparator(CooperativeEffectBaseComparator, MoleculeEffectorComparator, FeatureModificationEffectorComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.cooperativity.AllosteryComparator: Constructor for AllosteryComparator.
ALTERED_PHYSICO_COMPATIBILITY - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant ALTERED_PHYSICO_COMPATIBILITY="altered physicochemical compatibility"
ALTERED_PHYSICO_COMPATIBILITY_ID - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant ALTERED_PHYSICO_COMPATIBILITY_ID="MI:1172"
ALTID_INTERACTOR_A - psidev.psi.mi.jami.tab.MitabColumnName
ALTID_INTERACTOR_B - psidev.psi.mi.jami.tab.MitabColumnName
annotation(int) - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
Annotation - Interface in psidev.psi.mi.jami.model: An Annotations gives some information about a specific topic.
AnnotationComparator - Class in psidev.psi.mi.jami.utils.comparator.annotation: Simple comparator for annotations It compares first the topics and then the value (case insensitive) - Two annotations which are null are equals - The annotation which is not null is before null.
AnnotationComparator(Comparator<CvTerm>) - Constructor for class psidev.psi.mi.jami.utils.comparator.annotation.AnnotationComparator: Creates a new AnnotationComparator.
annotations(int) - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
ANNOTATIONS_A - psidev.psi.mi.jami.tab.MitabColumnName
ANNOTATIONS_B - psidev.psi.mi.jami.tab.MitabColumnName
ANNOTATIONS_I - psidev.psi.mi.jami.tab.MitabColumnName
AnnotationsChangeListener<T> - Interface in psidev.psi.mi.jami.listener: A listener for changes to a bioactiveEntity.
AnnotationsCollectionComparator - Class in psidev.psi.mi.jami.utils.comparator.annotation: Comparator for collection of Annotations
AnnotationsCollectionComparator(AnnotationComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.annotation.AnnotationsCollectionComparator: Creates a new annotation CollectionComparator.
AnnotationUtils - Class in psidev.psi.mi.jami.utils: Utility class for Annotation
AnnotationUtils() - Constructor for class psidev.psi.mi.jami.utils.AnnotationUtils
areCvTermsEqual(Collection<? extends CvTerm>, Collection<? extends CvTerm>) - Static method in class psidev.psi.mi.jami.utils.comparator.ComparatorUtils: areCvTermsEqual
areEquals(Alias, Alias) - Static method in class psidev.psi.mi.jami.utils.comparator.alias.DefaultAliasComparator: Use DefaultAliasComparator to know if two aliases are equals.
areEquals(Alias, Alias) - Static method in class psidev.psi.mi.jami.utils.comparator.alias.UnambiguousAliasComparator: Use UnambiguousAliasComparator to know if two aliases are equals.
areEquals(Allostery, Allostery) - Static method in class psidev.psi.mi.jami.utils.comparator.cooperativity.DefaultAllosteryComparator: Use DefaultAllosteryComparator to know if two allostery are equals.
areEquals(Allostery, Allostery) - Static method in class psidev.psi.mi.jami.utils.comparator.cooperativity.DefaultExactAllosteryComparator: Use DefaultExactAllosteryComparator to know if two allostery are equals.
areEquals(Allostery, Allostery) - Static method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousAllosteryComparator: Use UnambiguousAllosteryComparator to know if two allostery are equals.
areEquals(Allostery, Allostery) - Static method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousExactAllosteryComparator: Use UnambiguousExactAllosteryComparator to know if two allostery are equals.
areEquals(Annotation, Annotation) - Static method in class psidev.psi.mi.jami.utils.comparator.annotation.DefaultAnnotationComparator: Use DefaultAnnotationComparator to know if two annotations are equals.
areEquals(Annotation, Annotation) - Static method in class psidev.psi.mi.jami.utils.comparator.annotation.UnambiguousAnnotationComparator: Use UnambiguousAnnotationComparator to know if two annotations are equals.
areEquals(BioactiveEntity, BioactiveEntity) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.DefaultBioactiveEntityComparator: Use DefaultBioactiveEntityComparator to know if two bioactive entities are equals.
areEquals(BioactiveEntity, BioactiveEntity) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.DefaultExactBioactiveEntityComparator: Use DefaultBioactiveEntityComparator to know if two bioactive entities are equals.
areEquals(BioactiveEntity, BioactiveEntity) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousBioactiveEntityComparator: Use UnambiguousBioactiveEntityComparator to know if two bioactive entities are equals.
areEquals(BioactiveEntity, BioactiveEntity) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactBioactiveEntityComparator: Use UnambiguousExactBioactiveEntityComparator to know if two bioactive entities are equals.
areEquals(CausalRelationship, CausalRelationship) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.DefaultCausalRelationshipComparator: Use DefaultCausalRelationshipComparator to know if two causalRelationShip are equals.
areEquals(CausalRelationship, CausalRelationship) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.DefaultExactCausalRelationshipComparator: Use DefaultExactCausalRelationshipComparator to know if two causalRelationShip are equals.
areEquals(CausalRelationship, CausalRelationship) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousCausalRelationshipComparator: Use UnambiguousCausalRelationshipComparator to know if two causalRelationShip are equals.
areEquals(CausalRelationship, CausalRelationship) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactCausalRelationshipComparator: Use UnambiguousExactCausalRelationshipComparator to know if two causalRelationShip are equals.
areEquals(Checksum, Checksum) - Static method in class psidev.psi.mi.jami.utils.comparator.checksum.DefaultChecksumComparator: Use DefaultChecksumComparator to know if two checksum are equals.
areEquals(Checksum, Checksum) - Static method in class psidev.psi.mi.jami.utils.comparator.checksum.UnambiguousChecksumComparator: Use UnambiguousChecksumComparator to know if two checksum are equals.
areEquals(Complex, Complex) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.DefaultComplexComparator: Use DefaultComplexComparator to know if two complexes are equals.
areEquals(Complex, Complex) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.DefaultExactComplexComparator: Use DefaultExactComplexComparator to know if two complexes are equals.
areEquals(Complex, Complex) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousComplexComparator: Use UnambiguousComplexComparator to know if two complexes are equals.
areEquals(Complex, Complex) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactComplexComparator: Use UnambiguousExactComplexComparator to know if two complexes are equals.
areEquals(Confidence, Confidence) - Static method in class psidev.psi.mi.jami.utils.comparator.confidence.DefaultConfidenceComparator: Use DefaultConfidenceComparator to know if two confidences are equals.
areEquals(Confidence, Confidence) - Static method in class psidev.psi.mi.jami.utils.comparator.confidence.UnambiguousConfidenceComparator: Use UnambiguousConfidenceComparator to know if two confidences are equals.
areEquals(CooperativeEffect, CooperativeEffect) - Static method in class psidev.psi.mi.jami.utils.comparator.cooperativity.DefaultCooperativeEffectBaseComparator: Use DefaultCooperativeEffectBaseComparator to know if two CooperativeEffects are equals.
areEquals(CooperativeEffect, CooperativeEffect) - Static method in class psidev.psi.mi.jami.utils.comparator.cooperativity.DefaultCooperativeEffectComparator: Use DefaultCooperativeEffectComparator to know if two CooperativeEffects are equals.
areEquals(CooperativeEffect, CooperativeEffect) - Static method in class psidev.psi.mi.jami.utils.comparator.cooperativity.DefaultExactCooperativeEffectBaseComparator: Use DefaultExactCooperativeEffectBaseComparator to know if two CooperativeEffects are equals.
areEquals(CooperativeEffect, CooperativeEffect) - Static method in class psidev.psi.mi.jami.utils.comparator.cooperativity.DefaultExactCooperativeEffectComparator: Use DefaultExactCooperativeEffectComparator to know if two CooperativeEffects are equals.
areEquals(CooperativeEffect, CooperativeEffect) - Static method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousCooperativeEffectBaseComparator: Use UnambiguousCooperativeEffectBaseComparator to know if two CooperativeEffects are equals.
areEquals(CooperativeEffect, CooperativeEffect) - Static method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousCooperativeEffectComparator: Use UnambiguousCooperativeEffectComparator to know if two CooperativeEffects are equals.
areEquals(CooperativeEffect, CooperativeEffect) - Static method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousExactCooperativeEffectBaseComparator: Use UnambiguousExactCooperativeEffectBaseComparator to know if two CooperativeEffects are equals.
areEquals(CooperativeEffect, CooperativeEffect) - Static method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousExactCooperativeEffectComparator: Use UnambiguousExactCooperativeEffectComparator to know if two CooperativeEffects are equals.
areEquals(CooperativityEvidence, CooperativityEvidence) - Static method in class psidev.psi.mi.jami.utils.comparator.cooperativity.DefaultCooperativityEvidenceComparator: Use DefaultCooperativityEvidenceComparator to know if two cooperativityEvidences are equals.
areEquals(CooperativityEvidence, CooperativityEvidence) - Static method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousCooperativityEvidenceComparator: Use UnambiguousCooperativityEvidenceComparator to know if two cooperativityEvidences are equals.
areEquals(CvTerm, CvTerm) - Static method in class psidev.psi.mi.jami.utils.comparator.cv.CvTermIdentifierComparator: Use UnambiguousCvTermComparator to know if two CvTerms are equals.
areEquals(CvTerm, CvTerm) - Static method in class psidev.psi.mi.jami.utils.comparator.cv.CvTermNameComparator: Use UnambiguousCvTermComparator to know if two CvTerms are equals.
areEquals(CvTerm, CvTerm) - Static method in class psidev.psi.mi.jami.utils.comparator.cv.DefaultCvTermComparator: Use DefaultCvTermComparator to know if two CvTerms are equals.
areEquals(CvTerm, CvTerm) - Static method in class psidev.psi.mi.jami.utils.comparator.cv.UnambiguousCvTermComparator: Use UnambiguousCvTermComparator to know if two CvTerms are equals.
areEquals(Entity, Entity) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.DefaultEntityComparator: Use DefaultExactEntityComparator to know if two participants are equals.
areEquals(Entity, Entity) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.DefaultExactEntityComparator: Use DefaultExactEntityComparator to know if two participants are equals.
areEquals(Entity, Entity) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.DefaultExactParticipantInteractorComparator: Use DefaultExactParticipantInteractorComparator to know if two participants are equals.
areEquals(Entity, Entity) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.DefaultParticipantInteractorComparator: Use DefaultParticipantInteractorComparator to know if two participants are equals.
areEquals(Entity, Entity) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousEntityBaseComparator: Use UnambiguousParticipantBaseComparator to know if two participants are equals.
areEquals(Entity, Entity) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousEntityComparator: Use UnambiguousExactEntityComparator to know if two participants are equals.
areEquals(Entity, Entity) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactEntityBaseComparator: Use UnambiguousExactParticipantBaseComparator to know if two participants are equals.
areEquals(Entity, Entity) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactEntityComparator: Use UnambiguousExactEntityComparator to know if two participants are equals.
areEquals(Entity, Entity) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantInteractorComparator: Use UnambiguousExactParticipantInteractorComparator to know if two participants are equals.
areEquals(Entity, Entity) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousParticipantInteractorComparator: Use UnambiguousParticipantInteractorComparator to know if two participants are equals.
areEquals(Entity, Entity, boolean) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.DefaultEntityBaseComparator: Use DefaultParticipantBaseComparator to know if two participants are equals.
areEquals(Entity, Entity, boolean) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.DefaultExactEntityBaseComparator: Use DefaultExactParticipantBaseComparator to know if two participants are equals.
areEquals(ExperimentalEntity, ExperimentalEntity) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.DefaultExactParticipantEvidenceInteractorComparator: Use DefaultExactParticipantEvidenceInteractorComparator to know if two experimental participants are equals.
areEquals(ExperimentalEntity, ExperimentalEntity) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.DefaultParticipantEvidenceInteractorComparator: Use DefaultParticipantEvidenceInteractorComparator to know if two experimental participants are equals.
areEquals(ExperimentalEntity, ExperimentalEntity) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactExperimentalEntityComparator: Use UnambiguousExperimentalEntityComparator to know if two experimental participants are equals.
areEquals(ExperimentalEntity, ExperimentalEntity) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantEvidenceInteractorComparator: It will compare the basic properties of an interactor using UnambiguousExactInteractorComparator.
areEquals(ExperimentalEntity, ExperimentalEntity) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExperimentalEntityComparator: Use UnambiguousExperimentalEntityComparator to know if two experimental participants are equals.
areEquals(ExperimentalEntity, ExperimentalEntity) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousParticipantEvidenceInteractorComparator: Use UnambiguousParticipantEvidenceInteractorComparator to know if two experimental participants are equals.
areEquals(ExperimentalEntity, ExperimentalEntity, boolean) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.DefaultExactExperimentalEntityComparator: Use DefaultExactExperimentalEntityComparator to know if two experimental entities are equals.
areEquals(ExperimentalEntity, ExperimentalEntity, boolean) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.DefaultExperimentalEntityComparator: Use DefaultExperimentalEntityComparator to know if two experimental entities are equals.
areEquals(ExperimentalParticipantPool, ExperimentalParticipantPool) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactExperimentalParticipantPoolComparator: Use UnambiguousExactParticipantEvidenceComparator to know if two experimental participants are equals.
areEquals(ExperimentalParticipantPool, ExperimentalParticipantPool) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExperimentalParticipantPoolComparator: Use UnambiguousExactParticipantEvidenceComparator to know if two experimental participants are equals.
areEquals(ExperimentalParticipantPool, ExperimentalParticipantPool, boolean) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.DefaultExactExperimentalParticipantPoolComparator: Use DefaultExactExperimentalParticipantPoolComparator to know if two experimental participants are equals.
areEquals(ExperimentalParticipantPool, ExperimentalParticipantPool, boolean) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.DefaultExperimentalParticipantPoolComparator: Use DefaultExperimentalParticipantPoolComparator to know if two experimental participants are equals.
areEquals(Experiment, Experiment) - Static method in class psidev.psi.mi.jami.utils.comparator.experiment.DefaultCuratedExperimentComparator: Use DefaultCuratedExperimentComparator to know if two experiment are equals.
areEquals(Experiment, Experiment) - Static method in class psidev.psi.mi.jami.utils.comparator.experiment.DefaultExperimentComparator: Use DefaultExperimentComparator to know if two experiment are equals.
areEquals(Experiment, Experiment) - Static method in class psidev.psi.mi.jami.utils.comparator.experiment.UnambiguousCuratedExperimentComparator: Use UnambiguousExperimentComparator to know if two experiment are equals.
areEquals(Experiment, Experiment) - Static method in class psidev.psi.mi.jami.utils.comparator.experiment.UnambiguousExperimentComparator: Use UnambiguousExperimentComparator to know if two experiment are equals.
areEquals(FeatureEvidence, FeatureEvidence) - Static method in class psidev.psi.mi.jami.utils.comparator.feature.DefaultFeatureEvidenceComparator: Use DefaultFeatureEvidenceComparator to know if two experimental features are equals.
areEquals(FeatureEvidence, FeatureEvidence) - Static method in class psidev.psi.mi.jami.utils.comparator.feature.UnambiguousFeatureEvidenceComparator: Use UnambiguousFeatureEvidenceComparator to know if two experimental features are equals.
areEquals(FeatureModificationEffector, FeatureModificationEffector) - Static method in class psidev.psi.mi.jami.utils.comparator.cooperativity.DefaultFeatureModificationEffectorComparator: Use DefaultFeatureModificationEffectorComparator to know if two FeatureModificationEffector are equals.
areEquals(FeatureModificationEffector, FeatureModificationEffector) - Static method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousFeatureModificationEffectorComparator: Use UnambiguousFeatureModificationEffectorComparator to know if two FeatureModificationEffector are equals.
areEquals(Feature, Feature) - Static method in class psidev.psi.mi.jami.utils.comparator.feature.DefaultFeatureBaseComparator: Use DefaultFeatureBaseComparator to know if two features are equals.
areEquals(Feature, Feature) - Static method in class psidev.psi.mi.jami.utils.comparator.feature.DefaultFeatureComparator: Use DefaultFeatureComparator to know if two features are equals.
areEquals(Feature, Feature) - Static method in class psidev.psi.mi.jami.utils.comparator.feature.UnambiguousFeatureBaseComparator: Use UnambiguousFeatureBaseComparator to know if two features are equals.
areEquals(Feature, Feature) - Static method in class psidev.psi.mi.jami.utils.comparator.feature.UnambiguousFeatureComparator: Use UnambiguousFeatureComparator to know if two features are equals.
areEquals(Gene, Gene) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.DefaultExactGeneComparator: Use DefaultGeneComparator to know if two genes are equals.
areEquals(Gene, Gene) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.DefaultGeneComparator: Use DefaultGeneComparator to know if two genes are equals.
areEquals(Gene, Gene) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactGeneComparator: Use DefaultGeneComparator to know if two genes are equals.
areEquals(Gene, Gene) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousGeneComparator: Use UnambiguousGeneComparator to know if two genes are equals.
areEquals(InteractionEvidence, InteractionEvidence) - Static method in class psidev.psi.mi.jami.utils.comparator.interaction.DefaultCuratedInteractionEvidenceComparator: Use DefaultCuratedInteractionEvidenceComparator to know if two experimental interactions are equals.
areEquals(InteractionEvidence, InteractionEvidence) - Static method in class psidev.psi.mi.jami.utils.comparator.interaction.DefaultExactCuratedInteractionEvidenceComparator: Use DefaultExactCuratedInteractionEvidenceComparator to know if two experimental interactions are equals.
areEquals(InteractionEvidence, InteractionEvidence) - Static method in class psidev.psi.mi.jami.utils.comparator.interaction.DefaultExactInteractionEvidenceComparator: Use DefaultExactInteractionEvidenceComparator to know if two experimental interactions are equals.
areEquals(InteractionEvidence, InteractionEvidence) - Static method in class psidev.psi.mi.jami.utils.comparator.interaction.DefaultInteractionEvidenceComparator: Use DefaultInteractionEvidenceComparator to know if two experimental interactions are equals.
areEquals(InteractionEvidence, InteractionEvidence) - Static method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousCuratedInteractionEvidenceComparator: Use UnambiguousCuratedInteractionEvidenceComparator to know if two experimental interactions are equals.
areEquals(InteractionEvidence, InteractionEvidence) - Static method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactCuratedInteractionEvidenceComparator: Use UnambiguousExactCuratedInteractionEvidenceComparator to know if two experimental interactions are equals.
areEquals(InteractionEvidence, InteractionEvidence) - Static method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactInteractionEvidenceComparator: Use UnambiguousExactInteractionEvidenceComparator to know if two experimental interactions are equals.
areEquals(InteractionEvidence, InteractionEvidence) - Static method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousInteractionEvidenceComparator: Use UnambiguousInteractionEvidenceComparator to know if two experimental interactions are equals.
areEquals(Interaction, Interaction) - Static method in class psidev.psi.mi.jami.utils.comparator.interaction.DefaultCuratedInteractionBaseComparator: Use DefaultCuratedInteractionBaseComparator to know if two interactions are equals.
areEquals(Interaction, Interaction) - Static method in class psidev.psi.mi.jami.utils.comparator.interaction.DefaultCuratedInteractionComparator: Use DefaultCuratedInteractionComparator to know if two interactions are equals.
areEquals(Interaction, Interaction) - Static method in class psidev.psi.mi.jami.utils.comparator.interaction.DefaultExactCuratedInteractionComparator: Use DefaultExactCuratedInteractionComparator to know if two interactions are equals.
areEquals(Interaction, Interaction) - Static method in class psidev.psi.mi.jami.utils.comparator.interaction.DefaultExactInteractionComparator: Use DefaultExactInteractionComparator to know if two interactions are equals.
areEquals(Interaction, Interaction) - Static method in class psidev.psi.mi.jami.utils.comparator.interaction.DefaultExactInteractionInteractorComparator: Use DefaultExactInteractionInteractorComparator to know if two interactions are equals.
areEquals(Interaction, Interaction) - Static method in class psidev.psi.mi.jami.utils.comparator.interaction.DefaultInteractionBaseComparator: Use DefaultInteractionBaseComparator to know if two interactions are equals.
areEquals(Interaction, Interaction) - Static method in class psidev.psi.mi.jami.utils.comparator.interaction.DefaultInteractionComparator: Use DefaultInteractionComparator to know if two interactions are equals.
areEquals(Interaction, Interaction) - Static method in class psidev.psi.mi.jami.utils.comparator.interaction.DefaultInteractionInteractorComparator: Use DefaultInteractionInteractorComparator to know if two interactions are equals.
areEquals(Interaction, Interaction) - Static method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousCuratedInteractionBaseComparator: Use UnambiguousCuratedInteractionBaseComparator to know if two interactions are equals.
areEquals(Interaction, Interaction) - Static method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousCuratedInteractionComparator: Use UnambiguousCuratedInteractionComparator to know if two interactions are equals.
areEquals(Interaction, Interaction) - Static method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactCuratedInteractionComparator: Use UnambiguousExactCuratedInteractionComparator to know if two interactions are equals.
areEquals(Interaction, Interaction) - Static method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactInteractionComparator: Use UnambiguousExactInteractionComparator to know if two interactions are equals.
areEquals(Interaction, Interaction) - Static method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactInteractionInteractorComparator: Use UnambiguousExactInteractionInteractorComparator to know if two interactions are equals.
areEquals(Interaction, Interaction) - Static method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousInteractionBaseComparator: Use UnambiguousInteractionBaseComparator to know if two interactions are equals.
areEquals(Interaction, Interaction) - Static method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousInteractionComparator: Use UnambiguousInteractionComparator to know if two interactions are equals.
areEquals(Interaction, Interaction) - Static method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousInteractionInteractorComparator: Use UnambiguousInteractionInteractorComparator to know if two interactions are equals.
areEquals(InteractorPool, InteractorPool) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.DefaultExactInteractorPoolComparator: Use DefaultExactInteractorPoolComparator to know if two interactorCandidates are equals.
areEquals(InteractorPool, InteractorPool) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.DefaultInteractorPoolComparator: Use DefaultInteractorPoolComparator to know if two interactorCandidates are equals.
areEquals(InteractorPool, InteractorPool) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactInteractorPoolComparator: Use UnambiguousExactInteractorPoolComparator to know if two interactorCandidates are equals.
areEquals(InteractorPool, InteractorPool) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousInteractorPoolComparator: Use UnambiguousInteractorPoolComparator to know if two interactorCandidates are equals.
areEquals(Interactor, Interactor) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.DefaultExactInteractorBaseComparator: Use DefaulExacttInteractorBaseComparator to know if two interactors are equals.
areEquals(Interactor, Interactor) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.DefaultExactInteractorComparator: Use DefaultExactInteractorComparator to know if two interactors are equals.
areEquals(Interactor, Interactor) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.DefaultInteractorBaseComparator: Use DefaultInteractorBaseComparator to know if two interactors are equals.
areEquals(Interactor, Interactor) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.DefaultInteractorComparator: Use DefaultInteractorComparator to know if two interactors are equals.
areEquals(Interactor, Interactor) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactInteractorBaseComparator: Use UnambiguousExacttInteractorBaseComparator to know if two interactors are equals.
areEquals(Interactor, Interactor) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactInteractorComparator: Use UnambiguousExactInteractorComparator to know if two interactors are equals.
areEquals(Interactor, Interactor) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousInteractorBaseComparator: Use DefaultConfidenceComparator to know if two confidences are equals.
areEquals(Interactor, Interactor) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousInteractorComparator: Use UnambiguousInteractorComparator to know if two interactors are equals.
areEquals(ModelledEntity, ModelledEntity) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.DefaultExactModelledParticipantInteractorComparator: Use DefaultExactModelledParticipantInteractorComparator to know if two biological participants are equals.
areEquals(ModelledEntity, ModelledEntity) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.DefaultModelledParticipantInteractorComparator: Use DefaultModelledParticipantInteractorComparator to know if two biological participants are equals.
areEquals(ModelledEntity, ModelledEntity) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactModelledEntityComparator: Use UnambiguousExactModelledParticipantComparator to know if two biological participant are equals.
areEquals(ModelledEntity, ModelledEntity) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactModelledParticipantInteractorComparator: Use UnambiguousExactModelledParticipantInteractorComparator to know if two biological participants are equals.
areEquals(ModelledEntity, ModelledEntity) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousModelledEntityComparator: Use UnambiguousModelledParticipantComparator to know if two biological participant are equals.
areEquals(ModelledEntity, ModelledEntity) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousModelledParticipantInteractorComparator: Use UnambiguousModelledParticipantInteractorComparator to know if two biological participants are equals.
areEquals(ModelledEntity, ModelledEntity, boolean) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.DefaultExactModelledEntityComparator: Use DefaultExactModelledEntityComparator to know if two biological entities are equals.
areEquals(ModelledEntity, ModelledEntity, boolean) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.DefaultModelledEntityComparator: Use DefaultModelledEntityComparator to know if two biological entities are equals.
areEquals(ModelledFeature, ModelledFeature) - Static method in class psidev.psi.mi.jami.utils.comparator.feature.DefaultModelledFeatureComparator: Use DefaultModelledFeatureComparator to know if two biological features are equals.
areEquals(ModelledFeature, ModelledFeature) - Static method in class psidev.psi.mi.jami.utils.comparator.feature.UnambiguousModelledFeaturecomparator: Use UnambiguousModelledFeaturecomparator to know if two biological features are equals.
areEquals(ModelledInteraction, ModelledInteraction) - Static method in class psidev.psi.mi.jami.utils.comparator.interaction.DefaultCuratedModelledInteractionComparator: Use DefaultCuratedModelledInteractionComparator to know if two modelled interactions are equals.
areEquals(ModelledInteraction, ModelledInteraction) - Static method in class psidev.psi.mi.jami.utils.comparator.interaction.DefaultExactCuratedModelledInteractionComparator: Use DefaultExactCuratedModelledInteractionComparator to know if two modelled interactions are equals.
areEquals(ModelledInteraction, ModelledInteraction) - Static method in class psidev.psi.mi.jami.utils.comparator.interaction.DefaultExactModelledInteractionComparator: It will use a DefaultInteractionBaseComparator to compare basic interaction properties.
areEquals(ModelledInteraction, ModelledInteraction) - Static method in class psidev.psi.mi.jami.utils.comparator.interaction.DefaultModelledInteractionComparator: Use DefaultModelledInteractionComparator to know if two modelled interactions are equals.
areEquals(ModelledInteraction, ModelledInteraction) - Static method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousCuratedModelledInteractionComparator: Use UnambiguousCuratedModelledInteractionComparator to know if two modelled interactions are equals.
areEquals(ModelledInteraction, ModelledInteraction) - Static method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactCuratedModelledInteractionComparator: Use UnambiguousExactCuratedModelledInteractionComparator to know if two modelled interactions are equals.
areEquals(ModelledInteraction, ModelledInteraction) - Static method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactModelledInteractionComparator: Use UnambiguousExactModelledInteractionComparator to know if two modelled interactions are equals.
areEquals(ModelledInteraction, ModelledInteraction) - Static method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousModelledInteractionComparator: Use UnambiguousModelledInteractionComparator to know if two modelled interactions are equals.
areEquals(ModelledParticipantPool, ModelledParticipantPool) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactModelledParticipantPoolComparator: Use UnambiguousExactModelledParticipantComparator to know if two biological participant are equals.
areEquals(ModelledParticipantPool, ModelledParticipantPool) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousModelledParticipantPoolComparator: Use UnambiguousModelledParticipantComparator to know if two biological participant are equals.
areEquals(ModelledParticipantPool, ModelledParticipantPool, boolean) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.DefaultExactModelledParticipantPoolComparator: Use DefaultExactModelledParticipantPoolComparator to know if two biological participant pools are equals.
areEquals(ModelledParticipantPool, ModelledParticipantPool, boolean) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.DefaultModelledParticipantPoolComparator: Use DefaultModelledParticipantPoolComparator to know if two biological participant pools are equals.
areEquals(ModelledParticipant, ModelledParticipant) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactModelledParticipantComparator: Use UnambiguousExactModelledParticipantComparator to know if two biological participant are equals.
areEquals(ModelledParticipant, ModelledParticipant) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousModelledParticipantComparator: Use UnambiguousModelledParticipantComparator to know if two biological participants are equals.
areEquals(ModelledParticipant, ModelledParticipant, boolean) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.DefaultExactModelledParticipantComparator: It will compare the basic properties of a biological participant using DefaultExactParticipantBaseComparator.
areEquals(ModelledParticipant, ModelledParticipant, boolean) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.DefaultModelledParticipantComparator: It will compare the basic properties of a biological participant using DefaultParticipantBaseComparator.
areEquals(MoleculeEffector, MoleculeEffector) - Static method in class psidev.psi.mi.jami.utils.comparator.cooperativity.DefaultExactMoleculeEffectorComparator: Use DefaultExactMoleculeEffectorComparator to know if two moleculeEffectors are equals.
areEquals(MoleculeEffector, MoleculeEffector) - Static method in class psidev.psi.mi.jami.utils.comparator.cooperativity.DefaultMoleculeEffectorComparator: Use DefaultMoleculeEffectorComparator to know if two moleculeEffectors are equals.
areEquals(MoleculeEffector, MoleculeEffector) - Static method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousExactMoleculeEffectorComparator: Use UnambiguousExactMoleculeEffectorComparator to know if two moleculeEffectors are equals.
areEquals(MoleculeEffector, MoleculeEffector) - Static method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousMoleculeEffectorComparator: Use UnambiguousMoleculeEffectorComparator to know if two moleculeEffectors are equals.
areEquals(NucleicAcid, NucleicAcid) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.DefaultExactNucleicAcidComparator: Use DefaultNucleicAcidComparator to know if two nucleic acids are equals.
areEquals(NucleicAcid, NucleicAcid) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.DefaultNucleicAcidComparator: Use DefaultNucleicAcidComparator to know if two nucleic acids are equals.
areEquals(NucleicAcid, NucleicAcid) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactNucleicAcidComparator: Use UnambiguousExactNucleicAcidComparator to know if two nucleic acids are equals.
areEquals(NucleicAcid, NucleicAcid) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousNucleicAcidComparator: Use UnambiguousNucleicAcidComparator to know if two nucleic acids are equals.
areEquals(Organism, Organism) - Static method in class psidev.psi.mi.jami.utils.comparator.organism.DefaultOrganismComparator: Use DefaultOrganismComparator to know if two organism are equals.
areEquals(Organism, Organism) - Static method in class psidev.psi.mi.jami.utils.comparator.organism.OrganismTaxIdComparator: Use OrganismTaxIdComparator to know if two organisms are equals.
areEquals(Organism, Organism) - Static method in class psidev.psi.mi.jami.utils.comparator.organism.UnambiguousOrganismComparator: Use UnambiguousOrganismComparator to know if two organism are equals.
areEquals(Parameter, Parameter) - Static method in class psidev.psi.mi.jami.utils.comparator.parameter.DefaultParameterComparator: Use DefaultComparator to know if two parameters are equals.
areEquals(Parameter, Parameter) - Static method in class psidev.psi.mi.jami.utils.comparator.parameter.UnambiguousParameterComparator: Use UnabmbiguousComparatorParameter to know if two parameters are equals.
areEquals(ParameterValue, ParameterValue) - Static method in class psidev.psi.mi.jami.utils.comparator.parameter.ParameterValueComparator: Use ParameterValueComparator to know if two ParameterValue are equals.
areEquals(ParticipantEvidence, ParticipantEvidence) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantEvidenceComparator: Use UnambiguousExactParticipantEvidenceComparator to know if two experimental participants are equals.
areEquals(ParticipantEvidence, ParticipantEvidence) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousParticipantEvidenceComparator: Use UnambiguousParticipantEvidenceComparator to know if two experimental participants are equals.
areEquals(ParticipantEvidence, ParticipantEvidence, boolean) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.DefaultExactParticipantEvidenceComparator: Use DefaultExactParticipantEvidenceComparator to know if two experimental participants are equals.
areEquals(ParticipantEvidence, ParticipantEvidence, boolean) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.DefaultParticipantEvidenceComparator: Use DefaultParticipantEvidenceComparator to know if two experimental participants are equals.
areEquals(ParticipantPool, ParticipantPool) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantPoolComparator: Use UnambiguousExactParticipantPoolComparator to know if two participants are equals.
areEquals(ParticipantPool, ParticipantPool) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousParticipantPoolComparator: Use UnambiguousParticipantPoolComparator to know if two participants are equals.
areEquals(ParticipantPool, ParticipantPool, boolean) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.DefaultExactParticipantPoolComparator: Use DefaultExactParticipantPoolComparator to know if two participant pools are equals.
areEquals(ParticipantPool, ParticipantPool, boolean) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.DefaultParticipantPoolComparator: Use DefaultParticipantBaseComparator to know if two participant pools are equals.
areEquals(Participant, Participant) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.DefaultExactParticipantComparator: Use DefaultExactParticipantComparator to know if two participants are equals.
areEquals(Participant, Participant) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.DefaultParticipantComparator: Use DefaultParticipantComparator to know if two participants are equals.
areEquals(Participant, Participant) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantBaseComparator: Use UnambiguousExactParticipantBaseComparator to know if two participants are equals.
areEquals(Participant, Participant) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantComparator: Use UnambiguousExactParticipantComparator to know if two participants are equals.
areEquals(Participant, Participant) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousParticipantBaseComparator: Use UnambiguousParticipantBaseComparator to know if two participants are equals.
areEquals(Participant, Participant) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousParticipantComparator: Use UnambiguousParticipantComparator to know if two participants are equals.
areEquals(Participant, Participant, boolean) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.DefaultExactParticipantBaseComparator: Use DefaultExactParticipantBaseComparator to know if two participants are equals.
areEquals(Participant, Participant, boolean) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.DefaultParticipantBaseComparator: Use DefaultParticipantBaseComparator to know if two participants are equals.
areEquals(Polymer, Polymer) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.DefaultExactPolymerComparator: Use DefaultExactPolymerComparator to know if two polymers are equals.
areEquals(Polymer, Polymer) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.DefaultPolymerComparator: Use DefaultPolymerComparator to know if two proteins are equals.
areEquals(Polymer, Polymer) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactPolymerComparator: Use UnambiguousPolymerComparator to know if two polymers are equals.
areEquals(Polymer, Polymer) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousPolymerComparator: Use UnambiguousPolymerComparator to know if two polymers are equals.
areEquals(Position, Position) - Static method in class psidev.psi.mi.jami.utils.comparator.range.DefaultPositionComparator: Use DefaultPositionComparator to know if two positions are equals.
areEquals(Position, Position) - Static method in class psidev.psi.mi.jami.utils.comparator.range.UnambiguousPositionComparator: Use UnabmbiguousPositionComparator to know if two positions are equals.
areEquals(Protein, Protein) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.DefaultExactProteinComparator: Use DefaultExactProteinComparator to know if two proteins are equals.
areEquals(Protein, Protein) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.DefaultProteinComparator: Use DefaultProteinComparator to know if two proteins are equals.
areEquals(Protein, Protein) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactProteinComparator: Use DefaultExactProteinComparator to know if two proteins are equals.
areEquals(Protein, Protein) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousProteinComparator: Use UnambiguousProteinComparator to know if two proteins are equals.
areEquals(Publication, Publication) - Static method in class psidev.psi.mi.jami.utils.comparator.publication.DefaultCuratedPublicationComparator: Use DefaultCuratedPublicationComparator to know if two publications are equals.
areEquals(Publication, Publication) - Static method in class psidev.psi.mi.jami.utils.comparator.publication.DefaultPublicationComparator: Use DefaultPublicationComparator to know if two publications are equals.
areEquals(Publication, Publication) - Static method in class psidev.psi.mi.jami.utils.comparator.publication.UnambiguousCuratedPublicationComparator: Use UnambiguousCuratedPublicationComparator to know if two publications are equals.
areEquals(Publication, Publication) - Static method in class psidev.psi.mi.jami.utils.comparator.publication.UnambiguousPublicationComparator: Use UnambiguousPublicationComparator to know if two publications are equals.
areEquals(Range, Range) - Static method in class psidev.psi.mi.jami.utils.comparator.range.DefaultRangeAndResultingSequenceComparator: Use DefaultRangeComparator to know if two ranges are equals.
areEquals(Range, Range) - Static method in class psidev.psi.mi.jami.utils.comparator.range.DefaultRangeComparator: Use DefaultRangeComparator to know if two ranges are equals.
areEquals(Range, Range) - Static method in class psidev.psi.mi.jami.utils.comparator.range.UnambiguousRangeAndResultingSequenceComparator: Use DefaultRangeComparator to know if two ranges are equals.
areEquals(Range, Range) - Static method in class psidev.psi.mi.jami.utils.comparator.range.UnambiguousRangeComparator: Use DefaultRangeComparator to know if two ranges are equals.
areEquals(ResultingSequence, ResultingSequence) - Static method in class psidev.psi.mi.jami.utils.comparator.range.ResultingSequenceComparator: Use ResultingSequenceComparator to know if two resulting sequences are equals.
areEquals(Stoichiometry, Stoichiometry) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.StoichiometryComparator: Use StoichiometryComparator to know if two stoichiometry are equals.
areEquals(VariableParameter, VariableParameter) - Static method in class psidev.psi.mi.jami.utils.comparator.experiment.DefaultVariableParameterComparator: Use DefaultVariableParameterComparator to know if two variableParameter are equals.
areEquals(VariableParameter, VariableParameter) - Static method in class psidev.psi.mi.jami.utils.comparator.experiment.UnambiguousVariableParameterComparator: Use UnambiguousVariableParameterComparator to know if two variableParameter are equals.
areEquals(VariableParameterValue, VariableParameterValue) - Static method in class psidev.psi.mi.jami.utils.comparator.experiment.VariableParameterValueComparator: Use VariableParameterValueComparator to know if two variableParameterValues are equals.
areEquals(VariableParameterValueSet, VariableParameterValueSet) - Static method in class psidev.psi.mi.jami.utils.comparator.experiment.VariableParameterValueSetComparator: Use VariableParameterValueComparator to know if two variableParameterValueSet are equals.
areEquals(Xref, Xref) - Static method in class psidev.psi.mi.jami.utils.comparator.xref.DefaultExternalIdentifierComparator: Use DefaultIdentifierComparator to know if two external identifiers are equals.
areEquals(Xref, Xref) - Static method in class psidev.psi.mi.jami.utils.comparator.xref.DefaultXrefComparator: Use DefaultXrefComparator to know if two xrefs are equals.
areEquals(Xref, Xref) - Static method in class psidev.psi.mi.jami.utils.comparator.xref.ExactExternalIdentifierComparator: Use ExactExternalIdentifierComparator to know if two external identifiers are equals.
areEquals(Xref, Xref) - Static method in class psidev.psi.mi.jami.utils.comparator.xref.ExactXrefComparator: Use ExactXrefComparator to know if two xrefs are equals.
areEquals(Xref, Xref) - Static method in class psidev.psi.mi.jami.utils.comparator.xref.UnambiguousExternalIdentifierComparator: Use UnambiguousIdentifierComparator to know if two external identifiers are equals.
areEquals(Xref, Xref) - Static method in class psidev.psi.mi.jami.utils.comparator.xref.UnambiguousXrefComparator: Use UnambiguousXrefComparator to know if two xrefs are equals.
areIdenticalPublications(ImexPublication, ImexPublication) - Method in class psidev.psi.mi.jami.imex.actions.impl.PublicationIdentifierSynchronizerImpl: areIdenticalPublications.
areParametersEqual(Collection<? extends Parameter>, Collection<? extends Parameter>) - Static method in class psidev.psi.mi.jami.utils.comparator.ComparatorUtils: areParametersEqual
arePositionsOverlapping(long, long, long, long) - Static method in class psidev.psi.mi.jami.utils.PositionUtils: Checks if the interval positions are overlapping
areRangePositionsOutOfBounds(long, long, int) - Static method in class psidev.psi.mi.jami.utils.PositionUtils: A position is out of bound if superior to the sequence length.
areRangePositionsOverlapping(Range) - Static method in class psidev.psi.mi.jami.utils.RangeUtils: Checks if the interval positions of the range are overlapping
areRangePositionsValid(long, long) - Static method in class psidev.psi.mi.jami.utils.PositionUtils: A range interval is invalid if the start is after the end
areRangesEqual(Collection<? extends Range>, Collection<? extends Range>) - Static method in class psidev.psi.mi.jami.utils.comparator.ComparatorUtils: areRangesEqual
areRangeStatusInconsistent(Range) - Static method in class psidev.psi.mi.jami.utils.RangeUtils: areRangeStatusInconsistent
assignComplexAc(String) - Method in interface psidev.psi.mi.jami.model.Complex: Assign a complex accession to a complex.
assignComplexAc(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: Assign a complex accession to a complex.
assignComplexAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: Assign a complex accession to a complex.
assignComplexAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: Assign a complex accession to a complex.
assignComplexAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: Sets the value of the complexAc property
assignComplexAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: Sets the value of the complexAc property
assignComplexAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.InteractionXrefContainer: assignComplexAc.
assignComplexAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: Assign a complex accession to a complex.
assignComplexAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: Assign a complex accession to a complex.
assignComplexAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: Assign a complex accession to a complex.
assignComplexAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: Sets the value of the complexAc property
assignComplexAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: Sets the value of the complexAc property
assignComplexAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.InteractionXrefContainer: assignComplexAc.
assignComplexAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: Assign a complex accession to a complex.
assignComplexAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: Assign a complex accession to a complex.
assignComplexAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: Assign a complex accession to a complex.
assignComplexAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: Sets the value of the complexAc property
assignComplexAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: Sets the value of the complexAc property
assignComplexAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.InteractionXrefContainer: assignComplexAc.
assignComplexAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: Assign a complex accession to a complex.
assignComplexAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: Assign a complex accession to a complex.
assignComplexAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: Sets the value of the complexAc property
assignComplexAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: Assign a complex accession to a complex.
assignComplexAc(String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: Assign a complex accession to a complex.
assignComplexAc(String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: Assign a complex accession to a complex.
assignComplexAc(String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: Assign a complex accession to a complex.
assignComplexAc(String, String) - Method in interface psidev.psi.mi.jami.model.Complex: Assign a complex accession to a complex.
assignComplexAc(String, String) - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: Assign a complex accession to a complex.
assignComplexAc(String, String) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: Assign a complex accession to a complex.
assignComplexAc(String, String) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: Assign a complex accession to a complex.
assignComplexAc(String, String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: Assign a complex accession to a complex.
assignComplexAc(String, String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.InteractionXrefContainer: assignComplexAc.
assignComplexAc(String, String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: Assign a complex accession to a complex.
assignComplexAc(String, String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: Assign a complex accession to a complex.
assignComplexAc(String, String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: Assign a complex accession to a complex.
assignComplexAc(String, String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: Assign a complex accession to a complex.
assignComplexAc(String, String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.InteractionXrefContainer: assignComplexAc.
assignComplexAc(String, String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: Assign a complex accession to a complex.
assignComplexAc(String, String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: Assign a complex accession to a complex.
assignComplexAc(String, String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: Assign a complex accession to a complex.
assignComplexAc(String, String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: Assign a complex accession to a complex.
assignComplexAc(String, String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.InteractionXrefContainer: assignComplexAc.
assignComplexAc(String, String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: Assign a complex accession to a complex.
assignComplexAc(String, String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: Assign a complex accession to a complex.
assignComplexAc(String, String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: Assign a complex accession to a complex.
assignComplexAc(String, String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: Assign a complex accession to a complex.
assignComplexAc(String, String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: Assign a complex accession to a complex.
assignComplexAc(String, String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: Assign a complex accession to a complex.
assignComplexAc(String, String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: Assign a complex accession to a complex.
assignImexId(String) - Method in class psidev.psi.mi.jami.binary.impl.BinaryInteractionEvidenceWrapper: Assign an IMEx id to an interaction.
assignImexId(String) - Method in class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: Assign an IMEx id to an interaction.
assignImexId(String) - Method in class psidev.psi.mi.jami.bridges.imex.extension.ImexPublication: Assign an IMEx id to a publication.
assignImexId(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: Assign an IMEx id to an interaction.
assignImexId(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: Assign an IMEx id to a publication.
assignImexId(String) - Method in interface psidev.psi.mi.jami.model.InteractionEvidence: Assign an IMEx id to an interaction.
assignImexId(String) - Method in interface psidev.psi.mi.jami.model.Publication: Assign an IMEx id to a publication.
assignImexId(String) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: Assign an IMEx id to an interaction.
assignImexId(String) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: Assign an IMEx id to an interaction.
assignImexId(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: Sets the value of the imexId property
assignImexId(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: Sets the value of the imexId property
assignImexId(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: Assign an IMEx id to a publication.
assignImexId(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.InteractionXrefContainer: assignImexId.
assignImexId(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.PublicationXrefContainer: assignImexId.
assignImexId(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: Sets the value of the imexId property
assignImexId(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: Sets the value of the imexId property
assignImexId(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: Assign an IMEx id to a publication.
assignImexId(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.InteractionXrefContainer: assignImexId.
assignImexId(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.PublicationXrefContainer: assignImexId.
assignImexId(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: Sets the value of the imexId property
assignImexId(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: Sets the value of the imexId property
assignImexId(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: Assign an IMEx id to a publication.
assignImexId(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.InteractionXrefContainer: assignImexId.
assignImexId(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.PublicationXrefContainer: assignImexId.
assignImexIdentifier(Publication, Publication) - Method in interface psidev.psi.mi.jami.imex.actions.ImexAssigner: Assign a new IMEx id to a publication that has not been assigned yet and update/clean up the annotations of the publication (full coverage and imex curation).
assignImexIdentifier(Publication, Publication) - Method in class psidev.psi.mi.jami.imex.actions.impl.ImexAssignerImpl: Assign a new IMEx id to a publication that has not been assigned yet and update/clean up the annotations of the publication (full coverage and imex curation).
ATTRIBUTE_TAG - Static variable in class psidev.psi.mi.jami.xml.utils.PsiXmlUtils: Constant ATTRIBUTE_TAG="attribute"
ATTRIBUTELIST_TAG - Static variable in class psidev.psi.mi.jami.xml.utils.PsiXmlUtils: Constant ATTRIBUTELIST_TAG="attributeList"
author() - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
AUTHOR - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant AUTHOR="author-list"
AUTHOR_ASSIGNED_NAME - Static variable in interface psidev.psi.mi.jami.model.Alias: Constant AUTHOR_ASSIGNED_NAME="author assigned name"
AUTHOR_ASSIGNED_NAME_MI - Static variable in interface psidev.psi.mi.jami.model.Alias: Constant AUTHOR_ASSIGNED_NAME_MI="MI:0345"
AUTHOR_BASED_CONFIDENCE - Static variable in interface psidev.psi.mi.jami.model.Confidence: Constant AUTHOR_BASED_CONFIDENCE="author-based confidence"
AUTHOR_BASED_CONFIDENCE_MI - Static variable in interface psidev.psi.mi.jami.model.Confidence: Constant AUTHOR_BASED_CONFIDENCE_MI="MI:1221"
AUTHOR_MI - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant AUTHOR_MI="MI:0636"
AUTHOR_SUFFIX - Static variable in class psidev.psi.mi.jami.tab.utils.MitabUtils: Constant AUTHOR_SUFFIX=" et al."
Availability - Class in psidev.psi.mi.jami.xml.model.extension.xml253: A text describing the availability of data, e.g.
Availability - Class in psidev.psi.mi.jami.xml.model.extension.xml254: A text describing the availability of data, e.g.
Availability - Class in psidev.psi.mi.jami.xml.model.extension.xml300: A text describing the availability of data, e.g.
Availability() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.Availability: Constructor for Availability.
Availability() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.Availability: Constructor for Availability.
Availability() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.Availability: Constructor for Availability.
AVAILABILITY_TAG - Static variable in class psidev.psi.mi.jami.xml.utils.PsiXmlUtils: Constant AVAILABILITY_TAG="availability"
AVAILABILITYLIST_TAG - Static variable in class psidev.psi.mi.jami.xml.utils.PsiXmlUtils: Constant AVAILABILITYLIST_TAG="availabilityList"
available() - Method in class psidev.psi.mi.jami.xml.io.parser.NonCloseableInputStreamWrapper

B

backup(int) - Method in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream: Retreat.
backup(int) - Method in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Backup a number of characters.
BAIT_ROLE - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant BAIT_ROLE="bait"
BAIT_ROLE_MI - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant BAIT_ROLE_MI="MI:0496"
Base64 - Class in psidev.psi.mi.jami.utils.checksum: Encodes and decodes to and from Base64 notation.
Base64.InputStream - Class in psidev.psi.mi.jami.utils.checksum: A Base64.InputStream will read data from another java.io.InputStream, given in the constructor, and encode/decode to/from Base64 notation on the fly.
Base64.OutputStream - Class in psidev.psi.mi.jami.utils.checksum: A Base64.OutputStream will write data to another java.io.OutputStream, given in the constructor, and encode/decode to/from Base64 notation on the fly.
basic - psidev.psi.mi.jami.model.InteractionCategory
BasicChunkLoggerListener - Class in psidev.psi.mi.jami.batch: Listener to chumk operations
BasicChunkLoggerListener() - Constructor for class psidev.psi.mi.jami.batch.BasicChunkLoggerListener
BasicEntry - Class in psidev.psi.mi.jami.xml.model.xml253: Basic Entry implementation for JAXB read only.
BasicEntry - Class in psidev.psi.mi.jami.xml.model.xml254: Basic Entry implementation for JAXB read only.
BasicEntry - Class in psidev.psi.mi.jami.xml.model.xml30: Basic Entry implementation for JAXB read only.
BasicEntry() - Constructor for class psidev.psi.mi.jami.xml.model.xml253.BasicEntry
BasicEntry() - Constructor for class psidev.psi.mi.jami.xml.model.xml254.BasicEntry
BasicEntry() - Constructor for class psidev.psi.mi.jami.xml.model.xml30.BasicEntry
BasicEntry.JAXBInteractionsWrapper - Class in psidev.psi.mi.jami.xml.model.xml253
BasicEntry.JAXBInteractionsWrapper - Class in psidev.psi.mi.jami.xml.model.xml254
BasicEntry.JAXBInteractionsWrapper - Class in psidev.psi.mi.jami.xml.model.xml30
BatchDataSourceInitializer - Class in psidev.psi.mi.jami.batch: This class will initialize the batch database using external scripts containing sql commands to create the tables necessary for running Spring batch jobs.
BatchDataSourceInitializer() - Constructor for class psidev.psi.mi.jami.batch.BatchDataSourceInitializer
beforeChunk(ChunkContext) - Method in class psidev.psi.mi.jami.batch.BasicChunkLoggerListener
beforeJob(JobExecution) - Method in class psidev.psi.mi.jami.batch.SimpleJobListener
beforeStep(StepExecution) - Method in class psidev.psi.mi.jami.batch.BasicChunkLoggerListener
beginColumn - Variable in class psidev.psi.mi.jami.tab.io.parser.Token: The column number of the first character of this Token.
beginLine - Variable in class psidev.psi.mi.jami.tab.io.parser.Token: The line number of the first character of this Token.
BeginToken() - Method in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream
BeginToken() - Method in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Start.
BibRef - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of a Publication
BibRef - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of a Publication
BibRef - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of a Publication
BibRef() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: Constructor for BibRef.
BibRef() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: Constructor for BibRef.
BibRef() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: Constructor for BibRef.
BibRef(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: Constructor for BibRef.
BibRef(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: Constructor for BibRef.
BibRef(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: Constructor for BibRef.
BibRef(String, String, Date) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: Constructor for BibRef.
BibRef(String, String, Date) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: Constructor for BibRef.
BibRef(String, String, Date) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: Constructor for BibRef.
BibRef(String, String, Date, String, Source) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: Constructor for BibRef.
BibRef(String, String, Date, String, Source) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: Constructor for BibRef.
BibRef(String, String, Date, String, Source) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: Constructor for BibRef.
BibRef(String, String, Date, CurationDepth, Source) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: Constructor for BibRef.
BibRef(String, String, Date, CurationDepth, Source) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: Constructor for BibRef.
BibRef(String, String, Date, CurationDepth, Source) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: Constructor for BibRef.
BibRef(String, String, Source) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: Constructor for BibRef.
BibRef(String, String, Source) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: Constructor for BibRef.
BibRef(String, String, Source) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: Constructor for BibRef.
BibRef(String, CurationDepth, Source) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: Constructor for BibRef.
BibRef(String, CurationDepth, Source) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: Constructor for BibRef.
BibRef(String, CurationDepth, Source) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: Constructor for BibRef.
BibRef(Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: Constructor for BibRef.
BibRef(Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: Constructor for BibRef.
BibRef(Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: Constructor for BibRef.
BibRef(Xref, String, Source) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: Constructor for BibRef.
BibRef(Xref, String, Source) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: Constructor for BibRef.
BibRef(Xref, String, Source) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: Constructor for BibRef.
BibRef(Xref, CurationDepth, Source) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: Constructor for BibRef.
BibRef(Xref, CurationDepth, Source) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: Constructor for BibRef.
BibRef(Xref, CurationDepth, Source) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: Constructor for BibRef.
BibRef.JAXBAttributeWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
BibRef.JAXBAttributeWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
BibRef.JAXBAttributeWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
binary - psidev.psi.mi.jami.model.ComplexType
binary_only - psidev.psi.mi.jami.crosslink.CsvType
binary_only - psidev.psi.mi.jami.json.MIJsonType
BinaryEvidenceLineParser - Class in psidev.psi.mi.jami.tab.io.parser: An extension of MitabLineParser that returns binary interactions evidences only.
BinaryEvidenceLineParser(InputStream) - Constructor for class psidev.psi.mi.jami.tab.io.parser.BinaryEvidenceLineParser: Constructor for BinaryEvidenceLineParser.
BinaryEvidenceLineParser(InputStream, String) - Constructor for class psidev.psi.mi.jami.tab.io.parser.BinaryEvidenceLineParser: Constructor for BinaryEvidenceLineParser.
BinaryEvidenceLineParser(Reader) - Constructor for class psidev.psi.mi.jami.tab.io.parser.BinaryEvidenceLineParser: Constructor for BinaryEvidenceLineParser.
BinaryEvidenceLineParser(MitabLineParserTokenManager) - Constructor for class psidev.psi.mi.jami.tab.io.parser.BinaryEvidenceLineParser: Constructor for BinaryEvidenceLineParser.
BinaryInteraction<T extends Participant> - Interface in psidev.psi.mi.jami.binary: A Binary interaction is an interaction only composed of two participants.
BinaryInteractionEvidence - Interface in psidev.psi.mi.jami.binary: A BinaryInteractionEvidence is an InteractionEvidence with only two participants
BinaryInteractionEvidenceSource - Interface in psidev.psi.mi.jami.datasource: A dataSource of binary interaction evidences It gives full access to all the interactions using Iterator or the full collection.
BinaryInteractionEvidenceStream - Interface in psidev.psi.mi.jami.datasource: A Data source of binary interaction evidences giving only a stream of interactions.
BinaryInteractionEvidenceWrapper - Class in psidev.psi.mi.jami.binary.impl: A wrapper for InteractionEvidence which contains two participants
BinaryInteractionEvidenceWrapper(InteractionEvidence) - Constructor for class psidev.psi.mi.jami.binary.impl.BinaryInteractionEvidenceWrapper: Constructor for BinaryInteractionEvidenceWrapper.
BinaryInteractionEvidenceWrapper(InteractionEvidence, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.BinaryInteractionEvidenceWrapper: Constructor for BinaryInteractionEvidenceWrapper.
BinaryInteractionFactory - Interface in psidev.psi.mi.jami.factory: An interface for a factory of BinaryInteractions
BinaryInteractionSource<T extends BinaryInteraction> - Interface in psidev.psi.mi.jami.datasource: A Data source of binary interactions.
BinaryInteractionStream<T extends BinaryInteraction> - Interface in psidev.psi.mi.jami.datasource: A Data source of binary interactions giving only a stream of interactions.
BinaryInteractionWrapper - Class in psidev.psi.mi.jami.binary.impl: Binary Wrapper for an Interaction
BinaryInteractionWrapper(Interaction) - Constructor for class psidev.psi.mi.jami.binary.impl.BinaryInteractionWrapper: Constructor for BinaryInteractionWrapper.
BinaryInteractionWrapper(Interaction, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.BinaryInteractionWrapper: Constructor for BinaryInteractionWrapper.
BinaryLineParser - Class in psidev.psi.mi.jami.tab.io.parser: An extension of MitabLineParser that returns simple binary interactions only.
BinaryLineParser(InputStream) - Constructor for class psidev.psi.mi.jami.tab.io.parser.BinaryLineParser: Constructor for BinaryLineParser.
BinaryLineParser(InputStream, String) - Constructor for class psidev.psi.mi.jami.tab.io.parser.BinaryLineParser: Constructor for BinaryLineParser.
BinaryLineParser(Reader) - Constructor for class psidev.psi.mi.jami.tab.io.parser.BinaryLineParser: Constructor for BinaryLineParser.
BinaryLineParser(MitabLineParserTokenManager) - Constructor for class psidev.psi.mi.jami.tab.io.parser.BinaryLineParser: Constructor for BinaryLineParser.
BINDING_HIDING - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant BINDING_HIDING="binding site hiding"
BINDING_HIDING_ID - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant BINDING_HIDING_ID="MI:1173"
BINDING_SITE - Static variable in interface psidev.psi.mi.jami.model.Feature: Constant BINDING_SITE="binding-associated region"
BINDING_SITE_MI - Static variable in interface psidev.psi.mi.jami.model.Feature: Constant BINDING_SITE_MI="MI:0117"
BindingFeatureGraph<T extends Feature> - Class in psidev.psi.mi.jami.analysis.graph.model: A binding feature graph is a pseudograph of binding features.
BindingFeatureGraph() - Constructor for class psidev.psi.mi.jami.analysis.graph.model.BindingFeatureGraph: Constructor for BindingFeatureGraph.
BindingFeatureGraph(MIComparator<T>) - Constructor for class psidev.psi.mi.jami.analysis.graph.model.BindingFeatureGraph: Constructor for BindingFeatureGraph.
BindingFeatures - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Class that wraps a list of linkedFeatures which all bind together
BindingFeatures() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.BindingFeatures: Constructor for BindingFeatures.
BindingPair<F extends Feature> - Class in psidev.psi.mi.jami.analysis.graph.model: A feature binding pair is an undirected MI edge of features that are linked to each other.
BindingPair(F, F) - Constructor for class psidev.psi.mi.jami.analysis.graph.model.BindingPair: Constructor for BindingPair.
BindingPair(F, F, MIComparator<F>) - Constructor for class psidev.psi.mi.jami.analysis.graph.model.BindingPair: Constructor for BindingPair.
BindingPairFactory<F extends Feature> - Class in psidev.psi.mi.jami.analysis.graph: A feature edge factory is an edge factory generating FeatureBindingPairs The factory can be instantiated with a specific MIComparator if it wants to override the comparison and hashcodes of features A and B
BindingPairFactory() - Constructor for class psidev.psi.mi.jami.analysis.graph.BindingPairFactory: Constructor for BindingPairFactory.
BindingPairFactory(MIComparator<F>) - Constructor for class psidev.psi.mi.jami.analysis.graph.BindingPairFactory: Constructor for BindingPairFactory.
BindingSiteCliqueFinder - Class in psidev.psi.mi.jami.analysis.graph: The BindingSiteClique finder is an extension of BronKerboschCliqueFinder.
BindingSiteCliqueFinder(I) - Constructor for class psidev.psi.mi.jami.analysis.graph.BindingSiteCliqueFinder: Constructor for BindingSiteCliqueFinder.
BindingSiteCliqueFinder(I, MIComparator<F>) - Constructor for class psidev.psi.mi.jami.analysis.graph.BindingSiteCliqueFinder: Constructor for BindingSiteCliqueFinder.
BindingSiteCliqueFinder(Collection) - Constructor for class psidev.psi.mi.jami.analysis.graph.BindingSiteCliqueFinder: Constructor for BindingSiteCliqueFinder.
BindingSiteCliqueFinder(Collection, MIComparator<F>) - Constructor for class psidev.psi.mi.jami.analysis.graph.BindingSiteCliqueFinder: Constructor for BindingSiteCliqueFinder.
BindingSiteCliqueFinder(Iterator) - Constructor for class psidev.psi.mi.jami.analysis.graph.BindingSiteCliqueFinder: Constructor for BindingSiteCliqueFinder.
BindingSiteCliqueFinder(Iterator, MIComparator<F>) - Constructor for class psidev.psi.mi.jami.analysis.graph.BindingSiteCliqueFinder: Constructor for BindingSiteCliqueFinder.
BindingSiteCliqueFinder(BindingFeatureGraph<F>) - Constructor for class psidev.psi.mi.jami.analysis.graph.BindingSiteCliqueFinder: Creates a new clique finder.
BIO_EFFECT_A - psidev.psi.mi.jami.tab.MitabColumnName
BIO_EFFECT_B - psidev.psi.mi.jami.tab.MitabColumnName
bioactive_entity - psidev.psi.mi.jami.factory.InteractorCategory
BIOACTIVE_ENTITY - Static variable in interface psidev.psi.mi.jami.model.BioactiveEntity: Constant BIOACTIVE_ENTITY="bioactive entity"
BIOACTIVE_ENTITY_MI - Static variable in interface psidev.psi.mi.jami.model.BioactiveEntity: Constant BIOACTIVE_ENTITY_MI="MI:1100"
BioactiveEntity - Interface in psidev.psi.mi.jami.model: Molecules showing activity in a living system and which can interact with other molecules
BioactiveEntityComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Unambiguous bioactive entity comparator.
BioactiveEntityComparator(Comparator<Interactor>) - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.BioactiveEntityComparator: Creates a new UnambiguousBioactiveEntityComparator.
BioactiveEntityEnricherListener - Interface in psidev.psi.mi.jami.enricher.listener: Created with IntelliJ IDEA.
BioactiveEntityEnricherListenerManager - Class in psidev.psi.mi.jami.enricher.listener.impl: A manager for listeners which holds a list of listeners.
BioactiveEntityEnricherListenerManager() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.BioactiveEntityEnricherListenerManager: A constructor to create a listener manager with no listeners.
BioactiveEntityEnricherListenerManager(BioactiveEntityEnricherListener...) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.BioactiveEntityEnricherListenerManager: A constructor to initiate a listener manager with as many listeners as required.
BioactiveEntityEnricherLogger - Class in psidev.psi.mi.jami.enricher.listener.impl.log: A logging listener.
BioactiveEntityEnricherLogger() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.log.BioactiveEntityEnricherLogger
BioactiveEntityEnricherStatisticsWriter - Class in psidev.psi.mi.jami.enricher.listener.impl.writer: A statistics logger which records changes made by the enricher.
BioactiveEntityEnricherStatisticsWriter() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.BioactiveEntityEnricherStatisticsWriter: Uses the known name of the JamiObject type as the seed to generate names for the success an failure log files.
BioactiveEntityEnricherStatisticsWriter(File, File) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.BioactiveEntityEnricherStatisticsWriter: Uses the exact files provided to log successful and failed enrichments.
BioactiveEntityEnricherStatisticsWriter(String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.BioactiveEntityEnricherStatisticsWriter: Creates the files from the provided seed file name with 'success' and 'failure' appended.
BioactiveEntityEnricherStatisticsWriter(String, String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.BioactiveEntityEnricherStatisticsWriter: Uses the provided names to create the files for successful and failed enrichment logging.
BioactiveEntityFetcher - Interface in psidev.psi.mi.jami.bridges.fetcher: A fetcher for bioactiveEntities
BIOLOGICAL_FEATURE - Static variable in interface psidev.psi.mi.jami.model.Feature: Constant BIOLOGICAL_FEATURE="biological feature"
BIOLOGICAL_FEATURE_MI - Static variable in interface psidev.psi.mi.jami.model.Feature: Constant BIOLOGICAL_FEATURE_MI="MI:0252"
BIOROLE_A - psidev.psi.mi.jami.tab.MitabColumnName
BIOROLE_B - psidev.psi.mi.jami.tab.MitabColumnName
bipartite - psidev.psi.mi.jami.factory.ComplexExpansionType
BIPARTITE - Static variable in interface psidev.psi.mi.jami.binary.expansion.ComplexExpansionMethod: Constant BIPARTITE="bipartite"
BIPARTITE_EXPANSION - Static variable in interface psidev.psi.mi.jami.binary.expansion.ComplexExpansionMethod: Constant BIPARTITE_EXPANSION="bipartite expansion"
BIPARTITE_EXPANSION - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant BIPARTITE_EXPANSION="bipartite expansion"
BIPARTITE_EXPANSION_MI - Static variable in interface psidev.psi.mi.jami.binary.expansion.ComplexExpansionMethod: Constant BIPARTITE_EXPANSION_MI="MI:1062"
BIPARTITE_EXPANSION_MI - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant BIPARTITE_EXPANSION_MI="MI:1062"
BipartiteExpansion - Class in psidev.psi.mi.jami.binary.expansion: The bipartite expansion.
BipartiteExpansion() - Constructor for class psidev.psi.mi.jami.binary.expansion.BipartiteExpansion: Constructor for BipartiteExpansion.
BLANK_SPACE - Static variable in class psidev.psi.mi.jami.enricher.util.EnricherUtils: Constant BLANK_SPACE="-"
BridgeFailedException - Exception in psidev.psi.mi.jami.bridges.exception: An error object to signify that a query to an external service has failed.
BridgeFailedException() - Constructor for exception psidev.psi.mi.jami.bridges.exception.BridgeFailedException: Constructor for BridgeFailedException.
BridgeFailedException(String) - Constructor for exception psidev.psi.mi.jami.bridges.exception.BridgeFailedException: Constructor for BridgeFailedException.
BridgeFailedException(String, Throwable) - Constructor for exception psidev.psi.mi.jami.bridges.exception.BridgeFailedException: Constructor for BridgeFailedException.
BridgeFailedException(Throwable) - Constructor for exception psidev.psi.mi.jami.bridges.exception.BridgeFailedException: Constructor for BridgeFailedException.
bufcolumn - Variable in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream
bufcolumn - Variable in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream
buffer - Variable in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream
buffer - Variable in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream
bufline - Variable in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream
bufline - Variable in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream
bufpos - Variable in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream: Position in buffer.
bufpos - Variable in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Position in buffer.
BuildBindingSitesCliqueGraph - Class in psidev.psi.mi.jami.examples.core: In this code example, we can build a clique graph of binding sites in an interactions.
BuildBindingSitesCliqueGraph() - Constructor for class psidev.psi.mi.jami.examples.core.BuildBindingSitesCliqueGraph
buildGraphFrom(I) - Method in class psidev.psi.mi.jami.analysis.graph.FeatureGraphBuilder: buildGraphFrom
buildGraphFrom(Collection) - Method in class psidev.psi.mi.jami.analysis.graph.FeatureGraphBuilder: buildGraphFrom
buildGraphFrom(Iterator) - Method in class psidev.psi.mi.jami.analysis.graph.FeatureGraphBuilder: buildGraphFrom
buildHeader(MitabVersion) - Static method in class psidev.psi.mi.jami.tab.utils.MitabUtils: Build the header and return an array of String which is an array of column names
buildNaryInteraction() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: buildNaryInteraction.
buildNaryInteractions() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: buildNaryInteractions.
buildOntology(Map<String, OntologyTerm>, Map<String, OntologyTerm>) - Method in class psidev.psi.mi.jami.bridges.obo.OntologyOboLoader: buildOntology.
buildOntology(Map<String, T>, Map<String, T>) - Method in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: buildOntology.
buildPositionIndex(File) - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: Indexes references component of the given file.
buildTermRelationships(Map<String, OntologyTerm>) - Method in class psidev.psi.mi.jami.bridges.obo.OntologyOboLoader: buildTermRelationships.

C

C_TERMINAL - Static variable in interface psidev.psi.mi.jami.model.Position: Constant C_TERMINAL="c-terminal"
C_TERMINAL_FULL - Static variable in interface psidev.psi.mi.jami.model.Position: Constant C_TERMINAL_FULL="c-terminal position"
C_TERMINAL_MI - Static variable in interface psidev.psi.mi.jami.model.Position: Constant C_TERMINAL_MI="MI:0334"
C_TERMINAL_POSITION_SYMBOL - Static variable in interface psidev.psi.mi.jami.model.Range: Constant C_TERMINAL_POSITION_SYMBOL="c"
C_TERMINAL_RANGE - Static variable in interface psidev.psi.mi.jami.model.Position: Constant C_TERMINAL_RANGE="c-term range"
C_TERMINAL_RANGE_FULL - Static variable in interface psidev.psi.mi.jami.model.Position: Constant C_TERMINAL_RANGE_FULL="c-terminal range"
C_TERMINAL_RANGE_MI - Static variable in interface psidev.psi.mi.jami.model.Position: Constant C_TERMINAL_RANGE_MI="MI:1039"
CACHE_NAME - Static variable in class psidev.psi.mi.jami.bridges.europubmedcentral.CachedEuroPubmedCentralFetcher: Constant CACHE_NAME="europubmedcentral-service-cache"
CACHE_NAME - Static variable in class psidev.psi.mi.jami.bridges.ols.CachedOlsCvTermFetcher: Constant CACHE_NAME="cvterm-cache"
CACHE_NAME - Static variable in class psidev.psi.mi.jami.bridges.ols.CachedOlsOntologyTermFetcher: Constant CACHE_NAME="ontology-cache"
CACHE_NAME - Static variable in class psidev.psi.mi.jami.bridges.ols.CachedOlsSourceFetcher: Constant CACHE_NAME="source-cache"
CACHE_NAME - Static variable in class psidev.psi.mi.jami.bridges.uniprot.CachedUniprotGeneFetcher: Constant CACHE_NAME="uniprot-gene-service-cache"
CACHE_NAME - Static variable in class psidev.psi.mi.jami.bridges.uniprot.CachedUniprotProteinFetcher: Constant CACHE_NAME="uniprot-service-cache"
CACHE_NAME - Static variable in class psidev.psi.mi.jami.bridges.uniprot.taxonomy.CachedUniprotTaxonomyFetcher: Constant CACHE_NAME="uniprot-taxonomy-service-cache"
CACHE_NAME - Static variable in class psidev.psi.mi.jami.bridges.unisave.CachedUnisaveClient: Constant CACHE_NAME="unisave-service-cache"
CachedChebiFetcher - Class in psidev.psi.mi.jami.bridges.chebi: A Cached version of the chebi fetcher
CachedChebiFetcher() - Constructor for class psidev.psi.mi.jami.bridges.chebi.CachedChebiFetcher: Constructor for CachedChebiFetcher.
CachedEuroPubmedCentralFetcher - Class in psidev.psi.mi.jami.bridges.europubmedcentral: A cached version of the EuroPubmedCentralFetcher.
CachedEuroPubmedCentralFetcher() - Constructor for class psidev.psi.mi.jami.bridges.europubmedcentral.CachedEuroPubmedCentralFetcher: Constructor for CachedEuroPubmedCentralFetcher.
CachedFetcher - Interface in psidev.psi.mi.jami.bridges.fetcher: An interface defining the basic interaction with the cache.
CachedOlsCvTermFetcher - Class in psidev.psi.mi.jami.bridges.ols: Created with IntelliJ IDEA.
CachedOlsCvTermFetcher() - Constructor for class psidev.psi.mi.jami.bridges.ols.CachedOlsCvTermFetcher: Constructor for CachedOlsCvTermFetcher.
CachedOlsFetcher<T extends CvTerm> - Class in psidev.psi.mi.jami.bridges.ols: Generic implementation for CachedOlsService
CachedOlsFetcher(String, CvTermFetcher<T>) - Constructor for class psidev.psi.mi.jami.bridges.ols.CachedOlsFetcher: Constructor for CachedOlsFetcher.
CachedOlsOntologyTermFetcher - Class in psidev.psi.mi.jami.bridges.ols: Code for the cache based on the CachedOntologyService at uk.ac.ebi.intact.bridges.olslight;
CachedOlsOntologyTermFetcher() - Constructor for class psidev.psi.mi.jami.bridges.ols.CachedOlsOntologyTermFetcher: Constructor for CachedOlsOntologyTermFetcher.
CachedOlsSourceFetcher - Class in psidev.psi.mi.jami.bridges.ols: Code for the cache OLS fetcher;
CachedOlsSourceFetcher() - Constructor for class psidev.psi.mi.jami.bridges.ols.CachedOlsSourceFetcher: Constructor for CachedOlsSourceFetcher.
CachedUniprotGeneFetcher - Class in psidev.psi.mi.jami.bridges.uniprot: Created with IntelliJ IDEA.
CachedUniprotGeneFetcher() - Constructor for class psidev.psi.mi.jami.bridges.uniprot.CachedUniprotGeneFetcher: Constructor for CachedUniprotGeneFetcher.
CachedUniprotProteinFetcher - Class in psidev.psi.mi.jami.bridges.uniprot: Created with IntelliJ IDEA.
CachedUniprotProteinFetcher() - Constructor for class psidev.psi.mi.jami.bridges.uniprot.CachedUniprotProteinFetcher: Constructor for CachedUniprotProteinFetcher.
CachedUniprotTaxonomyFetcher - Class in psidev.psi.mi.jami.bridges.uniprot.taxonomy: Created with IntelliJ IDEA.
CachedUniprotTaxonomyFetcher() - Constructor for class psidev.psi.mi.jami.bridges.uniprot.taxonomy.CachedUniprotTaxonomyFetcher: Constructor for CachedUniprotTaxonomyFetcher.
CachedUnisaveClient - Class in psidev.psi.mi.jami.bridges.unisave: Cached unisave client
CachedUnisaveClient() - Constructor for class psidev.psi.mi.jami.bridges.unisave.CachedUnisaveClient: Constructor for CachedUnisaveClient.
calculateDiffs(String, String) - Method in class psidev.psi.mi.jami.enricher.util.diff.DiffCalculator: calculateDiffs.
calculateDiffs(String, String, boolean) - Method in class psidev.psi.mi.jami.enricher.util.diff.DiffCalculator: calculateDiffs.
calculateIndexShift(List<Diff>, int) - Static method in class psidev.psi.mi.jami.enricher.util.DiffUtils: Taking into account the differences, calculates what the index should be in the second string by providing an index for the first string.
calculateRigid() - Method in class psidev.psi.mi.jami.utils.checksum.RigidGenerator: First get all the sequences to be processed, Calcuate Rigid (seguid+taxid) for them Sort them lexicographically Concatinate them Generate a Seguid for the resulting String
calculateSeguid(String) - Method in class psidev.psi.mi.jami.utils.checksum.RogidGenerator: calculates the Seguid for the given protein sequence
CANDIDATE_SET - Static variable in interface psidev.psi.mi.jami.model.InteractorPool: Constant CANDIDATE_SET="candidate set"
CANDIDATE_SET_MI - Static variable in interface psidev.psi.mi.jami.model.InteractorPool: Constant CANDIDATE_SET_MI="MI:1305"
canEnrichInteractor(BioactiveEntity, BioactiveEntity) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalBioactiveEntityEnricher: canEnrichInteractor.
canEnrichInteractor(Gene, Gene) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalGeneEnricher: canEnrichInteractor.
canEnrichInteractor(Protein, Protein) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalProteinEnricher: canEnrichInteractor.
canEnrichInteractor(T, T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorEnricher: canEnrichInteractor.
canEnrichInteractor(T, T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorUpdater: canEnrichInteractor.
CAUSAL_REG_MECHANISM - psidev.psi.mi.jami.tab.MitabColumnName
CAUSAL_STAT - psidev.psi.mi.jami.tab.MitabColumnName
CausalRelationship - Interface in psidev.psi.mi.jami.model: These relationship types denote a causal relationship, or the absence of a causal relationship between a subject and an object term
CausalRelationshipComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Basic comparator for CausalRelationship It will first compare the relationType using AbstractCvTermComparator.
CausalRelationshipComparator(Comparator<CvTerm>, EntityComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.CausalRelationshipComparator: Constructor for CausalRelationshipComparator.
CAUTION - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant CAUTION="caution"
CAUTION_MESSAGE - Static variable in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalProteinEnricher: Constant CAUTION_MESSAGE="This sequence has been withdrawn from U"{trunked}
CAUTION_MI - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant CAUTION_MI="MI:0618"
CERTAIN - Static variable in interface psidev.psi.mi.jami.model.Position: Constant CERTAIN="certain"
CERTAIN_FULL - Static variable in interface psidev.psi.mi.jami.model.Position: Constant CERTAIN_FULL="certain sequence position"
CERTAIN_MI - Static variable in interface psidev.psi.mi.jami.model.Position: Constant CERTAIN_MI="MI:0335"
CHAIN_PARENT - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant CHAIN_PARENT="chain-parent"
CHAIN_PARENT_MI - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant CHAIN_PARENT_MI="MI:0951"
CHEBI - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant CHEBI="chebi"
CHEBI_CACHE_NAME - Static variable in class psidev.psi.mi.jami.bridges.chebi.CachedChebiFetcher: Constant CHEBI_CACHE_NAME="chebi-cache"
CHEBI_MI - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant CHEBI_MI="MI:0474"
CHEBI_POLYSACCHARYDE_PARENT - Static variable in class psidev.psi.mi.jami.bridges.chebi.ChebiFetcher: Constant CHEBI_POLYSACCHARYDE_PARENT="CHEBI:18154"
ChebiFetcher - Class in psidev.psi.mi.jami.bridges.chebi: Accesses Chebi entries using the WSDL SOAP service.
ChebiFetcher() - Constructor for class psidev.psi.mi.jami.bridges.chebi.ChebiFetcher: Constructor for ChebiFetcher.
checkObject(Object) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.EnricherStatisticsWriter: Compares the object to the last object enriched.
checkpoint - Variable in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Uniparc
checksum - Variable in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Sequence
checksum(int) - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
Checksum - Interface in psidev.psi.mi.jami.model: Checksum is a value for checking consistency of the data and can also be used for identifying objects.
CHECKSUM_A - psidev.psi.mi.jami.tab.MitabColumnName
CHECKSUM_B - psidev.psi.mi.jami.tab.MitabColumnName
CHECKSUM_I - psidev.psi.mi.jami.tab.MitabColumnName
CHECKSUM_MI - Static variable in interface psidev.psi.mi.jami.model.Checksum: Constant CHECKSUM_MI="MI:1212"
ChecksumComparator - Class in psidev.psi.mi.jami.utils.comparator.checksum: Simple comparator for checksum.
ChecksumComparator(Comparator<CvTerm>) - Constructor for class psidev.psi.mi.jami.utils.comparator.checksum.ChecksumComparator: Creates a new ChecksumComparator.
checksums(int) - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
ChecksumsChangeListener<T> - Interface in psidev.psi.mi.jami.listener: Listener for changes in checkusms
ChecksumUtils - Class in psidev.psi.mi.jami.utils: Utility class for Checksums
ChecksumUtils() - Constructor for class psidev.psi.mi.jami.utils.ChecksumUtils
CHECKUM - Static variable in interface psidev.psi.mi.jami.model.Checksum: Constant CHECKUM="checksum"
clear() - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockOntologyTermFetcher: clear.
clear() - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockSourceFetcher: clear.
clear() - Method in class psidev.psi.mi.jami.json.nary.AbstractMIJsonWriter: clear.
clear() - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipantPool: clear
clear() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractorPool: clear
clear() - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameterValueSet: clear
clear() - Method in class psidev.psi.mi.jami.utils.collection.AbstractCollectionWrapper: clear
clear() - Method in class psidev.psi.mi.jami.utils.collection.AbstractListHavingProperties
clear() - Method in class psidev.psi.mi.jami.xml.cache.InMemoryIdentityObjectCache: clear.
clear() - Method in class psidev.psi.mi.jami.xml.cache.InMemoryLightIdentityObjectCache: clear.
clear() - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: Clear all existing records
clear() - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: Clear all existing records
clear() - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: Clear all existing records
clear() - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlObjectCache: Clear registered complexes and object ids
clear() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: clear.
clear() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantPoolWrapper
clear() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractorPool: clear.
clear() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantPoolWrapper
clear() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: clear.
clear() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantPoolWrapper
clear() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractorPool: clear.
clear() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantPoolWrapper
clear() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: clear.
clear() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantPoolWrapper
clear() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractorPool: clear.
clear() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantPoolWrapper
clear() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameterValueSet: clear.
clear() - Method in class psidev.psi.mi.jami.xml.XmlEntryContext: clear.
clearCache() - Method in class psidev.psi.mi.jami.bridges.fetcher.AbstractCachedFetcher: clearCache.
clearCache() - Method in interface psidev.psi.mi.jami.bridges.fetcher.CachedFetcher: Clears the contents of the cache.
clearCache() - Method in class psidev.psi.mi.jami.bridges.uniprot.CachedUniprotGeneFetcher: clearCache.
clearComplexAc() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.InteractionXrefContainer
clearComplexAc() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.InteractionXrefContainer
clearComplexAc() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.InteractionXrefContainer
clearEntries() - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.AbstractMockFetcher: clearEntries.
clearEntries() - Method in interface psidev.psi.mi.jami.bridges.fetcher.mock.MockFetcher: Clears all entries from the mock fetcher's internal fetching list.
clearImexId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.ExperimentXrefContainer: clearImexId.
clearImexId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.InteractionXrefContainer: clearImexId.
clearImexId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.PublicationXrefContainer: clearImexId.
clearImexId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.ExperimentXrefContainer: clearImexId.
clearImexId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.InteractionXrefContainer: clearImexId.
clearImexId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.PublicationXrefContainer: clearImexId.
clearImexId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.ExperimentXrefContainer: clearImexId.
clearImexId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.InteractionXrefContainer: clearImexId.
clearImexId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.PublicationXrefContainer: clearImexId.
clearInteractionImexContext() - Method in interface psidev.psi.mi.jami.imex.actions.ImexAssigner: clearInteractionImexContext.
clearInteractionImexContext() - Method in class psidev.psi.mi.jami.imex.actions.impl.ImexAssignerImpl: clearInteractionImexContext.
clearOnly() - Method in class psidev.psi.mi.jami.utils.collection.AbstractListHavingProperties: clearOnly
clearProcessedComplexes() - Method in interface psidev.psi.mi.jami.utils.comparator.participant.CustomizableModelledParticipantComparator: clearProcessedComplexes
clearProcessedComplexes() - Method in class psidev.psi.mi.jami.utils.comparator.participant.ModelledEntityComparator: clearProcessedComplexes
clearProcessedComplexes() - Method in class psidev.psi.mi.jami.utils.comparator.participant.ModelledParticipantComparator: clearProcessedComplexes
clearProcessedComplexes() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactModelledParticipantInteractorComparator: clearProcessedComplexes
clearProcessedComplexes() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousModelledParticipantInteractorComparator: clearProcessedComplexes
clearProperties() - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature.FeatureIdentifierList
clearProperties() - Method in class psidev.psi.mi.jami.utils.collection.AbstractListHavingProperties: clearProperties
clearProperties() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence.ExperimentalBinaryInteractionXrefList
clearPropertiesLinkedToAliases() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: clearPropertiesLinkedToAliases
clearPropertiesLinkedToAliases() - Method in class psidev.psi.mi.jami.model.impl.DefaultProtein: clearPropertiesLinkedToAliases
clearPropertiesLinkedToAnnotations() - Method in class psidev.psi.mi.jami.bridges.ols.LazySource: clearPropertiesLinkedToAnnotations.
clearPropertiesLinkedToAnnotations() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: clearPropertiesLinkedToAnnotations
clearPropertiesLinkedToAnnotations() - Method in class psidev.psi.mi.jami.model.impl.DefaultSource: clearPropertiesLinkedToAnnotations
clearPropertiesLinkedToChecksums() - Method in class psidev.psi.mi.jami.model.impl.AbstractInteraction: clearPropertiesLinkedToChecksums
clearPropertiesLinkedToChecksums() - Method in class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: clearPropertiesLinkedToChecksums
clearPropertiesLinkedToChecksums() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: clearPropertiesLinkedToChecksums
clearPropertiesLinkedToChecksums() - Method in class psidev.psi.mi.jami.model.impl.DefaultProtein: clearPropertiesLinkedToChecksums
clearPropertiesLinkedToIdentifiers() - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature: clearPropertiesLinkedToIdentifiers
clearPropertiesLinkedToIdentifiers() - Method in class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity
clearPropertiesLinkedToIdentifiers() - Method in class psidev.psi.mi.jami.model.impl.DefaultCvTerm: clearPropertiesLinkedToIdentifiers
clearPropertiesLinkedToIdentifiers() - Method in class psidev.psi.mi.jami.model.impl.DefaultGene
clearPropertiesLinkedToIdentifiers() - Method in class psidev.psi.mi.jami.model.impl.DefaultNucleicAcid
clearPropertiesLinkedToIdentifiers() - Method in class psidev.psi.mi.jami.model.impl.DefaultProtein: clearPropertiesLinkedToIdentifiers
clearPropertiesLinkedToIdentifiers() - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: clearPropertiesLinkedToIdentifiers
clearPropertiesLinkedToIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.CvTermXrefContainer: clearPropertiesLinkedToIdentifiers.
clearPropertiesLinkedToIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.FeatureXrefContainer: clearPropertiesLinkedToIdentifiers.
clearPropertiesLinkedToIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.PublicationXrefContainer: clearPropertiesLinkedToIdentifiers.
clearPropertiesLinkedToIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.CvTermXrefContainer: clearPropertiesLinkedToIdentifiers.
clearPropertiesLinkedToIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.FeatureXrefContainer: clearPropertiesLinkedToIdentifiers.
clearPropertiesLinkedToIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.PublicationXrefContainer: clearPropertiesLinkedToIdentifiers.
clearPropertiesLinkedToIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.CvTermXrefContainer: clearPropertiesLinkedToIdentifiers.
clearPropertiesLinkedToIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.FeatureXrefContainer: clearPropertiesLinkedToIdentifiers.
clearPropertiesLinkedToIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.PublicationXrefContainer: clearPropertiesLinkedToIdentifiers.
clearPropertiesLinkedToXrefs() - Method in class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: clearPropertiesLinkedToXrefs
clearPropertiesLinkedToXrefs() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex
clearPropertiesLinkedToXrefs() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: clearPropertiesLinkedToXrefs
clearPropertiesLinkedToXrefs() - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: clearPropertiesLinkedToXrefs
clearPropertiesLinkedToXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: clearPropertiesLinkedToXrefs.
clearRegisteredDataSources() - Method in class psidev.psi.mi.jami.factory.MIDataSourceFactory: Clear all the registered datasources from this factory
clearRegisteredDataSourceWriters() - Method in class psidev.psi.mi.jami.factory.InteractionWriterFactory: Clear all the registered writers from this factory
clearRegisteredSubComplexes() - Method in class psidev.psi.mi.jami.xml.cache.InMemoryIdentityObjectCache: This method will return all registered complexes and clear them from the index
clearRegisteredSubComplexes() - Method in class psidev.psi.mi.jami.xml.cache.InMemoryLightIdentityObjectCache: This method will return all registered complexes and clear them from the index
clearRegisteredSubComplexes() - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlObjectCache: This method will return all registered complexes and clear them from the index
close() - Method in class psidev.psi.mi.jami.bridges.mapper.listener.ProteinMappingStatisticsWriter: Close both files.
close() - Method in class psidev.psi.mi.jami.commons.OpenedInputStream: close.
close() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: close.
close() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: close.
close() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: close.
close() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: close.
close() - Method in interface psidev.psi.mi.jami.datasource.InteractionWriter: Closes the InteractionWriter.
close() - Method in interface psidev.psi.mi.jami.datasource.MIDataSource: This method close the file data source and all opened streams and readers
close() - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.EnricherStatisticsWriter: Close both files.
close() - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: close
close() - Method in class psidev.psi.mi.jami.html.MIHtmlWriter: close
close() - Method in class psidev.psi.mi.jami.json.binary.AbstractMIJsonBinaryWriter: close.
close() - Method in class psidev.psi.mi.jami.json.binary.AbstractMIJsonWriter: close.
close() - Method in class psidev.psi.mi.jami.json.binary.MIJsonBinaryWriter: close.
close() - Method in class psidev.psi.mi.jami.json.nary.AbstractMIJsonWriter: close.
close() - Method in class psidev.psi.mi.jami.json.nary.MIJsonEvidenceWriter: close.
close() - Method in class psidev.psi.mi.jami.json.nary.MIJsonWriter: close.
close() - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: close.
close() - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: close.
close() - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: close.
close() - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitab25BinaryWriter: close.
close() - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitabWriter: close.
close() - Method in class psidev.psi.mi.jami.tab.io.writer.DefaultMitabWriter: close.
close() - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25Writer: close.
close() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25BinaryWriter: close.
close() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25Writer: close.
close() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab26BinaryWriter: close.
close() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab27BinaryWriter: close.
close() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab28BinaryWriter: close.
close() - Method in class psidev.psi.mi.jami.utils.checksum.Base64.OutputStream: Flushes and closes (I think, in the superclass) the stream.
close() - Method in class psidev.psi.mi.jami.xml.cache.InMemoryIdentityObjectCache: Close cache
close() - Method in class psidev.psi.mi.jami.xml.cache.InMemoryLightIdentityObjectCache: Close cache
close() - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: Close cache
close() - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: Close cache
close() - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: Close cache
close() - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlObjectCache: Close cache
close() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractFullPsiXmlParser: close.
close() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsixmlBinaryParser: close.
close() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: close.
close() - Method in interface psidev.psi.mi.jami.xml.io.parser.FullPsiXmlParser: close.
close() - Method in class psidev.psi.mi.jami.xml.io.parser.NonCloseableInputStreamWrapper
close() - Method in interface psidev.psi.mi.jami.xml.io.parser.PsiXmlParser: close.
close() - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: close.
close() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlMixWriter: close.
close() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: close.
close() - Method in class psidev.psi.mi.jami.xml.io.writer.DefaultXmlWriter: close.
close() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlMixWriter: close.
close() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlSource: This method close the file data source and all opened streams and readers
close() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: This method close the file data source and all opened streams and readers
close() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: close.
CLOSE - Static variable in class psidev.psi.mi.jami.json.MIJsonUtils: Constant CLOSE="}"
CLOSE_ARRAY - Static variable in class psidev.psi.mi.jami.json.MIJsonUtils: Constant CLOSE_ARRAY="]"
CLOSE_PAREN - psidev.psi.mi.jami.tab.io.parser.TokenKind
CLOSE_PAREN - Static variable in interface psidev.psi.mi.jami.tab.io.parser.MitabLineParserConstants: RegularExpression Id.
CLUSTERED - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant CLUSTERED="clustered"
CLUSTERED_MI - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant CLUSTERED_MI="MI:1052"
collectAllAliasesHavingType(Collection<? extends Alias>, String, String) - Static method in class psidev.psi.mi.jami.utils.AliasUtils: Extract all the aliases having a specific type.
collectAllAliasesHavingTypeAndName(Collection<? extends Alias>, String, String, String) - Static method in class psidev.psi.mi.jami.utils.AliasUtils: Extract all the aliases having a specific type.
collectAllAnnotationsHavingTopic(Collection<? extends Annotation>, String, String) - Static method in class psidev.psi.mi.jami.utils.AnnotationUtils: Collect all annotations having a specific topic
collectAllAnnotationsHavingTopic(Collection<? extends Annotation>, String, String, String) - Static method in class psidev.psi.mi.jami.utils.AnnotationUtils: Collect all annotations having a specific topic and value
collectAllChecksumsHavingMethod(Collection<? extends Checksum>, String, String) - Static method in class psidev.psi.mi.jami.utils.ChecksumUtils: Collect all checksum having a specific method
collectAllChecksumsHavingMethodAndValue(Collection<? extends Checksum>, String, String, String) - Static method in class psidev.psi.mi.jami.utils.ChecksumUtils: Collect all checksum having a specific method
collectAllConfidencesHavingType(Collection<? extends Confidence>, String, String) - Static method in class psidev.psi.mi.jami.utils.ConfidenceUtils: Collect all confidences having a specific type
collectAllIdentifiersFrom(Collection<? extends Xref>) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: Method to return a sub collection of identifiers (qualifier identity or secondary) in a list of Xrefs
collectAllXrefsHavingDatabase(Collection<? extends Xref>, String, String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: Collect all cross references having a specific database
collectAllXrefsHavingDatabaseAndId(Collection<? extends Xref>, String, String, String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: Collect all cross references having a specific database
collectAllXrefsHavingDatabaseAndQualifier(Collection<? extends Xref>, String, String, String, String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: Collect all cross references having a specific database and qualifier
collectAllXrefsHavingDatabaseQualifierAndId(Collection<? extends Xref>, String, String, String, String, String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: Collect all cross references having a specific database and qualifier
collectAllXrefsHavingQualifier(Collection<? extends Xref>, String, String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: Collect all cross references having a specific qualifier
collectAllXrefsHavingQualifierAndId(Collection<? extends Xref>, String, String, String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: Collect all cross references having a specific qualifier
collectAndCleanUpImexPrimaryReferenceFrom(Publication) - Method in class psidev.psi.mi.jami.imex.ImexPublicationUpdater: collectAndCleanUpImexPrimaryReferenceFrom.
collectBestBaitForSpokeExpansion(Interaction) - Method in class psidev.psi.mi.jami.binary.expansion.SpokeExpansion: collectBestBaitForSpokeExpansion
collectBestBaitForSpokeExpansion(InteractionEvidence) - Method in class psidev.psi.mi.jami.binary.expansion.InteractionEvidenceSpokeExpansion: collectBestBaitForSpokeExpansion
collectBestBaitForSpokeExpansion(ModelledInteraction) - Method in class psidev.psi.mi.jami.binary.expansion.ModelledInteractionSpokeExpansion: collectBestBaitForSpokeExpansion
collectBestBaitForSpokeExpansion(T) - Method in class psidev.psi.mi.jami.binary.expansion.AbstractSpokeExpansion: collectBestBaitForSpokeExpansion
collectBestBaitParticipantForSpokeExpansion(Collection<? extends Participant>) - Static method in class psidev.psi.mi.jami.utils.ParticipantUtils: Collect the 'best bait' candidate to be used among this participants.
collectBestParticipantEvidenceAsBaitForSpokeExpansion(Collection<? extends ParticipantEvidence>) - Static method in class psidev.psi.mi.jami.utils.ParticipantUtils: Collect the 'best bait' candidate to be used among this participantEvidences.
collectBinaryInteractionsFromNary(InteractionEvidence) - Method in class psidev.psi.mi.jami.binary.expansion.InteractionEvidenceBipartiteExpansion: collectBinaryInteractionsFromNary
collectBinaryInteractionsFromNary(T) - Method in class psidev.psi.mi.jami.binary.expansion.AbstractBipartiteExpansion: collectBinaryInteractionsFromNary
collectBinaryInteractionsFromNary(T) - Method in class psidev.psi.mi.jami.binary.expansion.AbstractComplexExpansionMethod: collectBinaryInteractionsFromNary
collectBinaryInteractionsFromNary(T) - Method in class psidev.psi.mi.jami.binary.expansion.AbstractMatrixExpansion: collectBinaryInteractionsFromNary
collectBinaryInteractionsFromNary(T) - Method in class psidev.psi.mi.jami.binary.expansion.AbstractSpokeExpansion: collectBinaryInteractionsFromNary
collectComplexExpansionMethodFromAnnotations(Collection<? extends Annotation>) - Static method in class psidev.psi.mi.jami.utils.InteractionUtils: collectComplexExpansionMethodFromAnnotations
collectFirstAliasWithType(Collection<? extends Alias>, String, String) - Static method in class psidev.psi.mi.jami.utils.AliasUtils: This method will return the first Alias having this typeId/type name It will return null if there are no Alias with this type id/name
collectFirstAliasWithTypeAndName(Collection<? extends Alias>, String, String, String) - Static method in class psidev.psi.mi.jami.utils.AliasUtils: This method will return the first Alias having this typeId/type name It will return null if there are no Alias with this type id/name
collectFirstAnnotationWithTopic(Collection<? extends Annotation>, String, String) - Static method in class psidev.psi.mi.jami.utils.AnnotationUtils: This method will return the first Annotation having this topicId/topic name It will return null if there are no Annotations with this topic id/name
collectFirstAnnotationWithTopicAndValue(Collection<? extends Annotation>, String, String, String) - Static method in class psidev.psi.mi.jami.utils.AnnotationUtils: This method will return the first Annotation having this topicId/topic name It will return null if there are no Annotations with this topic id/name
collectFirstChecksumWithMethod(Collection<? extends Checksum>, String, String) - Static method in class psidev.psi.mi.jami.utils.ChecksumUtils: This method will return the first Checksum having this methodId/method name It will return null if there are no Checksums with this method id/name
collectFirstChecksumWithMethodAndValue(Collection<? extends Checksum>, String, String, String) - Static method in class psidev.psi.mi.jami.utils.ChecksumUtils: This method will return the first Checksum having this methodId/method name It will return null if there are no Checksums with this method id/name
collectFirstIdentifierWithDatabase(Collection<? extends Xref>, String, String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: This method will return the first Xref from this database having : - identity qualifier - secondary identifier if no identity qualifier - first Xref from this database if no identity or secondary qualifier It will return null if there are no Xrefs with this database id/name
collectFirstIdentifierWithDatabaseAndId(Collection<? extends Xref>, String, String, String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: This method will return the first Xref from this database having : - identity qualifier - secondary identifier if no identity qualifier - first Xref from this database if no identity or secondary qualifier It will return null if there are no Xrefs with this database id/name
collectInferredInteractionsFrom(T) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: collectInferredInteractionsFrom.
CollectionComparator<T> - Class in psidev.psi.mi.jami.utils.comparator: A comparator for collections.
CollectionComparator(Comparator<T>) - Constructor for class psidev.psi.mi.jami.utils.comparator.CollectionComparator: Creates a new CollectionComparator.
COLON - psidev.psi.mi.jami.tab.io.parser.TokenKind
COLON - Static variable in interface psidev.psi.mi.jami.tab.io.parser.MitabLineParserConstants: RegularExpression Id.
column - Variable in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream
column - Variable in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream
COLUMN_SEPARATOR - psidev.psi.mi.jami.tab.io.parser.TokenKind
COLUMN_SEPARATOR - Static variable in class psidev.psi.mi.jami.enricher.util.EnricherUtils: Constant COLUMN_SEPARATOR="\t"
COLUMN_SEPARATOR - Static variable in interface psidev.psi.mi.jami.tab.io.parser.MitabLineParserConstants: RegularExpression Id.
COLUMN_SEPARATOR - Static variable in class psidev.psi.mi.jami.tab.utils.MitabUtils: Constant COLUMN_SEPARATOR="\t"
COMMENT - psidev.psi.mi.jami.tab.io.parser.TokenKind
COMMENT - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant COMMENT="comment"
COMMENT - Static variable in interface psidev.psi.mi.jami.tab.io.parser.MitabLineParserConstants: RegularExpression Id.
COMMENT_KEY - Static variable in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Constant COMMENT_KEY="comment"
COMMENT_KEY - Static variable in class psidev.psi.mi.jami.bridges.obo.OntologyOboLoader: Constant COMMENT_KEY="comment"
COMMENT_KEY - Static variable in class psidev.psi.mi.jami.bridges.ols.utils.OlsUtils: Constant COMMENT_KEY="comment"
COMMENT_MI - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant COMMENT_MI="MI:0612"
COMMENT_PREFIX - Static variable in class psidev.psi.mi.jami.tab.utils.MitabUtils: Constant COMMENT_PREFIX="#"
CommonUtils - Class in psidev.psi.mi.jami.utils
CommonUtils() - Constructor for class psidev.psi.mi.jami.utils.CommonUtils
compact - psidev.psi.mi.jami.xml.PsiXmlType
COMPACT_XML_AVAILABILITY_SET_OPTION - Static variable in class psidev.psi.mi.jami.xml.model.extension.factory.options.PsiXmlWriterOptions: The option to provide a set of String that will be used to list all unique availabilities in a compact xml file..
COMPACT_XML_EXPERIMENT_SET_OPTION - Static variable in class psidev.psi.mi.jami.xml.model.extension.factory.options.PsiXmlWriterOptions: The option to provide a set of experiment that will be used to list all unique experiments in a compact xml file..
COMPACT_XML_INTERACTOR_SET_OPTION - Static variable in class psidev.psi.mi.jami.xml.model.extension.factory.options.PsiXmlWriterOptions: The option to provide a set of interactors that will be used to list all unique interactors in a compact xml file..
CompactPsiXmlElementWriter<T> - Interface in psidev.psi.mi.jami.xml.io.writer.elements: Interface for a compact XML element writer.
CompactXmlBinaryEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.compact: Compact PSI-XML writer for binary interaction evidences (full experimental evidences)
CompactXmlBinaryEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.compact.extended: Compact PSI-XML writer for expanded binary interaction evidences (full experimental evidences)
CompactXmlBinaryEvidenceWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlBinaryEvidenceWriter: Constructor for CompactXmlBinaryEvidenceWriter.
CompactXmlBinaryEvidenceWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlBinaryEvidenceWriter: Constructor for CompactXmlBinaryEvidenceWriter.
CompactXmlBinaryEvidenceWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlBinaryEvidenceWriter: Constructor for CompactXmlBinaryEvidenceWriter.
CompactXmlBinaryEvidenceWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlBinaryEvidenceWriter: Constructor for CompactXmlBinaryEvidenceWriter.
CompactXmlBinaryEvidenceWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlBinaryEvidenceWriter: Constructor for CompactXmlBinaryEvidenceWriter.
CompactXmlBinaryEvidenceWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlBinaryEvidenceWriter: Constructor for CompactXmlBinaryEvidenceWriter.
CompactXmlBinaryEvidenceWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlBinaryEvidenceWriter: Constructor for CompactXmlBinaryEvidenceWriter.
CompactXmlBinaryEvidenceWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlBinaryEvidenceWriter: Constructor for CompactXmlBinaryEvidenceWriter.
CompactXmlBinaryEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlBinaryEvidenceWriter: Constructor for CompactXmlBinaryEvidenceWriter.
CompactXmlBinaryEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlBinaryEvidenceWriter: Constructor for CompactXmlBinaryEvidenceWriter.
CompactXmlBinaryWriter - Class in psidev.psi.mi.jami.xml.io.writer.compact: Compact PSI-XML writer for a mix of binary interactions
CompactXmlBinaryWriter - Class in psidev.psi.mi.jami.xml.io.writer.compact.extended: Compact PSI-XML writer for a mix of expanded binary interactions
CompactXmlBinaryWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlBinaryWriter: Constructor for CompactXmlBinaryWriter.
CompactXmlBinaryWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlBinaryWriter: Constructor for CompactXmlBinaryWriter.
CompactXmlBinaryWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlBinaryWriter: Constructor for CompactXmlBinaryWriter.
CompactXmlBinaryWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlBinaryWriter: Constructor for CompactXmlBinaryWriter.
CompactXmlBinaryWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlBinaryWriter: Constructor for CompactXmlBinaryWriter.
CompactXmlBinaryWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlBinaryWriter: Constructor for CompactXmlBinaryWriter.
CompactXmlBinaryWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlBinaryWriter: Constructor for CompactXmlBinaryWriter.
CompactXmlBinaryWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlBinaryWriter: Constructor for CompactXmlBinaryWriter.
CompactXmlComplexWriter - Class in psidev.psi.mi.jami.xml.io.writer.compact: Compact PSI-XML writer for named biological complexes (no experimental evidences).
CompactXmlComplexWriter - Class in psidev.psi.mi.jami.xml.io.writer.compact.extended: Compact PSI-XML writer for biological complexes (no experimental evidences)
CompactXmlComplexWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlComplexWriter: Constructor for CompactXmlComplexWriter.
CompactXmlComplexWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlComplexWriter: Constructor for CompactXmlComplexWriter.
CompactXmlComplexWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlComplexWriter: Constructor for CompactXmlComplexWriter.
CompactXmlComplexWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlComplexWriter: Constructor for CompactXmlComplexWriter.
CompactXmlComplexWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlComplexWriter: Constructor for CompactXmlComplexWriter.
CompactXmlComplexWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlComplexWriter: Constructor for CompactXmlComplexWriter.
CompactXmlComplexWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlComplexWriter: Constructor for CompactXmlComplexWriter.
CompactXmlComplexWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlComplexWriter: Constructor for CompactXmlComplexWriter.
CompactXmlComplexWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlComplexWriter: Constructor for CompactXmlComplexWriter.
CompactXmlComplexWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlComplexWriter: Constructor for CompactXmlComplexWriter.
CompactXmlEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.compact: Compact PSI-XML writer for interaction evidences (full experimental evidences)
CompactXmlEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.compact.extended: Compact PSI-XML writer for expanded interaction evidences (full experimental evidences)
CompactXmlEvidenceWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlEvidenceWriter: Constructor for CompactXmlEvidenceWriter.
CompactXmlEvidenceWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlEvidenceWriter: Constructor for CompactXmlEvidenceWriter.
CompactXmlEvidenceWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlEvidenceWriter: Constructor for CompactXmlEvidenceWriter.
CompactXmlEvidenceWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlEvidenceWriter: Constructor for CompactXmlEvidenceWriter.
CompactXmlEvidenceWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlEvidenceWriter: Constructor for CompactXmlEvidenceWriter.
CompactXmlEvidenceWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlEvidenceWriter: Constructor for CompactXmlEvidenceWriter.
CompactXmlEvidenceWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlEvidenceWriter: Constructor for CompactXmlEvidenceWriter.
CompactXmlEvidenceWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlEvidenceWriter: Constructor for CompactXmlEvidenceWriter.
CompactXmlEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlEvidenceWriter: Constructor for CompactXmlEvidenceWriter.
CompactXmlEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlEvidenceWriter: Constructor for CompactXmlEvidenceWriter.
CompactXmlModelledBinaryWriter - Class in psidev.psi.mi.jami.xml.io.writer.compact: Compact PSI-XML writer for modelled binary interactions (no experimental evidences)
CompactXmlModelledBinaryWriter - Class in psidev.psi.mi.jami.xml.io.writer.compact.extended: Compact PSI-XML writer for modelled binary interactions (no experimental evidences)
CompactXmlModelledBinaryWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlModelledBinaryWriter: Constructor for CompactXmlModelledBinaryWriter.
CompactXmlModelledBinaryWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlModelledBinaryWriter: Constructor for CompactXmlModelledBinaryWriter.
CompactXmlModelledBinaryWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlModelledBinaryWriter: Constructor for CompactXmlModelledBinaryWriter.
CompactXmlModelledBinaryWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlModelledBinaryWriter: Constructor for CompactXmlModelledBinaryWriter.
CompactXmlModelledBinaryWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlModelledBinaryWriter: Constructor for CompactXmlModelledBinaryWriter.
CompactXmlModelledBinaryWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlModelledBinaryWriter: Constructor for CompactXmlModelledBinaryWriter.
CompactXmlModelledBinaryWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlModelledBinaryWriter: Constructor for CompactXmlModelledBinaryWriter.
CompactXmlModelledBinaryWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlModelledBinaryWriter: Constructor for CompactXmlModelledBinaryWriter.
CompactXmlModelledBinaryWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlModelledBinaryWriter: Constructor for CompactXmlModelledBinaryWriter.
CompactXmlModelledBinaryWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlModelledBinaryWriter: Constructor for CompactXmlModelledBinaryWriter.
CompactXmlModelledWriter - Class in psidev.psi.mi.jami.xml.io.writer.compact: Compact PSI-XML writer for abstract interactions (no experimental evidences)
CompactXmlModelledWriter - Class in psidev.psi.mi.jami.xml.io.writer.compact.extended: Compact PSI-XML writer for abstract interactions (no experimental evidences)
CompactXmlModelledWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlModelledWriter: Constructor for CompactXmlModelledWriter.
CompactXmlModelledWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlModelledWriter: Constructor for CompactXmlModelledWriter.
CompactXmlModelledWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlModelledWriter: Constructor for CompactXmlModelledWriter.
CompactXmlModelledWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlModelledWriter: Constructor for CompactXmlModelledWriter.
CompactXmlModelledWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlModelledWriter: Constructor for CompactXmlModelledWriter.
CompactXmlModelledWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlModelledWriter: Constructor for CompactXmlModelledWriter.
CompactXmlModelledWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlModelledWriter: Constructor for CompactXmlModelledWriter.
CompactXmlModelledWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlModelledWriter: Constructor for CompactXmlModelledWriter.
CompactXmlModelledWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlModelledWriter: Constructor for CompactXmlModelledWriter.
CompactXmlModelledWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlModelledWriter: Constructor for CompactXmlModelledWriter.
CompactXmlNamedBinaryEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.compact: Compact PSI-XML writer for named binary interaction evidences (full experimental evidences) Participants, features and experiments also have expanded names to write
CompactXmlNamedBinaryEvidenceWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedBinaryEvidenceWriter: Constructor for CompactXmlNamedBinaryEvidenceWriter.
CompactXmlNamedBinaryEvidenceWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedBinaryEvidenceWriter: Constructor for CompactXmlNamedBinaryEvidenceWriter.
CompactXmlNamedBinaryEvidenceWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedBinaryEvidenceWriter: Constructor for CompactXmlNamedBinaryEvidenceWriter.
CompactXmlNamedBinaryEvidenceWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedBinaryEvidenceWriter: Constructor for CompactXmlNamedBinaryEvidenceWriter.
CompactXmlNamedBinaryEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedBinaryEvidenceWriter: Constructor for CompactXmlNamedBinaryEvidenceWriter.
CompactXmlNamedBinaryWriter - Class in psidev.psi.mi.jami.xml.io.writer.compact: Compact PSI-XML writer for a mix of named binary interactions
CompactXmlNamedBinaryWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedBinaryWriter: Constructor for CompactXmlNamedBinaryWriter.
CompactXmlNamedBinaryWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedBinaryWriter: Constructor for CompactXmlNamedBinaryWriter.
CompactXmlNamedBinaryWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedBinaryWriter: Constructor for CompactXmlNamedBinaryWriter.
CompactXmlNamedBinaryWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedBinaryWriter: Constructor for CompactXmlNamedBinaryWriter.
CompactXmlNamedEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.compact: Compact PSI-XML writer for named interaction evidences (full experimental evidences) Participants, features and experiments also have expanded names to write
CompactXmlNamedEvidenceWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedEvidenceWriter: Constructor for CompactXmlNamedEvidenceWriter.
CompactXmlNamedEvidenceWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedEvidenceWriter: Constructor for CompactXmlNamedEvidenceWriter.
CompactXmlNamedEvidenceWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedEvidenceWriter: Constructor for CompactXmlNamedEvidenceWriter.
CompactXmlNamedEvidenceWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedEvidenceWriter: Constructor for CompactXmlNamedEvidenceWriter.
CompactXmlNamedEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedEvidenceWriter: Constructor for CompactXmlNamedEvidenceWriter.
CompactXmlNamedModelledBinaryWriter - Class in psidev.psi.mi.jami.xml.io.writer.compact: Compact PSI-XML writer for named modelled binary interactions (no experimental evidences).
CompactXmlNamedModelledBinaryWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedModelledBinaryWriter: Constructor for CompactXmlNamedModelledBinaryWriter.
CompactXmlNamedModelledBinaryWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedModelledBinaryWriter: Constructor for CompactXmlNamedModelledBinaryWriter.
CompactXmlNamedModelledBinaryWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedModelledBinaryWriter: Constructor for CompactXmlNamedModelledBinaryWriter.
CompactXmlNamedModelledBinaryWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedModelledBinaryWriter: Constructor for CompactXmlNamedModelledBinaryWriter.
CompactXmlNamedModelledBinaryWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedModelledBinaryWriter: Constructor for CompactXmlNamedModelledBinaryWriter.
CompactXmlNamedModelledWriter - Class in psidev.psi.mi.jami.xml.io.writer.compact: Compact PSI-XML writer for named abstract interactions (no experimental evidences).
CompactXmlNamedModelledWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedModelledWriter: Constructor for CompactXmlNamedModelledWriter.
CompactXmlNamedModelledWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedModelledWriter: Constructor for CompactXmlNamedModelledWriter.
CompactXmlNamedModelledWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedModelledWriter: Constructor for CompactXmlNamedModelledWriter.
CompactXmlNamedModelledWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedModelledWriter: Constructor for CompactXmlNamedModelledWriter.
CompactXmlNamedModelledWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedModelledWriter: Constructor for CompactXmlNamedModelledWriter.
CompactXmlNamedWriter - Class in psidev.psi.mi.jami.xml.io.writer.compact: Compact PSI-XML writer for a mix of named interactions
CompactXmlNamedWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedWriter: Constructor for CompactXmlNamedWriter.
CompactXmlNamedWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedWriter: Constructor for CompactXmlNamedWriter.
CompactXmlNamedWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedWriter: Constructor for CompactXmlNamedWriter.
CompactXmlNamedWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedWriter: Constructor for CompactXmlNamedWriter.
CompactXmlWriter - Class in psidev.psi.mi.jami.xml.io.writer.compact: Compact PSI-XML writer for a mix of interactions
CompactXmlWriter - Class in psidev.psi.mi.jami.xml.io.writer.compact.extended: Compact PSI-XML writer for a mix of interactions
CompactXmlWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlWriter: Constructor for CompactXmlWriter.
CompactXmlWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlWriter: Constructor for CompactXmlWriter.
CompactXmlWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlWriter: Constructor for CompactXmlWriter.
CompactXmlWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlWriter: Constructor for CompactXmlWriter.
CompactXmlWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlWriter: Constructor for CompactXmlWriter.
CompactXmlWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlWriter: Constructor for CompactXmlWriter.
CompactXmlWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlWriter: Constructor for CompactXmlWriter.
CompactXmlWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlWriter: Constructor for CompactXmlWriter.
ComparatorUtils - Class in psidev.psi.mi.jami.utils.comparator: Utility class for Comparator
ComparatorUtils() - Constructor for class psidev.psi.mi.jami.utils.comparator.ComparatorUtils
compare(Integer, Integer) - Method in class psidev.psi.mi.jami.utils.comparator.IntegerComparator: compare
compare(Collection<? extends T>, Collection<? extends T>) - Method in class psidev.psi.mi.jami.utils.comparator.CollectionComparator: Two collections are equals if they have the same content and the same size.
compare(Alias, Alias) - Method in class psidev.psi.mi.jami.utils.comparator.alias.AliasComparator: It will first compare alias types and then alias names (case sensitive) - Two aliases which are null are equals - The alias which is not null is before null.
compare(Alias, Alias) - Method in class psidev.psi.mi.jami.utils.comparator.alias.UnambiguousAliasComparator: It will first compare alias types and then alias names (case sensitive) - Two aliases which are null are equals - The alias which is not null is before null.
compare(Allostery, Allostery) - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.AllosteryComparator: It will first compare basic cooperative effect properties using CooperativeEffectBaseComparator.
compare(Allostery, Allostery) - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousAllosteryComparator: It will first compare basic cooperative effect properties using CooperativeEffectBaseComparator.
compare(Allostery, Allostery) - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousExactAllosteryComparator: It will first compare basic cooperative effect properties using CooperativeEffectBaseComparator.
compare(Annotation, Annotation) - Method in class psidev.psi.mi.jami.utils.comparator.annotation.AnnotationComparator: It compares first the topics and then the value (case insensitive) - Two annotations which are null are equals - The annotation which is not null is before null.
compare(Annotation, Annotation) - Method in class psidev.psi.mi.jami.utils.comparator.annotation.UnambiguousAnnotationComparator: It compares first the topics and then the value (case insensitive) - Two annotations which are null are equals - The annotation which is not null is before null.
compare(BioactiveEntity, BioactiveEntity) - Method in class psidev.psi.mi.jami.utils.comparator.interactor.BioactiveEntityComparator: It will first use UnambiguousInteractorBaseComparator to compare the basic interactor properties.
compare(BioactiveEntity, BioactiveEntity) - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactBioactiveEntityComparator
compare(CausalRelationship, CausalRelationship) - Method in class psidev.psi.mi.jami.utils.comparator.participant.CausalRelationshipComparator: It will first compare the relationType using AbstractCvTermComparator.
compare(CausalRelationship, CausalRelationship) - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousCausalRelationshipComparator: It will first compare the relationType using UnambiguousCvTermComparator.
compare(CausalRelationship, CausalRelationship) - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactCausalRelationshipComparator: It will first compare the relationType using UnambiguousCvTermComparator.
compare(Checksum, Checksum) - Method in class psidev.psi.mi.jami.utils.comparator.checksum.ChecksumComparator: It will first compares the method using a CvTermComparator and then it will compare the checksum values - Two annotations which are null are equals - The annotation which is not null is before null.
compare(Checksum, Checksum) - Method in class psidev.psi.mi.jami.utils.comparator.checksum.UnambiguousChecksumComparator: It will first compares the method using a UnambiguousCvTermComparator and then it will compare the checksum values - Two annotations which are null are equals - The annotation which is not null is before null.
compare(Complex, Complex) - Method in class psidev.psi.mi.jami.utils.comparator.interactor.ComplexComparator: It will first look at the default properties of an interactor using AbstractInteractorBaseComparator.
compare(Complex, Complex) - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousComplexComparator: It will first look at the default properties of an interactor using AbstractInteractorBaseComparator.
compare(Complex, Complex) - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactComplexComparator
compare(Confidence, Confidence) - Method in class psidev.psi.mi.jami.utils.comparator.confidence.ConfidenceComparator: It will compares the confidence types first, then the units and finally the value.
compare(Confidence, Confidence) - Method in class psidev.psi.mi.jami.utils.comparator.confidence.UnambiguousConfidenceComparator: It will compares the confidence types first, then the units and finally the value.
compare(CooperativeEffect, CooperativeEffect) - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.CooperativeEffectBaseComparator: It will first compare the outcome using AbstractCvTermComparator.
compare(CooperativeEffect, CooperativeEffect) - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.CooperativeEffectComparator: Allostery effects will always come before basic cooperative effects (preassembly) - It will use AllosteryComparator to compare allostery - It will use CooperativeEffectBaseComparator to compare basic cooperative effects
compare(CooperativeEffect, CooperativeEffect) - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousCooperativeEffectBaseComparator: It will first compare the outcome using UnambiguousCvTermComparator.
compare(CooperativeEffect, CooperativeEffect) - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousCooperativeEffectComparator: Allostery effects will always come before basic cooperative effects (preassembly) - It will use DefaultExactAllosteryComparator to compare allostery - It will use DefaultExactCooperativeEffectBaseComparator to compare basic cooperative effects
compare(CooperativeEffect, CooperativeEffect) - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousExactCooperativeEffectBaseComparator: It will first compare the outcome using UnambiguousCvTermComparator.
compare(CooperativeEffect, CooperativeEffect) - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousExactCooperativeEffectComparator: Allostery effects will always come before basic cooperative effects (preassembly) - It will use DefaultExactAllosteryComparator to compare allostery - It will use DefaultExactCooperativeEffectBaseComparator to compare basic cooperative effects
compare(CooperativityEvidence, CooperativityEvidence) - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.CooperativityEvidenceComparator: It will first compare the publications using AbstractPublicationComparator and then the evidenceMethods using AbstractCvTermComparator
compare(CooperativityEvidence, CooperativityEvidence) - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousCooperativityEvidenceComparator: It will first compare the publications using DefaultPublicationComparator and then the evidenceMethods using DefaultCvTermComparator
compare(CvTerm, CvTerm) - Method in class psidev.psi.mi.jami.utils.comparator.cv.CvTermComparator: If one CvTerm does not have any identifiers, it will only compare the short names (case insensitive).
compare(CvTerm, CvTerm) - Method in class psidev.psi.mi.jami.utils.comparator.cv.CvTermIdentifierComparator: If one CvTerm does not have any identifiers, it will only compare the short names (case insensitive).
compare(CvTerm, CvTerm) - Method in class psidev.psi.mi.jami.utils.comparator.cv.CvTermNameComparator: Only compares the shortname of two cv terms.
compare(Entity, Entity) - Method in class psidev.psi.mi.jami.utils.comparator.participant.EntityBaseComparator: It will first compare the interactors using InteractorComparator.
compare(Entity, Entity) - Method in class psidev.psi.mi.jami.utils.comparator.participant.EntityComparator: Modelled participants come first and then experimental participants.
compare(Entity, Entity) - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousEntityBaseComparator: It will first compare the interactors using UnambiguousInteractorComparator.
compare(Entity, Entity) - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousEntityComparator: Modelled participants come first and then experimental participants.
compare(Entity, Entity) - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactEntityBaseComparator: It will first compare the interactors using UnambiguousExactInteractorComparator.
compare(Entity, Entity) - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactEntityComparator
compare(Entity, Entity) - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantInteractorComparator: It will compare the interactors using InteractorComparator.
compare(Entity, Entity) - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousParticipantInteractorComparator: It will compare the interactors using UnambiguousInteractorComparator.
compare(ExperimentalEntity, ExperimentalEntity) - Method in class psidev.psi.mi.jami.utils.comparator.participant.ExperimentalEntityComparator: It will compare the basic properties of an experimental entity using EntityBaseComparator and FeatureEvidenceComparator.
compare(ExperimentalEntity, ExperimentalEntity) - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactExperimentalEntityComparator
compare(ExperimentalEntity, ExperimentalEntity) - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantEvidenceInteractorComparator: It will compare the basic properties of an interactor using UnambiguousInteractorComparator.
compare(ExperimentalEntity, ExperimentalEntity) - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExperimentalEntityComparator
compare(ExperimentalEntity, ExperimentalEntity) - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousParticipantEvidenceInteractorComparator: It will compare the interactors using InteractorComparator.
compare(ExperimentalParticipantPool, ExperimentalParticipantPool) - Method in class psidev.psi.mi.jami.utils.comparator.participant.ExperimentalParticipantPoolComparator: It will first compares experimental roles using AbstractCvTermComparator.
compare(ExperimentalParticipantPool, ExperimentalParticipantPool) - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactExperimentalParticipantPoolComparator: It will first compares experimental roles using UnambiguousCvTermComparator.
compare(ExperimentalParticipantPool, ExperimentalParticipantPool) - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExperimentalParticipantPoolComparator: It will first compares experimental roles using UnambiguousCvTermComparator.
compare(Experiment, Experiment) - Method in class psidev.psi.mi.jami.utils.comparator.experiment.ExperimentComparator: It will look first at the publications using a AbstractPublicationComparator.
compare(Experiment, Experiment) - Method in class psidev.psi.mi.jami.utils.comparator.experiment.UnambiguousCuratedExperimentComparator
compare(Experiment, Experiment) - Method in class psidev.psi.mi.jami.utils.comparator.experiment.UnambiguousExperimentComparator
compare(FeatureEvidence, FeatureEvidence) - Method in class psidev.psi.mi.jami.utils.comparator.feature.FeatureEvidenceComparator: It will first use a AbstractFeatureBaseComparator to compare basic properties of a feature.
compare(FeatureEvidence, FeatureEvidence) - Method in class psidev.psi.mi.jami.utils.comparator.feature.UnambiguousFeatureEvidenceComparator: It will first compare feature detection methods using UnambiguousCvTermComparator.
compare(FeatureModificationEffector, FeatureModificationEffector) - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.FeatureModificationEffectorComparator: compare
compare(FeatureModificationEffector, FeatureModificationEffector) - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousFeatureModificationEffectorComparator: It will use a UnambiguousModelledFeaturecomparator to compare the feature.
compare(Feature, Feature) - Method in class psidev.psi.mi.jami.utils.comparator.feature.FeatureBaseComparator: It will look first at the feature shortnames (case insensitive).
compare(Feature, Feature) - Method in class psidev.psi.mi.jami.utils.comparator.feature.FeatureComparator: Biological features come first and then experimental features.
compare(Feature, Feature) - Method in class psidev.psi.mi.jami.utils.comparator.feature.UnambiguousFeatureComparator: Biological features come first and then experimental features.
compare(Gene, Gene) - Method in class psidev.psi.mi.jami.utils.comparator.interactor.GeneComparator: It will first use UnambiguousInteractorBaseComparator to compare the basic interactor properties If the basic interactor properties are the same, It will look at ensembl identifier (the interactor with non null ensembl identifier will always come first).
compare(Gene, Gene) - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactGeneComparator: It will first use UnambiguousExactInteractorBaseComparator to compare the basic interactor properties If the basic interactor properties are the same, It will look at ensembl identifier if both are set.
compare(InteractionEvidence, InteractionEvidence) - Method in class psidev.psi.mi.jami.utils.comparator.interaction.InteractionEvidenceComparator: It will first compare the basic interaction properties using Comparator of type Interaction.
compare(InteractionEvidence, InteractionEvidence) - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousCuratedInteractionEvidenceComparator: It will first compare the basic interaction properties using UnambiguousCuratedInteractionBaseComparator.
compare(InteractionEvidence, InteractionEvidence) - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactCuratedInteractionEvidenceComparator: It will first compare the basic interaction properties using UnambiguousCuratedInteractionBaseComparator.
compare(InteractionEvidence, InteractionEvidence) - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactInteractionEvidenceComparator: It will first compare the basic interaction properties using UnambiguousInteractionBaseComparator.
compare(InteractionEvidence, InteractionEvidence) - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousInteractionEvidenceComparator: It will first compare the basic interaction properties using UnambiguousInteractionBaseComparator.
compare(Interaction, Interaction) - Method in class psidev.psi.mi.jami.utils.comparator.interaction.CuratedInteractionBaseComparator: It will first compare the basic properties of an interaction using AbstractInteractionBaseComparator.
compare(Interaction, Interaction) - Method in class psidev.psi.mi.jami.utils.comparator.interaction.InteractionBaseComparator: It will first compare the interaction types using UnambiguousCvTermComparator.
compare(Interaction, Interaction) - Method in class psidev.psi.mi.jami.utils.comparator.interaction.InteractionComparator: Modelled interactions come first, then experimental interactions.
compare(Interaction, Interaction) - Method in class psidev.psi.mi.jami.utils.comparator.interaction.InteractionInteractorComparator: It will use a ParticipantInteractorComparator comparator for comparing the participants involved in the interaction.
compare(Interaction, Interaction) - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousCuratedInteractionBaseComparator: It will first compare the basic properties of an interaction using AbstractInteractionBaseComparator.
compare(Interaction, Interaction) - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousCuratedInteractionComparator: Experimental interactions come first, then allosteric interactions, then cooperative interactions, then modelled interactions.
compare(Interaction, Interaction) - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactCuratedInteractionComparator: Modelled interactions come first and then experimental interactions - It uses UnambiguousExactCuratedInteractionEvidenceComparator to compare experimental interactions - It uses UnambiguousExactCuratedModelledInteractionComparator to compare modelled interactions - It uses UnambiguousCuratedInteractionBaseComparator to compare basic interaction properties
compare(Interaction, Interaction) - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactInteractionComparator: Modelled interactions come first and then experimental interactions - It uses UnambiguousExactInteractionEvidenceComparator to compare experimental interactions - It uses UnambiguousExactModelledInteractionComparator to compare modelled interactions - It uses UnambiguousInteractionBaseComparator to compare basic interaction properties
compare(Interaction, Interaction) - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactInteractionInteractorComparator
compare(Interaction, Interaction) - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousInteractionComparator: Modelled interactions come first, then experimental interactions.
compare(Interaction, Interaction) - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousInteractionInteractorComparator
compare(InteractorPool, InteractorPool) - Method in class psidev.psi.mi.jami.utils.comparator.interactor.InteractorPoolComparator: It will first compare the collection of Interactors using InteractorComparator
compare(InteractorPool, InteractorPool) - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactInteractorPoolComparator
compare(InteractorPool, InteractorPool) - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousInteractorPoolComparator
compare(Interactor, Interactor) - Method in class psidev.psi.mi.jami.utils.comparator.interactor.ExactInteractorBaseComparator: It will first compare the interactor types using UnambiguousCvTermComparator.
compare(Interactor, Interactor) - Method in class psidev.psi.mi.jami.utils.comparator.interactor.InteractorBaseComparator: It will only compare identifiers if one interactor does have identifiers using UnambiguousIdentifierComparator.
compare(Interactor, Interactor) - Method in class psidev.psi.mi.jami.utils.comparator.interactor.InteractorComparator: Bioactive entities come first, then proteins, then genes, then nucleic acids, then complexes and finally InteractorPool.
compare(Interactor, Interactor) - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactInteractorComparator
compare(Interactor, Interactor) - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousInteractorComparator: Bioactive entities come first, then proteins, then genes, then nucleic acids, then complexes and finally InteractorPool.
compare(ModelledComparableParticipant, ModelledComparableParticipant) - Method in class psidev.psi.mi.jami.utils.comparator.participant.ModelledComparableParticipantComparator
compare(ModelledEntity, ModelledEntity) - Method in class psidev.psi.mi.jami.utils.comparator.participant.ModelledEntityComparator: It will compare the basic properties of a biological participant using ParticipantInteractorComparator.
compare(ModelledEntity, ModelledEntity) - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactModelledEntityComparator: It will compare the basic properties of a component using UnambiguousExactParticipantBaseComparator.
compare(ModelledEntity, ModelledEntity) - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactModelledParticipantInteractorComparator: It will compare the basic properties of an interactor using UnambiguousInteractorComparator.
compare(ModelledEntity, ModelledEntity) - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousModelledEntityComparator: It will compare the basic properties of a biological participant using ParticipantInteractorComparator.
compare(ModelledEntity, ModelledEntity) - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousModelledParticipantInteractorComparator: It will compare the basic properties of an interactor using UnambiguousInteractorComparator.
compare(ModelledFeature, ModelledFeature) - Method in class psidev.psi.mi.jami.utils.comparator.feature.ModelledFeatureComparator: It will use a AbstractFeatureBaseComparator to compare basic properties of a feature.
compare(ModelledFeature, ModelledFeature) - Method in class psidev.psi.mi.jami.utils.comparator.feature.UnambiguousModelledFeaturecomparator: It will use a AbstractFeatureBaseComparator to compare basic properties of a feature.
compare(ModelledInteraction, ModelledInteraction) - Method in class psidev.psi.mi.jami.utils.comparator.interaction.CuratedModelledInteractionComparator: It will use a Comparator of type Interaction to compare basic interaction properties.
compare(ModelledInteraction, ModelledInteraction) - Method in class psidev.psi.mi.jami.utils.comparator.interaction.ModelledInteractionComparator: It will use a Comparator of type Interaction to compare basic interaction properties.
compare(ModelledInteraction, ModelledInteraction) - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousCuratedModelledInteractionComparator: It will use a UnambiguousCuratedInteractionBase to compare basic interaction properties.
compare(ModelledInteraction, ModelledInteraction) - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactCuratedModelledInteractionComparator: It will use a UnambiguousCuratedInteractionBase to compare basic interaction properties.
compare(ModelledInteraction, ModelledInteraction) - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactModelledInteractionComparator
compare(ModelledInteraction, ModelledInteraction) - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousModelledInteractionComparator
compare(ModelledParticipantPool, ModelledParticipantPool) - Method in class psidev.psi.mi.jami.utils.comparator.participant.ModelledParticipantPoolComparator: It will compare the basic properties of a biological participant pool using ParticipantBaseComparator.
compare(ModelledParticipantPool, ModelledParticipantPool) - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactModelledParticipantPoolComparator: It will compare the basic properties of a biological participant pool using ParticipantBaseComparator.
compare(ModelledParticipantPool, ModelledParticipantPool) - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousModelledParticipantPoolComparator: It will compare the basic properties of a biological participant pool using ParticipantBaseComparator.
compare(ModelledParticipant, ModelledParticipant) - Method in class psidev.psi.mi.jami.utils.comparator.participant.ModelledParticipantComparator: It will compare the basic properties of a biological participant using ParticipantBaseComparator.
compare(ModelledParticipant, ModelledParticipant) - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactModelledParticipantComparator: It will compare the basic properties of a component using UnambiguousExactParticipantBaseComparator.
compare(ModelledParticipant, ModelledParticipant) - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousModelledParticipantComparator: It will compare the basic properties of a biological participant using UnambiguousParticipantBaseComparator.
compare(MoleculeEffector, MoleculeEffector) - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.MoleculeEffectorComparator: It is using a ModelledEntityComparator to compare the molecule
compare(MoleculeEffector, MoleculeEffector) - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousExactMoleculeEffectorComparator: It is using a UnambiguousExactModelledEntityComparator to compare the molecule
compare(MoleculeEffector, MoleculeEffector) - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousMoleculeEffectorComparator: It is using a UnambiguousModelledParticipantComparator to compare the molecule
compare(NucleicAcid, NucleicAcid) - Method in class psidev.psi.mi.jami.utils.comparator.interactor.NucleicAcidComparator: It will first use UnambiguousPolymerComparator to compare the basic interactor properties.
compare(NucleicAcid, NucleicAcid) - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactNucleicAcidComparator
compare(Organism, Organism) - Method in class psidev.psi.mi.jami.utils.comparator.organism.OrganismComparator: It will first look at the taxids.
compare(Organism, Organism) - Method in class psidev.psi.mi.jami.utils.comparator.organism.OrganismTaxIdComparator: Comparison is based on taxIds only.
compare(Organism, Organism) - Method in class psidev.psi.mi.jami.utils.comparator.organism.UnambiguousOrganismComparator: It will first look at the taxids.
compare(Parameter, Parameter) - Method in class psidev.psi.mi.jami.utils.comparator.parameter.ParameterComparator: It first compares parameter types, then parameter units and then it uses ParameterValueComparator for comparing parameter values It will also compare the uncertainty.
compare(Parameter, Parameter) - Method in class psidev.psi.mi.jami.utils.comparator.parameter.UnambiguousParameterComparator: It first compares parameter types, then parameter units and then it uses ParameterValueComparator for comparing parameter values It will also compare the uncertainty.
compare(ParameterValue, ParameterValue) - Method in class psidev.psi.mi.jami.utils.comparator.parameter.ParameterValueComparator: It compares the BigDecimal value of factor.multiply(BigDecimal.valueOf(base^exponent)) If both values are null, they are equals.
compare(ParticipantEvidence, ParticipantEvidence) - Method in class psidev.psi.mi.jami.utils.comparator.participant.ParticipantEvidenceComparator: It will first compares experimental roles using AbstractCvTermComparator.
compare(ParticipantEvidence, ParticipantEvidence) - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantEvidenceComparator: It will first compares experimental roles using UnambiguousCvTermComparator.
compare(ParticipantEvidence, ParticipantEvidence) - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousParticipantEvidenceComparator
compare(ParticipantPool, ParticipantPool) - Method in class psidev.psi.mi.jami.utils.comparator.participant.ParticipantPoolComparator: It will first compares basic participant properties using ParticipantBaseComparator, then it will compare participant pool type using cv term comparator and then it will compare each participant candidate using EntityBaseComparator
compare(ParticipantPool, ParticipantPool) - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantPoolComparator: It will first compares basic participant properties using UnambiguousExactParticipantBaseComparator, then it will compare participant pool type using cv term comparator and then it will compare each participant candidate using UnambiguousExactEntityBaseComparator
compare(ParticipantPool, ParticipantPool) - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousParticipantPoolComparator: It will first compares basic participant properties using ParticipantBaseComparator, then it will compare participant pool type using cv term comparator and then it will compare each participant candidate using EntityBaseComparator
compare(Participant, Participant) - Method in class psidev.psi.mi.jami.utils.comparator.participant.ParticipantBaseComparator: It will first compare the interactors using InteractorComparator.
compare(Participant, Participant) - Method in class psidev.psi.mi.jami.utils.comparator.participant.ParticipantComparator: Modelled participants come first and then experimental participants.
compare(Participant, Participant) - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantBaseComparator: It will first compare the interactors using UnambiguousExactEntityBaseComparator.
compare(Participant, Participant) - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantComparator: Modelled participants come first and then experimental participants.
compare(Participant, Participant) - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousParticipantBaseComparator: It will first compare the interactors and stoichiometry using UnambiguousEntityComparator.
compare(Participant, Participant) - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousParticipantComparator: Modelled participants come first and then experimental participants.
compare(Polymer, Polymer) - Method in class psidev.psi.mi.jami.utils.comparator.interactor.PolymerComparator: It will first use DefaultExactInteractorBaseComparator to compare the basic interactor properties If the basic interactor properties are the same, it will look at sequence/organism.
compare(Polymer, Polymer) - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactPolymerComparator
compare(Position, Position) - Method in class psidev.psi.mi.jami.utils.comparator.range.PositionComparator: It will first compare the status and then will check if the position is undetermined.
compare(Position, Position) - Method in class psidev.psi.mi.jami.utils.comparator.range.UnambiguousPositionComparator: It will first compare the status and then will check if the position is undetermined.
compare(Protein, Protein) - Method in class psidev.psi.mi.jami.utils.comparator.interactor.ProteinComparator: It will first use UnambiguousPolymerComparator to compare the basic interactor properties If the basic interactor properties are the same, It will look for uniprotkb identifier (The interactor with non null uniprot id will always come first).
compare(Protein, Protein) - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactProteinComparator
compare(Publication, Publication) - Method in class psidev.psi.mi.jami.utils.comparator.publication.CuratedPublicationComparator: It uses a AbstractPublicationComparator to compares the bibliographic details and then will compare first the curation depth, then the source and then the released date.
compare(Publication, Publication) - Method in class psidev.psi.mi.jami.utils.comparator.publication.PublicationComparator: It will first compare IMEx identifiers (publication with IMEx will always come first).
compare(Publication, Publication) - Method in class psidev.psi.mi.jami.utils.comparator.publication.UnambiguousCuratedPublicationComparator: It uses a AbstractPublicationComparator to compares the bibliographic details and then will compare first the curation depth, then the source and then the released date.
compare(Range, Range) - Method in class psidev.psi.mi.jami.utils.comparator.range.RangeAndResultingSequenceComparator: It compares first the start Position, then the end Position using a PositionComparator, If start/end positions are equals, the linked ranges will always come before the ranges that are not linked.
compare(Range, Range) - Method in class psidev.psi.mi.jami.utils.comparator.range.RangeComparator: It compares first the start Position, then the end Position using a PositionComparator, If start/end positions are equals, the linked ranges will always come before the ranges that are not linked.
compare(Range, Range) - Method in class psidev.psi.mi.jami.utils.comparator.range.UnambiguousRangeAndResultingSequenceComparator: It compares first the start Position, then the end Position using a UnambiguousPositionComparator, If start/end positions are equals, the linked ranges will always come before the ranges that are not linked.
compare(Range, Range) - Method in class psidev.psi.mi.jami.utils.comparator.range.UnambiguousRangeComparator
compare(ResultingSequence, ResultingSequence) - Method in class psidev.psi.mi.jami.utils.comparator.range.ResultingSequenceComparator: It will first compare the original sequence and then if the original sequences are the same, it will compare the new sequences.
compare(Stoichiometry, Stoichiometry) - Method in class psidev.psi.mi.jami.utils.comparator.participant.StoichiometryComparator: It will first compare the minValue.
compare(VariableParameter, VariableParameter) - Method in class psidev.psi.mi.jami.utils.comparator.experiment.UnambiguousVariableParameterComparator: It will first compare the description (case insensitive).
compare(VariableParameter, VariableParameter) - Method in class psidev.psi.mi.jami.utils.comparator.experiment.VariableParameterComparator: It will first compare the description (case insensitive).
compare(VariableParameterValue, VariableParameterValue) - Method in class psidev.psi.mi.jami.utils.comparator.experiment.VariableParameterValueComparator: It will first compare the value (case insensitive) and then the order.
compare(VariableParameterValueSet, VariableParameterValueSet) - Method in class psidev.psi.mi.jami.utils.comparator.experiment.VariableParameterValueSetComparator: compare
compare(Xref, Xref) - Method in class psidev.psi.mi.jami.utils.comparator.xref.ExactExternalIdentifierComparator: It compares first the databases using UnambiguousCvTermComparator, then the ids (case sensitive) and then the version.
compare(Xref, Xref) - Method in class psidev.psi.mi.jami.utils.comparator.xref.ExactXrefComparator: It compares first the databases and then the ids (case sensitive) but ignores the version.
compare(Xref, Xref) - Method in class psidev.psi.mi.jami.utils.comparator.xref.UnambiguousExternalIdentifierComparator: It compares first the databases and then the ids (case sensitive) but ignores the version.
compare(Xref, Xref) - Method in class psidev.psi.mi.jami.utils.comparator.xref.UnambiguousXrefComparator: It compares first the databases and then the ids (case sensitive) but ignores the version.
compare(T, T) - Method in class psidev.psi.mi.jami.utils.comparator.IdentityHashComparator: Compares two objects based on their hashcode methods
compare(T, T) - Method in class psidev.psi.mi.jami.utils.comparator.participant.ParticipantInteractorComparator: It will compare the interactors using InteractorComparator.
compareIdentifiersWithDefaultIdentifier(String, String, String) - Static method in class psidev.psi.mi.jami.utils.comparator.ComparatorUtils: If identifier1 and identifier2 are equals, it returns 0.
complex - psidev.psi.mi.jami.factory.InteractorCategory
complex - psidev.psi.mi.jami.model.InteractionCategory
Complex - Interface in psidev.psi.mi.jami.model: An interactor composed of interacting molecules that can be copurified.
COMPLEX - Static variable in interface psidev.psi.mi.jami.model.Complex: Constant COMPLEX="complex"
COMPLEX_EXPANSION - psidev.psi.mi.jami.tab.MitabColumnName
COMPLEX_EXPANSION - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant COMPLEX_EXPANSION="complex expansion"
COMPLEX_EXPANSION_MI - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant COMPLEX_EXPANSION_MI="MI:1059"
COMPLEX_EXPANSION_OPTION_KEY - Static variable in class psidev.psi.mi.jami.factory.options.InteractionWriterOptions: The option to provide a complex expansion method to expand n-ary interactions in binary interactions.
COMPLEX_EXPANSION_OPTION_KEY - Static variable in class psidev.psi.mi.jami.factory.options.MIDataSourceOptions: The option to provide a complex expansion method to expand n-ary interactions in binary interactions.
COMPLEX_MI - Static variable in interface psidev.psi.mi.jami.model.Complex: Constant COMPLEX_MI="MI:0314"
COMPLEX_PORTAL - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant COMPLEX_PORTAL="complex portal"
COMPLEX_PORTAL_MI - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant COMPLEX_PORTAL_MI="MI:2279
COMPLEX_PRIMARY - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant COMPLEX_PRIMARY="complex-primary"
COMPLEX_PRIMARY_MI - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant COMPLEX_PRIMARY_MI="MI:2282"
COMPLEX_PROPERTIES - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant COMPLEX_PROPERTIES="complex-properties"
COMPLEX_PROPERTIES_MI - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant COMPLEX_PROPERTIES_MI="MI:0629"
COMPLEX_RECOMMENDED_NAME - Static variable in interface psidev.psi.mi.jami.model.Alias: Constant COMPLEX_RECOMMENDED_NAME="complex recommended name"
COMPLEX_RECOMMENDED_NAME_MI - Static variable in interface psidev.psi.mi.jami.model.Alias: Constant COMPLEX_RECOMMENDED_NAME_MI="MI:1315"
COMPLEX_SYNONYM - Static variable in interface psidev.psi.mi.jami.model.Alias: Constant COMPLEX_SYNONYM="complex-synonym"
COMPLEX_SYNONYM_MI - Static variable in interface psidev.psi.mi.jami.model.Alias: Constant COMPLEX_SYNONYM_MI="MI:0673"
COMPLEX_SYSTEMATIC_NAME - Static variable in interface psidev.psi.mi.jami.model.Alias: Constant COMPLEX_SYSTEMATIC_NAME="complex systematic name"
COMPLEX_SYSTEMATIC_NAME_MI - Static variable in interface psidev.psi.mi.jami.model.Alias: Constant COMPLEX_SYSTEMATIC_NAME_MI="MI:1316"
COMPLEX_TYPE_OPTION_KEY - Static variable in class psidev.psi.mi.jami.factory.options.InteractionWriterOptions: The option to describe the complex type of interaction object we want to write.
COMPLEX_TYPE_OPTION_KEY - Static variable in class psidev.psi.mi.jami.factory.options.MIDataSourceOptions: The option to describe the complex type of interaction object we want to return.
ComplexChangeListener - Interface in psidev.psi.mi.jami.listener: Listener for changes in complex
ComplexChangeLogger - Class in psidev.psi.mi.jami.listener.impl: This listener will just complex change events
ComplexChangeLogger() - Constructor for class psidev.psi.mi.jami.listener.impl.ComplexChangeLogger: Constructor for ComplexChangeLogger.
ComplexComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Basic ComplexComparator.
ComplexComparator(Comparator<Interactor>, CustomizableModelledParticipantComparator, Comparator<CvTerm>) - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.ComplexComparator: Creates a bew ComplexComparator.
ComplexComparator(Comparator<Interactor>, ModelledParticipantCollectionComparator, Comparator<CvTerm>) - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.ComplexComparator: Creates a bew ComplexComparator.
ComplexComparatorListener - Interface in psidev.psi.mi.jami.listener.comparator
ComplexComparatorListenerAnalyzer - Class in psidev.psi.mi.jami.listener.comparator.analyzer
ComplexComparatorListenerAnalyzer() - Constructor for class psidev.psi.mi.jami.listener.comparator.analyzer.ComplexComparatorListenerAnalyzer
ComplexComparatorListenerImpl - Class in psidev.psi.mi.jami.listener.comparator.impl
ComplexComparatorListenerImpl() - Constructor for class psidev.psi.mi.jami.listener.comparator.impl.ComplexComparatorListenerImpl
ComplexComparatorObserver - Class in psidev.psi.mi.jami.listener.comparator.observer
ComplexComparatorObserver(Complex, Complex) - Constructor for class psidev.psi.mi.jami.listener.comparator.observer.ComplexComparatorObserver
ComplexComparisonEvent - Class in psidev.psi.mi.jami.listener.comparator.event
ComplexComparisonEvent(Complex, Complex, ComplexComparisonEvent.EventType) - Constructor for class psidev.psi.mi.jami.listener.comparator.event.ComplexComparisonEvent
ComplexComparisonEvent.EventType - Enum in psidev.psi.mi.jami.listener.comparator.event
ComplexEnricher - Interface in psidev.psi.mi.jami.enricher: The enricher for Interactions which can enrich a single interaction or a collection.
ComplexEnricherListener - Interface in psidev.psi.mi.jami.enricher.listener: Listener for complex enrichment
ComplexEnricherListenerManager - Class in psidev.psi.mi.jami.enricher.listener.impl: A manager for listeners which holds a list of listeners.
ComplexEnricherListenerManager() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.ComplexEnricherListenerManager: A constructor to create a listener manager with no listeners.
ComplexEnricherListenerManager(ComplexEnricherListener...) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.ComplexEnricherListenerManager: A constructor to initiate a listener manager with as many listeners as required.
ComplexEnricherLogger - Class in psidev.psi.mi.jami.enricher.listener.impl.log: A logging listener.
ComplexEnricherLogger() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.log.ComplexEnricherLogger
ComplexEnricherStatisticsWriter - Class in psidev.psi.mi.jami.enricher.listener.impl.writer: A statistics logger which records changes made by the enricher.
ComplexEnricherStatisticsWriter() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.ComplexEnricherStatisticsWriter: Uses the known name of the JamiObject type as the seed to generate names for the success an failure log files.
ComplexEnricherStatisticsWriter(File, File) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.ComplexEnricherStatisticsWriter: Uses the exact files provided to log successful and failed enrichments.
ComplexEnricherStatisticsWriter(String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.ComplexEnricherStatisticsWriter: Creates the files from the provided seed file name with 'success' and 'failure' appended.
ComplexEnricherStatisticsWriter(String, String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.ComplexEnricherStatisticsWriter: Uses the provided names to create the files for successful and failed enrichment logging.
ComplexEntry - Class in psidev.psi.mi.jami.xml.model.xml253: Complex Entry implementation for JAXB read only.
ComplexEntry - Class in psidev.psi.mi.jami.xml.model.xml254: Complex Entry implementation for JAXB read only.
ComplexEntry - Class in psidev.psi.mi.jami.xml.model.xml30: Complex Entry implementation for JAXB read only.
ComplexEntry() - Constructor for class psidev.psi.mi.jami.xml.model.xml253.ComplexEntry
ComplexEntry() - Constructor for class psidev.psi.mi.jami.xml.model.xml254.ComplexEntry
ComplexEntry() - Constructor for class psidev.psi.mi.jami.xml.model.xml30.ComplexEntry
ComplexEntry.JAXBExperimentsWrapper - Class in psidev.psi.mi.jami.xml.model.xml253
ComplexEntry.JAXBExperimentsWrapper - Class in psidev.psi.mi.jami.xml.model.xml254
ComplexEntry.JAXBExperimentsWrapper - Class in psidev.psi.mi.jami.xml.model.xml30
ComplexEntry.JAXBInteractionsWrapper - Class in psidev.psi.mi.jami.xml.model.xml253
ComplexEntry.JAXBInteractionsWrapper - Class in psidev.psi.mi.jami.xml.model.xml254
ComplexEntry.JAXBInteractionsWrapper - Class in psidev.psi.mi.jami.xml.model.xml30
complexExpansion() - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
ComplexExpansionException - Exception in psidev.psi.mi.jami.exception: Exception for Interactions that cannot be expanded with a specific complex expansion
ComplexExpansionException() - Constructor for exception psidev.psi.mi.jami.exception.ComplexExpansionException: Constructor for ComplexExpansionException.
ComplexExpansionException(String) - Constructor for exception psidev.psi.mi.jami.exception.ComplexExpansionException: Constructor for ComplexExpansionException.
ComplexExpansionException(String, Throwable) - Constructor for exception psidev.psi.mi.jami.exception.ComplexExpansionException: Constructor for ComplexExpansionException.
ComplexExpansionException(String, Throwable, boolean, boolean) - Constructor for exception psidev.psi.mi.jami.exception.ComplexExpansionException: Constructor for ComplexExpansionException.
ComplexExpansionException(Throwable) - Constructor for exception psidev.psi.mi.jami.exception.ComplexExpansionException: Constructor for ComplexExpansionException.
ComplexExpansionFactory - Interface in psidev.psi.mi.jami.factory: An interface for a factory of complex expansion methods
ComplexExpansionMethod<T extends Interaction,B extends BinaryInteraction> - Interface in psidev.psi.mi.jami.binary.expansion: The method by which complex n-ary data is expanded into binary data.
ComplexExpansionType - Enum in psidev.psi.mi.jami.factory: Existing complex expansion types that will be recognised by the complex expansion factory
ComplexExpansionWithJami - Class in psidev.psi.mi.jami.examples.core: In this code example, we wil do spoke, matrix and bipartite expansion to explode n-ary interactions in binary interactions.
ComplexExpansionWithJami() - Constructor for class psidev.psi.mi.jami.examples.core.ComplexExpansionWithJami
ComplexNamesContainer - Class in psidev.psi.mi.jami.xml.model.extension.xml253: A container for aliases, shortname and fullname The JAXB binding is designed to be read-only and is not designed for writing
ComplexNamesContainer - Class in psidev.psi.mi.jami.xml.model.extension.xml254: A container for aliases, shortname and fullname The JAXB binding is designed to be read-only and is not designed for writing
ComplexNamesContainer - Class in psidev.psi.mi.jami.xml.model.extension.xml300: A container for aliases, shortname and fullname The JAXB binding is designed to be read-only and is not designed for writing
ComplexNamesContainer() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.ComplexNamesContainer
ComplexNamesContainer() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.ComplexNamesContainer
ComplexNamesContainer() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.ComplexNamesContainer
ComplexSource - Interface in psidev.psi.mi.jami.datasource: A Data source of biological complexes.
ComplexStream - Interface in psidev.psi.mi.jami.datasource: A Data source of biological complexes giving only a stream of complexes.
ComplexType - Enum in psidev.psi.mi.jami.model: The type of complex that can describe this interaction.
ComplexUtils - Class in psidev.psi.mi.jami.utils
ComplexUtils() - Constructor for class psidev.psi.mi.jami.utils.ComplexUtils
COMPOSITE_BINDING - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant COMPOSITE_BINDING="composite binding site formation"
COMPOSITE_BINDING_ID - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant COMPOSITE_BINDING_ID="MI:1171"
CompositeEntityEnricher - Class in psidev.psi.mi.jami.enricher.impl: General enricher for entities and participants candidates that can use sub enrichers for enriching specific interactors
CompositeEntityEnricher(EntityEnricher<Entity, Feature>) - Constructor for class psidev.psi.mi.jami.enricher.impl.CompositeEntityEnricher: Constructor for CompositeEntityEnricher.
CompositeInteractorEnricher - Class in psidev.psi.mi.jami.enricher.impl: General enricher for interactors that can use sub enrichers for enriching specific interactors
CompositeInteractorEnricher(AbstractInteractorEnricher<Interactor>) - Constructor for class psidev.psi.mi.jami.enricher.impl.CompositeInteractorEnricher: Constructor for CompositeInteractorEnricher.
CompositeModelledParticipantEnricher - Class in psidev.psi.mi.jami.enricher.impl: General enricher for entities and participants that can use sub enrichers for enriching specific interactors
CompositeModelledParticipantEnricher(ParticipantEnricher<ModelledParticipant, ModelledFeature>) - Constructor for class psidev.psi.mi.jami.enricher.impl.CompositeModelledParticipantEnricher: Constructor for CompositeModelledParticipantEnricher.
CompositeParticipantEnricher - Class in psidev.psi.mi.jami.enricher.impl: General enricher for entities and participants that can use sub enrichers for enriching specific interactors
CompositeParticipantEnricher(ParticipantEnricher<Participant, Feature>) - Constructor for class psidev.psi.mi.jami.enricher.impl.CompositeParticipantEnricher: Constructor for CompositeParticipantEnricher.
CompositeParticipantEvidenceEnricher - Class in psidev.psi.mi.jami.enricher.impl: General enricher for entities and participants that can use sub enrichers for enriching specific interactors
CompositeParticipantEvidenceEnricher(ParticipantEnricher<ParticipantEvidence, FeatureEvidence>) - Constructor for class psidev.psi.mi.jami.enricher.impl.CompositeParticipantEvidenceEnricher: Constructor for CompositeParticipantEvidenceEnricher.
computeCrc64For(String) - Static method in class psidev.psi.mi.jami.utils.checksum.Crc64Generator: Returns the crc64 checksum for the given sequence.
computeHashCode(T) - Method in class psidev.psi.mi.jami.utils.comparator.IdentityHashComparator: computeHashCode
computeHashCode(T) - Method in interface psidev.psi.mi.jami.utils.comparator.MIComparator: computeHashCode
computeRogidFrom(String, String) - Method in class psidev.psi.mi.jami.utils.checksum.RogidGenerator: calculate Rogid for the give protein sequence+taxid Rogid = Sequid + taxid
confidence() - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
Confidence - Interface in psidev.psi.mi.jami.model: A Confidence gives information about how reliable an object is.
CONFIDENCE - psidev.psi.mi.jami.tab.MitabColumnName
ConfidenceComparator - Class in psidev.psi.mi.jami.utils.comparator.confidence: Simple Comparator for Confidences.
ConfidenceComparator(Comparator<CvTerm>) - Constructor for class psidev.psi.mi.jami.utils.comparator.confidence.ConfidenceComparator: Creates a new ConfidenceComparator.
confidences() - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
ConfidencesChangeListener<T> - Interface in psidev.psi.mi.jami.listener: A listener for changes to an object having confidences.
ConfidenceUtils - Class in psidev.psi.mi.jami.utils: Utility class for confidences
ConfidenceUtils() - Constructor for class psidev.psi.mi.jami.utils.ConfidenceUtils
configure(String) - Method in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: configure.
Constants - Class in psidev.psi.mi.jami.bridges.imex: Created by anjali on 23/11/18.
Constants() - Constructor for class psidev.psi.mi.jami.bridges.imex.Constants
CONTACT_EMAIL - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant CONTACT_EMAIL="contact-email"
CONTACT_EMAIL_MI - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant CONTACT_EMAIL_MI="MI:0634"
contains(Object) - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipantPool
contains(Object) - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractorPool
contains(Object) - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameterValueSet
contains(Object) - Method in class psidev.psi.mi.jami.utils.collection.AbstractCollectionWrapper
contains(Object) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryIdentityObjectCache: True if it contains this object
contains(Object) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryLightIdentityObjectCache: True if it contains this object
contains(Object) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlObjectCache: True if it contains this object
contains(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool
contains(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantPoolWrapper
contains(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractorPool
contains(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantPoolWrapper
contains(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool
contains(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantPoolWrapper
contains(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractorPool
contains(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantPoolWrapper
contains(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool
contains(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantPoolWrapper
contains(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractorPool
contains(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantPoolWrapper
contains(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameterValueSet
containsAdminGroup(List<Source>, Source) - Method in class psidev.psi.mi.jami.imex.actions.impl.PublicationAdminGroupSynchronizerImpl: containsAdminGroup.
containsAll(Collection<?>) - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipantPool
containsAll(Collection<?>) - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractorPool
containsAll(Collection<?>) - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameterValueSet
containsAll(Collection<?>) - Method in class psidev.psi.mi.jami.utils.collection.AbstractCollectionWrapper
containsAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool
containsAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantPoolWrapper
containsAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractorPool
containsAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantPoolWrapper
containsAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool
containsAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantPoolWrapper
containsAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractorPool
containsAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantPoolWrapper
containsAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool
containsAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantPoolWrapper
containsAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractorPool
containsAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantPoolWrapper
containsAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameterValueSet
containsAvailability(int) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: To know if it contains a specific id
containsAvailability(int) - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: To know if it contains a specific id
containsAvailability(int) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: To know if it contains a specific id
containsComplex(int) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: To know if it contains a specific id
containsComplex(int) - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: To know if it contains a specific id
containsComplex(int) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: To know if it contains a specific id
containsComplexFeature(int) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: To know if it contains a specific id
containsComplexFeature(int) - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: To know if it contains a specific id
containsComplexFeature(int) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: To know if it contains a specific id
containsComplexParticipant(int) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: To know if it contains a specific id
containsComplexParticipant(int) - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: To know if it contains a specific id
containsComplexParticipant(int) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: To know if it contains a specific id
containsExperiment(int) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: To know if it contains a specific id
containsExperiment(int) - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: To know if it contains a specific id
containsExperiment(int) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: To know if it contains a specific id
containsFeature(int) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: To know if it contains a specific id
containsFeature(int) - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: To know if it contains a specific id
containsFeature(int) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: To know if it contains a specific id
containsInteraction(int) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: To know if it contains a specific id
containsInteraction(int) - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: To know if it contains a specific id
containsInteraction(int) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: To know if it contains a specific id
containsInteractor(int) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: To know if it contains a specific id
containsInteractor(int) - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: To know if it contains a specific id
containsInteractor(int) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: To know if it contains a specific id
containsParticipant(int) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: To know if it contains a specific id
containsParticipant(int) - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: To know if it contains a specific id
containsParticipant(int) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: To know if it contains a specific id
containsPublicationAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment.JAXBAttributeWrapper
containsPublicationAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment.JAXBAttributeWrapper
containsPublicationAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment.JAXBAttributeWrapper
containsUnresolvedReferences(XmlEntryContext) - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: containsUnresolvedReferences.
containsVariableParameter(int) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: To know if it contains a specific id
containsVariableParameter(int) - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: To know if it contains a specific id
containsVariableParameter(int) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: To know if it contains a specific id
content - Variable in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Sequence
convertFromString(String) - Static method in enum psidev.psi.mi.jami.crosslink.io.parser.CrossLinkCSVColumns: convertFromString.
convertPositionToString(Position) - Static method in class psidev.psi.mi.jami.utils.PositionUtils: Converts a given position in a String using specific mnemonic for encoding the position status
convertRangeToString(Range) - Static method in class psidev.psi.mi.jami.utils.RangeUtils: Converts a range in a String.
convertStringToPositionValue(String) - Static method in class psidev.psi.mi.jami.utils.PositionUtils: convertStringToPositionValue
COOPERATIVE_EFFECT_VALUE - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant COOPERATIVE_EFFECT_VALUE="cooperative effect value"
COOPERATIVE_EFFECT_VALUE_ID - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant COOPERATIVE_EFFECT_VALUE_ID="MI:1152"
CooperativeEffect - Interface in psidev.psi.mi.jami.model: A cooperative effect an interaction has on a subsequent interaction.
CooperativeEffectBaseComparator - Class in psidev.psi.mi.jami.utils.comparator.cooperativity: Basic comparator for CooperativeEffect It will first compare the outcome using AbstractCvTermComparator.
CooperativeEffectBaseComparator(Comparator<CvTerm>, CollectionComparator<CooperativityEvidence>, CollectionComparator<ModelledInteraction>) - Constructor for class psidev.psi.mi.jami.utils.comparator.cooperativity.CooperativeEffectBaseComparator: Constructor for CooperativeEffectBaseComparator.
CooperativeEffectBaseComparator(Comparator<CvTerm>, CooperativityEvidenceComparator, ModelledInteractionComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.cooperativity.CooperativeEffectBaseComparator: Constructor for CooperativeEffectBaseComparator.
CooperativeEffectCloner - Class in psidev.psi.mi.jami.utils.clone: Utility class for cloning cooperativity evidences
CooperativeEffectCloner() - Constructor for class psidev.psi.mi.jami.utils.clone.CooperativeEffectCloner
CooperativeEffectComparator - Class in psidev.psi.mi.jami.utils.comparator.cooperativity: Basic cooperative effect comparator Allostery effects will always come before basic cooperative effects (preassembly) - It will use AllosteryComparator to compare allostery - It will use CooperativeEffectBaseComparator to compare basic cooperative effects
CooperativeEffectComparator(AllosteryComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.cooperativity.CooperativeEffectComparator: Constructor for CooperativeEffectComparator.
CooperativityEvidence - Interface in psidev.psi.mi.jami.model: The experimental method and corresponding publication from which a cooperative effect has been inferred.
CooperativityEvidenceCloner - Class in psidev.psi.mi.jami.utils.clone: Utility class for cloning cooperativity evidences
CooperativityEvidenceCloner() - Constructor for class psidev.psi.mi.jami.utils.clone.CooperativityEvidenceCloner
CooperativityEvidenceCollectionComparator - Class in psidev.psi.mi.jami.utils.comparator.cooperativity: Comparator for a collection of CooperativityEvidences
CooperativityEvidenceCollectionComparator(CooperativityEvidenceComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.cooperativity.CooperativityEvidenceCollectionComparator: Creates a new CollectionComparator.
CooperativityEvidenceComparator - Class in psidev.psi.mi.jami.utils.comparator.cooperativity: Basic comparator for cooperativityEvidence It will first compare the publications using AbstractPublicationComparator and then the evidenceMethods using AbstractCvTermComparator
CooperativityEvidenceComparator(Comparator<CvTerm>, Comparator<Publication>) - Constructor for class psidev.psi.mi.jami.utils.comparator.cooperativity.CooperativityEvidenceComparator: Constructor for CooperativityEvidenceComparator.
CooperativityEvidenceComparator(CollectionComparator<CvTerm>, Comparator<Publication>) - Constructor for class psidev.psi.mi.jami.utils.comparator.cooperativity.CooperativityEvidenceComparator: Constructor for CooperativityEvidenceComparator.
copyAndOverrideAllosteryProperties(Allostery<T>, Allostery<T>) - Static method in class psidev.psi.mi.jami.utils.clone.CooperativeEffectCloner: This method will copy basic properties and allostery specific properties from allostery source to allostery target.
copyAndOverrideBasicCandidateProperties(ParticipantCandidate, ParticipantCandidate, boolean) - Static method in class psidev.psi.mi.jami.utils.clone.ParticipantCandidateCloner: This method will copy properties of participant candidate source in participant candidate target and will override all the other properties of Target participant.
copyAndOverrideBasicComplexPropertiesWithInteractionProperties(Interaction, Complex) - Static method in class psidev.psi.mi.jami.utils.clone.InteractorCloner: This method will copy basic properties from the Interaction source in the complex target.
copyAndOverrideBasicComplexPropertiesWithModelledInteractionProperties(ModelledInteraction, Complex) - Static method in class psidev.psi.mi.jami.utils.clone.InteractorCloner: This method will copy basic properties from the Interaction source in the complex target.
copyAndOverrideBasicCooperativeEffectProperties(CooperativeEffect, CooperativeEffect) - Static method in class psidev.psi.mi.jami.utils.clone.CooperativeEffectCloner: This method will copy basic properties of CooperativeEffect source in CooperativeEffect target and will override all the other properties of Target CooperativeEffect.
copyAndOverrideBasicEntityProperties(Entity, Entity, boolean) - Static method in class psidev.psi.mi.jami.utils.clone.ParticipantCloner: copyAndOverrideBasicEntityProperties
copyAndOverrideBasicFeaturesProperties(Feature, Feature) - Static method in class psidev.psi.mi.jami.utils.clone.FeatureCloner: This method will copy properties of Feature source in Feature target and will override all the other properties of Target feature.
copyAndOverrideBasicInteractionProperties(Interaction, Interaction, boolean, boolean) - Static method in class psidev.psi.mi.jami.utils.clone.InteractionCloner: This method will copy basic properties of interaction source in interaction target and will override all the other properties of Target interaction.
copyAndOverrideBasicInteractorPoolProperties(InteractorPool, InteractorPool) - Static method in class psidev.psi.mi.jami.utils.clone.InteractorCloner: copyAndOverrideBasicInteractorPoolProperties
copyAndOverrideBasicInteractorProperties(Interactor, Interactor) - Static method in class psidev.psi.mi.jami.utils.clone.InteractorCloner: This method will copy properties of interactor source in interactor target and will override all the other properties of Target interactor.
copyAndOverrideBasicParticipantProperties(Participant, Participant, boolean) - Static method in class psidev.psi.mi.jami.utils.clone.ParticipantCloner: This method will copy properties of participant source in participant target and will override all the other properties of Target participant.
copyAndOverrideBasicParticipantsToBinary(Interaction, BinaryInteraction, boolean, boolean) - Static method in class psidev.psi.mi.jami.utils.clone.InteractionCloner: This method will copy participants of interaction source in binary target.
copyAndOverrideBasicPolymerProperties(Polymer, Polymer) - Static method in class psidev.psi.mi.jami.utils.clone.InteractorCloner: copyAndOverrideBasicPolymerProperties
copyAndOverrideComplexProperties(Complex, Complex, boolean, boolean) - Static method in class psidev.psi.mi.jami.utils.clone.InteractorCloner: This method will copy properties of complex source in complex target and will override all the other properties of Target complex.
copyAndOverrideCooperativityEvidenceProperties(CooperativityEvidence, CooperativityEvidence) - Static method in class psidev.psi.mi.jami.utils.clone.CooperativityEvidenceCloner: This method will copy properties of CooperativityEvidence source in CooperativityEvidence target and will override all the other properties of Target CooperativityEvidence.
copyAndOverrideCvTermProperties(CvTerm, CvTerm) - Static method in class psidev.psi.mi.jami.utils.clone.CvTermCloner: This method will copy properties of cv term source in cv term target and will override all the other properties of Target cv term.
copyAndOverrideExperimentalCandidateProperties(ExperimentalParticipantCandidate, ExperimentalParticipantCandidate, boolean) - Static method in class psidev.psi.mi.jami.utils.clone.ParticipantCandidateCloner: This method will copy properties of participant candidate source to participant candidate target and will override all the other properties of Target participant candidate.
copyAndOverrideExperimentProperties(Experiment, Experiment) - Static method in class psidev.psi.mi.jami.utils.clone.ExperimentCloner: This method will copy properties of experiment source in experiment target and will override all the other properties of Target experiment.
copyAndOverrideExperimentPropertiesAndInteractionEvidences(Experiment, Experiment) - Static method in class psidev.psi.mi.jami.utils.clone.ExperimentCloner: This method will copy properties of experiment source in experiment target and will override all the other properties of Target experiment.
copyAndOverrideFeatureEvidenceProperties(FeatureEvidence, FeatureEvidence) - Static method in class psidev.psi.mi.jami.utils.clone.FeatureCloner: This method will copy properties of Feature source in Feature target and will override all the other properties of Target feature.
copyAndOverrideInteractionEvidenceProperties(InteractionEvidence, InteractionEvidence, boolean, boolean) - Static method in class psidev.psi.mi.jami.utils.clone.InteractionCloner: This method will copy properties of interaction source in interaction target and will override all the other properties of Target interaction.
copyAndOverrideModelledFeaturesProperties(ModelledFeature, ModelledFeature) - Static method in class psidev.psi.mi.jami.utils.clone.FeatureCloner: This method will copy properties of modelled Feature source in modelled Feature target and will override all the other properties of modelled Target feature.
copyAndOverrideModelledInteractionProperties(ModelledInteraction, ModelledInteraction, boolean, boolean) - Static method in class psidev.psi.mi.jami.utils.clone.InteractionCloner: This method will copy properties of interaction source in interaction target and will override all the other properties of Target interaction.
copyAndOverrideModelledParticipantProperties(ModelledParticipant, ModelledParticipant, boolean) - Static method in class psidev.psi.mi.jami.utils.clone.ParticipantCloner: This method will copy properties of modelled participant source in modelled participant target and will override all the other properties of Target modelled participant.
copyAndOverrideModelledParticipantsToBinary(ModelledInteraction, ModelledBinaryInteraction, boolean, boolean) - Static method in class psidev.psi.mi.jami.utils.clone.InteractionCloner: This method will copy participants of modelled interaction source in binary target.
copyAndOverrideModelledPCandidateProperties(ModelledParticipantCandidate, ModelledParticipantCandidate, boolean) - Static method in class psidev.psi.mi.jami.utils.clone.ParticipantCandidateCloner: This method will copy properties of modelled participant candidate source in modelled participant candidate target and will override all the other properties of Target modelled participant.
copyAndOverrideOntologyTermProperties(OntologyTerm, OntologyTerm) - Static method in class psidev.psi.mi.jami.utils.clone.CvTermCloner: This method will copy basic properties and parent/children from a ontology term source to a ontology term target
copyAndOverrideOrganismProperties(Organism, Organism) - Static method in class psidev.psi.mi.jami.utils.clone.OrganismCloner: This method will copy properties of organism source in organism target and will override all the other properties of Target organism.
copyAndOverrideParticipantEvidenceProperties(ParticipantEvidence, ParticipantEvidence, boolean) - Static method in class psidev.psi.mi.jami.utils.clone.ParticipantCloner: This method will copy properties of participant source in participant target and will override all the other properties of Target participant.
copyAndOverrideParticipantsEvidencesToBinary(InteractionEvidence, BinaryInteractionEvidence, boolean, boolean) - Static method in class psidev.psi.mi.jami.utils.clone.InteractionCloner: This method will copy participants of interaction evidence source in binary target.
copyAndOverridePublicationProperties(Publication, Publication) - Static method in class psidev.psi.mi.jami.utils.clone.PublicationCloner: This method will copy properties of publication source in publication target and will override all the other properties of Target publication.
copyAndOverridePublicationPropertiesAndExperiments(Publication, Publication) - Static method in class psidev.psi.mi.jami.utils.clone.PublicationCloner: copyAndOverridePublicationPropertiesAndExperiments
copyAndOverrideRangeProperties(Range, Range) - Static method in class psidev.psi.mi.jami.utils.clone.RangeCloner: All properties are copied from source to target excepted the participant
copyAndOverrideRangePropertiesWithParticipant(Range, Range) - Static method in class psidev.psi.mi.jami.utils.clone.RangeCloner: All properties are copied from source to target
copyAndOverrideSourceProperties(Source, Source) - Static method in class psidev.psi.mi.jami.utils.clone.CvTermCloner: This method will copy basic properties and source specific properties from a source to a target
copyAndOverrideVariableParameterProperties(VariableParameter, VariableParameter) - Static method in class psidev.psi.mi.jami.utils.clone.VariableParameterCloner: This method will copy properties of parameter source in parameter target (excepted experiment) and will override all the other properties of Target parameter.
copyright - Variable in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Uniparc
Crc64Generator - Class in psidev.psi.mi.jami.utils.checksum: A class to generate Crc64 for protein and nucleic acids sequences
Crc64Generator() - Constructor for class psidev.psi.mi.jami.utils.checksum.Crc64Generator
createAlias(String, String) - Static method in class psidev.psi.mi.jami.utils.AliasUtils: createAlias
createAlias(String, String, String) - Static method in class psidev.psi.mi.jami.utils.AliasUtils: createAlias
createAliasFromAltId(Interactor, MitabXref) - Method in class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionLineParser: createAliasFromAltId.
createAliasWriter(XMLStreamWriter) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createAliasWriter.
createAllosteryCooperativeMechanism() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createAllosteryCooperativeMechanism
createAllosteryWriter(XMLStreamWriter, boolean, PsiXmlObjectCache, PsiXmlVariableNameWriter<CvTerm>, PsiXmlElementWriter<Annotation>, PsiXmlPublicationWriter) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createAllosteryWriter.
createAndAddNewSelfBinaryInteractionEvidence(InteractionEvidence) - Static method in class psidev.psi.mi.jami.utils.InteractionUtils: Creates a new BinaryInteractionEvidence from the given interactionEvidence which should only contain one participant with a stoichiometry >= 2 or participant stoichiometry null and participant is not self/putative self.
createAndAddNewSelfModelledBinaryInteraction(ModelledInteraction) - Static method in class psidev.psi.mi.jami.utils.InteractionUtils: Creates a new ModelledBinaryInteraction from the given interaction which should only contain one participant with a stoichiometry >= 2 or participant stoichiometry null and participant is not self/putative self.
createAnnotation(String, String) - Static method in class psidev.psi.mi.jami.utils.AnnotationUtils: createAnnotation
createAnnotation(String, String, String) - Static method in class psidev.psi.mi.jami.utils.AnnotationUtils: createAnnotation
createAnnotationWriter(XMLStreamWriter) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createAnnotationWriter.
createAuthorAssignedName() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createAuthorAssignedName
createAuthorAssignedName(String) - Static method in class psidev.psi.mi.jami.utils.AliasUtils: createAuthorAssignedName
createAuthorBasedConfidence(String) - Static method in class psidev.psi.mi.jami.utils.ConfidenceUtils: createAuthorBasedConfidence
createAvailabilityWriter(XMLStreamWriter, PsiXmlObjectCache) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createAvailabilityWriter.
createBasicBinaryInteractionFrom(Interaction, Participant, Participant, CvTerm) - Method in interface psidev.psi.mi.jami.factory.BinaryInteractionFactory: Create a new BinaryInteraction object from an Interaction parent and two participants
createBasicBinaryInteractionFrom(Interaction, Participant, Participant, CvTerm) - Method in class psidev.psi.mi.jami.factory.DefaultBinaryInteractionFactory: Create a new BinaryInteraction object from an Interaction parent and two participants
createBasicBinaryInteractionFrom(Interaction, Participant, Participant, CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.factory.xml25.XmlBinaryInteractionFactory: Create a new BinaryInteraction object from an Interaction parent and two participants
createBasicBinaryInteractionFrom(Interaction, Participant, Participant, CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.factory.xml30.XmlBinaryInteractionFactory: Create a new BinaryInteraction object from an Interaction parent and two participants
createBasicExperimentForComplexes() - Static method in class psidev.psi.mi.jami.utils.ExperimentUtils: createBasicExperimentForComplexes
createBasicExperimentForComplexes(int) - Static method in class psidev.psi.mi.jami.utils.ExperimentUtils: createBasicExperimentForComplexes
createBasicExperimentForComplexes(int, String) - Static method in class psidev.psi.mi.jami.utils.ExperimentUtils: createBasicExperimentForComplexes
createBasicExperimentForModelledInteractions() - Static method in class psidev.psi.mi.jami.utils.ExperimentUtils: createBasicExperimentForModelledInteractions
createBasicModelledParticipant() - Static method in class psidev.psi.mi.jami.utils.ParticipantUtils: createBasicModelledParticipant
createBasicPublicationForModelledInteractions() - Static method in class psidev.psi.mi.jami.utils.PublicationUtils: createBasicPublicationForModelledInteractions
createBinaryInteraction(InteractionEvidence, P, P) - Method in class psidev.psi.mi.jami.binary.expansion.InteractionEvidenceBipartiteExpansion: createBinaryInteraction
createBinaryInteraction(InteractionEvidence, P, P) - Method in class psidev.psi.mi.jami.binary.expansion.InteractionEvidenceMatrixExpansion: createBinaryInteraction
createBinaryInteraction(InteractionEvidence, P, P) - Method in class psidev.psi.mi.jami.binary.expansion.InteractionEvidenceSpokeExpansion: createBinaryInteraction
createBinaryInteraction(Interaction, P, P) - Method in class psidev.psi.mi.jami.binary.expansion.MatrixExpansion: createBinaryInteraction
createBinaryInteraction(Interaction, Participant, Participant) - Method in class psidev.psi.mi.jami.binary.expansion.BipartiteExpansion: createBinaryInteraction
createBinaryInteraction(Interaction, Participant, Participant) - Method in class psidev.psi.mi.jami.binary.expansion.SpokeExpansion: createBinaryInteraction
createBinaryInteraction(ModelledInteraction, P, P) - Method in class psidev.psi.mi.jami.binary.expansion.ModelledInteractionBipartiteExpansion: createBinaryInteraction
createBinaryInteraction(ModelledInteraction, P, P) - Method in class psidev.psi.mi.jami.binary.expansion.ModelledInteractionMatrixExpansion: createBinaryInteraction
createBinaryInteraction(ModelledInteraction, P, P) - Method in class psidev.psi.mi.jami.binary.expansion.ModelledInteractionSpokeExpansion: createBinaryInteraction
createBinaryInteraction(T, P, P) - Method in class psidev.psi.mi.jami.binary.expansion.AbstractBipartiteExpansion: createBinaryInteraction
createBinaryInteraction(T, P, P) - Method in class psidev.psi.mi.jami.binary.expansion.AbstractMatrixExpansion: createBinaryInteraction
createBinaryInteraction(T, P, P) - Method in class psidev.psi.mi.jami.binary.expansion.AbstractSpokeExpansion: createBinaryInteraction
createBinaryInteractionEvidenceFrom(InteractionEvidence) - Static method in class psidev.psi.mi.jami.utils.InteractionUtils: Create a BinaryInteractionEvidenceWrapper from the given interaction evidence which should contain not more than two participants
createBinaryInteractionEvidenceFrom(InteractionEvidence, ParticipantEvidence, ParticipantEvidence, CvTerm) - Method in interface psidev.psi.mi.jami.factory.BinaryInteractionFactory: Create a new BinaryInteractionEvidence object from an InteractionEvidence parent and two participants evidences
createBinaryInteractionEvidenceFrom(InteractionEvidence, ParticipantEvidence, ParticipantEvidence, CvTerm) - Method in class psidev.psi.mi.jami.factory.DefaultBinaryInteractionFactory: Create a new BinaryInteractionEvidence object from an InteractionEvidence parent and two participants evidences
createBinaryInteractionEvidenceFrom(InteractionEvidence, ParticipantEvidence, ParticipantEvidence, CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.factory.xml25.XmlBinaryInteractionFactory: Create a new BinaryInteractionEvidence object from an InteractionEvidence parent and two participants evidences
createBinaryInteractionEvidenceFrom(InteractionEvidence, ParticipantEvidence, ParticipantEvidence, CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.factory.xml30.XmlBinaryInteractionFactory: Create a new BinaryInteractionEvidence object from an InteractionEvidence parent and two participants evidences
createBinaryInteractionEvidenceWrapperFrom(InteractionEvidence) - Method in interface psidev.psi.mi.jami.factory.BinaryInteractionFactory: Creates a BinaryInteractionEvidence that wraps the given interaction
createBinaryInteractionEvidenceWrapperFrom(InteractionEvidence) - Method in class psidev.psi.mi.jami.factory.DefaultBinaryInteractionFactory: Creates a BinaryInteractionEvidence that wraps the given interaction
createBinaryInteractionEvidenceWrapperFrom(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.model.extension.factory.xml25.XmlBinaryInteractionFactory: Creates a BinaryInteractionEvidence that wraps the given interaction
createBinaryInteractionEvidenceWrapperFrom(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.model.extension.factory.xml30.XmlBinaryInteractionFactory: Creates a BinaryInteractionEvidence that wraps the given interaction
createBinaryInteractionFrom(Interaction) - Static method in class psidev.psi.mi.jami.utils.InteractionUtils: Create a BinaryInteractionWrapper from the given interaction which should contain not more than two participants.
createBinaryInteractionWrapperFrom(Interaction) - Method in interface psidev.psi.mi.jami.factory.BinaryInteractionFactory: Creates a BinaryInteraction that wraps the given interaction
createBinaryInteractionWrapperFrom(Interaction) - Method in class psidev.psi.mi.jami.factory.DefaultBinaryInteractionFactory: Creates a BinaryInteraction that wraps the given interaction
createBinaryInteractionWrapperFrom(Interaction) - Method in class psidev.psi.mi.jami.xml.model.extension.factory.xml25.XmlBinaryInteractionFactory: Creates a BinaryInteraction that wraps the given interaction
createBinaryInteractionWrapperFrom(Interaction) - Method in class psidev.psi.mi.jami.xml.model.extension.factory.xml30.XmlBinaryInteractionFactory: Creates a BinaryInteraction that wraps the given interaction
createBinaryInteractionWrappersFrom(InteractionEvidence) - Method in class psidev.psi.mi.jami.binary.expansion.InteractionEvidenceBipartiteExpansion: createBinaryInteractionWrappersFrom
createBinaryInteractionWrappersFrom(InteractionEvidence) - Method in class psidev.psi.mi.jami.binary.expansion.InteractionEvidenceMatrixExpansion: createBinaryInteractionWrappersFrom
createBinaryInteractionWrappersFrom(InteractionEvidence) - Method in class psidev.psi.mi.jami.binary.expansion.InteractionEvidenceSpokeExpansion: createBinaryInteractionWrappersFrom
createBinaryInteractionWrappersFrom(ModelledInteraction) - Method in class psidev.psi.mi.jami.binary.expansion.ModelledInteractionBipartiteExpansion: createBinaryInteractionWrappersFrom
createBinaryInteractionWrappersFrom(ModelledInteraction) - Method in class psidev.psi.mi.jami.binary.expansion.ModelledInteractionMatrixExpansion: createBinaryInteractionWrappersFrom
createBinaryInteractionWrappersFrom(ModelledInteraction) - Method in class psidev.psi.mi.jami.binary.expansion.ModelledInteractionSpokeExpansion: createBinaryInteractionWrappersFrom
createBinaryInteractionWrappersFrom(T) - Method in class psidev.psi.mi.jami.binary.expansion.AbstractComplexExpansionMethod: createBinaryInteractionWrappersFrom
createBindingFeaturesWriter(XMLStreamWriter, PsiXmlObjectCache) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createBindingFeaturesWriter.
createBioactiveEntity(String, CvTerm) - Method in class psidev.psi.mi.jami.factory.DefaultInteractorFactory: Creates a new BioactiveEntity with the name and interactor type
createBioactiveEntity(String, CvTerm) - Method in interface psidev.psi.mi.jami.factory.InteractorFactory: Creates a new BioactiveEntity with the name and interactor type
createBioactiveEntity(String, CvTerm) - Method in class psidev.psi.mi.jami.tab.extension.factory.MitabInteractorFactory: Creates a new BioactiveEntity with the name and interactor type
createBioactiveEntity(String, CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.factory.XmlInteractorFactory: Creates a new BioactiveEntity with the name and interactor type
createBioactiveEntityChebi(String, String) - Static method in class psidev.psi.mi.jami.utils.InteractorUtils: createBioactiveEntityChebi
createBioactiveEntitySmile(String, String) - Static method in class psidev.psi.mi.jami.utils.InteractorUtils: createBioactiveEntitySmile
createBioactiveEntityStandardInchi(String, String) - Static method in class psidev.psi.mi.jami.utils.InteractorUtils: createBioactiveEntityStandardInchi
createBioactiveEntityStandardInchiKey(String, String) - Static method in class psidev.psi.mi.jami.utils.InteractorUtils: createBioactiveEntityStandardInchiKey
createBioactiveEntityType() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createBioactiveEntityType
createBiologicalFeatureType() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createBiologicalFeatureType
createBipartiteComplexExpansion(InteractionCategory) - Method in interface psidev.psi.mi.jami.factory.ComplexExpansionFactory: Create an instance of bipartite complex expansion that suits the interactionCategory
createBipartiteComplexExpansion(InteractionCategory) - Method in class psidev.psi.mi.jami.factory.DefaultComplexExpansionFactory: Create an instance of bipartite complex expansion that suits the interactionCategory
createCausalRelationshipWriter(XMLStreamWriter, boolean, PsiXmlObjectCache, PsiXmlVariableNameWriter<CvTerm>) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createCausalRelationshipWriter.
createCaution(String) - Static method in class psidev.psi.mi.jami.utils.AnnotationUtils: createCaution
createCertainPosition(int) - Static method in class psidev.psi.mi.jami.utils.PositionUtils: createCertainPosition
createCertainRange(int) - Static method in class psidev.psi.mi.jami.utils.RangeUtils: createCertainRange
createCertainRange(int, int) - Static method in class psidev.psi.mi.jami.utils.RangeUtils: createCertainRange
createCertainStatus() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createCertainStatus
createChebiDatabase() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createChebiDatabase
createChebiIdentity(String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: createChebiIdentity
createChebiSecondary(String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: createChebiSecondary
createChecksum(String, String) - Static method in class psidev.psi.mi.jami.utils.ChecksumUtils: createChecksum
createChecksum(String, String, String) - Static method in class psidev.psi.mi.jami.utils.ChecksumUtils: createChecksum
createChecksumFromAlias(Interactor, MitabAlias) - Method in class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionLineParser: createChecksumFromAlias.
createChecksumFromAltId(Interactor, MitabXref) - Method in class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionLineParser: createChecksumFromAltId.
createChecksumFromId(Interaction, MitabXref) - Method in class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionLineParser: createChecksumFromId.
createChecksumWriter(XMLStreamWriter) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createChecksumWriter.
createChemicalSynthesisOrganism() - Static method in class psidev.psi.mi.jami.utils.OrganismUtils: createChemicalSynthesisOrganism
createComment(String) - Static method in class psidev.psi.mi.jami.utils.AnnotationUtils: createComment
createComplex(String, CvTerm) - Method in class psidev.psi.mi.jami.factory.DefaultInteractorFactory: Creates a new Complex with the name and interactor type
createComplex(String, CvTerm) - Method in interface psidev.psi.mi.jami.factory.InteractorFactory: Creates a new Complex with the name and interactor type
createComplex(String, CvTerm) - Method in class psidev.psi.mi.jami.tab.extension.factory.MitabInteractorFactory: Creates a new Complex with the name and interactor type
createComplex(String, CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.factory.XmlInteractorFactory: Creates a new Complex with the name and interactor type
createComplexEntity(T) - Method in class psidev.psi.mi.jami.binary.expansion.AbstractBipartiteExpansion: createComplexEntity
createComplexExpansionMethod(InteractionCategory, ComplexExpansionType) - Method in interface psidev.psi.mi.jami.factory.ComplexExpansionFactory: Create an instance of complex expansion that suits the interactionCategory and the ComplexExpansionType
createComplexExpansionMethod(InteractionCategory, ComplexExpansionType) - Method in class psidev.psi.mi.jami.factory.DefaultComplexExpansionFactory: Create an instance of complex expansion that suits the interactionCategory and the ComplexExpansionType
createComplexInteractorType() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createComplexInteractorType
createComplexPhysicalProperties() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createComplexPhysicalProperties
createComplexPortalDatabase() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createComplexPortalDatabase
createComplexPortalPrimaryQualifier() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createComplexPortalPrimaryQualifier
createComplexRecommendedName() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createComplexRecommendedName
createComplexSynonym() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createComplexSynonym
createComplexSynonym(String) - Static method in class psidev.psi.mi.jami.utils.AliasUtils: createComplexSynonym
createComplexSystematicName() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createComplexSystematicName
createConfidence(String, String) - Static method in class psidev.psi.mi.jami.utils.ConfidenceUtils: createConfidence
createConfidence(String, String, String) - Static method in class psidev.psi.mi.jami.utils.ConfidenceUtils: createConfidence
createConfidenceWriters(XMLStreamWriter, boolean, PsiXmlObjectCache, PsiXmlVersion, PsiXmlVariableNameWriter<CvTerm>, PsiXmlPublicationWriter) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createConfidenceWriters.
createCooperativityEvidenceWriter(XMLStreamWriter, boolean, PsiXmlVariableNameWriter<CvTerm>, PsiXmlPublicationWriter) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createCooperativityEvidenceWriter.
createCrossLinkFeatureEvidence(CsvRange) - Method in class psidev.psi.mi.jami.crosslink.io.parser.AbstractCsvInteractionEvidenceParser: createCrossLinkFeatureEvidence.
createCsvIterator() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: createCsvIterator.
createCsvIterator() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: createCsvIterator.
createCTerminalPosition(int) - Static method in class psidev.psi.mi.jami.utils.PositionUtils: createCTerminalPosition
createCTerminalRange() - Static method in class psidev.psi.mi.jami.utils.RangeUtils: createCTerminalRange
createCTerminalRangePosition() - Static method in class psidev.psi.mi.jami.utils.PositionUtils: createCTerminalRangePosition
createCTerminalRangeStatus() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createCTerminalRangeStatus
createCTerminalStatus() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createCTerminalStatus
createCTerminusRange(int) - Static method in class psidev.psi.mi.jami.utils.RangeUtils: createCTerminusRange
createCvWriter(XMLStreamWriter, boolean, PsiXmlElementWriter<Alias>, PsiXmlXrefWriter) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createCvWriter.
created - Variable in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.DbReferenceType
createDbReferenceType() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.ObjectFactory: Create an instance of DbReferenceType
createDdbjEmblGenbankDatabase() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createDdbjEmblGenbankDatabase
createDdbjEmblGenbankIdentity(String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: createDdbjEmblGenbankIdentity
createDdbjEmblGenbankSecondary(String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: createDdbjEmblGenbankSecondary
createDefaultComplexExpansion(ComplexExpansionType) - Method in interface psidev.psi.mi.jami.factory.ComplexExpansionFactory: Create an instance of complex expansion that suits the ComplexExpansionType and can deal with any kind of interactions (modelled, evidence)
createDefaultComplexExpansion(ComplexExpansionType) - Method in class psidev.psi.mi.jami.factory.DefaultComplexExpansionFactory: Create an instance of complex expansion that suits the ComplexExpansionType and can deal with any kind of interactions (modelled, evidence)
createDefaultFeature(String, CvTerm, Collection<Range>) - Static method in class psidev.psi.mi.jami.utils.FeatureUtils: createDefaultFeature
createDefaultFeature(String, CvTerm, Range) - Static method in class psidev.psi.mi.jami.utils.FeatureUtils: createDefaultFeature
createDefaultInteractorType() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: createDefaultInteractorType.
createDefaultInteractorType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractor: createDefaultInteractorType.
createDefaultInteractorType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractorPool: createDefaultInteractorType.
createDefaultInteractorType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPolymer: createDefaultInteractorType.
createDefaultInteractorType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractor: createDefaultInteractorType.
createDefaultInteractorType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractorPool: createDefaultInteractorType.
createDefaultInteractorType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPolymer: createDefaultInteractorType.
createDefaultInteractorType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractor: createDefaultInteractorType.
createDefaultInteractorType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractorPool: createDefaultInteractorType.
createDefaultInteractorType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPolymer: createDefaultInteractorType.
createDefaultPsiXmlInteractionWriters(XMLStreamWriter, PsiXmlObjectCache, PsiXmlVersion, PsiXmlType, InteractionCategory, ComplexType, PsiXmlElementWriter<Alias>, PsiXmlElementWriter<Annotation>, PsiXmlXrefWriter, PsiXmlElementWriter[], PsiXmlElementWriter<Checksum>, PsiXmlVariableNameWriter<CvTerm>, PsiXmlExperimentWriter, PsiXmlElementWriter<String>, PsiXmlParameterWriter[], PsiXmlParticipantWriter[], PsiXmlElementWriter, PsiXmlPublicationWriter, PsiXmlVariableNameWriter<CvTerm>) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createDefaultPsiXmlInteractionWriters.
createDefinitionFor(String, CvTerm) - Method in class psidev.psi.mi.jami.bridges.obo.CvOboLoader: createDefinitionFor.
createDefinitionFor(String, OntologyTerm) - Method in class psidev.psi.mi.jami.bridges.obo.OntologyOboLoader: createDefinitionFor.
createDefinitionFor(String, Source) - Method in class psidev.psi.mi.jami.bridges.obo.SourceOboLoader: createDefinitionFor.
createDefinitionFor(String, T) - Method in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: createDefinitionFor.
createDoiDatabase() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createDoiDatabase
createDoiIdentity(String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: createDoiIdentity
createECOCvTerm(String, String) - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createECOCvTerm
createEdge(F, F) - Method in class psidev.psi.mi.jami.analysis.graph.BindingPairFactory: createEdge
createEmptyBasicExperimentalInteraction() - Static method in class psidev.psi.mi.jami.utils.InteractionUtils: createEmptyBasicExperimentalInteraction
createEnsemblDatabase() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createEnsemblDatabase
createEnsemblGenomesDatabase() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createEnsemblGenomesDatabase
createEnsemblGenomesIdentity(String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: createEnsemblGenomesIdentity
createEnsemblGenomesSecondary(String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: createEnsemblGenomesSecondary
createEnsemblIdentity(String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: createEnsemblIdentity
createEnsemblSecondary(String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: createEnsemblSecondary
createEntrezGeneIdDatabase() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createEntrezGeneIdDatabase
createEntrezGeneIdIdentity(String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: createEntrezGeneIdIdentity
createEntrezGeneIdSecondary(String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: createEntrezGeneIdSecondary
createEntry() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.ObjectFactory: Create an instance of Entry
createExperiment(String, String, CvTerm, Organism) - Static method in class psidev.psi.mi.jami.utils.ExperimentUtils: createExperiment
createExperiment(String, CvTerm, Organism) - Static method in class psidev.psi.mi.jami.utils.ExperimentUtils: createExperiment
createExperimentalCvWriter(XMLStreamWriter, PsiXmlVersion, boolean, PsiXmlObjectCache, PsiXmlElementWriter<Alias>, PsiXmlXrefWriter) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createExperimentalCvWriter.
createExperimentalInteractorWriter(XMLStreamWriter, PsiXmlVersion, PsiXmlObjectCache, PsiXmlType) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createExperimentalInteractorWriter.
createExperimentalParticipantPool(List<CsvProtein>, int, int, List<CsvRange>) - Method in class psidev.psi.mi.jami.crosslink.io.parser.AbstractCsvInteractionEvidenceParser: createExperimentalParticipantPool.
createExperimentFrom(MitabPublication, Collection<MitabCvTerm>, Collection<MitabOrganism>) - Method in class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionEvidenceLineParser: createExperimentFrom.
createExperimentWithoutPublication() - Static method in class psidev.psi.mi.jami.utils.ExperimentUtils: createExperimentWithoutPublication
createExperimentWriter(XMLStreamWriter, boolean, PsiXmlObjectCache, PsiXmlVersion, boolean, PsiXmlElementWriter<Alias>, PsiXmlElementWriter<Annotation>, PsiXmlXrefWriter, PsiXmlPublicationWriter, PsiXmlElementWriter<Organism>, PsiXmlVariableNameWriter<CvTerm>, PsiXmlElementWriter<Confidence>) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createExperimentWriter.
createExtendedInferredInteractionWriter(XMLStreamWriter, PsiXmlObjectCache) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createExtendedInferredInteractionWriter.
createExtendedPsiXmlInteractionWriters(XMLStreamWriter, PsiXmlObjectCache, PsiXmlVersion, PsiXmlType, InteractionCategory, ComplexType, PsiXmlElementWriter<Alias>, PsiXmlElementWriter<Annotation>, PsiXmlXrefWriter, PsiXmlElementWriter[], PsiXmlElementWriter<Checksum>, PsiXmlVariableNameWriter<CvTerm>, PsiXmlExperimentWriter, PsiXmlElementWriter<String>, PsiXmlParameterWriter[], PsiXmlParticipantWriter[], PsiXmlElementWriter, PsiXmlPublicationWriter, PsiXmlVariableNameWriter<CvTerm>) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createExtendedPsiXmlInteractionWriters.
createFeatureEvidence(String, CvTerm, Collection<CvTerm>, Collection<Range>) - Static method in class psidev.psi.mi.jami.utils.FeatureUtils: createFeatureEvidence
createFeatureEvidence(String, CvTerm, Collection<CvTerm>, Range) - Static method in class psidev.psi.mi.jami.utils.FeatureUtils: createFeatureEvidence
createFeatureEvidence(String, CvTerm, Collection<Range>) - Static method in class psidev.psi.mi.jami.utils.FeatureUtils: createFeatureEvidence
createFeatureEvidence(String, CvTerm, CvTerm, Collection<Range>) - Static method in class psidev.psi.mi.jami.utils.FeatureUtils: createFeatureEvidence
createFeatureEvidence(String, CvTerm, CvTerm, Range) - Static method in class psidev.psi.mi.jami.utils.FeatureUtils: createFeatureEvidence
createFeatureEvidence(String, CvTerm, Range) - Static method in class psidev.psi.mi.jami.utils.FeatureUtils: createFeatureEvidence
createFeatureWriter(XMLStreamWriter, boolean, PsiXmlObjectCache, PsiXmlVersion, InteractionCategory, PsiXmlElementWriter<Alias>, PsiXmlElementWriter<Annotation>, PsiXmlXrefWriter, PsiXmlVariableNameWriter<CvTerm>, PsiXmlParameterWriter) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createFeatureWriter.
createFullUnmarshaller(PsiXmlVersion, InteractionCategory) - Method in class psidev.psi.mi.jami.xml.io.parser.JaxbUnmarshallerFactory: createFullUnmarshaller.
createFullXml253JAXBUnmarshaller(InteractionCategory) - Method in class psidev.psi.mi.jami.xml.io.parser.JaxbUnmarshallerFactory: createFullXml253JAXBUnmarshaller.
createFullXml254JAXBUnmarshaller(InteractionCategory) - Method in class psidev.psi.mi.jami.xml.io.parser.JaxbUnmarshallerFactory: createFullXml254JAXBUnmarshaller.
createFullXml300JAXBUnmarshaller(InteractionCategory) - Method in class psidev.psi.mi.jami.xml.io.parser.JaxbUnmarshallerFactory: createFullXml300JAXBUnmarshaller.
createFuzzyPosition(int) - Static method in class psidev.psi.mi.jami.utils.PositionUtils: createFuzzyPosition
createFuzzyPosition(int, int) - Static method in class psidev.psi.mi.jami.utils.PositionUtils: createFuzzyPosition
createFuzzyRange(int) - Static method in class psidev.psi.mi.jami.utils.RangeUtils: createFuzzyRange
createFuzzyRange(int, int) - Static method in class psidev.psi.mi.jami.utils.RangeUtils: createFuzzyRange
createFuzzyRange(int, int, int, int) - Static method in class psidev.psi.mi.jami.utils.RangeUtils: createFuzzyRange
createGene(String) - Method in class psidev.psi.mi.jami.factory.DefaultInteractorFactory: Creates a new Gene with the name
createGene(String) - Method in interface psidev.psi.mi.jami.factory.InteractorFactory: Creates a new Gene with the name
createGene(String) - Method in class psidev.psi.mi.jami.tab.extension.factory.MitabInteractorFactory: Creates a new Gene with the name
createGene(String) - Method in class psidev.psi.mi.jami.xml.model.extension.factory.XmlInteractorFactory: Creates a new Gene with the name
createGeneEnsembl(String, String) - Static method in class psidev.psi.mi.jami.utils.InteractorUtils: createGeneEnsembl
createGeneEnsemblGenomes(String, String) - Static method in class psidev.psi.mi.jami.utils.InteractorUtils: createGeneEnsemblGenomes
createGeneEntrezGene(String, String) - Static method in class psidev.psi.mi.jami.utils.InteractorUtils: createGeneEntrezGene
createGeneInteractorType() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createGeneInteractorType
createGeneName(String) - Static method in class psidev.psi.mi.jami.utils.AliasUtils: createGeneName
createGeneNameAliasType() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createGeneNameAliasType
createGeneNameSynonym() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createGeneNameSynonym
createGeneNameSynonym(String) - Static method in class psidev.psi.mi.jami.utils.AliasUtils: createGeneNameSynonym
createGeneRefseq(String, String) - Static method in class psidev.psi.mi.jami.utils.InteractorUtils: createGeneRefseq
createGOCvTerm(String, String) - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createGOCvTerm
createGreaterThanPosition(int) - Static method in class psidev.psi.mi.jami.utils.PositionUtils: createGreaterThanPosition
createGreaterThanRange(int) - Static method in class psidev.psi.mi.jami.utils.RangeUtils: createGreaterThanRange
createGreaterThanRange(int, int) - Static method in class psidev.psi.mi.jami.utils.RangeUtils: createGreaterThanRange
createGreaterThanRangeStatus() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createGreaterThanRangeStatus
createHostOrganismWriter(XMLStreamWriter, PsiXmlVersion, boolean, PsiXmlObjectCache, PsiXmlElementWriter<Alias>, PsiXmlElementWriter<Annotation>, PsiXmlXrefWriter, PsiXmlVariableNameWriter<CvTerm>) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createHostOrganismWriter.
createIdentityQualifier() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createIdentityQualifier
createIdentityQualifier(CvTerm) - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createIdentityQualifier
createIdentityQualifierNameOnly() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createIdentityQualifierNameOnly
createIdentityXref(String, String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: createIdentityXref
createIdentityXref(String, String, String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: createIdentityXref
createIdentityXrefQualifier() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createIdentityXrefQualifier
createImexDatabase() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createImexDatabase
createImexPrimaryQualifier() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createImexPrimaryQualifier
createInferredInteractionWriter(XMLStreamWriter, PsiXmlObjectCache) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createInferredInteractionWriter.
createInSilicoOrganism() - Static method in class psidev.psi.mi.jami.utils.OrganismUtils: createInSilicoOrganism
createInteraction() - Static method in class psidev.psi.mi.jami.examples.core.CreateRogidAndRigid: createInteraction.
createInteraction() - Method in class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionLineParser: createInteraction.
createInteraction() - Method in class psidev.psi.mi.jami.tab.io.parser.AbstractLightInteractionLineParser: createInteraction.
createInteraction() - Method in class psidev.psi.mi.jami.tab.io.parser.BinaryEvidenceLineParser: createInteraction.
createInteraction() - Method in class psidev.psi.mi.jami.tab.io.parser.BinaryLineParser: createInteraction.
createInteraction() - Method in class psidev.psi.mi.jami.tab.io.parser.InteractionEvidenceLineParser: createInteraction.
createInteraction() - Method in class psidev.psi.mi.jami.tab.io.parser.InteractionLineParser: createInteraction.
createInteraction() - Method in class psidev.psi.mi.jami.tab.io.parser.ModelledBinaryLineParser: createInteraction.
createInteraction() - Method in class psidev.psi.mi.jami.tab.io.parser.ModelledInteractionLineParser: createInteraction.
createInteractionWithBait() - Static method in class psidev.psi.mi.jami.examples.core.ComplexExpansionWithJami: createInteractionWithBait.
createInteractionWithLinkedFeatures() - Static method in class psidev.psi.mi.jami.examples.core.BuildBindingSitesCliqueGraph: createInteractionWithLinkedFeatures.
createInteractionWritersFor(XMLStreamWriter, PsiXmlObjectCache, PsiXmlVersion, PsiXmlType, InteractionCategory, ComplexType, boolean, boolean, PsiXmlElementWriter<Alias>, PsiXmlElementWriter<Annotation>, PsiXmlXrefWriter, PsiXmlElementWriter[], PsiXmlElementWriter<Checksum>, PsiXmlVariableNameWriter<CvTerm>, PsiXmlVariableNameWriter<CvTerm>, PsiXmlExperimentWriter, PsiXmlElementWriter<String>, PsiXmlElementWriter<Interactor>, PsiXmlPublicationWriter) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createInteractionWritersFor.
createInteractor(String, CvTerm) - Method in class psidev.psi.mi.jami.factory.DefaultInteractorFactory: Creates a default interactor from the name and interactor type
createInteractor(String, CvTerm) - Method in interface psidev.psi.mi.jami.factory.InteractorFactory: Creates a default interactor from the name and interactor type
createInteractor(String, CvTerm) - Method in class psidev.psi.mi.jami.tab.extension.factory.MitabInteractorFactory: Creates a default interactor from the name and interactor type
createInteractor(String, CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.factory.XmlInteractorFactory: Creates a default interactor from the name and interactor type
createInteractorFrom(Collection<MitabXref>, Collection<MitabXref>, Collection<MitabAlias>, Collection<MitabOrganism>, Collection<MitabCvTerm>, Collection<MitabXref>, Collection<MitabChecksum>, int, int, int) - Method in class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionLineParser: createInteractorFrom.
createInteractorFromDatabase(CvTerm, String) - Method in class psidev.psi.mi.jami.factory.DefaultInteractorFactory: Return the proper instance of the interactor if the database is recognized.
createInteractorFromDatabase(CvTerm, String) - Method in interface psidev.psi.mi.jami.factory.InteractorFactory: Return the proper instance of the interactor if the database is recognized.
createInteractorFromIdentityXrefs(Collection<? extends Xref>, String) - Method in class psidev.psi.mi.jami.factory.DefaultInteractorFactory: Return the proper instance of the interactor if the database is recognized (the interactor will be returned on the first database which is recognized).
createInteractorFromIdentityXrefs(Collection<? extends Xref>, String) - Method in interface psidev.psi.mi.jami.factory.InteractorFactory: Return the proper instance of the interactor if the database is recognized (the interactor will be returned on the first database which is recognized).
createInteractorFromInteractorType(CvTerm, String) - Method in class psidev.psi.mi.jami.factory.DefaultInteractorFactory: Return the proper instance of the interactor if the type is recognized and not null.
createInteractorFromInteractorType(CvTerm, String) - Method in interface psidev.psi.mi.jami.factory.InteractorFactory: Return the proper instance of the interactor if the type is recognized and not null.
createInteractorFromInteractorTypes(Collection<MitabCvTerm>, String) - Method in class psidev.psi.mi.jami.tab.extension.factory.MitabInteractorFactory: Return the proper instance of the interactor if at least one type is recognized (always take the first recognized type).
createInteractorFromRecognizedCategory(InteractorCategory, String, CvTerm) - Method in class psidev.psi.mi.jami.factory.DefaultInteractorFactory: Creates an interactor from a given category (should be the canonical name of an Interactor interface)
createInteractorFromXmlInteractorInstance(AbstractBaseXmlInteractor) - Method in class psidev.psi.mi.jami.xml.model.extension.factory.XmlInteractorFactory: createInteractorFromXmlInteractorInstance.
createInteractorSet(String, CvTerm) - Method in class psidev.psi.mi.jami.factory.DefaultInteractorFactory: Creates an interactor pool from the name and interactor type
createInteractorSet(String, CvTerm) - Method in interface psidev.psi.mi.jami.factory.InteractorFactory: Creates an interactor pool from the name and interactor type
createInteractorSet(String, CvTerm) - Method in class psidev.psi.mi.jami.tab.extension.factory.MitabInteractorFactory: Creates an interactor pool from the name and interactor type
createInteractorSet(String, CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.factory.XmlInteractorFactory: Creates an interactor pool from the name and interactor type
createInteractorWriter(PsiXmlVersion, XMLStreamWriter, boolean, PsiXmlObjectCache, PsiXmlElementWriter<Alias>, PsiXmlElementWriter<Annotation>, PsiXmlXrefWriter, PsiXmlVariableNameWriter<CvTerm>, PsiXmlElementWriter<Organism>, PsiXmlElementWriter<Checksum>) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createInteractorWriter.
createInterproDatabase() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createInterproDatabase
createInVitroOrganism() - Static method in class psidev.psi.mi.jami.utils.OrganismUtils: createInVitroOrganism
createInVivoOrganism() - Static method in class psidev.psi.mi.jami.utils.OrganismUtils: createInVivoOrganism
createIsoformSynonym() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createIsoformSynonym
createIsoformSynonym(String) - Static method in class psidev.psi.mi.jami.utils.AliasUtils: createIsoformSynonym
createJAXBUnmarshaller() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractFullPsiXmlParser: createJAXBUnmarshaller.
createJAXBUnmarshaller() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: createJAXBUnmarshaller.
createJAXBUnmarshaller() - Method in class psidev.psi.mi.jami.xml.io.parser.FullXmlComplexParser: createJAXBUnmarshaller.
createJAXBUnmarshaller() - Method in class psidev.psi.mi.jami.xml.io.parser.FullXmlEvidenceParser: createJAXBUnmarshaller.
createJAXBUnmarshaller() - Method in class psidev.psi.mi.jami.xml.io.parser.FullXmlModelledParser: createJAXBUnmarshaller.
createJAXBUnmarshaller() - Method in class psidev.psi.mi.jami.xml.io.parser.FullXmlParser: createJAXBUnmarshaller.
createJAXBUnmarshaller() - Method in class psidev.psi.mi.jami.xml.io.parser.LightFullXmlParser: createJAXBUnmarshaller.
createJAXBUnmarshaller() - Method in class psidev.psi.mi.jami.xml.io.parser.LightXmlParser: createJAXBUnmarshaller.
createJAXBUnmarshaller() - Method in class psidev.psi.mi.jami.xml.io.parser.XmlComplexParser: createJAXBUnmarshaller.
createJAXBUnmarshaller() - Method in class psidev.psi.mi.jami.xml.io.parser.XmlEvidenceParser: createJAXBUnmarshaller.
createJAXBUnmarshaller() - Method in class psidev.psi.mi.jami.xml.io.parser.XmlModelledParser: createJAXBUnmarshaller.
createJAXBUnmarshaller() - Method in class psidev.psi.mi.jami.xml.io.parser.XmlParser: createJAXBUnmarshaller.
createLessThanPosition(int) - Static method in class psidev.psi.mi.jami.utils.PositionUtils: createLessThanPosition
createLessThanRange(int) - Static method in class psidev.psi.mi.jami.utils.RangeUtils: createLessThanRange
createLessThanRange(int, int) - Static method in class psidev.psi.mi.jami.utils.RangeUtils: createLessThanRange
createLessThanRangeStatus() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createLessThanRangeStatus
createLinkedCertainRange(int) - Static method in class psidev.psi.mi.jami.utils.RangeUtils: createLinkedCertainRange
createLinkedCertainRange(int, int) - Static method in class psidev.psi.mi.jami.utils.RangeUtils: createLinkedCertainRange
createLinkedFuzzyRange(int) - Static method in class psidev.psi.mi.jami.utils.RangeUtils: createLinkedFuzzyRange
createLinkedFuzzyRange(int, int) - Static method in class psidev.psi.mi.jami.utils.RangeUtils: createLinkedFuzzyRange
createLinkedFuzzyRange(int, int, int, int) - Static method in class psidev.psi.mi.jami.utils.RangeUtils: createLinkedFuzzyRange
createLinkedRaggedNTerminusRange(int) - Static method in class psidev.psi.mi.jami.utils.RangeUtils: createLinkedRaggedNTerminusRange
createLinkedRaggedNTerminusRange(int, int) - Static method in class psidev.psi.mi.jami.utils.RangeUtils: createLinkedRaggedNTerminusRange
createLinkedRange(String, String, int) - Static method in class psidev.psi.mi.jami.utils.RangeUtils: createLinkedRange
createLinkedRange(String, String, int, int) - Static method in class psidev.psi.mi.jami.utils.RangeUtils: createLinkedRange
createLocationType() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.ObjectFactory: Create an instance of LocationType
createLocusName() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createLocusName
createLocusName(String) - Static method in class psidev.psi.mi.jami.utils.AliasUtils: createLocusName
createMatrixComplexExpansion(InteractionCategory) - Method in interface psidev.psi.mi.jami.factory.ComplexExpansionFactory: Create an instance of matrix complex expansion that suits the interactionCategory
createMatrixComplexExpansion(InteractionCategory) - Method in class psidev.psi.mi.jami.factory.DefaultComplexExpansionFactory: Create an instance of matrix complex expansion that suits the interactionCategory
createMICvTerm(String, String) - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createMICvTerm
createMitabBinaryDataSource(InteractionCategory, boolean) - Method in class psidev.psi.mi.jami.tab.extension.factory.MitabDataSourceFactory: createMitabBinaryDataSource.
createMitabBinaryWriter(InteractionCategory, MitabVersion, boolean) - Method in class psidev.psi.mi.jami.tab.extension.factory.MitabWriterFactory: createMitabBinaryWriter.
createMitabDataSource(InteractionCategory, boolean) - Method in class psidev.psi.mi.jami.tab.extension.factory.MitabDataSourceFactory: createMitabDataSource.
createMitabDataSource(InteractionCategory, ComplexType, boolean) - Method in class psidev.psi.mi.jami.tab.extension.factory.MitabDataSourceFactory: createMitabDataSource.
createMitabIterator() - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: createMitabIterator.
createMitabIterator() - Method in class psidev.psi.mi.jami.tab.extension.datasource.LightMitabBinaryStreamSource: createMitabIterator.
createMitabIterator() - Method in class psidev.psi.mi.jami.tab.extension.datasource.LightMitabStreamSource: createMitabIterator.
createMitabIterator() - Method in class psidev.psi.mi.jami.tab.extension.datasource.MitabBinaryEvidenceStreamSource: createMitabIterator.
createMitabIterator() - Method in class psidev.psi.mi.jami.tab.extension.datasource.MitabEvidenceStreamSource: createMitabIterator.
createMitabIterator() - Method in class psidev.psi.mi.jami.tab.extension.datasource.MitabModelledBinaryStreamSource: createMitabIterator.
createMitabIterator() - Method in class psidev.psi.mi.jami.tab.extension.datasource.MitabModelledStreamSource: createMitabIterator.
createMitabWriter(InteractionCategory, ComplexType, MitabVersion, boolean) - Method in class psidev.psi.mi.jami.tab.extension.factory.MitabWriterFactory: createMitabWriter.
createMitabWriter(InteractionCategory, MitabVersion, boolean) - Method in class psidev.psi.mi.jami.tab.extension.factory.MitabWriterFactory: createMitabWriter.
createMODCvTerm(String, String) - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createMODCvTerm
createModelledBinaryInteractionFrom(ModelledInteraction) - Static method in class psidev.psi.mi.jami.utils.InteractionUtils: Create a ModelledBinaryInteractionWrapper from the given modelled interaction which should contain not more than two participants
createModelledBinaryInteractionFrom(ModelledInteraction, ModelledParticipant, ModelledParticipant, CvTerm) - Method in interface psidev.psi.mi.jami.factory.BinaryInteractionFactory: Create a new ModelledBinaryInteraction object from a ModelledInteraction parent and two modelled participants
createModelledBinaryInteractionFrom(ModelledInteraction, ModelledParticipant, ModelledParticipant, CvTerm) - Method in class psidev.psi.mi.jami.factory.DefaultBinaryInteractionFactory: Create a new ModelledBinaryInteraction object from a ModelledInteraction parent and two modelled participants
createModelledBinaryInteractionFrom(ModelledInteraction, ModelledParticipant, ModelledParticipant, CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.factory.xml25.XmlBinaryInteractionFactory: Create a new ModelledBinaryInteraction object from a ModelledInteraction parent and two modelled participants
createModelledBinaryInteractionFrom(ModelledInteraction, ModelledParticipant, ModelledParticipant, CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.factory.xml30.XmlBinaryInteractionFactory: Create a new ModelledBinaryInteraction object from a ModelledInteraction parent and two modelled participants
createModelledBinaryInteractionWrapperFrom(ModelledInteraction) - Method in interface psidev.psi.mi.jami.factory.BinaryInteractionFactory: Creates a ModelledBinaryInteraction that wraps the given interaction
createModelledBinaryInteractionWrapperFrom(ModelledInteraction) - Method in class psidev.psi.mi.jami.factory.DefaultBinaryInteractionFactory: Creates a ModelledBinaryInteraction that wraps the given interaction
createModelledBinaryInteractionWrapperFrom(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.model.extension.factory.xml25.XmlBinaryInteractionFactory: Creates a ModelledBinaryInteraction that wraps the given interaction
createModelledBinaryInteractionWrapperFrom(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.model.extension.factory.xml30.XmlBinaryInteractionFactory: Creates a ModelledBinaryInteraction that wraps the given interaction
createModelledFeature(String, CvTerm, Collection<Range>) - Static method in class psidev.psi.mi.jami.utils.FeatureUtils: createModelledFeature
createModelledFeature(String, CvTerm, Range) - Static method in class psidev.psi.mi.jami.utils.FeatureUtils: createModelledFeature
createMoleculeSetType() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createMoleculeSetType
createNamedPsiXmlInteractionWriters(XMLStreamWriter, PsiXmlObjectCache, PsiXmlVersion, PsiXmlType, InteractionCategory, ComplexType, PsiXmlElementWriter<Alias>, PsiXmlElementWriter<Annotation>, PsiXmlXrefWriter, PsiXmlElementWriter[], PsiXmlElementWriter<Checksum>, PsiXmlVariableNameWriter<CvTerm>, PsiXmlExperimentWriter, PsiXmlElementWriter<String>, PsiXmlParameterWriter[], PsiXmlParticipantWriter[], PsiXmlElementWriter, PsiXmlPublicationWriter, PsiXmlVariableNameWriter<CvTerm>) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createNamedPsiXmlInteractionWriters.
createNewOntologyTerm(String, String) - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.AbstractMIOntologyAccess: createNewOntologyTerm.
createNewSelfBinaryInteractionFrom(Interaction) - Static method in class psidev.psi.mi.jami.utils.InteractionUtils: Creates a new BinaryInteraction from the given interaction which should only contain one participant with a stoichiometry >= 2 or participant stoichiometry null and participant is not self/putative self.
createNewSelfBinaryInteractionsFrom(InteractionEvidence) - Method in class psidev.psi.mi.jami.binary.expansion.InteractionEvidenceBipartiteExpansion: createNewSelfBinaryInteractionsFrom
createNewSelfBinaryInteractionsFrom(InteractionEvidence) - Method in class psidev.psi.mi.jami.binary.expansion.InteractionEvidenceMatrixExpansion: createNewSelfBinaryInteractionsFrom
createNewSelfBinaryInteractionsFrom(InteractionEvidence) - Method in class psidev.psi.mi.jami.binary.expansion.InteractionEvidenceSpokeExpansion: createNewSelfBinaryInteractionsFrom
createNewSelfBinaryInteractionsFrom(ModelledInteraction) - Method in class psidev.psi.mi.jami.binary.expansion.ModelledInteractionBipartiteExpansion: createNewSelfBinaryInteractionsFrom
createNewSelfBinaryInteractionsFrom(ModelledInteraction) - Method in class psidev.psi.mi.jami.binary.expansion.ModelledInteractionMatrixExpansion: createNewSelfBinaryInteractionsFrom
createNewSelfBinaryInteractionsFrom(ModelledInteraction) - Method in class psidev.psi.mi.jami.binary.expansion.ModelledInteractionSpokeExpansion: createNewSelfBinaryInteractionsFrom
createNewSelfBinaryInteractionsFrom(T) - Method in class psidev.psi.mi.jami.binary.expansion.AbstractComplexExpansionMethod: createNewSelfBinaryInteractionsFrom
createNewTerm(Term) - Method in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: createNewTerm.
createNTerminalPosition() - Static method in class psidev.psi.mi.jami.utils.PositionUtils: createNTerminalPosition
createNTerminalRange() - Static method in class psidev.psi.mi.jami.utils.RangeUtils: createNTerminalRange
createNTerminalRangePosition() - Static method in class psidev.psi.mi.jami.utils.PositionUtils: createNTerminalRangePosition
createNTerminalRangeStatus() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createNTerminalRangeStatus
createNTerminalStatus() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createNTerminalStatus
createNTerminusRange() - Static method in class psidev.psi.mi.jami.utils.RangeUtils: createNTerminusRange
createNucleicAcid(String, CvTerm) - Method in class psidev.psi.mi.jami.factory.DefaultInteractorFactory: Creates a new NucleicAcid with the name and interactor type
createNucleicAcid(String, CvTerm) - Method in interface psidev.psi.mi.jami.factory.InteractorFactory: Creates a new NucleicAcid with the name and interactor type
createNucleicAcid(String, CvTerm) - Method in class psidev.psi.mi.jami.tab.extension.factory.MitabInteractorFactory: Creates a new NucleicAcid with the name and interactor type
createNucleicAcid(String, CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.factory.XmlInteractorFactory: Creates a new NucleicAcid with the name and interactor type
createNucleicAcidDdbjEmblGenbank(String, String) - Static method in class psidev.psi.mi.jami.utils.InteractorUtils: createNucleicAcidDdbjEmblGenbank
createNucleicAcidInteractorType() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createNucleicAcidInteractorType
createNucleicAcidRefseq(String, String) - Static method in class psidev.psi.mi.jami.utils.InteractorUtils: createNucleicAcidRefseq
createOpenCvWriter(XMLStreamWriter, boolean, PsiXmlElementWriter<Alias>, PsiXmlElementWriter<Annotation>, PsiXmlXrefWriter) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createOpenCvWriter.
createOrfName() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createOrfName
createOrfName(String) - Static method in class psidev.psi.mi.jami.utils.AliasUtils: createOrfName
createOrganismFromEntry(UniProtEntry) - Static method in class psidev.psi.mi.jami.bridges.uniprot.util.UniprotUtils: createOrganismFromEntry.
createOrganismWriter(XMLStreamWriter, boolean, PsiXmlElementWriter<Alias>, PsiXmlElementWriter<Annotation>, PsiXmlXrefWriter, PsiXmlVariableNameWriter<CvTerm>) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createOrganismWriter.
createParameterFromString(String, String) - Static method in class psidev.psi.mi.jami.utils.ParameterUtils: createParameterFromString
createParameterFromString(String, String, String) - Static method in class psidev.psi.mi.jami.utils.ParameterUtils: createParameterFromString
createParameterFromString(CvTerm, String) - Static method in class psidev.psi.mi.jami.utils.ParameterUtils: createParameterFromString
createParameterFromString(CvTerm, String, CvTerm) - Static method in class psidev.psi.mi.jami.utils.ParameterUtils: createParameterFromString
createParameterWriters(XMLStreamWriter, boolean, PsiXmlObjectCache, PsiXmlVersion, PsiXmlPublicationWriter) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createParameterWriters.
createPARCvTerm(String, String) - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createPARCvTerm
createParticipantCandidateWriter(XMLStreamWriter, boolean, PsiXmlObjectCache, PsiXmlVersion, PsiXmlType, InteractionCategory, PsiXmlElementWriter<Interactor>, PsiXmlElementWriter<ModelledFeature>, PsiXmlElementWriter<FeatureEvidence>) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createParticipantCandidateWriter.
createParticipantEvidence(String, int, String, int, String, int) - Method in class psidev.psi.mi.jami.crosslink.io.parser.AbstractCsvInteractionEvidenceParser: createParticipantEvidence.
createParticipantEvidence(CsvProtein, int, int, CsvRange) - Method in class psidev.psi.mi.jami.crosslink.io.parser.AbstractCsvInteractionEvidenceParser: createParticipantEvidence.
createParticipantForComplexEntity(Complex) - Method in class psidev.psi.mi.jami.binary.expansion.AbstractBipartiteExpansion: createParticipantForComplexEntity
createParticipantForComplexEntity(Complex) - Method in class psidev.psi.mi.jami.binary.expansion.BipartiteExpansion: createParticipantForComplexEntity
createParticipantForComplexEntity(Complex) - Method in class psidev.psi.mi.jami.binary.expansion.InteractionEvidenceBipartiteExpansion: createParticipantForComplexEntity
createParticipantForComplexEntity(Complex) - Method in class psidev.psi.mi.jami.binary.expansion.ModelledInteractionBipartiteExpansion: createParticipantForComplexEntity
createParticipantsArray(Interaction) - Method in class psidev.psi.mi.jami.binary.expansion.MatrixExpansion: createParticipantsArray
createParticipantsArray(InteractionEvidence) - Method in class psidev.psi.mi.jami.binary.expansion.InteractionEvidenceMatrixExpansion: createParticipantsArray
createParticipantsArray(ModelledInteraction) - Method in class psidev.psi.mi.jami.binary.expansion.ModelledInteractionMatrixExpansion: createParticipantsArray
createParticipantsArray(T) - Method in class psidev.psi.mi.jami.binary.expansion.AbstractMatrixExpansion: createParticipantsArray
createParticipantWriter(XMLStreamWriter, boolean, PsiXmlObjectCache, PsiXmlVersion, PsiXmlType, InteractionCategory, PsiXmlElementWriter<Alias>, PsiXmlElementWriter<Annotation>, PsiXmlXrefWriter, PsiXmlElementWriter<Confidence>, PsiXmlElementWriter<Interactor>, PsiXmlVariableNameWriter<CvTerm>, PsiXmlVariableNameWriter<CvTerm>, PsiXmlParameterWriter) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createParticipantWriter.
createPolymer(String, String) - Static method in class psidev.psi.mi.jami.utils.InteractorUtils: createPolymer
createPolymer(String, CvTerm) - Method in class psidev.psi.mi.jami.factory.DefaultInteractorFactory: Creates a new Polymer with the name and interactor type
createPolymer(String, CvTerm) - Method in interface psidev.psi.mi.jami.factory.InteractorFactory: Creates a new Polymer with the name and interactor type
createPolymer(String, CvTerm) - Method in class psidev.psi.mi.jami.tab.extension.factory.MitabInteractorFactory: Creates a new Polymer with the name and interactor type
createPolymer(String, CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.factory.XmlInteractorFactory: Creates a new Polymer with the name and interactor type
createPolymerInteractorType() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createPolymerInteractorType
createPosition(String, String, int) - Static method in class psidev.psi.mi.jami.utils.PositionUtils: createPosition
createPositionFromString(String) - Static method in class psidev.psi.mi.jami.utils.PositionUtils: createPositionFromString
createPositionsWriter(XMLStreamWriter, boolean, PsiXmlVariableNameWriter<CvTerm>) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createPositionsWriter.
createPreassemblyWriter(XMLStreamWriter, boolean, PsiXmlObjectCache, PsiXmlVariableNameWriter<CvTerm>, PsiXmlElementWriter<Annotation>, PsiXmlPublicationWriter) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createPreassemblyWriter.
createPrimaryXref(String, String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: createPrimaryXref
createPrimaryXref(String, String, String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: createPrimaryXref
createPropertyType() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.ObjectFactory: Create an instance of PropertyType
createProtein(String, CvTerm) - Method in class psidev.psi.mi.jami.factory.DefaultInteractorFactory: Creates a new Protein with the name and interactor type
createProtein(String, CvTerm) - Method in interface psidev.psi.mi.jami.factory.InteractorFactory: Creates a new Protein with the name and interactor type
createProtein(String, CvTerm) - Method in class psidev.psi.mi.jami.tab.extension.factory.MitabInteractorFactory: Creates a new Protein with the name and interactor type
createProtein(String, CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.factory.XmlInteractorFactory: Creates a new Protein with the name and interactor type
createProteinFromNameAndIdentifier(String, int, int) - Method in class psidev.psi.mi.jami.crosslink.io.parser.AbstractCsvInteractionEvidenceParser: createProteinFromNameAndIdentifier.
createProteinGeneName(String, String) - Static method in class psidev.psi.mi.jami.utils.InteractorUtils: createProteinGeneName
createProteinInteractorType() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createProteinInteractorType
createProteinRefseq(String, String) - Static method in class psidev.psi.mi.jami.utils.InteractorUtils: createProteinRefseq
createProteinRogid(String, String) - Static method in class psidev.psi.mi.jami.utils.InteractorUtils: createProteinRogid
createProteinsFromString(String, int, int) - Method in class psidev.psi.mi.jami.crosslink.io.parser.AbstractCsvInteractionEvidenceParser: createProteinsFromString.
createProteinUniprot(String, String) - Static method in class psidev.psi.mi.jami.utils.InteractorUtils: createProteinUniprot
createPsiMiDatabase() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createPsiMiDatabase
createPsiMiDatabase(CvTerm) - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createPsiMiDatabase
createPsiMiDatabaseNameOnly() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createPsiMiDatabaseNameOnly
createPsiMiIdentity(String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: createPsiMiIdentity
createPsiMiSecondary(String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: createPsiMiSecondary
createPsiModDatabase() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createPsiModDatabase
createPsiModIdentity(String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: createPsiModIdentity
createPsiModSecondary(String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: createPsiModSecondary
createPsiParDatabase() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createPsiParDatabase
createPsiXmlBinaryDataSource(InteractionCategory, boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.factory.PsiXmlDataSourceFactory: createPsiXmlBinaryDataSource.
createPsiXmlBinaryWriter(InteractionCategory, PsiXmlVersion, PsiXmlType, boolean, boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.factory.PsiXmlWriterFactory: createPsiXmlBinaryWriter.
createPsiXmlDataSource(InteractionCategory, boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.factory.PsiXmlDataSourceFactory: createPsiXmlDataSource.
createPsiXmlDataSource(InteractionCategory, ComplexType, boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.factory.PsiXmlDataSourceFactory: createPsiXmlDataSource.
createPsiXmlExceptionFrom(String, Exception) - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractFullPsiXmlParser: createPsiXmlExceptionFrom.
createPsiXmlExceptionFrom(String, Exception) - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: createPsiXmlExceptionFrom.
createPsiXmlWriter(InteractionCategory, ComplexType, PsiXmlType, PsiXmlVersion, boolean, boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.factory.PsiXmlWriterFactory: createPsiXmlWriter.
createPsiXmlWriter(InteractionCategory, PsiXmlType, PsiXmlVersion, boolean, boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.factory.PsiXmlWriterFactory: createPsiXmlWriter.
createPublication(Publication) - Method in class psidev.psi.mi.jami.bridges.imex.DefaultImexCentralClient: Create a new publication record in IMEx central (not implemented yet in production but can be used in test with the MockImexCentralClient)
createPublication(Publication) - Method in interface psidev.psi.mi.jami.bridges.imex.ImexCentralClient: Create a new publication record in IMEx central (not implemented yet in production but can be used in test with the MockImexCentralClient)
createPublication(Publication) - Method in class psidev.psi.mi.jami.bridges.imex.mock.MockImexCentralClient: Create a new publication record in IMEx central (not implemented yet in production but can be used in test with the MockImexCentralClient)
createPublicationById(String, String) - Method in class psidev.psi.mi.jami.bridges.imex.DefaultImexCentralClient: Creates a publication given a valid pubmed id.
createPublicationById(String, String) - Method in interface psidev.psi.mi.jami.bridges.imex.ImexCentralClient: Creates a publication given a valid pubmed id.
createPublicationById(String, String) - Method in class psidev.psi.mi.jami.bridges.imex.mock.MockImexCentralClient: Creates a publication given a valid pubmed id.
createPublicationDoi(String) - Static method in class psidev.psi.mi.jami.utils.PublicationUtils: createPublicationDoi
createPublicationFrom(Collection<MitabAuthor>, Collection<MitabXref>, Collection<MitabSource>) - Method in class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionEvidenceLineParser: createPublicationFrom.
createPublicationPubmed(String) - Static method in class psidev.psi.mi.jami.utils.PublicationUtils: createPublicationPubmed
createPublicationWriter(XMLStreamWriter, boolean, PsiXmlElementWriter<Annotation>, PsiXmlXrefWriter, PsiXmlVersion) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createPublicationWriter.
createPubmedDatabase() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createPubmedDatabase
createPubmedIdentity(String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: createPubmedIdentity
createPutativeSelf() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createPutativeSelf
createRaggedNTerminalStatus() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createRaggedNTerminalStatus
createRaggedNTerminusPosition(int) - Static method in class psidev.psi.mi.jami.utils.PositionUtils: createRaggedNTerminusPosition
createRaggedNTerminusRange(int) - Static method in class psidev.psi.mi.jami.utils.RangeUtils: createRaggedNTerminusRange
createRaggedNTerminusRange(int, int) - Static method in class psidev.psi.mi.jami.utils.RangeUtils: createRaggedNTerminusRange
createRange(String, String, int) - Static method in class psidev.psi.mi.jami.utils.RangeUtils: createRange
createRange(String, String, int, int) - Static method in class psidev.psi.mi.jami.utils.RangeUtils: createRange
createRangeFromString(String) - Static method in class psidev.psi.mi.jami.utils.RangeUtils: Create a Range from a String
createRangeFromString(String, boolean) - Static method in class psidev.psi.mi.jami.utils.RangeUtils: Create a range with a given linked property from a String
createRangeStatus() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createRangeStatus
createRangeWriter(XMLStreamWriter, boolean, PsiXmlObjectCache, PsiXmlVersion, PsiXmlXrefWriter, PsiXmlVariableNameWriter<CvTerm>) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createRangeWriter.
createRefseqDatabase() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createRefseqDatabase
createRefseqIdentity(String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: createRefseqIdentity
createRefseqSecondary(String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: createRefseqSecondary
createResultingSequenceWriter(XMLStreamWriter, boolean, PsiXmlXrefWriter) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createResultingSequenceWriter.
createRigid() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createRigid
createRigid(String) - Static method in class psidev.psi.mi.jami.utils.ChecksumUtils: createRigid
createRogid() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createRogid
createRogid(String) - Static method in class psidev.psi.mi.jami.utils.ChecksumUtils: createRogid
CreateRogidAndRigid - Class in psidev.psi.mi.jami.examples.core: This code example shows how to compute RIGID/ROGID checksums for proteins and interactions
CreateRogidAndRigid() - Constructor for class psidev.psi.mi.jami.examples.core.CreateRogidAndRigid
createSecondaryXref(String, String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: createSecondaryXref
createSecondaryXref(String, String, String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: createSecondaryXref
createSecondaryXrefQualifier() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createSecondaryXrefQualifier
createSelf() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createSelf
createSelfBinaryInteractionEvidenceFrom(InteractionEvidence) - Method in interface psidev.psi.mi.jami.factory.BinaryInteractionFactory: Creates a BinaryInteractionEvidence representing a self interaction
createSelfBinaryInteractionEvidenceFrom(InteractionEvidence) - Method in class psidev.psi.mi.jami.factory.DefaultBinaryInteractionFactory: Creates a BinaryInteractionEvidence representing a self interaction
createSelfBinaryInteractionEvidenceFrom(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.model.extension.factory.xml25.XmlBinaryInteractionFactory: Creates a BinaryInteractionEvidence representing a self interaction
createSelfBinaryInteractionEvidenceFrom(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.model.extension.factory.xml30.XmlBinaryInteractionFactory: Creates a BinaryInteractionEvidence representing a self interaction
createSelfBinaryInteractionFrom(Interaction) - Method in interface psidev.psi.mi.jami.factory.BinaryInteractionFactory: Create a binary interaction representing a self interaction
createSelfBinaryInteractionFrom(Interaction) - Method in class psidev.psi.mi.jami.factory.DefaultBinaryInteractionFactory: Create a binary interaction representing a self interaction
createSelfBinaryInteractionFrom(Interaction) - Method in class psidev.psi.mi.jami.xml.model.extension.factory.xml25.XmlBinaryInteractionFactory: Create a binary interaction representing a self interaction
createSelfBinaryInteractionFrom(Interaction) - Method in class psidev.psi.mi.jami.xml.model.extension.factory.xml30.XmlBinaryInteractionFactory: Create a binary interaction representing a self interaction
createSelfModelledBinaryInteractionFrom(ModelledInteraction) - Method in interface psidev.psi.mi.jami.factory.BinaryInteractionFactory: Creates a ModelledInteraction representing a self interaction
createSelfModelledBinaryInteractionFrom(ModelledInteraction) - Method in class psidev.psi.mi.jami.factory.DefaultBinaryInteractionFactory: Creates a ModelledInteraction representing a self interaction
createSelfModelledBinaryInteractionFrom(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.model.extension.factory.xml25.XmlBinaryInteractionFactory: Creates a ModelledInteraction representing a self interaction
createSelfModelledBinaryInteractionFrom(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.model.extension.factory.xml30.XmlBinaryInteractionFactory: Creates a ModelledInteraction representing a self interaction
createSeqFeatureGroupType() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.ObjectFactory: Create an instance of SeqFeatureGroupType
createSeqFeatureType() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.ObjectFactory: Create an instance of SeqFeatureType
createSequence() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.ObjectFactory: Create an instance of Sequence
createSmile() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createSmile
createSmile(String) - Static method in class psidev.psi.mi.jami.utils.ChecksumUtils: createSmile
createSourceWriter(XMLStreamWriter, boolean, PsiXmlVersion, PsiXmlElementWriter<Alias>, PsiXmlElementWriter<Annotation>, PsiXmlXrefWriter, PsiXmlPublicationWriter) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createSourceWriter.
createSpecialistOrganism(int) - Static method in class psidev.psi.mi.jami.utils.OrganismUtils: If the TaxId is one of the reserved numbers (-5 to -1), it denotes a non-real organism.
createSpokeComplexExpansion(InteractionCategory) - Method in interface psidev.psi.mi.jami.factory.ComplexExpansionFactory: Create an instance of spoke complex expansion that suits the interactionCategory
createSpokeComplexExpansion(InteractionCategory) - Method in class psidev.psi.mi.jami.factory.DefaultComplexExpansionFactory: Create an instance of spoke complex expansion that suits the interactionCategory
createStandardInchi() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createStandardInchi
createStandardInchi(String) - Static method in class psidev.psi.mi.jami.utils.ChecksumUtils: createStandardInchi
createStandardInchiKey() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createStandardInchiKey
createStandardInchiKey(String) - Static method in class psidev.psi.mi.jami.utils.ChecksumUtils: createStandardInchiKey
createUndeterminedPosition() - Static method in class psidev.psi.mi.jami.utils.PositionUtils: createUndeterminedPosition
createUndeterminedRange() - Static method in class psidev.psi.mi.jami.utils.RangeUtils: createUndeterminedRange
createUndeterminedStatus() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createUndeterminedStatus
createUniparc() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.ObjectFactory: Create an instance of Uniparc
createUniprotIdentity(String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: createUniprotIdentity
createUniprotkbDatabase() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createUniprotkbDatabase
createUniprotSecondary(String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: createUniprotSecondary
createUnknownBasicExperiment() - Static method in class psidev.psi.mi.jami.utils.ExperimentUtils: createUnknownBasicExperiment
createUnknownBasicInteractor() - Static method in class psidev.psi.mi.jami.utils.InteractorUtils: createUnknownBasicInteractor
createUnknownBasicParticipant() - Static method in class psidev.psi.mi.jami.utils.ParticipantUtils: createUnknownBasicParticipant
createUnknownBasicParticipantEvidence() - Static method in class psidev.psi.mi.jami.utils.ParticipantUtils: createUnknownBasicParticipantEvidence
createUnknownBasicPublication() - Static method in class psidev.psi.mi.jami.utils.PublicationUtils: createUnknownBasicPublication
createUnknownInteractorType() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createUnknownInteractorType
createUnknownOrganism() - Static method in class psidev.psi.mi.jami.utils.OrganismUtils: createUnknownOrganism
createUnmarshaller(PsiXmlVersion, InteractionCategory) - Method in class psidev.psi.mi.jami.xml.io.parser.JaxbUnmarshallerFactory: createUnmarshaller.
createUnspecifiedMethod() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createUnspecifiedMethod
createUnspecifiedRole() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: createUnspecifiedRole
createVariableParameterValueSetWriter(XMLStreamWriter, PsiXmlObjectCache) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createVariableParameterValueSetWriter.
createVariableParameterValueWriter(XMLStreamWriter, PsiXmlObjectCache) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createVariableParameterValueWriter.
createVariableParameterWriter(XMLStreamWriter, boolean, PsiXmlObjectCache, PsiXmlVariableNameWriter<CvTerm>) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createVariableParameterWriter.
createXml253JAXBUnmarshaller(InteractionCategory) - Method in class psidev.psi.mi.jami.xml.io.parser.JaxbUnmarshallerFactory: createXml253JAXBUnmarshaller.
createXml254JAXBUnmarshaller(InteractionCategory) - Method in class psidev.psi.mi.jami.xml.io.parser.JaxbUnmarshallerFactory: createXml254JAXBUnmarshaller.
createXml300JAXBUnmarshaller(InteractionCategory) - Method in class psidev.psi.mi.jami.xml.io.parser.JaxbUnmarshallerFactory: createXml300JAXBUnmarshaller.
createXmlIterator() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlSource: createXmlIterator.
createXmlIterator() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: createXmlIterator.
createXmlIterator() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlBinaryStreamSource: createXmlIterator.
createXmlIterator() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlStreamSource: createXmlIterator.
createXmlIterator() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinaryEvidenceStreamSource: createXmlIterator.
createXmlIterator() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinaryStreamSource: createXmlIterator.
createXmlIterator() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlComplexStreamSource: createXmlIterator.
createXmlIterator() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlEvidenceStreamSource: createXmlIterator.
createXmlIterator() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledBinaryStreamSource: createXmlIterator.
createXmlIterator() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledStreamSource: createXmlIterator.
createXmlIterator() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlStreamSource: createXmlIterator.
createXref(String, String) - Method in class psidev.psi.mi.jami.bridges.ols.AbstractOlsFetcher: createXref.
createXref(String, String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: createXref
createXref(String, String, String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: createXref
createXrefWithQualifier(String, String, String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: createXrefWithQualifier
createXrefWithQualifier(String, String, String, String, String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: createXrefWithQualifier
createXrefWithQualifier(String, String, String, String, String, String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: createXrefWithQualifierAndVersion
createXrefWriter(XMLStreamWriter, boolean, PsiXmlElementWriter<Annotation>) - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: createXrefWriter.
CREATION_DATE - psidev.psi.mi.jami.tab.MitabColumnName
CROSS_LINK - Static variable in class psidev.psi.mi.jami.crosslink.utils.CsvUtils: Constant CROSS_LINK="crosslink"
CROSS_LINK_MI - Static variable in class psidev.psi.mi.jami.crosslink.utils.CsvUtils: Constant CROSS_LINK_MI="MI:0030"
CROSS_LINKER - Static variable in class psidev.psi.mi.jami.crosslink.utils.CsvUtils: Constant CROSS_LINKER="cross linker"
CROSS_LINKER_MI - Static variable in class psidev.psi.mi.jami.crosslink.utils.CsvUtils: Constant CROSS_LINKER_MI="MI:0911"
CROSSLINK_CSV_FORMAT - Static variable in class psidev.psi.mi.jami.crosslink.CsvDatasourceOptions: The cross link format value to use with CsvDataSourceOptions.INPUT_TYPE_OPTION_KEY
CrossLinkCsv - Class in psidev.psi.mi.jami.crosslink: This class is a central access to basic methods to register crosslink csv datasources.
CrossLinkCsv() - Constructor for class psidev.psi.mi.jami.crosslink.CrossLinkCsv
CrossLinkCSVColumns - Enum in psidev.psi.mi.jami.crosslink.io.parser: Enum listing possible column names
CrosslinkCsvInteraction - Interface in psidev.psi.mi.jami.crosslink.extension: Interaction evidence extension from crosslinking CSV files
CrossLinkCsvOptionFactory - Class in psidev.psi.mi.jami.crosslink: The factory to populate the map of options for the DataSourceFactory for crosslink csv datasources
CSV_EXTENSION - Static variable in class psidev.psi.mi.jami.commons.MIFileAnalyzer: Constant CSV_EXTENSION=".csv"
CSV_TYPE_OPTION_KEY - Static variable in class psidev.psi.mi.jami.crosslink.CsvDatasourceOptions: The type of crosslink CSV file to read.
CsvBinaryEvidenceSource - Class in psidev.psi.mi.jami.crosslink.extension.datasource: CrossLink CVS source of binary interaction evidences
CsvBinaryEvidenceSource() - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.CsvBinaryEvidenceSource: Constructor for CsvBinaryEvidenceSource.
CsvBinaryEvidenceSource(File) - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.CsvBinaryEvidenceSource: Constructor for CsvBinaryEvidenceSource.
CsvBinaryEvidenceSource(InputStream) - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.CsvBinaryEvidenceSource: Constructor for CsvBinaryEvidenceSource.
CsvBinaryEvidenceSource(Reader) - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.CsvBinaryEvidenceSource: Constructor for CsvBinaryEvidenceSource.
CsvBinaryEvidenceSource(URL) - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.CsvBinaryEvidenceSource: Constructor for CsvBinaryEvidenceSource.
CsvBinaryEvidenceStreamSource - Class in psidev.psi.mi.jami.crosslink.extension.datasource: CrossLink CVS stream source of binary interaction evidences
CsvBinaryEvidenceStreamSource() - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.CsvBinaryEvidenceStreamSource: Constructor for CsvBinaryEvidenceStreamSource.
CsvBinaryEvidenceStreamSource(File) - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.CsvBinaryEvidenceStreamSource: Constructor for CsvBinaryEvidenceStreamSource.
CsvBinaryEvidenceStreamSource(InputStream) - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.CsvBinaryEvidenceStreamSource: Constructor for CsvBinaryEvidenceStreamSource.
CsvBinaryEvidenceStreamSource(Reader) - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.CsvBinaryEvidenceStreamSource: Constructor for CsvBinaryEvidenceStreamSource.
CsvBinaryEvidenceStreamSource(URL) - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.CsvBinaryEvidenceStreamSource: Constructor for CsvBinaryEvidenceStreamSource.
CsvBinaryInteractionEvidence - Class in psidev.psi.mi.jami.crosslink.extension: Crosslink CSV implementation of BinaryInteractionEvidence
CsvBinaryInteractionEvidence() - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvBinaryInteractionEvidence: Constructor for CsvBinaryInteractionEvidence.
CsvBinaryInteractionEvidence(String) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvBinaryInteractionEvidence: Constructor for CsvBinaryInteractionEvidence.
CsvBinaryInteractionEvidence(String, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvBinaryInteractionEvidence: Constructor for CsvBinaryInteractionEvidence.
CsvBinaryInteractionEvidence(String, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvBinaryInteractionEvidence: Constructor for CsvBinaryInteractionEvidence.
CsvBinaryInteractionEvidence(String, CvTerm, ParticipantEvidence, ParticipantEvidence) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvBinaryInteractionEvidence: Constructor for CsvBinaryInteractionEvidence.
CsvBinaryInteractionEvidence(String, CvTerm, ParticipantEvidence, ParticipantEvidence, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvBinaryInteractionEvidence: Constructor for CsvBinaryInteractionEvidence.
CsvBinaryInteractionEvidence(String, ParticipantEvidence, ParticipantEvidence) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvBinaryInteractionEvidence: Constructor for CsvBinaryInteractionEvidence.
CsvBinaryInteractionEvidence(String, ParticipantEvidence, ParticipantEvidence, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvBinaryInteractionEvidence: Constructor for CsvBinaryInteractionEvidence.
CsvBinaryInteractionEvidence(CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvBinaryInteractionEvidence: Constructor for CsvBinaryInteractionEvidence.
CsvBinaryInteractionEvidence(ParticipantEvidence, ParticipantEvidence) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvBinaryInteractionEvidence: Constructor for CsvBinaryInteractionEvidence.
CsvBinaryInteractionEvidence(ParticipantEvidence, ParticipantEvidence, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvBinaryInteractionEvidence: Constructor for CsvBinaryInteractionEvidence.
CsvBinaryInteractionEvidenceParser - Class in psidev.psi.mi.jami.crosslink.io.parser: Binary Interaction evidence crosslink CSV parser
CsvBinaryInteractionEvidenceParser() - Constructor for class psidev.psi.mi.jami.crosslink.io.parser.CsvBinaryInteractionEvidenceParser
CsvDatasourceOptions - Class in psidev.psi.mi.jami.crosslink: Options for CSV datasource which extends MIFileDataSource option
CsvDatasourceOptions() - Constructor for class psidev.psi.mi.jami.crosslink.CsvDatasourceOptions
CsvEvidenceSource - Class in psidev.psi.mi.jami.crosslink.extension.datasource: CrossLink CVS source of interaction evidences
CsvEvidenceSource() - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.CsvEvidenceSource: Constructor for CsvEvidenceSource.
CsvEvidenceSource(File) - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.CsvEvidenceSource: Constructor for CsvEvidenceSource.
CsvEvidenceSource(InputStream) - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.CsvEvidenceSource: Constructor for CsvEvidenceSource.
CsvEvidenceSource(Reader) - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.CsvEvidenceSource: Constructor for CsvEvidenceSource.
CsvEvidenceSource(URL) - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.CsvEvidenceSource: Constructor for CsvEvidenceSource.
CsvEvidenceStreamSource - Class in psidev.psi.mi.jami.crosslink.extension.datasource: CrossLink CVS stream source of interaction evidences
CsvEvidenceStreamSource() - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.CsvEvidenceStreamSource: Constructor for CsvEvidenceStreamSource.
CsvEvidenceStreamSource(File) - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.CsvEvidenceStreamSource: Constructor for CsvEvidenceStreamSource.
CsvEvidenceStreamSource(InputStream) - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.CsvEvidenceStreamSource: Constructor for CsvEvidenceStreamSource.
CsvEvidenceStreamSource(Reader) - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.CsvEvidenceStreamSource: Constructor for CsvEvidenceStreamSource.
CsvEvidenceStreamSource(URL) - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.CsvEvidenceStreamSource: Constructor for CsvEvidenceStreamSource.
CsvExperimentalParticipantCandidate - Class in psidev.psi.mi.jami.crosslink.extension: Crosslink CSV extension of ExperimentalParticipantCandidate.
CsvExperimentalParticipantCandidate(Interactor) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvExperimentalParticipantCandidate: Constructor for CsvExperimentalParticipantCandidate.
CsvExperimentalParticipantCandidate(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvExperimentalParticipantCandidate: Constructor for CsvExperimentalParticipantCandidate.
CsvExperimentalParticipantPool - Class in psidev.psi.mi.jami.crosslink.extension: Crosslink CSV extension of ParticipantEvidencePool.
CsvExperimentalParticipantPool(String) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvExperimentalParticipantPool: Constructor for CsvExperimentalParticipantPool.
CsvExperimentalParticipantPool(String, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvExperimentalParticipantPool: Constructor for CsvExperimentalParticipantPool.
CsvExperimentalParticipantPool(String, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvExperimentalParticipantPool: Constructor for CsvExperimentalParticipantPool.
CsvExperimentalParticipantPool(String, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvExperimentalParticipantPool: Constructor for CsvExperimentalParticipantPool.
CsvExperimentalParticipantPool(String, CvTerm, CvTerm, Organism, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvExperimentalParticipantPool: Constructor for CsvExperimentalParticipantPool.
CsvExperimentalParticipantPool(String, CvTerm, CvTerm, Stoichiometry, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvExperimentalParticipantPool: Constructor for CsvExperimentalParticipantPool.
CsvExperimentalParticipantPool(String, CvTerm, CvTerm, Stoichiometry, Organism, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvExperimentalParticipantPool: Constructor for CsvExperimentalParticipantPool.
CsvExperimentalParticipantPool(String, Stoichiometry) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvExperimentalParticipantPool: Constructor for CsvExperimentalParticipantPool.
CsvExperimentalParticipantPool(String, Stoichiometry, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvExperimentalParticipantPool: Constructor for CsvExperimentalParticipantPool.
CsvExperimentalParticipantPool(InteractionEvidence, String, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvExperimentalParticipantPool: Constructor for CsvExperimentalParticipantPool.
CsvExperimentalParticipantPool(InteractionEvidence, String, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvExperimentalParticipantPool: Constructor for CsvExperimentalParticipantPool.
CsvExperimentalParticipantPool(InteractionEvidence, String, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvExperimentalParticipantPool: Constructor for CsvExperimentalParticipantPool.
CsvExperimentalParticipantPool(InteractionEvidence, String, CvTerm, CvTerm, Organism, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvExperimentalParticipantPool: Constructor for CsvExperimentalParticipantPool.
CsvExperimentalParticipantPool(InteractionEvidence, String, CvTerm, CvTerm, Stoichiometry, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvExperimentalParticipantPool: Constructor for CsvExperimentalParticipantPool.
CsvExperimentalParticipantPool(InteractionEvidence, String, CvTerm, CvTerm, Stoichiometry, Organism, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvExperimentalParticipantPool: Constructor for CsvExperimentalParticipantPool.
CsvExperimentalParticipantPool(InteractionEvidence, String, CvTerm, Stoichiometry, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvExperimentalParticipantPool: Constructor for CsvExperimentalParticipantPool.
CsvExperimentalParticipantPool(InteractionEvidence, String, Stoichiometry, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvExperimentalParticipantPool: Constructor for CsvExperimentalParticipantPool.
CsvFeatureEvidence - Class in psidev.psi.mi.jami.crosslink.extension: CrossLink CSV extension for FeatureEvidence
CsvFeatureEvidence() - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvFeatureEvidence: Constructor for CsvFeatureEvidence.
CsvFeatureEvidence(String, String) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvFeatureEvidence: Constructor for CsvFeatureEvidence.
CsvFeatureEvidence(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvFeatureEvidence: Constructor for CsvFeatureEvidence.
CsvFeatureEvidence(CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvFeatureEvidence: Constructor for CsvFeatureEvidence.
CsvFeatureEvidence(ParticipantEvidence) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvFeatureEvidence: Constructor for CsvFeatureEvidence.
CsvFeatureEvidence(ParticipantEvidence, String, String) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvFeatureEvidence: Constructor for CsvFeatureEvidence.
CsvFeatureEvidence(ParticipantEvidence, String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvFeatureEvidence: Constructor for CsvFeatureEvidence.
CsvFeatureEvidence(ParticipantEvidence, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvFeatureEvidence: Constructor for CsvFeatureEvidence.
CsvInteractionEvidence - Class in psidev.psi.mi.jami.crosslink.extension: CSV extension for InteractionEvidence
CsvInteractionEvidence() - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvInteractionEvidence: Constructor for CsvInteractionEvidence.
CsvInteractionEvidence(String) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvInteractionEvidence: Constructor for CsvInteractionEvidence.
CsvInteractionEvidence(String, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvInteractionEvidence: Constructor for CsvInteractionEvidence.
CsvInteractionEvidence(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvInteractionEvidence: Constructor for CsvInteractionEvidence.
CsvInteractionEvidence(String, Source, Xref) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvInteractionEvidence: Constructor for CsvInteractionEvidence.
CsvInteractionEvidence(String, Xref) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvInteractionEvidence: Constructor for CsvInteractionEvidence.
CsvInteractionEvidence(Experiment) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvInteractionEvidence: Constructor for CsvInteractionEvidence.
CsvInteractionEvidence(Experiment, String) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvInteractionEvidence: Constructor for CsvInteractionEvidence.
CsvInteractionEvidence(Experiment, String, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvInteractionEvidence: Constructor for CsvInteractionEvidence.
CsvInteractionEvidence(Experiment, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvInteractionEvidence: Constructor for CsvInteractionEvidence.
CsvInteractionEvidence(Experiment, String, Source) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvInteractionEvidence: Constructor for CsvInteractionEvidence.
CsvInteractionEvidence(Experiment, String, Source, Xref) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvInteractionEvidence: Constructor for CsvInteractionEvidence.
CsvInteractionEvidence(Experiment, String, Xref) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvInteractionEvidence: Constructor for CsvInteractionEvidence.
CsvInteractionEvidence(Experiment, Xref) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvInteractionEvidence: Constructor for CsvInteractionEvidence.
CsvInteractionEvidence(Xref) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvInteractionEvidence: Constructor for CsvInteractionEvidence.
CsvInteractionEvidenceIterator<T extends InteractionEvidence> - Class in psidev.psi.mi.jami.crosslink.io.iterator: Crosslink CSV interaction evidence iterator
CsvInteractionEvidenceIterator(CSVReader<T>) - Constructor for class psidev.psi.mi.jami.crosslink.io.iterator.CsvInteractionEvidenceIterator: Constructor for CsvInteractionEvidenceIterator.
CsvInteractionEvidenceIterator(CSVReader<T>, CsvParserListener) - Constructor for class psidev.psi.mi.jami.crosslink.io.iterator.CsvInteractionEvidenceIterator: Constructor for CsvInteractionEvidenceIterator.
CsvInteractionEvidenceParser - Class in psidev.psi.mi.jami.crosslink.io.parser: Interaction evidence crosslink CSV parser
CsvInteractionEvidenceParser() - Constructor for class psidev.psi.mi.jami.crosslink.io.parser.CsvInteractionEvidenceParser
CsvMixedEvidenceSource - Class in psidev.psi.mi.jami.crosslink.extension.datasource: This class is a source that can build a mix of n-ary interaction evidences/binary from a Crosslink csv file depending on the bait column to rebuild the original n-ary interaction
CsvMixedEvidenceSource() - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: Empty constructor for the factory
CsvMixedEvidenceSource(File) - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: Constructor for CsvMixedEvidenceSource.
CsvMixedEvidenceSource(InputStream) - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: Constructor for CsvMixedEvidenceSource.
CsvMixedEvidenceSource(Reader) - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: Constructor for CsvMixedEvidenceSource.
CsvMixedEvidenceSource(URL) - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: Constructor for CsvMixedEvidenceSource.
CsvNaryEvidenceSource - Class in psidev.psi.mi.jami.crosslink.extension.datasource: This class is a source that can build a n-ary interaction evidence from a full Crosslink csv file
CsvNaryEvidenceSource() - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: Empty constructor for the factory
CsvNaryEvidenceSource(File) - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: Constructor for CsvNaryEvidenceSource.
CsvNaryEvidenceSource(InputStream) - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: Constructor for CsvNaryEvidenceSource.
CsvNaryEvidenceSource(Reader) - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: Constructor for CsvNaryEvidenceSource.
CsvNaryEvidenceSource(URL) - Constructor for class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: Constructor for CsvNaryEvidenceSource.
CsvParserListener - Interface in psidev.psi.mi.jami.crosslink.listener: A listener listening to events when parsing a crosslink CSV file
CsvParserLogger - Class in psidev.psi.mi.jami.crosslink.listener: Logger for CsvParser
CsvParserLogger() - Constructor for class psidev.psi.mi.jami.crosslink.listener.CsvParserLogger
CsvParticipantEvidence - Class in psidev.psi.mi.jami.crosslink.extension: Crosslink CSV extension of ParticipantEvidence.
CsvParticipantEvidence(InteractionEvidence, Interactor, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvParticipantEvidence: Constructor for CsvParticipantEvidence.
CsvParticipantEvidence(InteractionEvidence, Interactor, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvParticipantEvidence: Constructor for CsvParticipantEvidence.
CsvParticipantEvidence(InteractionEvidence, Interactor, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvParticipantEvidence: Constructor for CsvParticipantEvidence.
CsvParticipantEvidence(InteractionEvidence, Interactor, CvTerm, CvTerm, Organism, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvParticipantEvidence: Constructor for CsvParticipantEvidence.
CsvParticipantEvidence(InteractionEvidence, Interactor, CvTerm, CvTerm, Stoichiometry, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvParticipantEvidence: Constructor for CsvParticipantEvidence.
CsvParticipantEvidence(InteractionEvidence, Interactor, CvTerm, CvTerm, Stoichiometry, Organism, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvParticipantEvidence: Constructor for CsvParticipantEvidence.
CsvParticipantEvidence(InteractionEvidence, Interactor, CvTerm, Stoichiometry, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvParticipantEvidence: Constructor for CsvParticipantEvidence.
CsvParticipantEvidence(InteractionEvidence, Interactor, Stoichiometry, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvParticipantEvidence: Constructor for CsvParticipantEvidence.
CsvParticipantEvidence(Interactor) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvParticipantEvidence: Constructor for CsvParticipantEvidence.
CsvParticipantEvidence(Interactor, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvParticipantEvidence: Constructor for CsvParticipantEvidence.
CsvParticipantEvidence(Interactor, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvParticipantEvidence: Constructor for CsvParticipantEvidence.
CsvParticipantEvidence(Interactor, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvParticipantEvidence: Constructor for CsvParticipantEvidence.
CsvParticipantEvidence(Interactor, CvTerm, CvTerm, Organism, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvParticipantEvidence: Constructor for CsvParticipantEvidence.
CsvParticipantEvidence(Interactor, CvTerm, CvTerm, Stoichiometry, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvParticipantEvidence: Constructor for CsvParticipantEvidence.
CsvParticipantEvidence(Interactor, CvTerm, CvTerm, Stoichiometry, Organism, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvParticipantEvidence: Constructor for CsvParticipantEvidence.
CsvParticipantEvidence(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvParticipantEvidence: Constructor for CsvParticipantEvidence.
CsvParticipantEvidence(Interactor, Stoichiometry, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvParticipantEvidence: Constructor for CsvParticipantEvidence.
CsvProtein - Class in psidev.psi.mi.jami.crosslink.extension: Crosslink CSV extension of Protein.
CsvProtein(String) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvProtein: Constructor for CsvProtein.
CsvProtein(String, String) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvProtein: Constructor for CsvProtein.
CsvProtein(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvProtein: Constructor for CsvProtein.
CsvProtein(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvProtein: Constructor for CsvProtein.
CsvProtein(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvProtein: Constructor for CsvProtein.
CsvProtein(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvProtein: Constructor for CsvProtein.
CsvProtein(String, String, Organism) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvProtein: Constructor for CsvProtein.
CsvProtein(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvProtein: Constructor for CsvProtein.
CsvProtein(String, String, Xref) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvProtein: Constructor for CsvProtein.
CsvProtein(String, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvProtein: Constructor for CsvProtein.
CsvProtein(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvProtein: Constructor for CsvProtein.
CsvProtein(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvProtein: Constructor for CsvProtein.
CsvProtein(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvProtein: Constructor for CsvProtein.
CsvProtein(String, Organism) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvProtein: Constructor for CsvProtein.
CsvProtein(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvProtein: Constructor for CsvProtein.
CsvProtein(String, Xref) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvProtein: Constructor for CsvProtein.
CsvRange - Class in psidev.psi.mi.jami.crosslink.extension: Crosslink CSV extension of Range It contains a FileSourceLocator
CsvRange(Position, Position) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvRange: Constructor for CsvRange.
CsvRange(Position, Position, boolean) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvRange: Constructor for CsvRange.
CsvRange(Position, Position, boolean, Participant) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvRange: Constructor for CsvRange.
CsvRange(Position, Position, boolean, ResultingSequence) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvRange: Constructor for CsvRange.
CsvRange(Position, Position, Participant) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvRange: Constructor for CsvRange.
CsvRange(Position, Position, ResultingSequence) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvRange: Constructor for CsvRange.
CsvSource - Interface in psidev.psi.mi.jami.crosslink.extension.datasource: Interface for Crosslink CSV sources that can parse full CSV files
CsvSourceLocator - Class in psidev.psi.mi.jami.crosslink.extension: A Crosslink CSV file source context
CsvSourceLocator(int, int, int) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvSourceLocator: Constructor for CsvSourceLocator.
CsvStreamSource - Interface in psidev.psi.mi.jami.crosslink.extension.datasource: Interface for Crosslink CSV datasources that can stream CSV files
CsvType - Enum in psidev.psi.mi.jami.crosslink: The different types of crosslink CSV input files - mix: Mix of binary and n-ary interactions which can be distinguished using bait/complex column - single_nary: the CSV file is reporting one single n-ary interaction - binary_only: the CSV file only contains binary interactions
CsvUtils - Class in psidev.psi.mi.jami.crosslink.utils: Crosslink CSV utils class
CsvUtils() - Constructor for class psidev.psi.mi.jami.crosslink.utils.CsvUtils
CsvXref - Class in psidev.psi.mi.jami.crosslink.extension: CSV extension for Xref.
CsvXref(CvTerm, String) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvXref: Constructor for CsvXref.
CsvXref(CvTerm, String, String) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvXref: Constructor for CsvXref.
CsvXref(CvTerm, String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvXref: Constructor for CsvXref.
CsvXref(CvTerm, String, CvTerm) - Constructor for class psidev.psi.mi.jami.crosslink.extension.CsvXref: Constructor for CsvXref.
CuratedInteractionBaseComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Basic comparator for curated interactions.
CuratedInteractionBaseComparator(Comparator<Interaction>) - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.CuratedInteractionBaseComparator: Constructor for CuratedInteractionBaseComparator.
CuratedModelledInteractionComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Basic CuratedModelledInteraction comparator.
CuratedModelledInteractionComparator(CustomizableModelledParticipantComparator, Comparator<Interaction>, Comparator<CvTerm>) - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.CuratedModelledInteractionComparator: Constructor for CuratedModelledInteractionComparator.
CuratedPublicationComparator - Class in psidev.psi.mi.jami.utils.comparator.publication: Simple comparator for curated publications.
CuratedPublicationComparator(Comparator<Publication>, Comparator<CvTerm>) - Constructor for class psidev.psi.mi.jami.utils.comparator.publication.CuratedPublicationComparator: Creates a new CuratedPublicationComparator.
CuratedPublicationEnricher - Interface in psidev.psi.mi.jami.enricher: An enricher for curated publications which can enrich either a single publication or a collection.
CURATION_DEPTH - Static variable in class psidev.psi.mi.jami.imex.ImexPublicationRegister: Constant CURATION_DEPTH="curation depth"
CURATION_DEPTH - Static variable in class psidev.psi.mi.jami.imex.ImexPublicationUpdater: Constant CURATION_DEPTH="curation depth"
CURATION_DEPTH - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant CURATION_DEPTH="curation depth"
CURATION_DEPTH_MI - Static variable in class psidev.psi.mi.jami.imex.ImexPublicationRegister: Constant CURATION_DEPTH_MI="MI:0955"
CURATION_DEPTH_MI - Static variable in class psidev.psi.mi.jami.imex.ImexPublicationUpdater: Constant CURATION_DEPTH_MI="MI:0955"
CURATION_DEPTH_MI - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant CURATION_DEPTH_MI="MI:0955"
CurationDepth - Enum in psidev.psi.mi.jami.model: Flag to determine the curation depth.
curChar - Variable in class psidev.psi.mi.jami.tab.io.parser.MitabLineParserTokenManager
currentToken - Variable in exception psidev.psi.mi.jami.tab.io.parser.ParseException: This is the last token that has been consumed successfully.
CustomizableModelledParticipantComparator<E extends ModelledEntity> - Interface in psidev.psi.mi.jami.utils.comparator.participant: A ModelledParticipantComparator that can be customized so we can ignore interactors when comparing modelled participants
CvOboLoader - Class in psidev.psi.mi.jami.bridges.obo: Basic implementation of Obo loader
CvOboLoader(String) - Constructor for class psidev.psi.mi.jami.bridges.obo.CvOboLoader: Constructor for CvOboLoader.
CvOboLoader(CvTerm) - Constructor for class psidev.psi.mi.jami.bridges.obo.CvOboLoader: Constructor for CvOboLoader.
cvTerm(int) - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
CvTerm - Interface in psidev.psi.mi.jami.model: A controlled vocabulary term defined by an ontology.
CvTermChangeListener - Interface in psidev.psi.mi.jami.listener: CvTerm change listener
CvTermChangeLogger - Class in psidev.psi.mi.jami.listener.impl: This listener will just log cvTerm change events
CvTermChangeLogger() - Constructor for class psidev.psi.mi.jami.listener.impl.CvTermChangeLogger
CvTermCloner - Class in psidev.psi.mi.jami.utils.clone: Utility class for cloning CvTerms
CvTermCloner() - Constructor for class psidev.psi.mi.jami.utils.clone.CvTermCloner
CvTermComparator - Class in psidev.psi.mi.jami.utils.comparator.cv: comparator for CvTerms : If one CvTerm does not have any identifiers, it will only compare the short names (case insensitive).
CvTermComparator(Comparator<Xref>) - Constructor for class psidev.psi.mi.jami.utils.comparator.cv.CvTermComparator: Creates a new CvTermComparator with UnambiguousExternalIdentifierComparator
CvTermComparator(CollectionComparator<Xref>) - Constructor for class psidev.psi.mi.jami.utils.comparator.cv.CvTermComparator: Constructor for CvTermComparator.
CvTermCompositeFetcherTemplate<T extends CvTerm,F extends CvTermFetcher<T>> - Class in psidev.psi.mi.jami.bridges.fetcher.mock: Template for a CvTermCompositeFetcher which delegates fetching to other fetcher
CvTermCompositeFetcherTemplate() - Constructor for class psidev.psi.mi.jami.bridges.fetcher.mock.CvTermCompositeFetcherTemplate: Constructor for CvTermCompositeFetcherTemplate.
CvTermEnricher<C extends CvTerm> - Interface in psidev.psi.mi.jami.enricher: The CvTerm enricher is an enricher which can enrich either single cvTerm or a collection.
CvTermEnricherListener<C extends CvTerm> - Interface in psidev.psi.mi.jami.enricher.listener: An extension of the CvTermChangeListener with specific methods related to the process of enriching.
CvTermEnricherListenerManager<C extends CvTerm> - Class in psidev.psi.mi.jami.enricher.listener.impl: A manager for listeners which holds a list of listeners.
CvTermEnricherListenerManager() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.CvTermEnricherListenerManager: A constructor to create a listener manager with no listeners.
CvTermEnricherListenerManager(CvTermEnricherListener<C>...) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.CvTermEnricherListenerManager: A constructor to initiate a listener manager with as many listeners as required.
CvTermEnricherLogger - Class in psidev.psi.mi.jami.enricher.listener.impl.log: A logging listener.
CvTermEnricherLogger() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.log.CvTermEnricherLogger
CvTermEnricherStatisticsWriter<C extends CvTerm> - Class in psidev.psi.mi.jami.enricher.listener.impl.writer: A statistics logger which records changes made by the enricher.
CvTermEnricherStatisticsWriter() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.CvTermEnricherStatisticsWriter: Uses the known name of the JamiObject type as the seed to generate names for the success an failure log files.
CvTermEnricherStatisticsWriter(File, File) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.CvTermEnricherStatisticsWriter: Uses the exact files provided to log successful and failed enrichments.
CvTermEnricherStatisticsWriter(String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.CvTermEnricherStatisticsWriter: Creates the files from the provided seed file name with 'success' and 'failure' appended.
CvTermEnricherStatisticsWriter(String, String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.CvTermEnricherStatisticsWriter: Uses the provided names to create the files for successful and failed enrichment logging.
CvTermFetcher<C extends CvTerm> - Interface in psidev.psi.mi.jami.bridges.fetcher: The interface for finding a CvTerm or extension of CvTerm.
CvTermIdentifierComparator - Class in psidev.psi.mi.jami.utils.comparator.cv: Cv term comparator that only takes into consideration identifiers.
CvTermIdentifierComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.cv.CvTermIdentifierComparator: Creates a new CvTermComparator with UnambiguousExternalIdentifierComparator
CvTermIdentifierComparator(Comparator<Xref>) - Constructor for class psidev.psi.mi.jami.utils.comparator.cv.CvTermIdentifierComparator: Constructor for CvTermIdentifierComparator.
CvTermIdentifierComparator(CollectionComparator<Xref>) - Constructor for class psidev.psi.mi.jami.utils.comparator.cv.CvTermIdentifierComparator: Constructor for CvTermIdentifierComparator.
CvTermNameComparator - Class in psidev.psi.mi.jami.utils.comparator.cv: Comparator for CvTerms that only takes into consideration the shortName of ths cv term
CvTermNameComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.cv.CvTermNameComparator: Creates a new CvTermComparator with UnambiguousExternalIdentifierComparator
cvTerms(int) - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
CvTermsCollectionComparator - Class in psidev.psi.mi.jami.utils.comparator.cv: Comparator for a collection of CvTerms
CvTermsCollectionComparator(Comparator<CvTerm>) - Constructor for class psidev.psi.mi.jami.utils.comparator.cv.CvTermsCollectionComparator: Creates a new cvTerm CollectionComparator.
CvTermStream - Interface in psidev.psi.mi.jami.datasource: A CV term data source allows to stream the controlled vocabulary terms of a given dataSource
CvTermUtils - Class in psidev.psi.mi.jami.utils: Utility class for CvTerms
CvTermUtils() - Constructor for class psidev.psi.mi.jami.utils.CvTermUtils
CvTermXrefContainer - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Container for both xrefs and identifiers in a CvTerm
CvTermXrefContainer - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Container for both xrefs and identifiers in a CvTerm
CvTermXrefContainer - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Container for both xrefs and identifiers in a CvTerm
CvTermXrefContainer() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.CvTermXrefContainer
CvTermXrefContainer() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.CvTermXrefContainer
CvTermXrefContainer() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.CvTermXrefContainer

D

DASH - psidev.psi.mi.jami.tab.io.parser.TokenKind
DASH - Static variable in interface psidev.psi.mi.jami.tab.io.parser.MitabLineParserConstants: RegularExpression Id.
database - Variable in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.SeqFeatureType
dataset - Variable in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Entry
date(int) - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
DATE_FORMAT - Static variable in class psidev.psi.mi.jami.tab.utils.MitabUtils: Constant DATE_FORMAT
dates(int) - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
dbMap - Variable in class psidev.psi.mi.jami.bridges.ols.AbstractOlsFetcher
dbReference - Variable in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Entry
DbReferenceType - Class in psidev.psi.mi.jami.bridges.uniprot.rest.response.model: Java class for dbReferenceType complex type.
DbReferenceType() - Constructor for class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.DbReferenceType
DDBJ_EMBL_GENBANK - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant DDBJ_EMBL_GENBANK="ddbj/embl/genbank"
DDBJ_EMBL_GENBANK_MI - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant DDBJ_EMBL_GENBANK_MI="MI:0475"
debugStream - Variable in class psidev.psi.mi.jami.tab.io.parser.MitabLineParserTokenManager: Debug output.
decode(byte[], int, int, int) - Static method in class psidev.psi.mi.jami.utils.checksum.Base64: Very low-level access to decoding ASCII characters in the form of a byte array.
decode(String) - Static method in class psidev.psi.mi.jami.utils.checksum.Base64: Decodes data from Base64 notation, automatically detecting gzip-compressed data and decompressing it.
decode(String, int) - Static method in class psidev.psi.mi.jami.utils.checksum.Base64: Decodes data from Base64 notation, automatically detecting gzip-compressed data and decompressing it.
DECODE - Static variable in class psidev.psi.mi.jami.utils.checksum.Base64: Specify decoding.
decodeFileToFile(String, String) - Static method in class psidev.psi.mi.jami.utils.checksum.Base64: Reads infile and decodes it to outfile.
decodeFromFile(String) - Static method in class psidev.psi.mi.jami.utils.checksum.Base64: Convenience method for reading a base64-encoded file and decoding it.
decodeToFile(String, String) - Static method in class psidev.psi.mi.jami.utils.checksum.Base64: Convenience method for decoding data to a file.
decodeToObject(String) - Static method in class psidev.psi.mi.jami.utils.checksum.Base64: Attempts to decode Base64 data and deserialize a Java Object within.
DECREASING_PTM - Static variable in interface psidev.psi.mi.jami.model.Feature: Constant DECREASING_PTM="decreasing-ptm"
DECREASING_PTM_MI - Static variable in interface psidev.psi.mi.jami.model.Feature: Constant DECREASING_PTM_MI="MI:1223"
DEFAULT - Static variable in interface psidev.psi.mi.jami.tab.io.parser.MitabLineParserConstants: Lexical state.
DEFAULT_RELEASE_DATE_OPTION - Static variable in class psidev.psi.mi.jami.xml.model.extension.factory.options.PsiXmlWriterOptions: The option to provide a default release date for each entry source.
DEFAULT_SOURCE_OPTION - Static variable in class psidev.psi.mi.jami.xml.model.extension.factory.options.PsiXmlWriterOptions: The option to provide a default source for each entry source in case the interactions do not have a source.
DefaultAlias - Class in psidev.psi.mi.jami.model.impl: Default implementation of Alias.
DefaultAlias(String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultAlias: Constructor for DefaultAlias.
DefaultAlias(CvTerm, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultAlias: Constructor for DefaultAlias.
DefaultAliasComparator - Class in psidev.psi.mi.jami.utils.comparator.alias: Default alias comparator.
DefaultAliasComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.alias.DefaultAliasComparator
DefaultAllostery<T extends AllostericEffector> - Class in psidev.psi.mi.jami.model.impl: Default implementation for Allostery Notes: The equals and hashcode methods have NOT been overridden because the Allostery object is a complex object.
DefaultAllostery(CvTerm, CvTerm, ModelledParticipant, T) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultAllostery: Constructor for DefaultAllostery.
DefaultAllostery(CvTerm, ModelledParticipant, T) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultAllostery: Constructor for DefaultAllostery.
DefaultAllosteryComparator - Class in psidev.psi.mi.jami.utils.comparator.cooperativity: Default comparator for Allostery It will first compare basic cooperative effect properties using DefaultCooperativeEffectBaseComparator.
DefaultAllosteryComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.cooperativity.DefaultAllosteryComparator
DefaultAnnotation - Class in psidev.psi.mi.jami.model.impl: Default implementation for Annotation.
DefaultAnnotation(CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultAnnotation: Constructor for DefaultAnnotation.
DefaultAnnotation(CvTerm, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultAnnotation: Constructor for DefaultAnnotation.
DefaultAnnotationComparator - Class in psidev.psi.mi.jami.utils.comparator.annotation: Default annotation comparator It compares first the topics and then the value (case insensitive) - Two annotations which are null are equals - The annotation which is not null is before null.
DefaultAnnotationComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.annotation.DefaultAnnotationComparator
DefaultAvailability - Class in psidev.psi.mi.jami.xml.model.extension.xml253: A text describing the availability of data, e.g.
DefaultAvailability - Class in psidev.psi.mi.jami.xml.model.extension.xml254: A text describing the availability of data, e.g.
DefaultAvailability - Class in psidev.psi.mi.jami.xml.model.extension.xml300: A text describing the availability of data, e.g.
DefaultAvailability() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultAvailability: Constructor for DefaultAvailability.
DefaultAvailability() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultAvailability: Constructor for DefaultAvailability.
DefaultAvailability() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultAvailability: Constructor for DefaultAvailability.
DefaultBinaryInteraction - Class in psidev.psi.mi.jami.binary.impl: Default implementation for BinaryInteraction Note: the methods equals and hashCode have not been overridden.
DefaultBinaryInteraction() - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteraction: Constructor for DefaultBinaryInteraction.
DefaultBinaryInteraction(String) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteraction: Constructor for DefaultBinaryInteraction.
DefaultBinaryInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteraction: Constructor for DefaultBinaryInteraction.
DefaultBinaryInteraction(String, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteraction: Constructor for DefaultBinaryInteraction.
DefaultBinaryInteraction(String, CvTerm, Participant, Participant) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteraction: Constructor for DefaultBinaryInteraction.
DefaultBinaryInteraction(String, CvTerm, Participant, Participant, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteraction: Constructor for DefaultBinaryInteraction.
DefaultBinaryInteraction(String, Participant, Participant) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteraction: Constructor for DefaultBinaryInteraction.
DefaultBinaryInteraction(String, Participant, Participant, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteraction: Constructor for DefaultBinaryInteraction.
DefaultBinaryInteraction(CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteraction: Constructor for DefaultBinaryInteraction.
DefaultBinaryInteraction(Participant, Participant) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteraction: Constructor for DefaultBinaryInteraction.
DefaultBinaryInteraction(Participant, Participant, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteraction: Constructor for DefaultBinaryInteraction.
DefaultBinaryInteractionEvidence - Class in psidev.psi.mi.jami.binary.impl: Default implementation for BinaryInteractionEvidence
DefaultBinaryInteractionEvidence() - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: Constructor for DefaultBinaryInteractionEvidence.
DefaultBinaryInteractionEvidence(String) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: Constructor for DefaultBinaryInteractionEvidence.
DefaultBinaryInteractionEvidence(String, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: Constructor for DefaultBinaryInteractionEvidence.
DefaultBinaryInteractionEvidence(String, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: Constructor for DefaultBinaryInteractionEvidence.
DefaultBinaryInteractionEvidence(String, CvTerm, ParticipantEvidence, ParticipantEvidence) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: Constructor for DefaultBinaryInteractionEvidence.
DefaultBinaryInteractionEvidence(String, CvTerm, ParticipantEvidence, ParticipantEvidence, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: Constructor for DefaultBinaryInteractionEvidence.
DefaultBinaryInteractionEvidence(String, ParticipantEvidence, ParticipantEvidence) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: Constructor for DefaultBinaryInteractionEvidence.
DefaultBinaryInteractionEvidence(String, ParticipantEvidence, ParticipantEvidence, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: Constructor for DefaultBinaryInteractionEvidence.
DefaultBinaryInteractionEvidence(CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: Constructor for DefaultBinaryInteractionEvidence.
DefaultBinaryInteractionEvidence(ParticipantEvidence, ParticipantEvidence) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: Constructor for DefaultBinaryInteractionEvidence.
DefaultBinaryInteractionEvidence(ParticipantEvidence, ParticipantEvidence, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: Constructor for DefaultBinaryInteractionEvidence.
DefaultBinaryInteractionFactory - Class in psidev.psi.mi.jami.factory: A factory to create default BinaryInteractions
DefaultBinaryInteractionFactory() - Constructor for class psidev.psi.mi.jami.factory.DefaultBinaryInteractionFactory
DefaultBioactiveEntity - Class in psidev.psi.mi.jami.model.impl: Default implementation for bioactive entity Notes: The equals and hashcode methods have NOT been overridden because the BioactiveEntity object is a complex object.
DefaultBioactiveEntity(String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: Constructor for DefaultBioactiveEntity.
DefaultBioactiveEntity(String, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: Constructor for DefaultBioactiveEntity.
DefaultBioactiveEntity(String, String, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: Constructor for DefaultBioactiveEntity.
DefaultBioactiveEntity(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: Constructor for DefaultBioactiveEntity.
DefaultBioactiveEntity(String, String, CvTerm, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: Constructor for DefaultBioactiveEntity.
DefaultBioactiveEntity(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: Constructor for DefaultBioactiveEntity.
DefaultBioactiveEntity(String, String, CvTerm, Organism, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: Constructor for DefaultBioactiveEntity.
DefaultBioactiveEntity(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: Constructor for DefaultBioactiveEntity.
DefaultBioactiveEntity(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: Constructor for DefaultBioactiveEntity.
DefaultBioactiveEntity(String, String, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: Constructor for DefaultBioactiveEntity.
DefaultBioactiveEntity(String, String, Organism, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: Constructor for DefaultBioactiveEntity.
DefaultBioactiveEntity(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: Constructor for DefaultBioactiveEntity.
DefaultBioactiveEntity(String, String, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: Constructor for DefaultBioactiveEntity.
DefaultBioactiveEntity(String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: Constructor for DefaultBioactiveEntity.
DefaultBioactiveEntity(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: Constructor for DefaultBioactiveEntity.
DefaultBioactiveEntity(String, CvTerm, Organism, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: Constructor for DefaultBioactiveEntity.
DefaultBioactiveEntity(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: Constructor for DefaultBioactiveEntity.
DefaultBioactiveEntity(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: Constructor for DefaultBioactiveEntity.
DefaultBioactiveEntity(String, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: Constructor for DefaultBioactiveEntity.
DefaultBioactiveEntity(String, Organism, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: Constructor for DefaultBioactiveEntity.
DefaultBioactiveEntity(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: Constructor for DefaultBioactiveEntity.
DefaultBioactiveEntity(String, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: Constructor for DefaultBioactiveEntity.
DefaultBioactiveEntityComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Default bioactive entity comparator.
DefaultBioactiveEntityComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.DefaultBioactiveEntityComparator
DefaultCausalRelationship - Class in psidev.psi.mi.jami.model.impl: Default implementation for CausalRelationship Notes: The equals and hashcode methods have NOT been overridden because the CausalRelationship object is a complex object.
DefaultCausalRelationship(CvTerm, Participant) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultCausalRelationship: Constructor for DefaultCausalRelationship.
DefaultCausalRelationshipComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Default comparator for CausalRelationship It will first compare the relationType using DefaultCvTermComparator.
DefaultCausalRelationshipComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.DefaultCausalRelationshipComparator
DefaultChecksum - Class in psidev.psi.mi.jami.model.impl: Default implementation for Checksum Notes: The equals and hashcode methods have been overridden to be consistent with UnambiguousChecksumComparator
DefaultChecksum(CvTerm, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultChecksum: Constructor for DefaultChecksum.
DefaultChecksumComparator - Class in psidev.psi.mi.jami.utils.comparator.checksum: Default checksum comparator.
DefaultChecksumComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.checksum.DefaultChecksumComparator
DefaultComplex - Class in psidev.psi.mi.jami.model.impl: Default implementation for complexes Notes: The equals and hashcode methods have NOT been overridden because the Complex object is a complex object.
DefaultComplex(String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultComplex: Constructor for DefaultComplex.
DefaultComplex(String, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultComplex: Constructor for DefaultComplex.
DefaultComplex(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultComplex: Constructor for DefaultComplex.
DefaultComplex(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultComplex: Constructor for DefaultComplex.
DefaultComplex(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultComplex: Constructor for DefaultComplex.
DefaultComplex(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultComplex: Constructor for DefaultComplex.
DefaultComplex(String, String, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultComplex: Constructor for DefaultComplex.
DefaultComplex(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultComplex: Constructor for DefaultComplex.
DefaultComplex(String, String, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultComplex: Constructor for DefaultComplex.
DefaultComplex(String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultComplex: Constructor for DefaultComplex.
DefaultComplex(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultComplex: Constructor for DefaultComplex.
DefaultComplex(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultComplex: Constructor for DefaultComplex.
DefaultComplex(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultComplex: Constructor for DefaultComplex.
DefaultComplex(String, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultComplex: Constructor for DefaultComplex.
DefaultComplex(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultComplex: Constructor for DefaultComplex.
DefaultComplex(String, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultComplex: Constructor for DefaultComplex.
DefaultComplexComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Default Complex comparator It will first look at the default properties of an interactor using DefaultInteractorBaseComparator.
DefaultComplexComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.DefaultComplexComparator
DefaultComplexExpansionFactory - Class in psidev.psi.mi.jami.factory: Default implementation of complex expansion
DefaultComplexExpansionFactory() - Constructor for class psidev.psi.mi.jami.factory.DefaultComplexExpansionFactory
DefaultConfidence - Class in psidev.psi.mi.jami.model.impl: Default implementation for Confidence Notes: The equals and hashcode methods have been overridden to be consistent with UnambiguousConfidenceComparator
DefaultConfidence(CvTerm, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultConfidence: Constructor for DefaultConfidence.
DefaultConfidenceComparator - Class in psidev.psi.mi.jami.utils.comparator.confidence: Default confidence comparator.
DefaultConfidenceComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.confidence.DefaultConfidenceComparator
DefaultCooperativeEffect - Class in psidev.psi.mi.jami.model.impl: Default implementation for CooperativeEffect Notes: The equals and hashcode methods have NOT been overridden because the CooperativeEffect object is a complex object.
DefaultCooperativeEffect(CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultCooperativeEffect: Constructor for DefaultCooperativeEffect.
DefaultCooperativeEffect(CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultCooperativeEffect: Constructor for DefaultCooperativeEffect.
DefaultCooperativeEffectBaseComparator - Class in psidev.psi.mi.jami.utils.comparator.cooperativity: Default comparator for CooperativeEffect It will first compare the outcome using DefaultCvTermComparator.
DefaultCooperativeEffectBaseComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.cooperativity.DefaultCooperativeEffectBaseComparator
DefaultCooperativeEffectComparator - Class in psidev.psi.mi.jami.utils.comparator.cooperativity: Default cooperative effect comparator Allostery effects will always come before basic cooperative effects (preassembly) - It will use DefaultAllosteryComparator to compare allostery - It will use DefaultCooperativeEffectBaseComparator to compare basic cooperative effects
DefaultCooperativeEffectComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.cooperativity.DefaultCooperativeEffectComparator
DefaultCooperativityEvidence - Class in psidev.psi.mi.jami.model.impl: Default implementation for CooperativityEvidence Notes: The equals and hashcode methods have been overridden to be consistent with UnambiguousCooperativityEvidenceComparator
DefaultCooperativityEvidence(Publication) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultCooperativityEvidence: Constructor for DefaultCooperativityEvidence.
DefaultCooperativityEvidenceComparator - Class in psidev.psi.mi.jami.utils.comparator.cooperativity: Default comparator for cooperativityEvidence It will first compare the publications using DefaultPublicationComparator and then the evidenceMethods using DefaultCvTermComparator
DefaultCooperativityEvidenceComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.cooperativity.DefaultCooperativityEvidenceComparator
DefaultCuratedExperimentComparator - Class in psidev.psi.mi.jami.utils.comparator.experiment: Default curated experiment comparator.
DefaultCuratedExperimentComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.experiment.DefaultCuratedExperimentComparator
DefaultCuratedInteractionBaseComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Default comparator for curated interactions.
DefaultCuratedInteractionBaseComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.DefaultCuratedInteractionBaseComparator
DefaultCuratedInteractionComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Default curated Generic interaction comparator.
DefaultCuratedInteractionComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.DefaultCuratedInteractionComparator
DefaultCuratedInteractionEvidenceComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Default curated InteractionEvidenceComparator.
DefaultCuratedInteractionEvidenceComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.DefaultCuratedInteractionEvidenceComparator
DefaultCuratedModelledInteractionComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Default curated ModelledInteraction comparator.
DefaultCuratedModelledInteractionComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.DefaultCuratedModelledInteractionComparator
DefaultCuratedPublicationComparator - Class in psidev.psi.mi.jami.utils.comparator.publication: Default curated AbstractPublicationComparator It uses a DefaultPublicationComparator to compares the bibliographic details and then will compare first the curation depth, then the source using DefaultCvTermComparator and then the released date.
DefaultCuratedPublicationComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.publication.DefaultCuratedPublicationComparator
DefaultCvTerm - Class in psidev.psi.mi.jami.model.impl: Default implementation for CvTerm Notes: The equals and hashcode methods have been overridden to be consistent with UnambiguousCvTermComparator
DefaultCvTerm(String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultCvTerm: Constructor for DefaultCvTerm.
DefaultCvTerm(String, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultCvTerm: Constructor for DefaultCvTerm.
DefaultCvTerm(String, String, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultCvTerm: Constructor for DefaultCvTerm.
DefaultCvTerm(String, String, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultCvTerm: Constructor for DefaultCvTerm.
DefaultCvTerm(String, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultCvTerm: Constructor for DefaultCvTerm.
DefaultCvTermComparator - Class in psidev.psi.mi.jami.utils.comparator.cv: Default comparator for CvTerms.
DefaultCvTermComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.cv.DefaultCvTermComparator
DefaultEntityBaseComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Default entity comparator It will first compare the interactors using DefaultInteractorComparator.
DefaultEntityBaseComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.DefaultEntityBaseComparator
DefaultEntityComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Generic default entity comparator.
DefaultEntityComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.DefaultEntityComparator
DefaultExactAllosteryComparator - Class in psidev.psi.mi.jami.utils.comparator.cooperativity: Default exact comparator for Allostery It will first compare basic cooperative effect properties using DefaultExactCooperativeEffectBaseComparator.
DefaultExactAllosteryComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.cooperativity.DefaultExactAllosteryComparator
DefaultExactBioactiveEntityComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: default Exact bioactive entity comparator.
DefaultExactBioactiveEntityComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.DefaultExactBioactiveEntityComparator
DefaultExactCausalRelationshipComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Default exact comparator for CausalRelationship It will first compare the relationType using DefaultCvTermComparator.
DefaultExactCausalRelationshipComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.DefaultExactCausalRelationshipComparator
DefaultExactComplexComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Default exact Complex comparator It will first look at the default properties of an interactor using DefaultExactInteractorBaseComparator.
DefaultExactComplexComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.DefaultExactComplexComparator
DefaultExactCooperativeEffectBaseComparator - Class in psidev.psi.mi.jami.utils.comparator.cooperativity: Default exact comparator for CooperativeEffect It will first compare the outcome using DefaultCvTermComparator.
DefaultExactCooperativeEffectBaseComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.cooperativity.DefaultExactCooperativeEffectBaseComparator
DefaultExactCooperativeEffectComparator - Class in psidev.psi.mi.jami.utils.comparator.cooperativity: Default exact cooperative effect comparator Allostery effects will always come before basic cooperative effects (preassembly) - It will use DefaultExactAllosteryComparator to compare allostery - It will use DefaultExactCooperativeEffectBaseComparator to compare basic cooperative effects
DefaultExactCooperativeEffectComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.cooperativity.DefaultExactCooperativeEffectComparator
DefaultExactCuratedInteractionComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Default exact curated Generic interaction comparator.
DefaultExactCuratedInteractionComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.DefaultExactCuratedInteractionComparator
DefaultExactCuratedInteractionEvidenceComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Default exact curated InteractionEvidenceComparator.
DefaultExactCuratedInteractionEvidenceComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.DefaultExactCuratedInteractionEvidenceComparator
DefaultExactCuratedModelledInteractionComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Default exact curated ModelledInteraction comparator.
DefaultExactCuratedModelledInteractionComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.DefaultExactCuratedModelledInteractionComparator
DefaultExactEntityBaseComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Default exact entity comparator It will first compare the interactors using DefaultExactInteractorComparator.
DefaultExactEntityBaseComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.DefaultExactEntityBaseComparator
DefaultExactEntityComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Generic default exact entity comparator.
DefaultExactEntityComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.DefaultExactEntityComparator
DefaultExactExperimentalEntityComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Default exact experimental entity comparator.
DefaultExactExperimentalEntityComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.DefaultExactExperimentalEntityComparator
DefaultExactExperimentalParticipantPoolComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Default exact experimental participant pool comparator.
DefaultExactExperimentalParticipantPoolComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.DefaultExactExperimentalParticipantPoolComparator
DefaultExactGeneComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Default exact gene comparator.
DefaultExactGeneComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.DefaultExactGeneComparator
DefaultExactInteractionComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Default exact Generic interaction comparator.
DefaultExactInteractionComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.DefaultExactInteractionComparator
DefaultExactInteractionEvidenceComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Default exact InteractionEvidenceComparator.
DefaultExactInteractionEvidenceComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.DefaultExactInteractionEvidenceComparator
DefaultExactInteractionInteractorComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Default exact interaction comparator only based on the interactors of an interaction.
DefaultExactInteractionInteractorComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.DefaultExactInteractionInteractorComparator
DefaultExactInteractorBaseComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Default Interactor base comparator.
DefaultExactInteractorBaseComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.DefaultExactInteractorBaseComparator
DefaultExactInteractorComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Default exact Interactor Comparator.
DefaultExactInteractorComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.DefaultExactInteractorComparator
DefaultExactInteractorPoolComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Default exact InteractorPoolComparator.
DefaultExactInteractorPoolComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.DefaultExactInteractorPoolComparator
DefaultExactModelledEntityComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Default exact biological entity comparator.
DefaultExactModelledEntityComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.DefaultExactModelledEntityComparator
DefaultExactModelledInteractionComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Default exact ModelledInteraction comparator.
DefaultExactModelledInteractionComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.DefaultExactModelledInteractionComparator
DefaultExactModelledParticipantComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Default exact biological participant comparator.
DefaultExactModelledParticipantComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.DefaultExactModelledParticipantComparator
DefaultExactModelledParticipantInteractorComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Default biological participant comparator based on the interactor only.
DefaultExactModelledParticipantInteractorComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.DefaultExactModelledParticipantInteractorComparator
DefaultExactModelledParticipantPoolComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Default exact biological participant pool comparator.
DefaultExactModelledParticipantPoolComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.DefaultExactModelledParticipantPoolComparator
DefaultExactMoleculeEffectorComparator - Class in psidev.psi.mi.jami.utils.comparator.cooperativity: Default exact Comparator for MoleculeEffector.
DefaultExactMoleculeEffectorComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.cooperativity.DefaultExactMoleculeEffectorComparator
DefaultExactNucleicAcidComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Default exact nucleic acids comparator.
DefaultExactNucleicAcidComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.DefaultExactNucleicAcidComparator
DefaultExactParticipantBaseComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Default exact participant comparator It will first compare the interactors and stoichiometry using DefaultExactEntityComparator.
DefaultExactParticipantBaseComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.DefaultExactParticipantBaseComparator
DefaultExactParticipantComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Generic default exact participant comparator.
DefaultExactParticipantComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.DefaultExactParticipantComparator
DefaultExactParticipantEvidenceComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Default exact Experimental participant comparator.
DefaultExactParticipantEvidenceComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.DefaultExactParticipantEvidenceComparator
DefaultExactParticipantEvidenceInteractorComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Default exact experimental participant comparator based on the interactor only.
DefaultExactParticipantEvidenceInteractorComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.DefaultExactParticipantEvidenceInteractorComparator
DefaultExactParticipantInteractorComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: It will compare the interactors using DefaultExactInteractorComparator.
DefaultExactParticipantInteractorComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.DefaultExactParticipantInteractorComparator
DefaultExactParticipantPoolComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Default exact participant pool comparator It will first compare the interactors, biological role and stoichiometry using DefaultExactParticipantBaseComparator it will then compare the participant candidates using DefaultExactEntityBaseComparator.
DefaultExactParticipantPoolComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.DefaultExactParticipantPoolComparator
DefaultExactPolymerComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Default exact polymer comparator.
DefaultExactPolymerComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.DefaultExactPolymerComparator
DefaultExactProteinComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Default exact proteins comparator.
DefaultExactProteinComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.DefaultExactProteinComparator
DefaultExperiment - Class in psidev.psi.mi.jami.model.impl: Default implementation for Experiment Notes: The equals and hashcode methods have NOT been overridden because the Experiment object is a complex object.
DefaultExperiment(Publication) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultExperiment: Constructor for DefaultExperiment.
DefaultExperiment(Publication, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultExperiment: Constructor for DefaultExperiment.
DefaultExperiment(Publication, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultExperiment: Constructor for DefaultExperiment.
DefaultExperimentalEntityComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Default experimental entity comparator.
DefaultExperimentalEntityComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.DefaultExperimentalEntityComparator
DefaultExperimentalParticipantCandidate - Class in psidev.psi.mi.jami.model.impl: Default implementation of experimental participant candidate
DefaultExperimentalParticipantCandidate(Interactor) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantCandidate: Constructor for DefaultExperimentalParticipantCandidate.
DefaultExperimentalParticipantCandidate(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantCandidate: Constructor for DefaultExperimentalParticipantCandidate.
DefaultExperimentalParticipantPool - Class in psidev.psi.mi.jami.model.impl: Default implementation of ExperimentalParticipantPool
DefaultExperimentalParticipantPool(String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantPool: Constructor for DefaultExperimentalParticipantPool.
DefaultExperimentalParticipantPool(String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantPool: Constructor for DefaultExperimentalParticipantPool.
DefaultExperimentalParticipantPool(String, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantPool: Constructor for DefaultExperimentalParticipantPool.
DefaultExperimentalParticipantPool(String, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantPool: Constructor for DefaultExperimentalParticipantPool.
DefaultExperimentalParticipantPool(String, CvTerm, CvTerm, Organism, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantPool: Constructor for DefaultExperimentalParticipantPool.
DefaultExperimentalParticipantPool(String, CvTerm, CvTerm, Stoichiometry, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantPool: Constructor for DefaultExperimentalParticipantPool.
DefaultExperimentalParticipantPool(String, CvTerm, CvTerm, Stoichiometry, Organism, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantPool: Constructor for DefaultExperimentalParticipantPool.
DefaultExperimentalParticipantPool(String, Stoichiometry) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantPool: Constructor for DefaultExperimentalParticipantPool.
DefaultExperimentalParticipantPool(String, Stoichiometry, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantPool: Constructor for DefaultExperimentalParticipantPool.
DefaultExperimentalParticipantPool(InteractionEvidence, String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantPool: Constructor for DefaultExperimentalParticipantPool.
DefaultExperimentalParticipantPool(InteractionEvidence, String, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantPool: Constructor for DefaultExperimentalParticipantPool.
DefaultExperimentalParticipantPool(InteractionEvidence, String, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantPool: Constructor for DefaultExperimentalParticipantPool.
DefaultExperimentalParticipantPool(InteractionEvidence, String, CvTerm, CvTerm, Organism, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantPool: Constructor for DefaultExperimentalParticipantPool.
DefaultExperimentalParticipantPool(InteractionEvidence, String, CvTerm, CvTerm, Stoichiometry, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantPool: Constructor for DefaultExperimentalParticipantPool.
DefaultExperimentalParticipantPool(InteractionEvidence, String, CvTerm, CvTerm, Stoichiometry, Organism, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantPool: Constructor for DefaultExperimentalParticipantPool.
DefaultExperimentalParticipantPool(InteractionEvidence, String, CvTerm, Stoichiometry, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantPool: Constructor for DefaultExperimentalParticipantPool.
DefaultExperimentalParticipantPool(InteractionEvidence, String, Stoichiometry, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantPool: Constructor for DefaultExperimentalParticipantPool.
DefaultExperimentalParticipantPoolComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Default experimental participant pool comparator.
DefaultExperimentalParticipantPoolComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.DefaultExperimentalParticipantPoolComparator
DefaultExperimentComparator - Class in psidev.psi.mi.jami.utils.comparator.experiment: Default experiment comparator.
DefaultExperimentComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.experiment.DefaultExperimentComparator
DefaultExtendedMitabColumnFeeder - Class in psidev.psi.mi.jami.tab.io.writer.feeder.extended: Default Mitab 2.5 extended feeder for interaction.
DefaultExtendedMitabColumnFeeder(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.feeder.extended.DefaultExtendedMitabColumnFeeder: Constructor for DefaultExtendedMitabColumnFeeder.
DefaultExternalIdentifierComparator - Class in psidev.psi.mi.jami.utils.comparator.xref: Default comparator for external identifiers (Xref database and id).
DefaultExternalIdentifierComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.xref.DefaultExternalIdentifierComparator
DefaultFeature - Class in psidev.psi.mi.jami.model.impl: Default implementation for feature Notes: The equals and hashcode methods have NOT been overridden because the Feature object is a complex object.
DefaultFeature() - Constructor for class psidev.psi.mi.jami.model.impl.DefaultFeature: Constructor for DefaultFeature.
DefaultFeature(String, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultFeature: Constructor for DefaultFeature.
DefaultFeature(String, String, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultFeature: Constructor for DefaultFeature.
DefaultFeature(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultFeature: Constructor for DefaultFeature.
DefaultFeature(String, String, CvTerm, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultFeature: Constructor for DefaultFeature.
DefaultFeature(CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultFeature: Constructor for DefaultFeature.
DefaultFeature(CvTerm, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultFeature: Constructor for DefaultFeature.
DefaultFeatureBaseComparator - Class in psidev.psi.mi.jami.utils.comparator.feature: Default feature comparator.
DefaultFeatureBaseComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.feature.DefaultFeatureBaseComparator
DefaultFeatureComparator - Class in psidev.psi.mi.jami.utils.comparator.feature: Generic default feature comparator.
DefaultFeatureComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.feature.DefaultFeatureComparator
DefaultFeatureEvidence - Class in psidev.psi.mi.jami.model.impl: Default implementation for FeatureEvidence Notes: The equals and hashcode methods have NOT been overridden because the FeatureEvidence object is a complex object.
DefaultFeatureEvidence() - Constructor for class psidev.psi.mi.jami.model.impl.DefaultFeatureEvidence: Constructor for DefaultFeatureEvidence.
DefaultFeatureEvidence(String, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultFeatureEvidence: Constructor for DefaultFeatureEvidence.
DefaultFeatureEvidence(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultFeatureEvidence: Constructor for DefaultFeatureEvidence.
DefaultFeatureEvidence(CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultFeatureEvidence: Constructor for DefaultFeatureEvidence.
DefaultFeatureEvidence(ParticipantEvidence) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultFeatureEvidence: Constructor for DefaultFeatureEvidence.
DefaultFeatureEvidence(ParticipantEvidence, String, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultFeatureEvidence: Constructor for DefaultFeatureEvidence.
DefaultFeatureEvidence(ParticipantEvidence, String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultFeatureEvidence: Constructor for DefaultFeatureEvidence.
DefaultFeatureEvidence(ParticipantEvidence, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultFeatureEvidence: Constructor for DefaultFeatureEvidence.
DefaultFeatureEvidenceComparator - Class in psidev.psi.mi.jami.utils.comparator.feature: Default FeatureEvidence comparator.
DefaultFeatureEvidenceComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.feature.DefaultFeatureEvidenceComparator
DefaultFeatureModificationEffector - Class in psidev.psi.mi.jami.model.impl: Default implementation for FeatureModificationEffector Notes: The equals and hashcode methods have NOT been overridden because the FeatureModificationEffector object is a complex object.
DefaultFeatureModificationEffector(ModelledFeature) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultFeatureModificationEffector: Constructor for DefaultFeatureModificationEffector.
DefaultFeatureModificationEffectorComparator - Class in psidev.psi.mi.jami.utils.comparator.cooperativity: Default comparator for FeatureModificationEffector.
DefaultFeatureModificationEffectorComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.cooperativity.DefaultFeatureModificationEffectorComparator
DefaultFileSourceContext - Class in psidev.psi.mi.jami.datasource: A DefaultFileSourceContext is the basic implementation of FileSourceContext and contains some file location information
DefaultFileSourceContext() - Constructor for class psidev.psi.mi.jami.datasource.DefaultFileSourceContext: Constructor for DefaultFileSourceContext.
DefaultFileSourceContext(int, int) - Constructor for class psidev.psi.mi.jami.datasource.DefaultFileSourceContext: Constructor for DefaultFileSourceContext.
DefaultFileSourceContext(FileSourceLocator) - Constructor for class psidev.psi.mi.jami.datasource.DefaultFileSourceContext: Constructor for DefaultFileSourceContext.
DefaultGene - Class in psidev.psi.mi.jami.model.impl: Default implementation for gene Notes: The equals and hashcode methods have NOT been overridden because the Gene object is a complex object.
DefaultGene(String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultGene: Constructor for DefaultGene.
DefaultGene(String, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultGene: Constructor for DefaultGene.
DefaultGene(String, String, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultGene: Constructor for DefaultGene.
DefaultGene(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultGene: Constructor for DefaultGene.
DefaultGene(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultGene: Constructor for DefaultGene.
DefaultGene(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultGene: Constructor for DefaultGene.
DefaultGene(String, String, CvTerm, Organism, Xref, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultGene: Constructor for DefaultGene.
DefaultGene(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultGene: Constructor for DefaultGene.
DefaultGene(String, String, CvTerm, Xref, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultGene: Constructor for DefaultGene.
DefaultGene(String, String, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultGene: Constructor for DefaultGene.
DefaultGene(String, String, Organism, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultGene: Constructor for DefaultGene.
DefaultGene(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultGene: Constructor for DefaultGene.
DefaultGene(String, String, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultGene: Constructor for DefaultGene.
DefaultGene(String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultGene: Constructor for DefaultGene.
DefaultGene(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultGene: Constructor for DefaultGene.
DefaultGene(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultGene: Constructor for DefaultGene.
DefaultGene(String, CvTerm, Organism, Xref, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultGene: Constructor for DefaultGene.
DefaultGene(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultGene: Constructor for DefaultGene.
DefaultGene(String, CvTerm, Xref, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultGene: Constructor for DefaultGene.
DefaultGene(String, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultGene: Constructor for DefaultGene.
DefaultGene(String, Organism, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultGene: Constructor for DefaultGene.
DefaultGene(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultGene: Constructor for DefaultGene.
DefaultGene(String, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultGene: Constructor for DefaultGene.
DefaultGeneComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Default gene comparator.
DefaultGeneComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.DefaultGeneComparator
DefaultImexCentralClient - Class in psidev.psi.mi.jami.bridges.imex: Default IMEx Central Client.
DefaultImexCentralClient(String, String, String) - Constructor for class psidev.psi.mi.jami.bridges.imex.DefaultImexCentralClient: Constructor for DefaultImexCentralClient.
DefaultInteraction - Class in psidev.psi.mi.jami.model.impl: Default implementation for interaction Notes: The equals and hashcode methods have NOT been overridden because the interaction object is a complex object.
DefaultInteraction() - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteraction: Constructor for DefaultInteraction.
DefaultInteraction(String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteraction: Constructor for DefaultInteraction.
DefaultInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteraction: Constructor for DefaultInteraction.
DefaultInteractionBaseComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Default Interaction comparator.
DefaultInteractionBaseComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.DefaultInteractionBaseComparator
DefaultInteractionComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Default Generic interaction comparator.
DefaultInteractionComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.DefaultInteractionComparator
DefaultInteractionEvidence - Class in psidev.psi.mi.jami.model.impl: Default implementation for InteractionEvidence Notes: The equals and hashcode methods have NOT been overridden because the InteractionEvidence object is a complex object.
DefaultInteractionEvidence() - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: Constructor for DefaultInteractionEvidence.
DefaultInteractionEvidence(String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: Constructor for DefaultInteractionEvidence.
DefaultInteractionEvidence(String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: Constructor for DefaultInteractionEvidence.
DefaultInteractionEvidence(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: Constructor for DefaultInteractionEvidence.
DefaultInteractionEvidence(String, Source, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: Constructor for DefaultInteractionEvidence.
DefaultInteractionEvidence(String, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: Constructor for DefaultInteractionEvidence.
DefaultInteractionEvidence(Experiment) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: Constructor for DefaultInteractionEvidence.
DefaultInteractionEvidence(Experiment, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: Constructor for DefaultInteractionEvidence.
DefaultInteractionEvidence(Experiment, String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: Constructor for DefaultInteractionEvidence.
DefaultInteractionEvidence(Experiment, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: Constructor for DefaultInteractionEvidence.
DefaultInteractionEvidence(Experiment, String, Source) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: Constructor for DefaultInteractionEvidence.
DefaultInteractionEvidence(Experiment, String, Source, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: Constructor for DefaultInteractionEvidence.
DefaultInteractionEvidence(Experiment, String, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: Constructor for DefaultInteractionEvidence.
DefaultInteractionEvidence(Experiment, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: Constructor for DefaultInteractionEvidence.
DefaultInteractionEvidence(Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: Constructor for DefaultInteractionEvidence.
DefaultInteractionEvidenceComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Default InteractionEvidenceComparator.
DefaultInteractionEvidenceComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.DefaultInteractionEvidenceComparator
DefaultInteractionInteractorComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Default interaction comparator only based on the interactors of an interaction.
DefaultInteractionInteractorComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.DefaultInteractionInteractorComparator
DefaultInteractor - Class in psidev.psi.mi.jami.model.impl: Default implementation for Interactor Notes: The equals and hashcode methods have NOT been overridden because the Interactor object is a complex object.
DefaultInteractor(String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractor: Constructor for DefaultInteractor.
DefaultInteractor(String, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractor: Constructor for DefaultInteractor.
DefaultInteractor(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractor: Constructor for DefaultInteractor.
DefaultInteractor(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractor: Constructor for DefaultInteractor.
DefaultInteractor(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractor: Constructor for DefaultInteractor.
DefaultInteractor(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractor: Constructor for DefaultInteractor.
DefaultInteractor(String, String, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractor: Constructor for DefaultInteractor.
DefaultInteractor(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractor: Constructor for DefaultInteractor.
DefaultInteractor(String, String, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractor: Constructor for DefaultInteractor.
DefaultInteractor(String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractor: Constructor for DefaultInteractor.
DefaultInteractor(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractor: Constructor for DefaultInteractor.
DefaultInteractor(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractor: Constructor for DefaultInteractor.
DefaultInteractor(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractor: Constructor for DefaultInteractor.
DefaultInteractor(String, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractor: Constructor for DefaultInteractor.
DefaultInteractor(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractor: Constructor for DefaultInteractor.
DefaultInteractor(String, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractor: Constructor for DefaultInteractor.
DefaultInteractorBaseComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Default interactor comparator.
DefaultInteractorBaseComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.DefaultInteractorBaseComparator
DefaultInteractorComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Default generic Interactor Comparator.
DefaultInteractorComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.DefaultInteractorComparator
DefaultInteractorFactory - Class in psidev.psi.mi.jami.factory: This factory allows to create a proper interactor depending on the type and xrefs
DefaultInteractorFactory() - Constructor for class psidev.psi.mi.jami.factory.DefaultInteractorFactory: Constructor for DefaultInteractorFactory.
DefaultInteractorPool - Class in psidev.psi.mi.jami.model.impl: Default implementation for interactor pool
DefaultInteractorPool(String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractorPool: Constructor for DefaultInteractorPool.
DefaultInteractorPool(String, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractorPool: Constructor for DefaultInteractorPool.
DefaultInteractorPool(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractorPool: Constructor for DefaultInteractorPool.
DefaultInteractorPool(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractorPool: Constructor for DefaultInteractorPool.
DefaultInteractorPool(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractorPool: Constructor for DefaultInteractorPool.
DefaultInteractorPool(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractorPool: Constructor for DefaultInteractorPool.
DefaultInteractorPool(String, String, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractorPool: Constructor for DefaultInteractorPool.
DefaultInteractorPool(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractorPool: Constructor for DefaultInteractorPool.
DefaultInteractorPool(String, String, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractorPool: Constructor for DefaultInteractorPool.
DefaultInteractorPool(String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractorPool: Constructor for DefaultInteractorPool.
DefaultInteractorPool(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractorPool: Constructor for DefaultInteractorPool.
DefaultInteractorPool(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractorPool: Constructor for DefaultInteractorPool.
DefaultInteractorPool(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractorPool: Constructor for DefaultInteractorPool.
DefaultInteractorPool(String, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractorPool: Constructor for DefaultInteractorPool.
DefaultInteractorPool(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractorPool: Constructor for DefaultInteractorPool.
DefaultInteractorPool(String, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultInteractorPool: Constructor for DefaultInteractorPool.
DefaultInteractorPoolComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Default InteractorPoolComparator.
DefaultInteractorPoolComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.DefaultInteractorPoolComparator
DefaultMitabColumnFeeder - Class in psidev.psi.mi.jami.tab.io.writer.feeder: The default Mitab 2.5 column feeder for interactions
DefaultMitabColumnFeeder(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.feeder.DefaultMitabColumnFeeder: Constructor for DefaultMitabColumnFeeder.
DefaultMitabFeature - Class in psidev.psi.mi.jami.tab.extension: A DefaultMitabFeature is a feature in MITAB with some free text.
DefaultMitabFeature() - Constructor for class psidev.psi.mi.jami.tab.extension.DefaultMitabFeature: Constructor for DefaultMitabFeature.
DefaultMitabFeature(String) - Constructor for class psidev.psi.mi.jami.tab.extension.DefaultMitabFeature: Constructor for DefaultMitabFeature.
DefaultMitabFeature(CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.DefaultMitabFeature: Constructor for DefaultMitabFeature.
DefaultMitabFeature(CvTerm, String) - Constructor for class psidev.psi.mi.jami.tab.extension.DefaultMitabFeature: Constructor for DefaultMitabFeature.
DefaultMitabSource - Class in psidev.psi.mi.jami.tab.extension.datasource: Abstract class for an InteractionSource coming from a MITAB file.
DefaultMitabSource() - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabSource: Constructor for DefaultMitabSource.
DefaultMitabStreamSource - Class in psidev.psi.mi.jami.tab.extension.datasource: Generic class for Mitab streaming datasource.
DefaultMitabStreamSource() - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: Empty constructor for the factory
DefaultMitabWriter - Class in psidev.psi.mi.jami.tab.io.writer: Generic writer for MITAB
DefaultMitabWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.DefaultMitabWriter
DefaultModelledBinaryInteraction - Class in psidev.psi.mi.jami.binary.impl: Default implementation for ModelledBinaryInteraction
DefaultModelledBinaryInteraction() - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultModelledBinaryInteraction: Constructor for DefaultModelledBinaryInteraction.
DefaultModelledBinaryInteraction(String) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultModelledBinaryInteraction: Constructor for DefaultModelledBinaryInteraction.
DefaultModelledBinaryInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultModelledBinaryInteraction: Constructor for DefaultModelledBinaryInteraction.
DefaultModelledBinaryInteraction(String, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultModelledBinaryInteraction: Constructor for DefaultModelledBinaryInteraction.
DefaultModelledBinaryInteraction(String, CvTerm, ModelledParticipant, ModelledParticipant) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultModelledBinaryInteraction: Constructor for DefaultModelledBinaryInteraction.
DefaultModelledBinaryInteraction(String, CvTerm, ModelledParticipant, ModelledParticipant, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultModelledBinaryInteraction: Constructor for DefaultModelledBinaryInteraction.
DefaultModelledBinaryInteraction(String, CvTerm, ModelledParticipant, ModelledParticipant, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultModelledBinaryInteraction: Constructor for DefaultModelledBinaryInteraction.
DefaultModelledBinaryInteraction(String, ModelledParticipant, ModelledParticipant) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultModelledBinaryInteraction: Constructor for DefaultModelledBinaryInteraction.
DefaultModelledBinaryInteraction(String, ModelledParticipant, ModelledParticipant, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultModelledBinaryInteraction: Constructor for DefaultModelledBinaryInteraction.
DefaultModelledBinaryInteraction(CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultModelledBinaryInteraction: Constructor for DefaultModelledBinaryInteraction.
DefaultModelledBinaryInteraction(ModelledParticipant, ModelledParticipant) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultModelledBinaryInteraction: Constructor for DefaultModelledBinaryInteraction.
DefaultModelledBinaryInteraction(ModelledParticipant, ModelledParticipant, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultModelledBinaryInteraction: Constructor for DefaultModelledBinaryInteraction.
DefaultModelledConfidence - Class in psidev.psi.mi.jami.model.impl: Default implementation for ModelledInteraction Notes: The equals and hashcode methods have been overridden to be consistent with UnambiguousConfidenceComparator
DefaultModelledConfidence(CvTerm, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultModelledConfidence: Constructor for DefaultModelledConfidence.
DefaultModelledConfidence(CvTerm, String, Publication) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultModelledConfidence: Constructor for DefaultModelledConfidence.
DefaultModelledEntityComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Default biological entity comparator.
DefaultModelledEntityComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.DefaultModelledEntityComparator
DefaultModelledFeature - Class in psidev.psi.mi.jami.model.impl: Default implementation for ModelledFeature Notes: The equals and hashcode methods have NOT been overridden because the ModelledFeature object is a complex object.
DefaultModelledFeature() - Constructor for class psidev.psi.mi.jami.model.impl.DefaultModelledFeature: Constructor for DefaultModelledFeature.
DefaultModelledFeature(String, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultModelledFeature: Constructor for DefaultModelledFeature.
DefaultModelledFeature(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultModelledFeature: Constructor for DefaultModelledFeature.
DefaultModelledFeature(CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultModelledFeature: Constructor for DefaultModelledFeature.
DefaultModelledFeature(ModelledParticipant) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultModelledFeature: Constructor for DefaultModelledFeature.
DefaultModelledFeature(ModelledParticipant, String, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultModelledFeature: Constructor for DefaultModelledFeature.
DefaultModelledFeature(ModelledParticipant, String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultModelledFeature: Constructor for DefaultModelledFeature.
DefaultModelledFeature(ModelledParticipant, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultModelledFeature: Constructor for DefaultModelledFeature.
DefaultModelledFeatureComparator - Class in psidev.psi.mi.jami.utils.comparator.feature: Default ModelledFeature comparator.
DefaultModelledFeatureComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.feature.DefaultModelledFeatureComparator
DefaultModelledInteraction - Class in psidev.psi.mi.jami.model.impl: Default implemntation for ModelledInteraction Notes: The equals and hashcode methods have NOT been overridden because the ModelledInteraction object is a complex object.
DefaultModelledInteraction() - Constructor for class psidev.psi.mi.jami.model.impl.DefaultModelledInteraction: Constructor for DefaultModelledInteraction.
DefaultModelledInteraction(String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultModelledInteraction: Constructor for DefaultModelledInteraction.
DefaultModelledInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultModelledInteraction: Constructor for DefaultModelledInteraction.
DefaultModelledInteraction(String, Source) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultModelledInteraction: Constructor for DefaultModelledInteraction.
DefaultModelledInteraction(String, Source, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultModelledInteraction: Constructor for DefaultModelledInteraction.
DefaultModelledInteractionComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Default ModelledInteraction comparator.
DefaultModelledInteractionComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.DefaultModelledInteractionComparator
DefaultModelledParameter - Class in psidev.psi.mi.jami.model.impl: Default implementation for ModelledParameter Notes: The equals and hashcode methods have been overridden to be consistent with UnambiguousParameterComparator
DefaultModelledParameter(CvTerm, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultModelledParameter: Constructor for DefaultModelledParameter.
DefaultModelledParameter(CvTerm, String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultModelledParameter: Constructor for DefaultModelledParameter.
DefaultModelledParameter(CvTerm, ParameterValue) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultModelledParameter: Constructor for DefaultModelledParameter.
DefaultModelledParameter(CvTerm, ParameterValue, BigDecimal) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultModelledParameter: Constructor for DefaultModelledParameter.
DefaultModelledParameter(CvTerm, ParameterValue, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultModelledParameter: Constructor for DefaultModelledParameter.
DefaultModelledParameter(CvTerm, ParameterValue, CvTerm, BigDecimal) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultModelledParameter: Constructor for DefaultModelledParameter.
DefaultModelledParticipant - Class in psidev.psi.mi.jami.model.impl: Default implementation for ModelledParticipant Notes: The equals and hashcode methods have NOT been overridden because the ModelledParticipant object is a complex object.
DefaultModelledParticipant(Interactor) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultModelledParticipant: Constructor for DefaultModelledParticipant.
DefaultModelledParticipant(Interactor, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultModelledParticipant: Constructor for DefaultModelledParticipant.
DefaultModelledParticipant(Interactor, CvTerm, Stoichiometry) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultModelledParticipant: Constructor for DefaultModelledParticipant.
DefaultModelledParticipant(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultModelledParticipant: Constructor for DefaultModelledParticipant.
DefaultModelledParticipantCandidate - Class in psidev.psi.mi.jami.model.impl: Default implementation of modelled participant candidate
DefaultModelledParticipantCandidate(Interactor) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultModelledParticipantCandidate: Constructor for DefaultModelledParticipantCandidate.
DefaultModelledParticipantCandidate(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultModelledParticipantCandidate: Constructor for DefaultModelledParticipantCandidate.
DefaultModelledParticipantComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Default biological participant comparator.
DefaultModelledParticipantComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.DefaultModelledParticipantComparator
DefaultModelledParticipantInteractorComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Default biological participant comparator based on the interactor only.
DefaultModelledParticipantInteractorComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.DefaultModelledParticipantInteractorComparator
DefaultModelledParticipantPool - Class in psidev.psi.mi.jami.model.impl: Default implementation of ParticipantPool
DefaultModelledParticipantPool(String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultModelledParticipantPool: Constructor for DefaultModelledParticipantPool.
DefaultModelledParticipantPool(String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultModelledParticipantPool: Constructor for DefaultModelledParticipantPool.
DefaultModelledParticipantPool(String, CvTerm, Stoichiometry) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultModelledParticipantPool: Constructor for DefaultModelledParticipantPool.
DefaultModelledParticipantPool(String, Stoichiometry) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultModelledParticipantPool: Constructor for DefaultModelledParticipantPool.
DefaultModelledParticipantPoolComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Default biological participant pool comparator.
DefaultModelledParticipantPoolComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.DefaultModelledParticipantPoolComparator
DefaultMolecule - Class in psidev.psi.mi.jami.model.impl: The default implementation for a molecule Notes: The equals and hashcode methods have NOT been overridden because the molecule object is a complex object.
DefaultMolecule(String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultMolecule: Constructor for DefaultMolecule.
DefaultMolecule(String, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultMolecule: Constructor for DefaultMolecule.
DefaultMolecule(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultMolecule: Constructor for DefaultMolecule.
DefaultMolecule(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultMolecule: Constructor for DefaultMolecule.
DefaultMolecule(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultMolecule: Constructor for DefaultMolecule.
DefaultMolecule(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultMolecule: Constructor for DefaultMolecule.
DefaultMolecule(String, String, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultMolecule: Constructor for DefaultMolecule.
DefaultMolecule(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultMolecule: Constructor for DefaultMolecule.
DefaultMolecule(String, String, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultMolecule: Constructor for DefaultMolecule.
DefaultMolecule(String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultMolecule: Constructor for DefaultMolecule.
DefaultMolecule(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultMolecule: Constructor for DefaultMolecule.
DefaultMolecule(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultMolecule: Constructor for DefaultMolecule.
DefaultMolecule(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultMolecule: Constructor for DefaultMolecule.
DefaultMolecule(String, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultMolecule: Constructor for DefaultMolecule.
DefaultMolecule(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultMolecule: Constructor for DefaultMolecule.
DefaultMolecule(String, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultMolecule: Constructor for DefaultMolecule.
DefaultMoleculeEffector - Class in psidev.psi.mi.jami.model.impl: Default implementation for MoleculeEffector Notes: The equals and hashcode methods have NOT been overridden because the MoleculeEffector object is a complex object.
DefaultMoleculeEffector(ModelledParticipant) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultMoleculeEffector: Constructor for DefaultMoleculeEffector.
DefaultMoleculeEffectorComparator - Class in psidev.psi.mi.jami.utils.comparator.cooperativity: Default Comparator for MoleculeEffector.
DefaultMoleculeEffectorComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.cooperativity.DefaultMoleculeEffectorComparator
DefaultNamedBinaryInteraction - Class in psidev.psi.mi.jami.binary.impl: Default implementation of a named binary interaction
DefaultNamedBinaryInteraction() - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultNamedBinaryInteraction: Constructor for DefaultNamedBinaryInteraction.
DefaultNamedBinaryInteraction(String) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultNamedBinaryInteraction: Constructor for DefaultNamedBinaryInteraction.
DefaultNamedBinaryInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultNamedBinaryInteraction: Constructor for DefaultNamedBinaryInteraction.
DefaultNamedBinaryInteraction(String, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultNamedBinaryInteraction: Constructor for DefaultNamedBinaryInteraction.
DefaultNamedBinaryInteraction(String, CvTerm, Participant, Participant) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultNamedBinaryInteraction: Constructor for DefaultNamedBinaryInteraction.
DefaultNamedBinaryInteraction(String, CvTerm, Participant, Participant, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultNamedBinaryInteraction: Constructor for DefaultNamedBinaryInteraction.
DefaultNamedBinaryInteraction(String, Participant, Participant) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultNamedBinaryInteraction: Constructor for DefaultNamedBinaryInteraction.
DefaultNamedBinaryInteraction(String, Participant, Participant, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultNamedBinaryInteraction: Constructor for DefaultNamedBinaryInteraction.
DefaultNamedBinaryInteraction(CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultNamedBinaryInteraction: Constructor for DefaultNamedBinaryInteraction.
DefaultNamedBinaryInteraction(Participant, Participant) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultNamedBinaryInteraction: Constructor for DefaultNamedBinaryInteraction.
DefaultNamedBinaryInteraction(Participant, Participant, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultNamedBinaryInteraction: Constructor for DefaultNamedBinaryInteraction.
DefaultNamedBinaryInteractionEvidence - Class in psidev.psi.mi.jami.binary.impl: Default implementation of a Named binary interaction evidence
DefaultNamedBinaryInteractionEvidence() - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultNamedBinaryInteractionEvidence: Constructor for DefaultNamedBinaryInteractionEvidence.
DefaultNamedBinaryInteractionEvidence(String) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultNamedBinaryInteractionEvidence: Constructor for DefaultNamedBinaryInteractionEvidence.
DefaultNamedBinaryInteractionEvidence(String, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultNamedBinaryInteractionEvidence: Constructor for DefaultNamedBinaryInteractionEvidence.
DefaultNamedBinaryInteractionEvidence(String, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultNamedBinaryInteractionEvidence: Constructor for DefaultNamedBinaryInteractionEvidence.
DefaultNamedBinaryInteractionEvidence(String, CvTerm, ParticipantEvidence, ParticipantEvidence) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultNamedBinaryInteractionEvidence: Constructor for DefaultNamedBinaryInteractionEvidence.
DefaultNamedBinaryInteractionEvidence(String, CvTerm, ParticipantEvidence, ParticipantEvidence, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultNamedBinaryInteractionEvidence: Constructor for DefaultNamedBinaryInteractionEvidence.
DefaultNamedBinaryInteractionEvidence(String, ParticipantEvidence, ParticipantEvidence) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultNamedBinaryInteractionEvidence: Constructor for DefaultNamedBinaryInteractionEvidence.
DefaultNamedBinaryInteractionEvidence(String, ParticipantEvidence, ParticipantEvidence, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultNamedBinaryInteractionEvidence: Constructor for DefaultNamedBinaryInteractionEvidence.
DefaultNamedBinaryInteractionEvidence(CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultNamedBinaryInteractionEvidence: Constructor for DefaultNamedBinaryInteractionEvidence.
DefaultNamedBinaryInteractionEvidence(ParticipantEvidence, ParticipantEvidence) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultNamedBinaryInteractionEvidence: Constructor for DefaultNamedBinaryInteractionEvidence.
DefaultNamedBinaryInteractionEvidence(ParticipantEvidence, ParticipantEvidence, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultNamedBinaryInteractionEvidence: Constructor for DefaultNamedBinaryInteractionEvidence.
DefaultNamedExperiment - Class in psidev.psi.mi.jami.model.impl: Default implementation for NamedExperiment.
DefaultNamedExperiment(Publication) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedExperiment: Constructor for DefaultNamedExperiment.
DefaultNamedExperiment(Publication, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedExperiment: Constructor for DefaultNamedExperiment.
DefaultNamedExperiment(Publication, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedExperiment: Constructor for DefaultNamedExperiment.
DefaultNamedInteraction - Class in psidev.psi.mi.jami.model.impl: Default implementation for Named interaction
DefaultNamedInteraction() - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedInteraction: Constructor for DefaultNamedInteraction.
DefaultNamedInteraction(String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedInteraction: Constructor for DefaultNamedInteraction.
DefaultNamedInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedInteraction: Constructor for DefaultNamedInteraction.
DefaultNamedInteractionEvidence - Class in psidev.psi.mi.jami.model.impl: Default implementation for Named InteractionEvidence
DefaultNamedInteractionEvidence() - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedInteractionEvidence: Constructor for DefaultNamedInteractionEvidence.
DefaultNamedInteractionEvidence(String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedInteractionEvidence: Constructor for DefaultNamedInteractionEvidence.
DefaultNamedInteractionEvidence(String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedInteractionEvidence: Constructor for DefaultNamedInteractionEvidence.
DefaultNamedInteractionEvidence(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedInteractionEvidence: Constructor for DefaultNamedInteractionEvidence.
DefaultNamedInteractionEvidence(String, Source, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedInteractionEvidence: Constructor for DefaultNamedInteractionEvidence.
DefaultNamedInteractionEvidence(String, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedInteractionEvidence: Constructor for DefaultNamedInteractionEvidence.
DefaultNamedInteractionEvidence(Experiment) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedInteractionEvidence: Constructor for DefaultNamedInteractionEvidence.
DefaultNamedInteractionEvidence(Experiment, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedInteractionEvidence: Constructor for DefaultNamedInteractionEvidence.
DefaultNamedInteractionEvidence(Experiment, String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedInteractionEvidence: Constructor for DefaultNamedInteractionEvidence.
DefaultNamedInteractionEvidence(Experiment, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedInteractionEvidence: Constructor for DefaultNamedInteractionEvidence.
DefaultNamedInteractionEvidence(Experiment, String, Source) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedInteractionEvidence: Constructor for DefaultNamedInteractionEvidence.
DefaultNamedInteractionEvidence(Experiment, String, Source, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedInteractionEvidence: Constructor for DefaultNamedInteractionEvidence.
DefaultNamedInteractionEvidence(Experiment, String, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedInteractionEvidence: Constructor for DefaultNamedInteractionEvidence.
DefaultNamedInteractionEvidence(Experiment, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedInteractionEvidence: Constructor for DefaultNamedInteractionEvidence.
DefaultNamedInteractionEvidence(Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedInteractionEvidence: Constructor for DefaultNamedInteractionEvidence.
DefaultNamedModelledBinaryInteraction - Class in psidev.psi.mi.jami.binary.impl: Default implementation for Named modelled binary interaction
DefaultNamedModelledBinaryInteraction() - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultNamedModelledBinaryInteraction: Constructor for DefaultNamedModelledBinaryInteraction.
DefaultNamedModelledBinaryInteraction(String) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultNamedModelledBinaryInteraction: Constructor for DefaultNamedModelledBinaryInteraction.
DefaultNamedModelledBinaryInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultNamedModelledBinaryInteraction: Constructor for DefaultNamedModelledBinaryInteraction.
DefaultNamedModelledBinaryInteraction(String, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultNamedModelledBinaryInteraction: Constructor for DefaultNamedModelledBinaryInteraction.
DefaultNamedModelledBinaryInteraction(String, CvTerm, ModelledParticipant, ModelledParticipant) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultNamedModelledBinaryInteraction: Constructor for DefaultNamedModelledBinaryInteraction.
DefaultNamedModelledBinaryInteraction(String, CvTerm, ModelledParticipant, ModelledParticipant, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultNamedModelledBinaryInteraction: Constructor for DefaultNamedModelledBinaryInteraction.
DefaultNamedModelledBinaryInteraction(String, ModelledParticipant, ModelledParticipant) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultNamedModelledBinaryInteraction: Constructor for DefaultNamedModelledBinaryInteraction.
DefaultNamedModelledBinaryInteraction(String, ModelledParticipant, ModelledParticipant, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultNamedModelledBinaryInteraction: Constructor for DefaultNamedModelledBinaryInteraction.
DefaultNamedModelledBinaryInteraction(CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultNamedModelledBinaryInteraction: Constructor for DefaultNamedModelledBinaryInteraction.
DefaultNamedModelledBinaryInteraction(ModelledParticipant, ModelledParticipant) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultNamedModelledBinaryInteraction: Constructor for DefaultNamedModelledBinaryInteraction.
DefaultNamedModelledBinaryInteraction(ModelledParticipant, ModelledParticipant, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.DefaultNamedModelledBinaryInteraction: Constructor for DefaultNamedModelledBinaryInteraction.
DefaultNamedModelledInteraction - Class in psidev.psi.mi.jami.model.impl: Default implementation of Named modelled interaction
DefaultNamedModelledInteraction() - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedModelledInteraction: Constructor for DefaultNamedModelledInteraction.
DefaultNamedModelledInteraction(String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedModelledInteraction: Constructor for DefaultNamedModelledInteraction.
DefaultNamedModelledInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedModelledInteraction: Constructor for DefaultNamedModelledInteraction.
DefaultNamedModelledInteraction(String, Source) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedModelledInteraction: Constructor for DefaultNamedModelledInteraction.
DefaultNamedModelledInteraction(String, Source, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedModelledInteraction: Constructor for DefaultNamedModelledInteraction.
DefaultNamedModelledParticipant - Class in psidev.psi.mi.jami.model.impl: Default implementation of Named modelled participant
DefaultNamedModelledParticipant(Interactor) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedModelledParticipant: Constructor for DefaultNamedModelledParticipant.
DefaultNamedModelledParticipant(Interactor, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedModelledParticipant: Constructor for DefaultNamedModelledParticipant.
DefaultNamedModelledParticipant(Interactor, CvTerm, Stoichiometry) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedModelledParticipant: Constructor for DefaultNamedModelledParticipant.
DefaultNamedModelledParticipant(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedModelledParticipant: Constructor for DefaultNamedModelledParticipant.
DefaultNamedParticipant - Class in psidev.psi.mi.jami.model.impl: Default implementation of named participant.
DefaultNamedParticipant(Interactor) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedParticipant: Constructor for DefaultNamedParticipant.
DefaultNamedParticipant(Interactor, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedParticipant: Constructor for DefaultNamedParticipant.
DefaultNamedParticipant(Interactor, CvTerm, Stoichiometry) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedParticipant: Constructor for DefaultNamedParticipant.
DefaultNamedParticipant(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedParticipant: Constructor for DefaultNamedParticipant.
DefaultNamedParticipantEvidence - Class in psidev.psi.mi.jami.model.impl: Default implementation of named participant evidence
DefaultNamedParticipantEvidence(InteractionEvidence, Interactor, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedParticipantEvidence: Constructor for DefaultNamedParticipantEvidence.
DefaultNamedParticipantEvidence(InteractionEvidence, Interactor, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedParticipantEvidence: Constructor for DefaultNamedParticipantEvidence.
DefaultNamedParticipantEvidence(InteractionEvidence, Interactor, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedParticipantEvidence: Constructor for DefaultNamedParticipantEvidence.
DefaultNamedParticipantEvidence(InteractionEvidence, Interactor, CvTerm, CvTerm, Organism, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedParticipantEvidence: Constructor for DefaultNamedParticipantEvidence.
DefaultNamedParticipantEvidence(InteractionEvidence, Interactor, CvTerm, CvTerm, Stoichiometry, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedParticipantEvidence: Constructor for DefaultNamedParticipantEvidence.
DefaultNamedParticipantEvidence(InteractionEvidence, Interactor, CvTerm, CvTerm, Stoichiometry, Organism, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedParticipantEvidence: Constructor for DefaultNamedParticipantEvidence.
DefaultNamedParticipantEvidence(InteractionEvidence, Interactor, CvTerm, Stoichiometry, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedParticipantEvidence: Constructor for DefaultNamedParticipantEvidence.
DefaultNamedParticipantEvidence(InteractionEvidence, Interactor, Stoichiometry, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedParticipantEvidence: Constructor for DefaultNamedParticipantEvidence.
DefaultNamedParticipantEvidence(Interactor) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedParticipantEvidence: Constructor for DefaultNamedParticipantEvidence.
DefaultNamedParticipantEvidence(Interactor, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedParticipantEvidence: Constructor for DefaultNamedParticipantEvidence.
DefaultNamedParticipantEvidence(Interactor, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedParticipantEvidence: Constructor for DefaultNamedParticipantEvidence.
DefaultNamedParticipantEvidence(Interactor, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedParticipantEvidence: Constructor for DefaultNamedParticipantEvidence.
DefaultNamedParticipantEvidence(Interactor, CvTerm, CvTerm, Organism, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedParticipantEvidence: Constructor for DefaultNamedParticipantEvidence.
DefaultNamedParticipantEvidence(Interactor, CvTerm, CvTerm, Stoichiometry, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedParticipantEvidence: Constructor for DefaultNamedParticipantEvidence.
DefaultNamedParticipantEvidence(Interactor, CvTerm, CvTerm, Stoichiometry, Organism, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedParticipantEvidence: Constructor for DefaultNamedParticipantEvidence.
DefaultNamedParticipantEvidence(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedParticipantEvidence: Constructor for DefaultNamedParticipantEvidence.
DefaultNamedParticipantEvidence(Interactor, Stoichiometry, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNamedParticipantEvidence: Constructor for DefaultNamedParticipantEvidence.
DefaultNucleicAcid - Class in psidev.psi.mi.jami.model.impl: Default implementation for NucleicAcid.
DefaultNucleicAcid(String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNucleicAcid: Constructor for DefaultNucleicAcid.
DefaultNucleicAcid(String, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNucleicAcid: Constructor for DefaultNucleicAcid.
DefaultNucleicAcid(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNucleicAcid: Constructor for DefaultNucleicAcid.
DefaultNucleicAcid(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNucleicAcid: Constructor for DefaultNucleicAcid.
DefaultNucleicAcid(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNucleicAcid: Constructor for DefaultNucleicAcid.
DefaultNucleicAcid(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNucleicAcid: Constructor for DefaultNucleicAcid.
DefaultNucleicAcid(String, String, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNucleicAcid: Constructor for DefaultNucleicAcid.
DefaultNucleicAcid(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNucleicAcid: Constructor for DefaultNucleicAcid.
DefaultNucleicAcid(String, String, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNucleicAcid: Constructor for DefaultNucleicAcid.
DefaultNucleicAcid(String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNucleicAcid: Constructor for DefaultNucleicAcid.
DefaultNucleicAcid(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNucleicAcid: Constructor for DefaultNucleicAcid.
DefaultNucleicAcid(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNucleicAcid: Constructor for DefaultNucleicAcid.
DefaultNucleicAcid(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNucleicAcid: Constructor for DefaultNucleicAcid.
DefaultNucleicAcid(String, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNucleicAcid: Constructor for DefaultNucleicAcid.
DefaultNucleicAcid(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNucleicAcid: Constructor for DefaultNucleicAcid.
DefaultNucleicAcid(String, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultNucleicAcid: Constructor for DefaultNucleicAcid.
DefaultNucleicAcidComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Default nucleic acids comparator.
DefaultNucleicAcidComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.DefaultNucleicAcidComparator
DefaultOntologyTerm - Class in psidev.psi.mi.jami.model.impl: Default implementation for ontology term Notes: The equals and hashcode methods have been overridden to be consistent with UnambiguousCvTermComparator
DefaultOntologyTerm(String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultOntologyTerm: Constructor for DefaultOntologyTerm.
DefaultOntologyTerm(String, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultOntologyTerm: Constructor for DefaultOntologyTerm.
DefaultOntologyTerm(String, String, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultOntologyTerm: Constructor for DefaultOntologyTerm.
DefaultOntologyTerm(String, String, String, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultOntologyTerm: Constructor for DefaultOntologyTerm.
DefaultOntologyTerm(String, String, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultOntologyTerm: Constructor for DefaultOntologyTerm.
DefaultOntologyTerm(String, String, Xref, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultOntologyTerm: Constructor for DefaultOntologyTerm.
DefaultOntologyTerm(String, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultOntologyTerm: Constructor for DefaultOntologyTerm.
DefaultOrganism - Class in psidev.psi.mi.jami.model.impl: Default implementation for organism Notes: The equals and hashcode methods have been overridden to be consistent with UnambiguousOrganismComparator
DefaultOrganism(int) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultOrganism: Constructor for DefaultOrganism.
DefaultOrganism(int, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultOrganism: Constructor for DefaultOrganism.
DefaultOrganism(int, String, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultOrganism: Constructor for DefaultOrganism.
DefaultOrganism(int, String, String, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultOrganism: Constructor for DefaultOrganism.
DefaultOrganism(int, String, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultOrganism: Constructor for DefaultOrganism.
DefaultOrganism(int, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultOrganism: Constructor for DefaultOrganism.
DefaultOrganismComparator - Class in psidev.psi.mi.jami.utils.comparator.organism: Default organism comparator.
DefaultOrganismComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.organism.DefaultOrganismComparator
DefaultParameter - Class in psidev.psi.mi.jami.model.impl: Default implementation for Parameter Notes: The equals and hashcode methods have been overridden to be consistent with UnambiguousParameterComparator
DefaultParameter(CvTerm, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultParameter: Constructor for DefaultParameter.
DefaultParameter(CvTerm, String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultParameter: Constructor for DefaultParameter.
DefaultParameter(CvTerm, ParameterValue) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultParameter: Constructor for DefaultParameter.
DefaultParameter(CvTerm, ParameterValue, BigDecimal) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultParameter: Constructor for DefaultParameter.
DefaultParameter(CvTerm, ParameterValue, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultParameter: Constructor for DefaultParameter.
DefaultParameter(CvTerm, ParameterValue, CvTerm, BigDecimal) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultParameter: Constructor for DefaultParameter.
DefaultParameterComparator - Class in psidev.psi.mi.jami.utils.comparator.parameter: Default parameter comparator.
DefaultParameterComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.parameter.DefaultParameterComparator
DefaultParticipant - Class in psidev.psi.mi.jami.model.impl: Default implementation for participant Notes: The equals and hashcode methods have NOT been overridden because the participant object is a complex object.
DefaultParticipant(Interactor) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultParticipant: Constructor for DefaultParticipant.
DefaultParticipant(Interactor, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultParticipant: Constructor for DefaultParticipant.
DefaultParticipant(Interactor, CvTerm, Stoichiometry) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultParticipant: Constructor for DefaultParticipant.
DefaultParticipant(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultParticipant: Constructor for DefaultParticipant.
DefaultParticipantBaseComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Default participant comparator It will first compare the interactors and stoichiometry using DefaultEntityBaseComparator it will then compare the biological roles using DefaultCvTermComparator.
DefaultParticipantBaseComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.DefaultParticipantBaseComparator
DefaultParticipantCandidate - Class in psidev.psi.mi.jami.model.impl: Default implementation of participant candidate
DefaultParticipantCandidate(Interactor) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultParticipantCandidate: Constructor for DefaultParticipantCandidate.
DefaultParticipantCandidate(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultParticipantCandidate: Constructor for DefaultParticipantCandidate.
DefaultParticipantComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Generic default participant comparator.
DefaultParticipantComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.DefaultParticipantComparator
DefaultParticipantEvidence - Class in psidev.psi.mi.jami.model.impl: Default implementation for ParticipantEvidence Notes: The equals and hashcode methods have NOT been overridden because the ParticipantEvidence object is a complex object.
DefaultParticipantEvidence(InteractionEvidence, Interactor, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultParticipantEvidence: Constructor for DefaultParticipantEvidence.
DefaultParticipantEvidence(InteractionEvidence, Interactor, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultParticipantEvidence: Constructor for DefaultParticipantEvidence.
DefaultParticipantEvidence(InteractionEvidence, Interactor, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultParticipantEvidence: Constructor for DefaultParticipantEvidence.
DefaultParticipantEvidence(InteractionEvidence, Interactor, CvTerm, CvTerm, Organism, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultParticipantEvidence: Constructor for DefaultParticipantEvidence.
DefaultParticipantEvidence(InteractionEvidence, Interactor, CvTerm, CvTerm, Stoichiometry, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultParticipantEvidence: Constructor for DefaultParticipantEvidence.
DefaultParticipantEvidence(InteractionEvidence, Interactor, CvTerm, CvTerm, Stoichiometry, Organism, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultParticipantEvidence: Constructor for DefaultParticipantEvidence.
DefaultParticipantEvidence(InteractionEvidence, Interactor, CvTerm, Stoichiometry, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultParticipantEvidence: Constructor for DefaultParticipantEvidence.
DefaultParticipantEvidence(InteractionEvidence, Interactor, Stoichiometry, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultParticipantEvidence: Constructor for DefaultParticipantEvidence.
DefaultParticipantEvidence(Interactor) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultParticipantEvidence: Constructor for DefaultParticipantEvidence.
DefaultParticipantEvidence(Interactor, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultParticipantEvidence: Constructor for DefaultParticipantEvidence.
DefaultParticipantEvidence(Interactor, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultParticipantEvidence: Constructor for DefaultParticipantEvidence.
DefaultParticipantEvidence(Interactor, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultParticipantEvidence: Constructor for DefaultParticipantEvidence.
DefaultParticipantEvidence(Interactor, CvTerm, CvTerm, Organism, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultParticipantEvidence: Constructor for DefaultParticipantEvidence.
DefaultParticipantEvidence(Interactor, CvTerm, CvTerm, Stoichiometry, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultParticipantEvidence: Constructor for DefaultParticipantEvidence.
DefaultParticipantEvidence(Interactor, CvTerm, CvTerm, Stoichiometry, Organism, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultParticipantEvidence: Constructor for DefaultParticipantEvidence.
DefaultParticipantEvidence(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultParticipantEvidence: Constructor for DefaultParticipantEvidence.
DefaultParticipantEvidence(Interactor, Stoichiometry, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultParticipantEvidence: Constructor for DefaultParticipantEvidence.
DefaultParticipantEvidenceComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Default Experimental participant comparator.
DefaultParticipantEvidenceComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.DefaultParticipantEvidenceComparator
DefaultParticipantEvidenceInteractorComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Default experimental participant comparator based on the interactor only.
DefaultParticipantEvidenceInteractorComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.DefaultParticipantEvidenceInteractorComparator
DefaultParticipantInteractorComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: It will compare the interactors using DefaultInteractorComparator.
DefaultParticipantInteractorComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.DefaultParticipantInteractorComparator
DefaultParticipantPool - Class in psidev.psi.mi.jami.model.impl: Default implementation of ParticipantPool
DefaultParticipantPool(String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultParticipantPool: Constructor for DefaultParticipantPool.
DefaultParticipantPool(String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultParticipantPool: Constructor for DefaultParticipantPool.
DefaultParticipantPool(String, CvTerm, Stoichiometry) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultParticipantPool: Constructor for DefaultParticipantPool.
DefaultParticipantPool(String, Stoichiometry) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultParticipantPool: Constructor for DefaultParticipantPool.
DefaultParticipantPoolComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Default participant pool comparator It will first compare the interactors, biological role and stoichiometry using DefaultParticipantBaseComparator it will then compare the participant candidates using DefaultEntityBaseComparator.
DefaultParticipantPoolComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.DefaultParticipantPoolComparator
DefaultPolymer - Class in psidev.psi.mi.jami.model.impl: Default implementation for Polymer Notes: The equals and hashcode methods have NOT been overridden because the Polymer object is a complex object.
DefaultPolymer(String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultPolymer: Constructor for DefaultPolymer.
DefaultPolymer(String, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultPolymer: Constructor for DefaultPolymer.
DefaultPolymer(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultPolymer: Constructor for DefaultPolymer.
DefaultPolymer(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultPolymer: Constructor for DefaultPolymer.
DefaultPolymer(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultPolymer: Constructor for DefaultPolymer.
DefaultPolymer(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultPolymer: Constructor for DefaultPolymer.
DefaultPolymer(String, String, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultPolymer: Constructor for DefaultPolymer.
DefaultPolymer(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultPolymer: Constructor for DefaultPolymer.
DefaultPolymer(String, String, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultPolymer: Constructor for DefaultPolymer.
DefaultPolymer(String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultPolymer: Constructor for DefaultPolymer.
DefaultPolymer(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultPolymer: Constructor for DefaultPolymer.
DefaultPolymer(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultPolymer: Constructor for DefaultPolymer.
DefaultPolymer(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultPolymer: Constructor for DefaultPolymer.
DefaultPolymer(String, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultPolymer: Constructor for DefaultPolymer.
DefaultPolymer(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultPolymer: Constructor for DefaultPolymer.
DefaultPolymer(String, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultPolymer: Constructor for DefaultPolymer.
DefaultPolymerComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Default polymer comparator.
DefaultPolymerComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.DefaultPolymerComparator
DefaultPosition - Class in psidev.psi.mi.jami.model.impl: Default implementation for Position Notes: The equals and hashcode methods have been overridden to be consistent with UnambiguousPositionComparator
DefaultPosition(long) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultPosition: This constructor will create an undetermined status if the position is 0 and a certain status if the position is not 0.
DefaultPosition(long, long) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultPosition: Create a new Position with status = range.
DefaultPosition(CvTerm, long) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultPosition: Constructor for DefaultPosition.
DefaultPosition(CvTerm, long, long) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultPosition: Constructor for DefaultPosition.
DefaultPositionComparator - Class in psidev.psi.mi.jami.utils.comparator.range: Default PositionComparator.
DefaultPositionComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.range.DefaultPositionComparator
DefaultPreassemby - Class in psidev.psi.mi.jami.model.impl: Default implementation for Preassembly Notes: The equals and hashcode methods have NOT been overridden because the Preassembly object is a complex object.
DefaultPreassemby(CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultPreassemby: Constructor for DefaultPreassemby.
DefaultPreassemby(CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultPreassemby: Constructor for DefaultPreassemby.
DefaultProtein - Class in psidev.psi.mi.jami.model.impl: Default implementation for proteins and peptides Notes: The equals and hashcode methods have NOT been overridden because the Protein object is a complex object.
DefaultProtein(String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultProtein: Constructor for DefaultProtein.
DefaultProtein(String, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultProtein: Constructor for DefaultProtein.
DefaultProtein(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultProtein: Constructor for DefaultProtein.
DefaultProtein(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultProtein: Constructor for DefaultProtein.
DefaultProtein(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultProtein: Constructor for DefaultProtein.
DefaultProtein(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultProtein: Constructor for DefaultProtein.
DefaultProtein(String, String, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultProtein: Constructor for DefaultProtein.
DefaultProtein(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultProtein: Constructor for DefaultProtein.
DefaultProtein(String, String, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultProtein: Constructor for DefaultProtein.
DefaultProtein(String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultProtein: Constructor for DefaultProtein.
DefaultProtein(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultProtein: Constructor for DefaultProtein.
DefaultProtein(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultProtein: Constructor for DefaultProtein.
DefaultProtein(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultProtein: Constructor for DefaultProtein.
DefaultProtein(String, Organism) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultProtein: Constructor for DefaultProtein.
DefaultProtein(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultProtein: Constructor for DefaultProtein.
DefaultProtein(String, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultProtein: Constructor for DefaultProtein.
DefaultProteinComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Default proteins comparator.
DefaultProteinComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.DefaultProteinComparator
DefaultPsiXmlSource - Class in psidev.psi.mi.jami.xml.model.extension.datasource: Generic class for PSI-XML full datasource.
DefaultPsiXmlSource() - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlSource: Constructor for DefaultPsiXmlSource.
DefaultPsiXmlStreamSource - Class in psidev.psi.mi.jami.xml.model.extension.datasource: Generic class for PSI-XML streaming datasource.
DefaultPsiXmlStreamSource() - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: Empty constructor for the factory
DefaultPublication - Class in psidev.psi.mi.jami.model.impl: Default implementation for a Publication Notes: The equals and hashcode methods have NOT been overridden because the Publication object is a complex object.
DefaultPublication() - Constructor for class psidev.psi.mi.jami.model.impl.DefaultPublication: Constructor for DefaultPublication.
DefaultPublication(String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultPublication: Constructor for DefaultPublication.
DefaultPublication(String, String, Date) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultPublication: Constructor for DefaultPublication.
DefaultPublication(String, String, Date, String, Source) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultPublication: Constructor for DefaultPublication.
DefaultPublication(String, String, Date, CurationDepth, Source) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultPublication: Constructor for DefaultPublication.
DefaultPublication(String, String, Source) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultPublication: Constructor for DefaultPublication.
DefaultPublication(String, CurationDepth, Source) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultPublication: Constructor for DefaultPublication.
DefaultPublication(Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultPublication: Constructor for DefaultPublication.
DefaultPublication(Xref, String, Source) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultPublication: Constructor for DefaultPublication.
DefaultPublication(Xref, CurationDepth, Source) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultPublication: Constructor for DefaultPublication.
DefaultPublicationComparator - Class in psidev.psi.mi.jami.utils.comparator.publication: Default publication comparator It will only look at IMEx identifiers if both are set.
DefaultPublicationComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.publication.DefaultPublicationComparator
DefaultRange - Class in psidev.psi.mi.jami.model.impl: Default implementation for Range Notes: The equals and hashcode methods have been overridden to be consistent with UnambiguousRangeAndResultingSequenceComparator
DefaultRange(Position, Position) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultRange: Constructor for DefaultRange.
DefaultRange(Position, Position, boolean) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultRange: Constructor for DefaultRange.
DefaultRange(Position, Position, boolean, Participant) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultRange: Constructor for DefaultRange.
DefaultRange(Position, Position, boolean, ResultingSequence) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultRange: Constructor for DefaultRange.
DefaultRange(Position, Position, Participant) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultRange: Constructor for DefaultRange.
DefaultRange(Position, Position, ResultingSequence) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultRange: Constructor for DefaultRange.
DefaultRangeAndResultingSequenceComparator - Class in psidev.psi.mi.jami.utils.comparator.range: Default RangeComparator.
DefaultRangeAndResultingSequenceComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.range.DefaultRangeAndResultingSequenceComparator
DefaultRangeComparator - Class in psidev.psi.mi.jami.utils.comparator.range: Default RangeComparator.
DefaultRangeComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.range.DefaultRangeComparator
DefaultResultingSequence - Class in psidev.psi.mi.jami.model.impl: Default implementation for ResultingSequence Notes: The equals and hashcode methods have been overridden to be consistent with ResultingSequenceComparator
DefaultResultingSequence() - Constructor for class psidev.psi.mi.jami.model.impl.DefaultResultingSequence: Constructor for DefaultResultingSequence.
DefaultResultingSequence(String, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultResultingSequence: Constructor for DefaultResultingSequence.
DefaultSource - Class in psidev.psi.mi.jami.model.impl: Default implementation for Source Notes: The equals and hashcode methods have been overridden to be consistent with UnambiguousCvTermComparator
DefaultSource(String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultSource: Constructor for DefaultSource.
DefaultSource(String, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultSource: Constructor for DefaultSource.
DefaultSource(String, String, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultSource: Constructor for DefaultSource.
DefaultSource(String, String, String, String, String, Publication) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultSource: Constructor for DefaultSource.
DefaultSource(String, String, String, String, Publication) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultSource: Constructor for DefaultSource.
DefaultSource(String, String, String, Publication) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultSource: Constructor for DefaultSource.
DefaultSource(String, String, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultSource: Constructor for DefaultSource.
DefaultSource(String, String, Xref, String, String, Publication) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultSource: Constructor for DefaultSource.
DefaultSource(String, Xref) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultSource: Constructor for DefaultSource.
DefaultSource(String, Xref, String, String, Publication) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultSource: Constructor for DefaultSource.
DefaultStoichiometry - Class in psidev.psi.mi.jami.model.impl: Default implementation for stoichiometry Notes: The equals and hashcode methods have been overridden to be consistent with StoichiometryComparator
DefaultStoichiometry() - Constructor for class psidev.psi.mi.jami.model.impl.DefaultStoichiometry
DefaultStoichiometry(int) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultStoichiometry: Constructor for DefaultStoichiometry.
DefaultStoichiometry(int, int) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultStoichiometry: Constructor for DefaultStoichiometry.
DefaultVariableParameter - Class in psidev.psi.mi.jami.model.impl: Default implementation for variableParameters Notes: The equals and hashcode methods have been overridden to be consistent with UnambiguousVariableParameterComparator
DefaultVariableParameter(String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultVariableParameter: Constructor for DefaultVariableParameter.
DefaultVariableParameter(String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultVariableParameter: Constructor for DefaultVariableParameter.
DefaultVariableParameter(String, Experiment) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultVariableParameter: Constructor for DefaultVariableParameter.
DefaultVariableParameter(String, Experiment, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultVariableParameter: Constructor for DefaultVariableParameter.
DefaultVariableParameterComparator - Class in psidev.psi.mi.jami.utils.comparator.experiment: DefaultVariableParameter comparator It will first compare the description (case insensitive).
DefaultVariableParameterComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.experiment.DefaultVariableParameterComparator
DefaultVariableParameterValue - Class in psidev.psi.mi.jami.model.impl: Default implementation for variableValue.
DefaultVariableParameterValue(String, VariableParameter) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultVariableParameterValue: Constructor for DefaultVariableParameterValue.
DefaultVariableParameterValue(String, VariableParameter, Integer) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultVariableParameterValue: Constructor for DefaultVariableParameterValue.
DefaultVariableParameterValueSet - Class in psidev.psi.mi.jami.model.impl: Default implementation for VariableParameterValueSet Notes: The equals and hashcode methods have been overridden to be consistent with VariableParameterValueSetComparator
DefaultVariableParameterValueSet() - Constructor for class psidev.psi.mi.jami.model.impl.DefaultVariableParameterValueSet: Constructor for DefaultVariableParameterValueSet.
DefaultXmlAnnotation - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of an Annotation The JAXB binding is designed to be read-only and is not designed for writing
DefaultXmlAnnotation - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of an Annotation The JAXB binding is designed to be read-only and is not designed for writing
DefaultXmlAnnotation - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of an Annotation The JAXB binding is designed to be read-only and is not designed for writing
DefaultXmlAnnotation() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlAnnotation: Constructor for DefaultXmlAnnotation.
DefaultXmlAnnotation() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlAnnotation: Constructor for DefaultXmlAnnotation.
DefaultXmlAnnotation() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlAnnotation: Constructor for DefaultXmlAnnotation.
DefaultXmlAnnotation(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlAnnotation: Constructor for DefaultXmlAnnotation.
DefaultXmlAnnotation(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlAnnotation: Constructor for DefaultXmlAnnotation.
DefaultXmlAnnotation(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlAnnotation: Constructor for DefaultXmlAnnotation.
DefaultXmlAnnotation(CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlAnnotation: Constructor for DefaultXmlAnnotation.
DefaultXmlAnnotation(CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlAnnotation: Constructor for DefaultXmlAnnotation.
DefaultXmlAnnotation(CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlAnnotation: Constructor for DefaultXmlAnnotation.
DefaultXmlBasicInteraction - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of interaction
DefaultXmlBasicInteraction - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of interaction
DefaultXmlBasicInteraction - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of interaction
DefaultXmlBasicInteraction() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlBasicInteraction: Constructor for DefaultXmlBasicInteraction.
DefaultXmlBasicInteraction() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlBasicInteraction: Constructor for DefaultXmlBasicInteraction.
DefaultXmlBasicInteraction() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlBasicInteraction: Constructor for DefaultXmlBasicInteraction.
DefaultXmlBasicInteraction(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlBasicInteraction: Constructor for DefaultXmlBasicInteraction.
DefaultXmlBasicInteraction(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlBasicInteraction: Constructor for DefaultXmlBasicInteraction.
DefaultXmlBasicInteraction(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlBasicInteraction: Constructor for DefaultXmlBasicInteraction.
DefaultXmlBasicInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlBasicInteraction: Constructor for DefaultXmlBasicInteraction.
DefaultXmlBasicInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlBasicInteraction: Constructor for DefaultXmlBasicInteraction.
DefaultXmlBasicInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlBasicInteraction: Constructor for DefaultXmlBasicInteraction.
DefaultXmlComplex - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation for complex
DefaultXmlComplex - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation for complex
DefaultXmlComplex - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation for complex
DefaultXmlComplex() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlComplex(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlComplex: Constructor for DefaultXmlComplex.
DefaultXmlExperiment - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml im
DefaultXmlExperiment - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml im
DefaultXmlExperiment - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml im
DefaultXmlExperiment() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlExperiment: Constructor for DefaultXmlExperiment.
DefaultXmlExperiment() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlExperiment: Constructor for DefaultXmlExperiment.
DefaultXmlExperiment() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlExperiment: Constructor for DefaultXmlExperiment.
DefaultXmlExperiment(Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlExperiment: Constructor for DefaultXmlExperiment.
DefaultXmlExperiment(Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlExperiment: Constructor for DefaultXmlExperiment.
DefaultXmlExperiment(Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlExperiment: Constructor for DefaultXmlExperiment.
DefaultXmlExperiment(Publication, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlExperiment: Constructor for DefaultXmlExperiment.
DefaultXmlExperiment(Publication, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlExperiment: Constructor for DefaultXmlExperiment.
DefaultXmlExperiment(Publication, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlExperiment: Constructor for DefaultXmlExperiment.
DefaultXmlExperiment(Publication, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlExperiment: Constructor for DefaultXmlExperiment.
DefaultXmlExperiment(Publication, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlExperiment: Constructor for DefaultXmlExperiment.
DefaultXmlExperiment(Publication, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlExperiment: Constructor for DefaultXmlExperiment.
DefaultXmlInteractionEvidence - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of InteractionEvidence
DefaultXmlInteractionEvidence - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of InteractionEvidence
DefaultXmlInteractionEvidence - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of InteractionEvidence
DefaultXmlInteractionEvidence() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlInteractionEvidence: Constructor for DefaultXmlInteractionEvidence.
DefaultXmlInteractionEvidence() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlInteractionEvidence: Constructor for DefaultXmlInteractionEvidence.
DefaultXmlInteractionEvidence() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlInteractionEvidence: Constructor for DefaultXmlInteractionEvidence.
DefaultXmlInteractionEvidence(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlInteractionEvidence: Constructor for DefaultXmlInteractionEvidence.
DefaultXmlInteractionEvidence(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlInteractionEvidence: Constructor for DefaultXmlInteractionEvidence.
DefaultXmlInteractionEvidence(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlInteractionEvidence: Constructor for DefaultXmlInteractionEvidence.
DefaultXmlInteractionEvidence(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlInteractionEvidence: Constructor for DefaultXmlInteractionEvidence.
DefaultXmlInteractionEvidence(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlInteractionEvidence: Constructor for DefaultXmlInteractionEvidence.
DefaultXmlInteractionEvidence(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlInteractionEvidence: Constructor for DefaultXmlInteractionEvidence.
DefaultXmlInteractor - Class in psidev.psi.mi.jami.xml.model.extension.xml253: The Xml implementation of Interactor
DefaultXmlInteractor - Class in psidev.psi.mi.jami.xml.model.extension.xml254: The Xml implementation of Interactor
DefaultXmlInteractor - Class in psidev.psi.mi.jami.xml.model.extension.xml300: The Xml implementation of Interactor
DefaultXmlInteractor() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlInteractor(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlInteractor: Constructor for DefaultXmlInteractor.
DefaultXmlModelledInteraction - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of ModelledInteraction
DefaultXmlModelledInteraction - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of ModelledInteraction
DefaultXmlModelledInteraction - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of ModelledInteraction
DefaultXmlModelledInteraction() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlModelledInteraction: Constructor for DefaultXmlModelledInteraction.
DefaultXmlModelledInteraction() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlModelledInteraction: Constructor for DefaultXmlModelledInteraction.
DefaultXmlModelledInteraction() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlModelledInteraction: Constructor for DefaultXmlModelledInteraction.
DefaultXmlModelledInteraction(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlModelledInteraction: Constructor for DefaultXmlModelledInteraction.
DefaultXmlModelledInteraction(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlModelledInteraction: Constructor for DefaultXmlModelledInteraction.
DefaultXmlModelledInteraction(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlModelledInteraction: Constructor for DefaultXmlModelledInteraction.
DefaultXmlModelledInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlModelledInteraction: Constructor for DefaultXmlModelledInteraction.
DefaultXmlModelledInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlModelledInteraction: Constructor for DefaultXmlModelledInteraction.
DefaultXmlModelledInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlModelledInteraction: Constructor for DefaultXmlModelledInteraction.
DefaultXmlSource - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Desciption of the source of the entry, usually an organisation
DefaultXmlSource - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Desciption of the source of the entry, usually an organisation
DefaultXmlSource - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Desciption of the source of the entry, usually an organisation
DefaultXmlSource() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlSource: Constructor for DefaultXmlSource.
DefaultXmlSource() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlSource: Constructor for DefaultXmlSource.
DefaultXmlSource() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlSource: Constructor for DefaultXmlSource.
DefaultXmlSource(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlSource: Constructor for DefaultXmlSource.
DefaultXmlSource(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlSource: Constructor for DefaultXmlSource.
DefaultXmlSource(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlSource: Constructor for DefaultXmlSource.
DefaultXmlSource(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlSource: Constructor for DefaultXmlSource.
DefaultXmlSource(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlSource: Constructor for DefaultXmlSource.
DefaultXmlSource(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlSource: Constructor for DefaultXmlSource.
DefaultXmlSource(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlSource: Constructor for DefaultXmlSource.
DefaultXmlSource(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlSource: Constructor for DefaultXmlSource.
DefaultXmlSource(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlSource: Constructor for DefaultXmlSource.
DefaultXmlSource(String, String, String, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlSource: Constructor for DefaultXmlSource.
DefaultXmlSource(String, String, String, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlSource: Constructor for DefaultXmlSource.
DefaultXmlSource(String, String, String, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlSource: Constructor for DefaultXmlSource.
DefaultXmlSource(String, String, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlSource: Constructor for DefaultXmlSource.
DefaultXmlSource(String, String, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlSource: Constructor for DefaultXmlSource.
DefaultXmlSource(String, String, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlSource: Constructor for DefaultXmlSource.
DefaultXmlSource(String, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlSource: Constructor for DefaultXmlSource.
DefaultXmlSource(String, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlSource: Constructor for DefaultXmlSource.
DefaultXmlSource(String, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlSource: Constructor for DefaultXmlSource.
DefaultXmlSource(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlSource: Constructor for DefaultXmlSource.
DefaultXmlSource(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlSource: Constructor for DefaultXmlSource.
DefaultXmlSource(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlSource: Constructor for DefaultXmlSource.
DefaultXmlSource(String, String, Xref, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlSource: Constructor for DefaultXmlSource.
DefaultXmlSource(String, String, Xref, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlSource: Constructor for DefaultXmlSource.
DefaultXmlSource(String, String, Xref, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlSource: Constructor for DefaultXmlSource.
DefaultXmlSource(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlSource: Constructor for DefaultXmlSource.
DefaultXmlSource(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlSource: Constructor for DefaultXmlSource.
DefaultXmlSource(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlSource: Constructor for DefaultXmlSource.
DefaultXmlSource(String, Xref, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlSource: Constructor for DefaultXmlSource.
DefaultXmlSource(String, Xref, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlSource: Constructor for DefaultXmlSource.
DefaultXmlSource(String, Xref, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlSource: Constructor for DefaultXmlSource.
DefaultXmlWriter - Class in psidev.psi.mi.jami.xml.io.writer: Generic writer for PSI-MI XML
DefaultXmlWriter() - Constructor for class psidev.psi.mi.jami.xml.io.writer.DefaultXmlWriter
DefaultXref - Class in psidev.psi.mi.jami.model.impl: Default implementation for Xref Notes: The equals and hashcode methods have been overridden to be consistent with UnambiguousXrefComparator
DefaultXref(CvTerm, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultXref: Constructor for DefaultXref.
DefaultXref(CvTerm, String, String) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultXref: Constructor for DefaultXref.
DefaultXref(CvTerm, String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultXref: Constructor for DefaultXref.
DefaultXref(CvTerm, String, CvTerm) - Constructor for class psidev.psi.mi.jami.model.impl.DefaultXref: Constructor for DefaultXref.
DefaultXrefComparator - Class in psidev.psi.mi.jami.utils.comparator.xref: Default Xref comparator It compares first the databases and then the ids (case sensitive) but ignores the version.
DefaultXrefComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.xref.DefaultXrefComparator
DEFINED_SET - Static variable in interface psidev.psi.mi.jami.model.InteractorPool: Constant DEFINED_SET="defined set"
DEFINED_SET_MI - Static variable in interface psidev.psi.mi.jami.model.InteractorPool: Constant DEFINED_SET_MI="MI:1307"
DEFINITION_KEY - Static variable in class psidev.psi.mi.jami.bridges.ols.utils.OlsUtils: Constant DEFINITION_KEY="definition"
DELETE - psidev.psi.mi.jami.enricher.util.diff.diff_match_patch.Operation
DELETE - psidev.psi.mi.jami.enricher.util.diff.Operation
destroy() - Method in class psidev.psi.mi.jami.batch.BatchDataSourceInitializer: destroy.
diff(String, String) - Static method in class psidev.psi.mi.jami.enricher.util.DiffUtils: Checks the differences between two strings.
Diff - Class in psidev.psi.mi.jami.enricher.util.diff: Extension of diff_match_patch.Diff
Diff(diff_match_patch.Diff, int, int) - Constructor for class psidev.psi.mi.jami.enricher.util.diff.Diff: Constructor for Diff.
Diff(diff_match_patch.Operation, String) - Constructor for class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch.Diff: Constructor.
diff_charsToLines(LinkedList<diff_match_patch.Diff>, List<String>) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch: Rehydrate the text in a diff from a string of line hashes to real lines of text.
diff_cleanupEfficiency(LinkedList<diff_match_patch.Diff>) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch: Reduce the number of edits by eliminating operationally trivial equalities.
diff_cleanupMerge(LinkedList<diff_match_patch.Diff>) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch: Reorder and merge like edit sections.
diff_cleanupSemantic(LinkedList<diff_match_patch.Diff>) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch: Reduce the number of edits by eliminating semantically trivial equalities.
diff_cleanupSemanticLossless(LinkedList<diff_match_patch.Diff>) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch: Look for single edits surrounded on both sides by equalities which can be shifted sideways to align the edit to a word boundary.
diff_commonPrefix(String, String) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch: Determine the common prefix of two strings
diff_commonSuffix(String, String) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch: Determine the common suffix of two strings
diff_compute(String, String, boolean) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch: Find the differences between two texts.
Diff_DualThreshold - Variable in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch
Diff_EditCost - Variable in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch
diff_footprint(int, int) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch: Compute a good hash of two integers.
diff_fromDelta(String, String) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch: Given the original text1, and an encoded string which describes the operations required to transform text1 into text2, compute the full diff.
diff_halfMatch(String, String) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch: Do the two texts share a substring which is at least half the length of the longer text?
diff_linesToChars(String, String) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch: Split two texts into a list of strings.
diff_main(String, String) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch: Find the differences between two texts.
diff_main(String, String, boolean) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch: Find the differences between two texts.
diff_map(String, String) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch: Explore the intersection points between the two texts.
diff_match_patch - Class in psidev.psi.mi.jami.enricher.util.diff: Class containing the diff, match and patch methods.
diff_match_patch() - Constructor for class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch
diff_match_patch.Diff - Class in psidev.psi.mi.jami.enricher.util.diff: Class representing one diff operation.
diff_match_patch.Operation - Enum in psidev.psi.mi.jami.enricher.util.diff: - The data structure representing a diff is a Linked list of Diff objects: {Diff(Operation.DELETE, "Hello"), Diff(Operation.INSERT, "Goodbye"), Diff(Operation.EQUAL, " world.")} which means: delete "Hello", add "Goodbye" and keep " world."
diff_match_patch.Patch - Class in psidev.psi.mi.jami.enricher.util.diff: Class representing one patch operation.
diff_path1(List<Set<Long>>, String, String) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch: Work from the middle back to the start to determine the path.
diff_path2(List<Set<Long>>, String, String) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch: Work from the middle back to the end to determine the path.
diff_prettyHtml(LinkedList<diff_match_patch.Diff>) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch: Convert a Diff list into a pretty HTML report.
diff_text1(LinkedList<diff_match_patch.Diff>) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch: Compute and return the source text (all equalities and deletions).
diff_text2(LinkedList<diff_match_patch.Diff>) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch: Compute and return the destination text (all equalities and insertions).
Diff_Timeout - Variable in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch
diff_toDelta(LinkedList<diff_match_patch.Diff>) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch: Crush the diff into an encoded string which describes the operations required to transform text1 into text2.
diff_xIndex(LinkedList<diff_match_patch.Diff>, int) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch: loc is a location in text1, compute and return the equivalent location in text2.
DiffCalculator - Class in psidev.psi.mi.jami.enricher.util.diff: Compares Strings to find differences.
DiffCalculator() - Constructor for class psidev.psi.mi.jami.enricher.util.diff.DiffCalculator: Constructor for DiffCalculator.
diffs - Variable in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch.Patch
DiffUtils - Class in psidev.psi.mi.jami.enricher.util: Calculate diffs between strings and other methods to manipulate the differences.
DIRECT_BINDING - Static variable in interface psidev.psi.mi.jami.model.Feature: Constant DIRECT_BINDING="direct binding region"
DIRECT_BINDING_MI - Static variable in interface psidev.psi.mi.jami.model.Feature: Constant DIRECT_BINDING_MI="MI:1125"
disable_tracing() - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser: Disable tracing.
DISCARDED - psidev.psi.mi.jami.bridges.imex.PublicationStatus
discardPublicationInImexCentral(Publication, ImexPublication) - Method in class psidev.psi.mi.jami.imex.actions.impl.PublicationStatusSynchronizerImpl: Synchronize publication status with IMEx central and update the IMEx central record if necessary.
discardPublicationInImexCentral(Publication, ImexPublication) - Method in interface psidev.psi.mi.jami.imex.actions.PublicationStatusSynchronizer: Synchronize publication status with IMEx central and update the IMEx central record if necessary.
DISPLAY_LONG - Static variable in class psidev.psi.mi.jami.tab.utils.MitabUtils: Constant DISPLAY_LONG="display_long"
DISPLAY_SHORT - Static variable in class psidev.psi.mi.jami.tab.utils.MitabUtils: Constant DISPLAY_SHORT="display_short"
DISRUPTING_PTM - Static variable in interface psidev.psi.mi.jami.model.Feature: Constant DISRUPTING_PTM="disrupting-ptm"
DISRUPTING_PTM_MI - Static variable in interface psidev.psi.mi.jami.model.Feature: Constant DISRUPTING_PTM_MI="MI:1225"
doesAliasHaveType(Alias, String, String) - Static method in class psidev.psi.mi.jami.utils.AliasUtils: To know if an alias have a specific type.
doesAliasHaveTypeAndName(Alias, String, String, String) - Static method in class psidev.psi.mi.jami.utils.AliasUtils: To know if an alias have a specific type and name.
doesAnnotationHaveTopic(Annotation, String, String) - Static method in class psidev.psi.mi.jami.utils.AnnotationUtils: To know if the annotation does have a specific topic
doesAnnotationHaveTopicAndValue(Annotation, String, String, String) - Static method in class psidev.psi.mi.jami.utils.AnnotationUtils: To know if the annotation does have a specific topic
doesAnnotationHaveTopicAndValueLike(Annotation, String, String, String) - Static method in class psidev.psi.mi.jami.utils.AnnotationUtils: To know if the annotation does have a specific topic and like value
doesChecksumHaveMethod(Checksum, String, String) - Static method in class psidev.psi.mi.jami.utils.ChecksumUtils: To check if a checksum does have a specific method
doesChecksumHaveMethodAndValue(Checksum, String, String, String) - Static method in class psidev.psi.mi.jami.utils.ChecksumUtils: To check if a checksum does have a specific method
doesConfidenceHaveType(Confidence, String, String) - Static method in class psidev.psi.mi.jami.utils.ConfidenceUtils: Check the type of a confidence
doesInteractorHaveType(Interactor, String, String) - Static method in class psidev.psi.mi.jami.utils.InteractorUtils: To know if an interactor have a specific interactor type.
doesParticipantHaveBiologicalRole(Participant, String, String) - Static method in class psidev.psi.mi.jami.utils.ParticipantUtils: To know if the participant does have a specific biological role
doesParticipantHaveExperimentalRole(ParticipantEvidence, String, String) - Static method in class psidev.psi.mi.jami.utils.ParticipantUtils: To know if the participant evidence does have a specific experimental role
doesXrefHaveDatabaseAndId(Xref, String, String, String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: Method to know if a Xref is from the same database (dbId is the MI identifier and dbName is the database shortname)
doesXrefHaveQualifier(Xref, String, String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: Method to know if a Xref has the same qualifier (qualifierId is the MI identifier and qualifierName is the qualifier shortname)
doesXrefHaveQualifierAndId(Xref, String, String, String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: Method to know if a Xref has the same qualifier (qualifierId is the MI identifier and qualifierName is the qualifier shortname)
DOI - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant DOI="doi"
DOI_MI - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant DOI_MI="MI:0574"
Done() - Method in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream: Set buffers back to null when finished.
Done() - Method in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Reset buffer when finished.
DONOR_ROLE - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant DONOR_ROLE="donor"
DONOR_ROLE_MI - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant DONOR_ROLE_MI="MI:0918"
DONT_BREAK_LINES - Static variable in class psidev.psi.mi.jami.utils.checksum.Base64: Don't break lines when encoding (violates strict Base64 specification)
doubleValue() - Method in class psidev.psi.mi.jami.model.ParameterValue
DROP - psidev.psi.mi.jami.bridges.imex.Operation

E

ECO - Static variable in interface psidev.psi.mi.jami.model.ModelledInteraction: Constant ECO="evidence ontology"
ECO_MI - Static variable in interface psidev.psi.mi.jami.model.ModelledInteraction: Constant ECO_MI="MI:1331"
ECO_REGEXP - Static variable in class psidev.psi.mi.jami.bridges.ontologymanager.impl.OntologyTermWrapper: Constant ECO_REGEXP
EFFECT_OUTCOME - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant EFFECT_OUTCOME="cooperative effect outcome"
EFFECT_OUTCOME_MI - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant EFFECT_OUTCOME_MI="MI:1153"
EHCACHE_CONFIG_FILE - Static variable in class psidev.psi.mi.jami.bridges.fetcher.AbstractCachedFetcher: Constant EHCACHE_CONFIG_FILE="/service.ehcache.xml"
EHCACHE_CONFIG_FILE - Static variable in class psidev.psi.mi.jami.bridges.uniprot.CachedUniprotGeneFetcher: Constant EHCACHE_CONFIG_FILE="/service.ehcache.xml"
ELECTRON_ACCEPTOR_ROLE - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant ELECTRON_ACCEPTOR_ROLE="electron acceptor"
ELECTRON_ACCEPTOR_ROLE_MI - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant ELECTRON_ACCEPTOR_ROLE_MI="MI:0580"
ELECTRON_DONOR_ROLE - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant ELECTRON_DONOR_ROLE="electron donor"
ELECTRON_DONOR_ROLE_MI - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant ELECTRON_DONOR_ROLE_MI="MI:0579"
ELEMENT_SEPARATOR - Static variable in class psidev.psi.mi.jami.json.MIJsonUtils: Constant ELEMENT_SEPARATOR=","
ELEMENT_WITH_ID_CACHE_OPTION - Static variable in class psidev.psi.mi.jami.xml.model.extension.factory.options.PsiXmlDataSourceOptions: The object instance implementing the PsiXmlIdCache interface.
ELEMENT_WITH_ID_CACHE_OPTION - Static variable in class psidev.psi.mi.jami.xml.model.extension.factory.options.PsiXmlWriterOptions: The object instance implementing the PsiXmlObjectCache interface.
EMBL - psidev.psi.mi.jami.bridges.uniprot.rest.SearchDatabase
EMBL_ANNCON - psidev.psi.mi.jami.bridges.uniprot.rest.SearchDatabase
EMBL_TPA - psidev.psi.mi.jami.bridges.uniprot.rest.SearchDatabase
EMBLWGS - psidev.psi.mi.jami.bridges.uniprot.rest.SearchDatabase
EMPTY_COLUMN - Static variable in class psidev.psi.mi.jami.tab.utils.MitabUtils: Constant EMPTY_COLUMN="-"
enable_tracing() - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser: Enable tracing.
ENCODE - Static variable in class psidev.psi.mi.jami.utils.checksum.Base64: Specify encoding.
encodeBytes(byte[]) - Static method in class psidev.psi.mi.jami.utils.checksum.Base64: Encodes a byte array into Base64 notation.
encodeBytes(byte[], int) - Static method in class psidev.psi.mi.jami.utils.checksum.Base64: Encodes a byte array into Base64 notation.
encodeBytes(byte[], int, int) - Static method in class psidev.psi.mi.jami.utils.checksum.Base64: Encodes a byte array into Base64 notation.
encodeBytes(byte[], int, int, int) - Static method in class psidev.psi.mi.jami.utils.checksum.Base64: Encodes a byte array into Base64 notation.
encodeFileToFile(String, String) - Static method in class psidev.psi.mi.jami.utils.checksum.Base64: Reads infile and encodes it to outfile.
encodeFromFile(String) - Static method in class psidev.psi.mi.jami.utils.checksum.Base64: Convenience method for reading a binary file and base64-encoding it.
encodeObject(Serializable) - Static method in class psidev.psi.mi.jami.utils.checksum.Base64: Serializes an object and returns the Base64-encoded version of that serialized object.
encodeObject(Serializable, int) - Static method in class psidev.psi.mi.jami.utils.checksum.Base64: Serializes an object and returns the Base64-encoded version of that serialized object.
encodeToFile(byte[], String) - Static method in class psidev.psi.mi.jami.utils.checksum.Base64: Convenience method for encoding data to a file.
end - Variable in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.LocationType
end() - Method in interface psidev.psi.mi.jami.datasource.InteractionWriter: Method to call when we reach the end
end() - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: end
end() - Method in class psidev.psi.mi.jami.json.binary.AbstractMIJsonWriter: end.
end() - Method in class psidev.psi.mi.jami.json.nary.AbstractMIJsonWriter: end.
end() - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitab25BinaryWriter: end.
end() - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitabWriter: end.
end() - Method in class psidev.psi.mi.jami.tab.io.writer.DefaultMitabWriter: end.
end() - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Method to call when we reach the end
end() - Method in class psidev.psi.mi.jami.xml.io.writer.DefaultXmlWriter: end.
endColumn - Variable in class psidev.psi.mi.jami.tab.io.parser.Token: The column number of the last character of this Token.
endLine - Variable in class psidev.psi.mi.jami.tab.io.parser.Token: The line number of the last character of this Token.
enrich(C, C) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalCvTermEnricher: enrich.
enrich(F) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEnricher: Enrichment of a single feature.
enrich(F) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: Enrichment of a single feature.
enrich(F, F) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: enrich.
enrich(I) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEnricher: Enrichment of a single interaction.
enrich(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEnricher: enrich.
enrich(Collection<F>) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: enrich.
enrich(Collection) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEnricher: enrich.
enrich(Collection) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalEntityEnricher: enrich.
enrich(Collection) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEnricher: enrich.
enrich(Collection<Entity>) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeEntityEnricher: enrich.
enrich(Collection<Experiment>) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentEnricher: enrich.
enrich(Collection<Interactor>) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeInteractorEnricher: enrich.
enrich(Collection<ModelledParticipant>) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeModelledParticipantEnricher: enrich.
enrich(Collection<Participant>) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeParticipantEnricher: enrich.
enrich(Collection<ParticipantEvidence>) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeParticipantEvidenceEnricher: enrich.
enrich(Collection<T>) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractMIEnricher: enrich.
enrich(Collection<T>) - Method in interface psidev.psi.mi.jami.enricher.MIEnricher: Enriche a collection of objects
enrich(P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalEntityEnricher: enrich.
enrich(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalEntityEnricher: enrich.
enrich(Entity) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeEntityEnricher: enrich.
enrich(Entity, Entity) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeEntityEnricher: enrich.
enrich(Experiment, Experiment) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentEnricher: enrich.
enrich(Interactor) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeInteractorEnricher: enrich.
enrich(Interactor, Interactor) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeInteractorEnricher: enrich.
enrich(ModelledParticipant) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeModelledParticipantEnricher: enrich.
enrich(ModelledParticipant, ModelledParticipant) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeModelledParticipantEnricher: enrich.
enrich(OntologyTerm) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOntologyTermEnricher: enrich.
enrich(OntologyTerm, OntologyTerm) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOntologyTermEnricher: enrich.
enrich(Organism, Organism) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOrganismEnricher: enrich.
enrich(Participant) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeParticipantEnricher: enrich.
enrich(ParticipantEvidence) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeParticipantEvidenceEnricher: enrich.
enrich(ParticipantEvidence, ParticipantEvidence) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeParticipantEvidenceEnricher: enrich.
enrich(Participant, Participant) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeParticipantEnricher: enrich.
enrich(Publication, Publication) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalCuratedPublicationEnricher: enrich.
enrich(Publication, Publication) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalPublicationEnricher: enrich.
enrich(Source, Source) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalSourceEnricher: enrich.
enrich(T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractMIEnricher: enrich.
enrich(T) - Method in interface psidev.psi.mi.jami.enricher.MIEnricher: Enrich an object
enrich(T, T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorEnricher: enrich.
enrich(T, T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractMIEnricher: enrich.
enrich(T, T) - Method in interface psidev.psi.mi.jami.enricher.MIEnricher: Enrich an object given a source object
enrichChild(OntologyTerm) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOntologyTermEnricher: enrichChild.
EnricherException - Exception in psidev.psi.mi.jami.enricher.exception: This exception is thrown when exceptions are induced in the enricher.
EnricherException() - Constructor for exception psidev.psi.mi.jami.enricher.exception.EnricherException: Constructor for EnricherException.
EnricherException(String) - Constructor for exception psidev.psi.mi.jami.enricher.exception.EnricherException: Constructor for EnricherException.
EnricherException(String, Throwable) - Constructor for exception psidev.psi.mi.jami.enricher.exception.EnricherException: Constructor for EnricherException.
EnricherException(Throwable) - Constructor for exception psidev.psi.mi.jami.enricher.exception.EnricherException: Constructor for EnricherException.
EnricherListener<T> - Interface in psidev.psi.mi.jami.enricher.listener: An enricher listener has enricher specific methods, fired after the object has been changed and upon completion of the enrichment.
EnricherListenerManager<O,T extends EnricherListener<O>> - Class in psidev.psi.mi.jami.enricher.listener.impl: A manager for listeners which holds a list of listeners.
EnricherListenerManager() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.EnricherListenerManager: An empty constructor to allow the manager to initiated without an listeners.
EnricherListenerManager(T...) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.EnricherListenerManager: A constructor to allow setting of an unlimited number of listeners.
EnricherStatisticsWriter<T> - Class in psidev.psi.mi.jami.enricher.listener.impl.writer: Listens to the enrichment, making two lists of elements: those which have been successfully enriched and those which have failed.
EnricherStatisticsWriter(File, File) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.EnricherStatisticsWriter: Opens the files for successful enrichments and failed enrichments.
EnricherStatisticsWriter(String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.EnricherStatisticsWriter: A constructor which takes the given filename and appends success and failed for the two lists.
EnricherStatisticsWriter(String, String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.EnricherStatisticsWriter: A constructor setting the file type
EnricherUtils - Class in psidev.psi.mi.jami.enricher.util: Utilities for enrichers.
EnricherUtils() - Constructor for class psidev.psi.mi.jami.enricher.util.EnricherUtils
EnrichmentStatus - Enum in psidev.psi.mi.jami.enricher.listener: The possible outcomes upon enriching an entry.
enrichRelatedTerms(Collection<OntologyTerm>) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOntologyTermEnricher: enrichRelatedTerms.
ENSEMBL - psidev.psi.mi.jami.bridges.uniprot.rest.SearchDatabase
ENSEMBL - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant ENSEMBL="ensembl"
ENSEMBL_GENOMES - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant ENSEMBL_GENOMES="ensemblgenomes"
ENSEMBL_GENOMES_MI - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant ENSEMBL_GENOMES_MI="MI:1013"
ENSEMBL_MI - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant ENSEMBL_MI="MI:0476"
Entity<F extends Feature> - Interface in psidev.psi.mi.jami.model: An entity which gives more information to a specific molecule (such as features, causal relationships)
EntityBaseComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Basic entity comparator.
EntityBaseComparator(InteractorComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.EntityBaseComparator: Creates a new EntityBaseComparator
EntityChangeListener<F extends Entity> - Interface in psidev.psi.mi.jami.listener: Listener for changes in an entity
EntityChangeLogger<T extends Entity> - Class in psidev.psi.mi.jami.listener.impl: This listener will just interactor change events
EntityChangeLogger() - Constructor for class psidev.psi.mi.jami.listener.impl.EntityChangeLogger
EntityComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Generic entity comparator.
EntityComparator(EntityBaseComparator, ExperimentalEntityComparator, ModelledEntityComparator, ParticipantComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.EntityComparator: Constructor for EntityComparator.
EntityEnricher - Interface in psidev.psi.mi.jami.enricher: Sub enrichers: Protein, CvTerm, Feature, Bioactive3Entity
EntityEnricherListener - Interface in psidev.psi.mi.jami.enricher.listener: Entity enricher listener
EntityEnricherListenerManager - Class in psidev.psi.mi.jami.enricher.listener.impl: A manager for listeners which holds a list of listeners.
EntityEnricherListenerManager() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.EntityEnricherListenerManager: A constructor to create a listener manager with no listeners.
EntityEnricherListenerManager(EntityEnricherListener...) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.EntityEnricherListenerManager: A constructor to initiate a listener manager with as many listeners as required.
EntityEnricherLogger - Class in psidev.psi.mi.jami.enricher.listener.impl.log: A logging listener.
EntityEnricherLogger() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.log.EntityEnricherLogger
EntityEnricherStatisticsWriter - Class in psidev.psi.mi.jami.enricher.listener.impl.writer: A statistics logger which records changes made by the enricher.
EntityEnricherStatisticsWriter() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.EntityEnricherStatisticsWriter: Uses the known name of the JamiObject type as the seed to generate names for the success an failure log files.
EntityEnricherStatisticsWriter(File, File) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.EntityEnricherStatisticsWriter: Uses the exact files provided to log successful and failed enrichments.
EntityEnricherStatisticsWriter(String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.EntityEnricherStatisticsWriter: Creates the files from the provided seed file name with 'success' and 'failure' appended.
EntityEnricherStatisticsWriter(String, String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.EntityEnricherStatisticsWriter: Uses the provided names to create the files for successful and failed enrichment logging.
EntityInteractorChangeListener - Interface in psidev.psi.mi.jami.listener: Listeners for changes in participant
ENTREZ_GENE - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant ENTREZ_GENE="entrezgene/locuslink"
ENTREZ_GENE_MI - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant ENTREZ_GENE_MI="MI:0477"
entry - Variable in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Uniparc
Entry - Class in psidev.psi.mi.jami.bridges.uniprot.rest.response.model: Java class for anonymous complex type.
Entry - Class in psidev.psi.mi.jami.xml.model: An XML entry is associated with a set of interactions, experiments, source and attributes
Entry - Class in psidev.psi.mi.jami.xml.model.xml30: PSI XML 3.0 Entry implementation for JAXB read only
Entry() - Constructor for class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Entry
Entry() - Constructor for class psidev.psi.mi.jami.xml.model.Entry: Constructor for Entry.
Entry() - Constructor for class psidev.psi.mi.jami.xml.model.xml30.Entry
ENTRY_TAG - Static variable in class psidev.psi.mi.jami.xml.utils.PsiXmlUtils: Constant ENTRY_TAG="entry"
Entry.JAXBAvailabilitiesWrapper - Class in psidev.psi.mi.jami.xml.model.xml30
Entry.JAXBExperimentsWrapper - Class in psidev.psi.mi.jami.xml.model.xml30
Entry.JAXBInteractionsWrapper - Class in psidev.psi.mi.jami.xml.model.xml30
EntryLocation - Class in psidev.psi.mi.jami.xml.cache: The location of an object with id in an entry
EntryLocation(int, int) - Constructor for class psidev.psi.mi.jami.xml.cache.EntryLocation: Constructor for EntryLocation.
ENTRYSET_TAG - Static variable in class psidev.psi.mi.jami.xml.utils.PsiXmlUtils: Constant ENTRYSET_TAG="entrySet"
ENZYME_REGULATOR_ROLE - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant ENZYME_REGULATOR_ROLE="enzyme regulator"
ENZYME_REGULATOR_ROLE_MI - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant ENZYME_REGULATOR_ROLE_MI="MI:1343"
ENZYME_ROLE - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant ENZYME_ROLE="enzyme"
ENZYME_ROLE_MI - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant ENZYME_ROLE_MI="MI:0501"
ENZYME_TARGET_ROLE - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant ENZYME_TARGET_ROLE="enzyme target"
ENZYME_TARGET_ROLE_MI - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant ENZYME_TARGET_ROLE_MI="MI:0502"
EOF - psidev.psi.mi.jami.tab.io.parser.TokenKind
EOF - Static variable in interface psidev.psi.mi.jami.tab.io.parser.MitabLineParserConstants: End of File.
eol - Variable in exception psidev.psi.mi.jami.tab.io.parser.ParseException: The end of line string for this machine.
EPO - psidev.psi.mi.jami.bridges.uniprot.rest.SearchDatabase
EQUAL - psidev.psi.mi.jami.enricher.util.diff.diff_match_patch.Operation
EQUAL - psidev.psi.mi.jami.enricher.util.diff.Operation
equals(Object) - Method in class psidev.psi.mi.jami.analysis.graph.model.AbstractMIEdge
equals(Object) - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.OntologyTermWrapper
equals(Object) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch.Diff: Is this Diff equivalent to another Diff?
equals(Object) - Method in class psidev.psi.mi.jami.listener.comparator.observer.ComplexComparatorObserver
equals(Object) - Method in class psidev.psi.mi.jami.model.impl.DefaultAlias
equals(Object) - Method in class psidev.psi.mi.jami.model.impl.DefaultAnnotation
equals(Object) - Method in class psidev.psi.mi.jami.model.impl.DefaultChecksum
equals(Object) - Method in class psidev.psi.mi.jami.model.impl.DefaultConfidence
equals(Object) - Method in class psidev.psi.mi.jami.model.impl.DefaultCooperativityEvidence
equals(Object) - Method in class psidev.psi.mi.jami.model.impl.DefaultCvTerm
equals(Object) - Method in class psidev.psi.mi.jami.model.impl.DefaultOrganism
equals(Object) - Method in class psidev.psi.mi.jami.model.impl.DefaultParameter
equals(Object) - Method in class psidev.psi.mi.jami.model.impl.DefaultPosition
equals(Object) - Method in class psidev.psi.mi.jami.model.impl.DefaultRange
equals(Object) - Method in class psidev.psi.mi.jami.model.impl.DefaultResultingSequence
equals(Object) - Method in class psidev.psi.mi.jami.model.impl.DefaultStoichiometry
equals(Object) - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameter
equals(Object) - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameterValue
equals(Object) - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameterValueSet
equals(Object) - Method in class psidev.psi.mi.jami.model.impl.DefaultXref
equals(Object) - Method in class psidev.psi.mi.jami.model.ParameterValue
equals(Object) - Method in class psidev.psi.mi.jami.tab.extension.MitabXref
equals(Object) - Method in class psidev.psi.mi.jami.xml.cache.EntryLocation
equals(Object) - Method in class psidev.psi.mi.jami.xml.io.parser.NonCloseableInputStreamWrapper
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractXmlVariableParameterValue
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlAnnotation
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlConfidence
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParameter
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlPosition
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAlias
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlCooperativityEvidence
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOrganism
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlRange
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlResultingSequence
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlStoichiometryRange
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameter
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlXref
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlAnnotation
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlConfidence
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParameter
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlPosition
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAlias
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlCooperativityEvidence
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOrganism
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlRange
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlResultingSequence
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlStoichiometryRange
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameter
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlXref
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlAnnotation
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlConfidence
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParameter
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlPosition
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAlias
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCooperativityEvidence
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOrganism
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlRange
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlResultingSequence
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlStoichiometryRange
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameter
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameterValueSet
equals(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlXref
error(SAXParseException) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream
error(SAXParseException) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource
escapeAndWriteString(String) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.AbstractMitabColumnFeeder: This method replaces line breaks and tab characters with a space.
escapeAndWriteString(String) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: This method replaces line breaks and tab characters with a space.
EuroPubmedCentralFetcher - Class in psidev.psi.mi.jami.bridges.europubmedcentral: Uses the EuroPubmedCentral WSDL SOAP service to fetch publication entries.
EuroPubmedCentralFetcher() - Constructor for class psidev.psi.mi.jami.bridges.europubmedcentral.EuroPubmedCentralFetcher: Initiates the EuroPubmedCentral fetcher
evidence - psidev.psi.mi.jami.model.InteractionCategory
EVIDENCE - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant EVIDENCE="evidence"
EVIDENCE_MI - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant EVIDENCE_MI="MI:1051"
EXACT_KEY - Static variable in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Constant EXACT_KEY="exact"
EXACT_KEY - Static variable in class psidev.psi.mi.jami.bridges.obo.OntologyOboLoader: Constant EXACT_KEY="exact"
EXACT_SYNONYM_KEY - Static variable in class psidev.psi.mi.jami.bridges.ols.utils.OlsUtils: Constant EXACT_SYNONYM_KEY="exact_synonym"
ExactExternalIdentifierComparator - Class in psidev.psi.mi.jami.utils.comparator.xref: Exact comparator for external identifiers (Xref database and id).
ExactExternalIdentifierComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.xref.ExactExternalIdentifierComparator: Constructor for ExactExternalIdentifierComparator.
ExactInteractorBaseComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Interactor base comparator.
ExactInteractorBaseComparator(OrganismTaxIdComparator, Comparator<CvTerm>, InteractorBaseComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.ExactInteractorBaseComparator: Creates a new UnambiguousExactInteractorBaseComparator.
ExactXrefComparator - Class in psidev.psi.mi.jami.utils.comparator.xref: Exact comparator for Xrefs.
ExactXrefComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.xref.ExactXrefComparator: Constructor for ExactXrefComparator.
EXP_MODIFICATION - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant EXP_MODIFICATION="experiment modification"
EXP_MODIFICATION_MI - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant EXP_MODIFICATION_MI="MI:0627"
expand(Interaction) - Method in class psidev.psi.mi.jami.binary.expansion.BipartiteExpansion: expand
expand(Interaction) - Method in class psidev.psi.mi.jami.binary.expansion.MatrixExpansion: expand
expand(Interaction) - Method in class psidev.psi.mi.jami.binary.expansion.SpokeExpansion: expand
expand(T) - Method in class psidev.psi.mi.jami.binary.expansion.AbstractComplexExpansionMethod: expand
expand(T) - Method in interface psidev.psi.mi.jami.binary.expansion.ComplexExpansionMethod: Expand the interaction in a collection of BinaryInteraction.
ExpandBuff(boolean) - Method in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream
ExpandBuff(boolean) - Method in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: ExpandBuff.
expandComplexIntoParticipants(ModelledParticipant) - Static method in class psidev.psi.mi.jami.utils.ComplexUtils: Expands the given complex participant.
expanded - psidev.psi.mi.jami.xml.PsiXmlType
ExpandedPsiXmlElementWriter<T> - Interface in psidev.psi.mi.jami.xml.io.writer.elements: Interface for an expanded XML element writer.
ExpandedXmlBinaryEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.expanded: Expanded PSI-XML writer for binary interaction evidences (full experimental evidences)
ExpandedXmlBinaryEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.expanded.extended: Expanded PSI-XML writer for expanded binary interaction evidences (full experimental evidences)
ExpandedXmlBinaryEvidenceWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlBinaryEvidenceWriter: Constructor for ExpandedXmlBinaryEvidenceWriter.
ExpandedXmlBinaryEvidenceWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlBinaryEvidenceWriter: Constructor for ExpandedXmlBinaryEvidenceWriter.
ExpandedXmlBinaryEvidenceWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlBinaryEvidenceWriter: Constructor for ExpandedXmlBinaryEvidenceWriter.
ExpandedXmlBinaryEvidenceWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlBinaryEvidenceWriter: Constructor for ExpandedXmlBinaryEvidenceWriter.
ExpandedXmlBinaryEvidenceWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlBinaryEvidenceWriter: Constructor for ExpandedXmlBinaryEvidenceWriter.
ExpandedXmlBinaryEvidenceWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlBinaryEvidenceWriter: Constructor for ExpandedXmlBinaryEvidenceWriter.
ExpandedXmlBinaryEvidenceWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlBinaryEvidenceWriter: Constructor for ExpandedXmlBinaryEvidenceWriter.
ExpandedXmlBinaryEvidenceWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlBinaryEvidenceWriter: Constructor for ExpandedXmlBinaryEvidenceWriter.
ExpandedXmlBinaryEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlBinaryEvidenceWriter: Constructor for ExpandedXmlBinaryEvidenceWriter.
ExpandedXmlBinaryEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlBinaryEvidenceWriter: Constructor for ExpandedXmlBinaryEvidenceWriter.
ExpandedXmlBinaryWriter - Class in psidev.psi.mi.jami.xml.io.writer.expanded: Expanded PSI-XML writer for a mix of binary interactions
ExpandedXmlBinaryWriter - Class in psidev.psi.mi.jami.xml.io.writer.expanded.extended: Expanded PSI-XML writer for a mix of expanded binary interactions
ExpandedXmlBinaryWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlBinaryWriter: Constructor for ExpandedXmlBinaryWriter.
ExpandedXmlBinaryWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlBinaryWriter: Constructor for ExpandedXmlBinaryWriter.
ExpandedXmlBinaryWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlBinaryWriter: Constructor for ExpandedXmlBinaryWriter.
ExpandedXmlBinaryWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlBinaryWriter: Constructor for ExpandedXmlBinaryWriter.
ExpandedXmlBinaryWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlBinaryWriter: Constructor for ExpandedXmlBinaryWriter.
ExpandedXmlBinaryWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlBinaryWriter: Constructor for ExpandedXmlBinaryWriter.
ExpandedXmlBinaryWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlBinaryWriter: Constructor for ExpandedXmlBinaryWriter.
ExpandedXmlBinaryWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlBinaryWriter: Constructor for ExpandedXmlBinaryWriter.
ExpandedXmlComplexWriter - Class in psidev.psi.mi.jami.xml.io.writer.expanded: Expanded PSI-XML writer for biological complexes (no experimental evidences).
ExpandedXmlComplexWriter - Class in psidev.psi.mi.jami.xml.io.writer.expanded.extended: Expanded PSI-XML writer for biological complexes (no experimental evidences)
ExpandedXmlComplexWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlComplexWriter: Constructor for ExpandedXmlComplexWriter.
ExpandedXmlComplexWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlComplexWriter: Constructor for ExpandedXmlComplexWriter.
ExpandedXmlComplexWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlComplexWriter: Constructor for ExpandedXmlComplexWriter.
ExpandedXmlComplexWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlComplexWriter: Constructor for ExpandedXmlComplexWriter.
ExpandedXmlComplexWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlComplexWriter: Constructor for ExpandedXmlComplexWriter.
ExpandedXmlComplexWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlComplexWriter: Constructor for ExpandedXmlComplexWriter.
ExpandedXmlComplexWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlComplexWriter: Constructor for ExpandedXmlComplexWriter.
ExpandedXmlComplexWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlComplexWriter: Constructor for ExpandedXmlComplexWriter.
ExpandedXmlComplexWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlComplexWriter: Constructor for ExpandedXmlComplexWriter.
ExpandedXmlComplexWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlComplexWriter: Constructor for ExpandedXmlComplexWriter.
ExpandedXmlEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.expanded: Expanded PSI-XML writer for interaction evidences (full experimental evidences)
ExpandedXmlEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.expanded.extended: Expanded PSI-XML writer for expanded interaction evidences (full experimental evidences)
ExpandedXmlEvidenceWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlEvidenceWriter: Constructor for ExpandedXmlEvidenceWriter.
ExpandedXmlEvidenceWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlEvidenceWriter: Constructor for ExpandedXmlEvidenceWriter.
ExpandedXmlEvidenceWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlEvidenceWriter: Constructor for ExpandedXmlEvidenceWriter.
ExpandedXmlEvidenceWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlEvidenceWriter: Constructor for ExpandedXmlEvidenceWriter.
ExpandedXmlEvidenceWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlEvidenceWriter: Constructor for ExpandedXmlEvidenceWriter.
ExpandedXmlEvidenceWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlEvidenceWriter: Constructor for ExpandedXmlEvidenceWriter.
ExpandedXmlEvidenceWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlEvidenceWriter: Constructor for ExpandedXmlEvidenceWriter.
ExpandedXmlEvidenceWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlEvidenceWriter: Constructor for ExpandedXmlEvidenceWriter.
ExpandedXmlEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlEvidenceWriter: Constructor for ExpandedXmlEvidenceWriter.
ExpandedXmlEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlEvidenceWriter: Constructor for ExpandedXmlEvidenceWriter.
ExpandedXmlModelledBinaryWriter - Class in psidev.psi.mi.jami.xml.io.writer.expanded: Expanded PSI-XML writer for modelled binary interactions (no experimental evidences)
ExpandedXmlModelledBinaryWriter - Class in psidev.psi.mi.jami.xml.io.writer.expanded.extended: Expanded PSI-XML writer for modelled binary interactions (no experimental evidences)
ExpandedXmlModelledBinaryWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlModelledBinaryWriter: Constructor for ExpandedXmlModelledBinaryWriter.
ExpandedXmlModelledBinaryWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlModelledBinaryWriter: Constructor for ExpandedXmlModelledBinaryWriter.
ExpandedXmlModelledBinaryWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlModelledBinaryWriter: Constructor for ExpandedXmlModelledBinaryWriter.
ExpandedXmlModelledBinaryWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlModelledBinaryWriter: Constructor for ExpandedXmlModelledBinaryWriter.
ExpandedXmlModelledBinaryWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlModelledBinaryWriter: Constructor for ExpandedXmlModelledBinaryWriter.
ExpandedXmlModelledBinaryWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlModelledBinaryWriter: Constructor for ExpandedXmlModelledBinaryWriter.
ExpandedXmlModelledBinaryWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlModelledBinaryWriter: Constructor for ExpandedXmlModelledBinaryWriter.
ExpandedXmlModelledBinaryWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlModelledBinaryWriter: Constructor for ExpandedXmlModelledBinaryWriter.
ExpandedXmlModelledBinaryWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlModelledBinaryWriter: Constructor for ExpandedXmlModelledBinaryWriter.
ExpandedXmlModelledBinaryWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlModelledBinaryWriter: Constructor for ExpandedXmlModelledBinaryWriter.
ExpandedXmlModelledWriter - Class in psidev.psi.mi.jami.xml.io.writer.expanded: Expanded PSI-XML writer for abstract interactions (no experimental evidences)
ExpandedXmlModelledWriter - Class in psidev.psi.mi.jami.xml.io.writer.expanded.extended: Expanded PSI-XML writer for abstract interactions (no experimental evidences)
ExpandedXmlModelledWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlModelledWriter: Constructor for ExpandedXmlModelledWriter.
ExpandedXmlModelledWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlModelledWriter: Constructor for ExpandedXmlModelledWriter.
ExpandedXmlModelledWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlModelledWriter: Constructor for ExpandedXmlModelledWriter.
ExpandedXmlModelledWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlModelledWriter: Constructor for ExpandedXmlModelledWriter.
ExpandedXmlModelledWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlModelledWriter: Constructor for ExpandedXmlModelledWriter.
ExpandedXmlModelledWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlModelledWriter: Constructor for ExpandedXmlModelledWriter.
ExpandedXmlModelledWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlModelledWriter: Constructor for ExpandedXmlModelledWriter.
ExpandedXmlModelledWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlModelledWriter: Constructor for ExpandedXmlModelledWriter.
ExpandedXmlModelledWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlModelledWriter: Constructor for ExpandedXmlModelledWriter.
ExpandedXmlModelledWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlModelledWriter: Constructor for ExpandedXmlModelledWriter.
ExpandedXmlNamedBinaryEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.expanded: Expanded PSI-XML writer for named binary interaction evidences (full experimental evidences) Participants, features and experiments also have expanded names to write
ExpandedXmlNamedBinaryEvidenceWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedBinaryEvidenceWriter: Constructor for ExpandedXmlNamedBinaryEvidenceWriter.
ExpandedXmlNamedBinaryEvidenceWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedBinaryEvidenceWriter: Constructor for ExpandedXmlNamedBinaryEvidenceWriter.
ExpandedXmlNamedBinaryEvidenceWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedBinaryEvidenceWriter: Constructor for ExpandedXmlNamedBinaryEvidenceWriter.
ExpandedXmlNamedBinaryEvidenceWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedBinaryEvidenceWriter: Constructor for ExpandedXmlNamedBinaryEvidenceWriter.
ExpandedXmlNamedBinaryEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedBinaryEvidenceWriter: Constructor for ExpandedXmlNamedBinaryEvidenceWriter.
ExpandedXmlNamedBinaryWriter - Class in psidev.psi.mi.jami.xml.io.writer.expanded: Expanded PSI-XML writer for a mix of named binary interactions
ExpandedXmlNamedBinaryWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedBinaryWriter: Constructor for ExpandedXmlNamedBinaryWriter.
ExpandedXmlNamedBinaryWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedBinaryWriter: Constructor for ExpandedXmlNamedBinaryWriter.
ExpandedXmlNamedBinaryWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedBinaryWriter: Constructor for ExpandedXmlNamedBinaryWriter.
ExpandedXmlNamedBinaryWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedBinaryWriter: Constructor for ExpandedXmlNamedBinaryWriter.
ExpandedXmlNamedEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.expanded: Expanded PSI-XML writer for named interaction evidences (full experimental evidences) Participants, features and experiments also have expanded names to write
ExpandedXmlNamedEvidenceWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedEvidenceWriter: Constructor for ExpandedXmlNamedEvidenceWriter.
ExpandedXmlNamedEvidenceWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedEvidenceWriter: Constructor for ExpandedXmlNamedEvidenceWriter.
ExpandedXmlNamedEvidenceWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedEvidenceWriter: Constructor for ExpandedXmlNamedEvidenceWriter.
ExpandedXmlNamedEvidenceWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedEvidenceWriter: Constructor for ExpandedXmlNamedEvidenceWriter.
ExpandedXmlNamedEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedEvidenceWriter: Constructor for ExpandedXmlNamedEvidenceWriter.
ExpandedXmlNamedModelledBinaryWriter - Class in psidev.psi.mi.jami.xml.io.writer.expanded: Expanded PSI-XML writer for named modelled binary interactions (no experimental evidences).
ExpandedXmlNamedModelledBinaryWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedModelledBinaryWriter: Constructor for ExpandedXmlNamedModelledBinaryWriter.
ExpandedXmlNamedModelledBinaryWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedModelledBinaryWriter: Constructor for ExpandedXmlNamedModelledBinaryWriter.
ExpandedXmlNamedModelledBinaryWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedModelledBinaryWriter: Constructor for ExpandedXmlNamedModelledBinaryWriter.
ExpandedXmlNamedModelledBinaryWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedModelledBinaryWriter: Constructor for ExpandedXmlNamedModelledBinaryWriter.
ExpandedXmlNamedModelledBinaryWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedModelledBinaryWriter: Constructor for ExpandedXmlNamedModelledBinaryWriter.
ExpandedXmlNamedModelledWriter - Class in psidev.psi.mi.jami.xml.io.writer.expanded: Expanded PSI-XML writer for named abstract interactions (no experimental evidences).
ExpandedXmlNamedModelledWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedModelledWriter: Constructor for ExpandedXmlNamedModelledWriter.
ExpandedXmlNamedModelledWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedModelledWriter: Constructor for ExpandedXmlNamedModelledWriter.
ExpandedXmlNamedModelledWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedModelledWriter: Constructor for ExpandedXmlNamedModelledWriter.
ExpandedXmlNamedModelledWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedModelledWriter: Constructor for ExpandedXmlNamedModelledWriter.
ExpandedXmlNamedModelledWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedModelledWriter: Constructor for ExpandedXmlNamedModelledWriter.
ExpandedXmlNamedWriter - Class in psidev.psi.mi.jami.xml.io.writer.expanded: Expanded PSI-XML writer for a mix of named interactions
ExpandedXmlNamedWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedWriter: Constructor for ExpandedXmlNamedWriter.
ExpandedXmlNamedWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedWriter: Constructor for ExpandedXmlNamedWriter.
ExpandedXmlNamedWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedWriter: Constructor for ExpandedXmlNamedWriter.
ExpandedXmlNamedWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedWriter: Constructor for ExpandedXmlNamedWriter.
ExpandedXmlWriter - Class in psidev.psi.mi.jami.xml.io.writer.expanded: Expanded PSI-XML writer for a mix of interactions
ExpandedXmlWriter - Class in psidev.psi.mi.jami.xml.io.writer.expanded.extended: Expanded PSI-XML writer for a mix of interactions
ExpandedXmlWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlWriter: Constructor for ExpandedXmlWriter.
ExpandedXmlWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlWriter: Constructor for ExpandedXmlWriter.
ExpandedXmlWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlWriter: Constructor for ExpandedXmlWriter.
ExpandedXmlWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlWriter: Constructor for ExpandedXmlWriter.
ExpandedXmlWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlWriter: Constructor for ExpandedXmlWriter.
ExpandedXmlWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlWriter: Constructor for ExpandedXmlWriter.
ExpandedXmlWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlWriter: Constructor for ExpandedXmlWriter.
ExpandedXmlWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlWriter: Constructor for ExpandedXmlWriter.
expansion() - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
expectedTokenSequences - Variable in exception psidev.psi.mi.jami.tab.io.parser.ParseException: Each entry in this array is an array of integers.
Experiment - Interface in psidev.psi.mi.jami.model: Experiment in which some interactions has been determined.
EXPERIMENT_TAG - Static variable in class psidev.psi.mi.jami.xml.utils.PsiXmlUtils: Constant EXPERIMENT_TAG="experimentDescription"
EXPERIMENTAL_FEATURE - Static variable in interface psidev.psi.mi.jami.model.Feature: Constant EXPERIMENTAL_FEATURE="experimental feature"
EXPERIMENTAL_FEATURE_MI - Static variable in interface psidev.psi.mi.jami.model.Feature: Constant EXPERIMENTAL_FEATURE_MI="MI:0505"
ExperimentalBinaryInteractionXrefList() - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence.ExperimentalBinaryInteractionXrefList
ExperimentalCvTerm - Class in psidev.psi.mi.jami.xml.model.extension.xml253: This elements is controlled by the PSI-MI controlled vocabulary "experimentalPreparation", root term id MI:0346.
ExperimentalCvTerm - Class in psidev.psi.mi.jami.xml.model.extension.xml254: This elements is controlled by the PSI-MI controlled vocabulary "experimentalPreparation", root term id MI:0346.
ExperimentalCvTerm - Class in psidev.psi.mi.jami.xml.model.extension.xml300: This elements is controlled by the PSI-MI controlled vocabulary "experimentalPreparation", root term id MI:0346.
ExperimentalCvTerm() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.ExperimentalCvTerm: Constructor for ExperimentalCvTerm.
ExperimentalCvTerm() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.ExperimentalCvTerm: Constructor for ExperimentalCvTerm.
ExperimentalCvTerm() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.ExperimentalCvTerm: Constructor for ExperimentalCvTerm.
ExperimentalCvTerm(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.ExperimentalCvTerm: Constructor for ExperimentalCvTerm.
ExperimentalCvTerm(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.ExperimentalCvTerm: Constructor for ExperimentalCvTerm.
ExperimentalCvTerm(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.ExperimentalCvTerm: Constructor for ExperimentalCvTerm.
ExperimentalCvTerm(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.ExperimentalCvTerm: Constructor for ExperimentalCvTerm.
ExperimentalCvTerm(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.ExperimentalCvTerm: Constructor for ExperimentalCvTerm.
ExperimentalCvTerm(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.ExperimentalCvTerm: Constructor for ExperimentalCvTerm.
ExperimentalCvTerm(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.ExperimentalCvTerm: Constructor for ExperimentalCvTerm.
ExperimentalCvTerm(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.ExperimentalCvTerm: Constructor for ExperimentalCvTerm.
ExperimentalCvTerm(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.ExperimentalCvTerm: Constructor for ExperimentalCvTerm.
ExperimentalCvTerm(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.ExperimentalCvTerm: Constructor for ExperimentalCvTerm.
ExperimentalCvTerm(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.ExperimentalCvTerm: Constructor for ExperimentalCvTerm.
ExperimentalCvTerm(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.ExperimentalCvTerm: Constructor for ExperimentalCvTerm.
ExperimentalCvTerm(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.ExperimentalCvTerm: Constructor for ExperimentalCvTerm.
ExperimentalCvTerm(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.ExperimentalCvTerm: Constructor for ExperimentalCvTerm.
ExperimentalCvTerm(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.ExperimentalCvTerm: Constructor for ExperimentalCvTerm.
ExperimentalCvTerm.JAXBExperimentRefWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
ExperimentalCvTerm.JAXBExperimentRefWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
ExperimentalCvTerm.JAXBExperimentRefWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
ExperimentalEntity - Interface in psidev.psi.mi.jami.model: An experimental entity with experimental features
ExperimentalEntityComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Basic Experimental entity comparator.
ExperimentalEntityComparator(EntityBaseComparator, CollectionComparator<FeatureEvidence>) - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.ExperimentalEntityComparator: Creates a new ParticipantEvidenceComparator
ExperimentalEntityComparator(EntityBaseComparator, FeatureEvidenceComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.ExperimentalEntityComparator: Creates a new ParticipantEvidenceComparator
ExperimentalEntry - Class in psidev.psi.mi.jami.xml.model.xml253: Entry implementation for JAXB read only
ExperimentalEntry - Class in psidev.psi.mi.jami.xml.model.xml254: Entry implementation for JAXB read only
ExperimentalEntry - Class in psidev.psi.mi.jami.xml.model.xml30: Entry implementation for JAXB read only
ExperimentalEntry() - Constructor for class psidev.psi.mi.jami.xml.model.xml253.ExperimentalEntry
ExperimentalEntry() - Constructor for class psidev.psi.mi.jami.xml.model.xml254.ExperimentalEntry
ExperimentalEntry() - Constructor for class psidev.psi.mi.jami.xml.model.xml30.ExperimentalEntry
ExperimentalEntry.JAXBAvailabilitiesWrapper - Class in psidev.psi.mi.jami.xml.model.xml253
ExperimentalEntry.JAXBAvailabilitiesWrapper - Class in psidev.psi.mi.jami.xml.model.xml254
ExperimentalEntry.JAXBAvailabilitiesWrapper - Class in psidev.psi.mi.jami.xml.model.xml30
ExperimentalEntry.JAXBExperimentsWrapper - Class in psidev.psi.mi.jami.xml.model.xml253
ExperimentalEntry.JAXBExperimentsWrapper - Class in psidev.psi.mi.jami.xml.model.xml254
ExperimentalEntry.JAXBExperimentsWrapper - Class in psidev.psi.mi.jami.xml.model.xml30
ExperimentalEntry.JAXBInteractionsWrapper - Class in psidev.psi.mi.jami.xml.model.xml253
ExperimentalEntry.JAXBInteractionsWrapper - Class in psidev.psi.mi.jami.xml.model.xml254
ExperimentalEntry.JAXBInteractionsWrapper - Class in psidev.psi.mi.jami.xml.model.xml30
ExperimentalInteractor - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Java class for experimentalInteractor complex type.
ExperimentalInteractor - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Java class for experimentalInteractor complex type.
ExperimentalInteractor - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Java class for experimentalInteractor complex type.
ExperimentalInteractor() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.ExperimentalInteractor: Constructor for ExperimentalInteractor.
ExperimentalInteractor() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.ExperimentalInteractor: Constructor for ExperimentalInteractor.
ExperimentalInteractor() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.ExperimentalInteractor: Constructor for ExperimentalInteractor.
ExperimentalInteractor.JAXBExperimentRefWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
ExperimentalInteractor.JAXBExperimentRefWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
ExperimentalInteractor.JAXBExperimentRefWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
EXPERIMENTALLY_OBSERVED - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant EXPERIMENTALLY_OBSERVED="experimentally-observed"
EXPERIMENTALLY_OBSERVED_MI - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant EXPERIMENTALLY_OBSERVED_MI="MI:1054"
ExperimentalParticipantCandidate - Interface in psidev.psi.mi.jami.model: Interface for experimental participant candidates
ExperimentalParticipantPool - Interface in psidev.psi.mi.jami.model: A pool of experimental participants
ExperimentalParticipantPoolChangeLogger - Class in psidev.psi.mi.jami.listener.impl: This listener will just interactor change events
ExperimentalParticipantPoolChangeLogger() - Constructor for class psidev.psi.mi.jami.listener.impl.ExperimentalParticipantPoolChangeLogger
ExperimentalParticipantPoolComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Basic Experimental participant pool comparator.
ExperimentalParticipantPoolComparator(ParticipantBaseComparator, OrganismComparator, CollectionComparator<Parameter>, CollectionComparator<FeatureEvidence>, CollectionComparator<ExperimentalEntity>, CollectionComparator<CvTerm>) - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.ExperimentalParticipantPoolComparator: Creates a new ExperimentalParticipantPoolComparator
ExperimentalParticipantPoolComparator(ParticipantBaseComparator, OrganismComparator, ParameterComparator, FeatureEvidenceComparator, ExperimentalEntityComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.ExperimentalParticipantPoolComparator: Creates a new ExperimentalParticipantPoolComparator
ExperimentalParticipantPoolEnricher - Interface in psidev.psi.mi.jami.enricher: The Participant pool enricher is an enricher which can enrich either single Participant pool or a collection.
ExperimentalParticipantPoolEnricherListener - Interface in psidev.psi.mi.jami.enricher.listener: Experimental Participant pool enricher listener
ExperimentalParticipantPoolEnricherListenerManager - Class in psidev.psi.mi.jami.enricher.listener.impl: A manager for listeners which holds a list of listeners.
ExperimentalParticipantPoolEnricherListenerManager() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.ExperimentalParticipantPoolEnricherListenerManager: A constructor to create a listener manager with no listeners.
ExperimentalParticipantPoolEnricherListenerManager(ParticipantEvidenceEnricherListener<ExperimentalParticipantPool>...) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.ExperimentalParticipantPoolEnricherListenerManager: A constructor to initiate a listener manager with as many listeners as required.
ExperimentalParticipantPoolEnricherLogger - Class in psidev.psi.mi.jami.enricher.listener.impl.log: A logging listener.
ExperimentalParticipantPoolEnricherLogger() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.log.ExperimentalParticipantPoolEnricherLogger
ExperimentalParticipantPoolEnricherStatisticsWriter - Class in psidev.psi.mi.jami.enricher.listener.impl.writer: A statistics logger which records changes made by the enricher.
ExperimentalParticipantPoolEnricherStatisticsWriter() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.ExperimentalParticipantPoolEnricherStatisticsWriter: Uses the known name of the JamiObject type as the seed to generate names for the success an failure log files.
ExperimentalParticipantPoolEnricherStatisticsWriter(File, File) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.ExperimentalParticipantPoolEnricherStatisticsWriter: Uses the exact files provided to log successful and failed enrichments.
ExperimentalParticipantPoolEnricherStatisticsWriter(String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.ExperimentalParticipantPoolEnricherStatisticsWriter: Creates the files from the provided seed file name with 'success' and 'failure' appended.
ExperimentalParticipantPoolEnricherStatisticsWriter(String, String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.ExperimentalParticipantPoolEnricherStatisticsWriter: Uses the provided names to create the files for successful and failed enrichment logging.
ExperimentChangeListener - Interface in psidev.psi.mi.jami.listener: Listener for experiment changes
ExperimentChangeLogger - Class in psidev.psi.mi.jami.listener.impl: This listener will listen to experiment change events
ExperimentChangeLogger() - Constructor for class psidev.psi.mi.jami.listener.impl.ExperimentChangeLogger
ExperimentCloner - Class in psidev.psi.mi.jami.utils.clone: Utility class for cloning experiments
ExperimentCloner() - Constructor for class psidev.psi.mi.jami.utils.clone.ExperimentCloner
ExperimentComparator - Class in psidev.psi.mi.jami.utils.comparator.experiment: Basic experiment comparator.
ExperimentComparator(Comparator<Publication>, OrganismComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.experiment.ExperimentComparator: Creates a new ExperimentComparator.
ExperimentComparator(Comparator<Publication>, OrganismComparator, CollectionComparator<VariableParameter>) - Constructor for class psidev.psi.mi.jami.utils.comparator.experiment.ExperimentComparator: Constructor for ExperimentComparator.
ExperimentEnricher - Interface in psidev.psi.mi.jami.enricher: The experimentEnricher can enrich either a single experiment or a collection.
ExperimentEnricherListener - Interface in psidev.psi.mi.jami.enricher.listener: //An extension of the ExperimentChangeListener //with specific methods related to the process of enriching.
ExperimentEnricherListenerManager - Class in psidev.psi.mi.jami.enricher.listener.impl: A manager for listeners which holds a list of listeners.
ExperimentEnricherListenerManager(ExperimentEnricherListener...) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.ExperimentEnricherListenerManager: Constructor for ExperimentEnricherListenerManager.
ExperimentEnricherLogger - Class in psidev.psi.mi.jami.enricher.listener.impl.log: A logging listener.
ExperimentEnricherLogger() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.log.ExperimentEnricherLogger
ExperimentEnricherStatisticsWriter - Class in psidev.psi.mi.jami.enricher.listener.impl.writer: A statistics logger which records changes made by the enricher.
ExperimentEnricherStatisticsWriter() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.ExperimentEnricherStatisticsWriter: Uses the known name of the JamiObject type as the seed to generate names for the success an failure log files.
ExperimentEnricherStatisticsWriter(File, File) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.ExperimentEnricherStatisticsWriter: Uses the exact files provided to log successful and failed enrichments.
ExperimentEnricherStatisticsWriter(String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.ExperimentEnricherStatisticsWriter: Creates the files from the provided seed file name with 'success' and 'failure' appended.
ExperimentEnricherStatisticsWriter(String, String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.ExperimentEnricherStatisticsWriter: Uses the provided names to create the files for successful and failed enrichment logging.
ExperimentImexEnricherListener - Interface in psidev.psi.mi.jami.imex.listener: An extension of the ExperimentEnricherListener with specific methods related to the process of enriching.
ExperimentImexEnricherListenerManager - Class in psidev.psi.mi.jami.imex.listener.impl: A manager for listeners which holds a list of listeners.
ExperimentImexEnricherListenerManager(ExperimentImexEnricherListener...) - Constructor for class psidev.psi.mi.jami.imex.listener.impl.ExperimentImexEnricherListenerManager: Constructor for ExperimentImexEnricherListenerManager.
ExperimentImexEnricherLogger - Class in psidev.psi.mi.jami.imex.listener.impl: A logging listener.
ExperimentImexEnricherLogger() - Constructor for class psidev.psi.mi.jami.imex.listener.impl.ExperimentImexEnricherLogger
ExperimentImexEnricherStatisticsWriter - Class in psidev.psi.mi.jami.imex.listener.impl: A statistics logger which records changes made by the enricher.
ExperimentImexEnricherStatisticsWriter() - Constructor for class psidev.psi.mi.jami.imex.listener.impl.ExperimentImexEnricherStatisticsWriter: Uses the known name of the JamiObject type as the seed to generate names for the success an failure log files.
ExperimentImexEnricherStatisticsWriter(File, File) - Constructor for class psidev.psi.mi.jami.imex.listener.impl.ExperimentImexEnricherStatisticsWriter: Uses the exact files provided to log successful and failed enrichments.
ExperimentImexEnricherStatisticsWriter(String) - Constructor for class psidev.psi.mi.jami.imex.listener.impl.ExperimentImexEnricherStatisticsWriter: Creates the files from the provided seed file name with 'success' and 'failure' appended.
ExperimentImexEnricherStatisticsWriter(String, String) - Constructor for class psidev.psi.mi.jami.imex.listener.impl.ExperimentImexEnricherStatisticsWriter: Uses the provided names to create the files for successful and failed enrichment logging.
EXPERIMENTLIST_TAG - Static variable in class psidev.psi.mi.jami.xml.utils.PsiXmlUtils: Constant EXPERIMENTLIST_TAG="experimentList"
experiments - Variable in class psidev.psi.mi.jami.xml.model.extension.AbstractInferredInteraction.AbstractJAXBExperimentRefWrapper
ExperimentStream - Interface in psidev.psi.mi.jami.datasource: An experiment data source allows to stream the experiments of a given dataSource
ExperimentUtils - Class in psidev.psi.mi.jami.utils: Factory for experiment
ExperimentUtils() - Constructor for class psidev.psi.mi.jami.utils.ExperimentUtils
ExperimentXrefContainer - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xref container for Experiment
ExperimentXrefContainer - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xref container for Experiment
ExperimentXrefContainer - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xref container for Experiment
ExperimentXrefContainer() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.ExperimentXrefContainer
ExperimentXrefContainer() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.ExperimentXrefContainer
ExperimentXrefContainer() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.ExperimentXrefContainer
EXPROLE_A - psidev.psi.mi.jami.tab.MitabColumnName
EXPROLE_B - psidev.psi.mi.jami.tab.MitabColumnName
ExtendedMitabInteractionEvidenceFeeder - Class in psidev.psi.mi.jami.tab.io.writer.feeder.extended: Mitab 2.6 extended feeder for interaction evidence.
ExtendedMitabInteractionEvidenceFeeder(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.feeder.extended.ExtendedMitabInteractionEvidenceFeeder: Constructor for ExtendedMitabInteractionEvidenceFeeder.
ExtendedMitabModelledInteractionFeeder - Class in psidev.psi.mi.jami.tab.io.writer.feeder.extended: Mitab 2.5 extended feeder for Modelled interaction.
ExtendedMitabModelledInteractionFeeder(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.feeder.extended.ExtendedMitabModelledInteractionFeeder: Constructor for ExtendedMitabModelledInteractionFeeder.
ExtendedPsiXmlCausalRelationship - Interface in psidev.psi.mi.jami.xml.model.extension.xml300: Extended causal relationship for XML 3.0.
ExtendedPsiXmlEntity<F extends Feature> - Interface in psidev.psi.mi.jami.xml.model.extension: Extended participant for PSI-XML 2,5 standards
ExtendedPsiXmlExperiment - Interface in psidev.psi.mi.jami.xml.model.extension: Extended experiment for PSI-XML 2,5 standards
ExtendedPsiXmlFeature - Interface in psidev.psi.mi.jami.xml.model.extension: Interface for psi25 xml features
ExtendedPsiXmlFeatureEvidence - Interface in psidev.psi.mi.jami.xml.model.extension: PSI-XML extension of a feature evidence
ExtendedPsiXmlInteraction<T extends Participant> - Interface in psidev.psi.mi.jami.xml.model.extension: Extended interaction for PSI-XML 2,5 standards
ExtendedPsiXmlInteractionEvidence - Interface in psidev.psi.mi.jami.xml.model.extension: Extended interaction evidence for PSI-XML 2,5 standards
ExtendedPsiXmlInteractionEvidence - Interface in psidev.psi.mi.jami.xml.model.extension.xml300: Extended interaction evidence for PSI-XML 2,5 standards
ExtendedPsiXmlInteractor - Interface in psidev.psi.mi.jami.xml.model.extension: Interface for interactors in PSI-XML standards
ExtendedPsiXmlModelledInteraction - Interface in psidev.psi.mi.jami.xml.model.extension: Extended modelled interaction for PSI-XML 2,5 standards
ExtendedPsiXmlModelledInteraction - Interface in psidev.psi.mi.jami.xml.model.extension.xml300: Extended interaction for PSI-XML 2,5 standards
ExtendedPsiXmlParticipant - Interface in psidev.psi.mi.jami.xml.model.extension: Extended participant for PSI-XML 2,5 standards
ExtendedPsiXmlParticipantEvidence - Interface in psidev.psi.mi.jami.xml.model.extension: Extended participant evidence for PSI-XML 2,5 standards
ExtendedPsiXmlSource - Interface in psidev.psi.mi.jami.xml.model.extension: Extended source for PSI-XML standards
ExtendedPsiXmlXref - Interface in psidev.psi.mi.jami.xml.model.extension: PSI-XML extension of an xref
extractBinaryInteractionId(Xref, BinaryInteraction, Integer) - Static method in class psidev.psi.mi.jami.json.MIJsonUtils: extractBinaryInteractionId.
extractCooperativeEffectFrom(PsiXmlVersion, Collection<Annotation>, Collection<Experiment>, PsiXmlParserListener) - Static method in class psidev.psi.mi.jami.xml.utils.PsiXmlUtils: extractCooperativeEffectFrom.
extractCvTermFromKey(String) - Method in class psidev.psi.mi.jami.factory.DefaultInteractorFactory: Reads the cv term from the properties file
extractDefaultExperimentFrom(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionEvidenceWriter: extractDefaultExperimentFrom.
extractDefaultExperimentFrom(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlModelledInteractionWriter: extractDefaultExperimentFrom.
extractDefaultExperimentFrom(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlModelledInteractionWriter: extractDefaultExperimentFrom.
extractDefaultExperimentFrom(Complex) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlComplexWriter: extractDefaultExperimentFrom.
extractDefaultExperimentFrom(Complex) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlComplexWriter: extractDefaultExperimentFrom.
extractDefaultExperimentFrom(Complex) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlComplexWriter: extractDefaultExperimentFrom.
extractDefaultExperimentFrom(Complex) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlComplexWriter: extractDefaultExperimentFrom.
extractDefaultExperimentFrom(T) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: extractDefaultExperimentFrom.
extractDefaultExperimentFrom(T) - Method in interface psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlInteractionWriter: extractDefaultExperimentFrom.
extractDefaultExperimentsFrom(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.AbstractXmlInteractionEvidenceWriter: extractDefaultExperimentsFrom.
extractDefaultExperimentsFrom(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlInteractionWriter: extractDefaultExperimentsFrom.
extractDefaultExperimentsFrom(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlModelledInteractionWriter: extractDefaultExperimentsFrom.
extractDefaultExperimentsFrom(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlModelledInteractionWriter: extractDefaultExperimentsFrom.
extractDefaultExperimentsFrom(Complex) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlComplexWriter: extractDefaultExperimentsFrom.
extractDefaultExperimentsFrom(Complex) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlComplexWriter: extractDefaultExperimentsFrom.
extractDefaultExperimentsFrom(T) - Method in interface psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlExtendedInteractionWriter: extractDefaultExperimentsFrom.
extractDefaultParticipantIdentificationMethod(Experiment) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: extractDefaultParticipantIdentificationMethod.
extractDefaultParticipantIdentificationMethod(Experiment) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.XmlExperimentWriter: extractDefaultParticipantIdentificationMethod.
extractDefaultParticipantIdentificationMethod(Experiment) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlExperimentWriter: extractDefaultParticipantIdentificationMethod.
extractDefaultParticipantIdentificationMethod(Experiment) - Method in interface psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlExperimentWriter: extractDefaultParticipantIdentificationMethod.
extractIdForAvailability(String) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryIdentityObjectCache: This method will extract the id for this object if it is already registered, assign an id and register the object if not already registered
extractIdForAvailability(String) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryLightIdentityObjectCache: This method will extract the id for this object if it is already registered, assign an id and register the object if not already registered
extractIdForAvailability(String) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlObjectCache: This method will extract the id for this object if it is already registered, assign an id and register the object if not already registered
extractIdForComplex(Complex) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryIdentityObjectCache: This method will extract the id for this object if it is already registered, assign an id and register the object if not already registered
extractIdForComplex(Complex) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryLightIdentityObjectCache: This method will extract the id for this object if it is already registered, assign an id and register the object if not already registered
extractIdForComplex(Complex) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlObjectCache: This method will extract the id for this object if it is already registered, assign an id and register the object if not already registered
extractIdForExperiment(Experiment) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryIdentityObjectCache: This method will extract the id for this object if it is already registered, assign an id and register the object if not already registered
extractIdForExperiment(Experiment) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryLightIdentityObjectCache: This method will extract the id for this object if it is already registered, assign an id and register the object if not already registered
extractIdForExperiment(Experiment) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlObjectCache: This method will extract the id for this object if it is already registered, assign an id and register the object if not already registered
extractIdForFeature(Feature) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryIdentityObjectCache: This method will extract the id for this object if it is already registered, assign an id and register the object if not already registered
extractIdForFeature(Feature) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryLightIdentityObjectCache: This method will extract the id for this object if it is already registered, assign an id and register the object if not already registered
extractIdForFeature(Feature) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlObjectCache: This method will extract the id for this object if it is already registered, assign an id and register the object if not already registered
extractIdForInteraction(Interaction) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryIdentityObjectCache: This method will extract the id for this object if it is already registered, assign an id and register the object if not already registered
extractIdForInteraction(Interaction) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryLightIdentityObjectCache: This method will extract the id for this object if it is already registered, assign an id and register the object if not already registered
extractIdForInteraction(Interaction) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlObjectCache: This method will extract the id for this object if it is already registered, assign an id and register the object if not already registered
extractIdForInteractor(Interactor) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryIdentityObjectCache: This method will extract the id for this object if it is already registered, assign an id and register the object if not already registered
extractIdForInteractor(Interactor) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryLightIdentityObjectCache: This method will extract the id for this object if it is already registered, assign an id and register the object if not already registered
extractIdForInteractor(Interactor) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlObjectCache: This method will extract the id for this object if it is already registered, assign an id and register the object if not already registered
extractIdForParticipant(Entity) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryIdentityObjectCache: This method will extract the id for this object if it is already registered, assign an id and register the object if not already registered
extractIdForParticipant(Entity) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryLightIdentityObjectCache: This method will extract the id for this object if it is already registered, assign an id and register the object if not already registered
extractIdForParticipant(Entity) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlObjectCache: This method will extract the id for this object if it is already registered, assign an id and register the object if not already registered
extractIdForVariableParameterValue(VariableParameterValue) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryIdentityObjectCache: This method will extract the id for this object if it is already registered, assign an id and register the object if not already registered
extractIdForVariableParameterValue(VariableParameterValue) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryLightIdentityObjectCache: This method will extract the id for this object if it is already registered, assign an id and register the object if not already registered
extractIdForVariableParameterValue(VariableParameterValue) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlObjectCache: This method will extract the id for this object if it is already registered, assign an id and register the object if not already registered
extractIntactAcFromIdentifier(Collection<Xref>) - Static method in class psidev.psi.mi.jami.utils.CommonUtils
extractInteractionId(Xref, Interaction) - Static method in class psidev.psi.mi.jami.json.MIJsonUtils: extractInteractionId.
extractInteractorId(Xref, Interactor) - Static method in class psidev.psi.mi.jami.json.MIJsonUtils: extractInteractorId.
extractMIFileTypeAndCopiedInputStream(Reader) - Method in class psidev.psi.mi.jami.commons.MIFileAnalyzer: Recognize the MIFileDataSource from the reader.
extractMIFileTypeFrom(InputStream) - Method in class psidev.psi.mi.jami.commons.MIFileAnalyzer: Recognize the MIFileDataSource from the inputStream.
extractMostCommonParticipantDetectionMethodFrom(Experiment) - Static method in class psidev.psi.mi.jami.utils.ExperimentUtils: Compare all participant identification methods in all participant evidences from all the interactions evidences.
extractParticipantWithCausalRelationships(Interaction) - Static method in class psidev.psi.mi.jami.utils.InteractionUtils: This method can return all participants having causal relationships in an interaction
extractRangeSequence(Range, String) - Static method in class psidev.psi.mi.jami.utils.RangeUtils: Extract a sub-sequence from the sequence given a Range object
extractSourceFromInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: extractSourceFromInteraction.
extractSourceFromInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlBinaryEvidenceWriter: extractSourceFromInteraction.
extractSourceFromInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlComplexWriter: extractSourceFromInteraction.
extractSourceFromInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlEvidenceWriter: extractSourceFromInteraction.
extractSourceFromInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlModelledBinaryWriter: extractSourceFromInteraction.
extractSourceFromInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlModelledWriter: extractSourceFromInteraction.
extractSourceFromInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedBinaryEvidenceWriter: extractSourceFromInteraction.
extractSourceFromInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedEvidenceWriter: extractSourceFromInteraction.
extractSourceFromInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedModelledBinaryWriter: extractSourceFromInteraction.
extractSourceFromInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedModelledWriter: extractSourceFromInteraction.
extractSourceFromInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlBinaryEvidenceWriter: extractSourceFromInteraction.
extractSourceFromInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlComplexWriter: extractSourceFromInteraction.
extractSourceFromInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlEvidenceWriter: extractSourceFromInteraction.
extractSourceFromInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlModelledBinaryWriter: extractSourceFromInteraction.
extractSourceFromInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlModelledWriter: extractSourceFromInteraction.
extractSourceFromInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlBinaryEvidenceWriter: extractSourceFromInteraction.
extractSourceFromInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlComplexWriter: extractSourceFromInteraction.
extractSourceFromInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlEvidenceWriter: extractSourceFromInteraction.
extractSourceFromInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlModelledBinaryWriter: extractSourceFromInteraction.
extractSourceFromInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlModelledWriter: extractSourceFromInteraction.
extractSourceFromInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedBinaryEvidenceWriter: extractSourceFromInteraction.
extractSourceFromInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedEvidenceWriter: extractSourceFromInteraction.
extractSourceFromInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedModelledBinaryWriter: extractSourceFromInteraction.
extractSourceFromInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedModelledWriter: extractSourceFromInteraction.
extractSourceFromInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlBinaryEvidenceWriter: extractSourceFromInteraction.
extractSourceFromInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlComplexWriter: extractSourceFromInteraction.
extractSourceFromInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlEvidenceWriter: extractSourceFromInteraction.
extractSourceFromInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlModelledBinaryWriter: extractSourceFromInteraction.
extractSourceFromInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlModelledWriter: extractSourceFromInteraction.

F

FAILED - psidev.psi.mi.jami.enricher.listener.EnrichmentStatus
FailingBioactiveEntityFetcher - Class in psidev.psi.mi.jami.bridges.fetcher.mock: Created with IntelliJ IDEA.
FailingBioactiveEntityFetcher(int) - Constructor for class psidev.psi.mi.jami.bridges.fetcher.mock.FailingBioactiveEntityFetcher: Constructor for FailingBioactiveEntityFetcher.
FailingCvTermFetcher - Class in psidev.psi.mi.jami.bridges.fetcher.mock: A mock fetcher for testing exceptions.
FailingCvTermFetcher(int) - Constructor for class psidev.psi.mi.jami.bridges.fetcher.mock.FailingCvTermFetcher: Constructor for FailingCvTermFetcher.
FailingGeneFetcher - Class in psidev.psi.mi.jami.bridges.fetcher.mock: A mock fetcher for testing exceptions.
FailingGeneFetcher(int) - Constructor for class psidev.psi.mi.jami.bridges.fetcher.mock.FailingGeneFetcher: Constructor for FailingProteinFetcher.
FailingOrganismFetcher - Class in psidev.psi.mi.jami.bridges.fetcher.mock: A mock fetcher for testing exceptions.
FailingOrganismFetcher(int) - Constructor for class psidev.psi.mi.jami.bridges.fetcher.mock.FailingOrganismFetcher: Constructor for FailingOrganismFetcher.
FailingProteinFetcher - Class in psidev.psi.mi.jami.bridges.fetcher.mock: A mock fetcher for testing exceptions.
FailingProteinFetcher(int) - Constructor for class psidev.psi.mi.jami.bridges.fetcher.mock.FailingProteinFetcher: Constructor for FailingProteinFetcher.
FailingPublicationFetcher - Class in psidev.psi.mi.jami.bridges.fetcher.mock: A mock fetcher for testing exceptions.
FailingPublicationFetcher(int) - Constructor for class psidev.psi.mi.jami.bridges.fetcher.mock.FailingPublicationFetcher: Constructor for FailingPublicationFetcher.
FAILURE_SUFFIX - Static variable in class psidev.psi.mi.jami.enricher.listener.impl.writer.EnricherStatisticsWriter: Constant FAILURE_SUFFIX="_failed.csv"
FastaSequence - Class in psidev.psi.mi.jami.bridges.unisave: Fasta sequence
FastaSequence(String, String) - Constructor for class psidev.psi.mi.jami.bridges.unisave.FastaSequence: Constructor for FastaSequence.
fatalError(SAXParseException) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream
fatalError(SAXParseException) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource
feature(int) - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
Feature - Interface in psidev.psi.mi.jami.model: Property of a participant that may interfere with the binding of a molecule.
FEATURE_CHAIN_FIELD - Static variable in class psidev.psi.mi.jami.bridges.uniprot.util.UniprotUtils: Constant FEATURE_CHAIN_FIELD="feature.chain:"
feature_modification - psidev.psi.mi.jami.model.AllostericEffectorType
FEATURE_PEPTIDE_FIELD - Static variable in class psidev.psi.mi.jami.bridges.uniprot.util.UniprotUtils: Constant FEATURE_PEPTIDE_FIELD="feature.peptide:"
FEATURE_PRO_PEPTIDE_FIELD - Static variable in class psidev.psi.mi.jami.bridges.uniprot.util.UniprotUtils: Constant FEATURE_PRO_PEPTIDE_FIELD="feature.propep:"
FeatureBaseComparator - Class in psidev.psi.mi.jami.utils.comparator.feature: feature comparator.
FeatureBaseComparator(Comparator<CvTerm>, Comparator<Xref>, RangeComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.feature.FeatureBaseComparator: Creates a new UnambiguousFeatureBaseComparator.
FeatureBaseComparator(Comparator<CvTerm>, CollectionComparator<Xref>, CollectionComparator<Range>) - Constructor for class psidev.psi.mi.jami.utils.comparator.feature.FeatureBaseComparator: Constructor for FeatureBaseComparator.
FeatureChangeListener<F extends Feature> - Interface in psidev.psi.mi.jami.listener: Listener to feature change events
FeatureChangeLogger<T extends Feature> - Class in psidev.psi.mi.jami.listener.impl: This listener will just interactor change events
FeatureChangeLogger() - Constructor for class psidev.psi.mi.jami.listener.impl.FeatureChangeLogger
FeatureCloner - Class in psidev.psi.mi.jami.utils.clone: This class will clone/copy properties of a feature
FeatureCloner() - Constructor for class psidev.psi.mi.jami.utils.clone.FeatureCloner
FeatureCollectionComparator<T extends Feature> - Class in psidev.psi.mi.jami.utils.comparator.feature: Comparator for collection of Features
FeatureCollectionComparator(Comparator<T>) - Constructor for class psidev.psi.mi.jami.utils.comparator.feature.FeatureCollectionComparator: Creates a new feature CollectionComparator.
FeatureComparator - Class in psidev.psi.mi.jami.utils.comparator.feature: Generic feature comparator.
FeatureComparator(Comparator<Feature>, Comparator<CvTerm>) - Constructor for class psidev.psi.mi.jami.utils.comparator.feature.FeatureComparator: Constructor for FeatureComparator.
FeatureEnricher<F extends Feature> - Interface in psidev.psi.mi.jami.enricher: The featureEnricher can enrich either a single feature or a collection.
FeatureEnricherListener<T extends Feature> - Interface in psidev.psi.mi.jami.enricher.listener: An extension of the FeatureChangeListener with specific methods related to the process of enriching.
FeatureEnricherListenerManager<T extends Feature> - Class in psidev.psi.mi.jami.enricher.listener.impl: A manager for listeners which holds a list of listeners.
FeatureEnricherListenerManager() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.FeatureEnricherListenerManager: A constructor to create a listener manager with no listeners.
FeatureEnricherListenerManager(FeatureEnricherListener<T>...) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.FeatureEnricherListenerManager: A constructor to initiate a listener manager with as many listeners as required.
FeatureEnricherLogger<T extends Feature> - Class in psidev.psi.mi.jami.enricher.listener.impl.log: A logging listener.
FeatureEnricherLogger() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.log.FeatureEnricherLogger
FeatureEnricherStatisticsWriter<T extends Feature> - Class in psidev.psi.mi.jami.enricher.listener.impl.writer: A statistics logger which records changes made by the enricher.
FeatureEnricherStatisticsWriter() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.FeatureEnricherStatisticsWriter: Uses the known name of the JamiObject type as the seed to generate names for the success an failure log files.
FeatureEnricherStatisticsWriter(File, File) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.FeatureEnricherStatisticsWriter: Uses the exact files provided to log successful and failed enrichments.
FeatureEnricherStatisticsWriter(String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.FeatureEnricherStatisticsWriter: Creates the files from the provided seed file name with 'success' and 'failure' appended.
FeatureEnricherStatisticsWriter(String, String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.FeatureEnricherStatisticsWriter: Uses the provided names to create the files for successful and failed enrichment logging.
FeatureEvidence - Interface in psidev.psi.mi.jami.model: The form of a molecule that was actually used to experimentally demonstrate the interaction, that may differ from the sequence described by the identifying accession number.
FeatureEvidenceChangeListener - Interface in psidev.psi.mi.jami.listener: Listener which listen to changes in feature evidence
FeatureEvidenceChangeLogger - Class in psidev.psi.mi.jami.listener.impl: This listener will just interactor change events
FeatureEvidenceChangeLogger() - Constructor for class psidev.psi.mi.jami.listener.impl.FeatureEvidenceChangeLogger
FeatureEvidenceComparator - Class in psidev.psi.mi.jami.utils.comparator.feature: Basic FeatureEvidence comparator.
FeatureEvidenceComparator(Comparator<Feature>, Comparator<CvTerm>) - Constructor for class psidev.psi.mi.jami.utils.comparator.feature.FeatureEvidenceComparator: Creates a new FeatureEvidenceComparator.
FeatureEvidenceComparator(Comparator<Feature>, CollectionComparator<CvTerm>) - Constructor for class psidev.psi.mi.jami.utils.comparator.feature.FeatureEvidenceComparator: Constructor for FeatureEvidenceComparator.
FeatureEvidenceEnricherListener - Interface in psidev.psi.mi.jami.enricher.listener: An extension of the FeatureChangeListener with specific methods related to the process of enriching.
FeatureEvidenceEnricherListenerManager - Class in psidev.psi.mi.jami.enricher.listener.impl: A manager for listeners which holds a list of listeners.
FeatureEvidenceEnricherListenerManager() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.FeatureEvidenceEnricherListenerManager: A constructor to create a listener manager with no listeners.
FeatureEvidenceEnricherListenerManager(FeatureEvidenceEnricherListener...) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.FeatureEvidenceEnricherListenerManager: A constructor to initiate a listener manager with as many listeners as required.
FeatureEvidenceEnricherLogger - Class in psidev.psi.mi.jami.enricher.listener.impl.log: A logging listener.
FeatureEvidenceEnricherLogger() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.log.FeatureEvidenceEnricherLogger
FeatureEvidenceEnricherStatisticsWriter - Class in psidev.psi.mi.jami.enricher.listener.impl.writer: A statistics logger which records changes made by the enricher.
FeatureEvidenceEnricherStatisticsWriter() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.FeatureEvidenceEnricherStatisticsWriter: Uses the known name of the JamiObject type as the seed to generate names for the success an failure log files.
FeatureEvidenceEnricherStatisticsWriter(File, File) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.FeatureEvidenceEnricherStatisticsWriter: Uses the exact files provided to log successful and failed enrichments.
FeatureEvidenceEnricherStatisticsWriter(String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.FeatureEvidenceEnricherStatisticsWriter: Creates the files from the provided seed file name with 'success' and 'failure' appended.
FeatureEvidenceEnricherStatisticsWriter(String, String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.FeatureEvidenceEnricherStatisticsWriter: Uses the provided names to create the files for successful and failed enrichment logging.
FeatureGraphBuilder - Class in psidev.psi.mi.jami.analysis.graph: This class will create a graph from one to several interactions.
FeatureGraphBuilder() - Constructor for class psidev.psi.mi.jami.analysis.graph.FeatureGraphBuilder: Constructor for FeatureGraphBuilder.
FeatureGraphBuilder(MIComparator<F>) - Constructor for class psidev.psi.mi.jami.analysis.graph.FeatureGraphBuilder: Constructor for FeatureGraphBuilder.
FeatureIdentifierList() - Constructor for class psidev.psi.mi.jami.model.impl.AbstractFeature.FeatureIdentifierList
FeatureModificationEffector - Interface in psidev.psi.mi.jami.model: The modification (feature) that elicits an allosteric response in an allosteric molecule.
FeatureModificationEffectorComparator - Class in psidev.psi.mi.jami.utils.comparator.cooperativity: Basic comparator for FeatureModificationEffector.
FeatureModificationEffectorComparator(ModelledFeatureComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.cooperativity.FeatureModificationEffectorComparator: Constructor for FeatureModificationEffectorComparator.
features(int) - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
FEATURES_A - psidev.psi.mi.jami.tab.MitabColumnName
FEATURES_B - psidev.psi.mi.jami.tab.MitabColumnName
FeatureUtils - Class in psidev.psi.mi.jami.utils: Utility class for features
FeatureUtils() - Constructor for class psidev.psi.mi.jami.utils.FeatureUtils
FeatureXrefContainer - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xref container for Feature
FeatureXrefContainer - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xref container for Feature
FeatureXrefContainer - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xref container for Feature
FeatureXrefContainer() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.FeatureXrefContainer
FeatureXrefContainer() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.FeatureXrefContainer
FeatureXrefContainer() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.FeatureXrefContainer
fetchByIdentifier(String) - Method in class psidev.psi.mi.jami.bridges.chebi.CachedChebiFetcher: Takes a string identifier and returns the interactors which match.
fetchByIdentifier(String) - Method in class psidev.psi.mi.jami.bridges.chebi.ChebiFetcher: Searches Chebi for an entry matching the identifier.
fetchByIdentifier(String) - Method in interface psidev.psi.mi.jami.bridges.fetcher.InteractorFetcher: Takes a string identifier and returns the interactors which match.
fetchByIdentifier(String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.FailingBioactiveEntityFetcher: Takes a string identifier and returns the interactors which match.
fetchByIdentifier(String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.FailingGeneFetcher: Takes a string identifier and returns the interactors which match.
fetchByIdentifier(String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.FailingProteinFetcher: Takes a string identifier and returns the interactors which match.
fetchByIdentifier(String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockBioactiveEntityFetcher: Takes a string identifier and returns the interactors which match.
fetchByIdentifier(String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockGeneFetcher: Takes a string identifier and returns the interactors which match.
fetchByIdentifier(String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockProteinFetcher: Takes a string identifier and returns the interactors which match.
fetchByIdentifier(String) - Method in class psidev.psi.mi.jami.bridges.uniprot.CachedUniprotProteinFetcher: Takes a string identifier and returns the interactors which match.
fetchByIdentifier(String) - Method in class psidev.psi.mi.jami.bridges.uniprot.UniprotGeneFetcher: Takes a string identifier and returns the interactors which match.
fetchByIdentifier(String) - Method in class psidev.psi.mi.jami.bridges.uniprot.UniprotProteinFetcher: Takes a string identifier and returns the interactors which match.
fetchByIdentifier(String, int) - Method in interface psidev.psi.mi.jami.bridges.fetcher.GeneFetcher: fetchByIdentifier.
fetchByIdentifier(String, int) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.FailingGeneFetcher
fetchByIdentifier(String, int) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockGeneFetcher: fetchByIdentifier.
fetchByIdentifier(String, int) - Method in class psidev.psi.mi.jami.bridges.uniprot.UniprotGeneFetcher: fetchByIdentifier.
fetchByIdentifier(String, String) - Method in class psidev.psi.mi.jami.bridges.europubmedcentral.CachedEuroPubmedCentralFetcher: Uses the identifier to search for a publication and return a completed record.
fetchByIdentifier(String, String) - Method in class psidev.psi.mi.jami.bridges.europubmedcentral.EuroPubmedCentralFetcher: Uses the identifier to search for a publication and return a completed record.
fetchByIdentifier(String, String) - Method in interface psidev.psi.mi.jami.bridges.fetcher.CvTermFetcher: Uses the identifier and the name of the database to search for a complete form of the cvTerm.
fetchByIdentifier(String, String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.CvTermCompositeFetcherTemplate: Uses the identifier and the name of the database to search for a complete form of the cvTerm.
fetchByIdentifier(String, String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.FailingCvTermFetcher: Uses the identifier and the name of the database to search for a complete form of the cvTerm.
fetchByIdentifier(String, String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.FailingPublicationFetcher: Uses the identifier to search for a publication and return a completed record.
fetchByIdentifier(String, String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockCvTermFetcher: Uses the identifier and the name of the database to search for a complete form of the cvTerm.
fetchByIdentifier(String, String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockOntologyTermFetcher: Uses the identifier and the name of the database to search for a complete form of the cvTerm.
fetchByIdentifier(String, String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockPublicationFetcher: Uses the identifier to search for a publication and return a completed record.
fetchByIdentifier(String, String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockSourceFetcher: Uses the identifier and the name of the database to search for a complete form of the cvTerm.
fetchByIdentifier(String, String) - Method in interface psidev.psi.mi.jami.bridges.fetcher.PublicationFetcher: Uses the identifier to search for a publication and return a completed record.
fetchByIdentifier(String, String) - Method in class psidev.psi.mi.jami.bridges.imex.DefaultImexCentralClient: Uses the identifier to search for a publication and return a completed record.
fetchByIdentifier(String, String) - Method in class psidev.psi.mi.jami.bridges.imex.mock.MockImexCentralClient: Uses the identifier to search for a publication and return a completed record.
fetchByIdentifier(String, String) - Method in class psidev.psi.mi.jami.bridges.obo.OboFetcherTemplate: Uses the identifier and the name of the database to search for a complete form of the cvTerm.
fetchByIdentifier(String, String) - Method in class psidev.psi.mi.jami.bridges.ols.AbstractOlsFetcher: Uses the identifier and the name of the database to search for a complete form of the cvTerm.
fetchByIdentifier(String, String) - Method in class psidev.psi.mi.jami.bridges.ols.CachedOlsFetcher: Uses the identifier and the name of the database to search for a complete form of the cvTerm.
fetchByIdentifier(String, CvTerm) - Method in interface psidev.psi.mi.jami.bridges.fetcher.CvTermFetcher: Uses the identifier and a cvTerm denoting the database to search to fetch a complete from of the term.
fetchByIdentifier(String, CvTerm) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.CvTermCompositeFetcherTemplate: fetchByIdentifier.
fetchByIdentifier(String, CvTerm) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.FailingCvTermFetcher: fetchByIdentifier.
fetchByIdentifier(String, CvTerm) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockCvTermFetcher: fetchByIdentifier.
fetchByIdentifier(String, CvTerm) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockOntologyTermFetcher: fetchByIdentifier.
fetchByIdentifier(String, CvTerm) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockSourceFetcher: fetchByIdentifier.
fetchByIdentifier(String, CvTerm) - Method in class psidev.psi.mi.jami.bridges.obo.OboFetcherTemplate: fetchByIdentifier.
fetchByIdentifier(String, CvTerm) - Method in class psidev.psi.mi.jami.bridges.ols.AbstractOlsFetcher: fetchByIdentifier.
fetchByIdentifier(String, CvTerm) - Method in class psidev.psi.mi.jami.bridges.ols.CachedOlsFetcher: Uses the identifier and a cvTerm denoting the database to search to fetch a complete from of the term.
fetchByIdentifiers(Collection<String>) - Method in class psidev.psi.mi.jami.bridges.chebi.CachedChebiFetcher: Takes a collection of string identifiers and returns the interactors which match.
fetchByIdentifiers(Collection<String>) - Method in class psidev.psi.mi.jami.bridges.chebi.ChebiFetcher: Takes a collection of string identifiers and returns the interactors which match.
fetchByIdentifiers(Collection<String>) - Method in interface psidev.psi.mi.jami.bridges.fetcher.InteractorFetcher: Takes a collection of string identifiers and returns the interactors which match.
fetchByIdentifiers(Collection<String>) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.FailingBioactiveEntityFetcher: Takes a collection of string identifiers and returns the interactors which match.
fetchByIdentifiers(Collection<String>) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.FailingGeneFetcher: Takes a collection of string identifiers and returns the interactors which match.
fetchByIdentifiers(Collection<String>) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.FailingProteinFetcher: Takes a collection of string identifiers and returns the interactors which match.
fetchByIdentifiers(Collection<String>) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockBioactiveEntityFetcher: Takes a collection of string identifiers and returns the interactors which match.
fetchByIdentifiers(Collection<String>) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockGeneFetcher: Takes a collection of string identifiers and returns the interactors which match.
fetchByIdentifiers(Collection<String>) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockProteinFetcher: Takes a collection of string identifiers and returns the interactors which match.
fetchByIdentifiers(Collection<String>) - Method in class psidev.psi.mi.jami.bridges.uniprot.CachedUniprotProteinFetcher: Takes a collection of string identifiers and returns the interactors which match.
fetchByIdentifiers(Collection<String>) - Method in class psidev.psi.mi.jami.bridges.uniprot.UniprotGeneFetcher: Takes a collection of string identifiers and returns the interactors which match.
fetchByIdentifiers(Collection<String>) - Method in class psidev.psi.mi.jami.bridges.uniprot.UniprotProteinFetcher: Takes a collection of string identifiers and returns the interactors which match.
fetchByIdentifiers(Collection<String>, int) - Method in interface psidev.psi.mi.jami.bridges.fetcher.GeneFetcher: fetchByIdentifiers.
fetchByIdentifiers(Collection<String>, int) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.FailingGeneFetcher
fetchByIdentifiers(Collection<String>, int) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockGeneFetcher
fetchByIdentifiers(Collection<String>, int) - Method in class psidev.psi.mi.jami.bridges.uniprot.UniprotGeneFetcher: fetchByIdentifiers.
fetchByIdentifiers(Collection<String>, String) - Method in interface psidev.psi.mi.jami.bridges.fetcher.CvTermFetcher: Uses the identifier and the name of the database to search for a complete form of the cvTerm.
fetchByIdentifiers(Collection<String>, String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.CvTermCompositeFetcherTemplate: fetchByIdentifiers.
fetchByIdentifiers(Collection<String>, String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.FailingCvTermFetcher: fetchByIdentifiers.
fetchByIdentifiers(Collection<String>, String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockCvTermFetcher: fetchByIdentifiers.
fetchByIdentifiers(Collection<String>, String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockOntologyTermFetcher: fetchByIdentifiers.
fetchByIdentifiers(Collection<String>, String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockSourceFetcher: fetchByIdentifiers.
fetchByIdentifiers(Collection<String>, String) - Method in class psidev.psi.mi.jami.bridges.obo.OboFetcherTemplate: fetchByIdentifiers.
fetchByIdentifiers(Collection<String>, String) - Method in class psidev.psi.mi.jami.bridges.ols.AbstractOlsFetcher: fetchByIdentifiers.
fetchByIdentifiers(Collection<String>, String) - Method in class psidev.psi.mi.jami.bridges.ols.CachedOlsFetcher: fetchByIdentifiers.
fetchByIdentifiers(Collection<String>, CvTerm) - Method in interface psidev.psi.mi.jami.bridges.fetcher.CvTermFetcher: Uses the identifier and a cvTerm denoting the database to search to fetch a complete from of the term.
fetchByIdentifiers(Collection<String>, CvTerm) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.CvTermCompositeFetcherTemplate: Uses the identifier and a cvTerm denoting the database to search to fetch a complete from of the term.
fetchByIdentifiers(Collection<String>, CvTerm) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.FailingCvTermFetcher: Uses the identifier and a cvTerm denoting the database to search to fetch a complete from of the term.
fetchByIdentifiers(Collection<String>, CvTerm) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockCvTermFetcher: Uses the identifier and a cvTerm denoting the database to search to fetch a complete from of the term.
fetchByIdentifiers(Collection<String>, CvTerm) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockOntologyTermFetcher: Uses the identifier and a cvTerm denoting the database to search to fetch a complete from of the term.
fetchByIdentifiers(Collection<String>, CvTerm) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockSourceFetcher: Uses the identifier and a cvTerm denoting the database to search to fetch a complete from of the term.
fetchByIdentifiers(Collection<String>, CvTerm) - Method in class psidev.psi.mi.jami.bridges.obo.OboFetcherTemplate: Uses the identifier and a cvTerm denoting the database to search to fetch a complete from of the term.
fetchByIdentifiers(Collection<String>, CvTerm) - Method in class psidev.psi.mi.jami.bridges.ols.AbstractOlsFetcher: Uses the identifier and a cvTerm denoting the database to search to fetch a complete from of the term.
fetchByIdentifiers(Collection<String>, CvTerm) - Method in class psidev.psi.mi.jami.bridges.ols.CachedOlsFetcher: Uses the identifier and a cvTerm denoting the database to search to fetch a complete from of the term.
fetchByIdentifiers(Map<String, Collection<String>>) - Method in class psidev.psi.mi.jami.bridges.europubmedcentral.CachedEuroPubmedCentralFetcher: Uses the identifiers to search for publications and return completed records.
fetchByIdentifiers(Map<String, Collection<String>>) - Method in class psidev.psi.mi.jami.bridges.europubmedcentral.EuroPubmedCentralFetcher: Uses the identifiers to search for publications and return completed records.
fetchByIdentifiers(Map<String, Collection<String>>) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.FailingPublicationFetcher: Uses the identifiers to search for publications and return completed records.
fetchByIdentifiers(Map<String, Collection<String>>) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockPublicationFetcher: Uses the identifiers to search for publications and return completed records.
fetchByIdentifiers(Map<String, Collection<String>>) - Method in interface psidev.psi.mi.jami.bridges.fetcher.PublicationFetcher: Uses the identifiers to search for publications and return completed records.
fetchByIdentifiers(Map<String, Collection<String>>) - Method in class psidev.psi.mi.jami.bridges.imex.DefaultImexCentralClient: Uses the identifiers to search for publications and return completed records.
fetchByIdentifiers(Map<String, Collection<String>>) - Method in class psidev.psi.mi.jami.bridges.imex.mock.MockImexCentralClient: Uses the identifiers to search for publications and return completed records.
fetchByName(String) - Method in interface psidev.psi.mi.jami.bridges.fetcher.CvTermFetcher: Uses the name of the term and the name of the database to search for a complete form of the term.
fetchByName(String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.CvTermCompositeFetcherTemplate: Uses the name of the term and the name of the database to search for a complete form of the term.
fetchByName(String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.FailingCvTermFetcher: Uses the name of the term and the name of the database to search for a complete form of the term.
fetchByName(String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockCvTermFetcher: Uses the name of the term and the name of the database to search for a complete form of the term.
fetchByName(String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockOntologyTermFetcher: Uses the name of the term and the name of the database to search for a complete form of the term.
fetchByName(String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockSourceFetcher: Uses the name of the term and the name of the database to search for a complete form of the term.
fetchByName(String) - Method in class psidev.psi.mi.jami.bridges.obo.OboFetcherTemplate: Uses the name of the term and the name of the database to search for a complete form of the term.
fetchByName(String) - Method in class psidev.psi.mi.jami.bridges.ols.AbstractOlsFetcher: Uses the name of the term and the name of the database to search for a complete form of the term.
fetchByName(String) - Method in class psidev.psi.mi.jami.bridges.ols.CachedOlsFetcher: Uses the name of the term and the name of the database to search for a complete form of the term.
fetchByName(String, String) - Method in interface psidev.psi.mi.jami.bridges.fetcher.CvTermFetcher: Uses the name of the term and the name of the database to search for a complete form of the term.
fetchByName(String, String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.CvTermCompositeFetcherTemplate: Uses the name of the term and the name of the database to search for a complete form of the term.
fetchByName(String, String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.FailingCvTermFetcher: Uses the name of the term and the name of the database to search for a complete form of the term.
fetchByName(String, String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockCvTermFetcher: Uses the name of the term and the name of the database to search for a complete form of the term.
fetchByName(String, String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockOntologyTermFetcher: Uses the name of the term and the name of the database to search for a complete form of the term.
fetchByName(String, String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockSourceFetcher: Uses the name of the term and the name of the database to search for a complete form of the term.
fetchByName(String, String) - Method in class psidev.psi.mi.jami.bridges.obo.OboFetcherTemplate: Uses the name of the term and the name of the database to search for a complete form of the term.
fetchByName(String, String) - Method in class psidev.psi.mi.jami.bridges.ols.AbstractOlsFetcher: Uses the name of the term and the name of the database to search for a complete form of the term.
fetchByName(String, String) - Method in class psidev.psi.mi.jami.bridges.ols.CachedOlsFetcher: Uses the name of the term and the name of the database to search for a complete form of the term.
fetchByNames(Collection<String>) - Method in interface psidev.psi.mi.jami.bridges.fetcher.CvTermFetcher: Finds the CvTerms which match the exact names provided.
fetchByNames(Collection<String>) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.CvTermCompositeFetcherTemplate: Finds the CvTerms which match the exact names provided.
fetchByNames(Collection<String>) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.FailingCvTermFetcher: Finds the CvTerms which match the exact names provided.
fetchByNames(Collection<String>) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockCvTermFetcher: Finds the CvTerms which match the exact names provided.
fetchByNames(Collection<String>) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockOntologyTermFetcher: Finds the CvTerms which match the exact names provided.
fetchByNames(Collection<String>) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockSourceFetcher: Finds the CvTerms which match the exact names provided.
fetchByNames(Collection<String>) - Method in class psidev.psi.mi.jami.bridges.obo.OboFetcherTemplate: Finds the CvTerms which match the exact names provided.
fetchByNames(Collection<String>) - Method in class psidev.psi.mi.jami.bridges.ols.AbstractOlsFetcher: Finds the CvTerms which match the exact names provided.
fetchByNames(Collection<String>) - Method in class psidev.psi.mi.jami.bridges.ols.CachedOlsFetcher: Finds the CvTerms which match the exact names provided.
fetchByNames(Collection<String>, String) - Method in interface psidev.psi.mi.jami.bridges.fetcher.CvTermFetcher: Uses the name of the term and the name of the database to search for a complete form of the term.
fetchByNames(Collection<String>, String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.CvTermCompositeFetcherTemplate: Uses the name of the term and the name of the database to search for a complete form of the term.
fetchByNames(Collection<String>, String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.FailingCvTermFetcher: Uses the name of the term and the name of the database to search for a complete form of the term.
fetchByNames(Collection<String>, String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockCvTermFetcher: Uses the name of the term and the name of the database to search for a complete form of the term.
fetchByNames(Collection<String>, String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockOntologyTermFetcher: Uses the name of the term and the name of the database to search for a complete form of the term.
fetchByNames(Collection<String>, String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockSourceFetcher: Uses the name of the term and the name of the database to search for a complete form of the term.
fetchByNames(Collection<String>, String) - Method in class psidev.psi.mi.jami.bridges.obo.OboFetcherTemplate: Uses the name of the term and the name of the database to search for a complete form of the term.
fetchByNames(Collection<String>, String) - Method in class psidev.psi.mi.jami.bridges.ols.AbstractOlsFetcher: Uses the name of the term and the name of the database to search for a complete form of the term.
fetchByNames(Collection<String>, String) - Method in class psidev.psi.mi.jami.bridges.ols.CachedOlsFetcher: Uses the name of the term and the name of the database to search for a complete form of the term.
fetchByTaxID(int) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.FailingOrganismFetcher: Finds the complete organism record matching the provided TaxID number.
fetchByTaxID(int) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockOrganismFetcher: Finds the complete organism record matching the provided TaxID number.
fetchByTaxID(int) - Method in interface psidev.psi.mi.jami.bridges.fetcher.OrganismFetcher: Finds the complete organism record matching the provided TaxID number.
fetchByTaxID(int) - Method in class psidev.psi.mi.jami.bridges.uniprot.taxonomy.CachedUniprotTaxonomyFetcher: Finds the complete organism record matching the provided TaxID number.
fetchByTaxID(int) - Method in class psidev.psi.mi.jami.bridges.uniprot.taxonomy.UniprotTaxonomyFetcher: Finds the complete organism record matching the provided TaxID number.
fetchByTaxIDs(Collection<Integer>) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.FailingOrganismFetcher: Finds the complete organism records matching the provided TaxID numbers.
fetchByTaxIDs(Collection<Integer>) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockOrganismFetcher: Finds the complete organism records matching the provided TaxID numbers.
fetchByTaxIDs(Collection<Integer>) - Method in interface psidev.psi.mi.jami.bridges.fetcher.OrganismFetcher: Finds the complete organism records matching the provided TaxID numbers.
fetchByTaxIDs(Collection<Integer>) - Method in class psidev.psi.mi.jami.bridges.uniprot.taxonomy.CachedUniprotTaxonomyFetcher: Finds the complete organism records matching the provided TaxID numbers.
fetchByTaxIDs(Collection<Integer>) - Method in class psidev.psi.mi.jami.bridges.uniprot.taxonomy.UniprotTaxonomyFetcher: Finds the complete organism records matching the provided TaxID numbers.
FetchDataFromChebi - Class in psidev.psi.mi.jami.examples.bridges: In this code example, we fetch some data from Chebi
FetchDataFromChebi() - Constructor for class psidev.psi.mi.jami.examples.bridges.FetchDataFromChebi
fetchPublicationImexAccession(String, String, boolean) - Method in class psidev.psi.mi.jami.bridges.imex.DefaultImexCentralClient: Create a new IMEx id if requested for a given pubmed id
fetchPublicationImexAccession(String, String, boolean) - Method in interface psidev.psi.mi.jami.bridges.imex.ImexCentralClient: Create a new IMEx id if requested for a given pubmed id
fetchPublicationImexAccession(String, String, boolean) - Method in class psidev.psi.mi.jami.bridges.imex.mock.MockImexCentralClient: Create a new IMEx id if requested for a given pubmed id
fetchPublicationsByOwner(String, int, int) - Method in class psidev.psi.mi.jami.bridges.imex.DefaultImexCentralClient: Collect a list of publications associated with a specific owner.
fetchPublicationsByOwner(String, int, int) - Method in interface psidev.psi.mi.jami.bridges.imex.ImexCentralClient: Collect a list of publications associated with a specific owner.
fetchPublicationsByOwner(String, int, int) - Method in class psidev.psi.mi.jami.bridges.imex.mock.MockImexCentralClient: Collect a list of publications associated with a specific owner.
fetchPublicationsByStatus(String, int, int) - Method in class psidev.psi.mi.jami.bridges.imex.DefaultImexCentralClient: Collect a list of publications having a specific status.
fetchPublicationsByStatus(String, int, int) - Method in interface psidev.psi.mi.jami.bridges.imex.ImexCentralClient: Collect a list of publications having a specific status.
fetchPublicationsByStatus(String, int, int) - Method in class psidev.psi.mi.jami.bridges.imex.mock.MockImexCentralClient: Collect a list of publications having a specific status.
fetchRootTerms(String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockOntologyTermFetcher: fetchRootTerms.
fetchRootTerms(String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.OntologyTermCompositeFetcher: fetchRootTerms.
fetchRootTerms(String) - Method in interface psidev.psi.mi.jami.bridges.fetcher.OntologyTermFetcher: fetchRootTerms.
fetchRootTerms(String) - Method in class psidev.psi.mi.jami.bridges.obo.OboOntologyTermFetcher: fetchRootTerms.
fetchRootTerms(String) - Method in class psidev.psi.mi.jami.bridges.ols.CachedOlsOntologyTermFetcher: fetchRootTerms.
fetchRootTerms(String) - Method in class psidev.psi.mi.jami.bridges.ols.OlsOntologyTermFetcher: fetchRootTerms.
fetchRootTerms(CvTerm) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockOntologyTermFetcher: fetchRootTerms.
fetchRootTerms(CvTerm) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.OntologyTermCompositeFetcher: fetchRootTerms.
fetchRootTerms(CvTerm) - Method in interface psidev.psi.mi.jami.bridges.fetcher.OntologyTermFetcher: fetchRootTerms.
fetchRootTerms(CvTerm) - Method in class psidev.psi.mi.jami.bridges.obo.OboOntologyTermFetcher: fetchRootTerms.
fetchRootTerms(CvTerm) - Method in class psidev.psi.mi.jami.bridges.ols.CachedOlsOntologyTermFetcher: fetchRootTerms.
fetchRootTerms(CvTerm) - Method in class psidev.psi.mi.jami.bridges.ols.OlsOntologyTermFetcher: fetchRootTerms.
fetchSequenceFromVersion(String, int) - Method in interface psidev.psi.mi.jami.bridges.fetcher.SequenceVersionFetcher: fetchSequenceFromVersion.
fetchSequenceFromVersion(String, int) - Method in class psidev.psi.mi.jami.bridges.unisave.CachedUnisaveClient: fetchSequenceFromVersion.
fetchSequenceFromVersion(String, int) - Method in class psidev.psi.mi.jami.bridges.unisave.UnisaveClient: fetchSequenceFromVersion.
fetchVersionFromSequence(String, String) - Method in interface psidev.psi.mi.jami.bridges.fetcher.SequenceVersionFetcher: fetchVersionFromSequence.
fetchVersionFromSequence(String, String) - Method in class psidev.psi.mi.jami.bridges.unisave.CachedUnisaveClient: fetchVersionFromSequence.
fetchVersionFromSequence(String, String) - Method in class psidev.psi.mi.jami.bridges.unisave.UnisaveClient: fetchVersionFromSequence.
FIELD_SEPARATOR - psidev.psi.mi.jami.tab.io.parser.TokenKind
FIELD_SEPARATOR - Static variable in interface psidev.psi.mi.jami.tab.io.parser.MitabLineParserConstants: RegularExpression Id.
FIELD_SEPARATOR - Static variable in class psidev.psi.mi.jami.tab.utils.MitabUtils: Constant FIELD_SEPARATOR="|"
FIGURE_LEGEND - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant FIGURE_LEGEND="figure legend"
FIGURE_LEGEND_MI - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant FIGURE_LEGEND_MI="MI:0599"
file - psidev.psi.mi.jami.datasource.SourceCategory
FILE_NAME - Static variable in class psidev.psi.mi.jami.enricher.listener.impl.writer.BioactiveEntityEnricherStatisticsWriter: Constant FILE_NAME="bioactive_entity"
FILE_NAME - Static variable in class psidev.psi.mi.jami.enricher.listener.impl.writer.GeneEnricherStatisticsWriter: Constant FILE_NAME="Gene"
FILE_NAME - Static variable in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractorEnricherStatisticsWriter: Constant FILE_NAME="interactor"
file_URI - psidev.psi.mi.jami.datasource.SourceCategory
FILE_URI_PREFIX - Static variable in interface psidev.psi.mi.jami.datasource.MIFileDataSource: Constant FILE_URI_PREFIX="file://"
FileSourceContext - Interface in psidev.psi.mi.jami.datasource: Some context in a file giving information about object location, etc..
FileSourceLocator - Class in psidev.psi.mi.jami.datasource: A source locator of an object in a file
FileSourceLocator(int, int) - Constructor for class psidev.psi.mi.jami.datasource.FileSourceLocator: Constructor for FileSourceLocator.
FillBuff() - Method in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream
FillBuff() - Method in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: FillBuff.
fillInteractorWithAliases(Collection<MitabAlias>, Interactor) - Method in class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionLineParser: fillInteractorWithAliases.
fillInteractorWithAlternativeIdentifiers(Collection<MitabXref>, Interactor) - Method in class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionLineParser: fillInteractorWithAlternativeIdentifiers.
filterDiffsByOperation(List<Diff>, Operation) - Static method in class psidev.psi.mi.jami.enricher.util.DiffUtils: Filters, creating a copy, a list of Diffs by operation.
finalize() - Method in class psidev.psi.mi.jami.batch.BatchDataSourceInitializer: finalize.
find(C) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullCvTermUpdater: find.
find(C) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalCvTermEnricher: find.
find(BioactiveEntity) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalBioactiveEntityEnricher: find.
find(Experiment) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentEnricher: find.
find(Gene) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalGeneEnricher: find.
find(OntologyTerm) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOntologyTermEnricher: find.
find(Organism) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOrganismEnricher: find.
find(Protein) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalProteinEnricher: find.
find(Protein) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalProteinUpdater: find.
find(Publication) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullCuratedPublicationUpdater: find.
find(Publication) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullPublicationUpdater: find.
find(Publication) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalCuratedPublicationEnricher: find.
find(Publication) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalPublicationEnricher: find.
find(Publication) - Method in class psidev.psi.mi.jami.imex.ImexPublicationAssigner: find.
find(Publication) - Method in class psidev.psi.mi.jami.imex.ImexPublicationRegister: find.
find(Publication) - Method in class psidev.psi.mi.jami.imex.ImexPublicationUpdater: find.
find(Source) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalSourceEnricher: find.
find(T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorEnricher: find.
find(T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorUpdater: find.
find(T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractMIEnricher: find.
find(T) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractorBaseEnricher: find.
findAtLeastOneMatchingAlias(Collection<? extends Alias>, Collection<? extends Alias>) - Static method in class psidev.psi.mi.jami.utils.comparator.ComparatorUtils: findAtLeastOneMatchingAlias
findAtLeastOneMatchingIdentifier(Collection<? extends Xref>, Collection<? extends Xref>) - Static method in class psidev.psi.mi.jami.utils.comparator.ComparatorUtils: True if there is at least one identifier in identifiers1 that is identical to at least one identifier in identfiers2 ( equality based on DefaultExternalIdentifierComparator.areEquals)
findBestShortNameAndFullNameFromAliases(Collection<MitabAlias>) - Static method in class psidev.psi.mi.jami.tab.utils.MitabUtils: Find the best alias to use as a shortname and fullName.
findBestShortNameFromAlternativeIdentifiers(Collection<MitabXref>) - Static method in class psidev.psi.mi.jami.tab.utils.MitabUtils: Find the best id to use as a shortname.
findDbSourceForAlias(Alias) - Static method in class psidev.psi.mi.jami.tab.utils.MitabUtils: The source of the Alias is uniprotkb if the alias type is gene name, gene name synonym, isoform synonym, locus name or orf name.
findDbSourceForAlias(ModelledParticipant, Alias) - Static method in class psidev.psi.mi.jami.tab.utils.MitabUtils: The source of the Alias is uniprotkb if the alias type is gene name, gene name synonym, isoform synonym, locus name or orf name.
findDbSourceForAlias(ParticipantEvidence, Alias) - Static method in class psidev.psi.mi.jami.tab.utils.MitabUtils: The source of the Alias is uniprotkb if the alias type is gene name, gene name synonym, isoform synonym, locus name or orf name.
findInteractionCategory(InteractionEvidence) - Method in class psidev.psi.mi.jami.binary.expansion.InteractionEvidenceBipartiteExpansion: findInteractionCategory
findInteractionCategory(InteractionEvidence) - Method in class psidev.psi.mi.jami.binary.expansion.InteractionEvidenceMatrixExpansion: findInteractionCategory
findInteractionCategory(InteractionEvidence) - Method in class psidev.psi.mi.jami.binary.expansion.InteractionEvidenceSpokeExpansion: findInteractionCategory
findInteractionCategory(ModelledInteraction) - Method in class psidev.psi.mi.jami.binary.expansion.ModelledInteractionBipartiteExpansion: findInteractionCategory
findInteractionCategory(ModelledInteraction) - Method in class psidev.psi.mi.jami.binary.expansion.ModelledInteractionMatrixExpansion: findInteractionCategory
findInteractionCategory(ModelledInteraction) - Method in class psidev.psi.mi.jami.binary.expansion.ModelledInteractionSpokeExpansion: findInteractionCategory
findInteractionCategory(T) - Method in class psidev.psi.mi.jami.binary.expansion.AbstractComplexExpansionMethod: findInteractionCategory
findInteractionCategoryOf(Interaction, boolean) - Static method in class psidev.psi.mi.jami.utils.InteractionUtils: The method will find the interactionCategory (binary, self, etc.)
findInteractionEvidenceCategoryOf(InteractionEvidence) - Static method in class psidev.psi.mi.jami.utils.InteractionUtils: The method will find the interactionCategory (binary, self, etc.)
findInteractorShortNameAndFullNameFrom(Collection<MitabXref>, Collection<MitabXref>, Collection<MitabAlias>, int, int, int) - Method in class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionLineParser: findInteractorShortNameAndFullNameFrom.
findJobIdsByName(String, int, int) - Method in class psidev.psi.mi.jami.batch.MIBatchJobManager: Find all job ids having a given name.
findLastJobExecutionFor(String, String) - Method in class psidev.psi.mi.jami.batch.MIBatchJobManager: Find the last JobExecution having this name and this id
findModelledInteractionCategoryOf(ModelledInteraction) - Static method in class psidev.psi.mi.jami.utils.InteractionUtils: The method will find the interactionCategory (binary, self, etc.)
findOntologyAccess(String, String, String, String, String, String) - Method in class psidev.psi.mi.jami.bridges.ontologymanager.MIOntologyManager
findSourceCategoryFromString(String) - Static method in class psidev.psi.mi.jami.utils.MIFileDatasourceUtils: findSourceCategoryFromString
firstAuthors() - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
floatValue() - Method in class psidev.psi.mi.jami.model.ParameterValue
FLUORESCENCE_ACCEPTOR_ROLE - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant FLUORESCENCE_ACCEPTOR_ROLE="fluorescence acceptor"
FLUORESCENCE_ACCEPTOR_ROLE_MI - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant FLUORESCENCE_ACCEPTOR_ROLE_MI="MI:0584"
FLUORESCENCE_DONOR_ROLE - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant FLUORESCENCE_DONOR_ROLE="fluorescence donor"
FLUORESCENCE_DONOR_ROLE_MI - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant FLUORESCENCE_DONOR_ROLE_MI="MI:0583"
flush() - Method in interface psidev.psi.mi.jami.datasource.InteractionWriter: Flushes the writer (commit or write on disk)
flush() - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: flush
flush() - Method in class psidev.psi.mi.jami.json.binary.AbstractMIJsonBinaryWriter: flush.
flush() - Method in class psidev.psi.mi.jami.json.binary.AbstractMIJsonWriter: flush.
flush() - Method in class psidev.psi.mi.jami.json.binary.MIJsonBinaryWriter: flush.
flush() - Method in class psidev.psi.mi.jami.json.nary.AbstractMIJsonWriter: flush.
flush() - Method in class psidev.psi.mi.jami.json.nary.MIJsonEvidenceWriter: flush.
flush() - Method in class psidev.psi.mi.jami.json.nary.MIJsonWriter: flush.
flush() - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitab25BinaryWriter: flush.
flush() - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitabWriter: flush.
flush() - Method in class psidev.psi.mi.jami.tab.io.writer.DefaultMitabWriter: flush.
flush() - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Flushes the writer (commit or write on disk)
flush() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlMixWriter: Flushes the writer (commit or write on disk)
flush() - Method in class psidev.psi.mi.jami.xml.io.writer.DefaultXmlWriter: flush.
flush() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlMixWriter: Flushes the writer (commit or write on disk)
flushBase64() - Method in class psidev.psi.mi.jami.utils.checksum.Base64.OutputStream: Method added by PHIL.
FLYBASE - psidev.psi.mi.jami.bridges.uniprot.rest.SearchDatabase
FULL_COVERAGE - Static variable in class psidev.psi.mi.jami.imex.ImexPublicationRegister: Constant FULL_COVERAGE="full coverage"
FULL_COVERAGE - Static variable in class psidev.psi.mi.jami.imex.ImexPublicationUpdater: Constant FULL_COVERAGE="full coverage"
FULL_COVERAGE - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant FULL_COVERAGE="full coverage"
FULL_COVERAGE_MI - Static variable in class psidev.psi.mi.jami.imex.ImexPublicationRegister: Constant FULL_COVERAGE_MI="MI:0957"
FULL_COVERAGE_MI - Static variable in class psidev.psi.mi.jami.imex.ImexPublicationUpdater: Constant FULL_COVERAGE_MI="MI:0957"
FULL_COVERAGE_MI - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant FULL_COVERAGE_MI="MI:0957"
FULL_COVERAGE_TEXT - Static variable in class psidev.psi.mi.jami.imex.ImexPublicationRegister: Constant FULL_COVERAGE_TEXT="Only protein-protein interactions"
FULL_COVERAGE_TEXT - Static variable in class psidev.psi.mi.jami.imex.ImexPublicationUpdater: Constant FULL_COVERAGE_TEXT="Only protein-protein interactions"
FullBioactiveEntityEnricher - Class in psidev.psi.mi.jami.enricher.impl.full: A full enricher for bioactive entities.
FullBioactiveEntityEnricher(BioactiveEntityFetcher) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullBioactiveEntityEnricher: A constructor which initiates with a fetcher.
FullBioactiveEntityUpdater - Class in psidev.psi.mi.jami.enricher.impl.full: A full updater for bioactive entities.
FullBioactiveEntityUpdater(BioactiveEntityFetcher) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullBioactiveEntityUpdater: A constructor which initiates with a fetcher.
FullComplexEnricher - Class in psidev.psi.mi.jami.enricher.impl.full: Full enricher for complexes
FullComplexEnricher() - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullComplexEnricher: Constructor for FullComplexEnricher.
FullComplexEnricher(FullInteractorBaseEnricher<Complex>) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullComplexEnricher: Constructor for FullComplexEnricher.
FullComplexUpdater - Class in psidev.psi.mi.jami.enricher.impl.full: Full enricher for complexes
FullComplexUpdater() - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullComplexUpdater: Constructor for FullComplexUpdater.
FullComplexUpdater(FullInteractorBaseUpdater<Complex>) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullComplexUpdater: Constructor for FullComplexUpdater.
FullCuratedPublicationEnricher - Class in psidev.psi.mi.jami.enricher.impl.full: Provides full enrichment of curated Publication.
FullCuratedPublicationEnricher(PublicationFetcher) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullCuratedPublicationEnricher: Constructor for FullCuratedPublicationEnricher.
FullCuratedPublicationEnricher(MinimalPublicationEnricher) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullCuratedPublicationEnricher: Constructor for FullCuratedPublicationEnricher.
FullCuratedPublicationUpdater - Class in psidev.psi.mi.jami.enricher.impl.full: Provides full update of Publication.
FullCuratedPublicationUpdater(PublicationFetcher) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullCuratedPublicationUpdater: Constructor for FullCuratedPublicationUpdater.
FullCuratedPublicationUpdater(MinimalCuratedPublicationUpdater) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullCuratedPublicationUpdater: Constructor for FullCuratedPublicationUpdater.
FullCvTermEnricher<C extends CvTerm> - Class in psidev.psi.mi.jami.enricher.impl.full: Provides full enrichment of cv term.
FullCvTermEnricher(CvTermFetcher<C>) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullCvTermEnricher: A constructor matching super.
FullCvTermUpdater<C extends CvTerm> - Class in psidev.psi.mi.jami.enricher.impl.full: Provides full update of cv term.
FullCvTermUpdater(CvTermFetcher<C>) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullCvTermUpdater: A constructor matching super.
FullCvTermUpdater(MinimalCvTermUpdater<C>) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullCvTermUpdater: Constructor for FullCvTermUpdater.
FullEntityEnricher - Class in psidev.psi.mi.jami.enricher.impl.full: The participant enricher is an enricher which can enrich either single participant or a collection.
FullEntityEnricher() - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullEntityEnricher
FullEntityUpdater - Class in psidev.psi.mi.jami.enricher.impl.full: The participant enricher is an enricher which can enrich either single participant or a collection.
FullEntityUpdater() - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullEntityUpdater
FullExperimentalParticipantPoolEnricher - Class in psidev.psi.mi.jami.enricher.impl.full: The participant pool enricher is an enricher which can enrich either single participant or a collection.
FullExperimentalParticipantPoolEnricher() - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullExperimentalParticipantPoolEnricher
FullExperimentalParticipantPoolUpdater - Class in psidev.psi.mi.jami.enricher.impl.full: The participant pool enricher is an enricher which can enrich either single participant or a collection.
FullExperimentalParticipantPoolUpdater() - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullExperimentalParticipantPoolUpdater
FullExperimentEnricher - Class in psidev.psi.mi.jami.enricher.impl.full: Provides full enrichment of experiment.
FullExperimentEnricher() - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullExperimentEnricher: Constructor for FullExperimentEnricher.
FullExperimentUpdater - Class in psidev.psi.mi.jami.enricher.impl.full: Provides full update of experiment.
FullExperimentUpdater() - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullExperimentUpdater: Constructor for FullExperimentUpdater.
FullExperimentUpdater(MinimalExperimentUpdater) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullExperimentUpdater: Constructor for FullExperimentUpdater.
FullFeatureEnricher<F extends Feature> - Class in psidev.psi.mi.jami.enricher.impl.full: Provides full enrichment of feature.
FullFeatureEnricher() - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEnricher: Constructor for FullFeatureEnricher.
FullFeatureEvidenceEnricher - Class in psidev.psi.mi.jami.enricher.impl.full: Provides full enrichment of feature evidence.
FullFeatureEvidenceEnricher() - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceEnricher: Constructor for FullFeatureEvidenceEnricher.
FullFeatureEvidenceEnricher(MinimalFeatureEvidenceEnricher) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceEnricher: Constructor for FullFeatureEvidenceEnricher.
FullFeatureEvidenceUpdater - Class in psidev.psi.mi.jami.enricher.impl.full: Provides full update of feature evidence.
FullFeatureEvidenceUpdater() - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceUpdater: Constructor for FullFeatureEvidenceUpdater.
FullFeatureEvidenceUpdater(MinimalFeatureEvidenceUpdater) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceUpdater: Constructor for FullFeatureEvidenceUpdater.
FullFeatureUpdater<F extends Feature> - Class in psidev.psi.mi.jami.enricher.impl.full: Provides full updater of feature.
FullFeatureUpdater() - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullFeatureUpdater: Constructor for FullFeatureUpdater.
FullFeatureUpdater(MinimalFeatureUpdater<F>) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullFeatureUpdater: Constructor for FullFeatureUpdater.
FullGeneEnricher - Class in psidev.psi.mi.jami.enricher.impl.full: A full enricher for genes.
FullGeneEnricher(GeneFetcher) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullGeneEnricher: Constructor for FullGeneEnricher.
FullGeneUpdater - Class in psidev.psi.mi.jami.enricher.impl.full: A full updater for genes.
FullGeneUpdater(GeneFetcher) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullGeneUpdater: Constructor for FullGeneUpdater.
FullInteractionEnricher - Class in psidev.psi.mi.jami.enricher.impl.full: Full enricher for interactions
FullInteractionEnricher() - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullInteractionEnricher: Constructor for FullInteractionEnricher.
FullInteractionEvidenceEnricher - Class in psidev.psi.mi.jami.enricher.impl.full: Full enricher for Interaction evidence
FullInteractionEvidenceEnricher() - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullInteractionEvidenceEnricher: Constructor for FullInteractionEvidenceEnricher.
FullInteractionEvidenceEnricher(FullInteractionEnricher<InteractionEvidence>) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullInteractionEvidenceEnricher: Constructor for FullInteractionEvidenceEnricher.
FullInteractionEvidenceUpdater - Class in psidev.psi.mi.jami.enricher.impl.full: Full updater for interaction evidence
FullInteractionEvidenceUpdater() - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullInteractionEvidenceUpdater: Constructor for FullInteractionEvidenceUpdater.
FullInteractionEvidenceUpdater(FullInteractionUpdater<InteractionEvidence>) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullInteractionEvidenceUpdater: Constructor for FullInteractionEvidenceUpdater.
FullInteractionUpdater - Class in psidev.psi.mi.jami.enricher.impl.full: Full updater of interaction
FullInteractionUpdater() - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullInteractionUpdater: Constructor for FullInteractionUpdater.
FullInteractionUpdater(MinimalInteractionUpdater) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullInteractionUpdater: Constructor for FullInteractionUpdater.
FullInteractorBaseEnricher<T extends Interactor> - Class in psidev.psi.mi.jami.enricher.impl.full: Full interactor enricher
FullInteractorBaseEnricher() - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullInteractorBaseEnricher: Constructor for FullInteractorBaseEnricher.
FullInteractorBaseEnricher(InteractorFetcher<T>) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullInteractorBaseEnricher: Constructor for FullInteractorBaseEnricher.
FullInteractorBaseUpdater<T extends Interactor> - Class in psidev.psi.mi.jami.enricher.impl.full: Full updater of interactor
FullInteractorBaseUpdater() - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullInteractorBaseUpdater: Constructor for FullInteractorBaseUpdater.
FullInteractorBaseUpdater(InteractorFetcher<T>) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullInteractorBaseUpdater: Constructor for FullInteractorBaseUpdater.
FullInteractorBaseUpdater(FullInteractorBaseEnricher<T>) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullInteractorBaseUpdater: Constructor for FullInteractorBaseUpdater.
FullInteractorPoolEnricher - Class in psidev.psi.mi.jami.enricher.impl.full: A full enricher for interactor pools.
FullInteractorPoolEnricher() - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullInteractorPoolEnricher: Constructor for FullInteractorPoolEnricher.
FullInteractorPoolEnricher(InteractorFetcher<InteractorPool>) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullInteractorPoolEnricher: Constructor for FullInteractorPoolEnricher.
FullInteractorPoolUpdater - Class in psidev.psi.mi.jami.enricher.impl.full: A full updater for interactor pools.
FullInteractorPoolUpdater() - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullInteractorPoolUpdater: Constructor for FullInteractorPoolUpdater.
FullInteractorPoolUpdater(InteractorFetcher<InteractorPool>) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullInteractorPoolUpdater: Constructor for FullInteractorPoolUpdater.
FullModelledInteractionEnricher - Class in psidev.psi.mi.jami.enricher.impl.full: Full enricher for ModelledInteraction
FullModelledInteractionEnricher() - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullModelledInteractionEnricher: Constructor for FullModelledInteractionEnricher.
FullModelledInteractionEnricher(FullInteractionEnricher) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullModelledInteractionEnricher: Constructor for FullModelledInteractionEnricher.
FullModelledInteractionUpdater - Class in psidev.psi.mi.jami.enricher.impl.full: Full updater of a modelled interaction
FullModelledInteractionUpdater() - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullModelledInteractionUpdater: Constructor for FullModelledInteractionUpdater.
FullModelledInteractionUpdater(FullInteractionUpdater) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullModelledInteractionUpdater: Constructor for FullModelledInteractionUpdater.
FullOntologyTermEnricher - Class in psidev.psi.mi.jami.enricher.impl.full: Provides full enrichment of ontologYTerm.
FullOntologyTermEnricher(OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullOntologyTermEnricher: Constructor for FullOntologyTermEnricher.
FullOntologyTermEnricher(FullCvTermEnricher<OntologyTerm>) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullOntologyTermEnricher: Constructor for FullOntologyTermEnricher.
FullOntologyTermUpdater - Class in psidev.psi.mi.jami.enricher.impl.full: Provides full update of ontologYTerm.
FullOntologyTermUpdater(OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullOntologyTermUpdater: Constructor for FullOntologyTermUpdater.
FullOntologyTermUpdater(FullCvTermUpdater<OntologyTerm>) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullOntologyTermUpdater: Constructor for FullOntologyTermUpdater.
FullOrganismEnricher - Class in psidev.psi.mi.jami.enricher.impl.full: Provides full enrichment of a Organism.
FullOrganismEnricher(OrganismFetcher) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullOrganismEnricher: Constructor for FullOrganismEnricher.
FullOrganismUpdater - Class in psidev.psi.mi.jami.enricher.impl.full: Provides full update of a Organism.
FullOrganismUpdater(OrganismFetcher) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullOrganismUpdater: Constructor for FullOrganismUpdater.
FullParticipantEnricher - Class in psidev.psi.mi.jami.enricher.impl.full: The participant enricher is an enricher which can enrich either single participant or a collection.
FullParticipantEnricher() - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEnricher
FullParticipantEvidenceEnricher - Class in psidev.psi.mi.jami.enricher.impl.full: Created with IntelliJ IDEA.
FullParticipantEvidenceEnricher() - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEvidenceEnricher
FullParticipantEvidenceUpdater - Class in psidev.psi.mi.jami.enricher.impl.full: Created with IntelliJ IDEA.
FullParticipantEvidenceUpdater() - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEvidenceUpdater: Constructor for FullParticipantEvidenceUpdater.
FullParticipantEvidenceUpdater(MinimalParticipantEvidenceUpdater) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEvidenceUpdater: Constructor for FullParticipantEvidenceUpdater.
FullParticipantPoolEnricher - Class in psidev.psi.mi.jami.enricher.impl.full: The participant pool enricher is an enricher which can enrich either single participant or a collection.
FullParticipantPoolEnricher() - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullParticipantPoolEnricher
FullParticipantPoolUpdater - Class in psidev.psi.mi.jami.enricher.impl.full: The participant pool enricher is an enricher which can enrich either single participant or a collection.
FullParticipantPoolUpdater() - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullParticipantPoolUpdater
FullParticipantUpdater - Class in psidev.psi.mi.jami.enricher.impl.full: The participant enricher is an enricher which can enrich either single participant or a collection.
FullParticipantUpdater() - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullParticipantUpdater
FullPolymerEnricher<T extends Polymer> - Class in psidev.psi.mi.jami.enricher.impl.full: Full polymer enricher.
FullPolymerEnricher() - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullPolymerEnricher: Constructor for FullPolymerEnricher.
FullPolymerEnricher(InteractorFetcher<T>) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullPolymerEnricher: Constructor for FullPolymerEnricher.
FullPolymerUpdater<T extends Polymer> - Class in psidev.psi.mi.jami.enricher.impl.full: Full updater of polymer - update all properties of interactor as described in FullInteractorBaseUpdater - update sequence of polymer.
FullPolymerUpdater() - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullPolymerUpdater: Constructor for FullPolymerUpdater.
FullPolymerUpdater(InteractorFetcher<T>) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullPolymerUpdater: Constructor for FullPolymerUpdater.
FullProteinEnricher - Class in psidev.psi.mi.jami.enricher.impl.full: Full enricher of proteins.
FullProteinEnricher(ProteinFetcher) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullProteinEnricher: The only constructor which forces the setting of the fetcher If the cvTerm fetcher is null, an illegal state exception will be thrown at the next enrichment.
FullProteinUpdater - Class in psidev.psi.mi.jami.enricher.impl.full: Full updater of proteins.
FullProteinUpdater(ProteinFetcher) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullProteinUpdater: Constructor for FullProteinUpdater.
FullPsiXmlParser<T extends Interaction> - Interface in psidev.psi.mi.jami.xml.io.parser: Full parser that loads the all entry set.
FullPublicationEnricher - Class in psidev.psi.mi.jami.enricher.impl.full: Provides full enrichment of Publication.
FullPublicationEnricher(PublicationFetcher) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullPublicationEnricher: Constructor for FullPublicationEnricher.
FullPublicationUpdater - Class in psidev.psi.mi.jami.enricher.impl.full: Provides full update of Publication.
FullPublicationUpdater(PublicationFetcher) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullPublicationUpdater: Constructor for FullPublicationUpdater.
FullPublicationUpdater(MinimalPublicationUpdater) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullPublicationUpdater: Constructor for FullPublicationUpdater.
FullSourceEnricher - Class in psidev.psi.mi.jami.enricher.impl.full: Provides full enrichment of a Source.
FullSourceEnricher(SourceFetcher) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullSourceEnricher: Constructor for FullSourceEnricher.
FullSourceUpdater - Class in psidev.psi.mi.jami.enricher.impl.full: Provides full update of a Source.
FullSourceUpdater(SourceFetcher) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullSourceUpdater: Constructor for FullSourceUpdater.
FullSourceUpdater(FullCvTermUpdater<Source>) - Constructor for class psidev.psi.mi.jami.enricher.impl.full.FullSourceUpdater: Constructor for FullSourceUpdater.
FullXmlBinaryEvidenceParser - Class in psidev.psi.mi.jami.xml.io.parser: Full Parser generating basic binary interaction objects and ignoring all experimental details.
FullXmlBinaryEvidenceParser(File) - Constructor for class psidev.psi.mi.jami.xml.io.parser.FullXmlBinaryEvidenceParser: Constructor for FullXmlBinaryEvidenceParser.
FullXmlBinaryEvidenceParser(InputStream) - Constructor for class psidev.psi.mi.jami.xml.io.parser.FullXmlBinaryEvidenceParser: Constructor for FullXmlBinaryEvidenceParser.
FullXmlBinaryEvidenceParser(Reader) - Constructor for class psidev.psi.mi.jami.xml.io.parser.FullXmlBinaryEvidenceParser: Constructor for FullXmlBinaryEvidenceParser.
FullXmlBinaryEvidenceParser(URL) - Constructor for class psidev.psi.mi.jami.xml.io.parser.FullXmlBinaryEvidenceParser: Constructor for FullXmlBinaryEvidenceParser.
FullXmlBinaryParser - Class in psidev.psi.mi.jami.xml.io.parser: Full Parser generating binary interactions that could be a mix or abstract interactions and interaction evidences.
FullXmlBinaryParser(File) - Constructor for class psidev.psi.mi.jami.xml.io.parser.FullXmlBinaryParser: Constructor for FullXmlBinaryParser.
FullXmlBinaryParser(InputStream) - Constructor for class psidev.psi.mi.jami.xml.io.parser.FullXmlBinaryParser: Constructor for FullXmlBinaryParser.
FullXmlBinaryParser(Reader) - Constructor for class psidev.psi.mi.jami.xml.io.parser.FullXmlBinaryParser: Constructor for FullXmlBinaryParser.
FullXmlBinaryParser(URL) - Constructor for class psidev.psi.mi.jami.xml.io.parser.FullXmlBinaryParser: Constructor for FullXmlBinaryParser.
FullXmlComplexParser - Class in psidev.psi.mi.jami.xml.io.parser: Full Parser generating biological complex objects and ignore experimental details.
FullXmlComplexParser(File) - Constructor for class psidev.psi.mi.jami.xml.io.parser.FullXmlComplexParser: Constructor for FullXmlComplexParser.
FullXmlComplexParser(InputStream) - Constructor for class psidev.psi.mi.jami.xml.io.parser.FullXmlComplexParser: Constructor for FullXmlComplexParser.
FullXmlComplexParser(Reader) - Constructor for class psidev.psi.mi.jami.xml.io.parser.FullXmlComplexParser: Constructor for FullXmlComplexParser.
FullXmlComplexParser(URL) - Constructor for class psidev.psi.mi.jami.xml.io.parser.FullXmlComplexParser: Constructor for FullXmlComplexParser.
FullXmlEvidenceParser - Class in psidev.psi.mi.jami.xml.io.parser: Full Parser generating interaction evidence objects and loading all experimental details.
FullXmlEvidenceParser(File) - Constructor for class psidev.psi.mi.jami.xml.io.parser.FullXmlEvidenceParser: Constructor for FullXmlEvidenceParser.
FullXmlEvidenceParser(InputStream) - Constructor for class psidev.psi.mi.jami.xml.io.parser.FullXmlEvidenceParser: Constructor for FullXmlEvidenceParser.
FullXmlEvidenceParser(Reader) - Constructor for class psidev.psi.mi.jami.xml.io.parser.FullXmlEvidenceParser: Constructor for FullXmlEvidenceParser.
FullXmlEvidenceParser(URL) - Constructor for class psidev.psi.mi.jami.xml.io.parser.FullXmlEvidenceParser: Constructor for FullXmlEvidenceParser.
FullXmlModelledBinaryParser - Class in psidev.psi.mi.jami.xml.io.parser: Full Parser generating binary modelled interaction objects and ignoring all experimental details.
FullXmlModelledBinaryParser(File) - Constructor for class psidev.psi.mi.jami.xml.io.parser.FullXmlModelledBinaryParser: Constructor for FullXmlModelledBinaryParser.
FullXmlModelledBinaryParser(InputStream) - Constructor for class psidev.psi.mi.jami.xml.io.parser.FullXmlModelledBinaryParser: Constructor for FullXmlModelledBinaryParser.
FullXmlModelledBinaryParser(Reader) - Constructor for class psidev.psi.mi.jami.xml.io.parser.FullXmlModelledBinaryParser: Constructor for FullXmlModelledBinaryParser.
FullXmlModelledBinaryParser(URL) - Constructor for class psidev.psi.mi.jami.xml.io.parser.FullXmlModelledBinaryParser: Constructor for FullXmlModelledBinaryParser.
FullXmlModelledParser - Class in psidev.psi.mi.jami.xml.io.parser: Full Parser generating modelled interaction objects and ignore experimental details.
FullXmlModelledParser(File) - Constructor for class psidev.psi.mi.jami.xml.io.parser.FullXmlModelledParser: Constructor for FullXmlModelledParser.
FullXmlModelledParser(InputStream) - Constructor for class psidev.psi.mi.jami.xml.io.parser.FullXmlModelledParser: Constructor for FullXmlModelledParser.
FullXmlModelledParser(Reader) - Constructor for class psidev.psi.mi.jami.xml.io.parser.FullXmlModelledParser: Constructor for FullXmlModelledParser.
FullXmlModelledParser(URL) - Constructor for class psidev.psi.mi.jami.xml.io.parser.FullXmlModelledParser: Constructor for FullXmlModelledParser.
FullXmlParser - Class in psidev.psi.mi.jami.xml.io.parser: Full Parser generating interaction objects that could be a mix or abstract interactions and interaction evidences.
FullXmlParser(File) - Constructor for class psidev.psi.mi.jami.xml.io.parser.FullXmlParser: Constructor for FullXmlParser.
FullXmlParser(InputStream) - Constructor for class psidev.psi.mi.jami.xml.io.parser.FullXmlParser: Constructor for FullXmlParser.
FullXmlParser(Reader) - Constructor for class psidev.psi.mi.jami.xml.io.parser.FullXmlParser: Constructor for FullXmlParser.
FullXmlParser(URL) - Constructor for class psidev.psi.mi.jami.xml.io.parser.FullXmlParser: Constructor for FullXmlParser.
FUZZY_POSITION_SYMBOL - Static variable in interface psidev.psi.mi.jami.model.Range: Constant FUZZY_POSITION_SYMBOL=".."

G

gene - psidev.psi.mi.jami.factory.InteractorCategory
Gene - Interface in psidev.psi.mi.jami.model: Interactor for genetic interactions
GENE - Static variable in interface psidev.psi.mi.jami.model.Gene: Constant GENE="gene"
GENE_MI - Static variable in interface psidev.psi.mi.jami.model.Gene: Constant GENE_MI="MI:0250"
GENE_NAME - Static variable in interface psidev.psi.mi.jami.model.Alias: Constant GENE_NAME="gene name"
GENE_NAME_MI - Static variable in interface psidev.psi.mi.jami.model.Alias: Constant GENE_NAME_MI="MI:0301"
GENE_NAME_SYNONYM - Static variable in interface psidev.psi.mi.jami.model.Alias: Constant GENE_NAME_SYNONYM="gene name synonym"
GENE_NAME_SYNONYM_MI - Static variable in interface psidev.psi.mi.jami.model.Alias: Constant GENE_NAME_SYNONYM_MI="MI:0302"
GeneComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Unambiguous gene comparator.
GeneComparator(Comparator<Interactor>) - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.GeneComparator: Creates a new UnambiguousGeneComparator.
GeneEnricherListener - Interface in psidev.psi.mi.jami.enricher.listener: Created with IntelliJ IDEA.
GeneEnricherListenerManager - Class in psidev.psi.mi.jami.enricher.listener.impl: Created with IntelliJ IDEA.
GeneEnricherListenerManager() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.GeneEnricherListenerManager: A constructor to create a listener manager with no listeners.
GeneEnricherListenerManager(GeneEnricherListener...) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.GeneEnricherListenerManager: A constructor to initiate a listener manager with as many listeners as required.
GeneEnricherLogger - Class in psidev.psi.mi.jami.enricher.listener.impl.log: Created with IntelliJ IDEA.
GeneEnricherLogger() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.log.GeneEnricherLogger
GeneEnricherStatisticsWriter - Class in psidev.psi.mi.jami.enricher.listener.impl.writer: Created with IntelliJ IDEA.
GeneEnricherStatisticsWriter() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.GeneEnricherStatisticsWriter: Uses the known name of the JamiObject type as the seed to generate names for the success an failure log files.
GeneEnricherStatisticsWriter(File, File) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.GeneEnricherStatisticsWriter: Uses the exact files provided to log successful and failed enrichments.
GeneEnricherStatisticsWriter(String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.GeneEnricherStatisticsWriter: Creates the files from the provided seed file name with 'success' and 'failure' appended.
GeneEnricherStatisticsWriter(String, String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.GeneEnricherStatisticsWriter: Uses the provided names to create the files for successful and failed enrichment logging.
GeneFetcher - Interface in psidev.psi.mi.jami.bridges.fetcher: A fetcher for genes.
generateComplexName(Interaction) - Method in class psidev.psi.mi.jami.binary.expansion.AbstractBipartiteExpansion: generateComplexName
generateInteractionIdentifier(I, Xref) - Method in class psidev.psi.mi.jami.json.binary.elements.SimpleJsonBinaryInteractionWriter: generateInteractionIdentifier.
generateInteractionIdentifier(I, Xref) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionWriter: generateInteractionIdentifier.
generateInteractionIdentifier(BinaryInteractionEvidence, Xref) - Method in class psidev.psi.mi.jami.json.binary.elements.SimpleJsonBinaryInteractionEvidenceWriter: generateInteractionIdentifier.
generateInteractionIdentifier(ModelledBinaryInteraction, Xref) - Method in class psidev.psi.mi.jami.json.binary.elements.SimpleJsonModelledBinaryInteractionWriter: generateInteractionIdentifier.
generateParseException() - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser: Generate ParseException.
generateRigid(I) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionEnricher: generateRigid.
getAccession() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Entry: Gets the value of the accession property.
getActive() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.DbReferenceType: Gets the value of the active property.
getAdminGroupSynchronizer() - Method in class psidev.psi.mi.jami.imex.ImexPublicationRegister: Getter for the field adminGroupSynchronizer.
getAdminGroupSynchronizer() - Method in class psidev.psi.mi.jami.imex.ImexPublicationUpdater: Getter for the field adminGroupSynchronizer.
getAffectedInteractions() - Method in interface psidev.psi.mi.jami.model.CooperativeEffect: Collection of model interactions affected by this model interaction.
getAffectedInteractions() - Method in class psidev.psi.mi.jami.model.impl.DefaultCooperativeEffect: Getter for the field affectedInteractions.
getAffectedInteractions() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect: getAffectedInteractions.
getAliasCollectionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.InteractorBaseComparator: Getter for the field aliasCollectionComparator.
getAliasComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.InteractorBaseComparator: Getter for the field aliasComparator.
getAliasComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousInteractorBaseComparator: getAliasComparator
getAliases() - Method in class psidev.psi.mi.jami.binary.impl.DefaultNamedBinaryInteraction: Getter for the field aliases.
getAliases() - Method in class psidev.psi.mi.jami.binary.impl.DefaultNamedBinaryInteractionEvidence: Getter for the field aliases.
getAliases() - Method in class psidev.psi.mi.jami.binary.impl.DefaultNamedModelledBinaryInteraction: Getter for the field aliases.
getAliases() - Method in interface psidev.psi.mi.jami.model.Feature: Collection of aliases for a feature.
getAliases() - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature: Getter for the field aliases.
getAliases() - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipant: Getter for the field aliases.
getAliases() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: getAliases
getAliases() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractor: Getter for the field aliases.
getAliases() - Method in class psidev.psi.mi.jami.model.impl.DefaultNamedExperiment: Getter for the field aliases.
getAliases() - Method in class psidev.psi.mi.jami.model.impl.DefaultNamedInteraction: Getter for the field aliases.
getAliases() - Method in class psidev.psi.mi.jami.model.impl.DefaultNamedInteractionEvidence: Getter for the field aliases.
getAliases() - Method in class psidev.psi.mi.jami.model.impl.DefaultNamedModelledInteraction: Getter for the field aliases.
getAliases() - Method in class psidev.psi.mi.jami.model.impl.DefaultOrganism: Getter for the field aliases.
getAliases() - Method in interface psidev.psi.mi.jami.model.Interactor: Collection of aliases for an interactor The Collection cannot be null and if the interactor does not have any aliases, the method should return an empty Collection.
getAliases() - Method in interface psidev.psi.mi.jami.model.NamedExperiment: Collection of aliases for an experiment.
getAliases() - Method in interface psidev.psi.mi.jami.model.NamedInteraction: Collection of aliases for an interaction.
getAliases() - Method in interface psidev.psi.mi.jami.model.Organism: The other names of the organism.
getAliases() - Method in interface psidev.psi.mi.jami.model.Participant: Collection of aliases which give more information about the participant.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: getAliases.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractNamesContainer: Gets the value of the alias property.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractExtendedXmlBinaryInteraction: getAliases.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteraction: getAliases.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: getAliases.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: getAliases.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: getAliases.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: getAliases.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: getAliases.
getAliases() - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlInteraction: getAliases.
getAliases() - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlInteractionEvidence: getAliases.
getAliases() - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlModelledInteraction: getAliases.
getAliases() - Method in interface psidev.psi.mi.jami.xml.model.extension.PsiXmlInteraction: getAliases.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: Collection of aliases for an interaction.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: Collection of aliases for an experiment.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: Collection of aliases for a feature.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: Collection of aliases for an interaction.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant: Collection of aliases which give more information about the participant.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: Collection of aliases which give more information about the participant.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.NamesContainer: Gets the value of the alias property.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: Collection of aliases for an interactor The Collection cannot be null and if the interactor does not have any aliases, the method should return an empty Collection.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidenceWrapper: Collection of aliases for a feature.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureWrapper: Collection of aliases for a feature.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: Collection of aliases for an interactor The Collection cannot be null and if the interactor does not have any aliases, the method should return an empty Collection.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: Collection of aliases for an interactor The Collection cannot be null and if the interactor does not have any aliases, the method should return an empty Collection.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOrganism: getAliases.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: Collection of aliases which give more information about the participant.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: Collection of aliases which give more information about the participant.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: Collection of aliases for an interaction.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: Collection of aliases for an experiment.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: Collection of aliases for a feature.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: Collection of aliases for an interaction.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant: Collection of aliases which give more information about the participant.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: Collection of aliases which give more information about the participant.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.NamesContainer: Gets the value of the alias property.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: Collection of aliases for an interactor The Collection cannot be null and if the interactor does not have any aliases, the method should return an empty Collection.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidenceWrapper: Collection of aliases for a feature.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureWrapper: Collection of aliases for a feature.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: Collection of aliases for an interactor The Collection cannot be null and if the interactor does not have any aliases, the method should return an empty Collection.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: Collection of aliases for an interactor The Collection cannot be null and if the interactor does not have any aliases, the method should return an empty Collection.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOrganism: getAliases.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: Collection of aliases which give more information about the participant.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: Collection of aliases which give more information about the participant.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: Collection of aliases for an interaction.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: Collection of aliases for an experiment.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: Collection of aliases for a feature.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: Collection of aliases for an interaction.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant: Collection of aliases which give more information about the participant.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: Collection of aliases which give more information about the participant.
getAliases() - Method in interface psidev.psi.mi.jami.xml.model.extension.xml300.ExtendedPsiXmlModelledInteraction: getAliases.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.NamesContainer: Gets the value of the alias property.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: Collection of aliases for an interactor The Collection cannot be null and if the interactor does not have any aliases, the method should return an empty Collection.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidenceWrapper: Collection of aliases for a feature.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureWrapper: Collection of aliases for a feature.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: Collection of aliases for an interactor The Collection cannot be null and if the interactor does not have any aliases, the method should return an empty Collection.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: Collection of aliases for an interaction.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: Collection of aliases for an interactor The Collection cannot be null and if the interactor does not have any aliases, the method should return an empty Collection.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOrganism: getAliases.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: Collection of aliases which give more information about the participant.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: Collection of aliases which give more information about the participant.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.reference.AbstractFeatureRef: Collection of aliases for a feature.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: getAliases.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: Collection of aliases for an experiment.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractInteractorRef: getAliases.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractParticipantRef: getAliases.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: getAliases.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: Collection of aliases for an experiment.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractInteractorRef: getAliases.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractParticipantRef: getAliases.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: getAliases.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: Collection of aliases for an experiment.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractInteractorRef: getAliases.
getAliases() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractParticipantRef: getAliases.
getAliasWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlFeatureWriter: Getter for the field aliasWriter.
getAliasWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlModelledInteractionWriter: Getter for the field aliasWriter.
getAliasWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlOrganismWriter: Getter for the field aliasWriter.
getAliasWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: Getter for the field aliasWriter.
getAliasWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.AbstractXmlSourceWriter: Getter for the field aliasWriter.
getAliasWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedBinaryInteractionEvidenceWriter: Getter for the field aliasWriter.
getAliasWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedBinaryInteractionWriter: Getter for the field aliasWriter.
getAliasWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedInteractionEvidenceWriter: Getter for the field aliasWriter.
getAliasWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedInteractionWriter: Getter for the field aliasWriter.
getAliasWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlNamedBinaryInteractionEvidenceWriter: Getter for the field aliasWriter.
getAliasWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlNamedInteractionEvidenceWriter: Getter for the field aliasWriter.
getAliasWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedBinaryInteractionEvidenceWriter: Getter for the field aliasWriter.
getAliasWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedBinaryInteractionWriter: Getter for the field aliasWriter.
getAliasWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedInteractionEvidenceWriter: Getter for the field aliasWriter.
getAliasWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedInteractionWriter: Getter for the field aliasWriter.
getAliasWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlNamedBinaryInteractionEvidenceWriter: Getter for the field aliasWriter.
getAliasWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlNamedInteractionEvidenceWriter: Getter for the field aliasWriter.
getAliasWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.AbstractXmlInteractionEvidenceWriter: Getter for the field aliasWriter.
getAliasWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlInteractionWriter: Getter for the field aliasWriter.
getAliasWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25.XmlNamedExperimentWriter: Getter for the field aliasWriter.
getAliasWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlNamedExperimentWriter: Getter for the field aliasWriter.
getAliasWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlCvTermWriter: Getter for the field aliasWriter.
getAliasWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlInteractorWriter: Getter for the field aliasWriter.
getAllChildren(MIOntologyTermI) - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.AbstractMIOntologyAccess: getAllChildren.
getAllMaximalCliques() - Method in class psidev.psi.mi.jami.analysis.graph.BindingSiteCliqueFinder: getAllMaximalCliques
getAllostericEffector() - Method in interface psidev.psi.mi.jami.model.Allostery: The effector that elicits an allosteric response.
getAllostericEffector() - Method in class psidev.psi.mi.jami.model.impl.DefaultAllostery: Getter for the field allostericEffector.
getAllostericEffector() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAllostery: Getter for the field allostericEffector.
getAllostericEffector() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAllostery: Getter for the field allostericEffector.
getAllostericEffector() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAllostery: getAllostericEffector.
getAllostericMechanism() - Method in interface psidev.psi.mi.jami.model.Allostery: The process that mediates the allosteric response of a molecule upon allosteric post-translational modification or binding of an allosteric effector.
getAllostericMechanism() - Method in class psidev.psi.mi.jami.model.impl.DefaultAllostery: Getter for the field allostericMechanism.
getAllostericMechanism() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAllostery: Getter for the field allostericMechanism.
getAllostericMechanism() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAllostery: Getter for the field allostericMechanism.
getAllostericMechanism() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAllostery: Getter for the field allostericMechanism.
getAllostericMolecule() - Method in interface psidev.psi.mi.jami.model.Allostery: A molecule whose binding or catalytic properties at one site are altered by allosteric post-translational modification or binding of an allosteric effector at a distinct site.
getAllostericMolecule() - Method in class psidev.psi.mi.jami.model.impl.DefaultAllostery: Getter for the field allostericMolecule.
getAllostericMolecule() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAllostery: Getter for the field allostericMolecule.
getAllostericMolecule() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAllostery: Getter for the field allostericMolecule.
getAllostericMolecule() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAllostery: Getter for the field allostericMolecule.
getAllosteryComparator() - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.CooperativeEffectComparator: Getter for the field allosteryComparator.
getAllosteryComparator() - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousCooperativeEffectComparator: Getter for the field allosteryComparator.
getAllosteryComparator() - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousExactCooperativeEffectComparator: Getter for the field allosteryComparator.
getAllosteryMechanism() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: Getter for the field allosteryMechanism.
getAllosteryType() - Method in interface psidev.psi.mi.jami.model.Allostery: The allosteric type indicates the chemical relationship between the two ligands whose binding is allosterically coupled.
getAllosteryType() - Method in class psidev.psi.mi.jami.model.impl.DefaultAllostery: Getter for the field allosteryType.
getAllosteryType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAllostery: Getter for the field allosteryType.
getAllosteryType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAllostery: Getter for the field allosteryType.
getAllosteryType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAllostery: Getter for the field allosteryType.
getAllosteryWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledInteractionWriter: Getter for the field allosteryWriter.
getAllosteryWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlModelledInteractionWriter: Getter for the field allosteryWriter.
getAllParents(MIOntologyTermI) - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.AbstractMIOntologyAccess: getAllParents.
getAllSequencesBeforeDate(String, Date) - Method in class psidev.psi.mi.jami.bridges.unisave.UnisaveClient: Get the map of sequences (and their sequence version in uniprot) existing in unisave before this date
getAnnotations() - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteractionWrapper: Getter for the field annotations.
getAnnotations() - Method in class psidev.psi.mi.jami.bridges.ols.LazyCvTerm: getAnnotations.
getAnnotations() - Method in interface psidev.psi.mi.jami.model.CooperativeEffect: The Collection of annotations describing the cooperativeEffect.
getAnnotations() - Method in interface psidev.psi.mi.jami.model.CvTerm: Collection of annotations describing the CvTerm.
getAnnotations() - Method in interface psidev.psi.mi.jami.model.Experiment: Collection of annotations for an experiment.
getAnnotations() - Method in interface psidev.psi.mi.jami.model.Feature: Collection of annotations which describe the feature The set cannot be null.
getAnnotations() - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature: Getter for the field annotations.
getAnnotations() - Method in class psidev.psi.mi.jami.model.impl.AbstractInteraction: Getter for the field annotations.
getAnnotations() - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipant: Getter for the field annotations.
getAnnotations() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: getAnnotations
getAnnotations() - Method in class psidev.psi.mi.jami.model.impl.DefaultCooperativeEffect: Getter for the field annotations.
getAnnotations() - Method in class psidev.psi.mi.jami.model.impl.DefaultCvTerm: Getter for the field annotations.
getAnnotations() - Method in class psidev.psi.mi.jami.model.impl.DefaultExperiment: Getter for the field annotations.
getAnnotations() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractor: Getter for the field annotations.
getAnnotations() - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: Getter for the field annotations.
getAnnotations() - Method in interface psidev.psi.mi.jami.model.Interaction: The Collection of annotations describing the interaction.
getAnnotations() - Method in interface psidev.psi.mi.jami.model.Interactor: Collection of annotations for an interactor.
getAnnotations() - Method in interface psidev.psi.mi.jami.model.Participant: Collection of annotations describing the participant.
getAnnotations() - Method in interface psidev.psi.mi.jami.model.Publication: Other publication annotations which can give more information about the curated publication.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.Entry: Getter for the field annotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: Getter for the field annotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: The Collection of annotations describing the interaction.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: The Collection of annotations describing the interaction.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: The Collection of annotations describing the interaction.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: The Collection of annotations describing the interaction.
getAnnotations() - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlXref: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction.JAXBAttributeWrapper
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: Collection of annotations describing the participant.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: Collection of annotations for an interactor.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidenceWrapper: Collection of annotations which describe the feature The set cannot be null.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureWrapper: Collection of annotations which describe the feature The set cannot be null.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: Collection of annotations for an interactor.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: Collection of annotations for an interactor.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: Collection of annotations describing the participant.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: Collection of annotations describing the participant.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlXref: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction.JAXBAttributeWrapper
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: Collection of annotations describing the participant.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: Collection of annotations for an interactor.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidenceWrapper: Collection of annotations which describe the feature The set cannot be null.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureWrapper: Collection of annotations which describe the feature The set cannot be null.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: Collection of annotations for an interactor.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: Collection of annotations for an interactor.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: Collection of annotations describing the participant.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: Collection of annotations describing the participant.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlXref: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction.JAXBAttributeWrapper
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: Collection of annotations describing the participant.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: Collection of annotations for an interactor.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidenceWrapper: Collection of annotations which describe the feature The set cannot be null.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureWrapper: Collection of annotations which describe the feature The set cannot be null.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: Collection of annotations for an interactor.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: Collection of annotations for an interactor.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: Collection of annotations describing the participant.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: Collection of annotations describing the participant.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlXref: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.reference.AbstractFeatureRef: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractInteractorRef: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractParticipantRef: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractInteractorRef: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractParticipantRef: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractInteractorRef: getAnnotations.
getAnnotations() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractParticipantRef: getAnnotations.
getAnnotationWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonExperimentWriter: Getter for the field annotationWriter.
getAnnotationWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.XmlDbXrefWriter: Getter for the field annotationWriter.
getAttributeWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm: getAttributeWrapper.
getAttributeWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: getAttributeWrapper.
getAttributeWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource: getAttributeWrapper.
getAttributeWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm: getAttributeWrapper.
getAttributeWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: getAttributeWrapper.
getAttributeWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource: getAttributeWrapper.
getAttributeWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm: getAttributeWrapper.
getAttributeWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: getAttributeWrapper.
getAttributeWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource: getAttributeWrapper.
getAttributeWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: getAttributeWrapper.
getAttributeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: Getter for the field attributeWriter.
getAttributeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlFeatureWriter: Getter for the field attributeWriter.
getAttributeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: Getter for the field attributeWriter.
getAttributeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: Getter for the field attributeWriter.
getAttributeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlPublicationWriter: Getter for the field attributeWriter.
getAttributeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlCooperativeEffectWriter: Getter for the field attributeWriter.
getAttributeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.AbstractXmlSourceWriter: Getter for the field attributeWriter.
getAttributeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlInteractorWriter: Getter for the field attributeWriter.
getAttributeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlOpenCvTermWriter: Getter for the field attributeWriter.
getAuthors() - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: Getter for the field authors.
getAuthors() - Method in interface psidev.psi.mi.jami.model.Publication: The List of authors with the same order as it appears in the publication.
getAuthors() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: getAuthors.
getAuthors() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: getAuthors.
getAuthors() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: getAuthors.
getAvailabilities() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: Getter for the field availabilities.
getAvailabilities() - Method in class psidev.psi.mi.jami.xml.model.Entry: Getter for the field availabilities.
getAvailability() - Method in class psidev.psi.mi.jami.binary.impl.BinaryInteractionEvidenceWrapper: getAvailability
getAvailability() - Method in class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: Getter for the field availability.
getAvailability() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: Getter for the field availability.
getAvailability() - Method in interface psidev.psi.mi.jami.model.InteractionEvidence: The availability for this interaction.
getAvailability() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: Getter for the field availability.
getAvailability() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: The availability for this interaction.
getAvailability() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: Getter for the field availability.
getAvailability() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: Getter for the field availability.
getAvailability() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: Getter for the field availability.
getAvailability(int) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: getAvailability.
getAvailability(int) - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: getAvailability.
getAvailability(int) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: getAvailability.
getAvailabilityWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: Getter for the field availabilityWriter.
getAvailabilityWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionEvidenceWriter: Getter for the field availabilityWriter.
getAvailableSequenceUpdate(String, String) - Method in class psidev.psi.mi.jami.bridges.unisave.UnisaveClient: Collects all available sequence update fro mUniSave.
getBase() - Method in class psidev.psi.mi.jami.model.ParameterValue: Base of the parameter expression.
getBeginColumn() - Method in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream
getBeginColumn() - Method in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Get token beginning column number.
getBeginLine() - Method in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream
getBeginLine() - Method in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Get token beginning line number.
getBestIdentifier(CvTerm) - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: Gets the unique identifier of a CvObject.
getBiggestMaximalCliques() - Method in class psidev.psi.mi.jami.analysis.graph.BindingSiteCliqueFinder: getBiggestMaximalCliques
getBinaryInteractionFactory() - Method in class psidev.psi.mi.jami.binary.expansion.AbstractComplexExpansionMethod: getBinaryInteractionFactory
getBinaryInteractionFactory() - Method in interface psidev.psi.mi.jami.binary.expansion.ComplexExpansionMethod: getBinaryInteractionFactory
getBinaryWriter() - Method in class psidev.psi.mi.jami.json.binary.AbstractMIJsonWriter: Getter for the field binaryWriter.
getBinaryWriter() - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitabWriter: Getter for the field binaryWriter.
getBindingFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: getBindingFeatures.
getBindingFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: getBindingFeatures.
getBindingFeatures() - Method in interface psidev.psi.mi.jami.xml.model.extension.xml300.ExtendedPsiXmlModelledInteraction: getBindingFeatures.
getBindingFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: getBindingFeatures.
getBindingFeaturesWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledInteractionWriter: Getter for the field bindingFeaturesWriter.
getBindingFeaturesWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlModelledInteractionWriter: Getter for the field bindingFeaturesWriter.
getBioactiveEntityComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.InteractorComparator: Getter for the field bioactiveEntityComparator.
getBioactiveEntityComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactInteractorComparator: Getter for the field bioactiveEntityComparator.
getBioactiveEntityComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousInteractorComparator: Getter for the field bioactiveEntityComparator.
getBioactiveEntityEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeInteractorEnricher: Getter for the field bioactiveEntityEnricher.
getBiologicalEffect() - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipant: Getter for the field biologicalEffect.
getBiologicalEffect() - Method in interface psidev.psi.mi.jami.model.Participant: The biological effect of the participant in a causal interaction.
getBiologicalEffect() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant: Gets the value of the biologicalEffect property.
getBiologicalEffect() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: The biological effect of the participant in a causal interaction.
getBiologicalEffect() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: The biological effect of the participant in a causal interaction.
getBiologicalEffect() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: The biological effect of the participant in a causal interaction.
getBiologicalEffect() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant: Gets the value of the biologicalEffect property.
getBiologicalEffect() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: The biological effect of the participant in a causal interaction.
getBiologicalEffect() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: The biological effect of the participant in a causal interaction.
getBiologicalEffect() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: The biological effect of the participant in a causal interaction.
getBiologicalEffect() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant: Gets the value of the biologicalEffect property.
getBiologicalEffect() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: The biological effect of the participant in a causal interaction.
getBiologicalEffect() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: The biological effect of the participant in a causal interaction.
getBiologicalEffect() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: The biological effect of the participant in a causal interaction.
getBiologicalEffect() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractParticipantRef: The biological effect of the participant in a causal interaction.
getBiologicalEffect() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractParticipantRef: The biological effect of the participant in a causal interaction.
getBiologicalEffect() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractParticipantRef: The biological effect of the participant in a causal interaction.
getBiologicalEntityComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.EntityComparator: Getter for the field biologicalEntityComparator.
getBiologicalEntityComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousEntityComparator: Getter for the field biologicalEntityComparator.
getBiologicalEntityComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactEntityComparator: Getter for the field biologicalEntityComparator.
getBiologicalFeatureComparator() - Method in class psidev.psi.mi.jami.utils.comparator.feature.FeatureComparator: Getter for the field biologicalFeatureComparator.
getBiologicalParticipantComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.ParticipantComparator: Getter for the field biologicalParticipantComparator.
getBiologicalParticipantComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantComparator: Getter for the field biologicalParticipantComparator.
getBiologicalParticipantComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousParticipantComparator: Getter for the field biologicalParticipantComparator.
getBiologicalRole() - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipant: Getter for the field biologicalRole.
getBiologicalRole() - Method in interface psidev.psi.mi.jami.model.Participant: The biological role of the participant.
getBiologicalRole() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant: Gets the value of the biologicalRole property.
getBiologicalRole() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: The biological role of the participant.
getBiologicalRole() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: The biological role of the participant.
getBiologicalRole() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: The biological role of the participant.
getBiologicalRole() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant: Gets the value of the biologicalRole property.
getBiologicalRole() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: The biological role of the participant.
getBiologicalRole() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: The biological role of the participant.
getBiologicalRole() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: The biological role of the participant.
getBiologicalRole() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant: Gets the value of the biologicalRole property.
getBiologicalRole() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: The biological role of the participant.
getBiologicalRole() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: The biological role of the participant.
getBiologicalRole() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: The biological role of the participant.
getBiologicalRole() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractParticipantRef: getBiologicalRole.
getBiologicalRole() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractParticipantRef: getBiologicalRole.
getBiologicalRole() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractParticipantRef: getBiologicalRole.
getBiologicalRoleWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: Getter for the field biologicalRoleWriter.
getByIdentifier(String) - Method in class psidev.psi.mi.jami.bridges.uniprot.CachedUniprotGeneFetcher: getByIdentifier.
getByIdentifier(String, int) - Method in class psidev.psi.mi.jami.bridges.uniprot.CachedUniprotGeneFetcher: getByIdentifier.
getCandidates() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant.JAXBInteractorCandidateWrapper
getCandidates() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantPoolWrapper: getCandidates.
getCandidates() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipant.JAXBInteractorCandidatesWrapper
getCandidates() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBInteractorCandidatesWrapper
getCandidates() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantPoolWrapper: getCandidates.
getCandidates() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant.JAXBInteractorCandidateWrapper
getCandidates() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantPoolWrapper: getCandidates.
getCandidates() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipant.JAXBInteractorCandidatesWrapper
getCandidates() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBInteractorCandidatesWrapper
getCandidates() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantPoolWrapper: getCandidates.
getCandidates() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant.JAXBInteractorCandidateWrapper
getCandidates() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantPoolWrapper: getCandidates.
getCandidates() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipant.JAXBInteractorCandidatesWrapper
getCandidates() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBInteractorCandidatesWrapper
getCandidates() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantPoolWrapper: getCandidates.
getCausalRegulatoryMechanism() - Method in interface psidev.psi.mi.jami.binary.BinaryInteraction: The causal regulatory mechanism for the binary interaction
getCausalRegulatoryMechanism() - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteraction: Getter for the field causalRegulatoryMechanism.
getCausalRegulatoryMechanism() - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteractionWrapper: Getter for the field causalRegulatoryMechanism
getCausalRegulatoryMechanism() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: getCausalRegulatoryMechanism.
getCausalRegulatoryMechanism() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: getCausalRegulatoryMechanism.
getCausalRegulatoryMechanism() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: getCausalRegulatoryMechanism.
getCausalRegulatoryMechanism() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: getCausalRegulatoryMechanism.
getCausalRelationships() - Method in interface psidev.psi.mi.jami.model.Entity: The causal relationships of this entity on other entities usually part of an interaction.
getCausalRelationships() - Method in class psidev.psi.mi.jami.model.impl.AbstractEntity: Getter for the field causalRelationships.
getCausalRelationships() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlBinaryInteractionEvidence: getCausalRelationships.
getCausalRelationships() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlBinaryInteractionEvidenceWrapper: getCausalRelationships.
getCausalRelationships() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: getCausalRelationships.
getCausalRelationships() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: getCausalRelationships.
getCausalRelationships() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity: Getter for the field causalRelationships.
getCausalRelationships() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: The causal relationships of this entity on other entities usually part of an interaction.
getCausalRelationships() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidateWrapper: The causal relationships of this entity on other entities usually part of an interaction.
getCausalRelationships() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantCandidateWrapper: The causal relationships of this entity on other entities usually part of an interaction.
getCausalRelationships() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: The causal relationships of this entity on other entities usually part of an interaction.
getCausalRelationships() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: The causal relationships of this entity on other entities usually part of an interaction.
getCausalRelationships() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity: Getter for the field causalRelationships.
getCausalRelationships() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: The causal relationships of this entity on other entities usually part of an interaction.
getCausalRelationships() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidateWrapper: The causal relationships of this entity on other entities usually part of an interaction.
getCausalRelationships() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantCandidateWrapper: The causal relationships of this entity on other entities usually part of an interaction.
getCausalRelationships() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: The causal relationships of this entity on other entities usually part of an interaction.
getCausalRelationships() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: The causal relationships of this entity on other entities usually part of an interaction.
getCausalRelationships() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity: Getter for the field causalRelationships.
getCausalRelationships() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: The causal relationships of this entity on other entities usually part of an interaction.
getCausalRelationships() - Method in interface psidev.psi.mi.jami.xml.model.extension.xml300.ExtendedPsiXmlInteractionEvidence: getCausalRelationships.
getCausalRelationships() - Method in interface psidev.psi.mi.jami.xml.model.extension.xml300.ExtendedPsiXmlModelledInteraction: getCausalRelationships.
getCausalRelationships() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidateWrapper: The causal relationships of this entity on other entities usually part of an interaction.
getCausalRelationships() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidence: getCausalRelationships.
getCausalRelationships() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: getCausalRelationships.
getCausalRelationships() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantCandidateWrapper: The causal relationships of this entity on other entities usually part of an interaction.
getCausalRelationships() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: The causal relationships of this entity on other entities usually part of an interaction.
getCausalRelationships() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: The causal relationships of this entity on other entities usually part of an interaction.
getCausalRelationships() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractEntityRef: getCausalRelationships.
getCausalRelationships() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractEntityRef: getCausalRelationships.
getCausalRelationships() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractEntityRef: getCausalRelationships.
getCausalRelationshipWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlInteractionEvidenceWriter: Getter for the field causalRelationshipWriter.
getCausalRelationshipWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledInteractionWriter: Getter for the field causalRelationshipWriter.
getCausalRelationshipWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlInteractionEvidenceWriter: Getter for the field causalRelationshipWriter.
getCausalRelationshipWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlModelledInteractionWriter: Getter for the field causalRelationshipWriter.
getCausalStatementWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlCausalRelationshipWriter: Getter for the field causalStatementWriter.
getCellType() - Method in class psidev.psi.mi.jami.model.impl.DefaultOrganism: Getter for the field cellType.
getCellType() - Method in interface psidev.psi.mi.jami.model.Organism: Cell type of the organism.
getCellType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOrganism: Getter for the field cellType.
getCellType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOrganism: Getter for the field cellType.
getCellType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOrganism: Getter for the field cellType.
getCertain() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: Getter for the field certain.
getChangeListener() - Method in interface psidev.psi.mi.jami.model.Entity: The entity change listener if set, null otherwise.
getChangeListener() - Method in class psidev.psi.mi.jami.model.impl.AbstractEntity: Getter for the field changeListener.
getChangeListener() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity: Getter for the field changeListener.
getChangeListener() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: The entity change listener if set, null otherwise.
getChangeListener() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidateWrapper: The entity change listener if set, null otherwise.
getChangeListener() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantCandidateWrapper: The entity change listener if set, null otherwise.
getChangeListener() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: The entity change listener if set, null otherwise.
getChangeListener() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: The entity change listener if set, null otherwise.
getChangeListener() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity: Getter for the field changeListener.
getChangeListener() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: The entity change listener if set, null otherwise.
getChangeListener() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidateWrapper: The entity change listener if set, null otherwise.
getChangeListener() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantCandidateWrapper: The entity change listener if set, null otherwise.
getChangeListener() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: The entity change listener if set, null otherwise.
getChangeListener() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: The entity change listener if set, null otherwise.
getChangeListener() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity: Getter for the field changeListener.
getChangeListener() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: The entity change listener if set, null otherwise.
getChangeListener() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidateWrapper: The entity change listener if set, null otherwise.
getChangeListener() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantCandidateWrapper: The entity change listener if set, null otherwise.
getChangeListener() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: The entity change listener if set, null otherwise.
getChangeListener() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: The entity change listener if set, null otherwise.
getChangeListener() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractEntityRef: getChangeListener.
getChangeListener() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractParticipantRef: getChangeListener.
getChangeListener() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractEntityRef: getChangeListener.
getChangeListener() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractParticipantRef: getChangeListener.
getChangeListener() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractEntityRef: getChangeListener.
getChangeListener() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractParticipantRef: getChangeListener.
getCharacterOffset() - Method in class psidev.psi.mi.jami.xml.model.extension.PsiXmlLocator: Getter for the field characterOffset.
getCharNumber() - Method in class psidev.psi.mi.jami.datasource.FileSourceLocator: The character number in the file where the object is located.
getChebi() - Method in interface psidev.psi.mi.jami.model.BioactiveEntity: The CHEBI accession which identifies the bioactive entity.
getChebi() - Method in class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: Getter for the field chebi.
getCheckpoint() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Uniparc: Gets the value of the checkpoint property.
getChecksum() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Sequence: Gets the value of the checksum property.
getChecksums() - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteractionWrapper: getChecksums
getChecksums() - Method in class psidev.psi.mi.jami.model.impl.AbstractInteraction: Getter for the field checksums.
getChecksums() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: getChecksums
getChecksums() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractor: Getter for the field checksums.
getChecksums() - Method in interface psidev.psi.mi.jami.model.Interaction: Set of checksums computed for this interaction..
getChecksums() - Method in interface psidev.psi.mi.jami.model.Interactor: Set of checksums computed for this interactor.
getChecksums() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: getChecksums.
getChecksums() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: Getter for the field checksums.
getChecksums() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: Set of checksums computed for this interaction..
getChecksums() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: Set of checksums computed for this interaction..
getChecksums() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: Set of checksums computed for this interaction..
getChecksums() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: Set of checksums computed for this interaction..
getChecksums() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: getChecksums.
getChecksums() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: getChecksums.
getChecksums() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: Set of checksums computed for this interactor.
getChecksums() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: Set of checksums computed for this interactor.
getChecksums() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: Set of checksums computed for this interactor.
getChecksums() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: getChecksums.
getChecksums() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: getChecksums.
getChecksums() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: Set of checksums computed for this interactor.
getChecksums() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: Set of checksums computed for this interactor.
getChecksums() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: Set of checksums computed for this interactor.
getChecksums() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: getChecksums.
getChecksums() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: getChecksums.
getChecksums() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: Set of checksums computed for this interactor.
getChecksums() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: Set of checksums computed for this interactor.
getChecksums() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: getChecksums.
getChecksums() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: Set of checksums computed for this interactor.
getChecksums() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: getChecksums.
getChecksums() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractInteractorRef: getChecksums.
getChecksums() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: getChecksums.
getChecksums() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractInteractorRef: getChecksums.
getChecksums() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: getChecksums.
getChecksums() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractInteractorRef: getChecksums.
getChecksumWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: Getter for the field checksumWriter.
getChecksumWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlInteractorWriter: Getter for the field checksumWriter.
getChildren() - Method in class psidev.psi.mi.jami.bridges.ols.LazyOntologyTerm: Getter for the field children.
getChildren() - Method in class psidev.psi.mi.jami.model.impl.DefaultOntologyTerm: Getter for the field children.
getChildren() - Method in interface psidev.psi.mi.jami.model.OntologyTerm: The children terms of this controlled vocabulary term.
getColumn() - Method in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream: Deprecated.
getColumn() - Method in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Deprecated.
getColumnFeeder() - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitab25BinaryWriter: Getter for the field columnFeeder.
getColumnNumber() - Method in class psidev.psi.mi.jami.crosslink.extension.CsvSourceLocator: Getter for the field columnNumber.
getColumnNumber() - Method in class psidev.psi.mi.jami.tab.extension.MitabSourceLocator: Getter for the field columnNumber.
getColumnNumber() - Method in class psidev.psi.mi.jami.xml.model.extension.PsiXmlLocator: getColumnNumber.
getCommonName() - Method in class psidev.psi.mi.jami.model.impl.DefaultOrganism: Getter for the field commonName.
getCommonName() - Method in interface psidev.psi.mi.jami.model.Organism: The common name of an organism.
getCommonName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOrganism: getCommonName.
getCommonName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOrganism: getCommonName.
getCommonName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOrganism: getCommonName.
getCompactXmlOptions(Object, InteractionCategory, ComplexType, Source, XMLGregorianCalendar, Collection<Annotation>, PsiXmlVersion) - Method in class psidev.psi.mi.jami.commons.MIWriterOptionFactory: Create the options for the compact PSI-XML InteractionWriter.
getCompactXmlOptions(Object, InteractionCategory, ComplexType, PsiXmlObjectCache, Set<Experiment>, Set<Interactor>, Set<String>, Set<Interaction>, boolean, boolean, PsiXmlVersion) - Method in class psidev.psi.mi.jami.commons.MIWriterOptionFactory: Create the options for the compact PSI-XML InteractionWriter.
getCompactXmlOptions(Object, InteractionCategory, ComplexType, PsiXmlObjectCache, Set<Experiment>, Set<Interactor>, Set<String>, Set<Interaction>, Source, XMLGregorianCalendar, Collection<Annotation>, boolean, boolean, PsiXmlVersion) - Method in class psidev.psi.mi.jami.commons.MIWriterOptionFactory: Create the options for the compact PSI-XML InteractionWriter.
getComparableParticipants() - Method in interface psidev.psi.mi.jami.model.Complex: Gets comparable participants for a complex.
getCompartment() - Method in class psidev.psi.mi.jami.model.impl.DefaultOrganism: Getter for the field compartment.
getCompartment() - Method in interface psidev.psi.mi.jami.model.Organism: The subcellular compartment of the organism.
getCompartment() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOrganism: Getter for the field compartment.
getCompartment() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOrganism: Getter for the field compartment.
getCompartment() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOrganism: Getter for the field compartment.
getComplex(int) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: getComplex.
getComplex(int) - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: getComplex.
getComplex(int) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: getComplex.
getComplex1() - Method in class psidev.psi.mi.jami.listener.comparator.event.ComplexComparisonEvent
getComplex1() - Method in class psidev.psi.mi.jami.listener.comparator.observer.ComplexComparatorObserver
getComplex2() - Method in class psidev.psi.mi.jami.listener.comparator.event.ComplexComparisonEvent
getComplex2() - Method in class psidev.psi.mi.jami.listener.comparator.observer.ComplexComparatorObserver
getComplexAc() - Method in interface psidev.psi.mi.jami.model.Complex: Complex accession if the complex has been curated under the Complex Portal curation rules.
getComplexAc() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: Complex accession if the complex has been curated under the Complex Portal curation rules.
getComplexAc() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: Complex accession if the complex has been curated under the Complex Portal curation rules.
getComplexAc() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: Complex accession if the complex has been curated under the Complex Portal curation rules.
getComplexAc() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: Gets the value of the complexAc property.
getComplexAc() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: Gets the value of the complexAc property.
getComplexAc() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.InteractionXrefContainer: Getter for the field complexAc.
getComplexAc() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: Complex accession if the complex has been curated under the Complex Portal curation rules.
getComplexAc() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: Complex accession if the complex has been curated under the Complex Portal curation rules.
getComplexAc() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: Complex accession if the complex has been curated under the Complex Portal curation rules.
getComplexAc() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: Gets the value of the complexAc property.
getComplexAc() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: Gets the value of the complexAc property.
getComplexAc() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.InteractionXrefContainer: Getter for the field complexAc.
getComplexAc() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: Complex accession if the complex has been curated under the Complex Portal curation rules.
getComplexAc() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: Complex accession if the complex has been curated under the Complex Portal curation rules.
getComplexAc() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: Complex accession if the complex has been curated under the Complex Portal curation rules.
getComplexAc() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: Gets the value of the complexAc property.
getComplexAc() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: Gets the value of the complexAc property.
getComplexAc() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.InteractionXrefContainer: Getter for the field complexAc.
getComplexAc() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: Complex accession if the complex has been curated under the Complex Portal curation rules.
getComplexAc() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: Complex accession if the complex has been curated under the Complex Portal curation rules.
getComplexAc() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: Gets the value of the complexAc property.
getComplexAc() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: Complex accession if the complex has been curated under the Complex Portal curation rules.
getComplexAc() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: Complex accession if the complex has been curated under the Complex Portal curation rules.
getComplexAc() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: Complex accession if the complex has been curated under the Complex Portal curation rules.
getComplexAc() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: Complex accession if the complex has been curated under the Complex Portal curation rules.
getComplexAcsDifferentOnlyByStoichiometry(ComplexComparatorListener) - Static method in class psidev.psi.mi.jami.listener.comparator.analyzer.ComplexComparatorListenerAnalyzer
getComplexComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.InteractorComparator: Getter for the field complexComparator.
getComplexComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactInteractorComparator: Getter for the field complexComparator.
getComplexComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousInteractorComparator: Getter for the field complexComparator.
getComplexComparatorObservations() - Method in interface psidev.psi.mi.jami.listener.comparator.ComplexComparatorListener
getComplexComparatorObservations() - Method in class psidev.psi.mi.jami.listener.comparator.impl.ComplexComparatorListenerImpl
getComplexEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeInteractorEnricher: Getter for the field complexEnricher.
getComplexesToWrite() - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: Getter for the field complexesToWrite.
getComplexExpansion() - Method in interface psidev.psi.mi.jami.binary.BinaryInteraction: The complex expansion method if this binary interaction is expanded from a complex or n-ary interaction.
getComplexExpansion() - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteraction: Getter for the field complexExpansion.
getComplexExpansion() - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteractionWrapper: Getter for the field complexExpansion.
getComplexExpansion() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: getComplexExpansion.
getComplexExpansion() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: getComplexExpansion.
getComplexExpansion() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: getComplexExpansion.
getComplexExpansion() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: getComplexExpansion.
getComplexExpansion() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlBinarySource: Getter for the field complexExpansion.
getComplexExpansion() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlBinaryStream: Getter for the field complexExpansion.
getComplexFeature(int) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: getComplexFeature.
getComplexFeature(int) - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: getComplexFeature.
getComplexFeature(int) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: getComplexFeature.
getComplexParticipant(int) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: getComplexParticipant.
getComplexParticipant(int) - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: getComplexParticipant.
getComplexParticipant(int) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: getComplexParticipant.
getComplexVersion() - Method in interface psidev.psi.mi.jami.model.Complex: Complex version if the complex has been curated under the Complex Portal curation rules.
getComplexVersion() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: Complex version if the complex has been curated under the Complex Portal curation rules.
getComplexVersion() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: Complex version if the complex has been curated under the Complex Portal curation rules.
getComplexVersion() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: Complex version if the complex has been curated under the Complex Portal curation rules.
getComplexVersion() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: Gets the value of the complexVersion property.
getComplexVersion() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: Gets the value of the complexVersion property.
getComplexVersion() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.InteractionXrefContainer: Getter for the field complexVersion.
getComplexVersion() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: Complex version if the complex has been curated under the Complex Portal curation rules.
getComplexVersion() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: Complex version if the complex has been curated under the Complex Portal curation rules.
getComplexVersion() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: Complex version if the complex has been curated under the Complex Portal curation rules.
getComplexVersion() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: Gets the value of the complexVersion property.
getComplexVersion() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: Gets the value of the complexVersion property.
getComplexVersion() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.InteractionXrefContainer: Getter for the field complexVersion.
getComplexVersion() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: Complex version if the complex has been curated under the Complex Portal curation rules.
getComplexVersion() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: Complex version if the complex has been curated under the Complex Portal curation rules.
getComplexVersion() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: Complex version if the complex has been curated under the Complex Portal curation rules.
getComplexVersion() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: Gets the value of the complexVersion property.
getComplexVersion() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: Gets the value of the complexVersion property.
getComplexVersion() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.InteractionXrefContainer: Getter for the field complexVersion.
getComplexVersion() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: Complex version if the complex has been curated under the Complex Portal curation rules.
getComplexVersion() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: Complex version if the complex has been curated under the Complex Portal curation rules.
getComplexVersion() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: Gets the value of the complexVersion property.
getComplexVersion() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: Complex version if the complex has been curated under the Complex Portal curation rules.
getComplexVersion() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: Complex version if the complex has been curated under the Complex Portal curation rules.
getComplexVersion() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: Complex version if the complex has been curated under the Complex Portal curation rules.
getComplexVersion() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: Complex version if the complex has been curated under the Complex Portal curation rules.
getComplexWriter() - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: Getter for the field complexWriter.
getComplexWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Getter for the field complexWriter.
getComponentCollectionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.ComplexComparator: Getter for the field componentCollectionComparator.
getConfidences() - Method in class psidev.psi.mi.jami.binary.impl.BinaryInteractionEvidenceWrapper: getConfidences
getConfidences() - Method in class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: Getter for the field confidences.
getConfidences() - Method in interface psidev.psi.mi.jami.model.Experiment: Collection of confidences for a specific experiment.
getConfidences() - Method in class psidev.psi.mi.jami.model.impl.DefaultExperiment: Getter for the field confidences.
getConfidences() - Method in class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantPool: Getter for the field confidences.
getConfidences() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: Getter for the field confidences.
getConfidences() - Method in class psidev.psi.mi.jami.model.impl.DefaultParticipantEvidence: Getter for the field confidences.
getConfidences() - Method in interface psidev.psi.mi.jami.model.InteractionEvidence: The confidences in this interaction.
getConfidences() - Method in interface psidev.psi.mi.jami.model.ParticipantEvidence: The confidences for this participant.
getConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: Getter for the field confidences.
getConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: The confidences in this interaction.
getConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: getConfidences.
getConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: getConfidences.
getConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantPool: The confidences for this participant.
getConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: getConfidences.
getConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: getConfidences.
getConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: getConfidences.
getConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantPool: The confidences for this participant.
getConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: getConfidences.
getConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: getConfidences.
getConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: getConfidences.
getConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantPool: The confidences for this participant.
getConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: getConfidences.
getConfidences() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: getConfidences.
getConfidences() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: getConfidences.
getConfidences() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: getConfidences.
getConfidenceWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionEvidenceWriter: Getter for the field confidenceWriter.
getConfidenceWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonModelledInteractionWriter: Getter for the field confidenceWriter.
getConfidenceWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonParticipantEvidenceWriter: Getter for the field confidenceWriter.
getConfidenceWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: Getter for the field confidenceWriter.
getConfidenceWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionEvidenceWriter: Getter for the field confidenceWriter.
getConfidenceWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlModelledInteractionWriter: Getter for the field confidenceWriter.
getConfidenceWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantEvidenceWriter: Getter for the field confidenceWriter.
getConnectionTimeOut() - Method in class psidev.psi.mi.jami.bridges.unisave.UnisaveClient: Getter for the field connectionTimeOut.
getContent() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Sequence: Gets the value of the content property.
getCooperativeEffectComparator() - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.AllosteryComparator: Getter for the field cooperativeEffectComparator.
getCooperativeEffectComparator() - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousAllosteryComparator: Getter for the field cooperativeEffectComparator.
getCooperativeEffectComparator() - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousExactAllosteryComparator: Getter for the field cooperativeEffectComparator.
getCooperativeEffects() - Method in class psidev.psi.mi.jami.binary.impl.DefaultModelledBinaryInteraction: Getter for the field cooperativeEffects.
getCooperativeEffects() - Method in class psidev.psi.mi.jami.binary.impl.ModelledBinaryInteractionWrapper: getCooperativeEffects
getCooperativeEffects() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: Getter for the field cooperativeEffects.
getCooperativeEffects() - Method in class psidev.psi.mi.jami.model.impl.DefaultModelledInteraction: Getter for the field cooperativeEffects.
getCooperativeEffects() - Method in interface psidev.psi.mi.jami.model.ModelledInteraction: The collection of cooperative effects associated with this modelledInteraction.
getCooperativeEffects() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: Getter for the field cooperativeEffects.
getCooperativeEffects() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: The collection of cooperative effects associated with this modelledInteraction.
getCooperativeEffects() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteraction: Getter for the field cooperativeEffects.
getCooperativeEffects() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: The collection of cooperative effects associated with this modelledInteraction.
getCooperativeEffects() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction: Getter for the field cooperativeEffects.
getCooperativeEffects() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: Getter for the field cooperativeEffects.
getCooperativeEffects() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: Getter for the field cooperativeEffects.
getCooperativeEffects() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: getCooperativeEffects.
getCooperativeEffects() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction: Getter for the field cooperativeEffects.
getCooperativeEffects() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: Getter for the field cooperativeEffects.
getCooperativeEffects() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: Getter for the field cooperativeEffects.
getCooperativeEffects() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: getCooperativeEffects.
getCooperativeEffects() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction: Getter for the field cooperativeEffects.
getCooperativeEffects() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: Getter for the field cooperativeEffects.
getCooperativeEffects() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: Getter for the field cooperativeEffects.
getCooperativeEffects() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: getCooperativeEffects.
getCooperativeEffects() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: getCooperativeEffects.
getCooperativeEffects() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: getCooperativeEffects.
getCooperativeEffects() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: getCooperativeEffects.
getCooperativeEffects() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: getCooperativeEffects.
getCooperativityEvidenceCollectionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.CooperativeEffectBaseComparator: Getter for the field cooperativityEvidenceCollectionComparator.
getCooperativityEvidences() - Method in interface psidev.psi.mi.jami.model.CooperativeEffect: Collection of experimental methods and publications from which this cooperative effect has been inferred.
getCooperativityEvidences() - Method in class psidev.psi.mi.jami.model.impl.DefaultCooperativeEffect: Getter for the field cooperativityEvidences.
getCooperativityEvidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect: getCooperativityEvidences.
getCooperativityEvidenceWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlCooperativeEffectWriter: Getter for the field cooperativityEvidenceWriter.
getCopyright() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Uniparc: Gets the value of the copyright property.
getCreated() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.DbReferenceType: Gets the value of the created property.
getCreatedDate() - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteractionWrapper: getCreatedDate
getCreatedDate() - Method in class psidev.psi.mi.jami.model.impl.AbstractInteraction: Getter for the field createdDate.
getCreatedDate() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: Getter for the field createdDate.
getCreatedDate() - Method in interface psidev.psi.mi.jami.model.Interaction: The creation date.
getCreatedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: The creation date.
getCreatedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: The creation date.
getCreatedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: The creation date.
getCreatedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: The creation date.
getCreatedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: Getter for the field createdDate.
getCreatedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: getCreatedDate.
getCreatedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: getCreatedDate.
getCreatedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: getCreatedDate.
getCreatedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: Getter for the field createdDate.
getCreatedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: getCreatedDate.
getCreatedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: getCreatedDate.
getCreatedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: getCreatedDate.
getCreatedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: Getter for the field createdDate.
getCreatedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: getCreatedDate.
getCreatedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: getCreatedDate.
getCreatedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: getCreatedDate.
getCreatedDate() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: getCreatedDate.
getCreatedDate() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: getCreatedDate.
getCreatedDate() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: getCreatedDate.
getCreationDate() - Method in class psidev.psi.mi.jami.bridges.imex.extension.ImexPublication: Getter for the field creationDate.
getCsvOptions(boolean, Object) - Method in class psidev.psi.mi.jami.crosslink.CrossLinkCsvOptionFactory: Create the options for the CSV datasource and specify if we want a Streaming MIFileDatasource.
getCsvOptions(CsvType, ComplexType, Boolean, MIFileParserListener, Object) - Method in class psidev.psi.mi.jami.crosslink.CrossLinkCsvOptionFactory: Create a map of options
getCsvOptions(CsvType, ComplexType, Object) - Method in class psidev.psi.mi.jami.crosslink.CrossLinkCsvOptionFactory: Create the options for the CSV datasource using the provided csvtype.
getCsvOptions(MIFileParserListener, Object) - Method in class psidev.psi.mi.jami.crosslink.CrossLinkCsvOptionFactory: Create the options for the CSV datasource using the provided MIFileParserListener.
getCTerminal() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: Getter for the field cTerminal.
getCTerminalRange() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: Getter for the field cTerminalRange.
getCurationDepth() - Method in class psidev.psi.mi.jami.bridges.imex.extension.ImexPublication: Getter for the field curationDepth.
getCurationDepth() - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: Getter for the field curationDepth.
getCurationDepth() - Method in interface psidev.psi.mi.jami.model.Publication: The curation depth for this publication.
getCurationDepth() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: getCurationDepth.
getCurationDepth() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: getCurationDepth.
getCurationDepth() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: getCurationDepth.
getCurators() - Method in class psidev.psi.mi.jami.bridges.imex.extension.ImexPublication: Getter for the field curators.
getCurrentElement() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: Getter for the field currentElement.
getCurrentEntry() - Method in class psidev.psi.mi.jami.xml.XmlEntryContext: Getter for the field currentEntry.
getCurrentId() - Method in class psidev.psi.mi.jami.json.IncrementalIdGenerator: Getter for the field currentId.
getCurrentIndex() - Method in class psidev.psi.mi.jami.imex.actions.impl.ImexAssignerImpl: Getter for the field currentIndex.
getCurrentInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Getter for the field currentInteraction.
getCurrentObject() - Method in class psidev.psi.mi.jami.utils.collection.IteratorHavingProperties: Getter for the field currentObject.
getCurrentObject() - Method in class psidev.psi.mi.jami.utils.collection.IteratorWrapper: Getter for the field currentObject.
getCurrentSource() - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Getter for the field currentSource.
getCvEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOntologyTermEnricher: Getter for the field cvEnricher.
getCvTermCollectionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.ExperimentalParticipantPoolComparator: Getter for the field cvTermCollectionComparator.
getCvTermCollectionComparators() - Method in class psidev.psi.mi.jami.utils.comparator.feature.FeatureEvidenceComparator: Getter for the field cvTermCollectionComparators.
getCvTermComparator() - Method in class psidev.psi.mi.jami.utils.comparator.confidence.ConfidenceComparator: Getter for the field cvTermComparator.
getCvTermComparator() - Method in class psidev.psi.mi.jami.utils.comparator.confidence.UnambiguousConfidenceComparator: getCvTermComparator
getCvTermComparator() - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.CooperativeEffectBaseComparator: Getter for the field cvTermComparator.
getCvTermComparator() - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousCooperativeEffectBaseComparator: Getter for the field cvTermComparator.
getCvTermComparator() - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousExactCooperativeEffectBaseComparator: Getter for the field cvTermComparator.
getCvTermComparator() - Method in class psidev.psi.mi.jami.utils.comparator.experiment.ExperimentComparator: Getter for the field cvTermComparator.
getCvTermComparator() - Method in class psidev.psi.mi.jami.utils.comparator.experiment.UnambiguousCuratedExperimentComparator: Getter for the field cvTermComparator.
getCvTermComparator() - Method in class psidev.psi.mi.jami.utils.comparator.experiment.UnambiguousExperimentComparator: Getter for the field cvTermComparator.
getCvTermComparator() - Method in class psidev.psi.mi.jami.utils.comparator.experiment.UnambiguousVariableParameterComparator: Getter for the field cvTermComparator.
getCvTermComparator() - Method in class psidev.psi.mi.jami.utils.comparator.experiment.VariableParameterComparator: Getter for the field cvTermComparator.
getCvTermComparator() - Method in class psidev.psi.mi.jami.utils.comparator.feature.FeatureBaseComparator: Getter for the field cvTermComparator.
getCvTermComparator() - Method in class psidev.psi.mi.jami.utils.comparator.feature.UnambiguousFeatureBaseComparator: getCvTermComparator
getCvTermComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.InteractionBaseComparator: Getter for the field cvTermComparator.
getCvTermComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousInteractionBaseComparator: getCvTermComparator
getCvTermComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.ComplexComparator: Getter for the field cvTermComparator.
getCvTermComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousComplexComparator: Getter for the field cvTermComparator.
getCvTermComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactComplexComparator: Getter for the field cvTermComparator.
getCvTermComparator() - Method in class psidev.psi.mi.jami.utils.comparator.organism.OrganismComparator
getCvTermComparator() - Method in class psidev.psi.mi.jami.utils.comparator.organism.UnambiguousOrganismComparator
getCvTermComparator() - Method in class psidev.psi.mi.jami.utils.comparator.parameter.ParameterComparator: Getter for the field cvTermComparator.
getCvTermComparator() - Method in class psidev.psi.mi.jami.utils.comparator.parameter.UnambiguousParameterComparator: Getter for the field cvTermComparator.
getCvTermComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.CausalRelationshipComparator: Getter for the field cvTermComparator.
getCvTermComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.ParticipantBaseComparator: Getter for the field cvTermComparator.
getCvTermComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousCausalRelationshipComparator: Getter for the field cvTermComparator.
getCvTermComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactCausalRelationshipComparator: Getter for the field cvTermComparator.
getCvTermComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantBaseComparator
getCvTermComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousParticipantBaseComparator
getCvTermEnricher() - Method in interface psidev.psi.mi.jami.enricher.ExperimentEnricher: Gets the subEnricher for CvTerms.
getCvTermEnricher() - Method in interface psidev.psi.mi.jami.enricher.FeatureEnricher: Gets the subEnricher for CvTerms.
getCvTermEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorEnricher: Getter for the field cvTermEnricher.
getCvTermEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeInteractorEnricher: getCvTermEnricher.
getCvTermEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeModelledParticipantEnricher: getCvTermEnricher.
getCvTermEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeParticipantEnricher: getCvTermEnricher.
getCvTermEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeParticipantEvidenceEnricher: getCvTermEnricher.
getCvTermEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceEnricher: Gets the subEnricher for CvTerms.
getCvTermEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceUpdater: Gets the subEnricher for CvTerms.
getCvTermEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureUpdater: Gets the subEnricher for CvTerms.
getCvTermEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionEvidenceEnricher: Sets the sub enricher for CvTerms.
getCvTermEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionUpdater: Sets the sub enricher for CvTerms.
getCvTermEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullModelledInteractionEnricher: Sets the sub enricher for CvTerms.
getCvTermEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullOrganismEnricher: getCvTermEnricher.
getCvTermEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullOrganismUpdater: getCvTermEnricher.
getCvTermEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEvidenceUpdater: The current CvTerm enricher, If null, CvTerms will not be enriched.
getCvTermEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentEnricher: Gets the subEnricher for CvTerms.
getCvTermEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: Gets the subEnricher for CvTerms.
getCvTermEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEvidenceUpdater: Gets the subEnricher for CvTerms.
getCvTermEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEnricher: Sets the sub enricher for CvTerms.
getCvTermEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEvidenceUpdater: Sets the sub enricher for CvTerms.
getCvTermEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalModelledInteractionUpdater: Sets the sub enricher for CvTerms.
getCvTermEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOrganismEnricher: getCvTermEnricher.
getCvTermEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEnricher: The current CvTerm enricher, If null, CvTerms will not be enriched.
getCvTermEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEvidenceUpdater: The current CvTerm enricher, If null, CvTerms will not be enriched.
getCvTermEnricher() - Method in interface psidev.psi.mi.jami.enricher.InteractionEnricher: Sets the sub enricher for CvTerms.
getCvTermEnricher() - Method in interface psidev.psi.mi.jami.enricher.InteractorEnricher: getCvTermEnricher.
getCvTermEnricher() - Method in interface psidev.psi.mi.jami.enricher.OrganismEnricher: getCvTermEnricher.
getCvTermEnricher() - Method in interface psidev.psi.mi.jami.enricher.ParticipantEnricher: The current CvTerm enricher, If null, CvTerms will not be enriched.
getCvTermEnricherListener() - Method in interface psidev.psi.mi.jami.enricher.CvTermEnricher: The current CvTermEnricherListener.
getCvTermEnricherListener() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullCvTermUpdater: The current CvTermEnricherListener.
getCvTermEnricherListener() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalCvTermEnricher: The current CvTermEnricherListener.
getCvTermEnricherListener() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOntologyTermEnricher: getCvTermEnricherListener.
getCvTermEnricherListener() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalSourceEnricher: getCvTermEnricherListener.
getCvTermFetcher() - Method in interface psidev.psi.mi.jami.enricher.CvTermEnricher: The fetcher to be used for used to collect data.
getCvTermFetcher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullCvTermUpdater: The fetcher to be used for used for fetcher.
getCvTermFetcher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalCvTermEnricher: The fetcher to be used for used for fetcher.
getCvTermFetcher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOntologyTermEnricher: getCvTermFetcher.
getCvTermFetcher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalSourceEnricher: getCvTermFetcher.
getCvTermsCollectionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.CooperativityEvidenceComparator: Getter for the field cvTermsCollectionComparator.
getCvTermsIterator() - Method in interface psidev.psi.mi.jami.datasource.CvTermStream: The CV terms iterator for this datasource.
getCvWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonExperimentWriter: Getter for the field cvWriter.
getCvWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonFeatureWriter: Getter for the field cvWriter.
getCvWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonHostOrganismWriter: Getter for the field cvWriter.
getCvWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionWriter: Getter for the field cvWriter.
getCvWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractorWriter: Getter for the field cvWriter.
getCvWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonParticipantWriter: Getter for the field cvWriter.
getCvWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonPublicationWriter: Getter for the field cvWriter.
getCvWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlOrganismWriter: Getter for the field cvWriter.
getCvWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlCooperativeEffectWriter: Getter for the field cvWriter.
getCvWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlCooperativityEvidenceWriter: Getter for the field cvWriter.
getDatabase() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.SeqFeatureType: Gets the value of the database property.
getDatabase() - Method in class psidev.psi.mi.jami.model.impl.DefaultXref: Getter for the field database.
getDatabase() - Method in interface psidev.psi.mi.jami.model.Xref: The database is a controlled vocabulary term.
getDatabase() - Method in class psidev.psi.mi.jami.tab.extension.MitabXref: Getter for the field database.
getDatabase() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlXref: Getter for the field database.
getDatabase() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlXref: Getter for the field database.
getDatabase() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlXref: Getter for the field database.
getDatabaseIdentifier() - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.AbstractMIOntologyAccess: Getter for the field databaseIdentifier.
getDatabaseIdentifier() - Method in interface psidev.psi.mi.jami.bridges.ontologymanager.MIOntologyAccess: getDatabaseIdentifier.
getDatabaseName() - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.AbstractMIOntologyAccess: Getter for the field databaseName.
getDatabaseName() - Method in interface psidev.psi.mi.jami.bridges.ontologymanager.MIOntologyAccess: getDatabaseName.
getDatabaseRegexp() - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.AbstractMIOntologyAccess: Getter for the field databaseRegexp.
getDatabaseRegexp() - Method in interface psidev.psi.mi.jami.bridges.ontologymanager.MIOntologyAccess: getDatabaseRegexp.
getDataset() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Entry: Gets the value of the dataset property.
getDate() - Method in class psidev.psi.mi.jami.tab.extension.MitabDate: Getter for the field date.
getDbName() - Method in enum psidev.psi.mi.jami.bridges.uniprot.rest.SearchDatabase
getDbReference() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Entry: Gets the value of the dbReference property.
getDbSource() - Method in class psidev.psi.mi.jami.tab.extension.MitabAlias: Getter for the field dbSource.
getDdbjEmblGenbank() - Method in class psidev.psi.mi.jami.model.impl.DefaultNucleicAcid: Getter for the field ddbjEmblGenbank.
getDdbjEmblGenbank() - Method in interface psidev.psi.mi.jami.model.NucleicAcid: The unique DDBJ/EMBL/GemBank identifier which identifies the nucleic acid.
getDefaultCompactXmlOptions(Object, InteractionCategory, ComplexType, PsiXmlVersion) - Method in class psidev.psi.mi.jami.commons.MIWriterOptionFactory: Create the default options for the compact PSI-XML InteractionWriter.
getDefaultCsvOptions(Reader) - Method in class psidev.psi.mi.jami.crosslink.CrossLinkCsvOptionFactory: Create a map with the default options to retrieve the default MI datasource that will read the reader content.
getDefaultCsvOptions(Object) - Method in class psidev.psi.mi.jami.crosslink.CrossLinkCsvOptionFactory: Create the default options for the CSV datasource.
getDefaultExpandedXmlOptions(Object, InteractionCategory, ComplexType, PsiXmlVersion) - Method in class psidev.psi.mi.jami.commons.MIWriterOptionFactory: Create the options for the default expanded PSI-XML InteractionWriter.
getDefaultExperiment() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: Getter for the field defaultExperiment.
getDefaultExperiment() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParameterWriter: The default experiment that will be used to write a valid XML file but is not a real experiment attached to the interaction.
getDefaultExperiment() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25.XmlParameterWriter: The default experiment that will be used to write a valid XML file but is not a real experiment attached to the interaction.
getDefaultExperiment() - Method in interface psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlInteractionWriter: The default experiment that will be used to write a valid XML file but is not a real experiment attached to the interaction.
getDefaultExperiment() - Method in interface psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlParameterWriter: The default experiment that will be used to write a valid XML file but is not a real experiment attached to the interaction.
getDefaultExperiments() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.AbstractXmlInteractionEvidenceWriter: The default experiments that will be used to write a valid XML file but are not real experiments attached to the interaction.
getDefaultExperiments() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.AbstractXmlModelledInteractionWriter: The default experiments that will be used to write a valid XML file but are not real experiments attached to the interaction.
getDefaultExperiments() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlInteractionWriter: The default experiments that will be used to write a valid XML file but are not real experiments attached to the interaction.
getDefaultExperiments() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlModelledInteractionWriter: The default experiments that will be used to write a valid XML file but are not real experiments attached to the interaction.
getDefaultExperiments() - Method in interface psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlExtendedInteractionWriter: The default experiments that will be used to write a valid XML file but are not real experiments attached to the interaction.
getDefaultFileOptions(MIFileType, Object) - Method in class psidev.psi.mi.jami.commons.MIDataSourceOptionFactory: Create a map of default options depending on the provided sourceType.
getDefaultFileOptions(CsvType, Object) - Method in class psidev.psi.mi.jami.crosslink.CrossLinkCsvOptionFactory: Create a map of default options depending on the provided sourceType.
getDefaultHtmlOptions(File) - Method in class psidev.psi.mi.jami.html.MIHtmlOptionFactory: Create the options for a HTML interaction writer.
getDefaultHtmlOptions(OutputStream) - Method in class psidev.psi.mi.jami.html.MIHtmlOptionFactory: Create the options for a HTML interaction writer.
getDefaultHtmlOptions(Writer) - Method in class psidev.psi.mi.jami.html.MIHtmlOptionFactory: Create the options for a Html interaction writer.
getDefaultJsonOptions(File) - Method in class psidev.psi.mi.jami.json.MIJsonOptionFactory: Create the options for a JSON interaction writer.
getDefaultJsonOptions(OutputStream) - Method in class psidev.psi.mi.jami.json.MIJsonOptionFactory: Create the options for a JSON interaction writer.
getDefaultJsonOptions(Writer) - Method in class psidev.psi.mi.jami.json.MIJsonOptionFactory: Create the options for a JSON interaction writer.
getDefaultMitabOptions(File) - Method in class psidev.psi.mi.jami.commons.MIWriterOptionFactory: Create the options for a MITAB interaction writer.
getDefaultMitabOptions(OutputStream) - Method in class psidev.psi.mi.jami.commons.MIWriterOptionFactory: Create the options for a MITAB interaction writer.
getDefaultMitabOptions(Writer) - Method in class psidev.psi.mi.jami.commons.MIWriterOptionFactory: Create the options for a MITAB interaction writer.
getDefaultMitabOptions(Object) - Method in class psidev.psi.mi.jami.commons.MIDataSourceOptionFactory: Create the default options for the MITAB datasource.
getDefaultOptions(File) - Method in class psidev.psi.mi.jami.commons.MIDataSourceOptionFactory: Create a map with the default options to retrieve the default MI datasource that will read the file content.
getDefaultOptions(File) - Method in class psidev.psi.mi.jami.crosslink.CrossLinkCsvOptionFactory: Create a map with the default options to retrieve the default MI datasource that will read the file content.
getDefaultOptions(InputStream) - Method in class psidev.psi.mi.jami.commons.MIDataSourceOptionFactory: Create a map with the default options to retrieve the default MI datasource that will read the inputstream content.
getDefaultOptions(InputStream) - Method in class psidev.psi.mi.jami.crosslink.CrossLinkCsvOptionFactory: Create a map with the default options to retrieve the default MI datasource that will read the inputstream content.
getDefaultOptions(Reader) - Method in class psidev.psi.mi.jami.commons.MIDataSourceOptionFactory: Create a map with the default options to retrieve the default MI datasource that will read the reader content.
getDefaultOptions(URL) - Method in class psidev.psi.mi.jami.commons.MIDataSourceOptionFactory: Creates a map with the default options to retrieve MI datasource that will read the URL content
getDefaultOptions(URL) - Method in class psidev.psi.mi.jami.crosslink.CrossLinkCsvOptionFactory: Creates a map with the default options to retrieve MI datasource that will read the URL content
getDefaultPublication() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: getDefaultPublication.
getDefaultPublication() - Method in interface psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlExperimentWriter: getDefaultPublication.
getDefaultReleaseDate() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.AbstractXmlSourceWriter: getDefaultReleaseDate.
getDefaultReleaseDate() - Method in interface psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlSourceWriter: getDefaultReleaseDate.
getDefaultXmlOptions(File) - Method in class psidev.psi.mi.jami.commons.MIWriterOptionFactory: getDefaultXmlOptions.
getDefaultXmlOptions(OutputStream) - Method in class psidev.psi.mi.jami.commons.MIWriterOptionFactory: getDefaultXmlOptions.
getDefaultXmlOptions(Writer) - Method in class psidev.psi.mi.jami.commons.MIWriterOptionFactory: getDefaultXmlOptions.
getDefaultXmlOptions(Object) - Method in class psidev.psi.mi.jami.commons.MIDataSourceOptionFactory: Create the default options for the Psi-XML 2.5 datasource.
getDefaultXmlOptions(Object, InteractionCategory, ComplexType, PsiXmlType, PsiXmlVersion) - Method in class psidev.psi.mi.jami.commons.MIWriterOptionFactory: getDefaultXmlOptions.
getDefinition() - Method in class psidev.psi.mi.jami.bridges.ols.LazyOntologyTerm: Getter for the field definition.
getDefinition() - Method in class psidev.psi.mi.jami.model.impl.DefaultOntologyTerm: Getter for the field definition.
getDefinition() - Method in interface psidev.psi.mi.jami.model.OntologyTerm: The definition of the controlled vocabulary as it appears in the ontology.
getDelegate() - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.OntologyTermWrapper: Getter for the field delegate.
getDelegate() - Method in interface psidev.psi.mi.jami.bridges.ontologymanager.MIOntologyTermI: getDelegate.
getDelegate() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullExperimentUpdater: Getter for the field delegate.
getDelegate() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionUpdater: Getter for the field delegate.
getDelegate() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalCuratedPublicationEnricher: Getter for the field delegate.
getDelegate() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEvidenceUpdater: Getter for the field delegate.
getDelegate() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalModelledInteractionUpdater: Getter for the field delegate.
getDelegate() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalSourceEnricher: Getter for the field delegate.
getDelegate() - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabSource: Getter for the field delegate.
getDelegate() - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: Getter for the field delegate.
getDelegate() - Method in class psidev.psi.mi.jami.tab.io.writer.DefaultMitabWriter: Getter for the field delegate.
getDelegate() - Method in class psidev.psi.mi.jami.xml.io.writer.DefaultXmlWriter: Getter for the field delegate.
getDelegate() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlSource: Getter for the field delegate.
getDelegate() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: Getter for the field delegate.
getDelegate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: Getter for the field delegate.
getDelegate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: Getter for the field delegate.
getDelegate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: Getter for the field delegate.
getDelegate() - Method in class psidev.psi.mi.jami.xml.model.reference.AbstractFeatureRef: Getter for the field delegate.
getDelegate() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: Getter for the field delegate.
getDelegate() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractEntityRef: Getter for the field delegate.
getDelegate() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: Getter for the field delegate.
getDelegate() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractInteractorRef: Getter for the field delegate.
getDelegate() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractParticipantRef: Getter for the field delegate.
getDelegate() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: Getter for the field delegate.
getDelegate() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractEntityRef: Getter for the field delegate.
getDelegate() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: Getter for the field delegate.
getDelegate() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractInteractorRef: Getter for the field delegate.
getDelegate() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractParticipantRef: Getter for the field delegate.
getDelegate() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: Getter for the field delegate.
getDelegate() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractEntityRef: Getter for the field delegate.
getDelegate() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: Getter for the field delegate.
getDelegate() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractInteractorRef: Getter for the field delegate.
getDelegate() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractParticipantRef: Getter for the field delegate.
getDelegateFetcher() - Method in class psidev.psi.mi.jami.bridges.ols.CachedOlsFetcher: Getter for the field delegateFetcher.
getDelegateFetcher() - Method in class psidev.psi.mi.jami.bridges.ols.CachedOlsOntologyTermFetcher: Getter for the field delegateFetcher.
getDelegateFetchers() - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.CvTermCompositeFetcherTemplate: Getter for the field delegateFetchers.
getDelegateParser() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsixmlBinaryParser: Getter for the field delegateParser.
getDelegates() - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserCompositeListener: Getter for the field delegates.
getDescription() - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameter: Getter for the field description.
getDescription() - Method in interface psidev.psi.mi.jami.model.VariableParameter: A short description of this variableParameter such as PMA treatment, cell cycle, ...
getDescription() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameter: Getter for the field description.
getDescription() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameter: Getter for the field description.
getDescription() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameter: Getter for the field description.
getDetectionMethods() - Method in interface psidev.psi.mi.jami.model.FeatureEvidence: The collection of feature detection methods.
getDetectionMethods() - Method in class psidev.psi.mi.jami.model.impl.DefaultFeatureEvidence: Getter for the field detectionMethods.
getDetectionMethods() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence: getDetectionMethods.
getDetectionMethods() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence: getDetectionMethods.
getDetectionMethods() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence: getDetectionMethods.
getDetectionMethodWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: Getter for the field detectionMethodWriter.
getDifferentObservations() - Method in class psidev.psi.mi.jami.listener.comparator.observer.ComplexComparatorObserver
getDiffOperation() - Method in enum psidev.psi.mi.jami.enricher.util.diff.Operation: Getter for the field diffOperation.
getDirectChildren(MIOntologyTermI) - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.AbstractMIOntologyAccess: getDirectChildren.
getDirectParents(MIOntologyTermI) - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.AbstractMIOntologyAccess: getDirectParents.
getDoi() - Method in class psidev.psi.mi.jami.bridges.imex.extension.ImexPublication: Getter for the field doi.
getDoi() - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: Getter for the field doi.
getDoi() - Method in interface psidev.psi.mi.jami.model.Publication: The doi number which identifies the publication.
getDoi() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: getDoi.
getDoi() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.PublicationXrefContainer: Getter for the field doi.
getDoi() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: getDoi.
getDoi() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.PublicationXrefContainer: Getter for the field doi.
getDoi() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: getDoi.
getDoi() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.PublicationXrefContainer: Getter for the field doi.
getDoiId(Experiment) - Static method in class psidev.psi.mi.jami.utils.ExperimentUtils: getDoiId
getDoiReference(Experiment) - Static method in class psidev.psi.mi.jami.utils.ExperimentUtils: getDoiReference
getDoiReference(Publication) - Static method in class psidev.psi.mi.jami.utils.PublicationUtils: getDoiReference
getEffectorType() - Method in interface psidev.psi.mi.jami.model.AllostericEffector: The type of allosteric effector.
getEffectorType() - Method in class psidev.psi.mi.jami.model.impl.DefaultFeatureModificationEffector: getEffectorType
getEffectorType() - Method in class psidev.psi.mi.jami.model.impl.DefaultMoleculeEffector: getEffectorType
getEffectorType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureModificationEffector: getEffectorType.
getEffectorType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlMoleculeEffector: getEffectorType.
getEffectorType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureModificationEffector: getEffectorType.
getEffectorType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlMoleculeEffector: getEffectorType.
getEffectorType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureModificationEffector: getEffectorType.
getEffectorType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlMoleculeEffector: getEffectorType.
getElementCache() - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Getter for the field elementCache.
getElementCache() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Getter for the field elementCache.
getEnd() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.LocationType: Gets the value of the end property.
getEnd() - Method in class psidev.psi.mi.jami.model.impl.DefaultPosition: Getter for the field end.
getEnd() - Method in class psidev.psi.mi.jami.model.impl.DefaultRange: Getter for the field end.
getEnd() - Method in interface psidev.psi.mi.jami.model.Position: The end position in the molecule sequence.
getEnd() - Method in interface psidev.psi.mi.jami.model.Range: The end position of the feature range in the interactor sequence It cannot be null
getEnd() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInterval: Getter for the field end.
getEnd() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPosition: getEnd.
getEnd() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlRange: Getter for the field end.
getEnd() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInterval: Getter for the field end.
getEnd() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPosition: getEnd.
getEnd() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlRange: Getter for the field end.
getEnd() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInterval: Getter for the field end.
getEnd() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPosition: getEnd.
getEnd() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlRange: Getter for the field end.
getEndColumn() - Method in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream: Get end column.
getEndColumn() - Method in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Get token end column number.
getEndLine() - Method in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream: Get end line.
getEndLine() - Method in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Get token end line number.
getEndpoint() - Method in class psidev.psi.mi.jami.bridges.imex.DefaultImexCentralClient: getEndpoint.
getEndpoint() - Method in interface psidev.psi.mi.jami.bridges.imex.ImexCentralClient: getEndpoint.
getEndpoint() - Method in class psidev.psi.mi.jami.bridges.imex.mock.MockImexCentralClient: getEndpoint.
getEndPositionWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlRangeWriter: Getter for the field endPositionWriter.
getEnsembl() - Method in interface psidev.psi.mi.jami.model.Gene: The unique Ensembl accession which identifies the gene.
getEnsembl() - Method in class psidev.psi.mi.jami.model.impl.DefaultGene: Getter for the field ensembl.
getEnsemblGenome() - Method in interface psidev.psi.mi.jami.model.Gene: The Ensembl genome accession which identifies the gene.
getEnsemblGenome() - Method in class psidev.psi.mi.jami.model.impl.DefaultGene: Getter for the field ensemblGenome.
getEntityBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.EntityComparator: Getter for the field entityBaseComparator.
getEntityBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.ModelledEntityComparator: getEntityBaseComparator
getEntityBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.ParticipantBaseComparator: getEntityBaseComparator
getEntityBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousEntityComparator: Getter for the field entityBaseComparator.
getEntityBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactEntityComparator: Getter for the field entityBaseComparator.
getEntityBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactModelledEntityComparator
getEntityBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantBaseComparator: getEntityBaseComparator
getEntityBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousModelledEntityComparator: getEntityBaseComparator
getEntityBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousParticipantBaseComparator: getEntityBaseComparator
getEntityBaseEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeEntityEnricher: Getter for the field entityBaseEnricher.
getEntityBaseEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeParticipantEnricher: Getter for the field entityBaseEnricher.
getEntrezGeneId() - Method in interface psidev.psi.mi.jami.model.Gene: The Entrez gene id which identifies this gene.
getEntrezGeneId() - Method in class psidev.psi.mi.jami.model.impl.DefaultGene: Getter for the field entrezGeneId.
getEntries() - Method in class psidev.psi.mi.jami.xml.model.AbstractEntrySet: Getter for the field entries.
getEntries() - Method in class psidev.psi.mi.jami.xml.model.xml253.Xml253BasicEntrySet: getEntries.
getEntries() - Method in class psidev.psi.mi.jami.xml.model.xml253.Xml253ComplexEntrySet: getEntries.
getEntries() - Method in class psidev.psi.mi.jami.xml.model.xml253.Xml253ExperimentalEntrySet: getEntries.
getEntries() - Method in class psidev.psi.mi.jami.xml.model.xml253.Xml253ModelledEntrySet: getEntries.
getEntries() - Method in class psidev.psi.mi.jami.xml.model.xml254.Xml254BasicEntrySet: getEntries.
getEntries() - Method in class psidev.psi.mi.jami.xml.model.xml254.Xml254ComplexEntrySet: getEntries.
getEntries() - Method in class psidev.psi.mi.jami.xml.model.xml254.Xml254ExperimentalEntrySet: getEntries.
getEntries() - Method in class psidev.psi.mi.jami.xml.model.xml254.Xml254ModelledEntrySet: getEntries.
getEntries() - Method in class psidev.psi.mi.jami.xml.model.xml30.Xml300EntrySet: getEntries.
getEntries(Collection<String>) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.AbstractFailingFetcher: getEntries.
getEntry() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Uniparc: Gets the value of the entry property.
getEntry() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractExtendedXmlBinaryInteraction: getEntry.
getEntry() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteraction: getEntry.
getEntry() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: getEntry.
getEntry() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: getEntry.
getEntry() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: getEntry.
getEntry() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: getEntry.
getEntry() - Method in interface psidev.psi.mi.jami.xml.model.extension.PsiXmlInteraction: getEntry.
getEntry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: Getter for the field entry.
getEntry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: getEntry.
getEntry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: getEntry.
getEntry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: getEntry.
getEntry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: Getter for the field entry.
getEntry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: getEntry.
getEntry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: getEntry.
getEntry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: getEntry.
getEntry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: Getter for the field entry.
getEntry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: getEntry.
getEntry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: getEntry.
getEntry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: getEntry.
getEntry() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: getEntry.
getEntry() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: getEntry.
getEntry() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: getEntry.
getEntry(String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.AbstractFailingFetcher: getEntry.
getEntry(String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.AbstractMockFetcher: getEntry.
getEntry(String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.FailingGeneFetcher: getEntry.
getEntry(String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.FailingProteinFetcher: getEntry.
getEntry(String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockGeneFetcher: getEntry.
getEntry(String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.MockProteinFetcher: getEntry.
getEntryId() - Method in class psidev.psi.mi.jami.xml.cache.EntryLocation: Getter for the field entryId.
getEntrySet() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractFullPsiXmlParser: Getter for the field entrySet.
getEntrySet() - Method in interface psidev.psi.mi.jami.xml.io.parser.FullPsiXmlParser: getEntrySet.
getEntrySet() - Method in class psidev.psi.mi.jami.xml.io.parser.FullXmlBinaryEvidenceParser: getEntrySet.
getEntrySet() - Method in class psidev.psi.mi.jami.xml.io.parser.FullXmlBinaryParser: getEntrySet.
getEntrySet() - Method in class psidev.psi.mi.jami.xml.io.parser.FullXmlModelledBinaryParser: getEntrySet.
getEntrySet() - Method in class psidev.psi.mi.jami.xml.io.parser.LightFullXmlBinaryParser: getEntrySet.
getEventType() - Method in class psidev.psi.mi.jami.listener.comparator.event.ComplexComparisonEvent
getEvidenceEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullModelledInteractionEnricher: Getter for the field evidenceEnricher.
getEvidenceMethods() - Method in interface psidev.psi.mi.jami.model.CooperativityEvidence: The collection of methods used to infer the cooperative effect.
getEvidenceMethods() - Method in class psidev.psi.mi.jami.model.impl.DefaultCooperativityEvidence: Getter for the field evidenceMethods.
getEvidenceMethods() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlCooperativityEvidence: Getter for the field evidenceMethods.
getEvidenceMethods() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlCooperativityEvidence: Getter for the field evidenceMethods.
getEvidenceMethods() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCooperativityEvidence: getEvidenceMethods.
getEvidenceType() - Method in class psidev.psi.mi.jami.binary.impl.DefaultModelledBinaryInteraction: getEvidenceType
getEvidenceType() - Method in class psidev.psi.mi.jami.binary.impl.ModelledBinaryInteractionWrapper: getEvidenceType
getEvidenceType() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: Getter for the field evidenceType.
getEvidenceType() - Method in class psidev.psi.mi.jami.model.impl.DefaultModelledInteraction: Getter for the field evidenceType.
getEvidenceType() - Method in interface psidev.psi.mi.jami.model.ModelledInteraction: The evidence type for this modelled interactions.
getEvidenceType() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: Getter for the field evidenceType.
getEvidenceType() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: The evidence type for this modelled interactions.
getEvidenceType() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteraction: Getter for the field evidenceType.
getEvidenceType() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: The evidence type for this modelled interactions.
getEvidenceType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction: Getter for the field evidenceType.
getEvidenceType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: The evidence type for this modelled interactions.
getEvidenceType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: The evidence type for this modelled interactions.
getEvidenceType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: The evidence type for this modelled interactions.
getEvidenceType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction: Getter for the field evidenceType.
getEvidenceType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: The evidence type for this modelled interactions.
getEvidenceType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: The evidence type for this modelled interactions.
getEvidenceType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: The evidence type for this modelled interactions.
getEvidenceType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction: Getter for the field evidenceType.
getEvidenceType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: The evidence type for this modelled interactions.
getEvidenceType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: The evidence type for this modelled interactions.
getEvidenceType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: Getter for the field evidenceType.
getEvidenceType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: The evidence type for this modelled interactions.
getEvidenceType() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: The evidence type for this modelled interactions.
getEvidenceType() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: The evidence type for this modelled interactions.
getEvidenceType() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: The evidence type for this modelled interactions.
getEvidenceWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlMixWriter: Getter for the field evidenceWriter.
getExistingPublicationInImexCentral(String, String) - Method in interface psidev.psi.mi.jami.imex.actions.ImexCentralPublicationRegister: Retrieve an existing record in IMEx central matching the publication identifier (pubmed, doi, jint or imex).
getExistingPublicationInImexCentral(String, String) - Method in class psidev.psi.mi.jami.imex.actions.impl.ImexCentralPublicationRegisterImpl: Retrieve an existing record in IMEx central matching the publication identifier (pubmed, doi, jint or imex).
getExpandedXmlOptions(Object, InteractionCategory, ComplexType, Source, XMLGregorianCalendar, Collection<Annotation>, PsiXmlVersion) - Method in class psidev.psi.mi.jami.commons.MIWriterOptionFactory: Create the options for the expanded PSI-XML InteractionWriter.
getExpandedXmlOptions(Object, InteractionCategory, ComplexType, PsiXmlObjectCache, Set<Interaction>, boolean, boolean, PsiXmlVersion) - Method in class psidev.psi.mi.jami.commons.MIWriterOptionFactory: Create the options for the expanded PSI-XML InteractionWriter.
getExpandedXmlOptions(Object, InteractionCategory, ComplexType, PsiXmlObjectCache, Set<Interaction>, Source, XMLGregorianCalendar, Collection<Annotation>, boolean, boolean, PsiXmlVersion) - Method in class psidev.psi.mi.jami.commons.MIWriterOptionFactory: Create the options for the compact PSI-XML InteractionWriter.
getExpansionId() - Method in class psidev.psi.mi.jami.json.binary.AbstractMIJsonBinaryWriter: Getter for the field expansionId.
getExpansionMethod() - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitabWriter: Getter for the field expansionMethod.
getExpansionMethod() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsixmlBinaryParser: Getter for the field expansionMethod.
getExpectedPublicationDate() - Method in class psidev.psi.mi.jami.bridges.imex.extension.ImexPublication: Getter for the field expectedPublicationDate.
getExperiment() - Method in class psidev.psi.mi.jami.binary.impl.BinaryInteractionEvidenceWrapper: getExperiment
getExperiment() - Method in class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: Getter for the field experiment.
getExperiment() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: Getter for the field experiment.
getExperiment() - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameter: Getter for the field experiment.
getExperiment() - Method in interface psidev.psi.mi.jami.model.InteractionEvidence: The experiment which determined the interaction.
getExperiment() - Method in interface psidev.psi.mi.jami.model.VariableParameter: The experiment where this variableParameter has been used.
getExperiment() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: getExperiment.
getExperiment() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: The experiment which determined the interaction.
getExperiment() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: getExperiment.
getExperiment() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParameter: Getter for the field experiment.
getExperiment() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameter: Getter for the field experiment.
getExperiment() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: getExperiment.
getExperiment() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParameter: Getter for the field experiment.
getExperiment() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameter: Getter for the field experiment.
getExperiment() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: getExperiment.
getExperiment() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParameter: Getter for the field experiment.
getExperiment() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameter: Getter for the field experiment.
getExperiment(int) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: getExperiment.
getExperiment(int) - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: getExperiment.
getExperiment(int) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: getExperiment.
getExperimentalCvWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantEvidenceWriter: getExperimentalCvWriter.
getExperimentalEntityComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.EntityComparator: Getter for the field experimentalEntityComparator.
getExperimentalEntityComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.ExperimentalParticipantPoolComparator: Getter for the field experimentalEntityComparator.
getExperimentalEntityComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousEntityComparator: Getter for the field experimentalEntityComparator.
getExperimentalEntityComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactEntityComparator: Getter for the field experimentalEntityComparator.
getExperimentalEntityComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactExperimentalParticipantPoolComparator
getExperimentalEntityComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExperimentalParticipantPoolComparator
getExperimentalEntityEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeEntityEnricher: Getter for the field experimentalEntityEnricher.
getExperimentalEntityEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeParticipantEnricher: Getter for the field experimentalEntityEnricher.
getExperimentalFeatureComparator() - Method in class psidev.psi.mi.jami.utils.comparator.feature.FeatureComparator: Getter for the field experimentalFeatureComparator.
getExperimentalInteractionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.InteractionComparator: Getter for the field experimentalInteractionComparator.
getExperimentalInteractionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousCuratedInteractionComparator: Getter for the field experimentalInteractionComparator.
getExperimentalInteractionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactCuratedInteractionComparator: Getter for the field experimentalInteractionComparator.
getExperimentalInteractionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactInteractionComparator: Getter for the field experimentalInteractionComparator.
getExperimentalInteractionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousInteractionComparator: Getter for the field experimentalInteractionComparator.
getExperimentalInteractors() - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlParticipantEvidence: getExperimentalInteractors.
getExperimentalInteractors() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: getExperimentalInteractors.
getExperimentalInteractors() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: getExperimentalInteractors.
getExperimentalInteractors() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: getExperimentalInteractors.
getExperimentalInteractorWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlParticipantEvidenceWriter: Getter for the field experimentalInteractorWriter.
getExperimentalInteractorWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlParticipantEvidenceWriter: Getter for the field experimentalInteractorWriter.
getExperimentalInteractorWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlParticipantEvidenceWriter: Getter for the field experimentalInteractorWriter.
getExperimentalInteractorWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlParticipantEvidenceWriter: Getter for the field experimentalInteractorWriter.
getExperimentalParticipantComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.ParticipantComparator: Getter for the field experimentalParticipantComparator.
getExperimentalParticipantComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantComparator: Getter for the field experimentalParticipantComparator.
getExperimentalParticipantComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousParticipantComparator: Getter for the field experimentalParticipantComparator.
getExperimentalPreparations() - Method in class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantPool: Getter for the field experimentalPreparations.
getExperimentalPreparations() - Method in class psidev.psi.mi.jami.model.impl.DefaultParticipantEvidence: Getter for the field experimentalPreparations.
getExperimentalPreparations() - Method in interface psidev.psi.mi.jami.model.ParticipantEvidence: The experimental preparations for this participant.
getExperimentalPreparations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantPool: The experimental preparations for this participant.
getExperimentalPreparations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: getExperimentalPreparations.
getExperimentalPreparations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantPool: The experimental preparations for this participant.
getExperimentalPreparations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: getExperimentalPreparations.
getExperimentalPreparations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantPool: The experimental preparations for this participant.
getExperimentalPreparations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: getExperimentalPreparations.
getExperimentalRole() - Method in class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantPool: Getter for the field experimentalRole.
getExperimentalRole() - Method in class psidev.psi.mi.jami.model.impl.DefaultParticipantEvidence: Getter for the field experimentalRole.
getExperimentalRole() - Method in interface psidev.psi.mi.jami.model.ParticipantEvidence: The experimental role of the participant.
getExperimentalRole() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantPool: The experimental role of the participant.
getExperimentalRole() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: getExperimentalRole.
getExperimentalRole() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantPool: The experimental role of the participant.
getExperimentalRole() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: getExperimentalRole.
getExperimentalRole() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantPool: The experimental role of the participant.
getExperimentalRole() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: getExperimentalRole.
getExperimentalRoles() - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlParticipantEvidence: getExperimentalRoles.
getExperimentalRoles() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: getExperimentalRoles.
getExperimentalRoles() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: getExperimentalRoles.
getExperimentalRoles() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: getExperimentalRoles.
getExperimentComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.InteractionEvidenceComparator: Getter for the field experimentComparator.
getExperimentComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousCuratedInteractionEvidenceComparator: Getter for the field experimentComparator.
getExperimentComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactCuratedInteractionEvidenceComparator: Getter for the field experimentComparator.
getExperimentComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactInteractionEvidenceComparator: Getter for the field experimentComparator.
getExperimentComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousInteractionEvidenceComparator: Getter for the field experimentComparator.
getExperimentEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEvidenceEnricher: The experimentEnricher which is currently being used for the enriching or updating of experiments.
getExperimentEnricher() - Method in interface psidev.psi.mi.jami.enricher.InteractionEvidenceEnricher: The experimentEnricher which is currently being used for the enriching or updating of experiments.
getExperimentEnricherListener() - Method in interface psidev.psi.mi.jami.enricher.ExperimentEnricher: Gets current ExperimentEnricherListener.
getExperimentEnricherListener() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentEnricher: Gets current ExperimentEnricherListener.
getExperimentNamesContainer() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: Gets the value of the experimentNamesContainer property.
getExperimentNamesContainer() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: Gets the value of the experimentNamesContainer property.
getExperimentNamesContainer() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: Gets the value of the experimentNamesContainer property.
getExperiments() - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: Getter for the field experiments.
getExperiments() - Method in interface psidev.psi.mi.jami.model.Publication: The curated experiments which have been described in the publication.
getExperiments() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: Getter for the field experiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractExperimentalInteractor.AbstractJAXBExperimentRefWrapper
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractExperimentalInteractor
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractInferredInteraction.AbstractJAXBExperimentRefWrapper
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractInferredInteraction: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteraction: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: getExperiments.
getExperiments() - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlFeatureEvidence: getExperiments.
getExperiments() - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlInteractionEvidence: getExperiments.
getExperiments() - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlModelledInteraction: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: Getter for the field experiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.ExperimentalCvTerm: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.ExperimentalInteractor: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.HostOrganism: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.InferredInteraction: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlConfidence: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: Getter for the field experiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.ExperimentalCvTerm: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.ExperimentalInteractor: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.HostOrganism: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.InferredInteraction: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlConfidence: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: Getter for the field experiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.ExperimentalCvTerm: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.ExperimentalInteractor: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.HostOrganism: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.InferredInteraction: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlConfidence: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.xml253.ComplexEntry: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.xml253.ExperimentalEntry: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.xml253.ModelledEntry: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.xml254.ComplexEntry: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.xml254.ExperimentalEntry: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.xml254.ModelledEntry: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.xml30.ComplexEntry: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.xml30.Entry: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.xml30.ExperimentalEntry: getExperiments.
getExperiments() - Method in class psidev.psi.mi.jami.xml.model.xml30.ModelledEntry: getExperiments.
getExperimentsIterator() - Method in interface psidev.psi.mi.jami.datasource.ExperimentStream: The experiments iterator for this datasource.
getExperimentWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionEvidenceWriter: Getter for the field experimentWriter.
getExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: Getter for the field experimentWriter.
getExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: Getter for the field experimentWriter.
getExponent() - Method in class psidev.psi.mi.jami.model.ParameterValue: Exponent of the base.
getExpressedInOrganism() - Method in class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantPool: getExpressedInOrganism
getExpressedInOrganism() - Method in class psidev.psi.mi.jami.model.impl.DefaultParticipantEvidence: getExpressedInOrganism
getExpressedInOrganism() - Method in interface psidev.psi.mi.jami.model.ParticipantEvidence: The organisms in which the participant has been expressed.
getExpressedInOrganism() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantPool: The organisms in which the participant has been expressed.
getExpressedInOrganism() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: getExpressedInOrganism.
getExpressedInOrganism() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantPool: The organisms in which the participant has been expressed.
getExpressedInOrganism() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: getExpressedInOrganism.
getExpressedInOrganism() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantPool: The organisms in which the participant has been expressed.
getExpressedInOrganism() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: getExpressedInOrganism.
getExternalIdentifierCollectionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.feature.FeatureBaseComparator: Getter for the field externalIdentifierCollectionComparator.
getFactor() - Method in class psidev.psi.mi.jami.model.ParameterValue: The "main" value of the parameter.
getFailureWriter() - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.EnricherStatisticsWriter: Getter for the field failureWriter.
getFastaSequence(String, int) - Method in class psidev.psi.mi.jami.bridges.unisave.UnisaveClient: Retrieve a fasta sequence corresponding to a given EntryVersion.
getFeature() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractInferredInteractionParticipant: Getter for the field feature.
getFeature(int) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: getFeature.
getFeature(int) - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: getFeature.
getFeature(int) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: getFeature.
getFeatureBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.feature.FeatureComparator: Getter for the field featureBaseComparator.
getFeatureBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.feature.UnambiguousFeatureComparator
getFeatureCollectionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.ExperimentalEntityComparator: Getter for the field featureCollectionComparator.
getFeatureCollectionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.ExperimentalParticipantPoolComparator: Getter for the field featureCollectionComparator.
getFeatureCollectionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.ModelledEntityComparator: Getter for the field featureCollectionComparator.
getFeatureCollectionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.ModelledParticipantPoolComparator: Getter for the field featureCollectionComparator.
getFeatureComparator() - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.FeatureModificationEffectorComparator: Getter for the field featureComparator.
getFeatureComparator() - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousFeatureModificationEffectorComparator: Getter for the field featureComparator.
getFeatureComparator() - Method in class psidev.psi.mi.jami.utils.comparator.feature.FeatureEvidenceComparator: Getter for the field featureComparator.
getFeatureComparator() - Method in class psidev.psi.mi.jami.utils.comparator.feature.ModelledFeatureComparator: Getter for the field featureComparator.
getFeatureComparator() - Method in class psidev.psi.mi.jami.utils.comparator.feature.UnambiguousFeatureEvidenceComparator: Getter for the field featureComparator.
getFeatureComparator() - Method in class psidev.psi.mi.jami.utils.comparator.feature.UnambiguousModelledFeaturecomparator: Getter for the field featureComparator.
getFeatureDetectionMethod() - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlExperiment: getFeatureDetectionMethod.
getFeatureDetectionMethod() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: Gets the value of the featureDetectionMethod property.
getFeatureDetectionMethod() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: Gets the value of the featureDetectionMethod property.
getFeatureDetectionMethod() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: Gets the value of the featureDetectionMethod property.
getFeatureDetectionMethod() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: getFeatureDetectionMethod.
getFeatureDetectionMethod() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: getFeatureDetectionMethod.
getFeatureDetectionMethod() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: getFeatureDetectionMethod.
getFeatureEnricher() - Method in interface psidev.psi.mi.jami.enricher.EntityEnricher: The current enricher used for features.
getFeatureEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeEntityEnricher: getFeatureEnricher.
getFeatureEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeModelledParticipantEnricher: getFeatureEnricher.
getFeatureEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeParticipantEnricher: getFeatureEnricher.
getFeatureEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeParticipantEvidenceEnricher: getFeatureEnricher.
getFeatureEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEvidenceUpdater: The current enricher used for features.
getFeatureEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalEntityEnricher: The current enricher used for features.
getFeatureEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEvidenceUpdater: The current enricher used for features.
getFeatureEnricherListener() - Method in interface psidev.psi.mi.jami.enricher.FeatureEnricher: Retrieves the listener of feature changes.
getFeatureEnricherListener() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceEnricher: Retrieves the listener of feature changes.
getFeatureEnricherListener() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceUpdater: Retrieves the listener of feature changes.
getFeatureEnricherListener() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureUpdater: Retrieves the listener of feature changes.
getFeatureEnricherListener() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: Retrieves the listener of feature changes.
getFeatureEnricherListener() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEvidenceUpdater: Retrieves the listener of feature changes.
getFeatureModification() - Method in interface psidev.psi.mi.jami.model.FeatureModificationEffector: Refers to the modification (feature) that elicits an allosteric response in an allosteric molecule.
getFeatureModification() - Method in class psidev.psi.mi.jami.model.impl.DefaultFeatureModificationEffector: getFeatureModification
getFeatureModification() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureModificationEffector: getFeatureModification.
getFeatureModification() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureModificationEffector: getFeatureModification.
getFeatureModification() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureModificationEffector: getFeatureModification.
getFeatureModificationEffectorComparator() - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.AllosteryComparator: Getter for the field featureModificationEffectorComparator.
getFeatureModificationEffectorComparator() - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousAllosteryComparator: Getter for the field featureModificationEffectorComparator.
getFeatureModificationEffectorComparator() - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousExactAllosteryComparator: Getter for the field featureModificationEffectorComparator.
getFeatures() - Method in interface psidev.psi.mi.jami.model.Entity: Properties for this entity.
getFeatures() - Method in class psidev.psi.mi.jami.model.impl.AbstractEntity: Getter for the field features.
getFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity: getFeatures.
getFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: Properties for this entity.
getFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidateWrapper: Properties for this entity.
getFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantCandidateWrapper: Properties for this entity.
getFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: Properties for this entity.
getFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: Properties for this entity.
getFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity: getFeatures.
getFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: Properties for this entity.
getFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidateWrapper: Properties for this entity.
getFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantCandidateWrapper: Properties for this entity.
getFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: Properties for this entity.
getFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: Properties for this entity.
getFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity: getFeatures.
getFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: Properties for this entity.
getFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidateWrapper: Properties for this entity.
getFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantCandidateWrapper: Properties for this entity.
getFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: Properties for this entity.
getFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: Properties for this entity.
getFeatures() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractEntityRef: getFeatures.
getFeatures() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractParticipantRef: getFeatures.
getFeatures() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractEntityRef: getFeatures.
getFeatures() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractParticipantRef: getFeatures.
getFeatures() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractEntityRef: getFeatures.
getFeatures() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractParticipantRef: getFeatures.
getFeatureTypeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlFeatureWriter: Getter for the field featureTypeWriter.
getFeatureWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonParticipantWriter: Getter for the field featureWriter.
getFeatureWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: Getter for the field featureWriter.
getFeatureWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlParticipantCandidateWriter: Getter for the field featureWriter.
getFetcher() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionWriter: Getter for the field fetcher.
getFetcher() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonParticipantWriter: Getter for the field fetcher.
getFetcher() - Method in class psidev.psi.mi.jami.json.nary.AbstractMIJsonWriter: Getter for the field fetcher.
getFileParserListener() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: getFileParserListener.
getFileParserListener() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: getFileParserListener.
getFileParserListener() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: getFileParserListener.
getFileParserListener() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: getFileParserListener.
getFileParserListener() - Method in interface psidev.psi.mi.jami.datasource.MIFileDataSource: The MIFileParserListener can be null if not initialised
getFileParserListener() - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: getFileParserListener.
getFileParserListener() - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: getFileParserListener.
getFileParserListener() - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: getFileParserListener.
getFileParserListener() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: The MIFileParserListener can be null if not initialised
getFileParserListener() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: getFileParserListener.
getFirstAuthor() - Method in class psidev.psi.mi.jami.tab.extension.MitabAuthor: Getter for the field firstAuthor.
getFromCache(String) - Method in class psidev.psi.mi.jami.bridges.fetcher.AbstractCachedFetcher: Fetch an element from the cache with a given key
getFromCache(String) - Method in interface psidev.psi.mi.jami.bridges.fetcher.CachedFetcher: Fetch an element from the cache with a given key
getFromCache(String) - Method in class psidev.psi.mi.jami.bridges.uniprot.CachedUniprotGeneFetcher: Fetch an element from the cache with a given key
getFullName() - Method in class psidev.psi.mi.jami.binary.impl.DefaultNamedBinaryInteraction: Getter for the field fullName.
getFullName() - Method in class psidev.psi.mi.jami.binary.impl.DefaultNamedBinaryInteractionEvidence: Getter for the field fullName.
getFullName() - Method in class psidev.psi.mi.jami.binary.impl.DefaultNamedModelledBinaryInteraction: Getter for the field fullName.
getFullName() - Method in interface psidev.psi.mi.jami.model.CvTerm: Full name of the controlled vocabulary as it appears in the ontology.
getFullName() - Method in interface psidev.psi.mi.jami.model.Feature: The full name that describes the feature.
getFullName() - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature: Getter for the field fullName.
getFullName() - Method in class psidev.psi.mi.jami.model.impl.DefaultCvTerm: Getter for the field fullName.
getFullName() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractor: Getter for the field fullName.
getFullName() - Method in class psidev.psi.mi.jami.model.impl.DefaultNamedExperiment: Getter for the field fullName.
getFullName() - Method in class psidev.psi.mi.jami.model.impl.DefaultNamedInteraction: Getter for the field fullName.
getFullName() - Method in class psidev.psi.mi.jami.model.impl.DefaultNamedInteractionEvidence: Getter for the field fullName.
getFullName() - Method in class psidev.psi.mi.jami.model.impl.DefaultNamedModelledInteraction: Getter for the field fullName.
getFullName() - Method in class psidev.psi.mi.jami.model.impl.DefaultNamedModelledParticipant: Getter for the field fullName.
getFullName() - Method in class psidev.psi.mi.jami.model.impl.DefaultNamedParticipant: Getter for the field fullName.
getFullName() - Method in class psidev.psi.mi.jami.model.impl.DefaultNamedParticipantEvidence: Getter for the field fullName.
getFullName() - Method in interface psidev.psi.mi.jami.model.Interactor: The full name of the interactor.
getFullName() - Method in interface psidev.psi.mi.jami.model.NamedExperiment: The full name of the experiment.
getFullName() - Method in interface psidev.psi.mi.jami.model.NamedInteraction: The full name of the interaction.
getFullName() - Method in interface psidev.psi.mi.jami.model.NamedParticipant: The full name of the entity.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: getFullName.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractNamesContainer: Gets the value of the fullName property.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractExtendedXmlBinaryInteraction: The full name of the interaction.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteraction: The full name of the interaction.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: The full name of the interaction.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: The full name of the interaction.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: The full name of the interaction.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: The full name of the interaction.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm: getFullName.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: The full name of the experiment.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: getFullName.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: The full name of the interaction.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant: The full name of the entity.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: The full name of the entity.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: The full name of the interactor.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidenceWrapper: The full name that describes the feature.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureWrapper: The full name that describes the feature.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: The full name of the interactor.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: The full name of the interactor.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: The full name of the entity.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: The full name of the entity.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm: getFullName.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: The full name of the experiment.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: getFullName.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: The full name of the interaction.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant: The full name of the entity.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: The full name of the entity.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: The full name of the interactor.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidenceWrapper: The full name that describes the feature.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureWrapper: The full name that describes the feature.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: The full name of the interactor.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: The full name of the interactor.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: The full name of the entity.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: The full name of the entity.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm: getFullName.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: The full name of the experiment.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: getFullName.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: The full name of the interaction.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant: The full name of the entity.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: The full name of the entity.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: The full name of the interactor.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidenceWrapper: The full name that describes the feature.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureWrapper: The full name that describes the feature.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: The full name of the interactor.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: The full name of the interactor.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: The full name of the entity.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: The full name of the entity.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.reference.AbstractFeatureRef: getFullName.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: The full name of the experiment.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractInteractorRef: getFullName.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractParticipantRef: The full name of the entity.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: The full name of the experiment.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractInteractorRef: getFullName.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractParticipantRef: The full name of the entity.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: The full name of the experiment.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractInteractorRef: getFullName.
getFullName() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractParticipantRef: The full name of the entity.
getFuzzyRange() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: getFuzzyRange
getGene() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: Getter for the field gene.
getGeneComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.InteractorComparator: Getter for the field geneComparator.
getGeneComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactInteractorComparator: Getter for the field geneComparator.
getGeneComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousInteractorComparator: Getter for the field geneComparator.
getGeneEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeInteractorEnricher: Getter for the field geneEnricher.
getGeneName() - Method in class psidev.psi.mi.jami.model.impl.DefaultProtein: Getter for the field geneName.
getGeneName() - Method in interface psidev.psi.mi.jami.model.Protein: The gene name of a protein.
getGreaterThan() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: Getter for the field greaterThan.
getHeader() - Method in class psidev.psi.mi.jami.bridges.unisave.FastaSequence: Getter for the field header.
getHostOrganism() - Method in interface psidev.psi.mi.jami.model.Experiment: The host organism where the interaction took place in this experiment.
getHostOrganism() - Method in class psidev.psi.mi.jami.model.impl.DefaultExperiment: Getter for the field hostOrganism.
getHostOrganism() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: getHostOrganism.
getHostOrganism() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: getHostOrganism.
getHostOrganism() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: getHostOrganism.
getHostOrganism() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: getHostOrganism.
getHostOrganism() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: getHostOrganism.
getHostOrganism() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: getHostOrganism.
getHostOrganisms() - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlExperiment: getHostOrganisms.
getHostOrganisms() - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlParticipantEvidence: getHostOrganisms.
getHostOrganisms() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: getHostOrganisms.
getHostOrganisms() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: getHostOrganisms.
getHostOrganisms() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: getHostOrganisms.
getHostOrganisms() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: getHostOrganisms.
getHostOrganisms() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: getHostOrganisms.
getHostOrganisms() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: getHostOrganisms.
getHostOrganisms() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: getHostOrganisms.
getHostOrganisms() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: getHostOrganisms.
getHostOrganisms() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: getHostOrganisms.
getHostOrganismWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonExperimentWriter: Getter for the field hostOrganismWriter.
getHostOrganismWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonParticipantEvidenceWriter: Getter for the field hostOrganismWriter.
getHostOrganismWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: Getter for the field hostOrganismWriter.
getHostOrganismWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantEvidenceWriter: Getter for the field hostOrganismWriter.
getHtmlAnchorFor(Object) - Static method in class psidev.psi.mi.jami.html.utils.HtmlWriterUtils: getHtmlAnchorFor
getHtmlOptions(boolean, File) - Method in class psidev.psi.mi.jami.html.MIHtmlOptionFactory: Create the options for a HTML interaction writer.
getHtmlOptions(boolean, OutputStream) - Method in class psidev.psi.mi.jami.html.MIHtmlOptionFactory: Create the options for a HTML interaction writer.
getHtmlOptions(boolean, Writer) - Method in class psidev.psi.mi.jami.html.MIHtmlOptionFactory: Create the options for a HTML interaction writer.
getHtmlOptions(Object, InteractionCategory, boolean) - Method in class psidev.psi.mi.jami.html.MIHtmlOptionFactory: Create the options for the HTML InteractionWriter.
getHtmlOptions(InteractionCategory, File) - Method in class psidev.psi.mi.jami.html.MIHtmlOptionFactory: Create the options for a HTML interaction writer.
getHtmlOptions(InteractionCategory, OutputStream) - Method in class psidev.psi.mi.jami.html.MIHtmlOptionFactory: Create the options for a HTML interaction writer.
getHtmlOptions(InteractionCategory, Writer) - Method in class psidev.psi.mi.jami.html.MIHtmlOptionFactory: Create the options for a HTML interaction writer.
getId() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.DbReferenceType: Gets the value of the id property.
getId() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.SeqFeatureGroupType: Gets the value of the id property.
getId() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.SeqFeatureType: Gets the value of the id property.
getId() - Method in class psidev.psi.mi.jami.model.impl.DefaultXref: Getter for the field id.
getId() - Method in interface psidev.psi.mi.jami.model.Xref: The identifier in the external database/resource.
getId() - Method in class psidev.psi.mi.jami.tab.extension.MitabXref: Getter for the field id.
getId() - Method in class psidev.psi.mi.jami.xml.cache.EntryLocation: Getter for the field id.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractAvailability: Gets the value of the id property.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: Gets the value of the id property.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractXmlVariableParameterValue: Getter for the field id.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractExtendedXmlBinaryInteraction: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteraction: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: getId.
getId() - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlEntity: getId.
getId() - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlExperiment: getId.
getId() - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlFeature: getId.
getId() - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlInteractor: getId.
getId() - Method in interface psidev.psi.mi.jami.xml.model.extension.PsiXmlInteraction: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity: Gets the value of the id property.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: Gets the value of the id property.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: Gets the value of the id property.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: Gets the value of the id property.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBioactiveEntity: Gets the value of the id property.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidateWrapper: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidenceWrapper: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureWrapper: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlGene: Gets the value of the id property.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlNucleicAcid: Gets the value of the id property.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantCandidateWrapper: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlProtein: Gets the value of the id property.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlXref: Getter for the field id.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity: Gets the value of the id property.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: Gets the value of the id property.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: Gets the value of the id property.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: Gets the value of the id property.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBioactiveEntity: Gets the value of the id property.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidateWrapper: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidenceWrapper: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureWrapper: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlGene: Gets the value of the id property.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlNucleicAcid: Gets the value of the id property.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantCandidateWrapper: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlProtein: Gets the value of the id property.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlXref: Getter for the field id.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity: Gets the value of the id property.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: Gets the value of the id property.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: Gets the value of the id property.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: Gets the value of the id property.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBioactiveEntity: Gets the value of the id property.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidateWrapper: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidenceWrapper: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureWrapper: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlGene: Gets the value of the id property.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlNucleicAcid: Gets the value of the id property.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantCandidateWrapper: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlProtein: Gets the value of the id property.
getId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlXref: Getter for the field id.
getId() - Method in class psidev.psi.mi.jami.xml.model.reference.AbstractFeatureRef: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractEntityRef: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractInteractorRef: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractParticipantRef: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractEntityRef: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractInteractorRef: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractParticipantRef: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractEntityRef: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractInteractorRef: getId.
getId() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractParticipantRef: getId.
getId2Term() - Method in class psidev.psi.mi.jami.bridges.obo.OboFetcherTemplate: Getter for the field id2Term.
getIdentificationMethods() - Method in class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantPool: Getter for the field identificationMethods.
getIdentificationMethods() - Method in class psidev.psi.mi.jami.model.impl.DefaultParticipantEvidence: Getter for the field identificationMethods.
getIdentificationMethods() - Method in interface psidev.psi.mi.jami.model.ParticipantEvidence: The identification methods for this participant.
getIdentificationMethods() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantPool: The identification methods for this participant.
getIdentificationMethods() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: getIdentificationMethods.
getIdentificationMethods() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantPool: The identification methods for this participant.
getIdentificationMethods() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: getIdentificationMethods.
getIdentificationMethods() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantPool: The identification methods for this participant.
getIdentificationMethods() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: getIdentificationMethods.
getIdentifierCollectionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.cv.CvTermComparator: Getter for the field identifierCollectionComparator.
getIdentifierCollectionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.InteractionBaseComparator: Getter for the field identifierCollectionComparator.
getIdentifierCollectionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.InteractorBaseComparator: Getter for the field identifierCollectionComparator.
getIdentifierCollectionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.publication.PublicationComparator: Getter for the field identifierCollectionComparator.
getIdentifierComparator() - Method in class psidev.psi.mi.jami.utils.comparator.cv.CvTermComparator: Getter for the field identifierComparator.
getIdentifierComparator() - Method in class psidev.psi.mi.jami.utils.comparator.cv.CvTermIdentifierComparator: Getter for the field identifierComparator.
getIdentifierComparator() - Method in class psidev.psi.mi.jami.utils.comparator.cv.UnambiguousCvTermComparator: Getter for the field identifierComparator.
getIdentifierComparator() - Method in class psidev.psi.mi.jami.utils.comparator.feature.FeatureBaseComparator: Getter for the field identifierComparator.
getIdentifierComparator() - Method in class psidev.psi.mi.jami.utils.comparator.feature.UnambiguousFeatureBaseComparator: getIdentifierComparator
getIdentifierComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.InteractionBaseComparator: Getter for the field identifierComparator.
getIdentifierComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousInteractionBaseComparator: getIdentifierComparator
getIdentifierComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.InteractorBaseComparator: Getter for the field identifierComparator.
getIdentifierComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousInteractorBaseComparator: getIdentifierComparator
getIdentifierComparator() - Method in class psidev.psi.mi.jami.utils.comparator.publication.PublicationComparator: Getter for the field identifierComparator.
getIdentifierComparator() - Method in class psidev.psi.mi.jami.utils.comparator.publication.UnambiguousPublicationComparator: getIdentifierComparator
getIdentifiers() - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteractionWrapper: getIdentifiers
getIdentifiers() - Method in interface psidev.psi.mi.jami.model.CvTerm: The collection of identifiers which identifies this CvTerm.
getIdentifiers() - Method in interface psidev.psi.mi.jami.model.Feature: Collection of External identifiers which describes this feature.
getIdentifiers() - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature: Getter for the field identifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.model.impl.AbstractInteraction: Getter for the field identifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: getIdentifiers
getIdentifiers() - Method in class psidev.psi.mi.jami.model.impl.DefaultCvTerm: Getter for the field identifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractor: Getter for the field identifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: Getter for the field identifiers.
getIdentifiers() - Method in interface psidev.psi.mi.jami.model.Interaction: The identifiers for an interaction.
getIdentifiers() - Method in interface psidev.psi.mi.jami.model.Interactor: Set of identifiers for this interactor.
getIdentifiers() - Method in interface psidev.psi.mi.jami.model.Publication: The publication identifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: getIdentifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: Getter for the field identifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: The identifiers for an interaction.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: The identifiers for an interaction.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: The identifiers for an interaction.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: The identifiers for an interaction.
getIdentifiers() - Method in interface psidev.psi.mi.jami.xml.model.extension.IInteractorXrefContainer
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: getIdentifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm: getIdentifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: getIdentifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: getIdentifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: getIdentifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.CvTermXrefContainer: Getter for the field identifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.FeatureXrefContainer: Getter for the field identifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.InteractionXrefContainer: Getter for the field identifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.InteractorXrefContainer: Getter for the field identifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.PublicationXrefContainer: Getter for the field identifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: Set of identifiers for this interactor.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidenceWrapper: Collection of External identifiers which describes this feature.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureWrapper: Collection of External identifiers which describes this feature.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: Set of identifiers for this interactor.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: Set of identifiers for this interactor.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: getIdentifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm: getIdentifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: getIdentifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: getIdentifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: getIdentifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.CvTermXrefContainer: Getter for the field identifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.FeatureXrefContainer: Getter for the field identifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.InteractionXrefContainer: Getter for the field identifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.InteractorXrefContainer: Getter for the field identifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.PublicationXrefContainer: Getter for the field identifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: Set of identifiers for this interactor.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidenceWrapper: Collection of External identifiers which describes this feature.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureWrapper: Collection of External identifiers which describes this feature.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: Set of identifiers for this interactor.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: Set of identifiers for this interactor.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: getIdentifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm: getIdentifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: getIdentifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: getIdentifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: getIdentifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.CvTermXrefContainer: Getter for the field identifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.FeatureXrefContainer: Getter for the field identifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.InteractionXrefContainer: Getter for the field identifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.InteractorXrefContainer: Getter for the field identifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.PublicationXrefContainer: Getter for the field identifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: Set of identifiers for this interactor.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidenceWrapper: Collection of External identifiers which describes this feature.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureWrapper: Collection of External identifiers which describes this feature.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: Set of identifiers for this interactor.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: getIdentifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: Set of identifiers for this interactor.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.reference.AbstractFeatureRef: getIdentifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: getIdentifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractInteractorRef: getIdentifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: getIdentifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractInteractorRef: getIdentifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: getIdentifiers.
getIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractInteractorRef: getIdentifiers.
getIdentifierSynchronizer() - Method in class psidev.psi.mi.jami.imex.ImexPublicationUpdater: Getter for the field identifierSynchronizer.
getIdentifierWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonFeatureWriter: Getter for the field identifierWriter.
getIdentifierWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionWriter: Getter for the field identifierWriter.
getIdentifierWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractorWriter: Getter for the field identifierWriter.
getIdentifierWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonPublicationWriter: Getter for the field identifierWriter.
getIdentity() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: Getter for the field identity.
getIdGenerator() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonFeatureWriter: Getter for the field idGenerator.
getIdGenerator() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionWriter: Getter for the field idGenerator.
getIdGenerator() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractorWriter: Getter for the field idGenerator.
getIdGenerator() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonParticipantWriter: Getter for the field idGenerator.
getIdGenerator() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonRangeWriter: Getter for the field idGenerator.
getIdGenerator() - Method in class psidev.psi.mi.jami.json.nary.AbstractMIJsonWriter: Getter for the field idGenerator.
GetImage() - Method in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream
GetImage() - Method in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Get token literal value.
getImexAssigner() - Method in class psidev.psi.mi.jami.imex.ImexExperimentUpdater: Getter for the field imexAssigner.
getImexAssigner() - Method in class psidev.psi.mi.jami.imex.ImexInteractionUpdater: Getter for the field imexAssigner.
getImexAssigner() - Method in class psidev.psi.mi.jami.imex.ImexPublicationAssigner: Getter for the field imexAssigner.
getImexCentralClient() - Method in interface psidev.psi.mi.jami.imex.actions.ImexAssigner: getImexCentralClient.
getImexCentralClient() - Method in interface psidev.psi.mi.jami.imex.actions.ImexCentralPublicationRegister: getImexCentralClient.
getImexCentralClient() - Method in class psidev.psi.mi.jami.imex.actions.impl.ImexAssignerImpl: getImexCentralClient.
getImexCentralClient() - Method in class psidev.psi.mi.jami.imex.actions.impl.ImexCentralPublicationRegisterImpl: getImexCentralClient.
getImexCentralClient() - Method in class psidev.psi.mi.jami.imex.actions.impl.PublicationAdminGroupSynchronizerImpl: getImexCentralClient.
getImexCentralClient() - Method in class psidev.psi.mi.jami.imex.actions.impl.PublicationIdentifierSynchronizerImpl: getImexCentralClient.
getImexCentralClient() - Method in class psidev.psi.mi.jami.imex.actions.impl.PublicationStatusSynchronizerImpl: getImexCentralClient.
getImexCentralClient() - Method in interface psidev.psi.mi.jami.imex.actions.PublicationAdminGroupSynchronizer: getImexCentralClient.
getImexCentralClient() - Method in interface psidev.psi.mi.jami.imex.actions.PublicationIdentifierSynchronizer: getImexCentralClient.
getImexCentralClient() - Method in interface psidev.psi.mi.jami.imex.actions.PublicationStatusSynchronizer: getImexCentralClient.
getImexId() - Method in class psidev.psi.mi.jami.binary.impl.BinaryInteractionEvidenceWrapper: getImexId
getImexId() - Method in class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: Getter for the field imexId.
getImexId() - Method in class psidev.psi.mi.jami.bridges.imex.extension.ImexPublication: Getter for the field imexId.
getImexId() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: Getter for the field imexId.
getImexId() - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: Getter for the field imexId.
getImexId() - Method in interface psidev.psi.mi.jami.model.InteractionEvidence: IMEx identifier if the interaction has been curated following IMEx curation rules.
getImexId() - Method in interface psidev.psi.mi.jami.model.Publication: IMEx identifier of the publication if it has been registered in IMEx central as a publication curated following IMEx curation rules.
getImexId() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: Getter for the field imexId.
getImexId() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: IMEx identifier if the interaction has been curated following IMEx curation rules.
getImexId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: Gets the value of the imexId property.
getImexId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: getImexId.
getImexId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: getImexId.
getImexId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.InteractionXrefContainer: Getter for the field imexId.
getImexId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.PublicationXrefContainer: Getter for the field imexId.
getImexId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: Gets the value of the imexId property.
getImexId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: getImexId.
getImexId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: getImexId.
getImexId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.InteractionXrefContainer: Getter for the field imexId.
getImexId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.PublicationXrefContainer: Getter for the field imexId.
getImexId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: Gets the value of the imexId property.
getImexId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: getImexId.
getImexId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: getImexId.
getImexId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.InteractionXrefContainer: Getter for the field imexId.
getImexId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.PublicationXrefContainer: Getter for the field imexId.
getImexPrimary() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: Getter for the field imexPrimary.
getImexPublicationOwnerGroup(List<Source>, Set<String>) - Method in class psidev.psi.mi.jami.imex.actions.impl.PublicationAdminGroupSynchronizerImpl: checks any of the sources is a imex partner.
getIndexInString1() - Method in class psidev.psi.mi.jami.enricher.util.diff.Diff: Getter for the field indexInString1.
getIndexInString2() - Method in class psidev.psi.mi.jami.enricher.util.diff.Diff: Getter for the field indexInString2.
getInferredInteractions() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractExtendedXmlBinaryInteraction: getInferredInteractions.
getInferredInteractions() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: getInferredInteractions.
getInferredInteractions() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: getInferredInteractions.
getInferredInteractions() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: getInferredInteractions.
getInferredInteractions() - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlInteraction: getInferredInteractions.
getInferredInteractions() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractPsiXmlInteraction: getInferredInteractions.
getInferredInteractions() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: getInferredInteractions.
getInferredInteractions() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: getInferredInteractions.
getInferredInteractions() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: getInferredInteractions.
getInferredInteractions() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractPsiXmlInteraction: getInferredInteractions.
getInferredInteractions() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: getInferredInteractions.
getInferredInteractions() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: getInferredInteractions.
getInferredInteractions() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: getInferredInteractions.
getInferredInteractions() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractPsiXmlInteraction: getInferredInteractions.
getInferredInteractions() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: getInferredInteractions.
getInferredInteractions() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: getInferredInteractions.
getInferredInteractions() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: getInferredInteractions.
getInferredInteractions() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: getInferredInteractions.
getInferredInteractions() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: getInferredInteractions.
getInferredInteractions() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: getInferredInteractions.
getInferredInteractionWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: Getter for the field inferredInteractionWriter.
getInferredParticipantLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractInferredInteractionParticipant
getInstance() - Static method in class psidev.psi.mi.jami.commons.MIDataSourceOptionFactory: Getter for the field instance.
getInstance() - Static method in class psidev.psi.mi.jami.commons.MIWriterOptionFactory: Getter for the field instance.
getInstance() - Static method in class psidev.psi.mi.jami.crosslink.CrossLinkCsvOptionFactory: Getter for the field instance.
getInstance() - Static method in class psidev.psi.mi.jami.factory.InteractionWriterFactory: Getter for the field instance.
getInstance() - Static method in class psidev.psi.mi.jami.factory.MIDataSourceFactory: Getter for the field instance.
getInstance() - Static method in class psidev.psi.mi.jami.html.MIHtmlOptionFactory: Getter for the field instance.
getInstance() - Static method in class psidev.psi.mi.jami.json.MIJsonOptionFactory: Getter for the field instance.
getInstance() - Static method in class psidev.psi.mi.jami.tab.extension.factory.MitabDataSourceFactory: Getter for the field instance.
getInstance() - Static method in class psidev.psi.mi.jami.tab.extension.factory.MitabWriterFactory: Getter for the field instance.
getInstance() - Static method in class psidev.psi.mi.jami.xml.io.parser.JaxbUnmarshallerFactory: Getter for the field instance.
getInstance() - Static method in class psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriterFactory: Getter for the field instance.
getInstance() - Static method in class psidev.psi.mi.jami.xml.model.extension.factory.PsiXmlDataSourceFactory: Getter for the field instance.
getInstance() - Static method in class psidev.psi.mi.jami.xml.model.extension.factory.PsiXmlWriterFactory: Getter for the field instance.
getInstance() - Static method in class psidev.psi.mi.jami.xml.XmlEntryContext: Getter for the field instance.
getInteraction() - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipant: Getter for the field interaction.
getInteraction() - Method in interface psidev.psi.mi.jami.model.Participant: The interaction in which the participant is involved.
getInteraction() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant: Getter for the field interaction.
getInteraction() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: The interaction in which the participant is involved.
getInteraction() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: The interaction in which the participant is involved.
getInteraction() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: The interaction in which the participant is involved.
getInteraction() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant: Getter for the field interaction.
getInteraction() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: The interaction in which the participant is involved.
getInteraction() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: The interaction in which the participant is involved.
getInteraction() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: The interaction in which the participant is involved.
getInteraction() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant: Getter for the field interaction.
getInteraction() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: The interaction in which the participant is involved.
getInteraction() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: The interaction in which the participant is involved.
getInteraction() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: The interaction in which the participant is involved.
getInteraction() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractParticipantRef: The interaction in which the participant is involved.
getInteraction() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractParticipantRef: The interaction in which the participant is involved.
getInteraction() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractParticipantRef: The interaction in which the participant is involved.
getInteraction(int) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: getInteraction.
getInteraction(int) - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: getInteraction.
getInteraction(int) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: getInteraction.
getInteraction_imex_regexp() - Method in class psidev.psi.mi.jami.imex.actions.impl.ImexAssignerImpl: Getter for the field interaction_imex_regexp.
getInteractionBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.CuratedInteractionBaseComparator: Getter for the field interactionBaseComparator.
getInteractionBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.InteractionComparator: Getter for the field interactionBaseComparator.
getInteractionBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.InteractionEvidenceComparator: getInteractionBaseComparator
getInteractionBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.ModelledInteractionComparator: Getter for the field interactionBaseComparator.
getInteractionBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousCuratedInteractionBaseComparator: Getter for the field interactionBaseComparator.
getInteractionBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousCuratedInteractionComparator: Getter for the field interactionBaseComparator.
getInteractionBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousCuratedInteractionEvidenceComparator
getInteractionBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousCuratedModelledInteractionComparator: Getter for the field interactionBaseComparator.
getInteractionBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactCuratedInteractionComparator: Getter for the field interactionBaseComparator.
getInteractionBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactCuratedInteractionEvidenceComparator
getInteractionBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactCuratedModelledInteractionComparator: Getter for the field interactionBaseComparator.
getInteractionBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactInteractionComparator: Getter for the field interactionBaseComparator.
getInteractionBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactInteractionEvidenceComparator
getInteractionBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousInteractionComparator: Getter for the field interactionBaseComparator.
getInteractionBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousInteractionEvidenceComparator
getInteractionDetectionMethod() - Method in interface psidev.psi.mi.jami.model.Experiment: The experimental method to determine the interaction.
getInteractionDetectionMethod() - Method in class psidev.psi.mi.jami.model.impl.DefaultExperiment: Getter for the field interactionDetectionMethod.
getInteractionDetectionMethod() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: Gets the value of the interactionDetectionMethod property.
getInteractionDetectionMethod() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: Gets the value of the interactionDetectionMethod property.
getInteractionDetectionMethod() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: Gets the value of the interactionDetectionMethod property.
getInteractionDetectionMethod() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: getInteractionDetectionMethod.
getInteractionDetectionMethod() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: getInteractionDetectionMethod.
getInteractionDetectionMethod() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: getInteractionDetectionMethod.
getInteractionEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionEvidenceEnricher: Getter for the field interactionEnricher.
getInteractionEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullModelledInteractionEnricher: Getter for the field interactionEnricher.
getInteractionEnricherListener() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionEvidenceEnricher: The listener for changes made to interactions.
getInteractionEnricherListener() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionUpdater: The listener for changes made to interactions.
getInteractionEnricherListener() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullModelledInteractionEnricher: The listener for changes made to interactions.
getInteractionEnricherListener() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEnricher: The listener for changes made to interactions.
getInteractionEnricherListener() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEvidenceUpdater: The listener for changes made to interactions.
getInteractionEnricherListener() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalModelledInteractionUpdater: The listener for changes made to interactions.
getInteractionEnricherListener() - Method in interface psidev.psi.mi.jami.enricher.InteractionEnricher: The listener for changes made to interactions.
getInteractionEvidences() - Method in class psidev.psi.mi.jami.binary.impl.DefaultModelledBinaryInteraction: Getter for the field interactionEvidences.
getInteractionEvidences() - Method in class psidev.psi.mi.jami.binary.impl.ModelledBinaryInteractionWrapper: getInteractionEvidences
getInteractionEvidences() - Method in interface psidev.psi.mi.jami.model.Experiment: The interactions determined in this experiment.
getInteractionEvidences() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: Getter for the field interactionEvidences.
getInteractionEvidences() - Method in class psidev.psi.mi.jami.model.impl.DefaultExperiment: getInteractionEvidences
getInteractionEvidences() - Method in class psidev.psi.mi.jami.model.impl.DefaultModelledInteraction: Getter for the field interactionEvidences.
getInteractionEvidences() - Method in interface psidev.psi.mi.jami.model.ModelledInteraction: Interaction evidences supporting this modelled interaction.
getInteractionEvidences() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: Getter for the field interactionEvidences.
getInteractionEvidences() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: Interaction evidences supporting this modelled interaction.
getInteractionEvidences() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteraction: Getter for the field interactionEvidences.
getInteractionEvidences() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: Interaction evidences supporting this modelled interaction.
getInteractionEvidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: getInteractionEvidences.
getInteractionEvidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction: Getter for the field interactionEvidences.
getInteractionEvidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: Getter for the field interactionEvidences.
getInteractionEvidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: Interaction evidences supporting this modelled interaction.
getInteractionEvidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: getInteractionEvidences.
getInteractionEvidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: getInteractionEvidences.
getInteractionEvidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction: Getter for the field interactionEvidences.
getInteractionEvidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: Getter for the field interactionEvidences.
getInteractionEvidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: Interaction evidences supporting this modelled interaction.
getInteractionEvidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: getInteractionEvidences.
getInteractionEvidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: getInteractionEvidences.
getInteractionEvidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction: Getter for the field interactionEvidences.
getInteractionEvidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: Getter for the field interactionEvidences.
getInteractionEvidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: Interaction evidences supporting this modelled interaction.
getInteractionEvidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: Getter for the field interactionEvidences.
getInteractionEvidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: getInteractionEvidences.
getInteractionEvidences() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: getInteractionEvidences.
getInteractionEvidences() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: getInteractionEvidences.
getInteractionEvidences() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: getInteractionEvidences.
getInteractionEvidences() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: getInteractionEvidences.
getInteractionEvidences() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: getInteractionEvidences.
getInteractionEvidences() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: getInteractionEvidences.
getInteractionNamesContainer() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: Getter for the field interactionNamesContainer.
getInteractionNamesContainer() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: Getter for the field interactionNamesContainer.
getInteractionNamesContainer() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: Getter for the field interactionNamesContainer.
getInteractionNamesContainer() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: Getter for the field interactionNamesContainer.
getInteractions() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Getter for the field interactions.
getInteractions() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: getInteractions.
getInteractions() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: getInteractions.
getInteractions() - Method in interface psidev.psi.mi.jami.datasource.InteractionSource: The collection of Interactions for this datasource
getInteractions() - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: getInteractions.
getInteractions() - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabSource: getInteractions.
getInteractions() - Method in class psidev.psi.mi.jami.xml.model.AbstractBaseEntry: getInteractions.
getInteractions() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlSource: The collection of Interactions for this datasource
getInteractions() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlSource: getInteractions.
getInteractionsIterator() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: getInteractionsIterator.
getInteractionsIterator() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: getInteractionsIterator.
getInteractionsIterator() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: getInteractionsIterator.
getInteractionsIterator() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: getInteractionsIterator.
getInteractionsIterator() - Method in interface psidev.psi.mi.jami.datasource.InteractionStream: The iterator of Interactions for this datasource
getInteractionsIterator() - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: getInteractionsIterator.
getInteractionsIterator() - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: getInteractionsIterator.
getInteractionsIterator() - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: getInteractionsIterator.
getInteractionsIterator() - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Getter for the field interactionsIterator.
getInteractionsIterator() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlSource: The iterator of Interactions for this datasource
getInteractionsIterator() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: The iterator of Interactions for this datasource
getInteractionsIterator() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: getInteractionsIterator.
getInteractionSourceWith(Map<String, Object>) - Method in class psidev.psi.mi.jami.factory.MIDataSourceFactory: getInteractionSourceWith
getInteractionType() - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteractionWrapper: getInteractionType
getInteractionType() - Method in class psidev.psi.mi.jami.model.impl.AbstractInteraction: Getter for the field interactionType.
getInteractionType() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: Getter for the field interactionType.
getInteractionType() - Method in interface psidev.psi.mi.jami.model.Interaction: The interaction type is a controlled vocabulary term.
getInteractionType() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: getInteractionType.
getInteractionType() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlWriter: getInteractionType.
getInteractionType() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractExtendedXmlBinaryInteraction: Getter for the field interactionType.
getInteractionType() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: The interaction type is a controlled vocabulary term.
getInteractionType() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: The interaction type is a controlled vocabulary term.
getInteractionType() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: The interaction type is a controlled vocabulary term.
getInteractionType() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: The interaction type is a controlled vocabulary term.
getInteractionType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractPsiXmlInteraction: getInteractionType.
getInteractionType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: getInteractionType.
getInteractionType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: getInteractionType.
getInteractionType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: getInteractionType.
getInteractionType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: getInteractionType.
getInteractionType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractPsiXmlInteraction: getInteractionType.
getInteractionType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: getInteractionType.
getInteractionType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: getInteractionType.
getInteractionType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: getInteractionType.
getInteractionType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: getInteractionType.
getInteractionType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractPsiXmlInteraction: getInteractionType.
getInteractionType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: getInteractionType.
getInteractionType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: getInteractionType.
getInteractionType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: getInteractionType.
getInteractionType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: getInteractionType.
getInteractionType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: getInteractionType.
getInteractionType() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: getInteractionType.
getInteractionType() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: getInteractionType.
getInteractionType() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: getInteractionType.
getInteractionTypes() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractExtendedXmlBinaryInteraction: getInteractionTypes.
getInteractionTypes() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: getInteractionTypes.
getInteractionTypes() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: getInteractionTypes.
getInteractionTypes() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: getInteractionTypes.
getInteractionTypes() - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlInteraction: getInteractionTypes.
getInteractionTypes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractPsiXmlInteraction: Gets the value of the interactionTypeList property.
getInteractionTypes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlBasicInteraction: Gets the value of the interactionTypeList property.
getInteractionTypes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: Gets the value of the interactionTypeList property.
getInteractionTypes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction: Gets the value of the interactionTypeList property.
getInteractionTypes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: getInteractionTypes.
getInteractionTypes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: getInteractionTypes.
getInteractionTypes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: getInteractionTypes.
getInteractionTypes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractPsiXmlInteraction: Gets the value of the interactionTypeList property.
getInteractionTypes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlBasicInteraction: Gets the value of the interactionTypeList property.
getInteractionTypes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: Gets the value of the interactionTypeList property.
getInteractionTypes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction: Gets the value of the interactionTypeList property.
getInteractionTypes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: getInteractionTypes.
getInteractionTypes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: getInteractionTypes.
getInteractionTypes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: getInteractionTypes.
getInteractionTypes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractPsiXmlInteraction: Gets the value of the interactionTypeList property.
getInteractionTypes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlBasicInteraction: Gets the value of the interactionTypeList property.
getInteractionTypes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: Gets the value of the interactionTypeList property.
getInteractionTypes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction: Gets the value of the interactionTypeList property.
getInteractionTypes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: getInteractionTypes.
getInteractionTypes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: getInteractionTypes.
getInteractionTypes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: getInteractionTypes.
getInteractionTypes() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: getInteractionTypes.
getInteractionTypes() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: getInteractionTypes.
getInteractionTypes() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: getInteractionTypes.
getInteractionTypeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: Getter for the field interactionTypeWriter.
getInteractionWriter() - Method in class psidev.psi.mi.jami.json.nary.AbstractMIJsonWriter: Getter for the field interactionWriter.
getInteractionWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Getter for the field interactionWriter.
getInteractionWriterWith(Map<String, Object>) - Method in class psidev.psi.mi.jami.factory.InteractionWriterFactory: getInteractionWriterWith
getInteractionXrefContainer() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: getInteractionXrefContainer.
getInteractionXrefContainer() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: getInteractionXrefContainer.
getInteractionXrefContainer() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: getInteractionXrefContainer.
getInteractor() - Method in interface psidev.psi.mi.jami.model.Entity: The molecule/complex of molecules which interacts.
getInteractor() - Method in class psidev.psi.mi.jami.model.impl.AbstractEntity: Getter for the field interactor.
getInteractor() - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipantPool: Getter for the field interactor.
getInteractor() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractExperimentalInteractor: Getter for the field interactor.
getInteractor() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity: Getter for the field interactor.
getInteractor() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: The molecule/complex of molecules which interacts.
getInteractor() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidateWrapper: The molecule/complex of molecules which interacts.
getInteractor() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantCandidateWrapper: The molecule/complex of molecules which interacts.
getInteractor() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: The molecule/complex of molecules which interacts.
getInteractor() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: The molecule/complex of molecules which interacts.
getInteractor() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity: Getter for the field interactor.
getInteractor() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: The molecule/complex of molecules which interacts.
getInteractor() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidateWrapper: The molecule/complex of molecules which interacts.
getInteractor() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantCandidateWrapper: The molecule/complex of molecules which interacts.
getInteractor() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: The molecule/complex of molecules which interacts.
getInteractor() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: The molecule/complex of molecules which interacts.
getInteractor() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity: Getter for the field interactor.
getInteractor() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: The molecule/complex of molecules which interacts.
getInteractor() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidateWrapper: The molecule/complex of molecules which interacts.
getInteractor() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantCandidateWrapper: The molecule/complex of molecules which interacts.
getInteractor() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: The molecule/complex of molecules which interacts.
getInteractor() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: The molecule/complex of molecules which interacts.
getInteractor() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractEntityRef: getInteractor.
getInteractor() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractEntityRef: getInteractor.
getInteractor() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractEntityRef: getInteractor.
getInteractor(int) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: getInteractor.
getInteractor(int) - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: getInteractor.
getInteractor(int) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: getInteractor.
getInteractorBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.ComplexComparator: Getter for the field interactorBaseComparator.
getInteractorBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.ExactInteractorBaseComparator: Getter for the field interactorBaseComparator.
getInteractorBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.InteractorComparator: Getter for the field interactorBaseComparator.
getInteractorBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.InteractorPoolComparator: Getter for the field interactorBaseComparator.
getInteractorBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousComplexComparator: Getter for the field interactorBaseComparator.
getInteractorBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactComplexComparator: Getter for the field interactorBaseComparator.
getInteractorBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactInteractorBaseComparator: getInteractorBaseComparator
getInteractorBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactInteractorComparator: Getter for the field interactorBaseComparator.
getInteractorBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactInteractorPoolComparator: Getter for the field interactorBaseComparator.
getInteractorBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousInteractorComparator: Getter for the field interactorBaseComparator.
getInteractorBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousInteractorPoolComparator: Getter for the field interactorBaseComparator.
getInteractorBaseEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeInteractorEnricher: Getter for the field interactorBaseEnricher.
getInteractorCandidatesComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.InteractorComparator: Getter for the field interactorCandidatesComparator.
getInteractorCollectionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.InteractorPoolComparator: Getter for the field interactorCollectionComparator.
getInteractorComparator() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractorPoolEnricher: Getter for the field interactorComparator.
getInteractorComparator() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractorPoolUpdater: Getter for the field interactorComparator.
getInteractorComparator() - Method in interface psidev.psi.mi.jami.enricher.InteractorPoolEnricher: getInteractorComparator.
getInteractorComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.BioactiveEntityComparator: getInteractorComparator
getInteractorComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.GeneComparator: getInteractorComparator
getInteractorComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.NucleicAcidComparator: Getter for the field interactorComparator.
getInteractorComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.PolymerComparator: Getter for the field interactorComparator.
getInteractorComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.ProteinComparator: Getter for the field interactorComparator.
getInteractorComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousBioactiveEntityComparator: getInteractorComparator
getInteractorComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactBioactiveEntityComparator: getInteractorComparator
getInteractorComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactGeneComparator: getInteractorComparator
getInteractorComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactNucleicAcidComparator: Getter for the field interactorComparator.
getInteractorComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactPolymerComparator: Getter for the field interactorComparator.
getInteractorComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactProteinComparator: Getter for the field interactorComparator.
getInteractorComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousGeneComparator: getInteractorComparator
getInteractorComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousNucleicAcidComparator: getInteractorComparator
getInteractorComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousPolymerComparator: getInteractorComparator
getInteractorComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousProteinComparator: getInteractorComparator
getInteractorComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.EntityBaseComparator: Getter for the field interactorComparator.
getInteractorComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.ParticipantInteractorComparator: Getter for the field interactorComparator.
getInteractorComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousEntityBaseComparator
getInteractorComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactEntityBaseComparator
getInteractorComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactModelledParticipantInteractorComparator
getInteractorComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantEvidenceInteractorComparator
getInteractorComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantInteractorComparator: Getter for the field interactorComparator.
getInteractorComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousModelledParticipantInteractorComparator
getInteractorComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousParticipantEvidenceInteractorComparator: Getter for the field interactorComparator.
getInteractorComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousParticipantInteractorComparator
getInteractorEnricher() - Method in interface psidev.psi.mi.jami.enricher.EntityEnricher: The current enricher used for general interactors.
getInteractorEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorUpdater: Getter for the field interactorEnricher.
getInteractorEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeEntityEnricher: getInteractorEnricher.
getInteractorEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeModelledParticipantEnricher: getInteractorEnricher.
getInteractorEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeParticipantEnricher: getInteractorEnricher.
getInteractorEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeParticipantEvidenceEnricher: getInteractorEnricher.
getInteractorEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullComplexEnricher: Getter for the field interactorEnricher.
getInteractorEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullComplexUpdater: Getter for the field interactorEnricher.
getInteractorEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractorPoolEnricher: Getter for the field interactorEnricher.
getInteractorEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEvidenceUpdater: Getter for the field interactorEnricher.
getInteractorEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalComplexUpdater: Getter for the field interactorEnricher.
getInteractorEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalEntityEnricher: Getter for the field interactorEnricher.
getInteractorEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEvidenceUpdater: Getter for the field interactorEnricher.
getInteractorEnricher() - Method in interface psidev.psi.mi.jami.enricher.InteractorPoolEnricher: getInteractorEnricher.
getInteractorFactory() - Method in class psidev.psi.mi.jami.binary.expansion.AbstractBipartiteExpansion: Getter for the field interactorFactory.
getInteractorFactory() - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Getter for the field interactorFactory.
getInteractorFactory() - Method in class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionLineParser: Getter for the field interactorFactory.
getInteractorFactory() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractFullPsiXmlParser: Getter for the field interactorFactory.
getInteractorFactory() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsixmlBinaryParser: getInteractorFactory.
getInteractorFactory() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: Getter for the field interactorFactory.
getInteractorFactory() - Method in interface psidev.psi.mi.jami.xml.io.parser.PsiXmlParser: getInteractorFactory.
getInteractorFactory() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Getter for the field interactorFactory.
getInteractorFactory() - Method in class psidev.psi.mi.jami.xml.XmlEntryContext: Getter for the field interactorFactory.
getInteractorFetcher() - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorEnricher: getInteractorFetcher.
getInteractorFetcher() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeInteractorEnricher: getInteractorFetcher.
getInteractorFetcher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullComplexEnricher: getInteractorFetcher.
getInteractorFetcher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullComplexUpdater: getInteractorFetcher.
getInteractorFetcher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalBioactiveEntityEnricher: Returns the current fetcher which is being used to collect information about entities for enrichment.
getInteractorFetcher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalComplexEnricher: getInteractorFetcher.
getInteractorFetcher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalComplexUpdater: getInteractorFetcher.
getInteractorFetcher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalGeneEnricher: getInteractorFetcher.
getInteractorFetcher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalProteinEnricher: The fetcher to be used for used to collect data.
getInteractorFetcher() - Method in interface psidev.psi.mi.jami.enricher.InteractorEnricher: Returns the current fetcher which is being used to collect information about entities for enrichment.
getInteractorMemberEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractorPoolUpdater: getInteractorMemberEnricher.
getInteractorPoolEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeInteractorEnricher: Getter for the field interactorPoolEnricher.
getInteractors() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: Getter for the field interactors.
getInteractors() - Method in class psidev.psi.mi.jami.xml.model.AbstractBaseEntry: getInteractors.
getInteractorsIterator() - Method in interface psidev.psi.mi.jami.datasource.InteractorStream: The interactors iterator for this datasource.
getInteractorsIterator() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlComplexStreamSource: The interactors iterator for this datasource.
getInteractorType() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractor: Getter for the field interactorType.
getInteractorType() - Method in interface psidev.psi.mi.jami.model.Interactor: The molecule type of this interactor.
getInteractorType() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: Gets the value of the interactorType property.
getInteractorType() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: The molecule type of this interactor.
getInteractorType() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: The molecule type of this interactor.
getInteractorType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: The molecule type of this interactor.
getInteractorType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: The molecule type of this interactor.
getInteractorType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: The molecule type of this interactor.
getInteractorType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: The molecule type of this interactor.
getInteractorType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: The molecule type of this interactor.
getInteractorType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: The molecule type of this interactor.
getInteractorType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: The molecule type of this interactor.
getInteractorType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: The molecule type of this interactor.
getInteractorType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: The molecule type of this interactor.
getInteractorType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: The molecule type of this interactor.
getInteractorType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: The molecule type of this interactor.
getInteractorType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: Getter for the field interactorType.
getInteractorType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: The molecule type of this interactor.
getInteractorType() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractInteractorRef: getInteractorType.
getInteractorType() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractInteractorRef: getInteractorType.
getInteractorType() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractInteractorRef: getInteractorType.
getInteractorTypeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlInteractorWriter: Getter for the field interactorTypeWriter.
getInteractorWriter() - Method in class psidev.psi.mi.jami.json.nary.AbstractMIJsonWriter: Getter for the field interactorWriter.
getInteractorWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: Getter for the field interactorWriter.
getInteractorWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: Getter for the field interactorWriter.
getInteractorWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlParticipantCandidateWriter: Getter for the field interactorWriter.
getInteractorWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.XmlExperimentalInteractorWriter: Getter for the field interactorWriter.
getInterpro() - Method in interface psidev.psi.mi.jami.model.Feature: The interpro identifier if it exists, null otherwise.
getInterpro() - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature: Getter for the field interpro.
getInterpro() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: getInterpro.
getInterpro() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.FeatureXrefContainer: Getter for the field interpro.
getInterpro() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidenceWrapper: The interpro identifier if it exists, null otherwise.
getInterpro() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureWrapper: The interpro identifier if it exists, null otherwise.
getInterpro() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: getInterpro.
getInterpro() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.FeatureXrefContainer: Getter for the field interpro.
getInterpro() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidenceWrapper: The interpro identifier if it exists, null otherwise.
getInterpro() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureWrapper: The interpro identifier if it exists, null otherwise.
getInterpro() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: getInterpro.
getInterpro() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.FeatureXrefContainer: Getter for the field interpro.
getInterpro() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidenceWrapper: The interpro identifier if it exists, null otherwise.
getInterpro() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureWrapper: The interpro identifier if it exists, null otherwise.
getInterpro() - Method in class psidev.psi.mi.jami.xml.model.reference.AbstractFeatureRef: getInterpro.
getIpr() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.SeqFeatureType: Gets the value of the ipr property.
getJAXBAffectedInteractionRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect.JAXBAffectedInteractionRefWrapper
getJAXBAttributes() - Method in class psidev.psi.mi.jami.xml.model.AbstractBaseEntry.AbstractJAXBAnnotationsWrapper
getJAXBAttributes() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor.AbstractJAXBAttributeWrapper
getJAXBAttributes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm.JAXBAttributeWrapper
getJAXBAttributes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment.JAXBAttributeWrapper
getJAXBAttributes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature.JAXBAttributeWrapper
getJAXBAttributes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction.JAXBAttributeWrapper
getJAXBAttributes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractor.JAXBAttributeWrapper
getJAXBAttributes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant.JAXBAttributeWrapper
getJAXBAttributes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource.JAXBAttributeWrapper
getJAXBAttributes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef.JAXBAttributeWrapper
getJAXBAttributes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlXref.JAXBAttributeWrapper
getJAXBAttributes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm.JAXBAttributeWrapper
getJAXBAttributes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment.JAXBAttributeWrapper
getJAXBAttributes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature.JAXBAttributeWrapper
getJAXBAttributes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction.JAXBAttributeWrapper
getJAXBAttributes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractor.JAXBAttributeWrapper
getJAXBAttributes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant.JAXBAttributeWrapper
getJAXBAttributes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource.JAXBAttributeWrapper
getJAXBAttributes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef.JAXBAttributeWrapper
getJAXBAttributes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlXref.JAXBAttributeWrapper
getJAXBAttributes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect.JAXBAttributeWrapper
getJAXBAttributes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm.JAXBAttributeWrapper
getJAXBAttributes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment.JAXBAttributeWrapper
getJAXBAttributes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature.JAXBAttributeWrapper
getJAXBAttributes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction.JAXBAttributeWrapper
getJAXBAttributes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractor.JAXBAttributeWrapper
getJAXBAttributes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant.JAXBAttributeWrapper
getJAXBAttributes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource.JAXBAttributeWrapper
getJAXBAttributes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef.JAXBAttributeWrapper
getJAXBAttributes() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlXref.JAXBAttributeWrapper
getJAXBAttributes() - Method in class psidev.psi.mi.jami.xml.model.xml253.AbstractEntry.JAXBAnnotationsWrapper
getJAXBAttributes() - Method in class psidev.psi.mi.jami.xml.model.xml254.AbstractEntry.JAXBAnnotationsWrapper
getJAXBAttributes() - Method in class psidev.psi.mi.jami.xml.model.xml30.AbstractEntry.JAXBAnnotationsWrapper
getJAXBAttributeWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: getJAXBAttributeWrapper.
getJAXBAttributeWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: getJAXBAttributeWrapper.
getJAXBAttributeWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: getJAXBAttributeWrapper.
getJAXBAvailabilities() - Method in class psidev.psi.mi.jami.xml.model.xml253.ExperimentalEntry.JAXBAvailabilitiesWrapper
getJAXBAvailabilities() - Method in class psidev.psi.mi.jami.xml.model.xml254.ExperimentalEntry.JAXBAvailabilitiesWrapper
getJAXBAvailabilities() - Method in class psidev.psi.mi.jami.xml.model.xml30.Entry.JAXBAvailabilitiesWrapper
getJAXBAvailabilities() - Method in class psidev.psi.mi.jami.xml.model.xml30.ExperimentalEntry.JAXBAvailabilitiesWrapper
getJAXBBindingFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBBindingFeaturesWrapper
getJAXBCausalRelationships() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidence.JAXBCausalRelationshipWrapper
getJAXBCausalRelationships() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBCausalRelationshipWrapper
getJAXBConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment.JAXBConfidenceWrapper
getJAXBConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence.JAXBConfidenceWrapper
getJAXBConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction.JAXBConfidenceWrapper
getJAXBConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBConfidenceWrapper
getJAXBConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment.JAXBConfidenceWrapper
getJAXBConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence.JAXBConfidenceWrapper
getJAXBConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction.JAXBConfidenceWrapper
getJAXBConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBConfidenceWrapper
getJAXBConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment.JAXBConfidenceWrapper
getJAXBConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence.JAXBConfidenceWrapper
getJAXBConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction.JAXBConfidenceWrapper
getJAXBConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBConfidenceWrapper
getJAXBConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBConfidenceWrapper
getJAXBConfidenceWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: getJAXBConfidenceWrapper.
getJAXBConfidenceWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: getJAXBConfidenceWrapper.
getJAXBConfidenceWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: getJAXBConfidenceWrapper.
getJAXBCooperativeEffects() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBCooperativeEffectWrapper
getJAXBCooperativityEvidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect.JAXBCooperativityEvidenceWrapper
getJAXBEvidenceMethods() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCooperativityEvidence.JAXBEvidenceMethodWrapper
getJAXBExperimentalInteractors() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBExperimentalInteractorWrapper
getJAXBExperimentalInteractors() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBExperimentalInteractorWrapper
getJAXBExperimentalInteractors() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBExperimentalInteractorWrapper
getJAXBExperimentalPreparations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBExperimentalPreparationWrapper
getJAXBExperimentalPreparations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBExperimentalPreparationWrapper
getJAXBExperimentalPreparations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBExperimentalPreparationWrapper
getJAXBExperimentalRoles() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBExperimentalRoleWrapper
getJAXBExperimentalRoles() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBExperimentalRoleWrapper
getJAXBExperimentalRoles() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBExperimentalRoleWrapper
getJAXBExperimentDescriptions() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence.JAXBExperimentWrapper
getJAXBExperimentDescriptions() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction.JAXBExperimentWrapper
getJAXBExperimentDescriptions() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence.JAXBExperimentWrapper
getJAXBExperimentDescriptions() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction.JAXBExperimentWrapper
getJAXBExperimentDescriptions() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence.JAXBExperimentWrapper
getJAXBExperimentDescriptions() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction.JAXBExperimentWrapper
getJAXBExperimentDescriptions() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidence.JAXBExperimentWrapper
getJAXBExperimentRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractExperimentalInteractor.AbstractJAXBExperimentRefWrapper
getJAXBExperimentRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractInferredInteraction.AbstractJAXBExperimentRefWrapper
getJAXBExperimentRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence.JAXBExperimentWrapper
getJAXBExperimentRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction.JAXBExperimentWrapper
getJAXBExperimentRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.ExperimentalCvTerm.JAXBExperimentRefWrapper
getJAXBExperimentRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.ExperimentalInteractor.JAXBExperimentRefWrapper
getJAXBExperimentRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.HostOrganism.JAXBExperimentRefWrapper
getJAXBExperimentRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.InferredInteraction.JAXBExperimentRefWrapper
getJAXBExperimentRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlConfidence.JAXBExperimentRefWrapper
getJAXBExperimentRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence.JAXBExperimentRefWrapper
getJAXBExperimentRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence.JAXBExperimentWrapper
getJAXBExperimentRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction.JAXBExperimentWrapper
getJAXBExperimentRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.ExperimentalCvTerm.JAXBExperimentRefWrapper
getJAXBExperimentRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.ExperimentalInteractor.JAXBExperimentRefWrapper
getJAXBExperimentRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.HostOrganism.JAXBExperimentRefWrapper
getJAXBExperimentRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.InferredInteraction.JAXBExperimentRefWrapper
getJAXBExperimentRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlConfidence.JAXBExperimentRefWrapper
getJAXBExperimentRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence.JAXBExperimentRefWrapper
getJAXBExperimentRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence.JAXBExperimentWrapper
getJAXBExperimentRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction.JAXBExperimentWrapper
getJAXBExperimentRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.ExperimentalCvTerm.JAXBExperimentRefWrapper
getJAXBExperimentRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.ExperimentalInteractor.JAXBExperimentRefWrapper
getJAXBExperimentRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.HostOrganism.JAXBExperimentRefWrapper
getJAXBExperimentRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.InferredInteraction.JAXBExperimentRefWrapper
getJAXBExperimentRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlConfidence.JAXBExperimentRefWrapper
getJAXBExperimentRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence.JAXBExperimentRefWrapper
getJAXBExperimentRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidence.JAXBExperimentWrapper
getJaxbExperimentRefWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractExperimentalInteractor
getJaxbExperimentRefWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractInferredInteraction
getJAXBExperiments() - Method in class psidev.psi.mi.jami.xml.model.xml253.ComplexEntry.JAXBExperimentsWrapper
getJAXBExperiments() - Method in class psidev.psi.mi.jami.xml.model.xml253.ExperimentalEntry.JAXBExperimentsWrapper
getJAXBExperiments() - Method in class psidev.psi.mi.jami.xml.model.xml253.ModelledEntry.JAXBExperimentsWrapper
getJAXBExperiments() - Method in class psidev.psi.mi.jami.xml.model.xml254.ComplexEntry.JAXBExperimentsWrapper
getJAXBExperiments() - Method in class psidev.psi.mi.jami.xml.model.xml254.ExperimentalEntry.JAXBExperimentsWrapper
getJAXBExperiments() - Method in class psidev.psi.mi.jami.xml.model.xml254.ModelledEntry.JAXBExperimentsWrapper
getJAXBExperiments() - Method in class psidev.psi.mi.jami.xml.model.xml30.ComplexEntry.JAXBExperimentsWrapper
getJAXBExperiments() - Method in class psidev.psi.mi.jami.xml.model.xml30.Entry.JAXBExperimentsWrapper
getJAXBExperiments() - Method in class psidev.psi.mi.jami.xml.model.xml30.ExperimentalEntry.JAXBExperimentsWrapper
getJAXBExperiments() - Method in class psidev.psi.mi.jami.xml.model.xml30.ModelledEntry.JAXBExperimentsWrapper
getJAXBExperimentWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: getJAXBExperimentWrapper.
getJAXBExperimentWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: getJAXBExperimentWrapper.
getJAXBExperimentWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: getJAXBExperimentWrapper.
getJAXBFeatureDetectionMethods() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence: getJAXBFeatureDetectionMethods.
getJAXBFeatureDetectionMethods() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence: getJAXBFeatureDetectionMethods.
getJAXBFeatureDetectionMethods() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence: getJAXBFeatureDetectionMethods.
getJAXBFeatureRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BindingFeatures: getJAXBFeatureRefs.
getJAXBFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity.JAXBFeatureWrapper
getJAXBFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidate.JAXBFeatureWrapper
getJAXBFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipant.JAXBFeatureWrapper
getJAXBFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipantCandidate.JAXBFeatureWrapper
getJAXBFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipant.JAXBFeatureWrapper
getJAXBFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBFeatureWrapper
getJAXBFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity.JAXBFeatureWrapper
getJAXBFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidate.JAXBFeatureWrapper
getJAXBFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipant.JAXBFeatureWrapper
getJAXBFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipantCandidate.JAXBFeatureWrapper
getJAXBFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipant.JAXBFeatureWrapper
getJAXBFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBFeatureWrapper
getJAXBFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity.JAXBFeatureWrapper
getJAXBFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidate.JAXBFeatureWrapper
getJAXBFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipant.JAXBFeatureWrapper
getJAXBFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipantCandidate.JAXBFeatureWrapper
getJAXBFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipant.JAXBFeatureWrapper
getJAXBFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBFeatureWrapper
getJAXBHostOrganisms() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment.JAXBHostOrganismWrapper
getJAXBHostOrganisms() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBHostOrganismWrapper
getJAXBHostOrganisms() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment.JAXBHostOrganismWrapper
getJAXBHostOrganisms() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBHostOrganismWrapper
getJAXBHostOrganisms() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment.JAXBHostOrganismWrapper
getJAXBHostOrganisms() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBHostOrganismWrapper
getJAXBInferredInteractions() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper
getJAXBInferredInteractions() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper
getJAXBInferredInteractions() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper
getJAXBInteractions() - Method in class psidev.psi.mi.jami.xml.model.AbstractBaseEntry.AbstractJAXBInteractionsWrapper
getJAXBInteractions() - Method in class psidev.psi.mi.jami.xml.model.xml253.BasicEntry.JAXBInteractionsWrapper
getJAXBInteractions() - Method in class psidev.psi.mi.jami.xml.model.xml253.ComplexEntry.JAXBInteractionsWrapper
getJAXBInteractions() - Method in class psidev.psi.mi.jami.xml.model.xml253.ExperimentalEntry.JAXBInteractionsWrapper
getJAXBInteractions() - Method in class psidev.psi.mi.jami.xml.model.xml253.ModelledEntry.JAXBInteractionsWrapper
getJAXBInteractions() - Method in class psidev.psi.mi.jami.xml.model.xml254.BasicEntry.JAXBInteractionsWrapper
getJAXBInteractions() - Method in class psidev.psi.mi.jami.xml.model.xml254.ComplexEntry.JAXBInteractionsWrapper
getJAXBInteractions() - Method in class psidev.psi.mi.jami.xml.model.xml254.ExperimentalEntry.JAXBInteractionsWrapper
getJAXBInteractions() - Method in class psidev.psi.mi.jami.xml.model.xml254.ModelledEntry.JAXBInteractionsWrapper
getJAXBInteractions() - Method in class psidev.psi.mi.jami.xml.model.xml30.BasicEntry.JAXBInteractionsWrapper
getJAXBInteractions() - Method in class psidev.psi.mi.jami.xml.model.xml30.ComplexEntry.JAXBInteractionsWrapper
getJAXBInteractions() - Method in class psidev.psi.mi.jami.xml.model.xml30.Entry.JAXBInteractionsWrapper
getJAXBInteractions() - Method in class psidev.psi.mi.jami.xml.model.xml30.ExperimentalEntry.JAXBInteractionsWrapper
getJAXBInteractions() - Method in class psidev.psi.mi.jami.xml.model.xml30.ModelledEntry.JAXBInteractionsWrapper
getJAXBInteractorCandidates() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: getJAXBInteractorCandidates.
getJAXBInteractorCandidates() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: getJAXBInteractorCandidates.
getJAXBInteractorCandidates() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: getJAXBInteractorCandidates.
getJAXBInteractors() - Method in class psidev.psi.mi.jami.xml.model.AbstractBaseEntry.AbstractJAXBInteractorsWrapper
getJAXBInteractors() - Method in class psidev.psi.mi.jami.xml.model.xml253.AbstractEntry.JAXBInteractorsWrapper
getJAXBInteractors() - Method in class psidev.psi.mi.jami.xml.model.xml254.AbstractEntry.JAXBInteractorsWrapper
getJAXBInteractors() - Method in class psidev.psi.mi.jami.xml.model.xml30.AbstractEntry.JAXBInteractorsWrapper
getJAXBParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence.JAXBParameterWrapper
getJAXBParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction.JAXBParameterWrapper
getJAXBParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence.JAXBParameterWrapper
getJAXBParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBParameterWrapper
getJAXBParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence.JAXBParameterWrapper
getJAXBParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction.JAXBParameterWrapper
getJAXBParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence.JAXBParameterWrapper
getJAXBParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBParameterWrapper
getJAXBParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence.JAXBParameterWrapper
getJAXBParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction.JAXBParameterWrapper
getJAXBParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence.JAXBParameterWrapper
getJAXBParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBParameterWrapper
getJAXBParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBParameterWrapper
getJAXBParameterWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: getJAXBParameterWrapper.
getJAXBParameterWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: getJAXBParameterWrapper.
getJAXBParameterWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: getJAXBParameterWrapper.
getJAXBParticipantIdentificationMethods() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBParticipantIdentificationWrapper
getJAXBParticipantIdentificationMethods() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBParticipantIdentificationWrapper
getJAXBParticipantIdentificationMethods() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBParticipantIdentificationWrapper
getJAXBParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlBasicInteraction.JAXBParticipantWrapper
getJAXBParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction.JAXBParticipantWrapper
getJAXBParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence.JAXBParticipantWrapper
getJAXBParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction.JAXBParticipantWrapper
getJAXBParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlBasicInteraction.JAXBParticipantWrapper
getJAXBParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction.JAXBParticipantWrapper
getJAXBParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence.JAXBParticipantWrapper
getJAXBParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction.JAXBParticipantWrapper
getJAXBParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlBasicInteraction.JAXBParticipantWrapper
getJAXBParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction.JAXBParticipantWrapper
getJAXBParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence.JAXBParticipantWrapper
getJAXBParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction.JAXBParticipantWrapper
getJAXBParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBParticipantWrapper
getJAXBRanges() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature.JAXBRangeWrapper
getJAXBRanges() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature.JAXBRangeWrapper
getJAXBRanges() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature.JAXBRangeWrapper
getJAXBRangeWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: getJAXBRangeWrapper.
getJAXBRangeWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: getJAXBRangeWrapper.
getJAXBRangeWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: getJAXBRangeWrapper.
getJAXBSecondaryRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XrefContainer: Gets the value of the secondaryReves property.
getJAXBSecondaryRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XrefContainer: Gets the value of the secondaryReves property.
getJAXBSecondaryRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XrefContainer: Gets the value of the secondaryReves property.
getJAXBVariableParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment.JAXBVariableParameterWrapper
getJAXBVariableParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment.JAXBVariableParameterWrapper
getJAXBVariableParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment.JAXBVariableParameterWrapper
getJAXBVariableParameterValues() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameter.JAXBVariableValueWrapper
getJAXBVariableParameterValues() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameter.JAXBVariableValueWrapper
getJAXBVariableParameterValues() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidence.JAXBVariableParameterValueSetWrapper
getJAXBVariableParameterValues() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameter.JAXBVariableValueWrapper
getJAXBVariableValueRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameterValueSet: getJAXBVariableValueRefs.
getJob(String) - Method in class psidev.psi.mi.jami.batch.SimpleJobRegistry
getJobNames() - Method in class psidev.psi.mi.jami.batch.SimpleJobRegistry: getJobNames.
getJobOperator() - Method in class psidev.psi.mi.jami.batch.MIBatchJobManager: Getter for the field jobOperator.
getJobRepository() - Method in class psidev.psi.mi.jami.batch.MIBatchJobManager: Getter for the field jobRepository.
getJobStatusFor(String, String) - Method in class psidev.psi.mi.jami.batch.MIBatchJobManager: The job status of a given job name and id
getJournal() - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: Getter for the field journal.
getJournal() - Method in interface psidev.psi.mi.jami.model.Publication: The journal where the publication has been published.
getJournal() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: getJournal.
getJournal() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: getJournal.
getJournal() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: getJournal.
getJsonOptions(Object, InteractionCategory, ComplexType, MIJsonType, OntologyTermFetcher, ComplexExpansionMethod) - Method in class psidev.psi.mi.jami.json.MIJsonOptionFactory: Create the options for the JSON InteractionWriter.
getJsonOptions(MIJsonType, File) - Method in class psidev.psi.mi.jami.json.MIJsonOptionFactory: Create the options for a JSON interaction writer.
getJsonOptions(MIJsonType, OutputStream) - Method in class psidev.psi.mi.jami.json.MIJsonOptionFactory: Create the options for a JSON interaction writer.
getJsonOptions(MIJsonType, Writer) - Method in class psidev.psi.mi.jami.json.MIJsonOptionFactory: Create the options for a JSON interaction writer.
getJsonOptions(InteractionCategory, File) - Method in class psidev.psi.mi.jami.json.MIJsonOptionFactory: Create the options for a JSON interaction writer.
getJsonOptions(InteractionCategory, OutputStream) - Method in class psidev.psi.mi.jami.json.MIJsonOptionFactory: Create the options for a JSON interaction writer.
getJsonOptions(InteractionCategory, Writer) - Method in class psidev.psi.mi.jami.json.MIJsonOptionFactory: Create the options for a JSON interaction writer.
getJsonOptions(InteractionCategory, ComplexExpansionMethod, File) - Method in class psidev.psi.mi.jami.json.MIJsonOptionFactory: Create the options for a JSON interaction writer which will be by default of type MIJsonType.binary_only as a complex ecpasnion is provided.
getJsonOptions(InteractionCategory, ComplexExpansionMethod, OutputStream) - Method in class psidev.psi.mi.jami.json.MIJsonOptionFactory: Create the options for a JSON interaction writer which will be by default of type MIJsonType.binary_only as a complex ecpasnion is provided.
getJsonOptions(InteractionCategory, ComplexExpansionMethod, Writer) - Method in class psidev.psi.mi.jami.json.MIJsonOptionFactory: Create the options for a JSON interaction writer which will be by default of type MIJsonType.binary_only as a complex ecpasnion is provided.
getJsonOptions(InteractionCategory, ComplexExpansionMethod, OntologyTermFetcher, File) - Method in class psidev.psi.mi.jami.json.MIJsonOptionFactory: Create the options for a JSON interaction writer which will be by default of type MIJsonType.binary_only as a complex ecpasnion is provided.
getJsonOptions(InteractionCategory, ComplexExpansionMethod, OntologyTermFetcher, OutputStream) - Method in class psidev.psi.mi.jami.json.MIJsonOptionFactory: Create the options for a JSON interaction writer which will be by default of type MIJsonType.binary_only as a complex ecpasnion is provided.
getJsonOptions(InteractionCategory, ComplexExpansionMethod, OntologyTermFetcher, Writer) - Method in class psidev.psi.mi.jami.json.MIJsonOptionFactory: Create the options for a JSON interaction writer which will be by default of type MIJsonType.binary_only as a complex ecpasnion is provided.
getJsonOptions(InteractionCategory, OntologyTermFetcher, File) - Method in class psidev.psi.mi.jami.json.MIJsonOptionFactory: Create the options for a JSON interaction writer.
getJsonOptions(InteractionCategory, OntologyTermFetcher, OutputStream) - Method in class psidev.psi.mi.jami.json.MIJsonOptionFactory: Create the options for a JSON interaction writer.
getJsonOptions(InteractionCategory, OntologyTermFetcher, Writer) - Method in class psidev.psi.mi.jami.json.MIJsonOptionFactory: Create the options for a JSON interaction writer.
getLast() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.DbReferenceType: Gets the value of the last property.
getLastGeneratedId() - Method in class psidev.psi.mi.jami.xml.cache.InMemoryIdentityObjectCache: getLastGeneratedId.
getLastGeneratedId() - Method in class psidev.psi.mi.jami.xml.cache.InMemoryLightIdentityObjectCache: getLastGeneratedId.
getLastGeneratedId() - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlObjectCache: getLastGeneratedId.
getLastSequenceAtTheDate(String, Date) - Method in class psidev.psi.mi.jami.bridges.unisave.UnisaveClient: getLastSequenceAtTheDate.
getLcn() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.SeqFeatureType: Gets the value of the lcn property.
getLength() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Sequence: Gets the value of the length property.
getLessThan() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: Getter for the field lessThan.
getLightWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlMixWriter: Getter for the field lightWriter.
getLine() - Method in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream: Deprecated.
getLine() - Method in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Deprecated.
getLineNumber() - Method in class psidev.psi.mi.jami.datasource.FileSourceLocator: The line number in the file where the object is located
getLineParser() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Getter for the field lineParser.
getLineParser() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Getter for the field lineParser.
getLineParser() - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Getter for the field lineParser.
getLinkedFeatures() - Method in interface psidev.psi.mi.jami.model.Feature: The other features that can bind to this feature.
getLinkedFeatures() - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature: Getter for the field linkedFeatures.
getLinkedFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: Getter for the field linkedFeatures.
getLinkedFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidenceWrapper: The other features that can bind to this feature.
getLinkedFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureWrapper: The other features that can bind to this feature.
getLinkedFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: Getter for the field linkedFeatures.
getLinkedFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidenceWrapper: The other features that can bind to this feature.
getLinkedFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureWrapper: The other features that can bind to this feature.
getLinkedFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: Getter for the field linkedFeatures.
getLinkedFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BindingFeatures: Getter for the field linkedFeatures.
getLinkedFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidenceWrapper: The other features that can bind to this feature.
getLinkedFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureWrapper: The other features that can bind to this feature.
getLinkedFeatures() - Method in class psidev.psi.mi.jami.xml.model.reference.AbstractFeatureRef: getLinkedFeatures.
getListener() - Method in class psidev.psi.mi.jami.bridges.mapper.mock.MockProteinMapper: Getter for the field listener.
getListener() - Method in interface psidev.psi.mi.jami.bridges.mapper.ProteinMapper: getListener.
getListener() - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorEnricher: Getter for the field listener.
getListener() - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorUpdater: Getter for the field listener.
getListener() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeInteractorEnricher: getListener.
getListener() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullComplexEnricher: getListener.
getListener() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullComplexUpdater: getListener.
getListener() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalComplexEnricher: getListener.
getListener() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalComplexUpdater: getListener.
getListener() - Method in interface psidev.psi.mi.jami.enricher.InteractorEnricher: The current listener of changes to the bioactiveEntities.
getListener() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractFullPsiXmlParser: getListener.
getListener() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsixmlBinaryParser: getListener.
getListener() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: Getter for the field listener.
getListener() - Method in interface psidev.psi.mi.jami.xml.io.parser.FullPsiXmlParser: getListener.
getListener() - Method in interface psidev.psi.mi.jami.xml.io.parser.PsiXmlParser: getListener.
getListener() - Method in class psidev.psi.mi.jami.xml.XmlEntryContext: Getter for the field listener.
getListenersList() - Method in class psidev.psi.mi.jami.enricher.listener.impl.EnricherListenerManager: Getter for the field listenersList.
getLocator() - Method in exception psidev.psi.mi.jami.xml.exception.PsiXmlParserException: Getter for the field locator.
getMaxValue() - Method in class psidev.psi.mi.jami.model.impl.DefaultStoichiometry: Getter for the field maxValue.
getMaxValue() - Method in interface psidev.psi.mi.jami.model.Stoichiometry: The maximum value for the stoichiometry.
getMaxValue() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlStoichiometryRange: Getter for the field maxValue.
getMaxValue() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlStoichiometryRange: Getter for the field maxValue.
getMaxValue() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlStoichiometryRange: Getter for the field maxValue.
getMessage() - Method in enum psidev.psi.mi.jami.listener.comparator.event.ComplexComparisonEvent.EventType
getMessage() - Method in class psidev.psi.mi.jami.listener.comparator.event.ComplexComparisonEvent
getMessage() - Method in error psidev.psi.mi.jami.tab.io.parser.TokenMgrError: You can also modify the body of this method to customize your error messages.
getMethod() - Method in class psidev.psi.mi.jami.binary.expansion.AbstractComplexExpansionMethod: The CvTerm that describe the method used to expand.
getMethod() - Method in interface psidev.psi.mi.jami.binary.expansion.ComplexExpansionMethod: The method represented by the ComplexExpansionMethod object.
getMethod() - Method in interface psidev.psi.mi.jami.model.Checksum: The method is a controlled vocabulary term and cannot be null Ex: ROGID, CROGID, RIGID, CRC64, ...
getMethod() - Method in class psidev.psi.mi.jami.model.impl.DefaultChecksum: Getter for the field method.
getMethodComparator() - Method in class psidev.psi.mi.jami.utils.comparator.checksum.ChecksumComparator: Getter for the field methodComparator.
getMethodComparator() - Method in class psidev.psi.mi.jami.utils.comparator.checksum.UnambiguousChecksumComparator: Getter for the field methodComparator.
getMIDataSourceWith(Map<String, Object>) - Method in class psidev.psi.mi.jami.factory.MIDataSourceFactory: getMIDataSourceWith
getMIIdentifier() - Method in interface psidev.psi.mi.jami.model.CvTerm: The unique PSI-MI identifier which identifies the object in the PSI-MI ontology.
getMIIdentifier() - Method in class psidev.psi.mi.jami.model.impl.DefaultCvTerm: getMIIdentifier
getMIIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm: getMIIdentifier.
getMIIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.CvTermXrefContainer: getMIIdentifier.
getMIIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm: getMIIdentifier.
getMIIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.CvTermXrefContainer: getMIIdentifier.
getMIIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm: getMIIdentifier.
getMIIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.CvTermXrefContainer: getMIIdentifier.
getMinimalCvTermUpdater() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullCvTermUpdater: Getter for the field minimalCvTermUpdater.
getMinimalEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceEnricher: Getter for the field minimalEnricher.
getMinimalEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceUpdater: Getter for the field minimalEnricher.
getMinimalPublicationUpdater() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullCuratedPublicationUpdater: Getter for the field minimalPublicationUpdater.
getMinimalPublicationUpdater() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullPublicationUpdater: Getter for the field minimalPublicationUpdater.
getMinimalUpdater() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureUpdater: Getter for the field minimalUpdater.
getMinimalUpdater() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEvidenceUpdater: Getter for the field minimalUpdater.
getMinimalUpdater() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEvidenceUpdater: Getter for the field minimalUpdater.
getMinimalUpdater() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEvidenceUpdater: Getter for the field minimalUpdater.
getMinValue() - Method in class psidev.psi.mi.jami.model.impl.DefaultStoichiometry: Getter for the field minValue.
getMinValue() - Method in interface psidev.psi.mi.jami.model.Stoichiometry: The minimum value for the stoichiometry.
getMinValue() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlStoichiometryRange: Getter for the field minValue.
getMinValue() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlStoichiometryRange: Getter for the field minValue.
getMinValue() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlStoichiometryRange: Getter for the field minValue.
getMitabOptions(boolean, Object) - Method in class psidev.psi.mi.jami.commons.MIDataSourceOptionFactory: Create the options for the MITAB datasource and specify if we want a Streaming MIFileDatasource.
getMitabOptions(boolean, MitabVersion, File) - Method in class psidev.psi.mi.jami.commons.MIWriterOptionFactory: Create the options for a MITAB interaction writer.
getMitabOptions(boolean, MitabVersion, OutputStream) - Method in class psidev.psi.mi.jami.commons.MIWriterOptionFactory: Create the options for a MITAB interaction writer.
getMitabOptions(boolean, MitabVersion, Writer) - Method in class psidev.psi.mi.jami.commons.MIWriterOptionFactory: Create the options for a MITAB interaction writer.
getMitabOptions(Object, InteractionCategory, ComplexType, ComplexExpansionMethod, boolean, MitabVersion, boolean) - Method in class psidev.psi.mi.jami.commons.MIWriterOptionFactory: Create the options for the MITAB InteractionWriter.
getMitabOptions(MIFileParserListener, Object) - Method in class psidev.psi.mi.jami.commons.MIDataSourceOptionFactory: Create the options for the MITAB datasource using the provided MIFileParserListener.
getMitabOptions(InteractionCategory, ComplexType, boolean, MIFileParserListener, Object) - Method in class psidev.psi.mi.jami.commons.MIDataSourceOptionFactory: Create the options for the MITAB datasource.
getMitabOptions(InteractionCategory, ComplexType, File) - Method in class psidev.psi.mi.jami.commons.MIWriterOptionFactory: Create the options for a MITAB interaction writer.
getMitabOptions(InteractionCategory, ComplexType, OutputStream) - Method in class psidev.psi.mi.jami.commons.MIWriterOptionFactory: Create the options for a MITAB interaction writer.
getMitabOptions(InteractionCategory, ComplexType, Writer) - Method in class psidev.psi.mi.jami.commons.MIWriterOptionFactory: Create the options for a MITAB interaction writer.
getMitabOptions(InteractionCategory, ComplexType, Object) - Method in class psidev.psi.mi.jami.commons.MIDataSourceOptionFactory: Create the options for the MITAB datasource using the provided objectCategory.
getModelledConfidences() - Method in class psidev.psi.mi.jami.binary.impl.DefaultModelledBinaryInteraction: Getter for the field modelledConfidences.
getModelledConfidences() - Method in class psidev.psi.mi.jami.binary.impl.ModelledBinaryInteractionWrapper: getModelledConfidences
getModelledConfidences() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: getModelledConfidences
getModelledConfidences() - Method in class psidev.psi.mi.jami.model.impl.DefaultModelledInteraction: Getter for the field modelledConfidences.
getModelledConfidences() - Method in interface psidev.psi.mi.jami.model.ModelledInteraction: The confidences in this interaction.
getModelledConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: Getter for the field modelledConfidences.
getModelledConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: The confidences in this interaction.
getModelledConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteraction: Getter for the field modelledConfidences.
getModelledConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: The confidences in this interaction.
getModelledConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction: getModelledConfidences.
getModelledConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: Getter for the field modelledConfidences.
getModelledConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: Getter for the field modelledConfidences.
getModelledConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: getModelledConfidences.
getModelledConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction: getModelledConfidences.
getModelledConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: Getter for the field modelledConfidences.
getModelledConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: Getter for the field modelledConfidences.
getModelledConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: getModelledConfidences.
getModelledConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction: getModelledConfidences.
getModelledConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: Getter for the field modelledConfidences.
getModelledConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: Getter for the field modelledConfidences.
getModelledConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: getModelledConfidences.
getModelledConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: getModelledConfidences.
getModelledConfidences() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: getModelledConfidences.
getModelledConfidences() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: getModelledConfidences.
getModelledConfidences() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: getModelledConfidences.
getModelledEntityComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.ModelledParticipantPoolComparator: Getter for the field modelledEntityComparator.
getModelledEntityComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactModelledParticipantPoolComparator: Getter for the field modelledEntityComparator.
getModelledEntityComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousModelledParticipantPoolComparator: Getter for the field modelledEntityComparator.
getModelledEntityEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeEntityEnricher: Getter for the field modelledEntityEnricher.
getModelledEntityEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeParticipantEnricher: Getter for the field modelledEntityEnricher.
getModelledInteractionCollectionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.CooperativeEffectBaseComparator: Getter for the field modelledInteractionCollectionComparator.
getModelledInteractionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.InteractionComparator: Getter for the field modelledInteractionComparator.
getModelledInteractionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousCuratedInteractionComparator
getModelledInteractionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactCuratedInteractionComparator
getModelledInteractionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactInteractionComparator
getModelledInteractionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousInteractionComparator: Getter for the field modelledInteractionComparator.
getModelledParameters() - Method in class psidev.psi.mi.jami.binary.impl.DefaultModelledBinaryInteraction: Getter for the field modelledParameters.
getModelledParameters() - Method in class psidev.psi.mi.jami.binary.impl.ModelledBinaryInteractionWrapper: getModelledParameters
getModelledParameters() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: getModelledParameters
getModelledParameters() - Method in class psidev.psi.mi.jami.model.impl.DefaultModelledInteraction: Getter for the field modelledParameters.
getModelledParameters() - Method in interface psidev.psi.mi.jami.model.ModelledInteraction: Collection of numerical parameters for this interaction.
getModelledParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: Getter for the field modelledParameters.
getModelledParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: Collection of numerical parameters for this interaction.
getModelledParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteraction: Getter for the field modelledParameters.
getModelledParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: Collection of numerical parameters for this interaction.
getModelledParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction: getModelledParameters.
getModelledParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: Getter for the field modelledParameters.
getModelledParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: Getter for the field modelledParameters.
getModelledParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: getModelledParameters.
getModelledParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction: getModelledParameters.
getModelledParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: Getter for the field modelledParameters.
getModelledParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: Getter for the field modelledParameters.
getModelledParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: getModelledParameters.
getModelledParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction: getModelledParameters.
getModelledParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: Getter for the field modelledParameters.
getModelledParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: Getter for the field modelledParameters.
getModelledParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: getModelledParameters.
getModelledParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: getModelledParameters.
getModelledParameters() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: getModelledParameters.
getModelledParameters() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: getModelledParameters.
getModelledParameters() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: getModelledParameters.
getModelledWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlMixWriter: Getter for the field modelledWriter.
getMODIdentifier() - Method in interface psidev.psi.mi.jami.model.CvTerm: The unique PSI-MOD identifier which identifies the object in the PSI-MOD ontology.
getMODIdentifier() - Method in class psidev.psi.mi.jami.model.impl.DefaultCvTerm: getMODIdentifier
getMODIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm: getMODIdentifier.
getMODIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.CvTermXrefContainer: getMODIdentifier.
getMODIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm: getMODIdentifier.
getMODIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.CvTermXrefContainer: getMODIdentifier.
getMODIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm: getMODIdentifier.
getMODIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.CvTermXrefContainer: getMODIdentifier.
getMolecule() - Method in class psidev.psi.mi.jami.model.impl.DefaultMoleculeEffector: getMolecule
getMolecule() - Method in interface psidev.psi.mi.jami.model.MoleculeEffector: Refers to the participant (any participating entity such as simple participant, participant pool or participant candidate) that elicits an allosteric response in an allosteric molecule upon binding to that molecule.
getMolecule() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlMoleculeEffector: getMolecule.
getMolecule() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlMoleculeEffector: getMolecule.
getMolecule() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlMoleculeEffector: getMolecule.
getMoleculeEffectorComparator() - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.AllosteryComparator: Getter for the field moleculeEffectorComparator.
getMoleculeEffectorComparator() - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousAllosteryComparator: Getter for the field moleculeEffectorComparator.
getMoleculeEffectorComparator() - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousExactAllosteryComparator: Getter for the field moleculeEffectorComparator.
getName() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.SeqFeatureGroupType: Gets the value of the name property.
getName() - Method in interface psidev.psi.mi.jami.model.Alias: Alias name cannot be null.
getName() - Method in class psidev.psi.mi.jami.model.impl.DefaultAlias: Getter for the field name.
getName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAlias: Getter for the field name.
getName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAlias: Getter for the field name.
getName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAlias: Getter for the field name.
getName2Term() - Method in class psidev.psi.mi.jami.bridges.obo.OboFetcherTemplate: Getter for the field name2Term.
getNamesContainer() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: Getter for the field namesContainer.
getNamesContainer() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm: Getter for the field namesContainer.
getNamesContainer() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm: Getter for the field namesContainer.
getNamesContainer() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm: Getter for the field namesContainer.
getNamespaceURI() - Method in class psidev.psi.mi.jami.xml.io.parser.XmlReaderWithDefaultNamespace
getNameSynonyms() - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.OntologyTermWrapper: getNameSynonyms.
getNaryGroup() - Method in interface psidev.psi.mi.jami.crosslink.extension.CrosslinkCsvInteraction: getNaryGroup.
getNaryGroup() - Method in class psidev.psi.mi.jami.crosslink.extension.CsvBinaryInteractionEvidence: getNaryGroup.
getNaryGroup() - Method in class psidev.psi.mi.jami.crosslink.extension.CsvInteractionEvidence: getNaryGroup.
getNewSequence() - Method in class psidev.psi.mi.jami.model.impl.DefaultResultingSequence: Getter for the field newSequence.
getNewSequence() - Method in interface psidev.psi.mi.jami.model.ResultingSequence: The resulting sequence portion.
getNewSequence() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlResultingSequence: Getter for the field newSequence.
getNewSequence() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlResultingSequence: Getter for the field newSequence.
getNewSequence() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlResultingSequence: Getter for the field newSequence.
getNextImexChunkNumberAndFilterValidImexIdsFrom(Publication) - Method in interface psidev.psi.mi.jami.imex.actions.ImexAssigner: getNextImexChunkNumberAndFilterValidImexIdsFrom.
getNextImexChunkNumberAndFilterValidImexIdsFrom(Publication) - Method in class psidev.psi.mi.jami.imex.actions.impl.ImexAssignerImpl: getNextImexChunkNumberAndFilterValidImexIdsFrom.
getNextPsiXmlStartElement() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: getNextPsiXmlStartElement.
getNextSequenceValue() - Method in class psidev.psi.mi.jami.bridges.imex.mock.MockImexCentralClient: getNextSequenceValue.
getNextToken() - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser: Get the next Token.
getNextToken() - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParserTokenManager: Get the next Token.
getNodeA() - Method in class psidev.psi.mi.jami.analysis.graph.model.AbstractMIEdge: Getter for the field nodeA.
getNodeA() - Method in interface psidev.psi.mi.jami.analysis.graph.model.MIEdge: The first node.
getNodeB() - Method in class psidev.psi.mi.jami.analysis.graph.model.AbstractMIEdge: Getter for the field nodeB.
getNodeB() - Method in interface psidev.psi.mi.jami.analysis.graph.model.MIEdge: The second node.
getNTerminal() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: Getter for the field nTerminal.
getNTerminalRagged() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: Getter for the field nTerminalRagged.
getNTerminalRange() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: Getter for the field nTerminalRange.
getNucleicAcidComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.InteractorComparator: Getter for the field nucleicAcidComparator.
getNucleicAcidComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactInteractorComparator: Getter for the field nucleicAcidComparator.
getNucleicAcidComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousInteractorComparator: Getter for the field nucleicAcidComparator.
getNumberOfColumns() - Method in enum psidev.psi.mi.jami.tab.MitabVersion: Getter for the field numberOfColumns.
getNumberOfInteractions() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: getNumberOfInteractions.
getNumberOfInteractions() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: getNumberOfInteractions.
getNumberOfInteractions() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: getNumberOfInteractions.
getNumberOfInteractions() - Method in interface psidev.psi.mi.jami.datasource.InteractionSource: getNumberOfInteractions
getNumberOfInteractions() - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: getNumberOfInteractions.
getNumberOfInteractions() - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabSource: getNumberOfInteractions.
getNumberOfInteractions() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlSource: getNumberOfInteractions
getNumberOfInteractions() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlSource: getNumberOfInteractions.
getObjectComparator() - Method in class psidev.psi.mi.jami.utils.comparator.alias.AliasesCollectionComparator: Getter for the field objectComparator.
getObjectComparator() - Method in class psidev.psi.mi.jami.utils.comparator.annotation.AnnotationsCollectionComparator: Getter for the field objectComparator.
getObjectComparator() - Method in class psidev.psi.mi.jami.utils.comparator.CollectionComparator: Getter for the field objectComparator.
getObjectComparator() - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.CooperativityEvidenceCollectionComparator: Getter for the field objectComparator.
getObjectComparator() - Method in class psidev.psi.mi.jami.utils.comparator.experiment.VariableParameterCollectionComparator: Getter for the field objectComparator.
getObjectComparator() - Method in class psidev.psi.mi.jami.utils.comparator.experiment.VariableParameterValueCollectionComparator: Getter for the field objectComparator.
getObjectComparator() - Method in class psidev.psi.mi.jami.utils.comparator.experiment.VariableParameterValueSetCollectionComparator: Getter for the field objectComparator.
getObjectComparator() - Method in class psidev.psi.mi.jami.utils.comparator.feature.FeatureCollectionComparator: Getter for the field objectComparator.
getObjectComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.ModelledInteractionCollectionComparator: Getter for the field objectComparator.
getObjectComparator() - Method in class psidev.psi.mi.jami.utils.comparator.parameter.ParameterCollectionComparator: Getter for the field objectComparator.
getObjectComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.ModelledParticipantCollectionComparator: Getter for the field objectComparator.
getObjectComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.ParticipantCollectionComparator: Getter for the field objectComparator.
getObjectComparator() - Method in class psidev.psi.mi.jami.utils.comparator.range.RangeCollectionComparator: Getter for the field objectComparator.
getObjectComparator() - Method in class psidev.psi.mi.jami.utils.comparator.xref.XrefsCollectionComparator: Getter for the field objectComparator.
getObjectId() - Method in class psidev.psi.mi.jami.xml.model.extension.PsiXmlLocator: Getter for the field objectId.
getObjectIndex() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentalInteractorWriter: Getter for the field objectIndex.
getObjectIndex() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: Getter for the field objectIndex.
getObjectIndex() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlFeatureWriter: Getter for the field objectIndex.
getObjectIndex() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: Getter for the field objectIndex.
getObjectIndex() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParameterWriter: Getter for the field objectIndex.
getObjectIndex() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: Getter for the field objectIndex.
getObjectIndex() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlCooperativeEffectWriter: Getter for the field objectIndex.
getObjectIndex() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlParticipantCandidateWriter: Getter for the field objectIndex.
getObjectIndex() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlCausalRelationshipWriter: Getter for the field objectIndex.
getObjectIndex() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlVariableParameterWriter: Getter for the field objectIndex.
getObjectIndex() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlInteractorWriter: Getter for the field objectIndex.
getObsoleteMessage() - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.OntologyTermWrapper: Getter for the field obsoleteMessage.
getObsoleteMessage() - Method in interface psidev.psi.mi.jami.bridges.ontologymanager.MIOntologyTermI: getObsoleteMessage.
getOlsClient() - Method in class psidev.psi.mi.jami.bridges.ols.LazyCvTerm: Getter for the field olsClient.
getOntologyDatabase() - Method in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Getter for the field ontologyDatabase.
getOntologyDatabase() - Method in class psidev.psi.mi.jami.bridges.obo.OboFetcherTemplate: Getter for the field ontologyDatabase.
getOntologyID() - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.AbstractMIOntologyAccess: Getter for the field ontologyID.
getOntologyID() - Method in interface psidev.psi.mi.jami.bridges.ontologymanager.MIOntologyAccess: getOntologyID.
getOntologyName() - Method in class psidev.psi.mi.jami.bridges.ols.LazyCvTerm: Getter for the field ontologyName.
getOntologyTermFetcher() - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.AbstractMIOntologyAccess: getOntologyTermFetcher.
getOntologyTermFetcher() - Method in interface psidev.psi.mi.jami.bridges.ontologymanager.MIOntologyAccess: getOntologyTermFetcher.
getOperation() - Method in class psidev.psi.mi.jami.enricher.util.diff.Diff: getOperation.
getOptions(MIFileType, InteractionCategory, ComplexType, boolean, MIFileParserListener, Object) - Method in class psidev.psi.mi.jami.commons.MIDataSourceOptionFactory: Create a map of options
getOrder() - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameterValue: Getter for the field order.
getOrder() - Method in interface psidev.psi.mi.jami.model.VariableParameterValue: The decimal order for this variableParameterValue.
getOrder() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractXmlVariableParameterValue: Getter for the field order.
getOrganism() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractor: Getter for the field organism.
getOrganism() - Method in interface psidev.psi.mi.jami.model.Interactor: The original source organism for this interactor.
getOrganism() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: Getter for the field organism.
getOrganism() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: The original source organism for this interactor.
getOrganism() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: The original source organism for this interactor.
getOrganism() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: The original source organism for this interactor.
getOrganism() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: The original source organism for this interactor.
getOrganism() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: The original source organism for this interactor.
getOrganism() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: The original source organism for this interactor.
getOrganism() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: The original source organism for this interactor.
getOrganism() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: The original source organism for this interactor.
getOrganism() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: The original source organism for this interactor.
getOrganism() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: The original source organism for this interactor.
getOrganism() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: The original source organism for this interactor.
getOrganism() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: The original source organism for this interactor.
getOrganism() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: The original source organism for this interactor.
getOrganism() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: The original source organism for this interactor.
getOrganism() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: The original source organism for this interactor.
getOrganism() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractInteractorRef: getOrganism.
getOrganism() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractInteractorRef: getOrganism.
getOrganism() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractInteractorRef: getOrganism.
getOrganismComparator() - Method in class psidev.psi.mi.jami.utils.comparator.experiment.ExperimentComparator: Getter for the field organismComparator.
getOrganismComparator() - Method in class psidev.psi.mi.jami.utils.comparator.experiment.UnambiguousCuratedExperimentComparator: Getter for the field organismComparator.
getOrganismComparator() - Method in class psidev.psi.mi.jami.utils.comparator.experiment.UnambiguousExperimentComparator: Getter for the field organismComparator.
getOrganismComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.ExactInteractorBaseComparator: Getter for the field organismComparator.
getOrganismComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.PolymerComparator: Getter for the field organismComparator.
getOrganismComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.ExperimentalParticipantPoolComparator: Getter for the field organismComparator.
getOrganismComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactExperimentalParticipantPoolComparator: Getter for the field organismComparator.
getOrganismComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExperimentalParticipantPoolComparator: Getter for the field organismComparator.
getOrganismEnricher() - Method in interface psidev.psi.mi.jami.enricher.ExperimentEnricher: Gets the subEnricher for Organisms.
getOrganismEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorEnricher: Getter for the field organismEnricher.
getOrganismEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeInteractorEnricher: getOrganismEnricher.
getOrganismEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullComplexEnricher: getOrganismEnricher.
getOrganismEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullComplexUpdater: getOrganismEnricher.
getOrganismEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalComplexEnricher: getOrganismEnricher.
getOrganismEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalComplexUpdater: getOrganismEnricher.
getOrganismEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentEnricher: Getter for the field organismEnricher.
getOrganismEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEvidenceEnricher: Getter for the field organismEnricher.
getOrganismEnricher() - Method in interface psidev.psi.mi.jami.enricher.InteractorEnricher: getOrganismEnricher.
getOrganismEnricher() - Method in interface psidev.psi.mi.jami.enricher.ParticipantEvidenceEnricher: getOrganismEnricher.
getOrganismEnricherListener() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOrganismEnricher: getOrganismEnricherListener.
getOrganismEnricherListener() - Method in interface psidev.psi.mi.jami.enricher.OrganismEnricher: The listener which is currently being used.
getOrganismFetcher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOrganismEnricher: getOrganismFetcher.
getOrganismFetcher() - Method in interface psidev.psi.mi.jami.enricher.OrganismEnricher: The fetcher service to retrieve the organism by.
getOrganismsIterator() - Method in interface psidev.psi.mi.jami.datasource.OrganismStream: The organisms iterator for this datasource.
getOrganismWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractorWriter: Getter for the field organismWriter.
getOrganismWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonModelledInteractionWriter: Getter for the field organismWriter.
getOrganismWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledInteractionWriter: Getter for the field organismWriter.
getOrganismWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlModelledInteractionWriter: Getter for the field organismWriter.
getOrganismWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlInteractorWriter: Getter for the field organismWriter.
getOriginalCollection() - Method in class psidev.psi.mi.jami.utils.collection.IteratorHavingProperties: Getter for the field originalCollection.
getOriginalCollection() - Method in class psidev.psi.mi.jami.utils.collection.IteratorWrapper: Getter for the field originalCollection.
getOriginalExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: getOriginalExperiments.
getOriginalExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: getOriginalExperiments.
getOriginalExperiments() - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlInteractionEvidence: getOriginalExperiments.
getOriginalExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: getOriginalExperiments.
getOriginalExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: getOriginalExperiments.
getOriginalExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: getOriginalExperiments.
getOriginalInteraction() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: Getter for the field originalInteraction.
getOriginalInteraction() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: Getter for the field originalInteraction.
getOriginalInteraction() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: Getter for the field originalInteraction.
getOriginalIterator() - Method in class psidev.psi.mi.jami.utils.collection.IteratorHavingProperties: Getter for the field originalIterator.
getOriginalIterator() - Method in class psidev.psi.mi.jami.utils.collection.IteratorWrapper: Getter for the field originalIterator.
getOriginalIterator() - Method in class psidev.psi.mi.jami.utils.collection.ListIteratorHavingProperties: getOriginalIterator
getOriginalSequence() - Method in class psidev.psi.mi.jami.model.impl.DefaultResultingSequence: Getter for the field originalSequence.
getOriginalSequence() - Method in interface psidev.psi.mi.jami.model.ResultingSequence: The original sequence portion.
getOriginalSequence() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlResultingSequence: Getter for the field originalSequence.
getOriginalSequence() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlResultingSequence: Getter for the field originalSequence.
getOriginalSequence() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlResultingSequence: Getter for the field originalSequence.
getOriginalXref() - Method in class psidev.psi.mi.jami.bridges.ols.LazyCvTerm: Getter for the field originalXref.
getOutCome() - Method in interface psidev.psi.mi.jami.model.CooperativeEffect: For an interaction that has a cooperative effect on a subsequent interaction, this term indicates whether this effect is positive or negative, i.e.
getOutCome() - Method in class psidev.psi.mi.jami.model.impl.DefaultCooperativeEffect: getOutCome
getOutCome() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect: getOutCome.
getOwner() - Method in class psidev.psi.mi.jami.bridges.imex.extension.ImexPublication: getOwner.
getPaperAbstract() - Method in class psidev.psi.mi.jami.bridges.imex.extension.ImexPublication: getPaperAbstract.
getParameterCollectionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.feature.UnambiguousFeatureEvidenceComparator
getParameterCollectionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.InteractionEvidenceComparator: Getter for the field parameterCollectionComparator.
getParameterCollectionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.ExperimentalParticipantPoolComparator: Getter for the field parameterCollectionComparator.
getParameters() - Method in class psidev.psi.mi.jami.binary.impl.BinaryInteractionEvidenceWrapper: getParameters
getParameters() - Method in class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: Getter for the field parameters.
getParameters() - Method in interface psidev.psi.mi.jami.model.FeatureEvidence: Numerical parameters associated with this feature.
getParameters() - Method in class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantPool: Getter for the field parameters.
getParameters() - Method in class psidev.psi.mi.jami.model.impl.DefaultFeatureEvidence: Getter for the field parameters.
getParameters() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: Getter for the field parameters.
getParameters() - Method in class psidev.psi.mi.jami.model.impl.DefaultParticipantEvidence: Getter for the field parameters.
getParameters() - Method in interface psidev.psi.mi.jami.model.InteractionEvidence: Collection of numerical parameters for this interaction.
getParameters() - Method in interface psidev.psi.mi.jami.model.ParticipantEvidence: Numerical parameters associated with this participant.
getParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: Getter for the field parameters.
getParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: Collection of numerical parameters for this interaction.
getParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: getParameters.
getParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantPool: Numerical parameters associated with this participant.
getParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence: Numerical parameters associated with this feature.
getParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: getParameters.
getParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: getParameters.
getParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantPool: Numerical parameters associated with this participant.
getParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence: Numerical parameters associated with this feature.
getParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: getParameters.
getParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: getParameters.
getParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantPool: Numerical parameters associated with this participant.
getParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence: Numerical parameters associated with this feature.
getParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: getParameters.
getParameterValueAsString(Parameter) - Static method in class psidev.psi.mi.jami.utils.ParameterUtils: getParameterValueAsString
getParameterWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonFeatureEvidenceWriter: Getter for the field parameterWriter.
getParameterWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionEvidenceWriter: Getter for the field parameterWriter.
getParameterWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonModelledInteractionWriter: Getter for the field parameterWriter.
getParameterWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonParticipantEvidenceWriter: Getter for the field parameterWriter.
getParameterWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionEvidenceWriter: Getter for the field parameterWriter.
getParameterWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlModelledInteractionWriter: Getter for the field parameterWriter.
getParameterWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantEvidenceWriter: Getter for the field parameterWriter.
getParameterWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlFeatureEvidenceWriter: Getter for the field parameterWriter.
getParentFromOtherOntology() - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.AbstractMIOntologyAccess: getParentFromOtherOntology.
getParentFromOtherOntology() - Method in interface psidev.psi.mi.jami.bridges.ontologymanager.MIOntologyAccess: getParentFromOtherOntology.
getParentPool() - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipantCandidate: Getter for the field parentPool.
getParentPool() - Method in interface psidev.psi.mi.jami.model.ParticipantCandidate: The participant pool parent with which the candidate is involved.
getParentPool() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidate: The participant pool parent with which the candidate is involved.
getParentPool() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidateWrapper: The participant pool parent with which the candidate is involved.
getParentPool() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipantCandidate: The participant pool parent with which the candidate is involved.
getParentPool() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantCandidateWrapper: The participant pool parent with which the candidate is involved.
getParentPool() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidate: The participant pool parent with which the candidate is involved.
getParentPool() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidateWrapper: The participant pool parent with which the candidate is involved.
getParentPool() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipantCandidate: The participant pool parent with which the candidate is involved.
getParentPool() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantCandidateWrapper: The participant pool parent with which the candidate is involved.
getParentPool() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidate: The participant pool parent with which the candidate is involved.
getParentPool() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidateWrapper: The participant pool parent with which the candidate is involved.
getParentPool() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipantCandidate: The participant pool parent with which the candidate is involved.
getParentPool() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantCandidateWrapper: The participant pool parent with which the candidate is involved.
getParents() - Method in class psidev.psi.mi.jami.bridges.ols.LazyOntologyTerm: Getter for the field parents.
getParents() - Method in class psidev.psi.mi.jami.model.impl.DefaultOntologyTerm: Getter for the field parents.
getParents() - Method in interface psidev.psi.mi.jami.model.OntologyTerm: The parent terms of this controlled vocabulary term.
getPARIdentifier() - Method in interface psidev.psi.mi.jami.model.CvTerm: The unique PSI-PAR identifier which identifies the object in the PSI-PAR ontology.
getPARIdentifier() - Method in class psidev.psi.mi.jami.model.impl.DefaultCvTerm: getPARIdentifier
getPARIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm: getPARIdentifier.
getPARIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.CvTermXrefContainer: getPARIdentifier.
getPARIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm: getPARIdentifier.
getPARIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.CvTermXrefContainer: getPARIdentifier.
getPARIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm: getPARIdentifier.
getPARIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.CvTermXrefContainer: getPARIdentifier.
getParser() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Getter for the field parser.
getParserListener() - Method in class psidev.psi.mi.jami.crosslink.io.parser.AbstractCsvInteractionEvidenceParser: Getter for the field parserListener.
getParserListener() - Method in class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionLineParser
getParserListener() - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
getParticipant() - Method in interface psidev.psi.mi.jami.model.Feature: The participant to which the feature is attached.
getParticipant() - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature: Getter for the field participant.
getParticipant() - Method in class psidev.psi.mi.jami.model.impl.DefaultRange: Getter for the field participant.
getParticipant() - Method in interface psidev.psi.mi.jami.model.Range: The participating molecule that this range refers to.
getParticipant() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractInferredInteractionParticipant: Getter for the field participant.
getParticipant() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: Getter for the field participant.
getParticipant() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidenceWrapper: The participant to which the feature is attached.
getParticipant() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureWrapper: The participant to which the feature is attached.
getParticipant() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlRange: Getter for the field participant.
getParticipant() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: Getter for the field participant.
getParticipant() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidenceWrapper: The participant to which the feature is attached.
getParticipant() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureWrapper: The participant to which the feature is attached.
getParticipant() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlRange: Getter for the field participant.
getParticipant() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: Getter for the field participant.
getParticipant() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidenceWrapper: The participant to which the feature is attached.
getParticipant() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureWrapper: The participant to which the feature is attached.
getParticipant() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlRange: Getter for the field participant.
getParticipant() - Method in class psidev.psi.mi.jami.xml.model.reference.AbstractFeatureRef: getParticipant.
getParticipant(int) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: getParticipant.
getParticipant(int) - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: getParticipant.
getParticipant(int) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: getParticipant.
getParticipantA() - Method in interface psidev.psi.mi.jami.binary.BinaryInteraction: The first participant of the binary interaction.
getParticipantA() - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteraction: Getter for the field participantA.
getParticipantA() - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteractionWrapper: Getter for the field participantA.
getParticipantA() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: getParticipantA.
getParticipantA() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: getParticipantA.
getParticipantA() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: getParticipantA.
getParticipantA() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: getParticipantA.
getParticipantB() - Method in interface psidev.psi.mi.jami.binary.BinaryInteraction: The second participant of the binary interaction
getParticipantB() - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteraction: Getter for the field participantB.
getParticipantB() - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteractionWrapper: Getter for the field participantB.
getParticipantB() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: getParticipantB.
getParticipantB() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: getParticipantB.
getParticipantB() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: getParticipantB.
getParticipantB() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: getParticipantB.
getParticipantBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.ExperimentalEntityComparator: Getter for the field participantBaseComparator.
getParticipantBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.ExperimentalParticipantPoolComparator: Getter for the field participantBaseComparator.
getParticipantBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.ModelledParticipantPoolComparator: Getter for the field participantBaseComparator.
getParticipantBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.ParticipantComparator: Getter for the field participantBaseComparator.
getParticipantBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.ParticipantPoolComparator: Getter for the field participantBaseComparator.
getParticipantBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactExperimentalEntityComparator
getParticipantBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactExperimentalParticipantPoolComparator: Getter for the field participantBaseComparator.
getParticipantBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactModelledParticipantPoolComparator: Getter for the field participantBaseComparator.
getParticipantBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantComparator: Getter for the field participantBaseComparator.
getParticipantBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantPoolComparator
getParticipantBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExperimentalEntityComparator
getParticipantBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExperimentalParticipantPoolComparator: Getter for the field participantBaseComparator.
getParticipantBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousModelledParticipantPoolComparator: Getter for the field participantBaseComparator.
getParticipantBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousParticipantComparator: Getter for the field participantBaseComparator.
getParticipantBaseComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousParticipantPoolComparator: Getter for the field participantBaseComparator.
getParticipantCandidateEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullExperimentalParticipantPoolEnricher: getParticipantCandidateEnricher.
getParticipantCandidateEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullExperimentalParticipantPoolUpdater: getParticipantCandidateEnricher.
getParticipantCandidateEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantPoolEnricher: getParticipantCandidateEnricher.
getParticipantCandidateEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantPoolUpdater: getParticipantCandidateEnricher.
getParticipantCandidateEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentalParticipantPoolEnricher: getParticipantCandidateEnricher.
getParticipantCandidateEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentalParticipantPoolUpdater: getParticipantCandidateEnricher.
getParticipantCandidateEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantPoolEnricher: getParticipantCandidateEnricher.
getParticipantCandidateEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantPoolUpdater: getParticipantCandidateEnricher.
getParticipantCandidateEnricher() - Method in interface psidev.psi.mi.jami.enricher.ParticipantPoolEnricher: getParticipantCandidateEnricher.
getParticipantCandidateWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledParticipantWriter: Getter for the field participantCandidateWriter.
getParticipantCandidateWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlParticipantEvidenceWriter: Getter for the field participantCandidateWriter.
getParticipantCollectionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.InteractionEvidenceComparator: Getter for the field participantCollectionComparator.
getParticipantCollectionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.InteractionInteractorComparator: Getter for the field participantCollectionComparator.
getParticipantCollectionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.ModelledInteractionComparator: Getter for the field participantCollectionComparator.
getParticipantCollectionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.ParticipantPoolComparator: getParticipantCollectionComparator
getParticipantComparator() - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.MoleculeEffectorComparator: Getter for the field participantComparator.
getParticipantComparator() - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousExactMoleculeEffectorComparator: Getter for the field participantComparator.
getParticipantComparator() - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousMoleculeEffectorComparator: Getter for the field participantComparator.
getParticipantComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.CausalRelationshipComparator: Getter for the field participantComparator.
getParticipantComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.EntityComparator: Getter for the field participantComparator.
getParticipantComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousCausalRelationshipComparator
getParticipantComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousEntityComparator: Getter for the field participantComparator.
getParticipantComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactCausalRelationshipComparator
getParticipantComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactEntityComparator: Getter for the field participantComparator.
getParticipantEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionEvidenceEnricher: The current sub enricher for participants.
getParticipantEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionUpdater: The current sub enricher for participants.
getParticipantEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullModelledInteractionEnricher: The current sub enricher for participants.
getParticipantEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEnricher: The current sub enricher for participants.
getParticipantEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEvidenceUpdater: The current sub enricher for participants.
getParticipantEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalModelledInteractionUpdater: The current sub enricher for participants.
getParticipantEnricher() - Method in interface psidev.psi.mi.jami.enricher.InteractionEnricher: The current sub enricher for participants.
getParticipantEnricherListener() - Method in interface psidev.psi.mi.jami.enricher.EntityEnricher: The current listener that participant changes are reported to.
getParticipantEnricherListener() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeEntityEnricher: getParticipantEnricherListener.
getParticipantEnricherListener() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeModelledParticipantEnricher: getParticipantEnricherListener.
getParticipantEnricherListener() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeParticipantEnricher: getParticipantEnricherListener.
getParticipantEnricherListener() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeParticipantEvidenceEnricher: getParticipantEnricherListener.
getParticipantEnricherListener() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEvidenceUpdater: The current listener that participant changes are reported to.
getParticipantEnricherListener() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalEntityEnricher: The current listener that participant changes are reported to.
getParticipantEnricherListener() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEvidenceUpdater: The current listener that participant changes are reported to.
getParticipantIdentificationMethod() - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlExperiment: getParticipantIdentificationMethod.
getParticipantIdentificationMethod() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: Gets the value of the participantIdentificationMethod property.
getParticipantIdentificationMethod() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: Gets the value of the participantIdentificationMethod property.
getParticipantIdentificationMethod() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: Gets the value of the participantIdentificationMethod property.
getParticipantIdentificationMethod() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: getParticipantIdentificationMethod.
getParticipantIdentificationMethod() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: getParticipantIdentificationMethod.
getParticipantIdentificationMethod() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: getParticipantIdentificationMethod.
getParticipantLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity: getParticipantLocator.
getParticipantLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity: getParticipantLocator.
getParticipantLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity: getParticipantLocator.
getParticipantPool() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant: getParticipantPool.
getParticipantPool() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant: getParticipantPool.
getParticipantPool() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant: getParticipantPool.
getParticipantPoolComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.ModelledParticipantComparator: getParticipantPoolComparator
getParticipantPoolComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.ParticipantEvidenceComparator: getParticipantPoolComparator
getParticipantPoolComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactModelledParticipantComparator
getParticipantPoolComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantEvidenceComparator
getParticipantPoolComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousModelledParticipantComparator
getParticipantPoolComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousParticipantEvidenceComparator
getParticipants() - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteraction: Getter for the field participants.
getParticipants() - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteractionWrapper: The collection of participants for this binary interaction.
getParticipants() - Method in class psidev.psi.mi.jami.model.impl.AbstractInteraction: Getter for the field participants.
getParticipants() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: getParticipants
getParticipants() - Method in interface psidev.psi.mi.jami.model.Interaction: The collection of participants involved in this interaction.
getParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractInferredInteraction: Gets the value of the participants property.
getParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: The collection of participants involved in this interaction.
getParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: The collection of participants involved in this interaction.
getParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: The collection of participants involved in this interaction.
getParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: The collection of participants involved in this interaction.
getParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: getParticipants.
getParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.InferredInteraction: Gets the value of the participants property.
getParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: getParticipants.
getParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: getParticipants.
getParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: getParticipants.
getParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: getParticipants.
getParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.InferredInteraction: Gets the value of the participants property.
getParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: getParticipants.
getParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: getParticipants.
getParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: getParticipants.
getParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: getParticipants.
getParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.InferredInteraction: Gets the value of the participants property.
getParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: getParticipants.
getParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: getParticipants.
getParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: getParticipants.
getParticipants() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: getParticipants.
getParticipants() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: getParticipants.
getParticipants() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: getParticipants.
getParticipantWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionWriter: Getter for the field participantWriter.
getParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: Getter for the field participantWriter.
getPhysicalProperties() - Method in interface psidev.psi.mi.jami.model.Complex: The physical properties for this complex.
getPhysicalProperties() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: Getter for the field physicalProperties.
getPhysicalProperties() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction
getPhysicalProperties() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: The physical properties for this complex.
getPhysicalProperties() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: The physical properties for this complex.
getPhysicalProperties() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper
getPhysicalProperties() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper
getPhysicalProperties() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper
getPhysicalProperties() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: The physical properties for this complex.
getPhysicalProperties() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper
getPhysicalProperties() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper
getPhysicalProperties() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper
getPhysicalProperties() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: The physical properties for this complex.
getPhysicalProperties() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper
getPhysicalProperties() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper
getPhysicalProperties() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: getPhysicalProperties.
getPhysicalProperties() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper
getPhysicalProperties() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: getPhysicalProperties.
getPhysicalProperties() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: getPhysicalProperties.
getPhysicalProperties() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: getPhysicalProperties.
getPolymerBaseEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeInteractorEnricher: Getter for the field polymerBaseEnricher.
getPolymerComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.InteractorComparator: Getter for the field polymerComparator.
getPolymerComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactInteractorComparator: Getter for the field polymerComparator.
getPolymerComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousInteractorComparator: Getter for the field polymerComparator.
getPoolComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.ParticipantComparator: Getter for the field poolComparator.
getPoolComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantComparator
getPoolComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousParticipantComparator
getPoolEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeParticipantEnricher: Getter for the field poolEnricher.
getPoolEntityEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeModelledParticipantEnricher: Getter for the field poolEntityEnricher.
getPoolEntityEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeParticipantEvidenceEnricher: Getter for the field poolEntityEnricher.
getPositionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.range.RangeComparator: Getter for the field positionComparator.
getPositionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.range.UnambiguousRangeAndResultingSequenceComparator
getPositionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.range.UnambiguousRangeComparator: Getter for the field positionComparator.
getPossibleTermsToRemapTo() - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.OntologyTermWrapper: Getter for the field possibleTermsToRemapTo.
getPossibleTermsToRemapTo() - Method in interface psidev.psi.mi.jami.bridges.ontologymanager.MIOntologyTermI: getPossibleTermsToRemapTo.
getPostalAddress() - Method in class psidev.psi.mi.jami.bridges.ols.LazySource: Getter for the field postalAddress.
getPostalAddress() - Method in class psidev.psi.mi.jami.model.impl.DefaultSource: Getter for the field postalAddress.
getPostalAddress() - Method in interface psidev.psi.mi.jami.model.Source: Postal address of the data source.
getPostalAddress() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource: getPostalAddress.
getPostalAddress() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource: getPostalAddress.
getPostalAddress() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource: getPostalAddress.
getPreAssemblyWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledInteractionWriter: Getter for the field preAssemblyWriter.
getPreAssemblyWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlModelledInteractionWriter: Getter for the field preAssemblyWriter.
getPreferredIdentifier() - Method in class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: getPreferredIdentifier
getPreferredIdentifier() - Method in class psidev.psi.mi.jami.model.impl.DefaultGene: getPreferredIdentifier
getPreferredIdentifier() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractor: getPreferredIdentifier
getPreferredIdentifier() - Method in class psidev.psi.mi.jami.model.impl.DefaultNucleicAcid: getPreferredIdentifier
getPreferredIdentifier() - Method in class psidev.psi.mi.jami.model.impl.DefaultProtein: getPreferredIdentifier
getPreferredIdentifier() - Method in interface psidev.psi.mi.jami.model.Interactor: The identifier in the list of identifiers which is the preferred identifier.
getPreferredIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: getPreferredIdentifier.
getPreferredIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: The identifier in the list of identifiers which is the preferred identifier.
getPreferredIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: The identifier in the list of identifiers which is the preferred identifier.
getPreferredIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: The identifier in the list of identifiers which is the preferred identifier.
getPreferredIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.InteractorXrefContainer: getPreferredIdentifier.
getPreferredIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: The identifier in the list of identifiers which is the preferred identifier.
getPreferredIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: The identifier in the list of identifiers which is the preferred identifier.
getPreferredIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: The identifier in the list of identifiers which is the preferred identifier.
getPreferredIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: The identifier in the list of identifiers which is the preferred identifier.
getPreferredIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.InteractorXrefContainer: getPreferredIdentifier.
getPreferredIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: The identifier in the list of identifiers which is the preferred identifier.
getPreferredIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: The identifier in the list of identifiers which is the preferred identifier.
getPreferredIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: The identifier in the list of identifiers which is the preferred identifier.
getPreferredIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: The identifier in the list of identifiers which is the preferred identifier.
getPreferredIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.InteractorXrefContainer: getPreferredIdentifier.
getPreferredIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: The identifier in the list of identifiers which is the preferred identifier.
getPreferredIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: The identifier in the list of identifiers which is the preferred identifier.
getPreferredIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: The identifier in the list of identifiers which is the preferred identifier.
getPreferredIdentifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: The identifier in the list of identifiers which is the preferred identifier.
getPreferredIdentifier() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractInteractorRef: getPreferredIdentifier.
getPreferredIdentifier() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractInteractorRef: getPreferredIdentifier.
getPreferredIdentifier() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractInteractorRef: getPreferredIdentifier.
getPreferredName() - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.OntologyTermWrapper: getPreferredName.
getPreferredName() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractor
getPreferredName() - Method in class psidev.psi.mi.jami.model.impl.DefaultProtein: The preferred name is the name by which we want to refer the interactor on our web site.
getPreferredName() - Method in interface psidev.psi.mi.jami.model.Interactor: The preferred name is the name by which we want to refer the interactor on our web site.
getPreferredName() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: getPreferredName.
getPreferredName() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: The preferred name is the name by which we want to refer the interactor on our web site.
getPreferredName() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: The preferred name is the name by which we want to refer the interactor on our web site.
getPreferredName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: The preferred name is the name by which we want to refer the interactor on our web site.
getPreferredName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: The preferred name is the name by which we want to refer the interactor on our web site.
getPreferredName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: The preferred name is the name by which we want to refer the interactor on our web site.
getPreferredName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: The preferred name is the name by which we want to refer the interactor on our web site.
getPreferredName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: The preferred name is the name by which we want to refer the interactor on our web site.
getPreferredName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: The preferred name is the name by which we want to refer the interactor on our web site.
getPreferredName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: The preferred name is the name by which we want to refer the interactor on our web site.
getPreferredName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: The preferred name is the name by which we want to refer the interactor on our web site.
getPreferredName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: The preferred name is the name by which we want to refer the interactor on our web site.
getPreferredName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: The preferred name is the name by which we want to refer the interactor on our web site.
getPreferredName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: The preferred name is the name by which we want to refer the interactor on our web site.
getPreferredName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: The preferred name is the name by which we want to refer the interactor on our web site.
getPreferredName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: The preferred name is the name by which we want to refer the interactor on our web site.
getPreferredName() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractInteractorRef: getPreferredName.
getPreferredName() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractInteractorRef: getPreferredName.
getPreferredName() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractInteractorRef: getPreferredName.
getProcessedFeatures() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionWriter: Getter for the field processedFeatures.
getProcessedFeatures() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonParticipantWriter: Getter for the field processedFeatures.
getProcessedFeatures() - Method in class psidev.psi.mi.jami.json.nary.AbstractMIJsonWriter: Getter for the field processedFeatures.
getProcessedInteractions() - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Getter for the field processedInteractions.
getProcessedInteractors() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionWriter: Getter for the field processedInteractors.
getProcessedInteractors() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonParticipantWriter: Getter for the field processedInteractors.
getProcessedInteractors() - Method in class psidev.psi.mi.jami.json.nary.AbstractMIJsonWriter: Getter for the field processedInteractors.
getProcessedObjects() - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: Getter for the field processedObjects.
getProcessedParticipants() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionWriter: Getter for the field processedParticipants.
getProcessedParticipants() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonParticipantWriter: Getter for the field processedParticipants.
getProcessedParticipants() - Method in class psidev.psi.mi.jami.json.nary.AbstractMIJsonWriter: Getter for the field processedParticipants.
getProperty() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.DbReferenceType: Gets the value of the property property.
getProteinComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.InteractorComparator: Getter for the field proteinComparator.
getProteinComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactInteractorComparator: Getter for the field proteinComparator.
getProteinComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousInteractorComparator: Getter for the field proteinComparator.
getProteinEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.CompositeInteractorEnricher: Getter for the field proteinEnricher.
getProteinId() - Method in class psidev.psi.mi.jami.model.ModelledComparableParticipant
getProteinMapper() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalProteinEnricher: The protein remapper has no default and can be left null
getProteinMapper() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalProteinUpdater: getProteinMapper.
getProteinMapper() - Method in interface psidev.psi.mi.jami.enricher.ProteinEnricher: The protein remapper has no default and can be left null
getPsimi() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: Getter for the field psimi.
getPsiMiReference(CvTerm) - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: getPsiMiReference
getPsimod() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: Getter for the field psimod.
getPsiModReference(CvTerm) - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: getPsiModReference
getPsipar() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: Getter for the field psipar.
getPsiParReference(CvTerm) - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: getPsiParReference
getPublication() - Method in class psidev.psi.mi.jami.bridges.ols.LazySource: getPublication.
getPublication() - Method in interface psidev.psi.mi.jami.model.CooperativityEvidence: The publication where the cooperativityEvidence has been described.
getPublication() - Method in interface psidev.psi.mi.jami.model.Experiment: The publication where the experiment has been described.
getPublication() - Method in class psidev.psi.mi.jami.model.impl.DefaultCooperativityEvidence: Getter for the field publication.
getPublication() - Method in class psidev.psi.mi.jami.model.impl.DefaultExperiment: Getter for the field publication.
getPublication() - Method in class psidev.psi.mi.jami.model.impl.DefaultModelledConfidence: Getter for the field publication.
getPublication() - Method in class psidev.psi.mi.jami.model.impl.DefaultModelledParameter: Getter for the field publication.
getPublication() - Method in class psidev.psi.mi.jami.model.impl.DefaultSource: getPublication
getPublication() - Method in interface psidev.psi.mi.jami.model.ModelledConfidence: The publication where this confidence has been reported if relevant, null otherwise.
getPublication() - Method in interface psidev.psi.mi.jami.model.ModelledParameter: The publication where this parameter has been reported if relevant, null otherwise.
getPublication() - Method in interface psidev.psi.mi.jami.model.Source: Bibliographical reference of the data source.
getPublication() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: Getter for the field publication.
getPublication() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource: getPublication.
getPublication() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.ExperimentXrefContainer: Getter for the field publication.
getPublication() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlConfidenceWrapper: The publication where this confidence has been reported if relevant, null otherwise.
getPublication() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlCooperativityEvidence: Getter for the field publication.
getPublication() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledConfidence: Getter for the field publication.
getPublication() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParameter: Getter for the field publication.
getPublication() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParameterWrapper: The publication where this parameter has been reported if relevant, null otherwise.
getPublication() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: Getter for the field publication.
getPublication() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource: getPublication.
getPublication() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.ExperimentXrefContainer: Getter for the field publication.
getPublication() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlConfidenceWrapper: The publication where this confidence has been reported if relevant, null otherwise.
getPublication() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlCooperativityEvidence: Getter for the field publication.
getPublication() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledConfidence: Getter for the field publication.
getPublication() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParameter: Getter for the field publication.
getPublication() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParameterWrapper: The publication where this parameter has been reported if relevant, null otherwise.
getPublication() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: Getter for the field publication.
getPublication() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource: getPublication.
getPublication() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.ExperimentXrefContainer: Getter for the field publication.
getPublication() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlConfidenceWrapper: The publication where this confidence has been reported if relevant, null otherwise.
getPublication() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCooperativityEvidence: Getter for the field publication.
getPublication() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledConfidence: Getter for the field publication.
getPublication() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParameter: Getter for the field publication.
getPublication() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParameterWrapper: The publication where this parameter has been reported if relevant, null otherwise.
getPublication() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: getPublication.
getPublication() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: getPublication.
getPublication() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: getPublication.
getPublicationComparator() - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.CooperativityEvidenceComparator: Getter for the field publicationComparator.
getPublicationComparator() - Method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousCooperativityEvidenceComparator: Getter for the field publicationComparator.
getPublicationComparator() - Method in class psidev.psi.mi.jami.utils.comparator.experiment.ExperimentComparator: Getter for the field publicationComparator.
getPublicationComparator() - Method in class psidev.psi.mi.jami.utils.comparator.experiment.UnambiguousCuratedExperimentComparator: Getter for the field publicationComparator.
getPublicationComparator() - Method in class psidev.psi.mi.jami.utils.comparator.experiment.UnambiguousExperimentComparator: Getter for the field publicationComparator.
getPublicationComparator() - Method in class psidev.psi.mi.jami.utils.comparator.publication.CuratedPublicationComparator: Getter for the field publicationComparator.
getPublicationComparator() - Method in class psidev.psi.mi.jami.utils.comparator.publication.UnambiguousCuratedPublicationComparator: Getter for the field publicationComparator.
getPublicationDate() - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: Getter for the field publicationDate.
getPublicationDate() - Method in interface psidev.psi.mi.jami.model.Publication: The date of publication.
getPublicationDate() - Method in class psidev.psi.mi.jami.tab.extension.MitabAuthor: Getter for the field publicationDate.
getPublicationDate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: getPublicationDate.
getPublicationDate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: getPublicationDate.
getPublicationDate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: getPublicationDate.
getPublicationEnricher() - Method in interface psidev.psi.mi.jami.enricher.ExperimentEnricher: Sets the subEnricher for publications.
getPublicationEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentEnricher: Sets the subEnricher for publications.
getPublicationEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalSourceEnricher: Getter for the field publicationEnricher.
getPublicationEnricher() - Method in interface psidev.psi.mi.jami.enricher.SourceEnricher: The current publication enricher.
getPublicationEnricherListener() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullCuratedPublicationUpdater: getPublicationEnricherListener.
getPublicationEnricherListener() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullPublicationUpdater: Gets the current publication listener
getPublicationEnricherListener() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalCuratedPublicationEnricher: getPublicationEnricherListener.
getPublicationEnricherListener() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalPublicationEnricher: Gets the current publication listener
getPublicationEnricherListener() - Method in interface psidev.psi.mi.jami.enricher.PublicationEnricher: Gets the current publication listener
getPublicationFetcher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullCuratedPublicationUpdater: getPublicationFetcher.
getPublicationFetcher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullPublicationUpdater: Gets the publication fetcher which is currently being used to retrieve entries
getPublicationFetcher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalCuratedPublicationEnricher: getPublicationFetcher.
getPublicationFetcher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalPublicationEnricher: Gets the publication fetcher which is currently being used to retrieve entries
getPublicationFetcher() - Method in interface psidev.psi.mi.jami.enricher.PublicationEnricher: Gets the publication fetcher which is currently being used to retrieve entries
getPublicationRegister() - Method in class psidev.psi.mi.jami.imex.ImexPublicationAssigner: Getter for the field publicationRegister.
getPublicationRegister() - Method in class psidev.psi.mi.jami.imex.ImexPublicationRegister: Getter for the field publicationRegister.
getPublicationsIterator() - Method in interface psidev.psi.mi.jami.datasource.PublicationStream: The publications iterator for this datasource.
getPublicationStatus(Publication) - Method in class psidev.psi.mi.jami.imex.actions.impl.PublicationStatusSynchronizerImpl: getPublicationStatus.
getPublicationStatus(Publication) - Method in interface psidev.psi.mi.jami.imex.actions.PublicationStatusSynchronizer: getPublicationStatus.
getPublicationUpdater() - Method in class psidev.psi.mi.jami.imex.ImexPublicationAssigner: Getter for the field publicationUpdater.
getPublicationWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonExperimentWriter: Getter for the field publicationWriter.
getPublicationWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: Getter for the field publicationWriter.
getPublicationWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.AbstractXmlSourceWriter: Getter for the field publicationWriter.
getPublicationWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlCooperativityEvidenceWriter: Getter for the field publicationWriter.
getPublicationWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlModelledConfidenceWriter: Getter for the field publicationWriter.
getPublicationWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlModelledParameterWriter: Getter for the field publicationWriter.
getPublicId() - Method in class psidev.psi.mi.jami.xml.model.extension.PsiXmlLocator
getPubmedId() - Method in class psidev.psi.mi.jami.bridges.imex.extension.ImexPublication: Getter for the field pubmedId.
getPubmedId() - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: Getter for the field pubmedId.
getPubmedId() - Method in interface psidev.psi.mi.jami.model.Publication: The pubmed identifier which identifies the publication.
getPubmedId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: getPubmedId.
getPubmedId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.PublicationXrefContainer: Getter for the field pubmedId.
getPubmedId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: getPubmedId.
getPubmedId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.PublicationXrefContainer: Getter for the field pubmedId.
getPubmedId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: getPubmedId.
getPubmedId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.PublicationXrefContainer: Getter for the field pubmedId.
getPubmedId(Experiment) - Static method in class psidev.psi.mi.jami.utils.ExperimentUtils: getPubmedId
getPubmedReference(Experiment) - Static method in class psidev.psi.mi.jami.utils.ExperimentUtils: getPubmedReference
getPubmedReference(Publication) - Static method in class psidev.psi.mi.jami.utils.PublicationUtils: getPubmedReference
getPutativeSelf() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: getPutativeSelf
getQualifier() - Method in class psidev.psi.mi.jami.model.impl.DefaultXref: Getter for the field qualifier.
getQualifier() - Method in interface psidev.psi.mi.jami.model.Xref: The qualifier of the xref is the reference type and is a controlled vocabulary term.
getQualifier() - Method in class psidev.psi.mi.jami.tab.extension.MitabXref: Getter for the field qualifier.
getQualifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlXref: Getter for the field qualifier.
getQualifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlXref: Getter for the field qualifier.
getQualifier() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlXref: Getter for the field qualifier.
getRangeCollectionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.feature.FeatureBaseComparator: Getter for the field rangeCollectionComparator.
getRanges() - Method in interface psidev.psi.mi.jami.model.Feature: The ranges which locate the feature in the interactor sequence/structure.
getRanges() - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature: Getter for the field ranges.
getRanges() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: getRanges.
getRanges() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidenceWrapper: The ranges which locate the feature in the interactor sequence/structure.
getRanges() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureWrapper: The ranges which locate the feature in the interactor sequence/structure.
getRanges() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: getRanges.
getRanges() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidenceWrapper: The ranges which locate the feature in the interactor sequence/structure.
getRanges() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureWrapper: The ranges which locate the feature in the interactor sequence/structure.
getRanges() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: getRanges.
getRanges() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidenceWrapper: The ranges which locate the feature in the interactor sequence/structure.
getRanges() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureWrapper: The ranges which locate the feature in the interactor sequence/structure.
getRanges() - Method in class psidev.psi.mi.jami.xml.model.reference.AbstractFeatureRef: getRanges.
getRangeWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonFeatureWriter: Getter for the field rangeWriter.
getRangeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlFeatureWriter: Getter for the field rangeWriter.
getReader() - Method in class psidev.psi.mi.jami.commons.OpenedInputStream: Getter for the field reader.
getRecommendedName() - Method in interface psidev.psi.mi.jami.model.Complex: The recommended name of a complex.
getRecommendedName() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: Getter for the field recommendedName.
getRecommendedName() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: The recommended name of a complex.
getRecommendedName() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: The recommended name of a complex.
getRecommendedName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: The recommended name of a complex.
getRecommendedName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.ComplexNamesContainer: Getter for the field recommendedName.
getRecommendedName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: The recommended name of a complex.
getRecommendedName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: The recommended name of a complex.
getRecommendedName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: The recommended name of a complex.
getRecommendedName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: The recommended name of a complex.
getRecommendedName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.ComplexNamesContainer: Getter for the field recommendedName.
getRecommendedName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: The recommended name of a complex.
getRecommendedName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: The recommended name of a complex.
getRecommendedName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: The recommended name of a complex.
getRecommendedName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: The recommended name of a complex.
getRecommendedName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.ComplexNamesContainer: Getter for the field recommendedName.
getRecommendedName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: The recommended name of a complex.
getRecommendedName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: The recommended name of a complex.
getRecommendedName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: getRecommendedName.
getRecommendedName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: The recommended name of a complex.
getRecommendedName() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: The recommended name of a complex.
getRecommendedName() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: The recommended name of a complex.
getRecommendedName() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: The recommended name of a complex.
getRef() - Method in class psidev.psi.mi.jami.xml.model.reference.AbstractXmlIdReference: Getter for the field ref.
getRef() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractAvailabilityRef: Getter for the field ref.
getRef() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractAvailabilityRef: Getter for the field ref.
getRef() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractAvailabilityRef: Getter for the field ref.
getRefseq() - Method in interface psidev.psi.mi.jami.model.Gene: The refseq accession which identifies the gene.
getRefseq() - Method in class psidev.psi.mi.jami.model.impl.DefaultGene: Getter for the field refseq.
getRefseq() - Method in class psidev.psi.mi.jami.model.impl.DefaultNucleicAcid: Getter for the field refseq.
getRefseq() - Method in class psidev.psi.mi.jami.model.impl.DefaultProtein: Getter for the field refseq.
getRefseq() - Method in interface psidev.psi.mi.jami.model.NucleicAcid: The unique Refseq identifier which identifies the nucleic acid.
getRefseq() - Method in interface psidev.psi.mi.jami.model.Protein: The unique refseq identifier which identifies the protein and its sequence.
getRelationType() - Method in interface psidev.psi.mi.jami.model.CausalRelationship: The relation type with the participant target.
getRelationType() - Method in class psidev.psi.mi.jami.model.impl.DefaultCausalRelationship: Getter for the field relationType.
getRelationType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCausalRelationship: Getter for the field relationType.
getRelease() - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlSource: Gets the value of the release property.
getRelease() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource: Gets the value of the release property.
getRelease() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource: Gets the value of the release property.
getRelease() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource: Gets the value of the release property.
getReleaseDate() - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlSource: Gets the value of the releaseDate property.
getReleaseDate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource: Gets the value of the releaseDate property.
getReleaseDate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource: Gets the value of the releaseDate property.
getReleaseDate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource: Gets the value of the releaseDate property.
getReleasedDate() - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: Getter for the field releasedDate.
getReleasedDate() - Method in interface psidev.psi.mi.jami.model.Publication: Publication released date by the interaction database or resource which curated the publication.
getReleasedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: Getter for the field releasedDate.
getReleasedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: Getter for the field releasedDate.
getReleasedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: Getter for the field releasedDate.
getRemappedTerm() - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.OntologyTermWrapper: Getter for the field remappedTerm.
getRemappedTerm() - Method in interface psidev.psi.mi.jami.bridges.ontologymanager.MIOntologyTermI: getRemappedTerm.
getResponse() - Method in interface psidev.psi.mi.jami.model.CooperativeEffect: This term describes the cooperative effect on the interactions.
getResponse() - Method in class psidev.psi.mi.jami.model.impl.DefaultCooperativeEffect: Getter for the field response.
getResponse() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect: Getter for the field response.
getResultingSequence() - Method in class psidev.psi.mi.jami.model.impl.DefaultRange: Getter for the field resultingSequence.
getResultingSequence() - Method in interface psidev.psi.mi.jami.model.Range: The resultingSequence in case of mutation or variant.
getResultingSequence() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlRange: Getter for the field resultingSequence.
getResultingSequence() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlRange: Getter for the field resultingSequence.
getResultingSequence() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlRange: Getter for the field resultingSequence.
getResultingSequenceComparator() - Method in class psidev.psi.mi.jami.utils.comparator.range.RangeAndResultingSequenceComparator: Getter for the field resultingSequenceComparator.
getResultingSequenceWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlRangeWriter: Getter for the field resultingSequenceWriter.
getRetryCount() - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorEnricher: Getter for the field retryCount.
getRetryCount() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullCvTermUpdater: Getter for the field retryCount.
getRetryCount() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalCvTermEnricher: Getter for the field retryCount.
getRetryCount() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOrganismEnricher: Getter for the field retryCount.
getRetryCount() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalPublicationEnricher: Getter for the field retryCount.
getRigid() - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteractionWrapper: getRigid
getRigid() - Method in class psidev.psi.mi.jami.model.impl.AbstractInteraction: Getter for the field rigid.
getRigid() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: Getter for the field rigid.
getRigid() - Method in interface psidev.psi.mi.jami.model.Interaction: The checksum computed from the rogids from all the proteins involved in the interaction.
getRigid() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: The checksum computed from the rogids from all the proteins involved in the interaction.
getRigid() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: The checksum computed from the rogids from all the proteins involved in the interaction.
getRigid() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: The checksum computed from the rogids from all the proteins involved in the interaction.
getRigid() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: The checksum computed from the rogids from all the proteins involved in the interaction.
getRigid() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: getRigid.
getRigid() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: The checksum computed from the rogids from all the proteins involved in the interaction.
getRigid() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: The checksum computed from the rogids from all the proteins involved in the interaction.
getRigid() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: The checksum computed from the rogids from all the proteins involved in the interaction.
getRigid() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: getRigid.
getRigid() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: The checksum computed from the rogids from all the proteins involved in the interaction.
getRigid() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: The checksum computed from the rogids from all the proteins involved in the interaction.
getRigid() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: The checksum computed from the rogids from all the proteins involved in the interaction.
getRigid() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: getRigid.
getRigid() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: The checksum computed from the rogids from all the proteins involved in the interaction.
getRigid() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: The checksum computed from the rogids from all the proteins involved in the interaction.
getRigid() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: The checksum computed from the rogids from all the proteins involved in the interaction.
getRigid() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: getRigid.
getRigid() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: getRigid.
getRigid() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: getRigid.
getRigidGenerator() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionEnricher: Getter for the field rigidGenerator.
getRogid() - Method in class psidev.psi.mi.jami.model.impl.DefaultProtein: Getter for the field rogid.
getRogid() - Method in interface psidev.psi.mi.jami.model.Protein: The rogid for this protein which can be null if the protein does not have a sequence.
getRogids() - Method in class psidev.psi.mi.jami.utils.checksum.RigidGenerator: getRogids
getRole() - Method in interface psidev.psi.mi.jami.model.Feature: The effect of this feature on the interaction where the feature has been reported or the interaction dependency between the interaction reporting this feature and this feature.
getRole() - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature: Getter for the field role.
getRole() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: Getter for the field role.
getRole() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidenceWrapper: The effect of this feature on the interaction where the feature has been reported or the interaction dependency between the interaction reporting this feature and this feature.
getRole() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureWrapper: The effect of this feature on the interaction where the feature has been reported or the interaction dependency between the interaction reporting this feature and this feature.
getRole() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: Getter for the field role.
getRole() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidenceWrapper: The effect of this feature on the interaction where the feature has been reported or the interaction dependency between the interaction reporting this feature and this feature.
getRole() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureWrapper: The effect of this feature on the interaction where the feature has been reported or the interaction dependency between the interaction reporting this feature and this feature.
getRole() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: Getter for the field role.
getRole() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidenceWrapper: The effect of this feature on the interaction where the feature has been reported or the interaction dependency between the interaction reporting this feature and this feature.
getRole() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureWrapper: The effect of this feature on the interaction where the feature has been reported or the interaction dependency between the interaction reporting this feature and this feature.
getRole() - Method in class psidev.psi.mi.jami.xml.model.reference.AbstractFeatureRef: getRole.
getRootTerms() - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.AbstractMIOntologyAccess: getRootTerms.
getRootTerms() - Method in interface psidev.psi.mi.jami.bridges.ontologymanager.MIOntologyAccess: getRootTerms.
getSameObservations() - Method in class psidev.psi.mi.jami.listener.comparator.observer.ComplexComparatorObserver
getScientificName() - Method in class psidev.psi.mi.jami.model.impl.DefaultOrganism: Getter for the field scientificName.
getScientificName() - Method in interface psidev.psi.mi.jami.model.Organism: The scientific name of the organism.
getScientificName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOrganism: getScientificName.
getScientificName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOrganism: getScientificName.
getScientificName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOrganism: getScientificName.
getSecondary() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: Getter for the field secondary.
getSecondary() - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlXref: getSecondary.
getSecondary() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlXref: Getter for the field secondary.
getSecondary() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlXref: Getter for the field secondary.
getSecondary() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlXref: Getter for the field secondary.
getSelectedDatabases() - Method in class psidev.psi.mi.jami.bridges.uniprot.UniprotProteinFetcher: Getter for the field selectedDatabases.
getSelf() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: Getter for the field self.
getSequence() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Entry: Gets the value of the sequence property.
getSequence() - Method in class psidev.psi.mi.jami.bridges.unisave.FastaSequence: Getter for the field sequence.
getSequence() - Method in class psidev.psi.mi.jami.bridges.unisave.SequenceVersion: Getter for the field sequence.
getSequence() - Method in class psidev.psi.mi.jami.model.impl.DefaultPolymer: Getter for the field sequence.
getSequence() - Method in interface psidev.psi.mi.jami.model.Polymer: The sequence of the polymer.
getSequence() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: getSequence.
getSequence() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPolymer: getSequence.
getSequence() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPolymer: getSequence.
getSequence() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPolymer: getSequence.
getSequenceFor(String, int) - Method in class psidev.psi.mi.jami.bridges.unisave.UnisaveClient: getSequenceFor.
getSequenceVersion(String, String) - Method in class psidev.psi.mi.jami.bridges.unisave.UnisaveClient: Returns the sequence version of a sequence for a certain uniprot ac.
getShortLabel() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractNamesContainer: Gets the value of the shortLabel property.
getShortName() - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteractionWrapper: getShortName
getShortName() - Method in class psidev.psi.mi.jami.bridges.ols.LazyCvTerm: Getter for the field shortName.
getShortName() - Method in interface psidev.psi.mi.jami.model.CvTerm: Short name of a controlled vocabulary.
getShortName() - Method in interface psidev.psi.mi.jami.model.Feature: The short name of a feature.
getShortName() - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature: Getter for the field shortName.
getShortName() - Method in class psidev.psi.mi.jami.model.impl.AbstractInteraction: Getter for the field shortName.
getShortName() - Method in class psidev.psi.mi.jami.model.impl.DefaultCvTerm: Getter for the field shortName.
getShortName() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractor: Getter for the field shortName.
getShortName() - Method in class psidev.psi.mi.jami.model.impl.DefaultNamedExperiment: Getter for the field shortName.
getShortName() - Method in class psidev.psi.mi.jami.model.impl.DefaultNamedModelledParticipant: Getter for the field shortName.
getShortName() - Method in class psidev.psi.mi.jami.model.impl.DefaultNamedParticipant: Getter for the field shortName.
getShortName() - Method in class psidev.psi.mi.jami.model.impl.DefaultNamedParticipantEvidence: Getter for the field shortName.
getShortName() - Method in interface psidev.psi.mi.jami.model.Interaction: The short name of the interaction.
getShortName() - Method in interface psidev.psi.mi.jami.model.Interactor: The short name of the interactor.
getShortName() - Method in interface psidev.psi.mi.jami.model.NamedExperiment: The short name of the experiment.
getShortName() - Method in interface psidev.psi.mi.jami.model.NamedParticipant: The short name of the entity.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: getShortName.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: The short name of the interaction.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: The short name of the interaction.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: The short name of the interaction.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: The short name of the interaction.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm: getShortName.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: The short name of the experiment.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: getShortName.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: getShortName.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant: The short name of the entity.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: The short name of the entity.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: The short name of the interactor.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidenceWrapper: The short name of a feature.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureWrapper: The short name of a feature.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: The short name of the interactor.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: The short name of the interactor.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: The short name of the entity.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: The short name of the entity.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm: getShortName.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: The short name of the experiment.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: getShortName.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: getShortName.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant: The short name of the entity.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: The short name of the entity.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: The short name of the interactor.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidenceWrapper: The short name of a feature.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureWrapper: The short name of a feature.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: The short name of the interactor.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: The short name of the interactor.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: The short name of the entity.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: The short name of the entity.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm: getShortName.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: The short name of the experiment.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: getShortName.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: getShortName.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant: The short name of the entity.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: The short name of the entity.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: The short name of the interactor.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidenceWrapper: The short name of a feature.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureWrapper: The short name of a feature.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: The short name of the interactor.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: The short name of the interactor.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: The short name of the entity.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: The short name of the entity.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.reference.AbstractFeatureRef: getShortName.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: The short name of the experiment.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractInteractorRef: getShortName.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractParticipantRef: The short name of the entity.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: The short name of the experiment.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractInteractorRef: getShortName.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractParticipantRef: The short name of the entity.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: The short name of the experiment.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractInteractorRef: getShortName.
getShortName() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractParticipantRef: The short name of the entity.
getSignatureSequenceMatch() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Entry: Gets the value of the signatureSequenceMatch property.
getSmile() - Method in interface psidev.psi.mi.jami.model.BioactiveEntity: The Simplified Molecular Input Line Entry System.
getSmile() - Method in class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: Getter for the field smile.
getSocketTimeout() - Method in class psidev.psi.mi.jami.bridges.unisave.UnisaveClient: Getter for the field socketTimeout.
getSource() - Method in class psidev.psi.mi.jami.binary.impl.DefaultModelledBinaryInteraction: Getter for the field source.
getSource() - Method in class psidev.psi.mi.jami.binary.impl.ModelledBinaryInteractionWrapper: getSource
getSource() - Method in class psidev.psi.mi.jami.bridges.imex.extension.ImexPublication: Getter for the field source.
getSource() - Method in class psidev.psi.mi.jami.commons.OpenedInputStream: Getter for the field source.
getSource() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: Getter for the field source.
getSource() - Method in class psidev.psi.mi.jami.model.impl.DefaultModelledInteraction: Getter for the field source.
getSource() - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: Getter for the field source.
getSource() - Method in interface psidev.psi.mi.jami.model.ModelledInteraction: The source which reported this modelled interaction.
getSource() - Method in interface psidev.psi.mi.jami.model.Publication: The source which curated this publication.
getSource() - Method in class psidev.psi.mi.jami.xml.model.Entry: Getter for the field source.
getSource() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: Getter for the field source.
getSource() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: The source which reported this modelled interaction.
getSource() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteraction: Getter for the field source.
getSource() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: The source which reported this modelled interaction.
getSource() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction: Getter for the field source.
getSource() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: Getter for the field source.
getSource() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: Getter for the field source.
getSource() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: getSource.
getSource() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: getSource.
getSource() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction: Getter for the field source.
getSource() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: Getter for the field source.
getSource() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: Getter for the field source.
getSource() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: getSource.
getSource() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: getSource.
getSource() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction: Getter for the field source.
getSource() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: Getter for the field source.
getSource() - Method in interface psidev.psi.mi.jami.xml.model.extension.xml300.ExtendedPsiXmlCausalRelationship: getSource.
getSource() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: Getter for the field source.
getSource() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCausalRelationship: getSource.
getSource() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: getSource.
getSource() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: Getter for the field source.
getSource() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: getSource.
getSource() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: getSource.
getSource() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: getSource.
getSource() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: getSource.
getSourceComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.CuratedModelledInteractionComparator: Getter for the field sourceComparator.
getSourceComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousCuratedModelledInteractionComparator
getSourceComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactCuratedModelledInteractionComparator
getSourceComparator() - Method in class psidev.psi.mi.jami.utils.comparator.publication.CuratedPublicationComparator: Getter for the field sourceComparator.
getSourceComparator() - Method in class psidev.psi.mi.jami.utils.comparator.publication.UnambiguousCuratedPublicationComparator: Getter for the field sourceComparator.
getSourceEnricher() - Method in interface psidev.psi.mi.jami.enricher.CuratedPublicationEnricher: getSourceEnricher.
getSourceEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullCuratedPublicationUpdater: Getter for the field sourceEnricher.
getSourceEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalCuratedPublicationEnricher: Getter for the field sourceEnricher.
getSourceEnricher() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalModelledInteractionEnricher: The sourceEnricher which is currently being used for the enriching or updating of sources.
getSourceEnricher() - Method in interface psidev.psi.mi.jami.enricher.ModelledInteractionEnricher: getSourceEnricher.
getSourceLocator() - Method in class psidev.psi.mi.jami.crosslink.extension.CsvBinaryInteractionEvidence: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.crosslink.extension.CsvExperimentalParticipantCandidate: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.crosslink.extension.CsvExperimentalParticipantPool: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.crosslink.extension.CsvFeatureEvidence: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.crosslink.extension.CsvInteractionEvidence: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.crosslink.extension.CsvParticipantEvidence: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.crosslink.extension.CsvProtein: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.crosslink.extension.CsvRange: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.crosslink.extension.CsvXref: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.datasource.DefaultFileSourceContext: Getter for the field sourceLocator.
getSourceLocator() - Method in interface psidev.psi.mi.jami.datasource.FileSourceContext: The locator of a position in a file.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.DefaultMitabFeature: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabAlias: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabAnnotation: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabAuthor: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabBinaryInteraction: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabBinaryInteractionEvidence: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabBioactiveEntity: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabCausalRelationship: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabChecksum: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabComplex: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabConfidence: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabCvTerm: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabDate: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabExperiment: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabFeatureEvidence: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabGene: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabInteraction: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabInteractionEvidence: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabInteractor: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabInteractorPool: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabModelledBinaryInteraction: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabModelledFeature: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabModelledInteraction: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabModelledParticipant: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabMolecule: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabNucleicAcid: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabOrganism: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabParameter: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabParticipant: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabParticipantEvidence: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabPolymer: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabProtein: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabPublication: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabRange: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabSource: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabStoichiometry: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.tab.extension.MitabXref: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.AbstractBaseEntry.AbstractJAXBAnnotationsWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.AbstractBaseEntry.AbstractJAXBInteractionsWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.AbstractBaseEntry.AbstractJAXBInteractorsWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.AbstractBaseEntry: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.AbstractEntrySet: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractAvailability: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor.AbstractJAXBAttributeWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractExperimentalInteractor.AbstractJAXBExperimentRefWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractExperimentalInteractor: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractInferredInteraction.AbstractJAXBExperimentRefWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractInferredInteraction: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractInferredInteractionParticipant: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractNamesContainer: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractXmlVariableParameterValue: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractExtendedXmlBinaryInteraction: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteraction: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: The locator of a position in a file.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: The locator of a position in a file.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: The locator of a position in a file.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: The locator of a position in a file.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlAnnotation: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlBasicInteraction: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlConfidence: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm.JAXBAttributeWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity.JAXBFeatureWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment.JAXBAttributeWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment.JAXBConfidenceWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment.JAXBHostOrganismWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment.JAXBVariableParameterWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature.JAXBAttributeWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature.JAXBRangeWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction.JAXBAttributeWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction.JAXBParticipantWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence.JAXBConfidenceWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence.JAXBExperimentWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence.JAXBParameterWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction.JAXBConfidenceWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction.JAXBExperimentWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction.JAXBParameterWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParameter: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant.JAXBAttributeWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant.JAXBInteractorCandidateWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlPosition: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef.JAXBAttributeWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.ExperimentalCvTerm.JAXBExperimentRefWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.HostOrganism.JAXBExperimentRefWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAlias: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAllostery: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: The locator of a position in a file.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBioactiveEntity: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlConfidence.JAXBExperimentRefWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlCooperativityEvidence: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlCvTerm: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidate: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidateWrapper: The locator of a position in a file.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeature: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence.JAXBExperimentRefWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence.JAXBParameterWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidenceWrapper: The locator of a position in a file.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureModificationEffector: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureWrapper: The locator of a position in a file.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlGene: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: The locator of a position in a file.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInterval: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledFeature: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: The locator of a position in a file.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipant: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipantCandidate: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlMoleculeEffector: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlNucleicAcid: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOpenCvTerm: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOrganism: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipant: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantCandidateWrapper: The locator of a position in a file.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBConfidenceWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBExperimentalInteractorWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBExperimentalPreparationWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBExperimentalRoleWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBHostOrganismWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBParameterWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBParticipantIdentificationWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: The locator of a position in a file.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: The locator of a position in a file.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPosition: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPreAssembly: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlProtein: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlRange: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlResultingSequence: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlStoichiometryRange: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameter: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameter.JAXBVariableValueWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlXref: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlXref.JAXBAttributeWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XrefContainer: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlAnnotation: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlBasicInteraction: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlConfidence: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm.JAXBAttributeWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity.JAXBFeatureWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment.JAXBAttributeWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment.JAXBConfidenceWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment.JAXBHostOrganismWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment.JAXBVariableParameterWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature.JAXBAttributeWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature.JAXBRangeWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction.JAXBAttributeWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction.JAXBParticipantWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence.JAXBConfidenceWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence.JAXBExperimentWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence.JAXBParameterWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction.JAXBConfidenceWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction.JAXBExperimentWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction.JAXBParameterWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParameter: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant.JAXBAttributeWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant.JAXBInteractorCandidateWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlPosition: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef.JAXBAttributeWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.ExperimentalCvTerm.JAXBExperimentRefWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.HostOrganism.JAXBExperimentRefWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAlias: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAllostery: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: The locator of a position in a file.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBioactiveEntity: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlConfidence.JAXBExperimentRefWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlCooperativityEvidence: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlCvTerm: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidate: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidateWrapper: The locator of a position in a file.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeature: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence.JAXBExperimentRefWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence.JAXBParameterWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidenceWrapper: The locator of a position in a file.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureModificationEffector: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureWrapper: The locator of a position in a file.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlGene: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: The locator of a position in a file.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInterval: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledFeature: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: The locator of a position in a file.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipant: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipantCandidate: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlMoleculeEffector: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlNucleicAcid: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOpenCvTerm: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOrganism: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipant: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantCandidateWrapper: The locator of a position in a file.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBConfidenceWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBExperimentalInteractorWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBExperimentalPreparationWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBExperimentalRoleWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBHostOrganismWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBParameterWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBParticipantIdentificationWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: The locator of a position in a file.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: The locator of a position in a file.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPosition: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPreAssembly: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlProtein: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlRange: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlResultingSequence: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlStoichiometryRange: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameter: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameter.JAXBVariableValueWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlXref: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlXref.JAXBAttributeWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XrefContainer: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlAnnotation: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlBasicInteraction: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlConfidence: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect.JAXBAffectedInteractionRefWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect.JAXBAttributeWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect.JAXBCooperativityEvidenceWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm.JAXBAttributeWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity.JAXBFeatureWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment.JAXBAttributeWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment.JAXBConfidenceWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment.JAXBHostOrganismWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment.JAXBVariableParameterWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature.JAXBAttributeWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature.JAXBRangeWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction.JAXBAttributeWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction.JAXBParticipantWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence.JAXBConfidenceWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence.JAXBExperimentWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence.JAXBParameterWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction.JAXBConfidenceWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction.JAXBExperimentWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction.JAXBParameterWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParameter: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant.JAXBAttributeWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant.JAXBInteractorCandidateWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlPosition: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef.JAXBAttributeWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BindingFeatures: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.ExperimentalCvTerm.JAXBExperimentRefWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.HostOrganism.JAXBExperimentRefWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAlias: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: The locator of a position in a file.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBioactiveEntity: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCausalRelationship: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlConfidence.JAXBExperimentRefWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCooperativityEvidence: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCooperativityEvidence.JAXBEvidenceMethodWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCvTerm: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidate: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidateWrapper: The locator of a position in a file.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeature: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence.JAXBExperimentRefWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence.JAXBParameterWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidenceWrapper: The locator of a position in a file.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureModificationEffector: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureWrapper: The locator of a position in a file.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlGene: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidence.JAXBCausalRelationshipWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidence.JAXBExperimentWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidence.JAXBVariableParameterValueSetWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: The locator of a position in a file.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInterval: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledFeature: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBBindingFeaturesWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBCausalRelationshipWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBConfidenceWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBCooperativeEffectWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBParameterWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: The locator of a position in a file.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipant: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipantCandidate: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlMoleculeEffector: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlNucleicAcid: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOpenCvTerm: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOrganism: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipant: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantCandidateWrapper: The locator of a position in a file.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBConfidenceWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBExperimentalInteractorWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBExperimentalPreparationWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBExperimentalRoleWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBHostOrganismWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBParameterWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBParticipantIdentificationWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: The locator of a position in a file.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: The locator of a position in a file.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPosition: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlProtein: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlRange: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlResultingSequence: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlStoichiometryRange: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameter: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameter.JAXBVariableValueWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameterValueSet: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlXref: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlXref.JAXBAttributeWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XrefContainer: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.XmlChecksum: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.extension.XmlStoichiometry: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.xml253.BasicEntry: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.xml253.ComplexEntry: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.xml253.ComplexEntry.JAXBExperimentsWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.xml253.ExperimentalEntry: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.xml253.ExperimentalEntry.JAXBAvailabilitiesWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.xml253.ExperimentalEntry.JAXBExperimentsWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.xml253.ModelledEntry: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.xml253.ModelledEntry.JAXBExperimentsWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.xml254.BasicEntry: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.xml254.ComplexEntry: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.xml254.ComplexEntry.JAXBExperimentsWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.xml254.ExperimentalEntry: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.xml254.ExperimentalEntry.JAXBAvailabilitiesWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.xml254.ExperimentalEntry.JAXBExperimentsWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.xml254.ModelledEntry: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.xml254.ModelledEntry.JAXBExperimentsWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.xml30.BasicEntry: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.xml30.ComplexEntry: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.xml30.ComplexEntry.JAXBExperimentsWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.xml30.Entry: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.xml30.Entry.JAXBAvailabilitiesWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.xml30.Entry.JAXBExperimentsWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.xml30.ExperimentalEntry: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.xml30.ExperimentalEntry.JAXBAvailabilitiesWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.xml30.ExperimentalEntry.JAXBExperimentsWrapper
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.xml30.ModelledEntry: Getter for the field sourceLocator.
getSourceLocator() - Method in class psidev.psi.mi.jami.xml.model.xml30.ModelledEntry.JAXBExperimentsWrapper
getSources() - Method in class psidev.psi.mi.jami.bridges.imex.extension.ImexPublication: Getter for the field sources.
getStandardInchi() - Method in interface psidev.psi.mi.jami.model.BioactiveEntity: The standard InChI for this chemical compound.
getStandardInchi() - Method in class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: Getter for the field standardInchi.
getStandardInchiKey() - Method in interface psidev.psi.mi.jami.model.BioactiveEntity: The standard InChI Key for this chemical compound It is a shortcut which should point to the first standard Inchi key in the collection of checksums.
getStandardInchiKey() - Method in class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: Getter for the field standardInchiKey.
getStart() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.LocationType: Gets the value of the start property.
getStart() - Method in class psidev.psi.mi.jami.model.impl.DefaultPosition: Getter for the field start.
getStart() - Method in class psidev.psi.mi.jami.model.impl.DefaultRange: Getter for the field start.
getStart() - Method in interface psidev.psi.mi.jami.model.Position: The start position in the molecule sequence.
getStart() - Method in interface psidev.psi.mi.jami.model.Range: The start position of the feature range in the interactor sequence It cannot be null
getStart() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInterval: Getter for the field start.
getStart() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPosition: getStart.
getStart() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlRange: Getter for the field start.
getStart() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInterval: Getter for the field start.
getStart() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPosition: getStart.
getStart() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlRange: Getter for the field start.
getStart() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInterval: Getter for the field start.
getStart() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPosition: getStart.
getStart() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlRange: Getter for the field start.
getStartPositionWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlRangeWriter: Getter for the field startPositionWriter.
getStatus() - Method in class psidev.psi.mi.jami.bridges.imex.extension.ImexPublication: Getter for the field status.
getStatus() - Method in class psidev.psi.mi.jami.model.impl.DefaultPosition: Getter for the field status.
getStatus() - Method in interface psidev.psi.mi.jami.model.Position: The range status is a controlled vocabulary term which cannot be null.
getStatus() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlPosition: Getter for the field status.
getStatus() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInterval: Getter for the field status.
getStatus() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPosition: Getter for the field status.
getStatus() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlPosition: Getter for the field status.
getStatus() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInterval: Getter for the field status.
getStatus() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPosition: Getter for the field status.
getStatus() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlPosition: Getter for the field status.
getStatus() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInterval: Getter for the field status.
getStatus() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPosition: Getter for the field status.
getStatusComparator() - Method in class psidev.psi.mi.jami.utils.comparator.range.PositionComparator: Getter for the field statusComparator.
getStatusComparator() - Method in class psidev.psi.mi.jami.utils.comparator.range.UnambiguousPositionComparator: Getter for the field statusComparator.
getStatusSynchronizer() - Method in class psidev.psi.mi.jami.imex.ImexPublicationRegister: Getter for the field statusSynchronizer.
getStatusSynchronizer() - Method in class psidev.psi.mi.jami.imex.ImexPublicationUpdater: Getter for the field statusSynchronizer.
getStatusWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlPositionWriter: Getter for the field statusWriter.
getStoichiometry() - Method in interface psidev.psi.mi.jami.model.Entity: The stoichiometry for this participant.
getStoichiometry() - Method in class psidev.psi.mi.jami.model.impl.AbstractEntity: Getter for the field stoichiometry.
getStoichiometry() - Method in class psidev.psi.mi.jami.model.ModelledComparableParticipant
getStoichiometry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity: Getter for the field stoichiometry.
getStoichiometry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant: getStoichiometry.
getStoichiometry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: The stoichiometry for this participant.
getStoichiometry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidateWrapper: The stoichiometry for this participant.
getStoichiometry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantCandidateWrapper: The stoichiometry for this participant.
getStoichiometry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: The stoichiometry for this participant.
getStoichiometry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: The stoichiometry for this participant.
getStoichiometry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity: Getter for the field stoichiometry.
getStoichiometry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant: getStoichiometry.
getStoichiometry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: The stoichiometry for this participant.
getStoichiometry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidateWrapper: The stoichiometry for this participant.
getStoichiometry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantCandidateWrapper: The stoichiometry for this participant.
getStoichiometry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: The stoichiometry for this participant.
getStoichiometry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: The stoichiometry for this participant.
getStoichiometry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity: Getter for the field stoichiometry.
getStoichiometry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant: getStoichiometry.
getStoichiometry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: The stoichiometry for this participant.
getStoichiometry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidateWrapper: The stoichiometry for this participant.
getStoichiometry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantCandidateWrapper: The stoichiometry for this participant.
getStoichiometry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: The stoichiometry for this participant.
getStoichiometry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: The stoichiometry for this participant.
getStoichiometry() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractEntityRef: getStoichiometry.
getStoichiometry() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractParticipantRef: getStoichiometry.
getStoichiometry() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractEntityRef: getStoichiometry.
getStoichiometry() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractParticipantRef: getStoichiometry.
getStoichiometry() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractEntityRef: getStoichiometry.
getStoichiometry() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractParticipantRef: getStoichiometry.
getStoichiometryComparator() - Method in class psidev.psi.mi.jami.utils.comparator.participant.EntityBaseComparator: Getter for the field stoichiometryComparator.
getStoichiometryWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonParticipantWriter: Getter for the field stoichiometryWriter.
getStoichiometryWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledParticipantWriter: Getter for the field stoichiometryWriter.
getStoichiometryWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlParticipantEvidenceWriter: Getter for the field stoichiometryWriter.
getStreamReader() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: Getter for the field streamReader.
getStreamWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Getter for the field streamWriter.
getStreamWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentalInteractorWriter: Getter for the field streamWriter.
getStreamWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: Getter for the field streamWriter.
getStreamWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlFeatureWriter: Getter for the field streamWriter.
getStreamWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: Getter for the field streamWriter.
getStreamWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlOrganismWriter: Getter for the field streamWriter.
getStreamWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParameterWriter: Getter for the field streamWriter.
getStreamWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: Getter for the field streamWriter.
getStreamWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlPositionWriter: Getter for the field streamWriter.
getStreamWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlPublicationWriter: Getter for the field streamWriter.
getStreamWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlRangeWriter: Getter for the field streamWriter.
getStreamWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlCooperativeEffectWriter: Getter for the field streamWriter.
getStreamWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlParticipantCandidateWriter: Getter for the field streamWriter.
getStreamWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.AbstractXmlSourceWriter: Getter for the field streamWriter.
getStreamWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlCausalRelationshipWriter: Getter for the field streamWriter.
getStreamWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlCooperativityEvidenceWriter: Getter for the field streamWriter.
getStreamWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlResultingSequenceWriter: Getter for the field streamWriter.
getStreamWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlVariableParameterWriter: Getter for the field streamWriter.
getStreamWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlConfidenceWriter: Getter for the field streamWriter.
getStreamWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlCvTermWriter: Getter for the field streamWriter.
getStreamWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlDbXrefWriter: Getter for the field streamWriter.
getStreamWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlInteractorWriter: Getter for the field streamWriter.
getSubWritersFactory() - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Getter for the field subWritersFactory.
getSuccessWriter() - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.EnricherStatisticsWriter: Getter for the field successWriter.
GetSuffix(int) - Method in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream
GetSuffix(int) - Method in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Get the suffix.
getSwissprotIdsForAccession(String, String) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.UniprotProteinAPIClient: Finds the list of swissProtIds for a provided ID and taxonId
getSwissprotIdsForSequence(String, String) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.UniprotProteinAPIClient: Finds the list of swissProtIds for a provided sequence and taxonId
getSynonyms() - Method in class psidev.psi.mi.jami.bridges.ols.LazyCvTerm: getSynonyms.
getSynonyms() - Method in interface psidev.psi.mi.jami.model.CvTerm: Collection of synonyms for this CvTerm This method should never return null.
getSynonyms() - Method in class psidev.psi.mi.jami.model.impl.DefaultCvTerm: Getter for the field synonyms.
getSynonyms() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm: getSynonyms.
getSynonyms() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm: getSynonyms.
getSynonyms() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm: getSynonyms.
getSystematicName() - Method in interface psidev.psi.mi.jami.model.Complex: The systematic name of a complex.
getSystematicName() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: Getter for the field systematicName.
getSystematicName() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: The systematic name of a complex.
getSystematicName() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: The systematic name of a complex.
getSystematicName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: The systematic name of a complex.
getSystematicName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.ComplexNamesContainer: Getter for the field systematicName.
getSystematicName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: The systematic name of a complex.
getSystematicName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: The systematic name of a complex.
getSystematicName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: The systematic name of a complex.
getSystematicName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: The systematic name of a complex.
getSystematicName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.ComplexNamesContainer: Getter for the field systematicName.
getSystematicName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: The systematic name of a complex.
getSystematicName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: The systematic name of a complex.
getSystematicName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: The systematic name of a complex.
getSystematicName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: The systematic name of a complex.
getSystematicName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.ComplexNamesContainer: Getter for the field systematicName.
getSystematicName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: The systematic name of a complex.
getSystematicName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: The systematic name of a complex.
getSystematicName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: getSystematicName.
getSystematicName() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: The systematic name of a complex.
getSystematicName() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: The systematic name of a complex.
getSystematicName() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: The systematic name of a complex.
getSystematicName() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: The systematic name of a complex.
getSystemId() - Method in class psidev.psi.mi.jami.xml.model.extension.PsiXmlLocator
getTabSize(int) - Method in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream
getTabSize(int) - Method in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Getter for the field tabSize.
getTarget() - Method in interface psidev.psi.mi.jami.model.CausalRelationship: The participant/entity target of this causalRelationship.
getTarget() - Method in class psidev.psi.mi.jami.model.impl.DefaultCausalRelationship: Getter for the field target.
getTarget() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCausalRelationship: Getter for the field target.
getTaxId() - Method in class psidev.psi.mi.jami.model.impl.DefaultOrganism: Getter for the field taxId.
getTaxId() - Method in interface psidev.psi.mi.jami.model.Organism: The taxonomy identifier of the organism.
getTaxId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOrganism: Getter for the field taxId.
getTaxId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOrganism: Getter for the field taxId.
getTaxId() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOrganism: Getter for the field taxId.
getTermAccession() - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.OntologyTermWrapper: getTermAccession.
getTermForAccession(String) - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.AbstractMIOntologyAccess
getText() - Method in class psidev.psi.mi.jami.enricher.util.diff.Diff: getText.
getText() - Method in class psidev.psi.mi.jami.tab.extension.DefaultMitabFeature: Getter for the field text.
getText() - Method in class psidev.psi.mi.jami.tab.extension.MitabConfidence: Getter for the field text.
getText() - Method in interface psidev.psi.mi.jami.tab.extension.MitabFeature: getText.
getText() - Method in class psidev.psi.mi.jami.tab.extension.MitabFeatureEvidence: Getter for the field text.
getText() - Method in class psidev.psi.mi.jami.tab.extension.MitabModelledFeature: Getter for the field text.
getTissue() - Method in class psidev.psi.mi.jami.model.impl.DefaultOrganism: Getter for the field tissue.
getTissue() - Method in interface psidev.psi.mi.jami.model.Organism: The source tissue.
getTissue() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOrganism: Getter for the field tissue.
getTissue() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOrganism: Getter for the field tissue.
getTissue() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOrganism: Getter for the field tissue.
getTitle() - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: Getter for the field title.
getTitle() - Method in interface psidev.psi.mi.jami.model.Publication: The publication title.
getTitle() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: getTitle.
getTitle() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: getTitle.
getTitle() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: getTitle.
getToken(int) - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser: Get the specific Token.
getTopic() - Method in interface psidev.psi.mi.jami.model.Annotation: The annotation topic is a controlled vocabulary term and it cannot be null.
getTopic() - Method in class psidev.psi.mi.jami.model.impl.DefaultAnnotation: Getter for the field topic.
getTopic() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlAnnotation: Getter for the field topic.
getTopic() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlAnnotation: Getter for the field topic.
getTopic() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlAnnotation: Getter for the field topic.
getTopicComparator() - Method in class psidev.psi.mi.jami.utils.comparator.annotation.AnnotationComparator: Getter for the field topicComparator.
getTopicComparator() - Method in class psidev.psi.mi.jami.utils.comparator.annotation.UnambiguousAnnotationComparator: Getter for the field topicComparator.
getTremblIdsForAccession(String, String) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.UniprotProteinAPIClient: Finds the list of termblIds for a provided ID and taxonId
getTremblIdsForSequence(String, String) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.UniprotProteinAPIClient: Finds the list of termblIds for a provided sequence and taxonId
getType() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.DbReferenceType: Gets the value of the type property.
getType() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.PropertyType: Gets the value of the type property.
getType() - Method in interface psidev.psi.mi.jami.model.Alias: The alias type is a controlled vocabulary term.
getType() - Method in interface psidev.psi.mi.jami.model.Confidence: Method used to compute the confidence value.
getType() - Method in interface psidev.psi.mi.jami.model.Feature: The type for this feature.
getType() - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature: Getter for the field type.
getType() - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipantPool: Getter for the field type.
getType() - Method in class psidev.psi.mi.jami.model.impl.DefaultAlias: Getter for the field type.
getType() - Method in class psidev.psi.mi.jami.model.impl.DefaultConfidence: Getter for the field type.
getType() - Method in class psidev.psi.mi.jami.model.impl.DefaultParameter: Getter for the field type.
getType() - Method in interface psidev.psi.mi.jami.model.Parameter: The parameter type is a controlled vocabulary term and it cannot be null.
getType() - Method in interface psidev.psi.mi.jami.model.ParticipantPool: The pool type of this participant pool.
getType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlConfidence: Gets the value of the type property.
getType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: Getter for the field type.
getType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParameter: Getter for the field type.
getType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: Getter for the field type.
getType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAlias: Getter for the field type.
getType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlConfidenceWrapper: Method used to compute the confidence value.
getType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantPoolWrapper: The pool type of this participant pool.
getType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidenceWrapper: The type for this feature.
getType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureWrapper: The type for this feature.
getType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParameterWrapper: The parameter type is a controlled vocabulary term and it cannot be null.
getType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantPoolWrapper: The pool type of this participant pool.
getType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlConfidence: Gets the value of the type property.
getType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: Getter for the field type.
getType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParameter: Getter for the field type.
getType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: Getter for the field type.
getType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAlias: Getter for the field type.
getType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlConfidenceWrapper: Method used to compute the confidence value.
getType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantPoolWrapper: The pool type of this participant pool.
getType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidenceWrapper: The type for this feature.
getType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureWrapper: The type for this feature.
getType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParameterWrapper: The parameter type is a controlled vocabulary term and it cannot be null.
getType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantPoolWrapper: The pool type of this participant pool.
getType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlConfidence: Gets the value of the type property.
getType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: Getter for the field type.
getType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParameter: Getter for the field type.
getType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: Getter for the field type.
getType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAlias: Getter for the field type.
getType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlConfidenceWrapper: Method used to compute the confidence value.
getType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantPoolWrapper: The pool type of this participant pool.
getType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidenceWrapper: The type for this feature.
getType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureWrapper: The type for this feature.
getType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParameterWrapper: The parameter type is a controlled vocabulary term and it cannot be null.
getType() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantPoolWrapper: The pool type of this participant pool.
getType() - Method in class psidev.psi.mi.jami.xml.model.reference.AbstractFeatureRef: getType.
getTypeComparator() - Method in class psidev.psi.mi.jami.utils.comparator.alias.AliasComparator: Getter for the field typeComparator.
getTypeComparator() - Method in class psidev.psi.mi.jami.utils.comparator.alias.UnambiguousAliasComparator: Getter for the field typeComparator.
getTypeComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.ExactInteractorBaseComparator: Getter for the field typeComparator.
getTypeComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactInteractorBaseComparator: getTypeComparator
getTypeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml253.XmlConfidenceWriter: Getter for the field typeWriter.
getTypeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml254.XmlConfidenceWriter: Getter for the field typeWriter.
getTypeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlConfidenceWriter: Getter for the field typeWriter.
getTypeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlConfidenceWriter: Getter for the field typeWriter.
getUncertainty() - Method in class psidev.psi.mi.jami.model.impl.DefaultParameter: Getter for the field uncertainty.
getUncertainty() - Method in interface psidev.psi.mi.jami.model.Parameter: The uncertainty of the parameter.
getUncertainty() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParameter: Getter for the field uncertainty.
getUncertainty() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParameterWrapper: The uncertainty of the parameter.
getUncertainty() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParameter: Getter for the field uncertainty.
getUncertainty() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParameterWrapper: The uncertainty of the parameter.
getUncertainty() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParameter: Getter for the field uncertainty.
getUncertainty() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParameterWrapper: The uncertainty of the parameter.
getUndetermined() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: Getter for the field undetermined.
getUniparcEntries(String, String) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.UniprotProteinAPIClient: Gets the list of uniparcId matching this accession number
getUniparcEntryForAccession(String) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.UniprotProteinAPIClient: Get the UniparcEntry with an accession number
getUniparcIdFromSequence(String, String) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.UniprotProteinAPIClient: Gets the uniparcId matching this sequence
getUniprotBestGuessFor(String, String) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.UniprotProteinAPIClient: Get an Unique uniprot Id for this accession
getUniprotEntryForAccession(String) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.UniprotProteinAPIClient: Get the UniprotEntry with its accession number
getUniprotkb() - Method in class psidev.psi.mi.jami.model.impl.DefaultProtein: Getter for the field uniprotkb.
getUniprotkb() - Method in interface psidev.psi.mi.jami.model.Protein: The unique uniprot Accession which identifies the protein.
getUniProtKBExclusion() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Entry: Gets the value of the uniProtKBExclusion property.
getUnit() - Method in class psidev.psi.mi.jami.model.impl.DefaultParameter: Getter for the field unit.
getUnit() - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameter: Getter for the field unit.
getUnit() - Method in interface psidev.psi.mi.jami.model.Parameter: Unit of the parameter is a controlled vocabulary term.
getUnit() - Method in interface psidev.psi.mi.jami.model.VariableParameter: The unit of the variableParameter if relevant.
getUnit() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParameter: Getter for the field unit.
getUnit() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParameterWrapper: Unit of the parameter is a controlled vocabulary term.
getUnit() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameter: Getter for the field unit.
getUnit() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParameter: Getter for the field unit.
getUnit() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParameterWrapper: Unit of the parameter is a controlled vocabulary term.
getUnit() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameter: Getter for the field unit.
getUnit() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParameter: Getter for the field unit.
getUnit() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParameterWrapper: Unit of the parameter is a controlled vocabulary term.
getUnit() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameter: Getter for the field unit.
getUnitWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlVariableParameterWriter: Getter for the field unitWriter.
getUnknownInteractorType() - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: Getter for the field unknownInteractorType.
getUpdatedDate() - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteractionWrapper: getUpdatedDate
getUpdatedDate() - Method in class psidev.psi.mi.jami.model.impl.AbstractInteraction: Getter for the field updatedDate.
getUpdatedDate() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: Getter for the field updatedDate.
getUpdatedDate() - Method in interface psidev.psi.mi.jami.model.Interaction: The last update date.
getUpdatedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: The last update date.
getUpdatedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: The last update date.
getUpdatedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: The last update date.
getUpdatedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: The last update date.
getUpdatedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: Getter for the field updatedDate.
getUpdatedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: getUpdatedDate.
getUpdatedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: getUpdatedDate.
getUpdatedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: getUpdatedDate.
getUpdatedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: Getter for the field updatedDate.
getUpdatedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: getUpdatedDate.
getUpdatedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: getUpdatedDate.
getUpdatedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: getUpdatedDate.
getUpdatedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: Getter for the field updatedDate.
getUpdatedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: getUpdatedDate.
getUpdatedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: getUpdatedDate.
getUpdatedDate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: getUpdatedDate.
getUpdatedDate() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: getUpdatedDate.
getUpdatedDate() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: getUpdatedDate.
getUpdatedDate() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: getUpdatedDate.
getUPEntriesForAccession(String, String, SearchDatabase...) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.UniprotProteinAPIClient: Finds the list of UPEntries for a provided ID and organism from the provided list of databases
getUPEntriesForSequence(String, String, SearchDatabase...) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.UniprotProteinAPIClient: Get the Entry which matches the sequence and taxonId in the given databases
getUrl() - Method in class psidev.psi.mi.jami.bridges.ols.LazySource: Getter for the field url.
getUrl() - Method in class psidev.psi.mi.jami.model.impl.DefaultSource: Getter for the field url.
getUrl() - Method in interface psidev.psi.mi.jami.model.Source: Public URL of the data source.
getUrl() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource: getUrl.
getUrl() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource: getUrl.
getUrl() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource: getUrl.
getValidTerms(String, boolean, boolean) - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.AbstractMIOntologyAccess: Method that is used by the validator to determine a Set of Ontology terms that are valid terms for a particular rule.
getValue() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.PropertyType: Gets the value of the value property.
getValue() - Method in interface psidev.psi.mi.jami.model.Annotation: The value of this annotation.
getValue() - Method in interface psidev.psi.mi.jami.model.Checksum: The checksum cannot be null.
getValue() - Method in interface psidev.psi.mi.jami.model.Confidence: The confidence value cannot be null.
getValue() - Method in class psidev.psi.mi.jami.model.impl.DefaultAnnotation: Getter for the field value.
getValue() - Method in class psidev.psi.mi.jami.model.impl.DefaultChecksum: Getter for the field value.
getValue() - Method in class psidev.psi.mi.jami.model.impl.DefaultConfidence: Getter for the field value.
getValue() - Method in class psidev.psi.mi.jami.model.impl.DefaultParameter: Getter for the field value.
getValue() - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameterValue: Getter for the field value.
getValue() - Method in interface psidev.psi.mi.jami.model.Parameter: The parameter value cannot be null
getValue() - Method in interface psidev.psi.mi.jami.model.VariableParameterValue: The value for the variableParameterValue (drug concentration, etc.) It cannot be null.
getValue() - Method in class psidev.psi.mi.jami.tab.io.parser.Token: An optional attribute value of the Token.
getValue() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractAvailability: Gets the value of the value property.
getValue() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractXmlVariableParameterValue: Getter for the field value.
getValue() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlAnnotation: Getter for the field value.
getValue() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlConfidence: Getter for the field value.
getValue() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParameter: Getter for the field value.
getValue() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlConfidenceWrapper: The confidence value cannot be null.
getValue() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParameterWrapper: The parameter value cannot be null
getValue() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlAnnotation: Getter for the field value.
getValue() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlConfidence: Getter for the field value.
getValue() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParameter: Getter for the field value.
getValue() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlConfidenceWrapper: The confidence value cannot be null.
getValue() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParameterWrapper: The parameter value cannot be null
getValue() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlAnnotation: Getter for the field value.
getValue() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlConfidence: Getter for the field value.
getValue() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParameter: Getter for the field value.
getValue() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlConfidenceWrapper: The confidence value cannot be null.
getValue() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParameterWrapper: The parameter value cannot be null
getValueComparator() - Method in class psidev.psi.mi.jami.utils.comparator.parameter.ParameterComparator: Getter for the field valueComparator.
getVariableParameter() - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameterValue: Getter for the field variableParameter.
getVariableParameter() - Method in interface psidev.psi.mi.jami.model.VariableParameterValue: The variableParameter reporting this VariableParameterValueComparator.
getVariableParameter() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractXmlVariableParameterValue: Getter for the field variableParameter.
getVariableParameterCollectionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.experiment.ExperimentComparator: Getter for the field variableParameterCollectionComparator.
getVariableParameters() - Method in interface psidev.psi.mi.jami.model.Experiment: The collection of variableParameters and their values used in this experiment.
getVariableParameters() - Method in class psidev.psi.mi.jami.model.impl.DefaultExperiment: Getter for the field variableParameters.
getVariableParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: Getter for the field variableParameters.
getVariableParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: Getter for the field variableParameters.
getVariableParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: Getter for the field variableParameters.
getVariableParameters() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: getVariableParameters.
getVariableParameters() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: getVariableParameters.
getVariableParameters() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: getVariableParameters.
getVariableParameterValue(int) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: getVariableParameterValue.
getVariableParameterValue(int) - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: getVariableParameterValue.
getVariableParameterValue(int) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: getVariableParameterValue.
getVariableParameterValueCollectionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.experiment.VariableParameterComparator: Getter for the field variableParameterValueCollectionComparator.
getVariableParameterValueCollectionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.experiment.VariableParameterValueSetComparator: Getter for the field variableParameterValueCollectionComparator.
getVariableParameterValues() - Method in class psidev.psi.mi.jami.binary.impl.BinaryInteractionEvidenceWrapper: getVariableParameterValues
getVariableParameterValues() - Method in class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: getVariableParameterValues
getVariableParameterValues() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: getVariableParameterValues
getVariableParameterValues() - Method in interface psidev.psi.mi.jami.model.InteractionEvidence: The collection of variableParameterValueSet this interaction has been observed with.
getVariableParameterValues() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: getVariableParameterValues.
getVariableParameterValues() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: The collection of variableParameterValueSet this interaction has been observed with.
getVariableParameterValues() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: getVariableParameterValues.
getVariableParameterValues() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: getVariableParameterValues.
getVariableParameterValues() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: getVariableParameterValues.
getVariableParameterValues() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidence: getVariableParameterValues.
getVariableParameterValueSetCollectionComparator() - Method in class psidev.psi.mi.jami.utils.comparator.interaction.InteractionEvidenceComparator: Getter for the field variableParameterValueSetCollectionComparator.
getVariableParameterValueSetWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlInteractionEvidenceWriter: Getter for the field variableParameterValueSetWriter.
getVariableParameterValueSetWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlInteractionEvidenceWriter: Getter for the field variableParameterValueSetWriter.
getVariableParameterValueWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlVariableParameterWriter: Getter for the field variableParameterValueWriter.
getVariableParameterWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlExperimentWriter: Getter for the field variableParameterWriter.
getVariableValues() - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameter: Getter for the field variableValues.
getVariableValues() - Method in interface psidev.psi.mi.jami.model.VariableParameter: The collection of values for this variableParameter in a specific experiment.
getVariableValues() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameter: getVariableValues.
getVariableValues() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameter: getVariableValues.
getVariableValues() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameter: getVariableValues.
getVersion() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.DbReferenceType: Gets the value of the version property.
getVersion() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Uniparc: Gets the value of the version property.
getVersion() - Method in class psidev.psi.mi.jami.bridges.unisave.SequenceVersion: Getter for the field version.
getVersion() - Method in class psidev.psi.mi.jami.model.impl.DefaultXref: Getter for the field version.
getVersion() - Method in interface psidev.psi.mi.jami.model.Xref: The version of the identifier in the database/resource if relevant.
getVersion() - Method in class psidev.psi.mi.jami.tab.extension.MitabXref: Getter for the field version.
getVersion() - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitab25BinaryWriter: Getter for the field version.
getVersion() - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitabWriter: getVersion.
getVersion() - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25EvidenceWriter: getVersion.
getVersion() - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25ModelledWriter: getVersion.
getVersion() - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25Writer: getVersion.
getVersion() - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26EvidenceWriter: getVersion.
getVersion() - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26ModelledWriter: getVersion.
getVersion() - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26Writer: getVersion.
getVersion() - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27EvidenceWriter: getVersion.
getVersion() - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27ModelledWriter: getVersion.
getVersion() - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27Writer: getVersion.
getVersion() - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28EvidenceWriter: getVersion.
getVersion() - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28ModelledWriter: getVersion.
getVersion() - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28Writer: getVersion.
getVersion() - Method in class psidev.psi.mi.jami.tab.io.writer.LightMitab25Writer: getVersion.
getVersion() - Method in class psidev.psi.mi.jami.tab.io.writer.LightMitab26Writer: getVersion.
getVersion() - Method in class psidev.psi.mi.jami.tab.io.writer.LightMitab27Writer: getVersion.
getVersion() - Method in class psidev.psi.mi.jami.tab.io.writer.LightMitab28Writer: getVersion.
getVersion() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25EvidenceWriter: getVersion.
getVersion() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25ModelledWriter: getVersion.
getVersion() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25Writer: getVersion.
getVersion() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab26EvidenceWriter: getVersion.
getVersion() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab26ModelledWriter: getVersion.
getVersion() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab26Writer: getVersion.
getVersion() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab27EvidenceWriter: getVersion.
getVersion() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab27ModelledWriter: getVersion.
getVersion() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab27Writer: getVersion.
getVersion() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab28EvidenceWriter: getVersion.
getVersion() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab28ModelledWriter: getVersion.
getVersion() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab28Writer: getVersion.
getVersion() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractFullPsiXmlParser: Getter for the field version.
getVersion() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsixmlBinaryParser: getVersion.
getVersion() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: Getter for the field version.
getVersion() - Method in interface psidev.psi.mi.jami.xml.io.parser.PsiXmlParser: getVersion.
getVersion() - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Getter for the field version.
getVersion() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentalInteractorWriter
getVersion() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter
getVersion() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter
getVersion() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter
getVersion() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlXref: Getter for the field version.
getVersion() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlXref: Getter for the field version.
getVersion() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlXref: Getter for the field version.
getVersionI() - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.DbReferenceType: Gets the value of the versionI property.
getVersions(String) - Method in class psidev.psi.mi.jami.bridges.unisave.UnisaveClient: Searches for all entry version given its identifier.
getWrappedFeature() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidenceWrapper: getWrappedFeature.
getWrappedFeature() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureWrapper: getWrappedFeature.
getWrappedFeature() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidenceWrapper: getWrappedFeature.
getWrappedFeature() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureWrapper: getWrappedFeature.
getWrappedFeature() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidenceWrapper: getWrappedFeature.
getWrappedFeature() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureWrapper: getWrappedFeature.
getWrappedInteraction() - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteractionWrapper: Getter for the field wrappedInteraction.
getWrappedInteraction() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: Getter for the field wrappedInteraction.
getWrappedInteraction() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: getWrappedInteraction.
getWrappedInteraction() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: getWrappedInteraction.
getWrappedInteraction() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: getWrappedInteraction.
getWrappedList() - Method in class psidev.psi.mi.jami.utils.collection.AbstractCollectionWrapper: Getter for the field wrappedList.
getWrappedParticipant() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidateWrapper: getWrappedParticipant.
getWrappedParticipant() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantCandidateWrapper: getWrappedParticipant.
getWrappedParticipant() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: getWrappedParticipant.
getWrappedParticipant() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: getWrappedParticipant.
getWrappedParticipant() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidateWrapper: getWrappedParticipant.
getWrappedParticipant() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantCandidateWrapper: getWrappedParticipant.
getWrappedParticipant() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: getWrappedParticipant.
getWrappedParticipant() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: getWrappedParticipant.
getWrappedParticipant() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidateWrapper: getWrappedParticipant.
getWrappedParticipant() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantCandidateWrapper: getWrappedParticipant.
getWrappedParticipant() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: getWrappedParticipant.
getWrappedParticipant() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: getWrappedParticipant.
getWriter() - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: Getter for the field writer.
getWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonFeatureWriter: Getter for the field writer.
getWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionWriter: Getter for the field writer.
getWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractorWriter: Getter for the field writer.
getWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonOrganismWriter: Getter for the field writer.
getWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonParticipantWriter: Getter for the field writer.
getWriter() - Method in class psidev.psi.mi.jami.json.nary.AbstractMIJsonWriter: Getter for the field writer.
getWriter() - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitab25BinaryWriter: Getter for the field writer.
getWriter() - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25Writer: Getter for the field writer.
getWriter() - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.AbstractMitabColumnFeeder: Getter for the field writer.
getWriter() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25Writer: Getter for the field writer.
getXmlAvailability() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: getXmlAvailability.
getXmlAvailability() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: getXmlAvailability.
getXmlAvailability() - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlInteractionEvidence: getXmlAvailability.
getXmlAvailability() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: getXmlAvailability.
getXmlAvailability() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: getXmlAvailability.
getXmlAvailability() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: getXmlAvailability.
getXmlInferredInteractionWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.AbstractXmlInteractionEvidenceWriter: getXmlInferredInteractionWriter.
getXmlInferredInteractionWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlInteractionWriter: getXmlInferredInteractionWriter.
getXmlInferredInteractionWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlModelledInteractionWriter: getXmlInferredInteractionWriter.
getXmlOptions(boolean, Object) - Method in class psidev.psi.mi.jami.commons.MIDataSourceOptionFactory: Create the options for the PSI-XML datasource and specify if we want a Streaming MIFileDatasource.
getXmlOptions(Object, InteractionCategory, ComplexType, PsiXmlType, PsiXmlObjectCache, Set<Experiment>, Set<Interactor>, Set<String>, Set<Interaction>, Source, XMLGregorianCalendar, Collection<Annotation>, boolean, boolean, PsiXmlVersion) - Method in class psidev.psi.mi.jami.commons.MIWriterOptionFactory: Create the options for the PSI-XML InteractionWriter.
getXmlOptions(MIFileParserListener, Object) - Method in class psidev.psi.mi.jami.commons.MIDataSourceOptionFactory: Create the options for the Psi-XML datasource using the provided MIFileParserListener.
getXmlOptions(InteractionCategory, ComplexType, boolean, MIFileParserListener, Object, ComplexExpansionMethod, PsiXmlIdCache) - Method in class psidev.psi.mi.jami.commons.MIDataSourceOptionFactory: Create the options for the PSI-XML datasource.
getXmlOptions(InteractionCategory, ComplexType, Object) - Method in class psidev.psi.mi.jami.commons.MIDataSourceOptionFactory: Create the options for the Psi-XML datasource using the provided objectCategory.
getXrefContainer() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm: Getter for the field xrefContainer.
getXrefContainer() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm: Getter for the field xrefContainer.
getXrefContainer() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm: Getter for the field xrefContainer.
getXrefs() - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteractionWrapper: getXrefs
getXrefs() - Method in class psidev.psi.mi.jami.bridges.ols.LazyCvTerm: getXrefs.
getXrefs() - Method in interface psidev.psi.mi.jami.model.CvTerm: Collection of cross references describing the CvTerm.
getXrefs() - Method in interface psidev.psi.mi.jami.model.Experiment: Collection of cross references for an experiment which can give more information about the experiment.
getXrefs() - Method in interface psidev.psi.mi.jami.model.Feature: Collection of cross references which give more information about the feature.
getXrefs() - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature: Getter for the field xrefs.
getXrefs() - Method in class psidev.psi.mi.jami.model.impl.AbstractInteraction: Getter for the field xrefs.
getXrefs() - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipant: Getter for the field xrefs.
getXrefs() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: getXrefs
getXrefs() - Method in class psidev.psi.mi.jami.model.impl.DefaultCvTerm: Getter for the field xrefs.
getXrefs() - Method in class psidev.psi.mi.jami.model.impl.DefaultExperiment: Getter for the field xrefs.
getXrefs() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractor: Getter for the field xrefs.
getXrefs() - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: Getter for the field xrefs.
getXrefs() - Method in class psidev.psi.mi.jami.model.impl.DefaultResultingSequence: Getter for the field xrefs.
getXrefs() - Method in interface psidev.psi.mi.jami.model.Interaction: The external cross references for an interaction.
getXrefs() - Method in interface psidev.psi.mi.jami.model.Interactor: Collection of other xrefs that give more information about the interactor.
getXrefs() - Method in interface psidev.psi.mi.jami.model.Participant: Collection of cross references which give more information about the participant.
getXrefs() - Method in interface psidev.psi.mi.jami.model.Publication: Other cross references which give more information about the publication.
getXrefs() - Method in interface psidev.psi.mi.jami.model.ResultingSequence: The collection of external database cross-references for this resulting sequence portion.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: Getter for the field xrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: The external cross references for an interaction.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: The external cross references for an interaction.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: The external cross references for an interaction.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: The external cross references for an interaction.
getXrefs() - Method in interface psidev.psi.mi.jami.xml.model.extension.IInteractorXrefContainer
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: Collection of cross references which give more information about the participant.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: Collection of other xrefs that give more information about the interactor.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidenceWrapper: Collection of cross references which give more information about the feature.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureWrapper: Collection of cross references which give more information about the feature.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: Collection of other xrefs that give more information about the interactor.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: Collection of other xrefs that give more information about the interactor.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: Collection of cross references which give more information about the participant.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: Collection of cross references which give more information about the participant.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlResultingSequence: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XrefContainer: Getter for the field xrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: Collection of cross references which give more information about the participant.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: Collection of other xrefs that give more information about the interactor.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidenceWrapper: Collection of cross references which give more information about the feature.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureWrapper: Collection of cross references which give more information about the feature.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: Collection of other xrefs that give more information about the interactor.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: Collection of other xrefs that give more information about the interactor.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: Collection of cross references which give more information about the participant.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: Collection of cross references which give more information about the participant.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlResultingSequence: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XrefContainer: Getter for the field xrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: Collection of cross references which give more information about the participant.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: Collection of other xrefs that give more information about the interactor.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidenceWrapper: Collection of cross references which give more information about the feature.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureWrapper: Collection of cross references which give more information about the feature.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: Collection of other xrefs that give more information about the interactor.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: Collection of other xrefs that give more information about the interactor.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: Collection of cross references which give more information about the participant.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: Collection of cross references which give more information about the participant.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlResultingSequence: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XrefContainer: Getter for the field xrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.reference.AbstractFeatureRef: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractInteractorRef: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractParticipantRef: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractInteractorRef: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractParticipantRef: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractInteractorRef: getXrefs.
getXrefs() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractParticipantRef: getXrefs.
getXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: Getter for the field xrefWriter.
getXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlFeatureWriter: Getter for the field xrefWriter.
getXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: Getter for the field xrefWriter.
getXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: Getter for the field xrefWriter.
getXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlPublicationWriter: Getter for the field xrefWriter.
getXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.AbstractXmlSourceWriter: Getter for the field xrefWriter.
getXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlResultingSequenceWriter: Getter for the field xrefWriter.
getXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlCvTermWriter: Getter for the field xrefWriter.
getXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlInteractorWriter: Getter for the field xrefWriter.
GO - Static variable in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Constant GO="go"
GO - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant GO="go"
GO_MI - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant GO_MI="MI:0448"
GO_MI_REF - Static variable in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Constant GO_MI_REF="MI:0448"
GREATER_THAN - Static variable in interface psidev.psi.mi.jami.model.Position: Constant GREATER_THAN="greater-than"
GREATER_THAN_FULL - Static variable in interface psidev.psi.mi.jami.model.Position: Constant GREATER_THAN_FULL="greater-than"
GREATER_THAN_MI - Static variable in interface psidev.psi.mi.jami.model.Position: Constant GREATER_THAN_MI="MI:0336"
GREATER_THAN_POSITION_SYMBOL - Static variable in interface psidev.psi.mi.jami.model.Range: Constant GREATER_THAN_POSITION_SYMBOL=">"
GZIP - Static variable in class psidev.psi.mi.jami.utils.checksum.Base64: Specify that data should be gzip-compressed.

H

H_INV - psidev.psi.mi.jami.bridges.uniprot.rest.SearchDatabase
hasFinished() - Method in class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionLineParser: hasFinished.
hasFinished() - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
hasFinished() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractFullPsiXmlParser: hasFinished.
hasFinished() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsixmlBinaryParser: hasFinished.
hasFinished() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: hasFinished.
hasFinished() - Method in interface psidev.psi.mi.jami.xml.io.parser.FullPsiXmlParser: hasFinished.
hasFinished() - Method in interface psidev.psi.mi.jami.xml.io.parser.PsiXmlParser: hasFinished.
hashCode() - Method in class psidev.psi.mi.jami.analysis.graph.model.AbstractMIEdge
hashCode() - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.OntologyTermWrapper
hashCode() - Method in class psidev.psi.mi.jami.listener.comparator.observer.ComplexComparatorObserver
hashCode() - Method in class psidev.psi.mi.jami.model.impl.DefaultAlias
hashCode() - Method in class psidev.psi.mi.jami.model.impl.DefaultAnnotation
hashCode() - Method in class psidev.psi.mi.jami.model.impl.DefaultChecksum
hashCode() - Method in class psidev.psi.mi.jami.model.impl.DefaultConfidence
hashCode() - Method in class psidev.psi.mi.jami.model.impl.DefaultCooperativityEvidence
hashCode() - Method in class psidev.psi.mi.jami.model.impl.DefaultCvTerm
hashCode() - Method in class psidev.psi.mi.jami.model.impl.DefaultOrganism
hashCode() - Method in class psidev.psi.mi.jami.model.impl.DefaultParameter
hashCode() - Method in class psidev.psi.mi.jami.model.impl.DefaultPosition
hashCode() - Method in class psidev.psi.mi.jami.model.impl.DefaultRange
hashCode() - Method in class psidev.psi.mi.jami.model.impl.DefaultResultingSequence
hashCode() - Method in class psidev.psi.mi.jami.model.impl.DefaultStoichiometry
hashCode() - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameter
hashCode() - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameterValue
hashCode() - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameterValueSet
hashCode() - Method in class psidev.psi.mi.jami.model.impl.DefaultXref
hashCode() - Method in class psidev.psi.mi.jami.model.ParameterValue
hashCode() - Method in class psidev.psi.mi.jami.tab.extension.MitabXref
hashCode() - Method in class psidev.psi.mi.jami.xml.cache.EntryLocation
hashCode() - Method in class psidev.psi.mi.jami.xml.io.parser.NonCloseableInputStreamWrapper
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractXmlVariableParameterValue
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlAnnotation
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlConfidence
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParameter
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlPosition
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAlias
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlCooperativityEvidence
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOrganism
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlRange
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlResultingSequence
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlStoichiometryRange
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameter
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlXref
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlAnnotation
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlConfidence
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParameter
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlPosition
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAlias
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlCooperativityEvidence
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOrganism
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlRange
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlResultingSequence
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlStoichiometryRange
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameter
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlXref
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlAnnotation
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlConfidence
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParameter
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlPosition
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAlias
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCooperativityEvidence
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOrganism
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlRange
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlResultingSequence
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlStoichiometryRange
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameter
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameterValueSet
hashCode() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlXref
hashCode(Alias) - Static method in class psidev.psi.mi.jami.utils.comparator.alias.UnambiguousAliasComparator: hashCode
hashCode(Annotation) - Static method in class psidev.psi.mi.jami.utils.comparator.annotation.UnambiguousAnnotationComparator: hashCode
hashCode(CausalRelationship) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousCausalRelationshipComparator: hashCode
hashCode(CausalRelationship) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactCausalRelationshipComparator: hashCode
hashCode(Checksum) - Static method in class psidev.psi.mi.jami.utils.comparator.checksum.UnambiguousChecksumComparator: hashCode
hashCode(Confidence) - Static method in class psidev.psi.mi.jami.utils.comparator.confidence.UnambiguousConfidenceComparator: hashCode
hashCode(CooperativeEffect) - Static method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousCooperativeEffectBaseComparator: hashCode
hashCode(CooperativeEffect) - Static method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousExactCooperativeEffectBaseComparator: hashCode
hashCode(CooperativityEvidence) - Static method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousCooperativityEvidenceComparator: hashCode
hashCode(CvTerm) - Static method in class psidev.psi.mi.jami.utils.comparator.cv.CvTermIdentifierComparator: hashCode
hashCode(CvTerm) - Static method in class psidev.psi.mi.jami.utils.comparator.cv.CvTermNameComparator: hashCode
hashCode(CvTerm) - Static method in class psidev.psi.mi.jami.utils.comparator.cv.UnambiguousCvTermComparator: hashCode
hashCode(Entity) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousEntityBaseComparator
hashCode(Entity) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactEntityBaseComparator
hashCode(Experiment) - Static method in class psidev.psi.mi.jami.utils.comparator.experiment.UnambiguousCuratedExperimentComparator: hashCode
hashCode(Experiment) - Static method in class psidev.psi.mi.jami.utils.comparator.experiment.UnambiguousExperimentComparator: hashCode
hashCode(Feature) - Static method in class psidev.psi.mi.jami.utils.comparator.feature.UnambiguousFeatureBaseComparator: hashCode
hashCode(FeatureModificationEffector) - Static method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousFeatureModificationEffectorComparator: hashCode
hashCode(Interaction) - Static method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousCuratedInteractionBaseComparator: hashCode
hashCode(Interaction) - Static method in class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousInteractionBaseComparator: hashCode
hashCode(Interactor) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactInteractorBaseComparator: hashCode
hashCode(Interactor) - Static method in class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousInteractorBaseComparator: hashCode
hashCode(MoleculeEffector) - Static method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousExactMoleculeEffectorComparator: hashCode
hashCode(MoleculeEffector) - Static method in class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousMoleculeEffectorComparator: hashCode
hashCode(Organism) - Static method in class psidev.psi.mi.jami.utils.comparator.organism.OrganismTaxIdComparator: hashCode
hashCode(Organism) - Static method in class psidev.psi.mi.jami.utils.comparator.organism.UnambiguousOrganismComparator
hashCode(Parameter) - Static method in class psidev.psi.mi.jami.utils.comparator.parameter.UnambiguousParameterComparator: hashCode
hashCode(ParameterValue) - Static method in class psidev.psi.mi.jami.utils.comparator.parameter.ParameterValueComparator: hashCode
hashCode(Participant) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantBaseComparator: hashCode
hashCode(Participant) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousParticipantBaseComparator: hashCode
hashCode(Position) - Static method in class psidev.psi.mi.jami.utils.comparator.range.UnambiguousPositionComparator: hashCode
hashCode(Publication) - Static method in class psidev.psi.mi.jami.utils.comparator.publication.UnambiguousCuratedPublicationComparator: hashCode
hashCode(Publication) - Static method in class psidev.psi.mi.jami.utils.comparator.publication.UnambiguousPublicationComparator: hashCode
hashCode(Range) - Static method in class psidev.psi.mi.jami.utils.comparator.range.UnambiguousRangeAndResultingSequenceComparator: hashCode
hashCode(Range) - Static method in class psidev.psi.mi.jami.utils.comparator.range.UnambiguousRangeComparator: hashCode
hashCode(ResultingSequence) - Static method in class psidev.psi.mi.jami.utils.comparator.range.ResultingSequenceComparator: hashCode
hashCode(Stoichiometry) - Static method in class psidev.psi.mi.jami.utils.comparator.participant.StoichiometryComparator: hashCode
hashCode(VariableParameter) - Static method in class psidev.psi.mi.jami.utils.comparator.experiment.UnambiguousVariableParameterComparator: hashCode
hashCode(VariableParameterValue) - Static method in class psidev.psi.mi.jami.utils.comparator.experiment.VariableParameterValueComparator: hashCode
hashCode(VariableParameterValueSet) - Static method in class psidev.psi.mi.jami.utils.comparator.experiment.VariableParameterValueSetComparator: hashCode
hashCode(Xref) - Static method in class psidev.psi.mi.jami.utils.comparator.xref.ExactExternalIdentifierComparator
hashCode(Xref) - Static method in class psidev.psi.mi.jami.utils.comparator.xref.ExactXrefComparator
hashCode(Xref) - Static method in class psidev.psi.mi.jami.utils.comparator.xref.UnambiguousExternalIdentifierComparator: hashCode
hashCode(Xref) - Static method in class psidev.psi.mi.jami.utils.comparator.xref.UnambiguousXrefComparator: hashCode
hasIdentifiers(I) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionEvidenceWriter: hasIdentifiers.
hasIdentifiers(I) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionWriter: hasIdentifiers.
hasInferredInteractions() - Method in class psidev.psi.mi.jami.xml.XmlEntryContext: hasInferredInteractions.
hasLoadedFullEntry() - Method in class psidev.psi.mi.jami.xml.model.AbstractBaseEntry: hasLoadedFullEntry.
hasLoadedFullEntry() - Method in class psidev.psi.mi.jami.xml.model.Entry: hasLoadedFullEntry.
hasLoadedMetadata() - Method in class psidev.psi.mi.jami.bridges.ols.LazyCvTerm: hasLoadedMetadata.
hasLoadedXrefs() - Method in class psidev.psi.mi.jami.bridges.ols.LazyCvTerm: hasLoadedXrefs.
hasNext() - Method in class psidev.psi.mi.jami.crosslink.io.iterator.CsvInteractionEvidenceIterator: hasNext.
hasNext() - Method in class psidev.psi.mi.jami.tab.io.iterator.AbstractMitabIterator: hasNext.
hasNext() - Method in class psidev.psi.mi.jami.utils.collection.IteratorHavingProperties: hasNext
hasNext() - Method in class psidev.psi.mi.jami.utils.collection.IteratorWrapper: hasNext
hasNext() - Method in class psidev.psi.mi.jami.xml.io.iterator.AbstractXmlIterator: hasNext.
hasNext() - Method in class psidev.psi.mi.jami.xml.io.parser.XmlReaderWithDefaultNamespace
hasPrevious() - Method in class psidev.psi.mi.jami.utils.collection.ListIteratorHavingProperties: hasPrevious
hasRegisteredSubComplexes() - Method in class psidev.psi.mi.jami.xml.cache.InMemoryIdentityObjectCache: hasRegisteredSubComplexes.
hasRegisteredSubComplexes() - Method in class psidev.psi.mi.jami.xml.cache.InMemoryLightIdentityObjectCache: hasRegisteredSubComplexes.
hasRegisteredSubComplexes() - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlObjectCache: hasRegisteredSubComplexes.
hasStarted() - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitab25BinaryWriter: hasStarted.
hasStarted() - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitabWriter: hasStarted.
hasUnresolvedReferences() - Method in class psidev.psi.mi.jami.xml.XmlEntryContext: hasUnresolvedReferences.
HETEROTROPIC_ALLOSTERY - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant HETEROTROPIC_ALLOSTERY="heterotropic allostery"
HETEROTROPIC_ALLOSTERY_ID - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant HETEROTROPIC_ALLOSTERY_ID="MI:1168"
HOMOTROPIC_ALLOSTERY - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant HOMOTROPIC_ALLOSTERY="homotropic allostery"
HOMOTROPIC_ALLOSTERY_ID - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant HOMOTROPIC_ALLOSTERY_ID="MI:1169"
HOST_ORGANISM - psidev.psi.mi.jami.tab.MitabColumnName
HostOrganism - Class in psidev.psi.mi.jami.xml.model.extension.xml253: The experiment/participant host organism
HostOrganism - Class in psidev.psi.mi.jami.xml.model.extension.xml254: The experiment/participant host organism
HostOrganism - Class in psidev.psi.mi.jami.xml.model.extension.xml300: The experiment/participant host organism
HostOrganism() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.HostOrganism: Constructor for HostOrganism.
HostOrganism() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.HostOrganism: Constructor for HostOrganism.
HostOrganism() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.HostOrganism: Constructor for HostOrganism.
HostOrganism(int) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.HostOrganism: Constructor for HostOrganism.
HostOrganism(int) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.HostOrganism: Constructor for HostOrganism.
HostOrganism(int) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.HostOrganism: Constructor for HostOrganism.
HostOrganism(int, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.HostOrganism: Constructor for HostOrganism.
HostOrganism(int, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.HostOrganism: Constructor for HostOrganism.
HostOrganism(int, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.HostOrganism: Constructor for HostOrganism.
HostOrganism(int, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.HostOrganism: Constructor for HostOrganism.
HostOrganism(int, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.HostOrganism: Constructor for HostOrganism.
HostOrganism(int, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.HostOrganism: Constructor for HostOrganism.
HostOrganism(int, String, String, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.HostOrganism: Constructor for HostOrganism.
HostOrganism(int, String, String, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.HostOrganism: Constructor for HostOrganism.
HostOrganism(int, String, String, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.HostOrganism: Constructor for HostOrganism.
HostOrganism(int, String, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.HostOrganism: Constructor for HostOrganism.
HostOrganism(int, String, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.HostOrganism: Constructor for HostOrganism.
HostOrganism(int, String, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.HostOrganism: Constructor for HostOrganism.
HostOrganism(int, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.HostOrganism: Constructor for HostOrganism.
HostOrganism(int, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.HostOrganism: Constructor for HostOrganism.
HostOrganism(int, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.HostOrganism: Constructor for HostOrganism.
HostOrganism.JAXBExperimentRefWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
HostOrganism.JAXBExperimentRefWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
HostOrganism.JAXBExperimentRefWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
HtmlWriterOptions - Class in psidev.psi.mi.jami.html.utils: Class that lists all possible options for MI HTML writer.
HtmlWriterOptions() - Constructor for class psidev.psi.mi.jami.html.utils.HtmlWriterOptions
HtmlWriterUtils - Class in psidev.psi.mi.jami.html.utils: Utility class for writing molecular interactions in html
HtmlWriterUtils() - Constructor for class psidev.psi.mi.jami.html.utils.HtmlWriterUtils
HTTP_DEF - Static variable in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Constant HTTP_DEF="http"
HTTP_DEF - Static variable in class psidev.psi.mi.jami.bridges.ols.utils.OlsUtils: Constant HTTP_DEF="http"

I

IC_BETA - Static variable in interface psidev.psi.mi.jami.bridges.imex.ImexCentralClient: Constant IC_BETA="https://imexcentral.org/icentralbeta/ws"{trunked}
IC_PROD - Static variable in interface psidev.psi.mi.jami.bridges.imex.ImexCentralClient: Constant IC_PROD="https://imexcentral.org/icentral/ws-v20"
IC_TEST - Static variable in interface psidev.psi.mi.jami.bridges.imex.ImexCentralClient: Constant IC_TEST="https://imexcentral.org/icentraltest/ws"{trunked}
id - Variable in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.DbReferenceType
id - Variable in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.SeqFeatureGroupType
id - Variable in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.SeqFeatureType
id(CvTerm, boolean, int) - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
ID_INTERACTOR_A - psidev.psi.mi.jami.tab.MitabColumnName
ID_INTERACTOR_B - psidev.psi.mi.jami.tab.MitabColumnName
IDENTIFIER_MISSING - Static variable in interface psidev.psi.mi.jami.bridges.imex.ImexCentralClient: Constant IDENTIFIER_MISSING=4
IDENTIFIER_UNKNOWN - Static variable in interface psidev.psi.mi.jami.bridges.imex.ImexCentralClient: Constant IDENTIFIER_UNKNOWN=5
IdentifiersChangeListener<T> - Interface in psidev.psi.mi.jami.listener: A listener for changes to a list of identifiers.
identifyMIFileTypeFor(File) - Method in class psidev.psi.mi.jami.commons.MIFileAnalyzer: Recognize the MIFileDataSource from the file signature and first line.
identifyMIFileTypeFor(InputStream) - Method in class psidev.psi.mi.jami.commons.MIFileAnalyzer: Recognize the MIFileDataSource from the inputStream.
identifyMIFileTypeFor(Reader) - Method in class psidev.psi.mi.jami.commons.MIFileAnalyzer: Recognize the MIFileDataSource from the reader.
IDENTITY - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant IDENTITY="identity"
IDENTITY_MI - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant IDENTITY_MI="MI:0356"
IdentityHashComparator<T> - Class in psidev.psi.mi.jami.utils.comparator: The IdentityHashComparator will use the hashcode of each objects to compare the objects.
IdentityHashComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.IdentityHashComparator
ids(CvTerm, boolean, int) - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
IInteractorXrefContainer - Interface in psidev.psi.mi.jami.xml.model.extension
IllegalParameterException - Exception in psidev.psi.mi.jami.exception: Exception to throw if a Parameter is not valid
IllegalParameterException() - Constructor for exception psidev.psi.mi.jami.exception.IllegalParameterException: Constructor for IllegalParameterException.
IllegalParameterException(String) - Constructor for exception psidev.psi.mi.jami.exception.IllegalParameterException: Constructor for IllegalParameterException.
IllegalParameterException(String, Throwable) - Constructor for exception psidev.psi.mi.jami.exception.IllegalParameterException: Constructor for IllegalParameterException.
IllegalParameterException(Throwable) - Constructor for exception psidev.psi.mi.jami.exception.IllegalParameterException: Constructor for IllegalParameterException.
IllegalRangeException - Exception in psidev.psi.mi.jami.exception: Exception thrown when trying to create an Illegal range
IllegalRangeException() - Constructor for exception psidev.psi.mi.jami.exception.IllegalRangeException: Constructor for IllegalRangeException.
IllegalRangeException(String) - Constructor for exception psidev.psi.mi.jami.exception.IllegalRangeException: Constructor for IllegalRangeException.
IllegalRangeException(String, Throwable) - Constructor for exception psidev.psi.mi.jami.exception.IllegalRangeException: Constructor for IllegalRangeException.
IllegalRangeException(Throwable) - Constructor for exception psidev.psi.mi.jami.exception.IllegalRangeException: Constructor for IllegalRangeException.
image - Variable in class psidev.psi.mi.jami.tab.io.parser.Token: The string image of the token.
IMEx - psidev.psi.mi.jami.model.CurationDepth
IMEX - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant IMEX="imex"
IMEX_CURATION - Static variable in class psidev.psi.mi.jami.imex.ImexPublicationRegister: Constant IMEX_CURATION="imex curation"
IMEX_CURATION - Static variable in class psidev.psi.mi.jami.imex.ImexPublicationUpdater: Constant IMEX_CURATION="imex curation"
IMEX_CURATION - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant IMEX_CURATION="imex curation"
IMEX_CURATION_MI - Static variable in class psidev.psi.mi.jami.imex.ImexPublicationRegister: Constant IMEX_CURATION_MI="MI:0959"
IMEX_CURATION_MI - Static variable in class psidev.psi.mi.jami.imex.ImexPublicationUpdater: Constant IMEX_CURATION_MI="MI:0959"
IMEX_CURATION_MI - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant IMEX_CURATION_MI="MI:0959"
IMEX_DB_CURATORS_SUFFIX - Static variable in class psidev.psi.mi.jami.bridges.imex.Constants
IMEX_MI - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant IMEX_MI="MI:0670"
IMEX_NAME - Static variable in class psidev.psi.mi.jami.bridges.imex.Constants
IMEX_PARTNERS - Static variable in class psidev.psi.mi.jami.bridges.imex.Constants
IMEX_PRIMARY - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant IMEX_PRIMARY="imex-primary"
IMEX_PRIMARY_MI - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant IMEX_PRIMARY_MI="MI:0662"
IMEX_SECONDARY - Static variable in class psidev.psi.mi.jami.imex.ImexPublicationRegister: Constant IMEX_SECONDARY="imex secondary"
IMEX_SECONDARY - Static variable in class psidev.psi.mi.jami.imex.ImexPublicationUpdater: Constant IMEX_SECONDARY="imex secondary"
IMEX_SECONDARY_MI - Static variable in class psidev.psi.mi.jami.imex.ImexPublicationRegister: Constant IMEX_SECONDARY_MI="MI:0952"
IMEX_SECONDARY_MI - Static variable in class psidev.psi.mi.jami.imex.ImexPublicationUpdater: Constant IMEX_SECONDARY_MI="MI:0952"
ImexAssigner - Interface in psidev.psi.mi.jami.imex.actions: Interface for assigning IMEx id to a publication and updating intact publications, experiments and interactions
ImexAssignerImpl - Class in psidev.psi.mi.jami.imex.actions.impl: This class will assign an IMEx id to a publication using imex central webservice and update experiments and interactions
ImexAssignerImpl(ImexCentralClient) - Constructor for class psidev.psi.mi.jami.imex.actions.impl.ImexAssignerImpl: Constructor for ImexAssignerImpl.
ImexCentralClient - Interface in psidev.psi.mi.jami.bridges.imex: IMEx Central publication fetcher.
ImexCentralPublicationRegister - Interface in psidev.psi.mi.jami.imex.actions: Interface for registering a publication in IMEx central and collect a publication record in IMEx central
ImexCentralPublicationRegisterImpl - Class in psidev.psi.mi.jami.imex.actions.impl: This class can register a publication in IMEx central and collect a publication record in IMEx central using imex central webservice
ImexCentralPublicationRegisterImpl(ImexCentralClient) - Constructor for class psidev.psi.mi.jami.imex.actions.impl.ImexCentralPublicationRegisterImpl: Constructor for ImexCentralPublicationRegisterImpl.
ImexCentralUtility - Class in psidev.psi.mi.jami.bridges.imex: Created by anjali on 29/11/18.
ImexCentralUtility() - Constructor for class psidev.psi.mi.jami.bridges.imex.ImexCentralUtility
ImexExperimentUpdater - Class in psidev.psi.mi.jami.imex: This enricher will update an experiment attached to a publication having an IMEx id
ImexExperimentUpdater() - Constructor for class psidev.psi.mi.jami.imex.ImexExperimentUpdater: Constructor for ImexExperimentUpdater.
ImexInteractionUpdater - Class in psidev.psi.mi.jami.imex: This enricher will update a interaction evidence having a publication with IMEx id
ImexInteractionUpdater() - Constructor for class psidev.psi.mi.jami.imex.ImexInteractionUpdater: Constructor for ImexInteractionUpdater.
ImexPublication - Class in psidev.psi.mi.jami.bridges.imex.extension: Extension of publication for imex central
ImexPublication(Publication) - Constructor for class psidev.psi.mi.jami.bridges.imex.extension.ImexPublication: Constructor for ImexPublication.
ImexPublicationAssigner - Class in psidev.psi.mi.jami.imex: This enricher will update a publication having IMEx id and synchronize it with IMEx central
ImexPublicationAssigner(ImexCentralClient) - Constructor for class psidev.psi.mi.jami.imex.ImexPublicationAssigner: Constructor for ImexPublicationAssigner.
ImexPublicationRegister - Class in psidev.psi.mi.jami.imex: This enricher will update a publication having IMEx id and synchronize it with IMEx central
ImexPublicationRegister(ImexCentralClient) - Constructor for class psidev.psi.mi.jami.imex.ImexPublicationRegister: Constructor for ImexPublicationRegister.
ImexPublicationUpdater - Class in psidev.psi.mi.jami.imex: This enricher will update a publication having IMEx id and synchronize it with IMEx central
ImexPublicationUpdater(ImexCentralClient) - Constructor for class psidev.psi.mi.jami.imex.ImexPublicationUpdater: Constructor for ImexPublicationUpdater.
IMPORTED - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant IMPORTED="imported"
IMPORTED_MI - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant IMPORTED_MI="MI:1058"
inBuf - Variable in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream
inBuf - Variable in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream
INCHI - Static variable in interface psidev.psi.mi.jami.model.Checksum: Constant INCHI="stamdard inchi"
INCHI_KEY - Static variable in interface psidev.psi.mi.jami.model.Checksum: Constant INCHI_KEY="inchi key"
INCHI_KEY_MI - Static variable in interface psidev.psi.mi.jami.model.Checksum: Constant INCHI_KEY_MI="MI:0970"
INCHI_MI - Static variable in interface psidev.psi.mi.jami.model.Checksum: Constant INCHI_MI="MI:2010"
INCHI_SHORT - Static variable in interface psidev.psi.mi.jami.model.Checksum: Constant INCHI_SHORT="inchi id"
INCOMPLETE - psidev.psi.mi.jami.bridges.imex.PublicationStatus
INCREASING_PTM - Static variable in interface psidev.psi.mi.jami.model.Feature: Constant INCREASING_PTM="increasing-ptm"
INCREASING_PTM_MI - Static variable in interface psidev.psi.mi.jami.model.Feature: Constant INCREASING_PTM_MI="MI:1224"
incrementAdditionCount() - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.EnricherStatisticsWriter: incrementAdditionCount.
IncrementalIdGenerator - Class in psidev.psi.mi.jami.json: Id generator that will increment ids
IncrementalIdGenerator() - Constructor for class psidev.psi.mi.jami.json.IncrementalIdGenerator
incrementRemovedCount() - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.EnricherStatisticsWriter: incrementRemovedCount.
incrementUpdateCount() - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.EnricherStatisticsWriter: incrementUpdateCount.
INDENT - Static variable in class psidev.psi.mi.jami.json.MIJsonUtils: Constant INDENT="\t"
INFERRED_BY_CURATOR - Static variable in interface psidev.psi.mi.jami.model.Experiment: Constant INFERRED_BY_CURATOR="inferred by curator"
INFERRED_BY_CURATOR_MI - Static variable in interface psidev.psi.mi.jami.model.Experiment: Constant INFERRED_BY_CURATOR_MI="MI:0364"
InferredInteraction - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Java class for inferredInteraction complex type.
InferredInteraction - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Java class for inferredInteraction complex type.
InferredInteraction - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Java class for inferredInteraction complex type.
InferredInteraction() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.InferredInteraction: Constructor for InferredInteraction.
InferredInteraction() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.InferredInteraction: Constructor for InferredInteraction.
InferredInteraction() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.InferredInteraction: Constructor for InferredInteraction.
InferredInteraction.JAXBExperimentRefWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
InferredInteraction.JAXBExperimentRefWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
InferredInteraction.JAXBExperimentRefWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
InferredInteractionParticipant - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Participant of the inferred interaction.
InferredInteractionParticipant - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Participant of the inferred interaction.
InferredInteractionParticipant - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Participant of the inferred interaction.
InferredInteractionParticipant() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.InferredInteractionParticipant: Constructor for InferredInteractionParticipant.
InferredInteractionParticipant() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.InferredInteractionParticipant: Constructor for InferredInteractionParticipant.
InferredInteractionParticipant() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.InferredInteractionParticipant: Constructor for InferredInteractionParticipant.
INHIBITED - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant INHIBITED="inhibited"
INHIBITED_MI - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant INHIBITED_MI="MI:0587"
INHIBITOR - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant INHIBITOR="inhibitor"
INHIBITOR_MI - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant INHIBITOR_MI="MI:0586"
initExpansionMethodInteractionWriter(Integer) - Method in class psidev.psi.mi.jami.json.binary.AbstractMIJsonBinaryWriter: initExpansionMethodInteractionWriter.
initExpansionMethodInteractionWriter(Integer) - Method in class psidev.psi.mi.jami.json.binary.LightMIJsonBinaryWriter: initExpansionMethodInteractionWriter.
initExpansionMethodInteractionWriter(Integer) - Method in class psidev.psi.mi.jami.json.binary.MIJsonBinaryEvidenceWriter: initExpansionMethodInteractionWriter.
initExpansionMethodInteractionWriter(Integer) - Method in class psidev.psi.mi.jami.json.binary.MIJsonBinaryWriter: initExpansionMethodInteractionWriter.
initExpansionMethodInteractionWriter(Integer) - Method in class psidev.psi.mi.jami.json.binary.MIJsonModelledBinaryWriter: initExpansionMethodInteractionWriter.
initialiseAffectedInteractions() - Method in class psidev.psi.mi.jami.model.impl.DefaultCooperativeEffect: initialiseAffectedInteractions
initialiseAffectedInteractions() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect: initialiseAffectedInteractions.
initialiseAffectedInteractionsWith(Collection<ModelledInteraction>) - Method in class psidev.psi.mi.jami.model.impl.DefaultCooperativeEffect: initialiseAffectedInteractionsWith
initialiseAliases() - Method in class psidev.psi.mi.jami.binary.impl.DefaultNamedBinaryInteraction: initialiseAliases
initialiseAliases() - Method in class psidev.psi.mi.jami.binary.impl.DefaultNamedBinaryInteractionEvidence: initialiseAliases
initialiseAliases() - Method in class psidev.psi.mi.jami.binary.impl.DefaultNamedModelledBinaryInteraction: initialiseAliases
initialiseAliases() - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature: initialiseAliases
initialiseAliases() - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipant: initialiseAliases
initialiseAliases() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: initialiseAliases
initialiseAliases() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractor: initialiseAliases
initialiseAliases() - Method in class psidev.psi.mi.jami.model.impl.DefaultNamedExperiment: initialiseAliases
initialiseAliases() - Method in class psidev.psi.mi.jami.model.impl.DefaultNamedInteraction: initialiseAliases
initialiseAliases() - Method in class psidev.psi.mi.jami.model.impl.DefaultNamedInteractionEvidence: initialiseAliases
initialiseAliases() - Method in class psidev.psi.mi.jami.model.impl.DefaultNamedModelledInteraction: initialiseAliases
initialiseAliases() - Method in class psidev.psi.mi.jami.model.impl.DefaultOrganism: initialiseAliases
initialiseAliases() - Method in class psidev.psi.mi.jami.model.impl.DefaultProtein: initialiseAliases
initialiseAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractNamesContainer: initialiseAliases.
initialiseAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.ComplexNamesContainer: initialiseAliases.
initialiseAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.ComplexNamesContainer: initialiseAliases.
initialiseAliases() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.ComplexNamesContainer: initialiseAliases.
initialiseAliasesWith(Collection<Alias>) - Method in class psidev.psi.mi.jami.binary.impl.DefaultNamedBinaryInteraction: initialiseAliasesWith
initialiseAliasesWith(Collection<Alias>) - Method in class psidev.psi.mi.jami.binary.impl.DefaultNamedBinaryInteractionEvidence: initialiseAliasesWith
initialiseAliasesWith(Collection<Alias>) - Method in class psidev.psi.mi.jami.binary.impl.DefaultNamedModelledBinaryInteraction: initialiseAliasesWith
initialiseAliasesWith(Collection<Alias>) - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature: initialiseAliasesWith
initialiseAliasesWith(Collection<Alias>) - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipant: initialiseAliasesWith
initialiseAliasesWith(Collection<Alias>) - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractor: initialiseAliasesWith
initialiseAliasesWith(Collection<Alias>) - Method in class psidev.psi.mi.jami.model.impl.DefaultNamedExperiment: initialiseAliasesWith
initialiseAliasesWith(Collection<Alias>) - Method in class psidev.psi.mi.jami.model.impl.DefaultNamedInteraction: initialiseAliasesWith
initialiseAliasesWith(Collection<Alias>) - Method in class psidev.psi.mi.jami.model.impl.DefaultNamedInteractionEvidence: initialiseAliasesWith
initialiseAliasesWith(Collection<Alias>) - Method in class psidev.psi.mi.jami.model.impl.DefaultNamedModelledInteraction: initialiseAliasesWith
initialiseAliasesWith(Collection<Alias>) - Method in class psidev.psi.mi.jami.model.impl.DefaultOrganism: initialiseAliasesWith
initialiseAliasesWith(List<Alias>) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractNamesContainer: initialiseAliasesWith.
initialiseAllCrossLinkCsvSources() - Static method in class psidev.psi.mi.jami.crosslink.CrossLinkCsv: Register all existing Crosslink csv datasource in the MI datasource factory
initialiseAllFactories() - Static method in class psidev.psi.mi.jami.commons.PsiJami: initialiseAllFactories.
initialiseAllInteractionWriters() - Static method in class psidev.psi.mi.jami.commons.PsiJami: initialiseAllInteractionWriters.
initialiseAllMIDataSources() - Static method in class psidev.psi.mi.jami.commons.PsiJami: initialiseAllMIDataSources.
initialiseAllMIHtmlWriters() - Static method in class psidev.psi.mi.jami.html.MIHtml: Register all existing MI html writers in the MI interaction writer factory
initialiseAllMIJsonWriters() - Static method in class psidev.psi.mi.jami.json.InteractionViewerJson: Register all existing MI JSON writers in the MI interaction writer factory
initialiseAnnotations() - Method in class psidev.psi.mi.jami.bridges.ols.LazySource: initialiseAnnotations
initialiseAnnotations() - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature: initialiseAnnotations
initialiseAnnotations() - Method in class psidev.psi.mi.jami.model.impl.AbstractInteraction: initialiseAnnotations
initialiseAnnotations() - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipant: initialiseAnnotations
initialiseAnnotations() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: initialiseAnnotations
initialiseAnnotations() - Method in class psidev.psi.mi.jami.model.impl.DefaultCooperativeEffect: initialiseAnnotations
initialiseAnnotations() - Method in class psidev.psi.mi.jami.model.impl.DefaultCvTerm: initialiseAnnotations
initialiseAnnotations() - Method in class psidev.psi.mi.jami.model.impl.DefaultExperiment: initialiseAnnotations
initialiseAnnotations() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractor: initialiseAnnotations
initialiseAnnotations() - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: initialiseAnnotations
initialiseAnnotations() - Method in class psidev.psi.mi.jami.model.impl.DefaultSource: initialiseAnnotations
initialiseAnnotations() - Method in class psidev.psi.mi.jami.xml.model.AbstractBaseEntry.AbstractJAXBAnnotationsWrapper
initialiseAnnotations() - Method in class psidev.psi.mi.jami.xml.model.AbstractBaseEntry: initialiseAnnotations.
initialiseAnnotations() - Method in class psidev.psi.mi.jami.xml.model.Entry: initialiseAnnotations.
initialiseAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor.AbstractJAXBAttributeWrapper
initialiseAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm.JAXBAttributeWrapper
initialiseAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment.JAXBAttributeWrapper
initialiseAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature.JAXBAttributeWrapper
initialiseAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction.JAXBAttributeWrapper
initialiseAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant.JAXBAttributeWrapper
initialiseAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource.JAXBAttributeWrapper
initialiseAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef.JAXBAttributeWrapper
initialiseAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlXref.JAXBAttributeWrapper
initialiseAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm.JAXBAttributeWrapper
initialiseAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment.JAXBAttributeWrapper
initialiseAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature.JAXBAttributeWrapper
initialiseAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction.JAXBAttributeWrapper
initialiseAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant.JAXBAttributeWrapper
initialiseAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource.JAXBAttributeWrapper
initialiseAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef.JAXBAttributeWrapper
initialiseAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlXref.JAXBAttributeWrapper
initialiseAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect: initialiseAnnotations.
initialiseAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect.JAXBAttributeWrapper
initialiseAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm.JAXBAttributeWrapper
initialiseAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment.JAXBAttributeWrapper
initialiseAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature.JAXBAttributeWrapper
initialiseAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction.JAXBAttributeWrapper
initialiseAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant.JAXBAttributeWrapper
initialiseAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource.JAXBAttributeWrapper
initialiseAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef.JAXBAttributeWrapper
initialiseAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBAttributeWrapper
initialiseAnnotations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlXref.JAXBAttributeWrapper
initialiseAnnotationsWith(Collection<Annotation>) - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature: initialiseAnnotationsWith
initialiseAnnotationsWith(Collection<Annotation>) - Method in class psidev.psi.mi.jami.model.impl.AbstractInteraction: initialiseAnnotationsWith
initialiseAnnotationsWith(Collection<Annotation>) - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipant: initialiseAnnotationsWith
initialiseAnnotationsWith(Collection<Annotation>) - Method in class psidev.psi.mi.jami.model.impl.DefaultCooperativeEffect: initialiseAnnotationsWith
initialiseAnnotationsWith(Collection<Annotation>) - Method in class psidev.psi.mi.jami.model.impl.DefaultCvTerm: initialiseAnnotationsWith
initialiseAnnotationsWith(Collection<Annotation>) - Method in class psidev.psi.mi.jami.model.impl.DefaultExperiment: initialiseAnnotationsWith
initialiseAnnotationsWith(Collection<Annotation>) - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractor: initialiseAnnotationsWith
initialiseAnnotationsWith(Collection<Annotation>) - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: initialiseAnnotationsWith
initialiseAnnotationsWith(List<Annotation>) - Method in class psidev.psi.mi.jami.xml.model.Entry: initialiseAnnotationsWith.
initialiseAnnotationsWith(List<Annotation>) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor.AbstractJAXBAttributeWrapper
initialiseAnnotationsWith(List<Annotation>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm.JAXBAttributeWrapper
initialiseAnnotationsWith(List<Annotation>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction.JAXBAttributeWrapper
initialiseAnnotationsWith(List<Annotation>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm.JAXBAttributeWrapper
initialiseAnnotationsWith(List<Annotation>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction.JAXBAttributeWrapper
initialiseAnnotationsWith(List<Annotation>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm.JAXBAttributeWrapper
initialiseAnnotationsWith(List<Annotation>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction.JAXBAttributeWrapper
initialiseAnnotationWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: initialiseAnnotationWrapper.
initialiseAnnotationWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm: initialiseAnnotationWrapper.
initialiseAnnotationWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: initialiseAnnotationWrapper.
initialiseAnnotationWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: initialiseAnnotationWrapper.
initialiseAnnotationWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: initialiseAnnotationWrapper.
initialiseAnnotationWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractor: initialiseAnnotationWrapper.
initialiseAnnotationWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant: initialiseAnnotationWrapper.
initialiseAnnotationWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource: initialiseAnnotationWrapper.
initialiseAnnotationWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: initialiseAnnotationWrapper.
initialiseAnnotationWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm: initialiseAnnotationWrapper.
initialiseAnnotationWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: initialiseAnnotationWrapper.
initialiseAnnotationWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: initialiseAnnotationWrapper.
initialiseAnnotationWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: initialiseAnnotationWrapper.
initialiseAnnotationWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractor: initialiseAnnotationWrapper.
initialiseAnnotationWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant: initialiseAnnotationWrapper.
initialiseAnnotationWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource: initialiseAnnotationWrapper.
initialiseAnnotationWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: initialiseAnnotationWrapper.
initialiseAnnotationWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm: initialiseAnnotationWrapper.
initialiseAnnotationWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: initialiseAnnotationWrapper.
initialiseAnnotationWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: initialiseAnnotationWrapper.
initialiseAnnotationWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: initialiseAnnotationWrapper.
initialiseAnnotationWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractor: initialiseAnnotationWrapper.
initialiseAnnotationWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant: initialiseAnnotationWrapper.
initialiseAnnotationWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource: initialiseAnnotationWrapper.
initialiseAnnotationWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: initialiseAnnotationWrapper.
initialiseAnnotationWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: initialiseAnnotationWrapper.
initialiseAuthorAndPublicationDate(MitabPublication, MitabAuthor) - Method in class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionEvidenceLineParser: initialiseAuthorAndPublicationDate.
initialiseAuthors() - Method in class psidev.psi.mi.jami.bridges.imex.extension.ImexPublication: initialiseAuthors
initialiseAuthors() - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: initialiseAuthors
initialiseAuthors() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment.JAXBAttributeWrapper
initialiseAuthors() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef.JAXBAttributeWrapper
initialiseAuthors() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment.JAXBAttributeWrapper
initialiseAuthors() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef.JAXBAttributeWrapper
initialiseAuthors() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment.JAXBAttributeWrapper
initialiseAuthors() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef.JAXBAttributeWrapper
initialiseAuthorsWith(List<String>) - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: initialiseAuthorsWith
initialiseAvailabilities() - Method in class psidev.psi.mi.jami.xml.model.Entry: initialiseAvailabilities.
initialiseAvailabilities() - Method in class psidev.psi.mi.jami.xml.model.xml253.ExperimentalEntry: initialiseAvailabilities.
initialiseAvailabilities() - Method in class psidev.psi.mi.jami.xml.model.xml253.ExperimentalEntry.JAXBAvailabilitiesWrapper
initialiseAvailabilities() - Method in class psidev.psi.mi.jami.xml.model.xml254.ExperimentalEntry: initialiseAvailabilities.
initialiseAvailabilities() - Method in class psidev.psi.mi.jami.xml.model.xml254.ExperimentalEntry.JAXBAvailabilitiesWrapper
initialiseAvailabilities() - Method in class psidev.psi.mi.jami.xml.model.xml30.Entry: initialiseAvailabilities.
initialiseAvailabilities() - Method in class psidev.psi.mi.jami.xml.model.xml30.Entry.JAXBAvailabilitiesWrapper
initialiseAvailabilities() - Method in class psidev.psi.mi.jami.xml.model.xml30.ExperimentalEntry: initialiseAvailabilities.
initialiseAvailabilities() - Method in class psidev.psi.mi.jami.xml.model.xml30.ExperimentalEntry.JAXBAvailabilitiesWrapper
initialiseAvailabilitiesWith(List<AbstractAvailability>) - Method in class psidev.psi.mi.jami.xml.model.Entry: initialiseAvailabilitiesWith.
initialiseAvaliabilityWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionEvidenceWriter: initialiseAvaliabilityWriter.
initialiseBinaryWriter(File, OntologyTermFetcher) - Method in class psidev.psi.mi.jami.json.binary.AbstractMIJsonWriter: initialiseBinaryWriter.
initialiseBinaryWriter(File, OntologyTermFetcher) - Method in class psidev.psi.mi.jami.json.binary.LightMIJsonWriter: initialiseBinaryWriter.
initialiseBinaryWriter(File, OntologyTermFetcher) - Method in class psidev.psi.mi.jami.json.binary.MIJsonEvidenceWriter: initialiseBinaryWriter.
initialiseBinaryWriter(File, OntologyTermFetcher) - Method in class psidev.psi.mi.jami.json.binary.MIJsonModelledWriter: initialiseBinaryWriter.
initialiseBinaryWriter(File, OntologyTermFetcher) - Method in class psidev.psi.mi.jami.json.binary.MIJsonWriter: initialiseBinaryWriter.
initialiseBinaryWriter(OutputStream, OntologyTermFetcher) - Method in class psidev.psi.mi.jami.json.binary.AbstractMIJsonWriter: initialiseBinaryWriter.
initialiseBinaryWriter(OutputStream, OntologyTermFetcher) - Method in class psidev.psi.mi.jami.json.binary.LightMIJsonWriter: initialiseBinaryWriter.
initialiseBinaryWriter(OutputStream, OntologyTermFetcher) - Method in class psidev.psi.mi.jami.json.binary.MIJsonEvidenceWriter: initialiseBinaryWriter.
initialiseBinaryWriter(OutputStream, OntologyTermFetcher) - Method in class psidev.psi.mi.jami.json.binary.MIJsonModelledWriter: initialiseBinaryWriter.
initialiseBinaryWriter(OutputStream, OntologyTermFetcher) - Method in class psidev.psi.mi.jami.json.binary.MIJsonWriter: initialiseBinaryWriter.
initialiseBinaryWriter(Writer, OntologyTermFetcher) - Method in class psidev.psi.mi.jami.json.binary.AbstractMIJsonWriter: initialiseBinaryWriter.
initialiseBinaryWriter(Writer, OntologyTermFetcher) - Method in class psidev.psi.mi.jami.json.binary.LightMIJsonWriter: initialiseBinaryWriter.
initialiseBinaryWriter(Writer, OntologyTermFetcher) - Method in class psidev.psi.mi.jami.json.binary.MIJsonEvidenceWriter: initialiseBinaryWriter.
initialiseBinaryWriter(Writer, OntologyTermFetcher) - Method in class psidev.psi.mi.jami.json.binary.MIJsonModelledWriter: initialiseBinaryWriter.
initialiseBinaryWriter(Writer, OntologyTermFetcher) - Method in class psidev.psi.mi.jami.json.binary.MIJsonWriter: initialiseBinaryWriter.
initialiseBindingFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBBindingFeaturesWrapper
initialiseBiologicalRoleWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: initialiseBiologicalRoleWriter.
initialiseBiologicalRoleWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlModelledParticipantWriter: initialiseBiologicalRoleWriter.
initialiseBiologicalRoleWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlParticipantEvidenceWriter: initialiseBiologicalRoleWriter.
initialiseBiologicalRoleWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlParticipantWriter: initialiseBiologicalRoleWriter.
initialiseBiologicalRoleWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledParticipantWriter: initialiseBiologicalRoleWriter.
initialiseBiologicalRoleWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlParticipantEvidenceWriter: initialiseBiologicalRoleWriter.
initialiseBiologicalRoleWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlModelledParticipantWriter: initialiseBiologicalRoleWriter.
initialiseBiologicalRoleWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlParticipantEvidenceWriter: initialiseBiologicalRoleWriter.
initialiseBiologicalRoleWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlParticipantWriter: initialiseBiologicalRoleWriter.
initialiseBiologicalRoleWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlModelledParticipantWriter: initialiseBiologicalRoleWriter.
initialiseBiologicalRoleWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlModelledParticipantWriter: initialiseBiologicalRoleWriter.
initialiseBiologicalRoleWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlParticipantEvidenceWriter: initialiseBiologicalRoleWriter.
initialiseBiologicalRoleWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlParticipantWriter: initialiseBiologicalRoleWriter.
initialiseBiologicalRoleWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlModelledParticipantWriter: initialiseBiologicalRoleWriter.
initialiseCache() - Method in class psidev.psi.mi.jami.bridges.fetcher.AbstractCachedFetcher: initialiseCache.
initialiseCache() - Method in interface psidev.psi.mi.jami.bridges.fetcher.CachedFetcher: Initialises the cache with default settings.
initialiseCache() - Method in class psidev.psi.mi.jami.bridges.uniprot.CachedUniprotGeneFetcher: initialiseCache.
initialiseCache(String) - Method in class psidev.psi.mi.jami.bridges.fetcher.AbstractCachedFetcher: Initialises the cache with the settings in the file at the location.
initialiseCache(String) - Method in interface psidev.psi.mi.jami.bridges.fetcher.CachedFetcher: Initialises the cache with the settings in the file at the location.
initialiseCache(String) - Method in class psidev.psi.mi.jami.bridges.uniprot.CachedUniprotGeneFetcher: Initialises the cache with the settings in the file at the location.
initialiseCandidates() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantPoolWrapper: initialiseCandidates.
initialiseCandidates() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantPoolWrapper: initialiseCandidates.
initialiseCandidates() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantPoolWrapper: initialiseCandidates.
initialiseCandidates() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantPoolWrapper: initialiseCandidates.
initialiseCandidates() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantPoolWrapper: initialiseCandidates.
initialiseCandidates() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantPoolWrapper: initialiseCandidates.
initialiseCausalRelationships() - Method in class psidev.psi.mi.jami.model.impl.AbstractEntity: initialiseCausalRelationships
initialiseCausalRelationships() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidence.JAXBCausalRelationshipWrapper
initialiseCausalRelationships() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBCausalRelationshipWrapper
initialiseCausalRelationshipsWith(Collection<CausalRelationship>) - Method in class psidev.psi.mi.jami.model.impl.AbstractEntity: initialiseCausalRelationshipsWith
initialiseCausalRelationshipWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlInteractionEvidenceWriter: initialiseCausalRelationshipWriter.
initialiseCausalRelationshipWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledInteractionWriter: initialiseCausalRelationshipWriter.
initialiseCausalRelationshipWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlInteractionEvidenceWriter: initialiseCausalRelationshipWriter.
initialiseCausalRelationshipWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlModelledInteractionWriter: initialiseCausalRelationshipWriter.
initialiseCausalStatementWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlCausalRelationshipWriter: initialiseCausalStatementWriter.
initialiseCausalStatementWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlCausalRelationshipWriter: initialiseCausalStatementWriter.
initialiseChecksums() - Method in class psidev.psi.mi.jami.model.impl.AbstractInteraction: initialiseChecksums
initialiseChecksums() - Method in class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: initialiseChecksums
initialiseChecksums() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: initialiseChecksums
initialiseChecksums() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractor: initialiseChecksums
initialiseChecksums() - Method in class psidev.psi.mi.jami.model.impl.DefaultProtein: initialiseChecksums
initialiseChecksums() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor.AbstractJAXBAttributeWrapper
initialiseChecksumsWith(Collection<Checksum>) - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractor: initialiseChecksumsWith
initialiseChecksumsWith(List<Checksum>) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor.AbstractJAXBAttributeWrapper
initialiseChecksumWith(Collection<Checksum>) - Method in class psidev.psi.mi.jami.model.impl.AbstractInteraction: initialiseChecksumWith
initialiseChildren() - Method in class psidev.psi.mi.jami.model.impl.DefaultOntologyTerm: initialiseChildren
initialiseChildrenWith(Collection<OntologyTerm>) - Method in class psidev.psi.mi.jami.model.impl.DefaultOntologyTerm: initialiseChildrenWith
initialiseColumnFeeder() - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitab25BinaryWriter: initialiseColumnFeeder.
initialiseColumnFeeder() - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25BinaryEvidenceWriter: initialiseColumnFeeder.
initialiseColumnFeeder() - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25BinaryWriter: initialiseColumnFeeder.
initialiseColumnFeeder() - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25ModelledBinaryWriter: initialiseColumnFeeder.
initialiseColumnFeeder() - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26BinaryEvidenceWriter: initialiseColumnFeeder.
initialiseColumnFeeder() - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26BinaryWriter: initialiseColumnFeeder.
initialiseColumnFeeder() - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26ModelledBinaryWriter: initialiseColumnFeeder.
initialiseColumnFeeder() - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27BinaryEvidenceWriter: initialiseColumnFeeder.
initialiseColumnFeeder() - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27BinaryWriter: initialiseColumnFeeder.
initialiseColumnFeeder() - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27ModelledBinaryWriter: initialiseColumnFeeder.
initialiseColumnFeeder() - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28BinaryEvidenceWriter: initialiseColumnFeeder.
initialiseColumnFeeder() - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28BinaryWriter: initialiseColumnFeeder.
initialiseColumnFeeder() - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28ModelledBinaryWriter: initialiseColumnFeeder.
initialiseColumnFeeder() - Method in class psidev.psi.mi.jami.tab.io.writer.LightMitab25BinaryWriter: initialiseColumnFeeder.
initialiseColumnFeeder() - Method in class psidev.psi.mi.jami.tab.io.writer.LightMitab26BinaryWriter: initialiseColumnFeeder.
initialiseColumnFeeder() - Method in class psidev.psi.mi.jami.tab.io.writer.LightMitab27BinaryWriter: initialiseColumnFeeder.
initialiseColumnFeeder() - Method in class psidev.psi.mi.jami.tab.io.writer.LightMitab28BinaryWriter: initialiseColumnFeeder.
initialiseColumnFeeder() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25BinaryEvidenceWriter: initialiseColumnFeeder.
initialiseColumnFeeder() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25BinaryWriter: initialiseColumnFeeder.
initialiseColumnFeeder() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25ModelledBinaryWriter: initialiseColumnFeeder.
initialiseColumnFeeder() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab26BinaryEvidenceWriter: initialiseColumnFeeder.
initialiseColumnFeeder() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab26BinaryWriter: initialiseColumnFeeder.
initialiseColumnFeeder() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab26ModelledBinaryWriter: initialiseColumnFeeder.
initialiseColumnFeeder() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab27BinaryEvidenceWriter: initialiseColumnFeeder.
initialiseColumnFeeder() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab27BinaryWriter: initialiseColumnFeeder.
initialiseColumnFeeder() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab27ModelledBinaryWriter: initialiseColumnFeeder.
initialiseColumnFeeder() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab28BinaryEvidenceWriter: initialiseColumnFeeder.
initialiseColumnFeeder() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab28BinaryWriter: initialiseColumnFeeder.
initialiseColumnFeeder() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab28ModelledBinaryWriter: initialiseColumnFeeder.
initialiseColumnNames(List<String>) - Method in class psidev.psi.mi.jami.crosslink.io.parser.AbstractCsvInteractionEvidenceParser: initialiseColumnNames.
initialiseComponentCandidatesSet() - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipantPool: initialiseComponentCandidatesSet
initialiseComponentCandidatesSet() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: initialiseComponentCandidatesSet.
initialiseComponentCandidatesSet() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: initialiseComponentCandidatesSet.
initialiseComponentCandidatesSet() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: initialiseComponentCandidatesSet.
initialiseComponentCandidatesSetWith(Collection) - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipantPool: initialiseComponentCandidatesSetWith
initialiseComponentCandidatesSetWith(Collection) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: initialiseComponentCandidatesSetWith.
initialiseComponentCandidatesSetWith(Collection) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: initialiseComponentCandidatesSetWith.
initialiseComponentCandidatesSetWith(Collection) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: initialiseComponentCandidatesSetWith.
initialiseComponents() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: initialiseComponents
initialiseComponentsWith(Collection<ModelledParticipant>) - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: initialiseComponentsWith
initialiseConfidences() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: initialiseConfidences
initialiseConfidences() - Method in class psidev.psi.mi.jami.model.impl.DefaultExperiment: initialiseConfidences
initialiseConfidences() - Method in class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantPool: initialiseConfidences
initialiseConfidences() - Method in class psidev.psi.mi.jami.model.impl.DefaultParticipantEvidence: initialiseConfidences
initialiseConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment.JAXBConfidenceWrapper
initialiseConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence.JAXBConfidenceWrapper
initialiseConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction.JAXBConfidenceWrapper
initialiseConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBConfidenceWrapper
initialiseConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment.JAXBConfidenceWrapper
initialiseConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence.JAXBConfidenceWrapper
initialiseConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction.JAXBConfidenceWrapper
initialiseConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBConfidenceWrapper
initialiseConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment.JAXBConfidenceWrapper
initialiseConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence.JAXBConfidenceWrapper
initialiseConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction.JAXBConfidenceWrapper
initialiseConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBConfidenceWrapper
initialiseConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBConfidenceWrapper
initialiseConfidencesWith(Collection<Confidence>) - Method in class psidev.psi.mi.jami.model.impl.DefaultExperiment: initialiseConfidencesWith
initialiseConfidencesWith(Collection<Confidence>) - Method in class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantPool: initialiseConfidencesWith
initialiseConfidencesWith(Collection<Confidence>) - Method in class psidev.psi.mi.jami.model.impl.DefaultParticipantEvidence: initialiseConfidencesWith
initialiseConfidencesWith(Collection<ModelledConfidence>) - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: initialiseConfidencesWith
initialiseConfidenceWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: initialiseConfidenceWrapper.
initialiseConfidenceWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: initialiseConfidenceWrapper.
initialiseConfidenceWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: initialiseConfidenceWrapper.
initialiseConfidenceWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: initialiseConfidenceWrapper.
initialiseConfidenceWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: initialiseConfidenceWrapper.
initialiseConfidenceWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: initialiseConfidenceWrapper.
initialiseConfidenceWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: initialiseConfidenceWrapper.
initialiseConfidenceWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: initialiseConfidenceWrapper.
initialiseConfidenceWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: initialiseConfidenceWrapper.
initialiseConfidenceWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: initialiseConfidenceWriter.
initialiseConfidenceWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionEvidenceWriter: initialiseConfidenceWriter.
initialiseConfidenceWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlModelledInteractionWriter: initialiseConfidenceWriter.
initialiseConfidenceWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantEvidenceWriter: initialiseConfidenceWriter.
initialiseConfidenceWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlInteractionEvidenceWriter: initialiseConfidenceWriter.
initialiseConfidenceWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlModelledInteractionWriter: initialiseConfidenceWriter.
initialiseConfidenceWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlParticipantEvidenceWriter: initialiseConfidenceWriter.
initialiseConfidenceWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlInteractionEvidenceWriter: initialiseConfidenceWriter.
initialiseConfidenceWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledInteractionWriter: initialiseConfidenceWriter.
initialiseConfidenceWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlParticipantEvidenceWriter: initialiseConfidenceWriter.
initialiseConfidenceWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.AbstractXmlInteractionEvidenceWriter: initialiseConfidenceWriter.
initialiseConfidenceWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlParticipantEvidenceWriter: initialiseConfidenceWriter.
initialiseConfidenceWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlParticipantEvidenceWriter: initialiseConfidenceWriter.
initialiseConfidenceWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlModelledInteractionWriter: initialiseConfidenceWriter.
initialiseConfidenceWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.XmlExperimentWriter: initialiseConfidenceWriter.
initialiseConfidenceWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlModelledInteractionWriter: initialiseConfidenceWriter.
initialiseConfidenceWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlExperimentWriter: initialiseConfidenceWriter.
initialiseConfidenceWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25.XmlExperimentWriter: initialiseConfidenceWriter.
initialiseConfidenceWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlExperimentWriter: initialiseConfidenceWriter.
initialiseContext(Map) - Method in class psidev.psi.mi.jami.tab.io.writer.DefaultMitabWriter: Initialise the context of the InteractionWriter given a map of options
initialiseContext(Map) - Method in class psidev.psi.mi.jami.xml.io.writer.DefaultXmlWriter: Initialise the context of the InteractionWriter given a map of options
initialiseContext(Map<String, Object>) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Initialise the context of the MIDataSource given a map of options
initialiseContext(Map<String, Object>) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Initialise the context of the MIDataSource given a map of options
initialiseContext(Map<String, Object>) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: Initialise the context of the MIDataSource given a map of options
initialiseContext(Map<String, Object>) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: Initialise the context of the MIDataSource given a map of options
initialiseContext(Map<String, Object>) - Method in interface psidev.psi.mi.jami.datasource.InteractionWriter: Initialise the context of the InteractionWriter given a map of options
initialiseContext(Map<String, Object>) - Method in interface psidev.psi.mi.jami.datasource.MIDataSource: Initialise the context of the MIDataSource given a map of options
initialiseContext(Map<String, Object>) - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: Initialise the context of the InteractionWriter given a map of options
initialiseContext(Map<String, Object>) - Method in class psidev.psi.mi.jami.html.MIHtmlWriter: Initialise the context of the InteractionWriter given a map of options
initialiseContext(Map<String, Object>) - Method in class psidev.psi.mi.jami.json.binary.AbstractMIJsonBinaryWriter: Initialise the context of the InteractionWriter given a map of options
initialiseContext(Map<String, Object>) - Method in class psidev.psi.mi.jami.json.binary.AbstractMIJsonWriter: Initialise the context of the InteractionWriter given a map of options
initialiseContext(Map<String, Object>) - Method in class psidev.psi.mi.jami.json.binary.MIJsonBinaryWriter: Initialise the context of the InteractionWriter given a map of options
initialiseContext(Map<String, Object>) - Method in class psidev.psi.mi.jami.json.nary.AbstractMIJsonWriter: Initialise the context of the InteractionWriter given a map of options
initialiseContext(Map<String, Object>) - Method in class psidev.psi.mi.jami.json.nary.MIJsonEvidenceWriter: Initialise the context of the InteractionWriter given a map of options
initialiseContext(Map<String, Object>) - Method in class psidev.psi.mi.jami.json.nary.MIJsonWriter: Initialise the context of the InteractionWriter given a map of options
initialiseContext(Map<String, Object>) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: Initialise the context of the MIDataSource given a map of options
initialiseContext(Map<String, Object>) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Initialise the context of the MIDataSource given a map of options
initialiseContext(Map<String, Object>) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: Initialise the context of the MIDataSource given a map of options
initialiseContext(Map<String, Object>) - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitab25BinaryWriter: Initialise the context of the InteractionWriter given a map of options
initialiseContext(Map<String, Object>) - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitabWriter: Initialise the context of the InteractionWriter given a map of options
initialiseContext(Map<String, Object>) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27BinaryWriter: Initialise the context of the InteractionWriter given a map of options
initialiseContext(Map<String, Object>) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28BinaryWriter: Initialise the context of the InteractionWriter given a map of options
initialiseContext(Map<String, Object>) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25BinaryWriter: Initialise the context of the InteractionWriter given a map of options
initialiseContext(Map<String, Object>) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab26BinaryWriter: Initialise the context of the InteractionWriter given a map of options
initialiseContext(Map<String, Object>) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab27BinaryWriter: Initialise the context of the InteractionWriter given a map of options
initialiseContext(Map<String, Object>) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab28BinaryWriter: Initialise the context of the InteractionWriter given a map of options
initialiseContext(Map<String, Object>) - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Initialise the context of the InteractionWriter given a map of options
initialiseContext(Map<String, Object>) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: Initialise the context of the InteractionWriter given a map of options
initialiseContext(Map<String, Object>) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Initialise the context of the MIDataSource given a map of options
initialiseContext(Map<String, Object>) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: Initialise the context of the MIDataSource given a map of options
initialiseCooperativeEffects() - Method in class psidev.psi.mi.jami.binary.impl.DefaultModelledBinaryInteraction: initialiseCooperativeEffects
initialiseCooperativeEffects() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: initialiseCooperativeEffects
initialiseCooperativeEffects() - Method in class psidev.psi.mi.jami.model.impl.DefaultModelledInteraction: initialiseCooperativeEffects
initialiseCooperativeEffects() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: initialiseCooperativeEffects.
initialiseCooperativeEffects() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteraction: initialiseCooperativeEffects.
initialiseCooperativeEffects() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction: initialiseCooperativeEffects.
initialiseCooperativeEffects() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction: initialiseCooperativeEffects.
initialiseCooperativeEffects() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction: initialiseCooperativeEffects.
initialiseCooperativeEffects() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: initialiseCooperativeEffects.
initialiseCooperativeEffects() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBCooperativeEffectWrapper
initialiseCooperativeEffectsWith(Collection<CooperativeEffect>) - Method in class psidev.psi.mi.jami.binary.impl.DefaultModelledBinaryInteraction: initialiseCooperativeEffectsWith
initialiseCooperativeEffectsWith(Collection<CooperativeEffect>) - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: initialiseCooperativeEffectsWith
initialiseCooperativeEffectsWith(Collection<CooperativeEffect>) - Method in class psidev.psi.mi.jami.model.impl.DefaultModelledInteraction: initialiseCooperativeEffectsWith
initialiseCooperativityEvidences() - Method in class psidev.psi.mi.jami.model.impl.DefaultCooperativeEffect: initialiseCooperativityEvidences
initialiseCooperativityEvidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect: initialiseCooperativityEvidences.
initialiseCooperativityEvidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect.JAXBCooperativityEvidenceWrapper
initialiseCooperativityEvidencesWith(Collection<CooperativityEvidence>) - Method in class psidev.psi.mi.jami.model.impl.DefaultCooperativeEffect: initialiseCooperativityEvidencesWith
initialiseCooperativityEvidenceWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlCooperativeEffectWriter: initialiseCooperativityEvidenceWriter.
initialiseCooperativityEvidenceWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlAllosteryWriter: initialiseCooperativityEvidenceWriter.
initialiseCooperativityEvidenceWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlPreAssemblyWriter: initialiseCooperativityEvidenceWriter.
initialiseCvWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlOrganismWriter: initialiseCvWriter.
initialiseCvWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantEvidenceWriter: initialiseCvWriter.
initialiseCvWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlParticipantEvidenceWriter: initialiseCvWriter.
initialiseCvWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlCooperativeEffectWriter: initialiseCvWriter.
initialiseCvWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlParticipantEvidenceWriter: initialiseCvWriter.
initialiseCvWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlParticipantEvidenceWriter: initialiseCvWriter.
initialiseCvWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlParticipantEvidenceWriter: initialiseCvWriter.
initialiseCvWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml253.XmlHostOrganismWriter: initialiseCvWriter.
initialiseCvWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml254.XmlHostOrganismWriter: initialiseCvWriter.
initialiseCvWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlAllosteryWriter: initialiseCvWriter.
initialiseCvWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlCooperativityEvidenceWriter: initialiseCvWriter.
initialiseCvWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlHostOrganismWriter: initialiseCvWriter.
initialiseCvWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlPreAssemblyWriter: initialiseCvWriter.
initialiseCvWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.XmlOrganismWriter: initialiseCvWriter.
initialiseCvWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlCooperativityEvidenceWriter: initialiseCvWriter.
initialiseCvWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlHostOrganismWriter: initialiseCvWriter.
initialiseCvWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlOrganismWriter: initialiseCvWriter.
initialiseDbMap() - Method in class psidev.psi.mi.jami.bridges.ols.AbstractOlsFetcher: initialiseDbMap.
initialiseDefaultAllostericEffector() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAllostery: initialiseDefaultAllostericEffector.
initialiseDefaultAvailabilitySet() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: initialiseDefaultAvailabilitySet.
initialiseDefaultBinaryWriter() - Method in class psidev.psi.mi.jami.json.binary.AbstractMIJsonWriter: initialiseDefaultBinaryWriter.
initialiseDefaultBinaryWriter() - Method in class psidev.psi.mi.jami.json.binary.LightMIJsonWriter: initialiseDefaultBinaryWriter.
initialiseDefaultBinaryWriter() - Method in class psidev.psi.mi.jami.json.binary.MIJsonEvidenceWriter: initialiseDefaultBinaryWriter.
initialiseDefaultBinaryWriter() - Method in class psidev.psi.mi.jami.json.binary.MIJsonModelledWriter: initialiseDefaultBinaryWriter.
initialiseDefaultBinaryWriter() - Method in class psidev.psi.mi.jami.json.binary.MIJsonWriter: initialiseDefaultBinaryWriter.
initialiseDefaultDelegate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: initialiseDefaultDelegate.
initialiseDefaultDelegate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantPool: initialiseDefaultDelegate.
initialiseDefaultDelegate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipantPool: initialiseDefaultDelegate.
initialiseDefaultDelegate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: initialiseDefaultDelegate.
initialiseDefaultDelegate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantPool: initialiseDefaultDelegate.
initialiseDefaultDelegate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipantPool: initialiseDefaultDelegate.
initialiseDefaultDelegate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: initialiseDefaultDelegate.
initialiseDefaultDelegate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantPool: initialiseDefaultDelegate.
initialiseDefaultDelegate() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipantPool: initialiseDefaultDelegate.
initialiseDefaultElementCache() - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: initialiseDefaultElementCache.
initialiseDefaultElementCache() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: initialiseDefaultElementCache.
initialiseDefaultElementCache() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlWriter: initialiseDefaultElementCache.
initialiseDefaultExpansionMethod() - Method in class psidev.psi.mi.jami.json.binary.AbstractMIJsonWriter: initialiseDefaultExpansionMethod.
initialiseDefaultExpansionMethod() - Method in class psidev.psi.mi.jami.json.binary.LightMIJsonWriter: initialiseDefaultExpansionMethod.
initialiseDefaultExpansionMethod() - Method in class psidev.psi.mi.jami.json.binary.MIJsonEvidenceWriter: initialiseDefaultExpansionMethod.
initialiseDefaultExpansionMethod() - Method in class psidev.psi.mi.jami.json.binary.MIJsonModelledWriter: initialiseDefaultExpansionMethod.
initialiseDefaultExpansionMethod() - Method in class psidev.psi.mi.jami.json.binary.MIJsonWriter: initialiseDefaultExpansionMethod.
initialiseDefaultExpansionMethod() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsixmlBinaryParser: initialiseDefaultExpansionMethod.
initialiseDefaultExpansionMethod() - Method in class psidev.psi.mi.jami.xml.io.parser.FullXmlBinaryEvidenceParser: initialiseDefaultExpansionMethod.
initialiseDefaultExpansionMethod() - Method in class psidev.psi.mi.jami.xml.io.parser.FullXmlBinaryParser: initialiseDefaultExpansionMethod.
initialiseDefaultExpansionMethod() - Method in class psidev.psi.mi.jami.xml.io.parser.FullXmlModelledBinaryParser: initialiseDefaultExpansionMethod.
initialiseDefaultExpansionMethod() - Method in class psidev.psi.mi.jami.xml.io.parser.LightFullXmlBinaryParser: initialiseDefaultExpansionMethod.
initialiseDefaultExpansionMethod() - Method in class psidev.psi.mi.jami.xml.io.parser.LightXmlBinaryParser: initialiseDefaultExpansionMethod.
initialiseDefaultExpansionMethod() - Method in class psidev.psi.mi.jami.xml.io.parser.XmlBinaryEvidenceParser: initialiseDefaultExpansionMethod.
initialiseDefaultExpansionMethod() - Method in class psidev.psi.mi.jami.xml.io.parser.XmlBinaryParser: initialiseDefaultExpansionMethod.
initialiseDefaultExpansionMethod() - Method in class psidev.psi.mi.jami.xml.io.parser.XmlModelledBinaryParser: initialiseDefaultExpansionMethod.
initialiseDefaultExperiment() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionEvidenceWriter: initialiseDefaultExperiment.
initialiseDefaultExperiment() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: initialiseDefaultExperiment.
initialiseDefaultExperiment() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlModelledInteractionWriter: initialiseDefaultExperiment.
initialiseDefaultExperiment() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlModelledInteractionWriter: initialiseDefaultExperiment.
initialiseDefaultExperiment() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlModelledInteractionWriter: initialiseDefaultExperiment.
initialiseDefaultExperiment() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25.XmlParameterWriter: initialiseDefaultExperiment.
initialiseDefaultExperimentSet() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: initialiseDefaultExperimentSet.
initialiseDefaultFeatureWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonModelledParticipantWriter: initialiseDefaultFeatureWriter.
initialiseDefaultFeatureWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonParticipantEvidenceWriter: initialiseDefaultFeatureWriter.
initialiseDefaultFeatureWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonParticipantWriter: initialiseDefaultFeatureWriter.
initialiseDefaultInteractionSet() - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: initialiseDefaultInteractionSet.
initialiseDefaultInteractorSet() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: initialiseDefaultInteractorSet.
initialiseDefaultParticipantWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionEvidenceWriter: initialiseDefaultParticipantWriter.
initialiseDefaultParticipantWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionWriter: initialiseDefaultParticipantWriter.
initialiseDefaultParticipantWriter() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonModelledInteractionWriter: initialiseDefaultParticipantWriter.
initialiseDefaultPublication() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: initialiseDefaultPublication.
initialiseDefaultSource() - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: initialiseDefaultSource.
initialiseDefaultSource() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlBinaryEvidenceWriter: initialiseDefaultSource.
initialiseDefaultSource() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlBinaryWriter: initialiseDefaultSource.
initialiseDefaultSource() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlComplexWriter: initialiseDefaultSource.
initialiseDefaultSource() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlEvidenceWriter: initialiseDefaultSource.
initialiseDefaultSource() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlModelledBinaryWriter: initialiseDefaultSource.
initialiseDefaultSource() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlModelledWriter: initialiseDefaultSource.
initialiseDefaultSource() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlWriter: initialiseDefaultSource.
initialiseDefaultSource() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.LightCompactXmlBinaryWriter: initialiseDefaultSource.
initialiseDefaultSource() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.LightCompactXmlWriter: initialiseDefaultSource.
initialiseDefaultSource() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlBinaryEvidenceWriter: initialiseDefaultSource.
initialiseDefaultSource() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlBinaryWriter: initialiseDefaultSource.
initialiseDefaultSource() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlComplexWriter: initialiseDefaultSource.
initialiseDefaultSource() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlEvidenceWriter: initialiseDefaultSource.
initialiseDefaultSource() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlModelledBinaryWriter: initialiseDefaultSource.
initialiseDefaultSource() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlModelledWriter: initialiseDefaultSource.
initialiseDefaultSource() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlWriter: initialiseDefaultSource.
initialiseDefaultSource() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.LightExpandedXmlBinaryWriter: initialiseDefaultSource.
initialiseDefaultSource() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.LightExpandedXmlWriter: initialiseDefaultSource.
initialiseDefinition(String) - Method in class psidev.psi.mi.jami.bridges.ols.LazyCvTerm: initialiseDefinition.
initialiseDefinition(String) - Method in class psidev.psi.mi.jami.bridges.ols.LazyOntologyTerm: initialiseDefinition.
initialiseDelegate(Map<String, Object>, MitabDataSourceFactory, InteractionCategory, ComplexType) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabSource: initialiseDelegate.
initialiseDelegate(Map<String, Object>, MitabDataSourceFactory, InteractionCategory, ComplexType) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: initialiseDelegate.
initialiseDelegate(Map<String, Object>, PsiXmlDataSourceFactory, InteractionCategory, ComplexType) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlSource: initialiseDelegate.
initialiseDelegate(Map<String, Object>, PsiXmlDataSourceFactory, InteractionCategory, ComplexType) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: initialiseDelegate.
initialiseDelegateWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlMixWriter: initialiseDelegateWriters.
initialiseDelegateWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlBinaryWriter: initialiseDelegateWriters.
initialiseDelegateWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedBinaryWriter: initialiseDelegateWriters.
initialiseDelegateWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedWriter: initialiseDelegateWriters.
initialiseDelegateWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlWriter: initialiseDelegateWriters.
initialiseDelegateWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlBinaryWriter: initialiseDelegateWriters.
initialiseDelegateWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlWriter: initialiseDelegateWriters.
initialiseDelegateWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlMixWriter: initialiseDelegateWriters.
initialiseDelegateWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlBinaryWriter: initialiseDelegateWriters.
initialiseDelegateWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedBinaryWriter: initialiseDelegateWriters.
initialiseDelegateWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedWriter: initialiseDelegateWriters.
initialiseDelegateWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlWriter: initialiseDelegateWriters.
initialiseDelegateWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlBinaryWriter: initialiseDelegateWriters.
initialiseDelegateWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlWriter: initialiseDelegateWriters.
initialiseDetectionMethods() - Method in class psidev.psi.mi.jami.model.impl.DefaultFeatureEvidence: initialiseDetectionMethods
initialiseDetectionMethods() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence: initialiseDetectionMethods.
initialiseDetectionMethods() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence: initialiseDetectionMethods.
initialiseDetectionMethods() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence: initialiseDetectionMethods.
initialiseDetectionMethodsWith(Collection<CvTerm>) - Method in class psidev.psi.mi.jami.model.impl.DefaultFeatureEvidence: initialiseDetectionMethodsWith
initialiseDetectionMethodWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: initialiseDetectionMethodWriter.
initialiseDetectionMethodWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.XmlExperimentWriter: initialiseDetectionMethodWriter.
initialiseDetectionMethodWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlExperimentWriter: initialiseDetectionMethodWriter.
initialiseDetectionMethodWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25.XmlExperimentWriter: initialiseDetectionMethodWriter.
initialiseDetectionMethodWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlExperimentWriter: initialiseDetectionMethodWriter.
initialiseDeterministicInteractorMaps() - Method in class psidev.psi.mi.jami.factory.DefaultInteractorFactory: Loads some properties to recognize interactor type from different MI terms
initialiseEndPositionWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlRangeWriter: initialiseEndPositionWriter.
initialiseEndPositionWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.XmlRangeWriter: initialiseEndPositionWriter.
initialiseEndPositionWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlRangeWriter: initialiseEndPositionWriter.
initialiseEndPositionWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25.XmlRangeWriter: initialiseEndPositionWriter.
initialiseEndPositionWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlRangeWriter: initialiseEndPositionWriter.
initialiseEndPositionWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlRangeWriter: initialiseEndPositionWriter.
initialiseEvidenceMethods() - Method in class psidev.psi.mi.jami.model.impl.DefaultCooperativityEvidence: initialiseEvidenceMethods
initialiseEvidenceMethods() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlCooperativityEvidence: initialiseEvidenceMethods.
initialiseEvidenceMethods() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlCooperativityEvidence: initialiseEvidenceMethods.
initialiseEvidenceMethods() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCooperativityEvidence: initialiseEvidenceMethods.
initialiseEvidenceMethodsWith(Collection<CvTerm>) - Method in class psidev.psi.mi.jami.model.impl.DefaultCooperativityEvidence: initialiseEvidenceMethodsWith
initialiseEvidenceMethodsWith(Collection<CvTerm>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlCooperativityEvidence: initialiseEvidenceMethodsWith.
initialiseEvidenceMethodsWith(Collection<CvTerm>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlCooperativityEvidence: initialiseEvidenceMethodsWith.
initialiseExpansionMethod(Collection<MitabCvTerm>, BinaryInteraction) - Method in class psidev.psi.mi.jami.tab.io.parser.BinaryLineParser: initialiseExpansionMethod.
initialiseExpansionMethod(Collection<MitabCvTerm>, BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.tab.io.parser.BinaryEvidenceLineParser: initialiseExpansionMethod.
initialiseExpansionMethod(Collection<MitabCvTerm>, ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.tab.io.parser.ModelledBinaryLineParser: initialiseExpansionMethod.
initialiseExpansionMethod(Collection<MitabCvTerm>, T) - Method in class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionLineParser: initialiseExpansionMethod.
initialiseExpansionMethod(ComplexExpansionMethod<? extends Interaction, ? extends BinaryInteraction>) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlBinarySource: initialiseExpansionMethod.
initialiseExpansionMethod(ComplexExpansionMethod<? extends Interaction, ? extends BinaryInteraction>) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlBinaryStream: initialiseExpansionMethod.
initialiseExpansionMethod(ComplexExpansionMethod<? extends Interaction, ? extends BinaryInteraction>) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: initialiseExpansionMethod.
initialiseExpansionMethod(ComplexExpansionMethod<? extends Interaction, ? extends BinaryInteraction>) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlSource: initialiseExpansionMethod.
initialiseExpansionMethod(ComplexExpansionMethod<? extends Interaction, ? extends BinaryInteraction>) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlStreamSource: initialiseExpansionMethod.
initialiseExpansionMethod(ComplexExpansionMethod<? extends Interaction, ? extends BinaryInteraction>) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlComplexSource: initialiseExpansionMethod.
initialiseExpansionMethod(ComplexExpansionMethod<? extends Interaction, ? extends BinaryInteraction>) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlComplexStreamSource: initialiseExpansionMethod.
initialiseExpansionMethod(ComplexExpansionMethod<? extends Interaction, ? extends BinaryInteraction>) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlEvidenceSource: initialiseExpansionMethod.
initialiseExpansionMethod(ComplexExpansionMethod<? extends Interaction, ? extends BinaryInteraction>) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlEvidenceStreamSource: initialiseExpansionMethod.
initialiseExpansionMethod(ComplexExpansionMethod<? extends Interaction, ? extends BinaryInteraction>) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledSource: initialiseExpansionMethod.
initialiseExpansionMethod(ComplexExpansionMethod<? extends Interaction, ? extends BinaryInteraction>) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledStreamSource: initialiseExpansionMethod.
initialiseExpansionMethod(ComplexExpansionMethod<? extends Interaction, ? extends BinaryInteraction>) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlSource: initialiseExpansionMethod.
initialiseExpansionMethod(ComplexExpansionMethod<? extends Interaction, ? extends BinaryInteraction>) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlStreamSource: initialiseExpansionMethod.
initialiseExpansionMethod(ComplexExpansionMethod<Interaction, BinaryInteraction>) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25Writer: initialiseExpansionMethod.
initialiseExpansionMethod(ComplexExpansionMethod<Interaction, BinaryInteraction>) - Method in class psidev.psi.mi.jami.tab.io.writer.LightMitab25Writer: initialiseExpansionMethod.
initialiseExpansionMethod(ComplexExpansionMethod<Interaction, BinaryInteraction>) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25Writer: initialiseExpansionMethod.
initialiseExpansionMethod(ComplexExpansionMethod<InteractionEvidence, BinaryInteractionEvidence>) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25EvidenceWriter: initialiseExpansionMethod.
initialiseExpansionMethod(ComplexExpansionMethod<InteractionEvidence, BinaryInteractionEvidence>) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25EvidenceWriter: initialiseExpansionMethod.
initialiseExpansionMethod(ComplexExpansionMethod<ModelledInteraction, ModelledBinaryInteraction>) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25ModelledWriter: initialiseExpansionMethod.
initialiseExpansionMethod(ComplexExpansionMethod<ModelledInteraction, ModelledBinaryInteraction>) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25ModelledWriter: initialiseExpansionMethod.
initialiseExpansionMethod(ComplexExpansionMethod<T, B>) - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitabWriter: initialiseExpansionMethod.
initialiseExperimentalConfidences() - Method in class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: initialiseExperimentalConfidences
initialiseExperimentalConfidences() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: initialiseExperimentalConfidences
initialiseExperimentalConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: initialiseExperimentalConfidences.
initialiseExperimentalConfidencesWith(Collection<Confidence>) - Method in class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: initialiseExperimentalConfidencesWith
initialiseExperimentalConfidencesWith(Collection<Confidence>) - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: initialiseExperimentalConfidencesWith
initialiseExperimentalIneteractors() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBExperimentalInteractorWrapper
initialiseExperimentalIneteractors() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBExperimentalInteractorWrapper
initialiseExperimentalIneteractors() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBExperimentalInteractorWrapper
initialiseExperimentalInteractorWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: initialiseExperimentalInteractorWrapper.
initialiseExperimentalInteractorWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: initialiseExperimentalInteractorWrapper.
initialiseExperimentalInteractorWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: initialiseExperimentalInteractorWrapper.
initialiseExperimentalParameters() - Method in class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: initialiseExperimentalParameters
initialiseExperimentalParameters() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: initialiseExperimentalParameters
initialiseExperimentalParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: initialiseExperimentalParameters.
initialiseExperimentalParametersWith(Collection<Parameter>) - Method in class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: initialiseExperimentalParametersWith
initialiseExperimentalParametersWith(Collection<Parameter>) - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: initialiseExperimentalParametersWith
initialiseExperimentalPreparations() - Method in class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantPool: initialiseExperimentalPreparations
initialiseExperimentalPreparations() - Method in class psidev.psi.mi.jami.model.impl.DefaultParticipantEvidence: initialiseExperimentalPreparations
initialiseExperimentalPreparations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBExperimentalPreparationWrapper
initialiseExperimentalPreparations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBExperimentalPreparationWrapper
initialiseExperimentalPreparations() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBExperimentalPreparationWrapper
initialiseExperimentalPreparationsWith(Collection<CvTerm>) - Method in class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantPool: initialiseExperimentalPreparationsWith
initialiseExperimentalPreparationsWith(Collection<CvTerm>) - Method in class psidev.psi.mi.jami.model.impl.DefaultParticipantEvidence: initialiseExperimentalPreparationsWith
initialiseExperimentalPreparationWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: initialiseExperimentalPreparationWrapper.
initialiseExperimentalPreparationWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: initialiseExperimentalPreparationWrapper.
initialiseExperimentalPreparationWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: initialiseExperimentalPreparationWrapper.
initialiseExperimentalRoles() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBExperimentalRoleWrapper
initialiseExperimentalRoles() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBExperimentalRoleWrapper
initialiseExperimentalRoles() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBExperimentalRoleWrapper
initialiseExperimentalRoleWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: initialiseExperimentalRoleWrapper.
initialiseExperimentalRoleWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: initialiseExperimentalRoleWrapper.
initialiseExperimentalRoleWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: initialiseExperimentalRoleWrapper.
initialiseExperimentDelegate() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: initialiseExperimentDelegate.
initialiseExperimentDelegate() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: initialiseExperimentDelegate.
initialiseExperimentDelegate() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: initialiseExperimentDelegate.
initialiseExperiments() - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: initialiseExperiments
initialiseExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: initialiseExperiments.
initialiseExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: initialiseExperiments.
initialiseExperiments() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: initialiseExperiments.
initialiseExperiments() - Method in class psidev.psi.mi.jami.xml.model.xml253.ComplexEntry.JAXBExperimentsWrapper
initialiseExperiments() - Method in class psidev.psi.mi.jami.xml.model.xml253.ExperimentalEntry.JAXBExperimentsWrapper
initialiseExperiments() - Method in class psidev.psi.mi.jami.xml.model.xml253.ModelledEntry.JAXBExperimentsWrapper
initialiseExperiments() - Method in class psidev.psi.mi.jami.xml.model.xml254.ComplexEntry.JAXBExperimentsWrapper
initialiseExperiments() - Method in class psidev.psi.mi.jami.xml.model.xml254.ExperimentalEntry.JAXBExperimentsWrapper
initialiseExperiments() - Method in class psidev.psi.mi.jami.xml.model.xml254.ModelledEntry.JAXBExperimentsWrapper
initialiseExperiments() - Method in class psidev.psi.mi.jami.xml.model.xml30.ComplexEntry.JAXBExperimentsWrapper
initialiseExperiments() - Method in class psidev.psi.mi.jami.xml.model.xml30.Entry.JAXBExperimentsWrapper
initialiseExperiments() - Method in class psidev.psi.mi.jami.xml.model.xml30.ExperimentalEntry.JAXBExperimentsWrapper
initialiseExperiments() - Method in class psidev.psi.mi.jami.xml.model.xml30.ModelledEntry.JAXBExperimentsWrapper
initialiseExperimentsWith(Collection<Experiment>) - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: initialiseExperimentsWith
initialiseExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: initialiseExperimentWriter.
initialiseExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlInteractionEvidenceWriter: initialiseExperimentWriter.
initialiseExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlInteractionWriter: initialiseExperimentWriter.
initialiseExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlModelledInteractionWriter: initialiseExperimentWriter.
initialiseExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlInteractionEvidenceWriter: initialiseExperimentWriter.
initialiseExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledInteractionWriter: initialiseExperimentWriter.
initialiseExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedBinaryInteractionEvidenceWriter: initialiseExperimentWriter.
initialiseExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedBinaryInteractionWriter: initialiseExperimentWriter.
initialiseExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedInteractionEvidenceWriter: initialiseExperimentWriter.
initialiseExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedInteractionWriter: initialiseExperimentWriter.
initialiseExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedModelledBinaryInteractionWriter: initialiseExperimentWriter.
initialiseExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedModelledInteractionWriter: initialiseExperimentWriter.
initialiseExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlNamedBinaryInteractionEvidenceWriter: initialiseExperimentWriter.
initialiseExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlNamedInteractionEvidenceWriter: initialiseExperimentWriter.
initialiseExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlNamedModelledBinaryInteractionWriter: initialiseExperimentWriter.
initialiseExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlNamedModelledInteractionWriter: initialiseExperimentWriter.
initialiseExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedBinaryInteractionEvidenceWriter: initialiseExperimentWriter.
initialiseExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedBinaryInteractionWriter: initialiseExperimentWriter.
initialiseExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedInteractionEvidenceWriter: initialiseExperimentWriter.
initialiseExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedInteractionWriter: initialiseExperimentWriter.
initialiseExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedModelledBinaryInteractionWriter: initialiseExperimentWriter.
initialiseExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedModelledInteractionWriter: initialiseExperimentWriter.
initialiseExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlNamedBinaryInteractionEvidenceWriter: initialiseExperimentWriter.
initialiseExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlNamedInteractionEvidenceWriter: initialiseExperimentWriter.
initialiseExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlNamedModelledBinaryInteractionWriter: initialiseExperimentWriter.
initialiseExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlNamedModelledInteractionWriter: initialiseExperimentWriter.
initialiseExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.AbstractXmlInteractionEvidenceWriter: initialiseExperimentWriter.
initialiseExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.AbstractXmlModelledInteractionWriter: initialiseExperimentWriter.
initialiseExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlInteractionEvidenceWriter: initialiseExperimentWriter.
initialiseExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlInteractionWriter: initialiseExperimentWriter.
initialiseExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlModelledInteractionWriter: initialiseExperimentWriter.
initialiseExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlInteractionEvidenceWriter: initialiseExperimentWriter.
initialiseExperimentWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlModelledInteractionWriter: initialiseExperimentWriter.
initialiseFeatureDelegate() - Method in class psidev.psi.mi.jami.xml.model.reference.AbstractFeatureRef: initialiseFeatureDelegate.
initialiseFeatures() - Method in class psidev.psi.mi.jami.model.impl.AbstractEntity: initialiseFeatures
initialiseFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity.JAXBFeatureWrapper
initialiseFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidateWrapper: initialiseFeatures.
initialiseFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantCandidateWrapper: initialiseFeatures.
initialiseFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: initialiseFeatures.
initialiseFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: initialiseFeatures.
initialiseFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity.JAXBFeatureWrapper
initialiseFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidateWrapper: initialiseFeatures.
initialiseFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantCandidateWrapper: initialiseFeatures.
initialiseFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: initialiseFeatures.
initialiseFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: initialiseFeatures.
initialiseFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity.JAXBFeatureWrapper
initialiseFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidateWrapper: initialiseFeatures.
initialiseFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantCandidateWrapper: initialiseFeatures.
initialiseFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: initialiseFeatures.
initialiseFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: initialiseFeatures.
initialiseFeaturesWith(Collection<F>) - Method in class psidev.psi.mi.jami.model.impl.AbstractEntity: initialiseFeaturesWith
initialiseFeatureTypeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlFeatureWriter: initialiseFeatureTypeWriter.
initialiseFeatureTypeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlFeatureWriter: initialiseFeatureTypeWriter.
initialiseFeatureTypeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlFeatureWriter: initialiseFeatureTypeWriter.
initialiseFeatureTypeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.XmlFeatureEvidenceWriter: initialiseFeatureTypeWriter.
initialiseFeatureTypeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.XmlFeatureWriter: initialiseFeatureTypeWriter.
initialiseFeatureTypeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.XmlModelledFeatureWriter: initialiseFeatureTypeWriter.
initialiseFeatureTypeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlFeatureEvidenceWriter: initialiseFeatureTypeWriter.
initialiseFeatureTypeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlModelledFeatureWriter: initialiseFeatureTypeWriter.
initialiseFeatureWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity: initialiseFeatureWrapper.
initialiseFeatureWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidate: initialiseFeatureWrapper.
initialiseFeatureWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipant: initialiseFeatureWrapper.
initialiseFeatureWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipantCandidate: initialiseFeatureWrapper.
initialiseFeatureWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipant: initialiseFeatureWrapper.
initialiseFeatureWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: initialiseFeatureWrapper.
initialiseFeatureWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity: initialiseFeatureWrapper.
initialiseFeatureWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidate: initialiseFeatureWrapper.
initialiseFeatureWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipant: initialiseFeatureWrapper.
initialiseFeatureWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipantCandidate: initialiseFeatureWrapper.
initialiseFeatureWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipant: initialiseFeatureWrapper.
initialiseFeatureWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: initialiseFeatureWrapper.
initialiseFeatureWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity: initialiseFeatureWrapper.
initialiseFeatureWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidate: initialiseFeatureWrapper.
initialiseFeatureWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipant: initialiseFeatureWrapper.
initialiseFeatureWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipantCandidate: initialiseFeatureWrapper.
initialiseFeatureWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipant: initialiseFeatureWrapper.
initialiseFeatureWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: initialiseFeatureWrapper.
initialiseFeatureWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: initialiseFeatureWriter.
initialiseFeatureWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlModelledParticipantWriter: initialiseFeatureWriter.
initialiseFeatureWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlParticipantEvidenceWriter: initialiseFeatureWriter.
initialiseFeatureWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlParticipantWriter: initialiseFeatureWriter.
initialiseFeatureWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledParticipantWriter: initialiseFeatureWriter.
initialiseFeatureWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlParticipantCandidateWriter: initialiseFeatureWriter.
initialiseFeatureWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlParticipantEvidenceWriter: initialiseFeatureWriter.
initialiseFeatureWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlExperimentalParticipantCandidateWriter: initialiseFeatureWriter.
initialiseFeatureWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlModelledParticipantCandidateWriter: initialiseFeatureWriter.
initialiseFeatureWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlExperimentalParticipantCandidateWriter: initialiseFeatureWriter.
initialiseFeatureWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlModelledParticipantCandidateWriter: initialiseFeatureWriter.
initialiseFeatureWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlModelledParticipantWriter: initialiseFeatureWriter.
initialiseFeatureWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlModelledParticipantWriter: initialiseFeatureWriter.
initialiseFeatureWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlParticipantEvidenceWriter: initialiseFeatureWriter.
initialiseFeatureWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlParticipantWriter: initialiseFeatureWriter.
initialiseFeatureWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlExperimentalParticipantCandidateWriter: initialiseFeatureWriter.
initialiseFeatureWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlModelledParticipantCandidateWriter: initialiseFeatureWriter.
initialiseFeatureWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlModelledParticipantWriter: initialiseFeatureWriter.
initialiseFeatureWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlParticipantEvidenceWriter: initialiseFeatureWriter.
initialiseFeatureWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlModelledParticipantWriter: initialiseFeatureWriter.
initialiseFeatureWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlParticipantEvidenceWriter: initialiseFeatureWriter.
initialiseFeatureWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlParticipantWriter: initialiseFeatureWriter.
initialiseFeatureWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlExperimentalParticipantCandidateWriter: initialiseFeatureWriter.
initialiseFeatureWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlModelledParticipantCandidateWriter: initialiseFeatureWriter.
initialiseFeatureWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlModelledParticipantWriter: initialiseFeatureWriter.
initialiseFeatureWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlParticipantEvidenceWriter: initialiseFeatureWriter.
initialiseFile(File) - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitabWriter: initialiseFile.
initialiseFile(File) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25EvidenceWriter: initialiseFile.
initialiseFile(File) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25ModelledWriter: initialiseFile.
initialiseFile(File) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25Writer: initialiseFile.
initialiseFile(File) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26EvidenceWriter: initialiseFile.
initialiseFile(File) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26ModelledWriter: initialiseFile.
initialiseFile(File) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27EvidenceWriter: initialiseFile.
initialiseFile(File) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27ModelledWriter: initialiseFile.
initialiseFile(File) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28EvidenceWriter: initialiseFile.
initialiseFile(File) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28ModelledWriter: initialiseFile.
initialiseFile(File) - Method in class psidev.psi.mi.jami.tab.io.writer.LightMitab25Writer: initialiseFile.
initialiseFile(File) - Method in class psidev.psi.mi.jami.tab.io.writer.LightMitab26Writer: initialiseFile.
initialiseFile(File) - Method in class psidev.psi.mi.jami.tab.io.writer.LightMitab27Writer: initialiseFile.
initialiseFile(File) - Method in class psidev.psi.mi.jami.tab.io.writer.LightMitab28Writer: initialiseFile.
initialiseFile(File) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25EvidenceWriter: initialiseFile.
initialiseFile(File) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25ModelledWriter: initialiseFile.
initialiseFile(File) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25Writer: initialiseFile.
initialiseFile(File) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab26EvidenceWriter: initialiseFile.
initialiseFile(File) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab26ModelledWriter: initialiseFile.
initialiseFile(File) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab27EvidenceWriter: initialiseFile.
initialiseFile(File) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab27ModelledWriter: initialiseFile.
initialiseFile(File) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab28EvidenceWriter: initialiseFile.
initialiseFile(File) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab28ModelledWriter: initialiseFile.
initialiseFullNameFromPublication(BibRef) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: initialiseFullNameFromPublication.
initialiseFullNameFromPublication(BibRef) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultXmlExperiment: initialiseFullNameFromPublication.
initialiseFullNameFromPublication(BibRef) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperiment: initialiseFullNameFromPublication.
initialiseFullNameFromPublication(BibRef) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: initialiseFullNameFromPublication.
initialiseFullNameFromPublication(BibRef) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultXmlExperiment: initialiseFullNameFromPublication.
initialiseFullNameFromPublication(BibRef) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperiment: initialiseFullNameFromPublication.
initialiseFullNameFromPublication(BibRef) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: initialiseFullNameFromPublication.
initialiseFullNameFromPublication(BibRef) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultXmlExperiment: initialiseFullNameFromPublication.
initialiseFullNameFromPublication(BibRef) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperiment: initialiseFullNameFromPublication.
initialiseHostOrganism(Collection<MitabOrganism>, MitabExperiment) - Method in class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionEvidenceLineParser: initialiseHostOrganism.
initialiseHostOrganisms() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment.JAXBHostOrganismWrapper
initialiseHostOrganisms() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBHostOrganismWrapper
initialiseHostOrganisms() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment.JAXBHostOrganismWrapper
initialiseHostOrganisms() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBHostOrganismWrapper
initialiseHostOrganisms() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment.JAXBHostOrganismWrapper
initialiseHostOrganisms() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBHostOrganismWrapper
initialiseHostOrganismWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: initialiseHostOrganismWrapper.
initialiseHostOrganismWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: initialiseHostOrganismWrapper.
initialiseHostOrganismWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: initialiseHostOrganismWrapper.
initialiseHostOrganismWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: initialiseHostOrganismWriter.
initialiseHostOrganismWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantEvidenceWriter: initialiseHostOrganismWriter.
initialiseHostOrganismWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlParticipantEvidenceWriter: initialiseHostOrganismWriter.
initialiseHostOrganismWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlParticipantEvidenceWriter: initialiseHostOrganismWriter.
initialiseHostOrganismWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlParticipantEvidenceWriter: initialiseHostOrganismWriter.
initialiseHostOrganismWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlParticipantEvidenceWriter: initialiseHostOrganismWriter.
initialiseHostOrganismWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.XmlExperimentWriter: initialiseHostOrganismWriter.
initialiseHostOrganismWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlExperimentWriter: initialiseHostOrganismWriter.
initialiseHostOrganismWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25.XmlExperimentWriter: initialiseHostOrganismWriter.
initialiseHostOrganismWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlExperimentWriter: initialiseHostOrganismWriter.
initialiseIdentificationMethods() - Method in class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantPool: initialiseIdentificationMethods
initialiseIdentificationMethods() - Method in class psidev.psi.mi.jami.model.impl.DefaultParticipantEvidence: initialiseIdentificationMethods
initialiseIdentificationMethods() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBParticipantIdentificationWrapper
initialiseIdentificationMethods() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBParticipantIdentificationWrapper
initialiseIdentificationMethods() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBParticipantIdentificationWrapper
initialiseIdentificationMethodsWith(Collection<CvTerm>) - Method in class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantPool: initialiseIdentificationMethodsWith
initialiseIdentificationMethodsWith(Collection<CvTerm>) - Method in class psidev.psi.mi.jami.model.impl.DefaultParticipantEvidence: initialiseIdentificationMethodsWith
initialiseIdentificationMethodWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: initialiseIdentificationMethodWrapper.
initialiseIdentificationMethodWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: initialiseIdentificationMethodWrapper.
initialiseIdentificationMethodWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: initialiseIdentificationMethodWrapper.
initialiseIdentifiers() - Method in class psidev.psi.mi.jami.bridges.imex.extension.ImexPublication: initialiseIdentifiers
initialiseIdentifiers() - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature: initialiseIdentifiers
initialiseIdentifiers() - Method in class psidev.psi.mi.jami.model.impl.AbstractInteraction: initialiseIdentifiers
initialiseIdentifiers() - Method in class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: initialiseIdentifiers
initialiseIdentifiers() - Method in class psidev.psi.mi.jami.model.impl.DefaultCvTerm: initialiseIdentifiers
initialiseIdentifiers() - Method in class psidev.psi.mi.jami.model.impl.DefaultGene: initialiseIdentifiers
initialiseIdentifiers() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractor: initialiseIdentifiers
initialiseIdentifiers() - Method in class psidev.psi.mi.jami.model.impl.DefaultNucleicAcid: initialiseIdentifiers
initialiseIdentifiers() - Method in class psidev.psi.mi.jami.model.impl.DefaultProtein: initialiseIdentifiers
initialiseIdentifiers() - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: initialiseIdentifiers
initialiseIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.CvTermXrefContainer: initialiseIdentifiers.
initialiseIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.FeatureXrefContainer: initialiseIdentifiers.
initialiseIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.InteractionXrefContainer: initialiseIdentifiers.
initialiseIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.InteractorXrefContainer: initialiseIdentifiers.
initialiseIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.PublicationXrefContainer: initialiseIdentifiers.
initialiseIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.CvTermXrefContainer: initialiseIdentifiers.
initialiseIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.FeatureXrefContainer: initialiseIdentifiers.
initialiseIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.InteractionXrefContainer: initialiseIdentifiers.
initialiseIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.InteractorXrefContainer: initialiseIdentifiers.
initialiseIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.PublicationXrefContainer: initialiseIdentifiers.
initialiseIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.CvTermXrefContainer: initialiseIdentifiers.
initialiseIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.FeatureXrefContainer: initialiseIdentifiers.
initialiseIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.InteractionXrefContainer: initialiseIdentifiers.
initialiseIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.InteractorXrefContainer: initialiseIdentifiers.
initialiseIdentifiers() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.PublicationXrefContainer: initialiseIdentifiers.
initialiseIdentifiersWith(Collection<Xref>) - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature: initialiseIdentifiersWith
initialiseIdentifiersWith(Collection<Xref>) - Method in class psidev.psi.mi.jami.model.impl.AbstractInteraction: initialiseIdentifiersWith
initialiseIdentifiersWith(Collection<Xref>) - Method in class psidev.psi.mi.jami.model.impl.DefaultCvTerm: initialiseIdentifiersWith
initialiseIdentifiersWith(Collection<Xref>) - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractor: initialiseIdentifiersWith
initialiseIdentifiersWith(Collection<Xref>) - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: initialiseIdentifiersWith
initialiseInferredInteractionList() - Method in class psidev.psi.mi.jami.xml.XmlEntryContext: initialiseInferredInteractionList.
initialiseInferredInteractions() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper
initialiseInferredInteractions() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper
initialiseInferredInteractions() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper
initialiseInferredInteractionWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: initialiseInferredInteractionWriter.
initialiseInferredInteractionWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlInteractionEvidenceWriter: initialiseInferredInteractionWriter.
initialiseInferredInteractionWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlInteractionWriter: initialiseInferredInteractionWriter.
initialiseInferredInteractionWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlModelledInteractionWriter: initialiseInferredInteractionWriter.
initialiseInferredInteractionWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlInteractionEvidenceWriter: initialiseInferredInteractionWriter.
initialiseInferredInteractionWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledInteractionWriter: initialiseInferredInteractionWriter.
initialiseInferredInteractionWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.AbstractXmlInteractionEvidenceWriter: initialiseInferredInteractionWriter.
initialiseInferredInteractionWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.AbstractXmlModelledInteractionWriter: initialiseInferredInteractionWriter.
initialiseInteractionAnnotations(Collection<MitabAnnotation>, T) - Method in class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionEvidenceLineParser: initialiseInteractionAnnotations.
initialiseInteractionEvidences() - Method in class psidev.psi.mi.jami.binary.impl.DefaultModelledBinaryInteraction: initialiseInteractionEvidences
initialiseInteractionEvidences() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: initialiseInteractionEvidences
initialiseInteractionEvidences() - Method in class psidev.psi.mi.jami.model.impl.DefaultModelledInteraction: initialiseInteractionEvidences
initialiseInteractionEvidences() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: initialiseInteractionEvidences.
initialiseInteractionEvidences() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteraction: initialiseInteractionEvidences.
initialiseInteractionEvidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction: initialiseInteractionEvidences.
initialiseInteractionEvidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction: initialiseInteractionEvidences.
initialiseInteractionEvidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction: initialiseInteractionEvidences.
initialiseInteractionEvidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: initialiseInteractionEvidences.
initialiseInteractionEvidencesWith(Collection<InteractionEvidence>) - Method in class psidev.psi.mi.jami.binary.impl.DefaultModelledBinaryInteraction: initialiseInteractionEvidencesWith
initialiseInteractionEvidencesWith(Collection<InteractionEvidence>) - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: initialiseInteractionEvidencesWith
initialiseInteractionEvidencesWith(Collection<InteractionEvidence>) - Method in class psidev.psi.mi.jami.model.impl.DefaultModelledInteraction: initialiseInteractionEvidencesWith
initialiseInteractionIdentifiers(Collection<MitabXref>, T) - Method in class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionLineParser: initialiseInteractionIdentifiers.
initialiseInteractions() - Method in class psidev.psi.mi.jami.model.impl.DefaultExperiment: initialiseInteractions
initialiseInteractions() - Method in class psidev.psi.mi.jami.xml.model.AbstractBaseEntry.AbstractJAXBInteractionsWrapper
initialiseInteractions() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: initialiseInteractions.
initialiseInteractions() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: initialiseInteractions.
initialiseInteractions() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: initialiseInteractions.
initialiseInteractionsWith(Collection<InteractionEvidence>) - Method in class psidev.psi.mi.jami.model.impl.DefaultExperiment: initialiseInteractionsWith
initialiseInteractionTypeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: initialiseInteractionTypeWriter.
initialiseInteractionTypeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlInteractionEvidenceWriter: initialiseInteractionTypeWriter.
initialiseInteractionTypeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlInteractionWriter: initialiseInteractionTypeWriter.
initialiseInteractionTypeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlModelledInteractionWriter: initialiseInteractionTypeWriter.
initialiseInteractionTypeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlInteractionEvidenceWriter: initialiseInteractionTypeWriter.
initialiseInteractionTypeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledInteractionWriter: initialiseInteractionTypeWriter.
initialiseInteractionTypeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.AbstractXmlInteractionEvidenceWriter: initialiseInteractionTypeWriter.
initialiseInteractionTypeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.AbstractXmlModelledInteractionWriter: initialiseInteractionTypeWriter.
initialiseInteractionTypeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlInteractionWriter: initialiseInteractionTypeWriter.
initialiseInteractionWriter() - Method in class psidev.psi.mi.jami.json.binary.LightMIJsonBinaryWriter: initialiseInteractionWriter.
initialiseInteractionWriter() - Method in class psidev.psi.mi.jami.json.binary.MIJsonBinaryEvidenceWriter: initialiseInteractionWriter.
initialiseInteractionWriter() - Method in class psidev.psi.mi.jami.json.binary.MIJsonBinaryWriter: initialiseInteractionWriter.
initialiseInteractionWriter() - Method in class psidev.psi.mi.jami.json.binary.MIJsonModelledBinaryWriter: initialiseInteractionWriter.
initialiseInteractionWriter() - Method in class psidev.psi.mi.jami.json.nary.AbstractMIJsonWriter: initialiseInteractionWriter.
initialiseInteractionWriter() - Method in class psidev.psi.mi.jami.json.nary.LightMIJsonWriter: initialiseInteractionWriter.
initialiseInteractionWriter() - Method in class psidev.psi.mi.jami.json.nary.MIJsonEvidenceWriter: initialiseInteractionWriter.
initialiseInteractionWriter() - Method in class psidev.psi.mi.jami.json.nary.MIJsonModelledWriter: initialiseInteractionWriter.
initialiseInteractionWriter() - Method in class psidev.psi.mi.jami.json.nary.MIJsonWriter: initialiseInteractionWriter.
initialiseInteractorCandidatesSet() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractorPool: initialiseInteractorCandidatesSet
initialiseInteractorCandidatesSet() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractorPool: initialiseInteractorCandidatesSet.
initialiseInteractorCandidatesSet() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractorPool: initialiseInteractorCandidatesSet.
initialiseInteractorCandidatesSet() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractorPool: initialiseInteractorCandidatesSet.
initialiseInteractorCandidatesSetWith(Set<Interactor>) - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractorPool
initialiseInteractorCandidatesSetWith(Set<Interactor>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractorPool: initialiseInteractorCandidatesSetWith.
initialiseInteractorCandidatesSetWith(Set<Interactor>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractorPool: initialiseInteractorCandidatesSetWith.
initialiseInteractorCandidatesSetWith(Set<Interactor>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractorPool: initialiseInteractorCandidatesSetWith.
initialiseInteractorDelegate() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: initialiseInteractorDelegate.
initialiseInteractorDelegate() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractInteractorRef: initialiseInteractorDelegate.
initialiseInteractorDelegate() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: initialiseInteractorDelegate.
initialiseInteractorDelegate() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractInteractorRef: initialiseInteractorDelegate.
initialiseInteractorDelegate() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: initialiseInteractorDelegate.
initialiseInteractorDelegate() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractInteractorRef: initialiseInteractorDelegate.
initialiseInteractors() - Method in class psidev.psi.mi.jami.xml.model.AbstractBaseEntry.AbstractJAXBInteractorsWrapper
initialiseInteractorTypeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.XmlInteractorWriter: initialiseInteractorTypeWriter.
initialiseInteractorTypeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlInteractorWriter: initialiseInteractorTypeWriter.
initialiseInteractorWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: initialiseInteractorWriter.
initialiseInteractorWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlModelledParticipantWriter: initialiseInteractorWriter.
initialiseInteractorWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlParticipantEvidenceWriter: initialiseInteractorWriter.
initialiseInteractorWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlParticipantWriter: initialiseInteractorWriter.
initialiseInteractorWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledParticipantWriter: initialiseInteractorWriter.
initialiseInteractorWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlParticipantCandidateWriter: initialiseInteractorWriter.
initialiseInteractorWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlParticipantEvidenceWriter: initialiseInteractorWriter.
initialiseInteractorWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlExperimentalParticipantCandidateWriter: initialiseInteractorWriter.
initialiseInteractorWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlModelledParticipantCandidateWriter: initialiseInteractorWriter.
initialiseInteractorWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlExperimentalParticipantCandidateWriter: initialiseInteractorWriter.
initialiseInteractorWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlModelledParticipantCandidateWriter: initialiseInteractorWriter.
initialiseInteractorWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlModelledParticipantWriter: initialiseInteractorWriter.
initialiseInteractorWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlParticipantEvidenceWriter: initialiseInteractorWriter.
initialiseInteractorWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlParticipantWriter: initialiseInteractorWriter.
initialiseInteractorWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlExperimentalParticipantCandidateWriter: initialiseInteractorWriter.
initialiseInteractorWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlModelledParticipantCandidateWriter: initialiseInteractorWriter.
initialiseInteractorWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlModelledParticipantWriter: initialiseInteractorWriter.
initialiseInteractorWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlModelledParticipantWriter: initialiseInteractorWriter.
initialiseInteractorWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlParticipantEvidenceWriter: initialiseInteractorWriter.
initialiseInteractorWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlParticipantWriter: initialiseInteractorWriter.
initialiseInteractorWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlExperimentalParticipantCandidateWriter: initialiseInteractorWriter.
initialiseInteractorWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlModelledParticipantCandidateWriter: initialiseInteractorWriter.
initialiseInteractorWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlModelledParticipantWriter: initialiseInteractorWriter.
initialiseLinkedFeatures() - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature: initialiseLinkedFeatures
initialiseLinkedFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: initialiseLinkedFeatures.
initialiseLinkedFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidenceWrapper: initialiseLinkedFeatures.
initialiseLinkedFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureWrapper: initialiseLinkedFeatures.
initialiseLinkedFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: initialiseLinkedFeatures.
initialiseLinkedFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidenceWrapper: initialiseLinkedFeatures.
initialiseLinkedFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureWrapper: initialiseLinkedFeatures.
initialiseLinkedFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: initialiseLinkedFeatures.
initialiseLinkedFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidenceWrapper: initialiseLinkedFeatures.
initialiseLinkedFeatures() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureWrapper: initialiseLinkedFeatures.
initialiseLinkedFeaturesWith(Collection<F>) - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature: initialiseLinkedFeaturesWith
initialiseLocalMaps() - Method in class psidev.psi.mi.jami.bridges.obo.OboFetcherTemplate: initialiseLocalMaps.
initialiseMetaData(Xref) - Method in class psidev.psi.mi.jami.bridges.ols.LazyCvTerm: Retrieve the metadata for an entry.
initialiseMitabLineParser(File) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: initialiseMitabLineParser.
initialiseMitabLineParser(File) - Method in class psidev.psi.mi.jami.tab.extension.datasource.LightMitabBinaryStreamSource: initialiseMitabLineParser.
initialiseMitabLineParser(File) - Method in class psidev.psi.mi.jami.tab.extension.datasource.LightMitabStreamSource: initialiseMitabLineParser.
initialiseMitabLineParser(File) - Method in class psidev.psi.mi.jami.tab.extension.datasource.MitabBinaryEvidenceStreamSource: initialiseMitabLineParser.
initialiseMitabLineParser(File) - Method in class psidev.psi.mi.jami.tab.extension.datasource.MitabEvidenceStreamSource: initialiseMitabLineParser.
initialiseMitabLineParser(File) - Method in class psidev.psi.mi.jami.tab.extension.datasource.MitabModelledBinaryStreamSource: initialiseMitabLineParser.
initialiseMitabLineParser(File) - Method in class psidev.psi.mi.jami.tab.extension.datasource.MitabModelledStreamSource: initialiseMitabLineParser.
initialiseMitabLineParser(InputStream) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: initialiseMitabLineParser.
initialiseMitabLineParser(InputStream) - Method in class psidev.psi.mi.jami.tab.extension.datasource.LightMitabBinaryStreamSource: initialiseMitabLineParser.
initialiseMitabLineParser(InputStream) - Method in class psidev.psi.mi.jami.tab.extension.datasource.LightMitabStreamSource: initialiseMitabLineParser.
initialiseMitabLineParser(InputStream) - Method in class psidev.psi.mi.jami.tab.extension.datasource.MitabBinaryEvidenceStreamSource: initialiseMitabLineParser.
initialiseMitabLineParser(InputStream) - Method in class psidev.psi.mi.jami.tab.extension.datasource.MitabEvidenceStreamSource: initialiseMitabLineParser.
initialiseMitabLineParser(InputStream) - Method in class psidev.psi.mi.jami.tab.extension.datasource.MitabModelledBinaryStreamSource: initialiseMitabLineParser.
initialiseMitabLineParser(InputStream) - Method in class psidev.psi.mi.jami.tab.extension.datasource.MitabModelledStreamSource: initialiseMitabLineParser.
initialiseMitabLineParser(Reader) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: initialiseMitabLineParser.
initialiseMitabLineParser(Reader) - Method in class psidev.psi.mi.jami.tab.extension.datasource.LightMitabBinaryStreamSource: initialiseMitabLineParser.
initialiseMitabLineParser(Reader) - Method in class psidev.psi.mi.jami.tab.extension.datasource.LightMitabStreamSource: initialiseMitabLineParser.
initialiseMitabLineParser(Reader) - Method in class psidev.psi.mi.jami.tab.extension.datasource.MitabBinaryEvidenceStreamSource: initialiseMitabLineParser.
initialiseMitabLineParser(Reader) - Method in class psidev.psi.mi.jami.tab.extension.datasource.MitabEvidenceStreamSource: initialiseMitabLineParser.
initialiseMitabLineParser(Reader) - Method in class psidev.psi.mi.jami.tab.extension.datasource.MitabModelledBinaryStreamSource: initialiseMitabLineParser.
initialiseMitabLineParser(Reader) - Method in class psidev.psi.mi.jami.tab.extension.datasource.MitabModelledStreamSource: initialiseMitabLineParser.
initialiseMitabLineParser(URL) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: initialiseMitabLineParser.
initialiseMitabLineParser(URL) - Method in class psidev.psi.mi.jami.tab.extension.datasource.LightMitabBinaryStreamSource: initialiseMitabLineParser.
initialiseMitabLineParser(URL) - Method in class psidev.psi.mi.jami.tab.extension.datasource.LightMitabStreamSource: initialiseMitabLineParser.
initialiseMitabLineParser(URL) - Method in class psidev.psi.mi.jami.tab.extension.datasource.MitabBinaryEvidenceStreamSource: initialiseMitabLineParser.
initialiseMitabLineParser(URL) - Method in class psidev.psi.mi.jami.tab.extension.datasource.MitabEvidenceStreamSource: initialiseMitabLineParser.
initialiseMitabLineParser(URL) - Method in class psidev.psi.mi.jami.tab.extension.datasource.MitabModelledBinaryStreamSource: initialiseMitabLineParser.
initialiseMitabLineParser(URL) - Method in class psidev.psi.mi.jami.tab.extension.datasource.MitabModelledStreamSource: initialiseMitabLineParser.
initialiseModelledConfidences() - Method in class psidev.psi.mi.jami.binary.impl.DefaultModelledBinaryInteraction: initialiseModelledConfidences
initialiseModelledConfidences() - Method in class psidev.psi.mi.jami.model.impl.DefaultModelledInteraction: initialiseModelledConfidences
initialiseModelledConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: initialiseModelledConfidences.
initialiseModelledConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteraction: initialiseModelledConfidences.
initialiseModelledConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: initialiseModelledConfidences.
initialiseModelledConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: initialiseModelledConfidences.
initialiseModelledConfidences() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: initialiseModelledConfidences.
initialiseModelledConfidencesWith(Collection<ModelledConfidence>) - Method in class psidev.psi.mi.jami.binary.impl.DefaultModelledBinaryInteraction: initialiseModelledConfidencesWith
initialiseModelledConfidencesWith(Collection<ModelledConfidence>) - Method in class psidev.psi.mi.jami.model.impl.DefaultModelledInteraction: initialiseModelledConfidencesWith
initialiseModelledConfidenceWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction: initialiseModelledConfidenceWrapper.
initialiseModelledConfidenceWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction: initialiseModelledConfidenceWrapper.
initialiseModelledConfidenceWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction: initialiseModelledConfidenceWrapper.
initialiseModelledConfidenceWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: initialiseModelledConfidenceWrapper.
initialiseModelledParameters() - Method in class psidev.psi.mi.jami.binary.impl.DefaultModelledBinaryInteraction: initialiseModelledParameters
initialiseModelledParameters() - Method in class psidev.psi.mi.jami.model.impl.DefaultModelledInteraction: initialiseModelledParameters
initialiseModelledParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: initialiseModelledParameters.
initialiseModelledParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteraction: initialiseModelledParameters.
initialiseModelledParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: initialiseModelledParameters.
initialiseModelledParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: initialiseModelledParameters.
initialiseModelledParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: initialiseModelledParameters.
initialiseModelledParametersWith(Collection<ModelledParameter>) - Method in class psidev.psi.mi.jami.binary.impl.DefaultModelledBinaryInteraction: initialiseModelledParametersWith
initialiseModelledParametersWith(Collection<ModelledParameter>) - Method in class psidev.psi.mi.jami.model.impl.DefaultModelledInteraction: initialiseModelledParametersWith
initialiseModelledParameterWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction: initialiseModelledParameterWrapper.
initialiseModelledParameterWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction: initialiseModelledParameterWrapper.
initialiseModelledParameterWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction: initialiseModelledParameterWrapper.
initialiseModelledParameterWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: initialiseModelledParameterWrapper.
initialiseNamesContainer() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: initialiseNamesContainer.
initialiseNamesContainer() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: initialiseNamesContainer.
initialiseNamesContainer() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractor: initialiseNamesContainer.
initialiseNamesContainer() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: initialiseNamesContainer.
initialiseNamesContainer() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractor: initialiseNamesContainer.
initialiseNamesContainer() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: initialiseNamesContainer.
initialiseNamesContainer() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractor: initialiseNamesContainer.
initialiseNamesContainer() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: initialiseNamesContainer.
initialiseOptionalWriters(PsiXmlExperimentWriter, PsiXmlElementWriter<String>, PsiXmlElementWriter<Interactor>) - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: initialiseOptionalWriters.
initialiseOptionalWriters(PsiXmlExperimentWriter, PsiXmlElementWriter<String>, PsiXmlElementWriter<Interactor>) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: initialiseOptionalWriters.
initialiseOptionalWriters(PsiXmlExperimentWriter, PsiXmlElementWriter<String>, PsiXmlElementWriter<Interactor>) - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlWriter: initialiseOptionalWriters.
initialiseOrganism(Collection<MitabOrganism>, Interactor) - Method in class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionLineParser: initialiseOrganism.
initialiseOrganismWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.XmlInteractorWriter: initialiseOrganismWriter.
initialiseOrganismWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlInteractorWriter: initialiseOrganismWriter.
initialiseOutputStream(OutputStream) - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitabWriter: initialiseOutputStream.
initialiseOutputStream(OutputStream) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25EvidenceWriter: initialiseOutputStream.
initialiseOutputStream(OutputStream) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25ModelledWriter: initialiseOutputStream.
initialiseOutputStream(OutputStream) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25Writer: initialiseOutputStream.
initialiseOutputStream(OutputStream) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26EvidenceWriter: initialiseOutputStream.
initialiseOutputStream(OutputStream) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26ModelledWriter: initialiseOutputStream.
initialiseOutputStream(OutputStream) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27EvidenceWriter: initialiseOutputStream.
initialiseOutputStream(OutputStream) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27ModelledWriter: initialiseOutputStream.
initialiseOutputStream(OutputStream) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28EvidenceWriter: initialiseOutputStream.
initialiseOutputStream(OutputStream) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28ModelledWriter: initialiseOutputStream.
initialiseOutputStream(OutputStream) - Method in class psidev.psi.mi.jami.tab.io.writer.LightMitab25Writer: initialiseOutputStream.
initialiseOutputStream(OutputStream) - Method in class psidev.psi.mi.jami.tab.io.writer.LightMitab26Writer: initialiseOutputStream.
initialiseOutputStream(OutputStream) - Method in class psidev.psi.mi.jami.tab.io.writer.LightMitab27Writer: initialiseOutputStream.
initialiseOutputStream(OutputStream) - Method in class psidev.psi.mi.jami.tab.io.writer.LightMitab28Writer: initialiseOutputStream.
initialiseOutputStream(OutputStream) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25EvidenceWriter: initialiseOutputStream.
initialiseOutputStream(OutputStream) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25ModelledWriter: initialiseOutputStream.
initialiseOutputStream(OutputStream) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25Writer: initialiseOutputStream.
initialiseOutputStream(OutputStream) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab26EvidenceWriter: initialiseOutputStream.
initialiseOutputStream(OutputStream) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab26ModelledWriter: initialiseOutputStream.
initialiseOutputStream(OutputStream) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab27EvidenceWriter: initialiseOutputStream.
initialiseOutputStream(OutputStream) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab27ModelledWriter: initialiseOutputStream.
initialiseOutputStream(OutputStream) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab28EvidenceWriter: initialiseOutputStream.
initialiseOutputStream(OutputStream) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab28ModelledWriter: initialiseOutputStream.
initialiseParameters() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: initialiseParameters
initialiseParameters() - Method in class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantPool: initialiseParameters
initialiseParameters() - Method in class psidev.psi.mi.jami.model.impl.DefaultFeatureEvidence: initialiseParameters
initialiseParameters() - Method in class psidev.psi.mi.jami.model.impl.DefaultParticipantEvidence: initialiseParameters
initialiseParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence.JAXBParameterWrapper
initialiseParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction.JAXBParameterWrapper
initialiseParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence.JAXBParameterWrapper
initialiseParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBParameterWrapper
initialiseParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence.JAXBParameterWrapper
initialiseParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction.JAXBParameterWrapper
initialiseParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence.JAXBParameterWrapper
initialiseParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBParameterWrapper
initialiseParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence.JAXBParameterWrapper
initialiseParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction.JAXBParameterWrapper
initialiseParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence.JAXBParameterWrapper
initialiseParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBParameterWrapper
initialiseParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBParameterWrapper
initialiseParametersWith(Collection<ModelledParameter>) - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: initialiseParametersWith
initialiseParametersWith(Collection<Parameter>) - Method in class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantPool: initialiseParametersWith
initialiseParametersWith(Collection<Parameter>) - Method in class psidev.psi.mi.jami.model.impl.DefaultFeatureEvidence: initialiseParametersWith
initialiseParametersWith(Collection<Parameter>) - Method in class psidev.psi.mi.jami.model.impl.DefaultParticipantEvidence: initialiseParametersWith
initialiseParameterWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: initialiseParameterWrapper.
initialiseParameterWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: initialiseParameterWrapper.
initialiseParameterWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: initialiseParameterWrapper.
initialiseParameterWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: initialiseParameterWrapper.
initialiseParameterWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: initialiseParameterWrapper.
initialiseParameterWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: initialiseParameterWrapper.
initialiseParameterWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionEvidenceWriter: initialiseParameterWriter.
initialiseParameterWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlModelledInteractionWriter: initialiseParameterWriter.
initialiseParameterWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantEvidenceWriter: initialiseParameterWriter.
initialiseParameterWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlInteractionEvidenceWriter: initialiseParameterWriter.
initialiseParameterWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlModelledInteractionWriter: initialiseParameterWriter.
initialiseParameterWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlParticipantEvidenceWriter: initialiseParameterWriter.
initialiseParameterWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlFeatureEvidenceWriter: initialiseParameterWriter.
initialiseParameterWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlInteractionEvidenceWriter: initialiseParameterWriter.
initialiseParameterWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledInteractionWriter: initialiseParameterWriter.
initialiseParameterWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlParticipantEvidenceWriter: initialiseParameterWriter.
initialiseParameterWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.AbstractXmlInteractionEvidenceWriter: initialiseParameterWriter.
initialiseParameterWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlParticipantEvidenceWriter: initialiseParameterWriter.
initialiseParameterWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlParticipantEvidenceWriter: initialiseParameterWriter.
initialiseParameterWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlModelledInteractionWriter: initialiseParameterWriter.
initialiseParameterWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlInteractionEvidenceWriter: initialiseParameterWriter.
initialiseParameterWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlModelledInteractionWriter: initialiseParameterWriter.
initialiseParameterWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlFeatureEvidenceWriter: initialiseParameterWriter.
initialiseParameterWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlFeatureEvidenceWriter: initialiseParameterWriter.
initialiseParents() - Method in class psidev.psi.mi.jami.model.impl.DefaultOntologyTerm: initialiseParents
initialiseParentsWith(Collection<OntologyTerm>) - Method in class psidev.psi.mi.jami.model.impl.DefaultOntologyTerm: initialiseParentsWith
initialiseParticipantCandidateWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledParticipantWriter: initialiseParticipantCandidateWriter.
initialiseParticipantCandidateWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlParticipantEvidenceWriter: initialiseParticipantCandidateWriter.
initialiseParticipantCandidateWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlModelledParticipantWriter: initialiseParticipantCandidateWriter.
initialiseParticipantCandidateWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlParticipantEvidenceWriter: initialiseParticipantCandidateWriter.
initialiseParticipantCandidateWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlModelledParticipantWriter: initialiseParticipantCandidateWriter.
initialiseParticipantCandidateWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlNamedParticipantEvidenceWriter: initialiseParticipantCandidateWriter.
initialiseParticipantCandidateWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlParticipantEvidenceWriter: initialiseParticipantCandidateWriter.
initialiseParticipantCandidateWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlModelledParticipantWriter: initialiseParticipantCandidateWriter.
initialiseParticipantCandidateWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlParticipantEvidenceWriter: initialiseParticipantCandidateWriter.
initialiseParticipantCandidateWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlModelledParticipantWriter: initialiseParticipantCandidateWriter.
initialiseParticipantCandidateWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlParticipantEvidenceWriter: initialiseParticipantCandidateWriter.
initialiseParticipantDelegate() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractEntityRef: initialiseParticipantDelegate.
initialiseParticipantDelegate() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractEntityRef: initialiseParticipantDelegate.
initialiseParticipantDelegate() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractEntityRef: initialiseParticipantDelegate.
initialiseParticipants() - Method in class psidev.psi.mi.jami.model.impl.AbstractInteraction: initialiseParticipants
initialiseParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction.JAXBParticipantWrapper
initialiseParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: initialiseParticipants.
initialiseParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: initialiseParticipants.
initialiseParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction.JAXBParticipantWrapper
initialiseParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: initialiseParticipants.
initialiseParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: initialiseParticipants.
initialiseParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction.JAXBParticipantWrapper
initialiseParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: initialiseParticipants.
initialiseParticipants() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: initialiseParticipants.
initialiseParticipantsWith(Collection<T>) - Method in class psidev.psi.mi.jami.model.impl.AbstractInteraction: initialiseParticipantsWith
initialiseParticipantWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlBasicInteraction: initialiseParticipantWrapper.
initialiseParticipantWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: initialiseParticipantWrapper.
initialiseParticipantWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: initialiseParticipantWrapper.
initialiseParticipantWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction: initialiseParticipantWrapper.
initialiseParticipantWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlBasicInteraction: initialiseParticipantWrapper.
initialiseParticipantWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: initialiseParticipantWrapper.
initialiseParticipantWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: initialiseParticipantWrapper.
initialiseParticipantWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction: initialiseParticipantWrapper.
initialiseParticipantWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlBasicInteraction: initialiseParticipantWrapper.
initialiseParticipantWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: initialiseParticipantWrapper.
initialiseParticipantWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: initialiseParticipantWrapper.
initialiseParticipantWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction: initialiseParticipantWrapper.
initialiseParticipantWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: initialiseParticipantWrapper.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlBasicBinaryInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlBasicInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlBinaryInteractionEvidenceWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlComplexWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlInteractionEvidenceWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlModelledBinaryInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlModelledInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedBinaryInteractionEvidenceWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedBinaryInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedInteractionEvidenceWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedModelledBinaryInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedModelledInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlBinaryInteractionEvidenceWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlInteractionEvidenceWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlModelledBinaryInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlModelledInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlNamedBinaryInteractionEvidenceWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlNamedInteractionEvidenceWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlNamedModelledBinaryInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlNamedModelledInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlBasicBinaryInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlBasicInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlBinaryInteractionEvidenceWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlComplexWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlInteractionEvidenceWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlModelledBinaryInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlModelledInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedBinaryInteractionEvidenceWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedBinaryInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedInteractionEvidenceWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedModelledBinaryInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedModelledInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlBinaryInteractionEvidenceWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlInteractionEvidenceWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlModelledBinaryInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlModelledInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlNamedBinaryInteractionEvidenceWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlNamedInteractionEvidenceWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlNamedModelledBinaryInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlNamedModelledInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlBasicBinaryInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlBasicInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlBinaryInteractionEvidenceWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlComplexWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlInteractionEvidenceWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlModelledBinaryInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlModelledInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlBinaryInteractionEvidenceWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlInteractionEvidenceWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlModelledBinaryInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlModelledInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlBasicBinaryInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlBasicInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlBinaryInteractionEvidenceWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlComplexWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlInteractionEvidenceWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlModelledBinaryInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlModelledInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlBinaryInteractionEvidenceWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlInteractionEvidenceWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlModelledBinaryInteractionWriter: initialiseParticipantWriter.
initialiseParticipantWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlModelledInteractionWriter: initialiseParticipantWriter.
initialisePool() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant.JAXBInteractorCandidateWrapper
initialisePool() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipant.JAXBInteractorCandidatesWrapper
initialisePool() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBInteractorCandidatesWrapper
initialisePool() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant.JAXBInteractorCandidateWrapper
initialisePool() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipant.JAXBInteractorCandidatesWrapper
initialisePool() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBInteractorCandidatesWrapper
initialisePool() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant.JAXBInteractorCandidateWrapper
initialisePool() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipant.JAXBInteractorCandidatesWrapper
initialisePool() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBInteractorCandidatesWrapper
initialisePublicationIdentifiers(Collection<MitabXref>, MitabPublication, boolean) - Method in class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionEvidenceLineParser: initialisePublicationIdentifiers.
initialisePublicationWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: initialisePublicationWriter.
initialisePublicationWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.AbstractXmlSourceWriter: initialisePublicationWriter.
initialisePublicationWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.XmlExperimentWriter: initialisePublicationWriter.
initialisePublicationWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.XmlSourceWriter: initialisePublicationWriter.
initialisePublicationWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlCooperativityEvidenceWriter: initialisePublicationWriter.
initialisePublicationWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlExperimentWriter: initialisePublicationWriter.
initialisePublicationWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlModelledConfidenceWriter: initialisePublicationWriter.
initialisePublicationWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlModelledParameterWriter: initialisePublicationWriter.
initialisePublicationWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlSourceWriter: initialisePublicationWriter.
initialisePublicationWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25.XmlExperimentWriter: initialisePublicationWriter.
initialisePublicationWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25.XmlSourceWriter: initialisePublicationWriter.
initialisePublicationWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlCooperativityEvidenceWriter: initialisePublicationWriter.
initialisePublicationWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlExperimentWriter: initialisePublicationWriter.
initialisePublicationWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlModelledConfidenceWriter: initialisePublicationWriter.
initialisePublicationWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlModelledParameterWriter: initialisePublicationWriter.
initialisePublicationWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlSourceWriter: initialisePublicationWriter.
initialiseRanges() - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature: initialiseRanges
initialiseRanges() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature.JAXBRangeWrapper
initialiseRanges() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature.JAXBRangeWrapper
initialiseRanges() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature.JAXBRangeWrapper
initialiseRangesWith(Collection<Range>) - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature: initialiseRangesWith
initialiseRangeWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: initialiseRangeWrapper.
initialiseRangeWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: initialiseRangeWrapper.
initialiseRangeWrapper() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: initialiseRangeWrapper.
initialiseRangeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlFeatureWriter: initialiseRangeWriter.
initialiseRangeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlFeatureWriter: initialiseRangeWriter.
initialiseRangeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlFeatureWriter: initialiseRangeWriter.
initialiseRangeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.XmlFeatureEvidenceWriter: initialiseRangeWriter.
initialiseRangeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.XmlFeatureWriter: initialiseRangeWriter.
initialiseRangeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.XmlModelledFeatureWriter: initialiseRangeWriter.
initialiseRangeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlFeatureEvidenceWriter: initialiseRangeWriter.
initialiseRangeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlModelledFeatureWriter: initialiseRangeWriter.
initialiseReferencesList() - Method in class psidev.psi.mi.jami.xml.XmlEntryContext: initialiseReferencesList.
initialiseResultingSequenceWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlRangeWriter: initialiseResultingSequenceWriter.
initialiseResultingSequenceWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlRangeWriter: initialiseResultingSequenceWriter.
initialiseRole() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: initialiseRole.
initialiseRole() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: initialiseRole.
initialiseRole() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: initialiseRole.
initialiseSecondaryRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.CvTermXrefContainer: initialiseSecondaryRefs.
initialiseSecondaryRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.FeatureXrefContainer: initialiseSecondaryRefs.
initialiseSecondaryRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.InteractionXrefContainer: initialiseSecondaryRefs.
initialiseSecondaryRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.InteractorXrefContainer: initialiseSecondaryRefs.
initialiseSecondaryRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.PublicationXrefContainer: initialiseSecondaryRefs.
initialiseSecondaryRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XrefContainer: initialiseSecondaryRefs.
initialiseSecondaryRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.CvTermXrefContainer: initialiseSecondaryRefs.
initialiseSecondaryRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.FeatureXrefContainer: initialiseSecondaryRefs.
initialiseSecondaryRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.InteractionXrefContainer: initialiseSecondaryRefs.
initialiseSecondaryRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.InteractorXrefContainer: initialiseSecondaryRefs.
initialiseSecondaryRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.PublicationXrefContainer: initialiseSecondaryRefs.
initialiseSecondaryRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XrefContainer: initialiseSecondaryRefs.
initialiseSecondaryRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.CvTermXrefContainer: initialiseSecondaryRefs.
initialiseSecondaryRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.FeatureXrefContainer: initialiseSecondaryRefs.
initialiseSecondaryRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.InteractionXrefContainer: initialiseSecondaryRefs.
initialiseSecondaryRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.InteractorXrefContainer: initialiseSecondaryRefs.
initialiseSecondaryRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.PublicationXrefContainer: initialiseSecondaryRefs.
initialiseSecondaryRefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XrefContainer: initialiseSecondaryRefs.
initialiseSecondaryResWith(XrefContainer.JAXBSecondaryXrefList) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XrefContainer: initialiseSecondaryResWith.
initialiseSecondaryResWith(XrefContainer.JAXBSecondaryXrefList) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XrefContainer: initialiseSecondaryResWith.
initialiseSecondaryResWith(XrefContainer.JAXBSecondaryXrefList) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XrefContainer: initialiseSecondaryResWith.
initialiseStartPositionWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlRangeWriter: initialiseStartPositionWriter.
initialiseStartPositionWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.XmlRangeWriter: initialiseStartPositionWriter.
initialiseStartPositionWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlRangeWriter: initialiseStartPositionWriter.
initialiseStartPositionWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25.XmlRangeWriter: initialiseStartPositionWriter.
initialiseStartPositionWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlRangeWriter: initialiseStartPositionWriter.
initialiseStartPositionWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlRangeWriter: initialiseStartPositionWriter.
initialiseStatusWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlPositionWriter: initialiseStatusWriter.
initialiseStatusWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.XmlBeginPositionWriter: initialiseStatusWriter.
initialiseStatusWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.XmlEndPositionWriter: initialiseStatusWriter.
initialiseStatusWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlBeginPositionWriter: initialiseStatusWriter.
initialiseStatusWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlEndPositionWriter: initialiseStatusWriter.
initialiseStoichiometry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant: initialiseStoichiometry.
initialiseStoichiometry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant: initialiseStoichiometry.
initialiseStoichiometry() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant: initialiseStoichiometry.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25Writer: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26Writer: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27Writer: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28Writer: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25Writer: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab26Writer: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab27Writer: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab28Writer: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlMixWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlBinaryEvidenceWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlComplexWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlEvidenceWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlModelledBinaryWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlModelledWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedBinaryEvidenceWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedEvidenceWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedModelledBinaryWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedModelledWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlBinaryEvidenceWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlComplexWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlEvidenceWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlModelledBinaryWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlModelledWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.LightCompactXmlBinaryWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.LightCompactXmlWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.LightCompactXmlBinaryWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.LightCompactXmlNamedBinaryWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.LightCompactXmlNamedWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.LightCompactXmlWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlMixWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlBinaryEvidenceWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlComplexWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlEvidenceWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlModelledBinaryWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlModelledWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedBinaryEvidenceWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedEvidenceWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedModelledBinaryWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.ExpandedXmlNamedModelledWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlBinaryEvidenceWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlComplexWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlEvidenceWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlModelledBinaryWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlModelledWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.LightExpandedXmlBinaryWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.LightExpandedXmlWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.LightExpandedXmlBinaryWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.LightExpandedXmlNamedBinaryWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.LightExpandedXmlNamedWriter: initialiseSubWriters.
initialiseSubWriters() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.LightExpandedXmlWriter: initialiseSubWriters.
initialiseSubWriters(boolean, boolean, PsiXmlType, InteractionCategory, ComplexType) - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: initialiseSubWriters.
initialiseSubWritersWith(Writer) - Method in class psidev.psi.mi.jami.json.binary.MIJsonBinaryWriter: initialiseSubWritersWith.
initialiseSubWritersWith(Writer) - Method in class psidev.psi.mi.jami.json.nary.MIJsonWriter: initialiseSubWritersWith.
initialiseSubWritersWith(Writer) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25BinaryWriter: initialiseSubWritersWith.
initialiseSubWritersWith(Writer) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26BinaryWriter: initialiseSubWritersWith.
initialiseSubWritersWith(Writer) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27BinaryWriter: initialiseSubWritersWith.
initialiseSubWritersWith(Writer) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28BinaryWriter: initialiseSubWritersWith.
initialiseSubWritersWith(Writer) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25BinaryWriter: initialiseSubWritersWith.
initialiseSubWritersWith(Writer) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab26BinaryWriter: initialiseSubWritersWith.
initialiseSubWritersWith(Writer) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab27BinaryWriter: initialiseSubWritersWith.
initialiseSubWritersWith(Writer) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab28BinaryWriter: initialiseSubWritersWith.
initialiseSynonyms() - Method in class psidev.psi.mi.jami.model.impl.DefaultCvTerm: initialiseSynonyms
initialiseSynonymsWith(Collection<Alias>) - Method in class psidev.psi.mi.jami.model.impl.DefaultCvTerm: initialiseSynonymsWith
initialiseTypeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml253.XmlConfidenceWriter: initialiseTypeWriter.
initialiseTypeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml254.XmlConfidenceWriter: initialiseTypeWriter.
initialiseTypeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlConfidenceWriter: initialiseTypeWriter.
initialiseTypeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlModelledConfidenceWriter: initialiseTypeWriter.
initialiseTypeWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlConfidenceWriter: initialiseTypeWriter.
initialiseUnitWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlVariableParameterWriter: initialiseUnitWriter.
initialiseUnitWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlVariableParameterWriter: initialiseUnitWriter.
initialiseUnspecifiedInteractor() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity: initialiseUnspecifiedInteractor.
initialiseUnspecifiedInteractor() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity: initialiseUnspecifiedInteractor.
initialiseUnspecifiedInteractor() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity: initialiseUnspecifiedInteractor.
initialiseVariableParameters() - Method in class psidev.psi.mi.jami.model.impl.DefaultExperiment: initialiseVariableParameters
initialiseVariableParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: initialiseVariableParameters.
initialiseVariableParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: initialiseVariableParameters.
initialiseVariableParameters() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: initialiseVariableParameters.
initialiseVariableParametersWith(Collection<VariableParameter>) - Method in class psidev.psi.mi.jami.model.impl.DefaultExperiment: initialiseVariableParametersWith
initialiseVariableParameterValueSets() - Method in class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: initialiseVariableParameterValueSets
initialiseVariableParameterValueSets() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: initialiseVariableParameterValueSets
initialiseVariableParameterValueSets() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: initialiseVariableParameterValueSets.
initialiseVariableParameterValueSets() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: initialiseVariableParameterValueSets.
initialiseVariableParameterValueSets() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: initialiseVariableParameterValueSets.
initialiseVariableParameterValueSets() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: initialiseVariableParameterValueSets.
initialiseVariableParameterValueSetsWith(Collection<VariableParameterValueSet>) - Method in class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: initialiseVariableParameterValueSetsWith
initialiseVariableParameterValueSetsWith(Collection<VariableParameterValueSet>) - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: initialiseVariableParameterValueSetsWith
initialiseVariableParameterWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlExperimentWriter: initialiseVariableParameterWriter.
initialiseVariableParameterWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlExperimentWriter: initialiseVariableParameterWriter.
initialiseVariables() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment.JAXBVariableParameterWrapper
initialiseVariables() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment.JAXBVariableParameterWrapper
initialiseVariables() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment.JAXBVariableParameterWrapper
initialiseVariableValues() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameter.JAXBVariableValueWrapper
initialiseVariableValues() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameter.JAXBVariableValueWrapper
initialiseVariableValues() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameter.JAXBVariableValueWrapper
initialiseVariableValueSets() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidence.JAXBVariableParameterValueSetWrapper
initialiseVatiableParameterValues() - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameter: initialiseVatiableParameterValues
initialiseVatiableParameterValues() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameter: initialiseVatiableParameterValues.
initialiseVatiableParameterValues() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameter: initialiseVatiableParameterValues.
initialiseVatiableParameterValues() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameter: initialiseVatiableParameterValues.
initialiseVatiableParameterValuesSet() - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameterValueSet: initialiseVatiableParameterValuesSet
initialiseVatiableParameterValuesSet() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameterValueSet: initialiseVatiableParameterValuesSet.
initialiseVatiableParameterValuesSetWith(Set<VariableParameterValue>) - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameterValueSet: initialiseVatiableParameterValuesSetWith
initialiseVatiableParameterValuesWith(Collection<VariableParameterValue>) - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameter: initialiseVatiableParameterValuesWith
initialiseWriter(Writer) - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitabWriter: initialiseWriter.
initialiseWriter(Writer) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25EvidenceWriter: initialiseWriter.
initialiseWriter(Writer) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25ModelledWriter: initialiseWriter.
initialiseWriter(Writer) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25Writer: initialiseWriter.
initialiseWriter(Writer) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26EvidenceWriter: initialiseWriter.
initialiseWriter(Writer) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26ModelledWriter: initialiseWriter.
initialiseWriter(Writer) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27EvidenceWriter: initialiseWriter.
initialiseWriter(Writer) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27ModelledWriter: initialiseWriter.
initialiseWriter(Writer) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28EvidenceWriter: initialiseWriter.
initialiseWriter(Writer) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28ModelledWriter: initialiseWriter.
initialiseWriter(Writer) - Method in class psidev.psi.mi.jami.tab.io.writer.LightMitab25Writer: initialiseWriter.
initialiseWriter(Writer) - Method in class psidev.psi.mi.jami.tab.io.writer.LightMitab26Writer: initialiseWriter.
initialiseWriter(Writer) - Method in class psidev.psi.mi.jami.tab.io.writer.LightMitab27Writer: initialiseWriter.
initialiseWriter(Writer) - Method in class psidev.psi.mi.jami.tab.io.writer.LightMitab28Writer: initialiseWriter.
initialiseWriter(Writer) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25EvidenceWriter: initialiseWriter.
initialiseWriter(Writer) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25ModelledWriter: initialiseWriter.
initialiseWriter(Writer) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25Writer: initialiseWriter.
initialiseWriter(Writer) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab26EvidenceWriter: initialiseWriter.
initialiseWriter(Writer) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab26ModelledWriter: initialiseWriter.
initialiseWriter(Writer) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab27EvidenceWriter: initialiseWriter.
initialiseWriter(Writer) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab27ModelledWriter: initialiseWriter.
initialiseWriter(Writer) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab28EvidenceWriter: initialiseWriter.
initialiseWriter(Writer) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab28ModelledWriter: initialiseWriter.
initialiseXmlParser(File) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: initialiseXmlParser.
initialiseXmlParser(File) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlBinarySource: initialiseXmlParser.
initialiseXmlParser(File) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlBinaryStreamSource: initialiseXmlParser.
initialiseXmlParser(File) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlSource: initialiseXmlParser.
initialiseXmlParser(File) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlStreamSource: initialiseXmlParser.
initialiseXmlParser(File) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinaryEvidenceSource: initialiseXmlParser.
initialiseXmlParser(File) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinaryEvidenceStreamSource: initialiseXmlParser.
initialiseXmlParser(File) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinarySource: initialiseXmlParser.
initialiseXmlParser(File) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinaryStreamSource: initialiseXmlParser.
initialiseXmlParser(File) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlComplexSource: initialiseXmlParser.
initialiseXmlParser(File) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlComplexStreamSource: initialiseXmlParser.
initialiseXmlParser(File) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlEvidenceSource: initialiseXmlParser.
initialiseXmlParser(File) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlEvidenceStreamSource: initialiseXmlParser.
initialiseXmlParser(File) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledBinarySource: initialiseXmlParser.
initialiseXmlParser(File) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledBinaryStreamSource: initialiseXmlParser.
initialiseXmlParser(File) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledSource: initialiseXmlParser.
initialiseXmlParser(File) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledStreamSource: initialiseXmlParser.
initialiseXmlParser(File) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlSource: initialiseXmlParser.
initialiseXmlParser(File) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlStreamSource: initialiseXmlParser.
initialiseXmlParser(InputStream) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: initialiseXmlParser.
initialiseXmlParser(InputStream) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlBinarySource: initialiseXmlParser.
initialiseXmlParser(InputStream) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlBinaryStreamSource: initialiseXmlParser.
initialiseXmlParser(InputStream) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlSource: initialiseXmlParser.
initialiseXmlParser(InputStream) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlStreamSource: initialiseXmlParser.
initialiseXmlParser(InputStream) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinaryEvidenceSource: initialiseXmlParser.
initialiseXmlParser(InputStream) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinaryEvidenceStreamSource: initialiseXmlParser.
initialiseXmlParser(InputStream) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinarySource: initialiseXmlParser.
initialiseXmlParser(InputStream) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinaryStreamSource: initialiseXmlParser.
initialiseXmlParser(InputStream) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlComplexSource: initialiseXmlParser.
initialiseXmlParser(InputStream) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlComplexStreamSource: initialiseXmlParser.
initialiseXmlParser(InputStream) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlEvidenceSource: initialiseXmlParser.
initialiseXmlParser(InputStream) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlEvidenceStreamSource: initialiseXmlParser.
initialiseXmlParser(InputStream) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledBinarySource: initialiseXmlParser.
initialiseXmlParser(InputStream) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledBinaryStreamSource: initialiseXmlParser.
initialiseXmlParser(InputStream) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledSource: initialiseXmlParser.
initialiseXmlParser(InputStream) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledStreamSource: initialiseXmlParser.
initialiseXmlParser(InputStream) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlSource: initialiseXmlParser.
initialiseXmlParser(InputStream) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlStreamSource: initialiseXmlParser.
initialiseXmlParser(Reader) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: initialiseXmlParser.
initialiseXmlParser(Reader) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlBinarySource: initialiseXmlParser.
initialiseXmlParser(Reader) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlBinaryStreamSource: initialiseXmlParser.
initialiseXmlParser(Reader) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlSource: initialiseXmlParser.
initialiseXmlParser(Reader) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlStreamSource: initialiseXmlParser.
initialiseXmlParser(Reader) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinaryEvidenceSource: initialiseXmlParser.
initialiseXmlParser(Reader) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinaryEvidenceStreamSource: initialiseXmlParser.
initialiseXmlParser(Reader) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinarySource: initialiseXmlParser.
initialiseXmlParser(Reader) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinaryStreamSource: initialiseXmlParser.
initialiseXmlParser(Reader) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlComplexSource: initialiseXmlParser.
initialiseXmlParser(Reader) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlComplexStreamSource: initialiseXmlParser.
initialiseXmlParser(Reader) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlEvidenceSource: initialiseXmlParser.
initialiseXmlParser(Reader) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlEvidenceStreamSource: initialiseXmlParser.
initialiseXmlParser(Reader) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledBinarySource: initialiseXmlParser.
initialiseXmlParser(Reader) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledBinaryStreamSource: initialiseXmlParser.
initialiseXmlParser(Reader) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledSource: initialiseXmlParser.
initialiseXmlParser(Reader) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledStreamSource: initialiseXmlParser.
initialiseXmlParser(Reader) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlSource: initialiseXmlParser.
initialiseXmlParser(Reader) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlStreamSource: initialiseXmlParser.
initialiseXmlParser(URL) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: initialiseXmlParser.
initialiseXmlParser(URL) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlBinarySource: initialiseXmlParser.
initialiseXmlParser(URL) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlBinaryStreamSource: initialiseXmlParser.
initialiseXmlParser(URL) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlSource: initialiseXmlParser.
initialiseXmlParser(URL) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlStreamSource: initialiseXmlParser.
initialiseXmlParser(URL) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinaryEvidenceSource: initialiseXmlParser.
initialiseXmlParser(URL) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinaryEvidenceStreamSource: initialiseXmlParser.
initialiseXmlParser(URL) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinarySource: initialiseXmlParser.
initialiseXmlParser(URL) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinaryStreamSource: initialiseXmlParser.
initialiseXmlParser(URL) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlComplexSource: initialiseXmlParser.
initialiseXmlParser(URL) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlComplexStreamSource: initialiseXmlParser.
initialiseXmlParser(URL) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlEvidenceSource: initialiseXmlParser.
initialiseXmlParser(URL) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlEvidenceStreamSource: initialiseXmlParser.
initialiseXmlParser(URL) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledBinarySource: initialiseXmlParser.
initialiseXmlParser(URL) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledBinaryStreamSource: initialiseXmlParser.
initialiseXmlParser(URL) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledSource: initialiseXmlParser.
initialiseXmlParser(URL) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledStreamSource: initialiseXmlParser.
initialiseXmlParser(URL) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlSource: initialiseXmlParser.
initialiseXmlParser(URL) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.XmlStreamSource: initialiseXmlParser.
initialiseXrefContainer() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: initialiseXrefContainer.
initialiseXrefContainer() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractor: initialiseXrefContainer.
initialiseXrefContainer() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractor: initialiseXrefContainer.
initialiseXrefContainer() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractor: initialiseXrefContainer.
initialiseXrefs() - Method in class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: initialiseXrefs
initialiseXrefs() - Method in class psidev.psi.mi.jami.bridges.imex.extension.ImexPublication: initialiseXrefs
initialiseXrefs() - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature: initialiseXrefs
initialiseXrefs() - Method in class psidev.psi.mi.jami.model.impl.AbstractInteraction: initialiseXrefs
initialiseXrefs() - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipant: initialiseXrefs
initialiseXrefs() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: initialiseXrefs
initialiseXrefs() - Method in class psidev.psi.mi.jami.model.impl.DefaultCvTerm: initialiseXrefs
initialiseXrefs() - Method in class psidev.psi.mi.jami.model.impl.DefaultExperiment: initialiseXrefs
initialiseXrefs() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: initialiseXrefs
initialiseXrefs() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractor: initialiseXrefs
initialiseXrefs() - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: initialiseXrefs
initialiseXrefs() - Method in class psidev.psi.mi.jami.model.impl.DefaultResultingSequence: initialiseXrefs
initialiseXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: initialiseXrefs
initialiseXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.ExperimentXrefContainer: initialiseXrefs.
initialiseXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.InteractionXrefContainer: initialiseXrefs.
initialiseXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.PublicationXrefContainer: initialiseXrefs.
initialiseXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XrefContainer: initialiseXrefs.
initialiseXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.ExperimentXrefContainer: initialiseXrefs.
initialiseXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.InteractionXrefContainer: initialiseXrefs.
initialiseXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.PublicationXrefContainer: initialiseXrefs.
initialiseXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XrefContainer: initialiseXrefs.
initialiseXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.ExperimentXrefContainer: initialiseXrefs.
initialiseXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.InteractionXrefContainer: initialiseXrefs.
initialiseXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.PublicationXrefContainer: initialiseXrefs.
initialiseXrefs() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XrefContainer: initialiseXrefs.
initialiseXrefsWith(Collection<Xref>) - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature: initialiseXrefsWith
initialiseXrefsWith(Collection<Xref>) - Method in class psidev.psi.mi.jami.model.impl.AbstractInteraction: initialiseXrefsWith
initialiseXrefsWith(Collection<Xref>) - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipant: initialiseXrefsWith
initialiseXrefsWith(Collection<Xref>) - Method in class psidev.psi.mi.jami.model.impl.DefaultCvTerm: initialiseXrefsWith
initialiseXrefsWith(Collection<Xref>) - Method in class psidev.psi.mi.jami.model.impl.DefaultExperiment: initialiseXrefsWith
initialiseXrefsWith(Collection<Xref>) - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractor: initialiseXrefsWith
initialiseXrefsWith(Collection<Xref>) - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: initialiseXrefsWith
initialiseXrefsWith(Collection<Xref>) - Method in class psidev.psi.mi.jami.model.impl.DefaultResultingSequence: initialiseXrefsWith
initialiseXrefsWith(List<Xref>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XrefContainer: initialiseXrefsWith.
initialiseXrefsWith(List<Xref>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XrefContainer: initialiseXrefsWith.
initialiseXrefsWith(List<Xref>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XrefContainer: initialiseXrefsWith.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlFeatureWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlPublicationWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlFeatureWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlInteractionEvidenceWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlInteractionWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlModelledInteractionWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlModelledParticipantWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlParticipantEvidenceWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlParticipantWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlFeatureWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlInteractionEvidenceWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledInteractionWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledParticipantWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlParticipantEvidenceWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.AbstractXmlSourceWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.AbstractXmlInteractionEvidenceWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.AbstractXmlModelledInteractionWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlModelledParticipantWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlParticipantEvidenceWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlParticipantWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlModelledParticipantWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlModelledParticipantWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlParticipantEvidenceWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlParticipantWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlModelledParticipantWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlInteractionWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.XmlExperimentWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.XmlFeatureEvidenceWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.XmlFeatureWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.XmlModelledFeatureWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.XmlPublicationWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.XmlSourceWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlExperimentWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlFeatureEvidenceWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlModelledFeatureWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlPublicationWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlResultingSequenceWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.XmlCvTermWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.XmlInteractorWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.XmlOpenCvTermWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25.XmlExperimentWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25.XmlPublicationWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlExperimentWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlPublicationWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlResultingSequenceWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlCvTermWriter: initialiseXrefWriter.
initialiseXrefWriter() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlInteractorWriter: initialiseXrefWriter.
initializeImexDBGroups() - Method in class psidev.psi.mi.jami.bridges.imex.mock.MockImexCentralClient
initializeImexDBGroups(String) - Static method in class psidev.psi.mi.jami.bridges.imex.ImexCentralUtility
initImexSequence(int) - Method in class psidev.psi.mi.jami.bridges.imex.mock.MockImexCentralClient: initImexSequence.
initPublications(List<Publication>) - Method in class psidev.psi.mi.jami.bridges.imex.mock.MockImexCentralClient: initPublications.
InMemoryIdentityObjectCache - Class in psidev.psi.mi.jami.xml.cache: It keeps a in memory cache of objects having an id.
InMemoryIdentityObjectCache() - Constructor for class psidev.psi.mi.jami.xml.cache.InMemoryIdentityObjectCache: Constructor for InMemoryIdentityObjectCache.
InMemoryLightIdentityObjectCache - Class in psidev.psi.mi.jami.xml.cache: It keeps a in memory cache of objects having an id.
InMemoryLightIdentityObjectCache() - Constructor for class psidev.psi.mi.jami.xml.cache.InMemoryLightIdentityObjectCache: Constructor for InMemoryLightIdentityObjectCache.
InMemoryPsiXmlCache - Class in psidev.psi.mi.jami.xml.cache: PsiXmlIdCache that stores objects in memory using a map
InMemoryPsiXmlCache(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: Constructor for InMemoryPsiXmlCache.
INPROGRESS - psidev.psi.mi.jami.bridges.imex.PublicationStatus
INPUT_OPTION_KEY - Static variable in class psidev.psi.mi.jami.factory.options.MIFileDataSourceOptions: The input MI source that contains the interactions.
input_stream - Variable in class psidev.psi.mi.jami.tab.io.parser.MitabLineParserTokenManager
INPUT_TYPE_OPTION_KEY - Static variable in class psidev.psi.mi.jami.factory.options.MIDataSourceOptions: The input type (for instance psi25_xml, mitab).
inputStream - Variable in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream
inputStream - Variable in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream
InputStream(InputStream) - Constructor for class psidev.psi.mi.jami.utils.checksum.Base64.InputStream: Constructs a Base64.InputStream in DECODE mode.
InputStream(InputStream, int) - Constructor for class psidev.psi.mi.jami.utils.checksum.Base64.InputStream: Constructs a Base64.InputStream in either ENCODE or DECODE mode.
INSERT - psidev.psi.mi.jami.enricher.util.diff.diff_match_patch.Operation
INSERT - psidev.psi.mi.jami.enricher.util.diff.Operation
instantiateCvTerm(String, Xref, String) - Method in class psidev.psi.mi.jami.bridges.ols.AbstractOlsFetcher: instantiateCvTerm.
instantiateCvTerm(String, Xref, String) - Method in class psidev.psi.mi.jami.bridges.ols.OlsCvTermFetcher: instantiateCvTerm.
instantiateCvTerm(String, Xref, String) - Method in class psidev.psi.mi.jami.bridges.ols.OlsOntologyTermFetcher: instantiateCvTerm.
instantiateCvTerm(String, Xref, String) - Method in class psidev.psi.mi.jami.bridges.ols.OlsSourceFetcher: instantiateCvTerm.
instantiateInteractionEvidence(int, String) - Method in class psidev.psi.mi.jami.crosslink.io.parser.AbstractCsvInteractionEvidenceParser: instantiateInteractionEvidence.
instantiateInteractionEvidence(int, String) - Method in class psidev.psi.mi.jami.crosslink.io.parser.CsvBinaryInteractionEvidenceParser: instantiateInteractionEvidence.
instantiateInteractionEvidence(int, String) - Method in class psidev.psi.mi.jami.crosslink.io.parser.CsvInteractionEvidenceParser: instantiateInteractionEvidence.
instantiateInteractionFactory() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsixmlBinaryParser: instantiateInteractionFactory.
instantiateLineParser() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: instantiateLineParser.
instantiateLineParser() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: instantiateLineParser.
instantiateLineParser() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvBinaryEvidenceSource: instantiateLineParser.
instantiateLineParser() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvBinaryEvidenceStreamSource: instantiateLineParser.
instantiateLineParser() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvEvidenceSource: instantiateLineParser.
instantiateLineParser() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvEvidenceStreamSource: instantiateLineParser.
instantiateNewBinaryInteraction() - Method in interface psidev.psi.mi.jami.factory.BinaryInteractionFactory: Instantiate a new BinaryInteraction
instantiateNewBinaryInteraction() - Method in class psidev.psi.mi.jami.factory.DefaultBinaryInteractionFactory: instantiateNewBinaryInteraction
instantiateNewBinaryInteraction() - Method in class psidev.psi.mi.jami.xml.model.extension.factory.xml25.XmlBinaryInteractionFactory: Instantiate a new BinaryInteraction
instantiateNewBinaryInteraction() - Method in class psidev.psi.mi.jami.xml.model.extension.factory.xml30.XmlBinaryInteractionFactory: Instantiate a new BinaryInteraction
instantiateNewBinaryInteractionEvidence() - Method in interface psidev.psi.mi.jami.factory.BinaryInteractionFactory: Instantiate a new BinaryInteraction evidence
instantiateNewBinaryInteractionEvidence() - Method in class psidev.psi.mi.jami.factory.DefaultBinaryInteractionFactory: instantiateNewBinaryInteractionEvidence
instantiateNewBinaryInteractionEvidence() - Method in class psidev.psi.mi.jami.xml.model.extension.factory.xml25.XmlBinaryInteractionFactory: Instantiate a new BinaryInteraction evidence
instantiateNewBinaryInteractionEvidence() - Method in class psidev.psi.mi.jami.xml.model.extension.factory.xml30.XmlBinaryInteractionFactory: Instantiate a new BinaryInteraction evidence
instantiateNewModelledBinaryInteraction() - Method in interface psidev.psi.mi.jami.factory.BinaryInteractionFactory: Instantiate a new modelled binary interaction
instantiateNewModelledBinaryInteraction() - Method in class psidev.psi.mi.jami.factory.DefaultBinaryInteractionFactory: instantiateNewModelledBinaryInteraction
instantiateNewModelledBinaryInteraction() - Method in class psidev.psi.mi.jami.xml.model.extension.factory.xml25.XmlBinaryInteractionFactory: Instantiate a new modelled binary interaction
instantiateNewModelledBinaryInteraction() - Method in class psidev.psi.mi.jami.xml.model.extension.factory.xml30.XmlBinaryInteractionFactory: Instantiate a new modelled binary interaction
instantiateNewTerm(String, Xref) - Method in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: instantiateNewTerm.
instantiateNewTerm(String, Xref) - Method in class psidev.psi.mi.jami.bridges.obo.CvOboLoader: instantiateNewTerm.
instantiateNewTerm(String, Xref) - Method in class psidev.psi.mi.jami.bridges.obo.OntologyOboLoader: instantiateNewTerm.
instantiateNewTerm(String, Xref) - Method in class psidev.psi.mi.jami.bridges.obo.SourceOboLoader: instantiateNewTerm.
INT_DET_METHOD - psidev.psi.mi.jami.tab.MitabColumnName
INTACT_ADMIN - Static variable in class psidev.psi.mi.jami.bridges.imex.Constants
INTACT_MI - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant INTACT_MI="MI:0469"
IntegerComparator - Class in psidev.psi.mi.jami.utils.comparator: Comparator for comparing integers.
IntegerComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.IntegerComparator
Interaction<T extends Participant> - Interface in psidev.psi.mi.jami.model: Interaction involving one to several molecules.
INTERACTION_CATEGORY_OPTION_KEY - Static variable in class psidev.psi.mi.jami.factory.options.InteractionWriterOptions: The option to describe the type of interaction object we want to write.
INTERACTION_CATEGORY_OPTION_KEY - Static variable in class psidev.psi.mi.jami.factory.options.MIDataSourceOptions: The option to describe the type of interaction object we want to return.
INTERACTION_ID - psidev.psi.mi.jami.tab.MitabColumnName
INTERACTION_TAG - Static variable in class psidev.psi.mi.jami.xml.utils.PsiXmlUtils: Constant INTERACTION_TAG="interaction"
INTERACTION_TYPE - psidev.psi.mi.jami.tab.MitabColumnName
InteractionBaseComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Interaction comparator.
InteractionBaseComparator(Comparator<Xref>, Comparator<CvTerm>) - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.InteractionBaseComparator: Constructor for InteractionBaseComparator.
InteractionBaseComparator(CollectionComparator<Xref>, Comparator<CvTerm>) - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.InteractionBaseComparator: Constructor for InteractionBaseComparator.
InteractionCategory - Enum in psidev.psi.mi.jami.model: Enum to recognize the object category of an interaction : - evidence : for InteractionEvidence implementations.
InteractionChangeListener - Interface in psidev.psi.mi.jami.listener: Listener for changes in interaction
InteractionChangeLogger<T extends Interaction> - Class in psidev.psi.mi.jami.listener.impl: This listener will just interaction change events
InteractionChangeLogger() - Constructor for class psidev.psi.mi.jami.listener.impl.InteractionChangeLogger
InteractionCloner - Class in psidev.psi.mi.jami.utils.clone: Utility class to clone and copy interaction properties
InteractionCloner() - Constructor for class psidev.psi.mi.jami.utils.clone.InteractionCloner
InteractionComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Generic interaction comparator.
InteractionComparator(Comparator<Interaction>, ModelledInteractionComparator, InteractionEvidenceComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.InteractionComparator: Constructor for InteractionComparator.
InteractionEnricher - Interface in psidev.psi.mi.jami.enricher: The enricher for Interactions which can enrich a single interaction or a collection.
InteractionEnricherListener - Interface in psidev.psi.mi.jami.enricher.listener: Listener for interaction enrichment
InteractionEnricherListenerManager - Class in psidev.psi.mi.jami.enricher.listener.impl: A manager for listeners which holds a list of listeners.
InteractionEnricherListenerManager() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.InteractionEnricherListenerManager: A constructor to create a listener manager with no listeners.
InteractionEnricherListenerManager(InteractionEnricherListener...) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.InteractionEnricherListenerManager: A constructor to initiate a listener manager with as many listeners as required.
InteractionEnricherLogger - Class in psidev.psi.mi.jami.enricher.listener.impl.log: A logging listener.
InteractionEnricherLogger() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.log.InteractionEnricherLogger
InteractionEnricherStatisticsWriter - Class in psidev.psi.mi.jami.enricher.listener.impl.writer: A statistics logger which records changes made by the enricher.
InteractionEnricherStatisticsWriter() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractionEnricherStatisticsWriter: Uses the known name of the JamiObject type as the seed to generate names for the success an failure log files.
InteractionEnricherStatisticsWriter(File, File) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractionEnricherStatisticsWriter: Uses the exact files provided to log successful and failed enrichments.
InteractionEnricherStatisticsWriter(String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractionEnricherStatisticsWriter: Creates the files from the provided seed file name with 'success' and 'failure' appended.
InteractionEnricherStatisticsWriter(String, String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractionEnricherStatisticsWriter: Uses the provided names to create the files for successful and failed enrichment logging.
InteractionEvidence - Interface in psidev.psi.mi.jami.model: Interaction involving one to several molecules supported by experiments.
InteractionEvidenceBipartiteExpansion - Class in psidev.psi.mi.jami.binary.expansion: BipartiteExpansion for InteractionEvidence
InteractionEvidenceBipartiteExpansion() - Constructor for class psidev.psi.mi.jami.binary.expansion.InteractionEvidenceBipartiteExpansion
InteractionEvidenceChangeListener - Interface in psidev.psi.mi.jami.listener: Listener for changes in interaction evidence
InteractionEvidenceChangeLogger - Class in psidev.psi.mi.jami.listener.impl: This listener will just interaction evidence change events
InteractionEvidenceChangeLogger() - Constructor for class psidev.psi.mi.jami.listener.impl.InteractionEvidenceChangeLogger
InteractionEvidenceComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Basic InteractionEvidenceComparator.
InteractionEvidenceComparator(Comparator<ParticipantEvidence>, Comparator<Interaction>, ExperimentComparator, ParameterComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.InteractionEvidenceComparator: Creates a new InteractionEvidenceComparator.
InteractionEvidenceComparator(CollectionComparator<ParticipantEvidence>, Comparator<Interaction>, ExperimentComparator, CollectionComparator<Parameter>, CollectionComparator<VariableParameterValueSet>) - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.InteractionEvidenceComparator: Constructor for InteractionEvidenceComparator.
InteractionEvidenceEnricher - Interface in psidev.psi.mi.jami.enricher: An enricher for interaction evidences.
InteractionEvidenceEnricherListener - Interface in psidev.psi.mi.jami.enricher.listener: Listener for interaction evidence enrichment
InteractionEvidenceEnricherListenerManager - Class in psidev.psi.mi.jami.enricher.listener.impl: A manager for listeners which holds a list of listeners.
InteractionEvidenceEnricherListenerManager() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.InteractionEvidenceEnricherListenerManager: A constructor to create a listener manager with no listeners.
InteractionEvidenceEnricherListenerManager(InteractionEvidenceEnricherListener...) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.InteractionEvidenceEnricherListenerManager: A constructor to initiate a listener manager with as many listeners as required.
InteractionEvidenceEnricherLogger - Class in psidev.psi.mi.jami.enricher.listener.impl.log: A logging listener.
InteractionEvidenceEnricherLogger() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.log.InteractionEvidenceEnricherLogger
InteractionEvidenceEnricherStatisticsWriter - Class in psidev.psi.mi.jami.enricher.listener.impl.writer: A statistics logger which records changes made by the enricher.
InteractionEvidenceEnricherStatisticsWriter() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractionEvidenceEnricherStatisticsWriter: Uses the known name of the JamiObject type as the seed to generate names for the success an failure log files.
InteractionEvidenceEnricherStatisticsWriter(File, File) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractionEvidenceEnricherStatisticsWriter: Uses the exact files provided to log successful and failed enrichments.
InteractionEvidenceEnricherStatisticsWriter(String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractionEvidenceEnricherStatisticsWriter: Creates the files from the provided seed file name with 'success' and 'failure' appended.
InteractionEvidenceEnricherStatisticsWriter(String, String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractionEvidenceEnricherStatisticsWriter: Uses the provided names to create the files for successful and failed enrichment logging.
InteractionEvidenceImexEnricherListenerManager - Class in psidev.psi.mi.jami.imex.listener.impl: A manager for listeners which holds a list of listeners.
InteractionEvidenceImexEnricherListenerManager() - Constructor for class psidev.psi.mi.jami.imex.listener.impl.InteractionEvidenceImexEnricherListenerManager: A constructor to create a listener manager with no listeners.
InteractionEvidenceImexEnricherListenerManager(InteractionImexEnricherListener...) - Constructor for class psidev.psi.mi.jami.imex.listener.impl.InteractionEvidenceImexEnricherListenerManager: A constructor to initiate a listener manager with as many listeners as required.
InteractionEvidenceImexEnricherLogger - Class in psidev.psi.mi.jami.imex.listener.impl: A logging listener.
InteractionEvidenceImexEnricherLogger() - Constructor for class psidev.psi.mi.jami.imex.listener.impl.InteractionEvidenceImexEnricherLogger
InteractionEvidenceImexEnricherStatisticsWriter - Class in psidev.psi.mi.jami.imex.listener.impl: A statistics logger which records changes made by the enricher.
InteractionEvidenceImexEnricherStatisticsWriter() - Constructor for class psidev.psi.mi.jami.imex.listener.impl.InteractionEvidenceImexEnricherStatisticsWriter: Uses the known name of the JamiObject type as the seed to generate names for the success an failure log files.
InteractionEvidenceImexEnricherStatisticsWriter(String) - Constructor for class psidev.psi.mi.jami.imex.listener.impl.InteractionEvidenceImexEnricherStatisticsWriter: Creates the files from the provided seed file name with 'success' and 'failure' appended.
InteractionEvidenceImexEnricherStatisticsWriter(String, String) - Constructor for class psidev.psi.mi.jami.imex.listener.impl.InteractionEvidenceImexEnricherStatisticsWriter: Uses the provided names to create the files for successful and failed enrichment logging.
InteractionEvidenceLineParser - Class in psidev.psi.mi.jami.tab.io.parser: An extension of MitabLineParser that returns interactions evidences only.
InteractionEvidenceLineParser(InputStream) - Constructor for class psidev.psi.mi.jami.tab.io.parser.InteractionEvidenceLineParser: Constructor for InteractionEvidenceLineParser.
InteractionEvidenceLineParser(InputStream, String) - Constructor for class psidev.psi.mi.jami.tab.io.parser.InteractionEvidenceLineParser: Constructor for InteractionEvidenceLineParser.
InteractionEvidenceLineParser(Reader) - Constructor for class psidev.psi.mi.jami.tab.io.parser.InteractionEvidenceLineParser: Constructor for InteractionEvidenceLineParser.
InteractionEvidenceLineParser(MitabLineParserTokenManager) - Constructor for class psidev.psi.mi.jami.tab.io.parser.InteractionEvidenceLineParser: Constructor for InteractionEvidenceLineParser.
InteractionEvidenceMatrixExpansion - Class in psidev.psi.mi.jami.binary.expansion: Matrix expansion for InteractionEvidence
InteractionEvidenceMatrixExpansion() - Constructor for class psidev.psi.mi.jami.binary.expansion.InteractionEvidenceMatrixExpansion
InteractionEvidenceSource<T extends InteractionEvidence> - Interface in psidev.psi.mi.jami.datasource: A Data source of interaction evidences.
InteractionEvidenceSpokeExpansion - Class in psidev.psi.mi.jami.binary.expansion: Spoke expansion for interaction evidence
InteractionEvidenceSpokeExpansion() - Constructor for class psidev.psi.mi.jami.binary.expansion.InteractionEvidenceSpokeExpansion
InteractionEvidenceStream<T extends InteractionEvidence> - Interface in psidev.psi.mi.jami.datasource: A Data source of interaction evidences giving only a stream of interactions.
InteractionImexEnricherListener - Interface in psidev.psi.mi.jami.imex.listener: An extension of the ExperimentEnricherListener with specific methods related to the process of enriching.
InteractionInteractorComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Simple interaction comparator only based on the interactors of an interaction.
InteractionInteractorComparator(CollectionComparator<Participant>) - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.InteractionInteractorComparator: Constructor for InteractionInteractorComparator.
InteractionInteractorComparator(InteractorComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.InteractionInteractorComparator: Creates a new InteractionInteractorComparator
InteractionLineParser - Class in psidev.psi.mi.jami.tab.io.parser: An extension of MitabLineParser that returns simple interactions only.
InteractionLineParser(InputStream) - Constructor for class psidev.psi.mi.jami.tab.io.parser.InteractionLineParser: Constructor for InteractionLineParser.
InteractionLineParser(InputStream, String) - Constructor for class psidev.psi.mi.jami.tab.io.parser.InteractionLineParser: Constructor for InteractionLineParser.
InteractionLineParser(Reader) - Constructor for class psidev.psi.mi.jami.tab.io.parser.InteractionLineParser: Constructor for InteractionLineParser.
InteractionLineParser(MitabLineParserTokenManager) - Constructor for class psidev.psi.mi.jami.tab.io.parser.InteractionLineParser: Constructor for InteractionLineParser.
INTERACTIONLIST_TAG - Static variable in class psidev.psi.mi.jami.xml.utils.PsiXmlUtils: Constant INTERACTIONLIST_TAG="interactionList"
InteractionSource<T extends Interaction> - Interface in psidev.psi.mi.jami.datasource: A Data source of interactions.
InteractionStream<T extends Interaction> - Interface in psidev.psi.mi.jami.datasource: A Data source of interactions giving only a stream of interactions.
InteractionUtils - Class in psidev.psi.mi.jami.utils: Factory for experimental interactions
InteractionUtils() - Constructor for class psidev.psi.mi.jami.utils.InteractionUtils
InteractionViewerJson - Class in psidev.psi.mi.jami.json: This class is a central access to basic methods to register json writer.
InteractionViewerJson() - Constructor for class psidev.psi.mi.jami.json.InteractionViewerJson
InteractionWriter<T extends Interaction> - Interface in psidev.psi.mi.jami.datasource: The InteractionWriter can write interactions in a datasource (files, database)
InteractionWriterFactory - Class in psidev.psi.mi.jami.factory: A factory for InteractionWriter
InteractionWriterOptions - Class in psidev.psi.mi.jami.factory.options: Class that lists all possible options for InteractionWriter
InteractionWriterOptions() - Constructor for class psidev.psi.mi.jami.factory.options.InteractionWriterOptions
InteractionXrefContainer - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xref container for interactions
InteractionXrefContainer - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xref container for interactions
InteractionXrefContainer - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xref container for interactions
InteractionXrefContainer() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.InteractionXrefContainer
InteractionXrefContainer() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.InteractionXrefContainer
InteractionXrefContainer() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.InteractionXrefContainer
Interactor - Interface in psidev.psi.mi.jami.model: Molecule or complex of molecules that interacts with other molecules/complexes
INTERACTOR_FACTORY_OPTION_KEY - Static variable in class psidev.psi.mi.jami.factory.options.MIDataSourceOptions: The interactor factory used to create the proper interactor instance based on the interactor type and/or xrefs It must be an instance of InteractorFactory.
interactor_set - psidev.psi.mi.jami.factory.InteractorCategory
INTERACTOR_SET_QUALIFIER - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant INTERACTOR_SET_QUALIFIER="set member"
INTERACTOR_SET_QUALIFIER_MI - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant INTERACTOR_SET_QUALIFIER_MI="MI:1341"
INTERACTOR_TAG - Static variable in class psidev.psi.mi.jami.xml.utils.PsiXmlUtils: Constant INTERACTOR_TAG="interactor"
INTERACTOR_TYPE_A - psidev.psi.mi.jami.tab.MitabColumnName
INTERACTOR_TYPE_B - psidev.psi.mi.jami.tab.MitabColumnName
InteractorBaseComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: nteractor comparator It will only compare identifiers if one interactor does have identifiers using UnambiguousIdentifierComparator.
InteractorBaseComparator(Comparator<Xref>, AliasComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.InteractorBaseComparator: Constructor for InteractorBaseComparator.
InteractorBaseComparator(CollectionComparator<Xref>, CollectionComparator<Alias>) - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.InteractorBaseComparator: Constructor for InteractorBaseComparator.
InteractorCategory - Enum in psidev.psi.mi.jami.factory: Enum for interactor category
InteractorChangeListener<T extends Interactor> - Interface in psidev.psi.mi.jami.listener: A generic listener for an interactor.
InteractorChangeLogger<T extends Interactor> - Class in psidev.psi.mi.jami.listener.impl: This listener will just interactor change events
InteractorChangeLogger() - Constructor for class psidev.psi.mi.jami.listener.impl.InteractorChangeLogger
InteractorCloner - Class in psidev.psi.mi.jami.utils.clone: Cloner for interactors
InteractorCloner() - Constructor for class psidev.psi.mi.jami.utils.clone.InteractorCloner
InteractorComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Generic Interactor Comparator.
InteractorComparator(Comparator<Interactor>, Comparator<Complex>, Comparator<Polymer>, Comparator<BioactiveEntity>, Comparator<Gene>, Comparator<NucleicAcid>, Comparator<Protein>) - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.InteractorComparator: Creates a new InteractorComparator.
InteractorComparator(Comparator<Interactor>, Comparator<Complex>, Comparator<Polymer>, Comparator<BioactiveEntity>, Comparator<Gene>, Comparator<NucleicAcid>, Comparator<Protein>, Comparator<InteractorPool>) - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.InteractorComparator: Constructor for InteractorComparator.
InteractorEnricher<T extends Interactor> - Interface in psidev.psi.mi.jami.enricher: Interface for interactor enrichers.
InteractorEnricherListener<T extends Interactor> - Interface in psidev.psi.mi.jami.enricher.listener: Interface for interactor enricher listener
InteractorEnricherListenerManager<T extends Interactor> - Class in psidev.psi.mi.jami.enricher.listener.impl: Manager of interactor listeners
InteractorEnricherListenerManager() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.InteractorEnricherListenerManager: A constructor to create a listener manager with no listeners.
InteractorEnricherListenerManager(InteractorEnricherListener<T>...) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.InteractorEnricherListenerManager: A constructor to initiate a listener manager with as many listeners as required.
InteractorEnricherLogger<T extends Interactor> - Class in psidev.psi.mi.jami.enricher.listener.impl.log: Logger of interactor enrichment
InteractorEnricherLogger() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.log.InteractorEnricherLogger
InteractorEnricherStatisticsWriter<T extends Interactor> - Class in psidev.psi.mi.jami.enricher.listener.impl.writer: TODO comment this
InteractorEnricherStatisticsWriter() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractorEnricherStatisticsWriter: Uses the known name of the JamiObject type as the seed to generate names for the success an failure log files.
InteractorEnricherStatisticsWriter(File, File) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractorEnricherStatisticsWriter: Uses the exact files provided to log successful and failed enrichments.
InteractorEnricherStatisticsWriter(String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractorEnricherStatisticsWriter: Creates the files from the provided seed file name with 'success' and 'failure' appended.
InteractorEnricherStatisticsWriter(String, String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractorEnricherStatisticsWriter: Uses the provided names to create the files for successful and failed enrichment logging.
InteractorFactory - Interface in psidev.psi.mi.jami.factory: Interface for factories allowing creation of a proper interactor depending on the type and xrefs
InteractorFetcher - Interface in psidev.psi.mi.jami.bridges.fetcher: Fetches the complete records which match an interactor.
INTERACTORLIST_TAG - Static variable in class psidev.psi.mi.jami.xml.utils.PsiXmlUtils: Constant INTERACTORLIST_TAG="interactorList"
InteractorPool - Interface in psidev.psi.mi.jami.model: InteractorPool represents a collection of potential interactors but we cannot determine which one interacts.
InteractorPoolChangeListener - Interface in psidev.psi.mi.jami.listener: Listener of changes in interactor pool
InteractorPoolChangeLogger - Class in psidev.psi.mi.jami.listener.impl: This listener will just interactor pool change events
InteractorPoolChangeLogger() - Constructor for class psidev.psi.mi.jami.listener.impl.InteractorPoolChangeLogger
InteractorPoolComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Basic InteractorPoolComparator.
InteractorPoolComparator(InteractorComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.InteractorPoolComparator: Creates a new InteractorPoolComparator
InteractorPoolComparator(InteractorComparator, CollectionComparator<Interactor>) - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.InteractorPoolComparator: Creates a new InteractorPoolComparator
InteractorPoolEnricher - Interface in psidev.psi.mi.jami.enricher: The Interactor pool enricher is an enricher which can enrich either single interactor pool or a collection.
InteractorPoolEnricherListener - Interface in psidev.psi.mi.jami.enricher.listener: Interface for interactor pool enricher listener
InteractorPoolEnricherListenerManager - Class in psidev.psi.mi.jami.enricher.listener.impl: A manager for listeners which holds a list of listeners.
InteractorPoolEnricherListenerManager() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.InteractorPoolEnricherListenerManager: A constructor to create a listener manager with no listeners.
InteractorPoolEnricherListenerManager(InteractorPoolEnricherListener...) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.InteractorPoolEnricherListenerManager: A constructor to initiate a listener manager with as many listeners as required.
InteractorPoolEnricherLogger - Class in psidev.psi.mi.jami.enricher.listener.impl.log: A logging listener.
InteractorPoolEnricherLogger() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.log.InteractorPoolEnricherLogger
InteractorPoolEnricherStatisticsWriter - Class in psidev.psi.mi.jami.enricher.listener.impl.writer: A statistics logger which records changes made by the enricher.
InteractorPoolEnricherStatisticsWriter() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractorPoolEnricherStatisticsWriter: Uses the known name of the JamiObject type as the seed to generate names for the success an failure log files.
InteractorPoolEnricherStatisticsWriter(File, File) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractorPoolEnricherStatisticsWriter: Uses the exact files provided to log successful and failed enrichments.
InteractorPoolEnricherStatisticsWriter(String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractorPoolEnricherStatisticsWriter: Creates the files from the provided seed file name with 'success' and 'failure' appended.
InteractorPoolEnricherStatisticsWriter(String, String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractorPoolEnricherStatisticsWriter: Uses the provided names to create the files for successful and failed enrichment logging.
InteractorStream<T extends Interactor> - Interface in psidev.psi.mi.jami.datasource: An interactor data source allows to stream the interactors of a given dataSource
InteractorUtils - Class in psidev.psi.mi.jami.utils: Factory for interactors
InteractorUtils() - Constructor for class psidev.psi.mi.jami.utils.InteractorUtils
InteractorXrefContainer - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xref container for interactors
InteractorXrefContainer - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xref container for interactors
InteractorXrefContainer - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xref container for interactors
InteractorXrefContainer() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.InteractorXrefContainer
InteractorXrefContainer() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.InteractorXrefContainer
InteractorXrefContainer() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.InteractorXrefContainer
INTERNAL - Static variable in interface psidev.psi.mi.jami.imex.actions.PublicationIdentifierSynchronizer: Constant INTERNAL="jint"
INTERNAL_SERVER_ERROR - Static variable in interface psidev.psi.mi.jami.bridges.imex.ImexCentralClient: Constant INTERNAL_SERVER_ERROR=99
INTERNALLY_CURATED - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant INTERNALLY_CURATED="internally-curated"
INTERNALLY_CURATED_MI - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant INTERNALLY_CURATED_MI="MI:1055"
INTERPRO - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant INTERPRO="interpro"
INTERPRO_MI - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant INTERPRO_MI="MI:0449"
intValue() - Method in class psidev.psi.mi.jami.model.ParameterValue
IPI - psidev.psi.mi.jami.bridges.uniprot.rest.SearchDatabase
ipr - Variable in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.SeqFeatureType
IRIGID - Static variable in interface psidev.psi.mi.jami.model.Checksum: Constant IRIGID="irigid"
IROGID - Static variable in interface psidev.psi.mi.jami.model.Checksum: Constant IROGID="irogid"
isAnIdentifier(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.CvTermXrefContainer: isAnIdentifier.
isAnIdentifier(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.FeatureXrefContainer: isAnIdentifier.
isAnIdentifier(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.CvTermXrefContainer: isAnIdentifier.
isAnIdentifier(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.FeatureXrefContainer: isAnIdentifier.
isAnIdentifier(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.CvTermXrefContainer: isAnIdentifier.
isAnIdentifier(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.FeatureXrefContainer: isAnIdentifier.
isAnnotationAnInteractionTag(Annotation) - Static method in class psidev.psi.mi.jami.tab.utils.MitabUtils: To know if a publication annotation is an interactionTag
isAscending() - Method in class psidev.psi.mi.jami.utils.comparator.IntegerComparator: isAscending
isCertain(Position) - Static method in class psidev.psi.mi.jami.utils.PositionUtils: Check if a position is certain (MI:0335)
isCheckComplexesAsInteractors() - Method in interface psidev.psi.mi.jami.utils.comparator.participant.CustomizableModelledParticipantComparator: isCheckComplexesAsInteractors
isCheckComplexesAsInteractors() - Method in class psidev.psi.mi.jami.utils.comparator.participant.ModelledEntityComparator: isCheckComplexesAsInteractors
isCheckComplexesAsInteractors() - Method in class psidev.psi.mi.jami.utils.comparator.participant.ModelledParticipantComparator: isCheckComplexesAsInteractors
isCheckComplexesAsInteractors() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactModelledParticipantInteractorComparator: isCheckComplexesAsInteractors
isCheckComplexesAsInteractors() - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousModelledParticipantInteractorComparator: isCheckComplexesAsInteractors
isCheckingEnabled() - Method in class psidev.psi.mi.jami.bridges.mapper.mock.MockProteinMapper: isCheckingEnabled.
isCTerminal(Position) - Static method in class psidev.psi.mi.jami.utils.PositionUtils: Check if a position is C-terminal position (MI:0334)
isCTerminalRange(Position) - Static method in class psidev.psi.mi.jami.utils.PositionUtils: Check if a position is C-terminal range (MI:1039)
isCvTerm(CvTerm, String, String) - Static method in class psidev.psi.mi.jami.utils.CvTermUtils: Check if the CvTerm natches the MI term and/or the name if no MI term exist
isCvTermChildOf(OntologyTerm, String, String) - Static method in class psidev.psi.mi.jami.utils.OntologyTermUtils: Method to check if a Cv term is a child of a term having the given mi and/or name
isEmpty() - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipantPool: isEmpty
isEmpty() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractorPool: isEmpty
isEmpty() - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameterValueSet: isEmpty
isEmpty() - Method in class psidev.psi.mi.jami.utils.collection.AbstractCollectionWrapper: isEmpty
isEmpty() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractNamesContainer: isEmpty.
isEmpty() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: isEmpty.
isEmpty() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantPoolWrapper
isEmpty() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractorPool: isEmpty.
isEmpty() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantPoolWrapper
isEmpty() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XrefContainer: isEmpty.
isEmpty() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: isEmpty.
isEmpty() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantPoolWrapper
isEmpty() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractorPool: isEmpty.
isEmpty() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantPoolWrapper
isEmpty() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XrefContainer: isEmpty.
isEmpty() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: isEmpty.
isEmpty() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantPoolWrapper
isEmpty() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractorPool: isEmpty.
isEmpty() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantPoolWrapper
isEmpty() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameterValueSet: isEmpty.
isEmpty() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XrefContainer: isEmpty.
isEntitledToAssignImexId(Publication, ImexPublication) - Method in class psidev.psi.mi.jami.imex.ImexPublicationAssigner: isEntitledToAssignImexId.
isEntitledToImex(InteractionEvidence) - Method in interface psidev.psi.mi.jami.imex.actions.ImexAssigner: isEntitledToImex.
isEntitledToImex(InteractionEvidence) - Method in class psidev.psi.mi.jami.imex.actions.impl.ImexAssignerImpl: isEntitledToImex.
isFeatureRole(Annotation) - Static method in class psidev.psi.mi.jami.utils.FeatureUtils: isFeatureRole
isFileSignature(File, String) - Method in class psidev.psi.mi.jami.commons.MIFileAnalyzer: isFileSignature.
isFullEnrichment() - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorEnricher: isFullEnrichment.
isFullEnrichment() - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorUpdater: isFullEnrichment.
isFullEnrichment() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullBioactiveEntityEnricher: isFullEnrichment.
isFullEnrichment() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullBioactiveEntityUpdater: isFullEnrichment.
isFullEnrichment() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullGeneEnricher: isFullEnrichment.
isFullEnrichment() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullGeneUpdater: isFullEnrichment.
isFullEnrichment() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractorBaseEnricher: isFullEnrichment.
isFullEnrichment() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractorBaseUpdater: isFullEnrichment.
isFullEnrichment() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractorPoolEnricher: isFullEnrichment.
isFullEnrichment() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractorPoolUpdater: isFullEnrichment.
isFullEnrichment() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullProteinEnricher: isFullEnrichment.
isFullEnrichment() - Method in class psidev.psi.mi.jami.enricher.impl.full.FullProteinUpdater: isFullEnrichment.
isFullEnrichment() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalBioactiveEntityEnricher: isFullEnrichment.
isFullEnrichment() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalGeneEnricher: isFullEnrichment.
isFullEnrichment() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractorBaseEnricher: isFullEnrichment.
isFullEnrichment() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractorBaseUpdater: isFullEnrichment.
isFullEnrichment() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalProteinEnricher: isFullEnrichment.
isFuzzyRange(Position) - Static method in class psidev.psi.mi.jami.utils.PositionUtils: Check if a position is fuzzy range (MI:0338)
isGreaterThan(Position) - Static method in class psidev.psi.mi.jami.utils.PositionUtils: Check if a position is greater-than (MI:0336)
isIgnoreInteractors() - Method in class psidev.psi.mi.jami.utils.comparator.participant.EntityBaseComparator: isIgnoreInteractors
isIgnoreInteractors() - Method in class psidev.psi.mi.jami.utils.comparator.participant.ParticipantBaseComparator: isIgnoreInteractors
isIgnoreStoichiometry() - Method in class psidev.psi.mi.jami.utils.comparator.participant.EntityBaseComparator: isIgnoreStoichiometry
isIgnoreStoichiometry() - Method in class psidev.psi.mi.jami.utils.comparator.participant.ModelledComparableParticipantComparator
isIgnoreStoichiometry() - Method in class psidev.psi.mi.jami.utils.comparator.participant.ParticipantBaseComparator: isIgnoreStoichiometry
isInferred() - Method in class psidev.psi.mi.jami.binary.impl.BinaryInteractionEvidenceWrapper: isInferred
isInferred() - Method in class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: isInferred
isInferred() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: isInferred
isInferred() - Method in interface psidev.psi.mi.jami.model.InteractionEvidence: Boolean value to know if the interaction is inferred from multiple experiments which on their own would not support the interaction.
isInferred() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: isInferred.
isInferred() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: Boolean value to know if the interaction is inferred from multiple experiments which on their own would not support the interaction.
isInferred() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: isInferred.
isInferred() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: isInferred.
isInferred() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: isInferred.
isInitialised() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: isInitialised.
isInteractionExpandable(T) - Method in class psidev.psi.mi.jami.binary.expansion.AbstractComplexExpansionMethod: By default, a complex expansion can only expand interactions having at least one participant and where the provided interaction is not null.
isInteractionExpandable(T) - Method in interface psidev.psi.mi.jami.binary.expansion.ComplexExpansionMethod: Method to know if this ComplexExpansionMethod can expand the given Interaction
isIntraMolecular() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractExtendedXmlBinaryInteraction: isIntraMolecular.
isIntraMolecular() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteraction: isIntraMolecular.
isIntraMolecular() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: isIntraMolecular.
isIntraMolecular() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: isIntraMolecular.
isIntraMolecular() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: isIntraMolecular.
isIntraMolecular() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: isIntraMolecular.
isIntraMolecular() - Method in interface psidev.psi.mi.jami.xml.model.extension.PsiXmlInteraction: isIntraMolecular.
isIntraMolecular() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlBasicInteraction: isIntraMolecular.
isIntraMolecular() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: isIntraMolecular.
isIntraMolecular() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: isIntraMolecular.
isIntraMolecular() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: isIntraMolecular.
isIntraMolecular() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: isIntraMolecular.
isIntraMolecular() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlBasicInteraction: isIntraMolecular.
isIntraMolecular() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: isIntraMolecular.
isIntraMolecular() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: isIntraMolecular.
isIntraMolecular() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: isIntraMolecular.
isIntraMolecular() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: isIntraMolecular.
isIntraMolecular() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlBasicInteraction: isIntraMolecular.
isIntraMolecular() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: isIntraMolecular.
isIntraMolecular() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: isIntraMolecular.
isIntraMolecular() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: isIntraMolecular.
isIntraMolecular() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: isIntraMolecular.
isIntraMolecular() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: isIntraMolecular.
isIntraMolecular() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: isIntraMolecular.
isIntraMolecular() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: isIntraMolecular.
isLessThan(Position) - Static method in class psidev.psi.mi.jami.utils.PositionUtils: Check if a position is less-than (MI:0337)
isLink() - Method in class psidev.psi.mi.jami.model.impl.DefaultRange: isLink
isLink() - Method in interface psidev.psi.mi.jami.model.Range: Link boolean to know if two amino acids/nucleic acids are linked in the feature range (ex: disulfure bridges).
isLink() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlRange: Gets the value of the isLink property.
isLink() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlRange: Gets the value of the isLink property.
isLink() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlRange: Gets the value of the isLink property.
isModelled() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: isModelled.
isModelled() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: isModelled.
isModelled() - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlInteractionEvidence: isModelled.
isModelled() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: Gets the value of the modelled property.
isModelled() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: Gets the value of the modelled property.
isModelled() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: Gets the value of the modelled property.
isNegative() - Method in class psidev.psi.mi.jami.binary.impl.BinaryInteractionEvidenceWrapper: isNegative
isNegative() - Method in class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: isNegative
isNegative() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: isNegative
isNegative() - Method in interface psidev.psi.mi.jami.model.InteractionEvidence: Boolean value to know if an interaction is negative.
isNegative() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: isNegative.
isNegative() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: Boolean value to know if an interaction is negative.
isNegative() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: isNegative.
isNegative() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: isNegative.
isNegative() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: isNegative.
isNTerminal(Position) - Static method in class psidev.psi.mi.jami.utils.PositionUtils: Check if a position is N-terminal position (MI:0340)
isNTerminalRange(Position) - Static method in class psidev.psi.mi.jami.utils.PositionUtils: Check if a position is N-terminal range (MI:1040)
isObsolete(MIOntologyTermI) - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.AbstractMIOntologyAccess: isObsolete.
ISOFORM_PARENT - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant ISOFORM_PARENT="isoform-parent"
ISOFORM_PARENT_MI - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant ISOFORM_PARENT_MI="MI:0243"
ISOFORM_SYNONYM - Static variable in interface psidev.psi.mi.jami.model.Alias: Constant ISOFORM_SYNONYM="gene name synonym"
ISOFORM_SYNONYM_MI - Static variable in interface psidev.psi.mi.jami.model.Alias: Constant ISOFORM_SYNONYM_MI="MI:0304"
isOntologyUpToDate() - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.AbstractMIOntologyAccess: isOntologyUpToDate.
isOntologyUpToDate() - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.local.MILocalOntology: isOntologyUpToDate.
isOntologyUpToDate() - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.ols.MIOlsOntology: isOntologyUpToDate.
isParticipantAnAlternativeBaitForSpokeExpansion(Participant) - Static method in class psidev.psi.mi.jami.utils.ParticipantUtils: Check if the biological role of this participant is an alternative bait for spoke expansion in case there are no baits: donor or enzyme.
isParticipantEvidenceAnAlternativeBaitForSpokeExpansion(ParticipantEvidence) - Static method in class psidev.psi.mi.jami.utils.ParticipantUtils: Check if the experimental role of this participant is an alternative bait for spoke expansion in case there are no baits: fluorescence donor or suppressor gene.
isPositionUndetermined() - Method in class psidev.psi.mi.jami.model.impl.DefaultPosition: isPositionUndetermined
isPositionUndetermined() - Method in interface psidev.psi.mi.jami.model.Position: isPositionUndetermined
isPositionUndetermined() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlPosition: isPositionUndetermined.
isPositionUndetermined() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInterval: isPositionUndetermined.
isPositionUndetermined() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPosition: isPositionUndetermined.
isPositionUndetermined() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlPosition: isPositionUndetermined.
isPositionUndetermined() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInterval: isPositionUndetermined.
isPositionUndetermined() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPosition: isPositionUndetermined.
isPositionUndetermined() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlPosition: isPositionUndetermined.
isPositionUndetermined() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInterval: isPositionUndetermined.
isPositionUndetermined() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPosition: isPositionUndetermined.
isPriorityIdentifiers() - Method in class psidev.psi.mi.jami.bridges.mapper.mock.MockProteinMapper: isPriorityIdentifiers.
isPrioritySequence() - Method in class psidev.psi.mi.jami.bridges.mapper.mock.MockProteinMapper: isPrioritySequence.
isPublicationIdentifierInSyncWithImexCentral(String, String, ImexPublication) - Method in class psidev.psi.mi.jami.imex.actions.impl.PublicationIdentifierSynchronizerImpl: It will look at all identifiers attached to the record in IMEx central and see if the publication identifier is also attached to the IMEx record
isPublicationIdentifierInSyncWithImexCentral(String, String, ImexPublication) - Method in interface psidev.psi.mi.jami.imex.actions.PublicationIdentifierSynchronizer: It will look at all identifiers attached to the record in IMEx central and see if the publication identifier is also attached to the IMEx record
isPutativeSelfParticipant(Participant, boolean) - Static method in class psidev.psi.mi.jami.utils.ParticipantUtils: Method to know if a participant has a putative self biological role.
isPutativeSelfParticipantEvidence(ParticipantEvidence) - Static method in class psidev.psi.mi.jami.utils.ParticipantUtils: Method to know if a participant evidence has a putative self experimental or biological role
isRaggedNTerminal(Position) - Static method in class psidev.psi.mi.jami.utils.PositionUtils: Check if a position is ragged N-terminal position (MI:0341)
isSelfParticipant(Participant, boolean) - Static method in class psidev.psi.mi.jami.utils.ParticipantUtils: Method to know if a participant has a self biological role If checkParticipantEvidence is set to true, it will check if the given p is a ParticipantEvidence and look at the experimental role
isSelfParticipantEvidence(ParticipantEvidence) - Static method in class psidev.psi.mi.jami.utils.ParticipantUtils: Method to know if a participant evidence has a self experimental or biological role
isStarted() - Method in class psidev.psi.mi.jami.crosslink.io.parser.AbstractCsvInteractionEvidenceParser: isStarted.
isStarted() - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: isStarted.
isUndetermined(Position) - Static method in class psidev.psi.mi.jami.utils.PositionUtils: Check if a position is undetermined (MI:0339)
isUseTermSynonyms() - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.AbstractMIOntologyAccess: isUseTermSynonyms.
isUseTermSynonyms() - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.local.MILocalOntology: isUseTermSynonyms.
isWriteHeader() - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitab25BinaryWriter: isWriteHeader.
isWriteHeader() - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitabWriter: isWriteHeader.
isXrefAnIdentifier(Xref) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: Method to know if a Xref is a potential identifier.
isXrefFromDatabase(Xref, String, String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: Method to know if a Xref is from the same database (dbId is the MI identifier and dbName is the database shortname)
iterator() - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipantPool: iterator
iterator() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractorPool: iterator
iterator() - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameterValueSet: iterator
iterator() - Method in class psidev.psi.mi.jami.utils.collection.AbstractCollectionWrapper: iterator
iterator() - Method in class psidev.psi.mi.jami.utils.collection.AbstractListHavingProperties
iterator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: iterator.
iterator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantPoolWrapper
iterator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractorPool: iterator.
iterator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantPoolWrapper
iterator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: iterator.
iterator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantPoolWrapper
iterator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractorPool: iterator.
iterator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantPoolWrapper
iterator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: iterator.
iterator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantPoolWrapper
iterator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractorPool: iterator.
iterator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantPoolWrapper
iterator() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameterValueSet: iterator.
IteratorHavingProperties<T> - Class in psidev.psi.mi.jami.utils.collection: Iterator for list having properties
IteratorHavingProperties(AbstractListHavingProperties<T>, Iterator<T>) - Constructor for class psidev.psi.mi.jami.utils.collection.IteratorHavingProperties: Constructor for IteratorHavingProperties.
IteratorWrapper<T> - Class in psidev.psi.mi.jami.utils.collection: Iterator for list wrappers
IteratorWrapper(AbstractCollectionWrapper<T>, Iterator<T>) - Constructor for class psidev.psi.mi.jami.utils.collection.IteratorWrapper: Constructor for IteratorWrapper.
IUPAC - Static variable in interface psidev.psi.mi.jami.model.Alias: Constant IUPAC="iupac name"
IUPAC_MI - Static variable in interface psidev.psi.mi.jami.model.Alias: Constant IUPAC_MI="MI:2007"

J

JavaCharStream - Class in psidev.psi.mi.jami.tab.io.parser: An implementation of interface CharStream, where the stream is assumed to contain only ASCII characters (with java-like unicode escape processing).
JavaCharStream(InputStream) - Constructor for class psidev.psi.mi.jami.tab.io.parser.JavaCharStream: Constructor.
JavaCharStream(InputStream, int, int) - Constructor for class psidev.psi.mi.jami.tab.io.parser.JavaCharStream: Constructor.
JavaCharStream(InputStream, int, int, int) - Constructor for class psidev.psi.mi.jami.tab.io.parser.JavaCharStream: Constructor.
JavaCharStream(InputStream, String) - Constructor for class psidev.psi.mi.jami.tab.io.parser.JavaCharStream: Constructor.
JavaCharStream(InputStream, String, int, int) - Constructor for class psidev.psi.mi.jami.tab.io.parser.JavaCharStream: Constructor.
JavaCharStream(InputStream, String, int, int, int) - Constructor for class psidev.psi.mi.jami.tab.io.parser.JavaCharStream: Constructor.
JavaCharStream(Reader) - Constructor for class psidev.psi.mi.jami.tab.io.parser.JavaCharStream: Constructor.
JavaCharStream(Reader, int, int) - Constructor for class psidev.psi.mi.jami.tab.io.parser.JavaCharStream: Constructor.
JavaCharStream(Reader, int, int, int) - Constructor for class psidev.psi.mi.jami.tab.io.parser.JavaCharStream: Constructor.
JAXBAffectedInteractionRefWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect.JAXBAffectedInteractionRefWrapper
JAXBAnnotationsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml253.AbstractEntry.JAXBAnnotationsWrapper
JAXBAnnotationsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml254.AbstractEntry.JAXBAnnotationsWrapper
JAXBAnnotationsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml30.AbstractEntry.JAXBAnnotationsWrapper
JAXBAttributeList() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction.JAXBAttributeWrapper.JAXBAttributeList
JAXBAttributeList() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction.JAXBAttributeWrapper.JAXBAttributeList
JAXBAttributeList() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction.JAXBAttributeWrapper.JAXBAttributeList
JAXBAttributeWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm.JAXBAttributeWrapper
JAXBAttributeWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment.JAXBAttributeWrapper
JAXBAttributeWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature.JAXBAttributeWrapper
JAXBAttributeWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction.JAXBAttributeWrapper
JAXBAttributeWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractor.JAXBAttributeWrapper
JAXBAttributeWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant.JAXBAttributeWrapper
JAXBAttributeWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource.JAXBAttributeWrapper
JAXBAttributeWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef.JAXBAttributeWrapper
JAXBAttributeWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlXref.JAXBAttributeWrapper
JAXBAttributeWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm.JAXBAttributeWrapper
JAXBAttributeWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment.JAXBAttributeWrapper
JAXBAttributeWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature.JAXBAttributeWrapper
JAXBAttributeWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction.JAXBAttributeWrapper
JAXBAttributeWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractor.JAXBAttributeWrapper
JAXBAttributeWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant.JAXBAttributeWrapper
JAXBAttributeWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource.JAXBAttributeWrapper
JAXBAttributeWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef.JAXBAttributeWrapper
JAXBAttributeWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlXref.JAXBAttributeWrapper
JAXBAttributeWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect.JAXBAttributeWrapper
JAXBAttributeWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm.JAXBAttributeWrapper
JAXBAttributeWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment.JAXBAttributeWrapper
JAXBAttributeWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature.JAXBAttributeWrapper
JAXBAttributeWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction.JAXBAttributeWrapper
JAXBAttributeWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractor.JAXBAttributeWrapper
JAXBAttributeWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant.JAXBAttributeWrapper
JAXBAttributeWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource.JAXBAttributeWrapper
JAXBAttributeWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef.JAXBAttributeWrapper
JAXBAttributeWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBAttributeWrapper
JAXBAttributeWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlXref.JAXBAttributeWrapper
JAXBAvailabilitiesWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml253.ExperimentalEntry.JAXBAvailabilitiesWrapper
JAXBAvailabilitiesWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml254.ExperimentalEntry.JAXBAvailabilitiesWrapper
JAXBAvailabilitiesWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml30.Entry.JAXBAvailabilitiesWrapper
JAXBAvailabilitiesWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml30.ExperimentalEntry.JAXBAvailabilitiesWrapper
JAXBBindingFeaturesWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBBindingFeaturesWrapper
JAXBCausalRelationshipWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidence.JAXBCausalRelationshipWrapper
JAXBCausalRelationshipWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBCausalRelationshipWrapper
JAXBConfidenceWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment.JAXBConfidenceWrapper
JAXBConfidenceWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence.JAXBConfidenceWrapper
JAXBConfidenceWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction.JAXBConfidenceWrapper
JAXBConfidenceWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBConfidenceWrapper
JAXBConfidenceWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment.JAXBConfidenceWrapper
JAXBConfidenceWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence.JAXBConfidenceWrapper
JAXBConfidenceWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction.JAXBConfidenceWrapper
JAXBConfidenceWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBConfidenceWrapper
JAXBConfidenceWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment.JAXBConfidenceWrapper
JAXBConfidenceWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence.JAXBConfidenceWrapper
JAXBConfidenceWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction.JAXBConfidenceWrapper
JAXBConfidenceWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBConfidenceWrapper
JAXBConfidenceWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBConfidenceWrapper
JAXBCooperativeEffectWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBCooperativeEffectWrapper
JAXBCooperativityEvidenceWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect.JAXBCooperativityEvidenceWrapper
JAXBEvidenceMethodWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCooperativityEvidence.JAXBEvidenceMethodWrapper
JAXBExperimentalInteractorWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBExperimentalInteractorWrapper
JAXBExperimentalInteractorWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBExperimentalInteractorWrapper
JAXBExperimentalInteractorWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBExperimentalInteractorWrapper
JAXBExperimentalPreparationWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBExperimentalPreparationWrapper
JAXBExperimentalPreparationWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBExperimentalPreparationWrapper
JAXBExperimentalPreparationWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBExperimentalPreparationWrapper
JAXBExperimentalRoleWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBExperimentalRoleWrapper
JAXBExperimentalRoleWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBExperimentalRoleWrapper
JAXBExperimentalRoleWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBExperimentalRoleWrapper
JAXBExperimentRefWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.ExperimentalCvTerm.JAXBExperimentRefWrapper
JAXBExperimentRefWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.ExperimentalInteractor.JAXBExperimentRefWrapper
JAXBExperimentRefWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.HostOrganism.JAXBExperimentRefWrapper
JAXBExperimentRefWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.InferredInteraction.JAXBExperimentRefWrapper
JAXBExperimentRefWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlConfidence.JAXBExperimentRefWrapper
JAXBExperimentRefWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence.JAXBExperimentRefWrapper
JAXBExperimentRefWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.ExperimentalCvTerm.JAXBExperimentRefWrapper
JAXBExperimentRefWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.ExperimentalInteractor.JAXBExperimentRefWrapper
JAXBExperimentRefWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.HostOrganism.JAXBExperimentRefWrapper
JAXBExperimentRefWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.InferredInteraction.JAXBExperimentRefWrapper
JAXBExperimentRefWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlConfidence.JAXBExperimentRefWrapper
JAXBExperimentRefWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence.JAXBExperimentRefWrapper
JAXBExperimentRefWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.ExperimentalCvTerm.JAXBExperimentRefWrapper
JAXBExperimentRefWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.ExperimentalInteractor.JAXBExperimentRefWrapper
JAXBExperimentRefWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.HostOrganism.JAXBExperimentRefWrapper
JAXBExperimentRefWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.InferredInteraction.JAXBExperimentRefWrapper
JAXBExperimentRefWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlConfidence.JAXBExperimentRefWrapper
JAXBExperimentRefWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence.JAXBExperimentRefWrapper
JAXBExperimentsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml253.ComplexEntry.JAXBExperimentsWrapper
JAXBExperimentsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml253.ExperimentalEntry.JAXBExperimentsWrapper
JAXBExperimentsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml253.ModelledEntry.JAXBExperimentsWrapper
JAXBExperimentsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml254.ComplexEntry.JAXBExperimentsWrapper
JAXBExperimentsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml254.ExperimentalEntry.JAXBExperimentsWrapper
JAXBExperimentsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml254.ModelledEntry.JAXBExperimentsWrapper
JAXBExperimentsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml30.ComplexEntry.JAXBExperimentsWrapper
JAXBExperimentsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml30.Entry.JAXBExperimentsWrapper
JAXBExperimentsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml30.ExperimentalEntry.JAXBExperimentsWrapper
JAXBExperimentsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml30.ModelledEntry.JAXBExperimentsWrapper
JAXBExperimentWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence.JAXBExperimentWrapper
JAXBExperimentWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction.JAXBExperimentWrapper
JAXBExperimentWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence.JAXBExperimentWrapper
JAXBExperimentWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction.JAXBExperimentWrapper
JAXBExperimentWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence.JAXBExperimentWrapper
JAXBExperimentWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction.JAXBExperimentWrapper
JAXBExperimentWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidence.JAXBExperimentWrapper
JAXBFeatureWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity.JAXBFeatureWrapper
JAXBFeatureWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidate.JAXBFeatureWrapper
JAXBFeatureWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipant.JAXBFeatureWrapper
JAXBFeatureWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipantCandidate.JAXBFeatureWrapper
JAXBFeatureWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipant.JAXBFeatureWrapper
JAXBFeatureWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBFeatureWrapper
JAXBFeatureWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity.JAXBFeatureWrapper
JAXBFeatureWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidate.JAXBFeatureWrapper
JAXBFeatureWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipant.JAXBFeatureWrapper
JAXBFeatureWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipantCandidate.JAXBFeatureWrapper
JAXBFeatureWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipant.JAXBFeatureWrapper
JAXBFeatureWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBFeatureWrapper
JAXBFeatureWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity.JAXBFeatureWrapper
JAXBFeatureWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidate.JAXBFeatureWrapper
JAXBFeatureWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipant.JAXBFeatureWrapper
JAXBFeatureWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipantCandidate.JAXBFeatureWrapper
JAXBFeatureWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipant.JAXBFeatureWrapper
JAXBFeatureWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBFeatureWrapper
JAXBFeatureWrapper(List<F>) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity.JAXBFeatureWrapper
JAXBFeatureWrapper(List<F>) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity.JAXBFeatureWrapper
JAXBFeatureWrapper(List<F>) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity.JAXBFeatureWrapper
JAXBFeatureWrapper(List<ModelledFeature>) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipant.JAXBFeatureWrapper
JAXBFeatureWrapper(List<ModelledFeature>) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipantCandidate.JAXBFeatureWrapper
JAXBFeatureWrapper(List<ModelledFeature>) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipant.JAXBFeatureWrapper
JAXBFeatureWrapper(List<ModelledFeature>) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipantCandidate.JAXBFeatureWrapper
JAXBFeatureWrapper(List<ModelledFeature>) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipant.JAXBFeatureWrapper
JAXBFeatureWrapper(List<ModelledFeature>) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipantCandidate.JAXBFeatureWrapper
JAXBHostOrganismWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment.JAXBHostOrganismWrapper
JAXBHostOrganismWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBHostOrganismWrapper
JAXBHostOrganismWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment.JAXBHostOrganismWrapper
JAXBHostOrganismWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBHostOrganismWrapper
JAXBHostOrganismWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment.JAXBHostOrganismWrapper
JAXBHostOrganismWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBHostOrganismWrapper
JAXBInferredInteractionWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper
JAXBInferredInteractionWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper
JAXBInferredInteractionWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper
JAXBInteractionsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml253.AbstractEntry.JAXBInteractionsWrapper
JAXBInteractionsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml253.BasicEntry.JAXBInteractionsWrapper
JAXBInteractionsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml253.ComplexEntry.JAXBInteractionsWrapper
JAXBInteractionsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml253.ExperimentalEntry.JAXBInteractionsWrapper
JAXBInteractionsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml253.ModelledEntry.JAXBInteractionsWrapper
JAXBInteractionsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml254.AbstractEntry.JAXBInteractionsWrapper
JAXBInteractionsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml254.BasicEntry.JAXBInteractionsWrapper
JAXBInteractionsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml254.ComplexEntry.JAXBInteractionsWrapper
JAXBInteractionsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml254.ExperimentalEntry.JAXBInteractionsWrapper
JAXBInteractionsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml254.ModelledEntry.JAXBInteractionsWrapper
JAXBInteractionsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml30.AbstractEntry.JAXBInteractionsWrapper
JAXBInteractionsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml30.BasicEntry.JAXBInteractionsWrapper
JAXBInteractionsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml30.ComplexEntry.JAXBInteractionsWrapper
JAXBInteractionsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml30.Entry.JAXBInteractionsWrapper
JAXBInteractionsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml30.ExperimentalEntry.JAXBInteractionsWrapper
JAXBInteractionsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml30.ModelledEntry.JAXBInteractionsWrapper
JAXBInteractorCandidatesWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipant.JAXBInteractorCandidatesWrapper
JAXBInteractorCandidatesWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBInteractorCandidatesWrapper
JAXBInteractorCandidatesWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipant.JAXBInteractorCandidatesWrapper
JAXBInteractorCandidatesWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBInteractorCandidatesWrapper
JAXBInteractorCandidatesWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipant.JAXBInteractorCandidatesWrapper
JAXBInteractorCandidatesWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBInteractorCandidatesWrapper
JAXBInteractorCandidateWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant.JAXBInteractorCandidateWrapper
JAXBInteractorCandidateWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant.JAXBInteractorCandidateWrapper
JAXBInteractorCandidateWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant.JAXBInteractorCandidateWrapper
JAXBInteractorsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml253.AbstractEntry.JAXBInteractorsWrapper
JAXBInteractorsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml254.AbstractEntry.JAXBInteractorsWrapper
JAXBInteractorsWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.xml30.AbstractEntry.JAXBInteractorsWrapper
JAXBParameterWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence.JAXBParameterWrapper
JAXBParameterWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction.JAXBParameterWrapper
JAXBParameterWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence.JAXBParameterWrapper
JAXBParameterWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBParameterWrapper
JAXBParameterWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence.JAXBParameterWrapper
JAXBParameterWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction.JAXBParameterWrapper
JAXBParameterWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence.JAXBParameterWrapper
JAXBParameterWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBParameterWrapper
JAXBParameterWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence.JAXBParameterWrapper
JAXBParameterWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction.JAXBParameterWrapper
JAXBParameterWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence.JAXBParameterWrapper
JAXBParameterWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBParameterWrapper
JAXBParameterWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBParameterWrapper
JAXBParticipantIdentificationWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBParticipantIdentificationWrapper
JAXBParticipantIdentificationWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBParticipantIdentificationWrapper
JAXBParticipantIdentificationWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBParticipantIdentificationWrapper
JAXBParticipantWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlBasicInteraction.JAXBParticipantWrapper
JAXBParticipantWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction.JAXBParticipantWrapper
JAXBParticipantWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence.JAXBParticipantWrapper
JAXBParticipantWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction.JAXBParticipantWrapper
JAXBParticipantWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlBasicInteraction.JAXBParticipantWrapper
JAXBParticipantWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction.JAXBParticipantWrapper
JAXBParticipantWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence.JAXBParticipantWrapper
JAXBParticipantWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction.JAXBParticipantWrapper
JAXBParticipantWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlBasicInteraction.JAXBParticipantWrapper
JAXBParticipantWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction.JAXBParticipantWrapper
JAXBParticipantWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence.JAXBParticipantWrapper
JAXBParticipantWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction.JAXBParticipantWrapper
JAXBParticipantWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBParticipantWrapper
JAXBRangeWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature.JAXBRangeWrapper
JAXBRangeWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature.JAXBRangeWrapper
JAXBRangeWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature.JAXBRangeWrapper
JAXBSecondaryXrefList() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XrefContainer.JAXBSecondaryXrefList
JAXBSecondaryXrefList() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XrefContainer.JAXBSecondaryXrefList
JAXBSecondaryXrefList() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XrefContainer.JAXBSecondaryXrefList
JaxbUnmarshallerFactory - Class in psidev.psi.mi.jami.xml.io.parser: Factory to initialise JAXB context depending on the version and the interaction object category
JAXBVariableParameterValueSetWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidence.JAXBVariableParameterValueSetWrapper
JAXBVariableParameterValueSetWrapper(List<VariableParameterValueSet>) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidence.JAXBVariableParameterValueSetWrapper
JAXBVariableParameterWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment.JAXBVariableParameterWrapper
JAXBVariableParameterWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment.JAXBVariableParameterWrapper
JAXBVariableParameterWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment.JAXBVariableParameterWrapper
JAXBVariableParameterWrapper(List<VariableParameter>) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment.JAXBVariableParameterWrapper
JAXBVariableParameterWrapper(List<VariableParameter>) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment.JAXBVariableParameterWrapper
JAXBVariableParameterWrapper(List<VariableParameter>) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment.JAXBVariableParameterWrapper
JAXBVariableValueWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameter.JAXBVariableValueWrapper
JAXBVariableValueWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameter.JAXBVariableValueWrapper
JAXBVariableValueWrapper() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameter.JAXBVariableValueWrapper
JAXBVariableValueWrapper(List<VariableParameterValue>) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameter.JAXBVariableValueWrapper
JAXBVariableValueWrapper(List<VariableParameterValue>) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameter.JAXBVariableValueWrapper
JAXBVariableValueWrapper(List<VariableParameterValue>) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameter.JAXBVariableValueWrapper
jj_nt - Variable in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser: Next token.
jjFillToken() - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParserTokenManager
jjstrLiteralImages - Static variable in class psidev.psi.mi.jami.tab.io.parser.MitabLineParserTokenManager: Token literal values.
JPO - psidev.psi.mi.jami.bridges.uniprot.rest.SearchDatabase
JsonElementWriter<T> - Interface in psidev.psi.mi.jami.json.elements: JSON writer for JAMI objects
JsonRangeWriter - Interface in psidev.psi.mi.jami.json.elements: JSON writer for Range objects

K

kind - Variable in class psidev.psi.mi.jami.tab.io.parser.Token: An integer that describes the kind of this token.

L

last - Variable in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.DbReferenceType
LazyCvTerm - Class in psidev.psi.mi.jami.bridges.ols: A lazy cvTerm which will only fetch metadata when required.
LazyCvTerm(OLSClient, String, Xref, String) - Constructor for class psidev.psi.mi.jami.bridges.ols.LazyCvTerm: Constructor for LazyCvTerm.
LazyOntologyTerm - Class in psidev.psi.mi.jami.bridges.ols: A lazy ontology term, which only checks for parents of children when required.
LazyOntologyTerm(OLSClient, String, Xref, String) - Constructor for class psidev.psi.mi.jami.bridges.ols.LazyOntologyTerm: Constructor for LazyOntologyTerm.
LazySource - Class in psidev.psi.mi.jami.bridges.ols: A lazy cvTerm which will only fetch metadata when required.
LazySource(OLSClient, String, Xref, String) - Constructor for class psidev.psi.mi.jami.bridges.ols.LazySource: Constructor for LazySource.
LazyTermLoadingException - Exception in psidev.psi.mi.jami.bridges.ols: Exception thrown when a Lazy cv term cannot load the lazy data from OLS
LazyTermLoadingException() - Constructor for exception psidev.psi.mi.jami.bridges.ols.LazyTermLoadingException: Constructor for LazyTermLoadingException.
LazyTermLoadingException(String) - Constructor for exception psidev.psi.mi.jami.bridges.ols.LazyTermLoadingException: Constructor for LazyTermLoadingException.
LazyTermLoadingException(String, Throwable) - Constructor for exception psidev.psi.mi.jami.bridges.ols.LazyTermLoadingException: Constructor for LazyTermLoadingException.
LazyTermLoadingException(Throwable) - Constructor for exception psidev.psi.mi.jami.bridges.ols.LazyTermLoadingException: Constructor for LazyTermLoadingException.
lcn - Variable in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.SeqFeatureType
length - Variable in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Sequence
length1 - Variable in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch.Patch
length2 - Variable in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch.Patch
LESS_THAN - Static variable in interface psidev.psi.mi.jami.model.Position: Constant LESS_THAN="less-than"
LESS_THAN_FULL - Static variable in interface psidev.psi.mi.jami.model.Position: Constant LESS_THAN_FULL="less-than"
LESS_THAN_MI - Static variable in interface psidev.psi.mi.jami.model.Position: Constant LESS_THAN_MI="MI:0337"
LESS_THAN_POSITION_SYMBOL - Static variable in interface psidev.psi.mi.jami.model.Range: Constant LESS_THAN_POSITION_SYMBOL="<"
LEVEL_ATTRIBUTE - Static variable in class psidev.psi.mi.jami.xml.utils.PsiXmlUtils: Constant LEVEL_ATTRIBUTE="level"
LexicalError(boolean, int, int, int, String, char) - Static method in error psidev.psi.mi.jami.tab.io.parser.TokenMgrError: Returns a detailed message for the Error when it is thrown by the token manager to indicate a lexical error.
lexStateNames - Static variable in class psidev.psi.mi.jami.tab.io.parser.MitabLineParserTokenManager: Lexer state names.
LightCompactXmlBinaryWriter - Class in psidev.psi.mi.jami.xml.io.writer.compact.extended: Compact PSI-XML writer for light binary interactions (no experimental evidences)
LightCompactXmlBinaryWriter - Class in psidev.psi.mi.jami.xml.io.writer.compact: Compact PSI-XML writer for light binary interactions (no experimental evidences)
LightCompactXmlBinaryWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.LightCompactXmlBinaryWriter: Constructor for LightCompactXmlBinaryWriter.
LightCompactXmlBinaryWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.LightCompactXmlBinaryWriter: Constructor for LightCompactXmlBinaryWriter.
LightCompactXmlBinaryWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.LightCompactXmlBinaryWriter: Constructor for LightCompactXmlBinaryWriter.
LightCompactXmlBinaryWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.LightCompactXmlBinaryWriter: Constructor for LightCompactXmlBinaryWriter.
LightCompactXmlBinaryWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.LightCompactXmlBinaryWriter: Constructor for LightCompactXmlBinaryWriter.
LightCompactXmlBinaryWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.LightCompactXmlBinaryWriter: Constructor for LightCompactXmlBinaryWriter.
LightCompactXmlBinaryWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.LightCompactXmlBinaryWriter: Constructor for LightCompactXmlBinaryWriter.
LightCompactXmlBinaryWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.LightCompactXmlBinaryWriter: Constructor for LightCompactXmlBinaryWriter.
LightCompactXmlBinaryWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.LightCompactXmlBinaryWriter: Constructor for LightCompactXmlBinaryWriter.
LightCompactXmlBinaryWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.LightCompactXmlBinaryWriter: Constructor for LightCompactXmlBinaryWriter.
LightCompactXmlNamedBinaryWriter - Class in psidev.psi.mi.jami.xml.io.writer.compact: Compact PSI-XML writer for light binary interactions (no experimental evidences) having names.
LightCompactXmlNamedBinaryWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.LightCompactXmlNamedBinaryWriter: Constructor for LightCompactXmlNamedBinaryWriter.
LightCompactXmlNamedBinaryWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.LightCompactXmlNamedBinaryWriter: Constructor for LightCompactXmlNamedBinaryWriter.
LightCompactXmlNamedBinaryWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.LightCompactXmlNamedBinaryWriter: Constructor for LightCompactXmlNamedBinaryWriter.
LightCompactXmlNamedBinaryWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.LightCompactXmlNamedBinaryWriter: Constructor for LightCompactXmlNamedBinaryWriter.
LightCompactXmlNamedBinaryWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.LightCompactXmlNamedBinaryWriter: Constructor for LightCompactXmlNamedBinaryWriter.
LightCompactXmlNamedWriter - Class in psidev.psi.mi.jami.xml.io.writer.compact: Compact PSI-XML writer for light interactions (no experimental evidences) having names.
LightCompactXmlNamedWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.LightCompactXmlNamedWriter: Constructor for LightCompactXmlNamedWriter.
LightCompactXmlNamedWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.LightCompactXmlNamedWriter: Constructor for LightCompactXmlNamedWriter.
LightCompactXmlNamedWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.LightCompactXmlNamedWriter: Constructor for LightCompactXmlNamedWriter.
LightCompactXmlNamedWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.LightCompactXmlNamedWriter: Constructor for LightCompactXmlNamedWriter.
LightCompactXmlNamedWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.LightCompactXmlNamedWriter: Constructor for LightCompactXmlNamedWriter.
LightCompactXmlWriter - Class in psidev.psi.mi.jami.xml.io.writer.compact.extended: Compact PSI-XML writer for light interactions (no experimental evidences)
LightCompactXmlWriter - Class in psidev.psi.mi.jami.xml.io.writer.compact: Compact PSI-XML writer for light interactions (no experimental evidences)
LightCompactXmlWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.LightCompactXmlWriter: Constructor for LightCompactXmlWriter.
LightCompactXmlWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.LightCompactXmlWriter: Constructor for LightCompactXmlWriter.
LightCompactXmlWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.LightCompactXmlWriter: Constructor for LightCompactXmlWriter.
LightCompactXmlWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.LightCompactXmlWriter: Constructor for LightCompactXmlWriter.
LightCompactXmlWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.LightCompactXmlWriter: Constructor for LightCompactXmlWriter.
LightCompactXmlWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.LightCompactXmlWriter: Constructor for LightCompactXmlWriter.
LightCompactXmlWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.LightCompactXmlWriter: Constructor for LightCompactXmlWriter.
LightCompactXmlWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.LightCompactXmlWriter: Constructor for LightCompactXmlWriter.
LightCompactXmlWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.extended.LightCompactXmlWriter: Constructor for LightCompactXmlWriter.
LightCompactXmlWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.compact.LightCompactXmlWriter: Constructor for LightCompactXmlWriter.
LightExpandedXmlBinaryWriter - Class in psidev.psi.mi.jami.xml.io.writer.expanded.extended: Expanded PSI-XML writer for light binary interactions (no experimental evidences)
LightExpandedXmlBinaryWriter - Class in psidev.psi.mi.jami.xml.io.writer.expanded: Expanded PSI-XML writer for light binary interactions (no experimental evidences)
LightExpandedXmlBinaryWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.LightExpandedXmlBinaryWriter: Constructor for LightExpandedXmlBinaryWriter.
LightExpandedXmlBinaryWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.LightExpandedXmlBinaryWriter: Constructor for LightExpandedXmlBinaryWriter.
LightExpandedXmlBinaryWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.LightExpandedXmlBinaryWriter: Constructor for LightExpandedXmlBinaryWriter.
LightExpandedXmlBinaryWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.LightExpandedXmlBinaryWriter: Constructor for LightExpandedXmlBinaryWriter.
LightExpandedXmlBinaryWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.LightExpandedXmlBinaryWriter: Constructor for LightExpandedXmlBinaryWriter.
LightExpandedXmlBinaryWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.LightExpandedXmlBinaryWriter: Constructor for LightExpandedXmlBinaryWriter.
LightExpandedXmlBinaryWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.LightExpandedXmlBinaryWriter: Constructor for LightExpandedXmlBinaryWriter.
LightExpandedXmlBinaryWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.LightExpandedXmlBinaryWriter: Constructor for LightExpandedXmlBinaryWriter.
LightExpandedXmlBinaryWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.LightExpandedXmlBinaryWriter: Constructor for LightExpandedXmlBinaryWriter.
LightExpandedXmlBinaryWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.LightExpandedXmlBinaryWriter: Constructor for LightExpandedXmlBinaryWriter.
LightExpandedXmlNamedBinaryWriter - Class in psidev.psi.mi.jami.xml.io.writer.expanded: Expanded PSI-XML writer for light binary interactions (no experimental evidences) having names.
LightExpandedXmlNamedBinaryWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.LightExpandedXmlNamedBinaryWriter: Constructor for LightExpandedXmlNamedBinaryWriter.
LightExpandedXmlNamedBinaryWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.LightExpandedXmlNamedBinaryWriter: Constructor for LightExpandedXmlNamedBinaryWriter.
LightExpandedXmlNamedBinaryWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.LightExpandedXmlNamedBinaryWriter: Constructor for LightExpandedXmlNamedBinaryWriter.
LightExpandedXmlNamedBinaryWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.LightExpandedXmlNamedBinaryWriter: Constructor for LightExpandedXmlNamedBinaryWriter.
LightExpandedXmlNamedBinaryWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.LightExpandedXmlNamedBinaryWriter: Constructor for LightExpandedXmlNamedBinaryWriter.
LightExpandedXmlNamedWriter - Class in psidev.psi.mi.jami.xml.io.writer.expanded: Expanded PSI-XML writer for light interactions (no experimental evidences) having names.
LightExpandedXmlNamedWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.LightExpandedXmlNamedWriter: Constructor for LightExpandedXmlNamedWriter.
LightExpandedXmlNamedWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.LightExpandedXmlNamedWriter: Constructor for LightExpandedXmlNamedWriter.
LightExpandedXmlNamedWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.LightExpandedXmlNamedWriter: Constructor for LightExpandedXmlNamedWriter.
LightExpandedXmlNamedWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.LightExpandedXmlNamedWriter: Constructor for LightExpandedXmlNamedWriter.
LightExpandedXmlNamedWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.LightExpandedXmlNamedWriter: Constructor for LightExpandedXmlNamedWriter.
LightExpandedXmlWriter - Class in psidev.psi.mi.jami.xml.io.writer.expanded.extended: Expanded PSI-XML writer for light interactions (no experimental evidences)
LightExpandedXmlWriter - Class in psidev.psi.mi.jami.xml.io.writer.expanded: Expanded PSI-XML writer for light interactions (no experimental evidences)
LightExpandedXmlWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.LightExpandedXmlWriter: Constructor for LightExpandedXmlWriter.
LightExpandedXmlWriter(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.LightExpandedXmlWriter: Constructor for LightExpandedXmlWriter.
LightExpandedXmlWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.LightExpandedXmlWriter: Constructor for LightExpandedXmlWriter.
LightExpandedXmlWriter(PsiXmlVersion, File) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.LightExpandedXmlWriter: Constructor for LightExpandedXmlWriter.
LightExpandedXmlWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.LightExpandedXmlWriter: Constructor for LightExpandedXmlWriter.
LightExpandedXmlWriter(PsiXmlVersion, OutputStream) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.LightExpandedXmlWriter: Constructor for LightExpandedXmlWriter.
LightExpandedXmlWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.LightExpandedXmlWriter: Constructor for LightExpandedXmlWriter.
LightExpandedXmlWriter(PsiXmlVersion, Writer) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.LightExpandedXmlWriter: Constructor for LightExpandedXmlWriter.
LightExpandedXmlWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.extended.LightExpandedXmlWriter: Constructor for LightExpandedXmlWriter.
LightExpandedXmlWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.expanded.LightExpandedXmlWriter: Constructor for LightExpandedXmlWriter.
LightFullXmlBinaryParser - Class in psidev.psi.mi.jami.xml.io.parser: Full Parser generating basic binary interaction objects and ignoring all experimental details.
LightFullXmlBinaryParser(File) - Constructor for class psidev.psi.mi.jami.xml.io.parser.LightFullXmlBinaryParser: Constructor for LightFullXmlBinaryParser.
LightFullXmlBinaryParser(InputStream) - Constructor for class psidev.psi.mi.jami.xml.io.parser.LightFullXmlBinaryParser: Constructor for LightFullXmlBinaryParser.
LightFullXmlBinaryParser(Reader) - Constructor for class psidev.psi.mi.jami.xml.io.parser.LightFullXmlBinaryParser: Constructor for LightFullXmlBinaryParser.
LightFullXmlBinaryParser(URL) - Constructor for class psidev.psi.mi.jami.xml.io.parser.LightFullXmlBinaryParser: Constructor for LightFullXmlBinaryParser.
LightFullXmlParser - Class in psidev.psi.mi.jami.xml.io.parser: Full Parser generating basic interaction objects and ignore experimental details.
LightFullXmlParser(File) - Constructor for class psidev.psi.mi.jami.xml.io.parser.LightFullXmlParser: Constructor for LightFullXmlParser.
LightFullXmlParser(InputStream) - Constructor for class psidev.psi.mi.jami.xml.io.parser.LightFullXmlParser: Constructor for LightFullXmlParser.
LightFullXmlParser(Reader) - Constructor for class psidev.psi.mi.jami.xml.io.parser.LightFullXmlParser: Constructor for LightFullXmlParser.
LightFullXmlParser(URL) - Constructor for class psidev.psi.mi.jami.xml.io.parser.LightFullXmlParser: Constructor for LightFullXmlParser.
LightMIHtmlWriter - Class in psidev.psi.mi.jami.html: Writer for light interactions
LightMIHtmlWriter() - Constructor for class psidev.psi.mi.jami.html.LightMIHtmlWriter: Constructor for LightMIHtmlWriter.
LightMIHtmlWriter(File) - Constructor for class psidev.psi.mi.jami.html.LightMIHtmlWriter: Constructor for LightMIHtmlWriter.
LightMIHtmlWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.html.LightMIHtmlWriter: Constructor for LightMIHtmlWriter.
LightMIHtmlWriter(Writer) - Constructor for class psidev.psi.mi.jami.html.LightMIHtmlWriter: Constructor for LightMIHtmlWriter.
LightMIJsonBinaryWriter - Class in psidev.psi.mi.jami.json.binary: JSON writer for light interactions
LightMIJsonBinaryWriter() - Constructor for class psidev.psi.mi.jami.json.binary.LightMIJsonBinaryWriter: Constructor for LightMIJsonBinaryWriter.
LightMIJsonBinaryWriter(File, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.binary.LightMIJsonBinaryWriter: Constructor for LightMIJsonBinaryWriter.
LightMIJsonBinaryWriter(OutputStream, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.binary.LightMIJsonBinaryWriter: Constructor for LightMIJsonBinaryWriter.
LightMIJsonBinaryWriter(Writer, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.binary.LightMIJsonBinaryWriter: Constructor for LightMIJsonBinaryWriter.
LightMIJsonBinaryWriter(Writer, OntologyTermFetcher, Map<String, String>, Map<Feature, Integer>, Map<Entity, Integer>, IncrementalIdGenerator) - Constructor for class psidev.psi.mi.jami.json.binary.LightMIJsonBinaryWriter: Constructor for LightMIJsonBinaryWriter.
LightMIJsonBinaryWriter(Map<String, String>, Map<Feature, Integer>, Map<Entity, Integer>, IncrementalIdGenerator) - Constructor for class psidev.psi.mi.jami.json.binary.LightMIJsonBinaryWriter: Constructor for LightMIJsonBinaryWriter.
LightMIJsonWriter - Class in psidev.psi.mi.jami.json.binary: The jsonWriter which writes the light interactions
LightMIJsonWriter - Class in psidev.psi.mi.jami.json.nary: Abstract JSON writer for interactions (n-ary json format)
LightMIJsonWriter() - Constructor for class psidev.psi.mi.jami.json.binary.LightMIJsonWriter: Constructor for LightMIJsonWriter.
LightMIJsonWriter() - Constructor for class psidev.psi.mi.jami.json.nary.LightMIJsonWriter: Constructor for LightMIJsonWriter.
LightMIJsonWriter(File, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.binary.LightMIJsonWriter: Constructor for LightMIJsonWriter.
LightMIJsonWriter(File, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.nary.LightMIJsonWriter: Constructor for LightMIJsonWriter.
LightMIJsonWriter(File, OntologyTermFetcher, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.json.binary.LightMIJsonWriter: Constructor for LightMIJsonWriter.
LightMIJsonWriter(OutputStream, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.binary.LightMIJsonWriter: Constructor for LightMIJsonWriter.
LightMIJsonWriter(OutputStream, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.nary.LightMIJsonWriter: Constructor for LightMIJsonWriter.
LightMIJsonWriter(OutputStream, OntologyTermFetcher, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.json.binary.LightMIJsonWriter: Constructor for LightMIJsonWriter.
LightMIJsonWriter(Writer, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.binary.LightMIJsonWriter: Constructor for LightMIJsonWriter.
LightMIJsonWriter(Writer, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.nary.LightMIJsonWriter: Constructor for LightMIJsonWriter.
LightMIJsonWriter(Writer, OntologyTermFetcher, Map<String, String>, Map<Feature, Integer>, Map<Entity, Integer>, IncrementalIdGenerator) - Constructor for class psidev.psi.mi.jami.json.nary.LightMIJsonWriter: Constructor for LightMIJsonWriter.
LightMIJsonWriter(Writer, OntologyTermFetcher, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.json.binary.LightMIJsonWriter: Constructor for LightMIJsonWriter.
LightMIJsonWriter(Map<String, String>, Map<Feature, Integer>, Map<Entity, Integer>, IncrementalIdGenerator) - Constructor for class psidev.psi.mi.jami.json.nary.LightMIJsonWriter: Constructor for LightMIJsonWriter.
LightMitab25BinaryWriter - Class in psidev.psi.mi.jami.tab.io.writer: Mitab 2.5 writer for light binary interactions (no experimental details)
LightMitab25BinaryWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab25BinaryWriter: Constructor for LightMitab25BinaryWriter.
LightMitab25BinaryWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab25BinaryWriter: Constructor for LightMitab25BinaryWriter.
LightMitab25BinaryWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab25BinaryWriter: Constructor for LightMitab25BinaryWriter.
LightMitab25BinaryWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab25BinaryWriter: Constructor for LightMitab25BinaryWriter.
LightMitab25Writer - Class in psidev.psi.mi.jami.tab.io.writer: The mitab 2.5 writer for light Interaction (no experimental details)
LightMitab25Writer() - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab25Writer: Constructor for LightMitab25Writer.
LightMitab25Writer(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab25Writer: Constructor for LightMitab25Writer.
LightMitab25Writer(File, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab25Writer: Constructor for LightMitab25Writer.
LightMitab25Writer(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab25Writer: Constructor for LightMitab25Writer.
LightMitab25Writer(OutputStream, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab25Writer: Constructor for LightMitab25Writer.
LightMitab25Writer(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab25Writer: Constructor for LightMitab25Writer.
LightMitab25Writer(Writer, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab25Writer: Constructor for LightMitab25Writer.
LightMitab26BinaryWriter - Class in psidev.psi.mi.jami.tab.io.writer: Mitab 2.6 writer for light binary interactions
LightMitab26BinaryWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab26BinaryWriter: Constructor for LightMitab26BinaryWriter.
LightMitab26BinaryWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab26BinaryWriter: Constructor for LightMitab26BinaryWriter.
LightMitab26BinaryWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab26BinaryWriter: Constructor for LightMitab26BinaryWriter.
LightMitab26BinaryWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab26BinaryWriter: Constructor for LightMitab26BinaryWriter.
LightMitab26Writer - Class in psidev.psi.mi.jami.tab.io.writer: Mitab 2.6 writer for light interaction
LightMitab26Writer() - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab26Writer: Constructor for LightMitab26Writer.
LightMitab26Writer(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab26Writer: Constructor for LightMitab26Writer.
LightMitab26Writer(File, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab26Writer: Constructor for LightMitab26Writer.
LightMitab26Writer(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab26Writer: Constructor for LightMitab26Writer.
LightMitab26Writer(OutputStream, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab26Writer: Constructor for LightMitab26Writer.
LightMitab26Writer(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab26Writer: Constructor for LightMitab26Writer.
LightMitab26Writer(Writer, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab26Writer: Constructor for LightMitab26Writer.
LightMitab27BinaryWriter - Class in psidev.psi.mi.jami.tab.io.writer: Mitab 2.7 writer for light binary interactions
LightMitab27BinaryWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab27BinaryWriter: Constructor for LightMitab27BinaryWriter.
LightMitab27BinaryWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab27BinaryWriter: Constructor for LightMitab27BinaryWriter.
LightMitab27BinaryWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab27BinaryWriter: Constructor for LightMitab27BinaryWriter.
LightMitab27BinaryWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab27BinaryWriter: Constructor for LightMitab27BinaryWriter.
LightMitab27Writer - Class in psidev.psi.mi.jami.tab.io.writer: Mitab 2.7 writer for light interaction
LightMitab27Writer() - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab27Writer: Constructor for LightMitab27Writer.
LightMitab27Writer(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab27Writer: Constructor for LightMitab27Writer.
LightMitab27Writer(File, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab27Writer: Constructor for LightMitab27Writer.
LightMitab27Writer(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab27Writer: Constructor for LightMitab27Writer.
LightMitab27Writer(OutputStream, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab27Writer: Constructor for LightMitab27Writer.
LightMitab27Writer(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab27Writer: Constructor for LightMitab27Writer.
LightMitab27Writer(Writer, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab27Writer: Constructor for LightMitab27Writer.
LightMitab28BinaryWriter - Class in psidev.psi.mi.jami.tab.io.writer: Mitab 2.8 writer for light binary interactions
LightMitab28BinaryWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab28BinaryWriter: Constructor for LightMitab28BinaryWriter.
LightMitab28BinaryWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab28BinaryWriter: Constructor for LightMitab28BinaryWriter.
LightMitab28BinaryWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab28BinaryWriter: Constructor for LightMitab28BinaryWriter.
LightMitab28BinaryWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab28BinaryWriter: Constructor for LightMitab28BinaryWriter.
LightMitab28Writer - Class in psidev.psi.mi.jami.tab.io.writer: Mitab 2.8 writer for light interaction
LightMitab28Writer() - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab28Writer: Constructor for LightMitab28Writer.
LightMitab28Writer(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab28Writer: Constructor for LightMitab28Writer.
LightMitab28Writer(File, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab28Writer: Constructor for LightMitab28Writer.
LightMitab28Writer(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab28Writer: Constructor for LightMitab28Writer.
LightMitab28Writer(OutputStream, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab28Writer: Constructor for LightMitab28Writer.
LightMitab28Writer(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab28Writer: Constructor for LightMitab28Writer.
LightMitab28Writer(Writer, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.LightMitab28Writer: Constructor for LightMitab28Writer.
LightMitabBinarySource - Class in psidev.psi.mi.jami.tab.extension.datasource: A mitab datasource that loads very basic binary interactions and ignore experimental details, source, confidence and experimental details.
LightMitabBinarySource() - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.LightMitabBinarySource: Constructor for LightMitabBinarySource.
LightMitabBinarySource(File) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.LightMitabBinarySource: Constructor for LightMitabBinarySource.
LightMitabBinarySource(InputStream) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.LightMitabBinarySource: Constructor for LightMitabBinarySource.
LightMitabBinarySource(Reader) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.LightMitabBinarySource: Constructor for LightMitabBinarySource.
LightMitabBinaryStreamSource - Class in psidev.psi.mi.jami.tab.extension.datasource: A mitab datasource that loads very basic binary interactions and ignore experimental details, source, confidence and experimental details It only provides an iterator of binary interactions
LightMitabBinaryStreamSource() - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.LightMitabBinaryStreamSource: Constructor for LightMitabBinaryStreamSource.
LightMitabBinaryStreamSource(File) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.LightMitabBinaryStreamSource: Constructor for LightMitabBinaryStreamSource.
LightMitabBinaryStreamSource(InputStream) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.LightMitabBinaryStreamSource: Constructor for LightMitabBinaryStreamSource.
LightMitabBinaryStreamSource(Reader) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.LightMitabBinaryStreamSource: Constructor for LightMitabBinaryStreamSource.
LightMitabSource - Class in psidev.psi.mi.jami.tab.extension.datasource: A mitab datasource that loads very basic interactions and ignore experimental details, source, confidence and experimental details It will load the full interaction set.
LightMitabSource() - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.LightMitabSource: Constructor for LightMitabSource.
LightMitabSource(File) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.LightMitabSource: Constructor for LightMitabSource.
LightMitabSource(InputStream) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.LightMitabSource: Constructor for LightMitabSource.
LightMitabSource(Reader) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.LightMitabSource: Constructor for LightMitabSource.
LightMitabStreamSource - Class in psidev.psi.mi.jami.tab.extension.datasource: A mitab datasource that loads very basic interactions and ignore experimental details, source, confidence and experimental details It will only provide an iterator of interactions.
LightMitabStreamSource() - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.LightMitabStreamSource: Constructor for LightMitabStreamSource.
LightMitabStreamSource(File) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.LightMitabStreamSource: Constructor for LightMitabStreamSource.
LightMitabStreamSource(InputStream) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.LightMitabStreamSource: Constructor for LightMitabStreamSource.
LightMitabStreamSource(Reader) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.LightMitabStreamSource: Constructor for LightMitabStreamSource.
LightXmlBinaryParser - Class in psidev.psi.mi.jami.xml.io.parser: Xml parser creating light binary interactions and ignoring experimental details
LightXmlBinaryParser(File) - Constructor for class psidev.psi.mi.jami.xml.io.parser.LightXmlBinaryParser: Constructor for LightXmlBinaryParser.
LightXmlBinaryParser(InputStream) - Constructor for class psidev.psi.mi.jami.xml.io.parser.LightXmlBinaryParser: Constructor for LightXmlBinaryParser.
LightXmlBinaryParser(Reader) - Constructor for class psidev.psi.mi.jami.xml.io.parser.LightXmlBinaryParser: Constructor for LightXmlBinaryParser.
LightXmlBinaryParser(URL) - Constructor for class psidev.psi.mi.jami.xml.io.parser.LightXmlBinaryParser: Constructor for LightXmlBinaryParser.
LightXmlBinarySource - Class in psidev.psi.mi.jami.xml.model.extension.datasource: PSI-XML data source that provides light binary interactions (no experimental details).
LightXmlBinarySource() - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlBinarySource: Constructor for LightXmlBinarySource.
LightXmlBinarySource(File) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlBinarySource: Constructor for LightXmlBinarySource.
LightXmlBinarySource(InputStream) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlBinarySource: Constructor for LightXmlBinarySource.
LightXmlBinarySource(Reader) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlBinarySource: Constructor for LightXmlBinarySource.
LightXmlBinarySource(URL) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlBinarySource: Constructor for LightXmlBinarySource.
LightXmlBinaryStreamSource - Class in psidev.psi.mi.jami.xml.model.extension.datasource: Psi-XML binary interaction datasource
LightXmlBinaryStreamSource() - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlBinaryStreamSource: Constructor for LightXmlBinaryStreamSource.
LightXmlBinaryStreamSource(File) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlBinaryStreamSource: Constructor for LightXmlBinaryStreamSource.
LightXmlBinaryStreamSource(InputStream) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlBinaryStreamSource: Constructor for LightXmlBinaryStreamSource.
LightXmlBinaryStreamSource(Reader) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlBinaryStreamSource: Constructor for LightXmlBinaryStreamSource.
LightXmlBinaryStreamSource(URL) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlBinaryStreamSource: Constructor for LightXmlBinaryStreamSource.
LightXmlParser - Class in psidev.psi.mi.jami.xml.io.parser: Parser generating basic interaction objects and ignore experimental details
LightXmlParser(File) - Constructor for class psidev.psi.mi.jami.xml.io.parser.LightXmlParser: Constructor for LightXmlParser.
LightXmlParser(InputStream) - Constructor for class psidev.psi.mi.jami.xml.io.parser.LightXmlParser: Constructor for LightXmlParser.
LightXmlParser(Reader) - Constructor for class psidev.psi.mi.jami.xml.io.parser.LightXmlParser: Constructor for LightXmlParser.
LightXmlParser(URL) - Constructor for class psidev.psi.mi.jami.xml.io.parser.LightXmlParser: Constructor for LightXmlParser.
LightXmlSource - Class in psidev.psi.mi.jami.xml.model.extension.datasource: PSI-XML data source that provides light interactions (no experimental details).
LightXmlSource() - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlSource: Constructor for LightXmlSource.
LightXmlSource(File) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlSource: Constructor for LightXmlSource.
LightXmlSource(InputStream) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlSource: Constructor for LightXmlSource.
LightXmlSource(Reader) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlSource: Constructor for LightXmlSource.
LightXmlSource(URL) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlSource: Constructor for LightXmlSource.
LightXmlStreamSource - Class in psidev.psi.mi.jami.xml.model.extension.datasource: Datasource for PSI-xml returning basic interactions
LightXmlStreamSource() - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlStreamSource: Constructor for LightXmlStreamSource.
LightXmlStreamSource(File) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlStreamSource: Constructor for LightXmlStreamSource.
LightXmlStreamSource(InputStream) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlStreamSource: Constructor for LightXmlStreamSource.
LightXmlStreamSource(Reader) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlStreamSource: Constructor for LightXmlStreamSource.
LightXmlStreamSource(URL) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.LightXmlStreamSource: Constructor for LightXmlStreamSource.
line - Variable in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream
line - Variable in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream
LINE_BREAK - Static variable in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Constant LINE_BREAK="\n"
LINE_BREAK - Static variable in class psidev.psi.mi.jami.bridges.obo.OntologyOboLoader: Constant LINE_BREAK="\n"
LINE_BREAK - Static variable in class psidev.psi.mi.jami.bridges.ols.utils.OlsUtils: Constant LINE_BREAK="System.getProperty(line.separator)"
LINE_BREAK - Static variable in class psidev.psi.mi.jami.tab.utils.MitabUtils: Constant LINE_BREAK="System.getProperty(line.separator)"
LINE_BREAK - Static variable in class psidev.psi.mi.jami.xml.utils.PsiXmlUtils: Constant LINE_BREAK="\n"
LINE_SEPARATOR - psidev.psi.mi.jami.tab.io.parser.TokenKind
LINE_SEPARATOR - Static variable in class psidev.psi.mi.jami.json.MIJsonUtils: Constant LINE_SEPARATOR="System.getProperty(line.separator)"
LINE_SEPARATOR - Static variable in interface psidev.psi.mi.jami.tab.io.parser.MitabLineParserConstants: RegularExpression Id.
linkpos1 - psidev.psi.mi.jami.crosslink.io.parser.CrossLinkCSVColumns
linkpos2 - psidev.psi.mi.jami.crosslink.io.parser.CrossLinkCSVColumns
listIterator() - Method in class psidev.psi.mi.jami.utils.collection.AbstractListHavingProperties
listIterator(int) - Method in class psidev.psi.mi.jami.utils.collection.AbstractListHavingProperties
ListIteratorHavingProperties<T> - Class in psidev.psi.mi.jami.utils.collection: Iterator for list having properties
ListIteratorHavingProperties(AbstractListHavingProperties<T>, ListIterator<T>) - Constructor for class psidev.psi.mi.jami.utils.collection.ListIteratorHavingProperties: Constructor for ListIteratorHavingProperties.
ListUtils - Class in psidev.psi.mi.jami.utils.collection: A utility class for lists
ListUtils() - Constructor for class psidev.psi.mi.jami.utils.collection.ListUtils
loadEntry(XmlEntryContext, T) - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: Some interactions contains references and we want to load the remaining interactions until the end of the entry
loadOntology(String, String, String, String, URI) - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.AbstractMIOntologyAccess
loadOntology(String, String, String, String, URI) - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.local.MILocalOntology
loadOntology(String, String, String, String, URI) - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.ols.MIOlsOntology
loadProperties(Properties) - Method in class psidev.psi.mi.jami.factory.DefaultInteractorFactory: Loads the properties in the deterministicInteractorMap
localMap - Variable in class psidev.psi.mi.jami.bridges.fetcher.mock.AbstractMockFetcher
LocationType - Class in psidev.psi.mi.jami.bridges.uniprot.rest.response.model: Java class for locationType complex type.
LocationType() - Constructor for class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.LocationType
locator - Variable in class psidev.psi.mi.jami.xml.model.extension.AbstractAvailability
locator - Variable in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor
locator - Variable in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlAnnotation
locator - Variable in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlBasicInteraction
locator - Variable in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment
locator - Variable in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence
locator - Variable in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction
locator - Variable in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource
locator - Variable in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipant
locator - Variable in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipantCandidate
locator - Variable in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlAnnotation
locator - Variable in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlBasicInteraction
locator - Variable in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment
locator - Variable in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence
locator - Variable in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction
locator - Variable in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource
locator - Variable in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipant
locator - Variable in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipantCandidate
locator - Variable in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlAnnotation
locator - Variable in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlBasicInteraction
locator - Variable in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment
locator - Variable in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence
locator - Variable in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction
locator - Variable in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource
locator - Variable in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction
locator - Variable in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipant
locator - Variable in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipantCandidate
LOCUS_NAME - Static variable in interface psidev.psi.mi.jami.model.Alias: Constant LOCUS_NAME="locus name"
LOCUS_NAME_MI - Static variable in interface psidev.psi.mi.jami.model.Alias: Constant LOCUS_NAME_MI="MI:0305"
log - Static variable in class psidev.psi.mi.jami.bridges.europubmedcentral.EuroPubmedCentralFetcher: Constant log
log - Static variable in class psidev.psi.mi.jami.bridges.mapper.listener.ProteinMappingLogger: Constant log
log - Static variable in class psidev.psi.mi.jami.bridges.mapper.listener.ProteinMappingStatisticsWriter: Constant log
log - Static variable in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Sets up a logger for that class.
log - Variable in class psidev.psi.mi.jami.bridges.ols.LazyCvTerm
log - Variable in class psidev.psi.mi.jami.bridges.ols.LazyOntologyTerm
log - Variable in class psidev.psi.mi.jami.bridges.ols.LazySource
log - Static variable in class psidev.psi.mi.jami.bridges.ontologymanager.impl.AbstractMIOntologyAccess: Constant log
log - Static variable in class psidev.psi.mi.jami.bridges.ontologymanager.impl.local.MILocalOntology: Constant log
log - Static variable in class psidev.psi.mi.jami.bridges.ontologymanager.impl.ols.MIOlsOntology: Constant log
log - Static variable in class psidev.psi.mi.jami.bridges.uniprot.rest.UniprotProteinAPIClient: Sets up a logger for that class.
longValue() - Method in class psidev.psi.mi.jami.model.ParameterValue

M

main(String[]) - Static method in class psidev.psi.mi.jami.batch.MIBatchJobManager: main.
main(String[]) - Static method in class psidev.psi.mi.jami.examples.bridges.FetchDataFromChebi: main.
main(String[]) - Static method in class psidev.psi.mi.jami.examples.core.BuildBindingSitesCliqueGraph: main.
main(String[]) - Static method in class psidev.psi.mi.jami.examples.core.ComplexExpansionWithJami: main.
main(String[]) - Static method in class psidev.psi.mi.jami.examples.core.CreateRogidAndRigid: main.
main(String[]) - Static method in class psidev.psi.mi.jami.examples.core.ReadWriteWithJami: main.
main(String[]) - Static method in class psidev.psi.mi.jami.examples.crosslinkCSV.ReadWriteCrosslinkCsvWithJami: main.
main(String[]) - Static method in class psidev.psi.mi.jami.examples.html.ReadWriteHtmlWithJami: main.
main(String[]) - Static method in class psidev.psi.mi.jami.examples.interactionviewer.ReadWriteJsonWithJami: main.
main(String[]) - Static method in class psidev.psi.mi.jami.utils.checksum.Base64: Encodes or decodes two files from the command line; feel free to delete this method (in fact you probably should) if you're embedding this code into a larger program.
maintainProteinComparableParticipantMap(Map<String, ModelledComparableParticipant>, ModelledParticipant...) - Static method in class psidev.psi.mi.jami.utils.ComplexUtils
map(Protein) - Method in class psidev.psi.mi.jami.bridges.mapper.mock.MockProteinMapper: Will remap the protein using the settings provided.
map(Protein) - Method in interface psidev.psi.mi.jami.bridges.mapper.ProteinMapper: Will remap the protein using the settings provided.
mark(int) - Method in class psidev.psi.mi.jami.xml.io.parser.NonCloseableInputStreamWrapper
markSupported() - Method in class psidev.psi.mi.jami.xml.io.parser.NonCloseableInputStreamWrapper
match_alphabet(String) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch: Initialise the alphabet for the Bitap algorithm.
Match_Balance - Variable in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch
match_bitap(String, String, int) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch: Locate the best instance of 'pattern' in 'text' near 'loc' using the Bitap algorithm.
match_main(String, String, int) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch: Locate the best instance of 'pattern' in 'text' near 'loc'.
Match_MaxLength - Variable in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch
Match_MinLength - Variable in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch
Match_Threshold - Variable in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch
matrix - psidev.psi.mi.jami.factory.ComplexExpansionType
MATRIX - Static variable in interface psidev.psi.mi.jami.binary.expansion.ComplexExpansionMethod: Constant MATRIX="matrix expansion"
MATRIX_EXPANSION - Static variable in interface psidev.psi.mi.jami.binary.expansion.ComplexExpansionMethod: Constant MATRIX_EXPANSION="matrix expansion"
MATRIX_EXPANSION - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant MATRIX_EXPANSION="matrix expansion"
MATRIX_EXPANSION_MI - Static variable in interface psidev.psi.mi.jami.binary.expansion.ComplexExpansionMethod: Constant MATRIX_EXPANSION_MI="MI:1061"
MATRIX_EXPANSION_MI - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant MATRIX_EXPANSION_MI="MI:1061"
MatrixExpansion - Class in psidev.psi.mi.jami.binary.expansion: The matrix Expansion method.
MatrixExpansion() - Constructor for class psidev.psi.mi.jami.binary.expansion.MatrixExpansion: Constructor for MatrixExpansion.
maxNextCharInd - Variable in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream
maxNextCharInd - Variable in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream
mergeAliases(T, Collection<Alias>, Collection<Alias>, boolean, AliasesChangeListener<T>) - Static method in class psidev.psi.mi.jami.enricher.util.EnricherUtils: mergeAliases.
mergeAnnotations(T, Collection<Annotation>, Collection<Annotation>, boolean, AnnotationsChangeListener<T>) - Static method in class psidev.psi.mi.jami.enricher.util.EnricherUtils: mergeAnnotations.
mergeCausalRelationships(Entity, Collection<CausalRelationship>, Collection<CausalRelationship>, boolean, EntityChangeListener) - Static method in class psidev.psi.mi.jami.enricher.util.EnricherUtils: mergeCausalRelationships.
mergeChecksums(T, Collection<Checksum>, Collection<Checksum>, boolean, ChecksumsChangeListener<T>) - Static method in class psidev.psi.mi.jami.enricher.util.EnricherUtils: mergeChecksums.
mergeConfidences(T, Collection<C>, Collection<C>, boolean, ConfidencesChangeListener<T>) - Static method in class psidev.psi.mi.jami.enricher.util.EnricherUtils: mergeConfidences.
mergeCooperativeEffects(I, I, boolean) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullModelledInteractionEnricher: mergeCooperativeEffects.
mergeDetectionMethods(FeatureEvidence, Collection<CvTerm>, Collection<CvTerm>, boolean) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEvidenceEnricher: Takes two lists of detection methods and produces a list of those to add and those to remove.
mergeExperimentalPreparations(P, Collection<CvTerm>, Collection<CvTerm>, boolean) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEvidenceEnricher: mergeExperimentalPreparations.
mergeFeatures(Entity, Collection<F>, Collection<F>, boolean, EntityChangeListener, FeatureEnricher<F>) - Static method in class psidev.psi.mi.jami.enricher.util.EnricherUtils: mergeFeatures.
mergeIdentificationMethods(P, Collection<CvTerm>, Collection<CvTerm>, boolean) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEvidenceEnricher: mergeIdentificationMethods.
mergeInteractionEvidences(I, I, boolean) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullModelledInteractionEnricher: mergeInteractionEvidences.
mergeLinkedFeatures(F, Collection<F>, Collection<F>, boolean) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEnricher: mergeLinkedFeatures.
mergeOntologyTerms(OntologyTerm, Collection<OntologyTerm>, Collection<OntologyTerm>, boolean) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOntologyTermEnricher: Takes two lists of ontology terms and produces a list of those to add and those to remove.
mergeParameters(T, Collection, Collection, boolean, ParametersChangeListener<T>) - Static method in class psidev.psi.mi.jami.enricher.util.EnricherUtils: mergeParameters.
mergeParticipantCandidates(ParticipantPool, Collection, Collection, boolean, ParticipantPoolChangeListener, EntityEnricher) - Static method in class psidev.psi.mi.jami.enricher.util.EnricherUtils: mergeParticipantCandidates.
mergeParticipants(Interaction, Collection, Collection, boolean, InteractionChangeListener, ParticipantEnricher) - Static method in class psidev.psi.mi.jami.enricher.util.EnricherUtils: mergeParticipants.
mergeRanges(T, Collection<Range>, Collection<Range>, boolean, FeatureChangeListener<T>) - Static method in class psidev.psi.mi.jami.enricher.util.EnricherUtils: mergeRanges.
mergerVariableParameters(Experiment, Experiment, boolean) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullExperimentEnricher: mergerVariableParameters.
mergerVariableParameters(InteractionEvidence, InteractionEvidence, boolean) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionEvidenceEnricher: mergerVariableParameters.
mergeXrefs(T, Collection<Xref>, Collection<Xref>, boolean, boolean, XrefsChangeListener<T>, IdentifiersChangeListener<T>) - Static method in class psidev.psi.mi.jami.enricher.util.EnricherUtils: Takes two lists of Xrefs and produces a list of those to add and those to remove.
META_DATA_SEPARATOR - Static variable in class psidev.psi.mi.jami.bridges.ols.utils.OlsUtils: Constant META_DATA_SEPARATOR="_"
META_XREF_SEPARATOR - Static variable in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Constant META_XREF_SEPARATOR=":"
META_XREF_SEPARATOR - Static variable in class psidev.psi.mi.jami.bridges.obo.OntologyOboLoader: Constant META_XREF_SEPARATOR=":"
META_XREF_SEPARATOR - Static variable in class psidev.psi.mi.jami.bridges.ols.utils.OlsUtils: Constant META_XREF_SEPARATOR=":"
METHOD_REFERENCE - Static variable in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Constant METHOD_REFERENCE="method reference"
METHOD_REFERENCE - Static variable in class psidev.psi.mi.jami.bridges.obo.OntologyOboLoader: Constant METHOD_REFERENCE="method reference"
METHOD_REFERENCE - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant METHOD_REFERENCE="method reference"
METHOD_REFERENCE_MI - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant METHOD_REFERENCE_MI="MI:0357"
METHOD_REFERENCE_MI_REF - Static variable in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Constant METHOD_REFERENCE_MI_REF="MI:0357"
METHOD_REFERENCE_MI_REF - Static variable in class psidev.psi.mi.jami.bridges.obo.OntologyOboLoader: Constant METHOD_REFERENCE_MI_REF="MI:0357"
MI_ALIAS_IDENTIFIER - Static variable in class psidev.psi.mi.jami.bridges.ols.utils.OlsUtils: Constant MI_ALIAS_IDENTIFIER="Alternate label curated by PSI-MI"
MI_HTML_FORMAT - Static variable in class psidev.psi.mi.jami.html.utils.HtmlWriterOptions: The html format value to use with HtmlWriterOptions.OUTPUT_FORMAT_OPTION_KEY
MI_JSON_FORMAT - Static variable in class psidev.psi.mi.jami.json.MIJsonWriterOptions: The json format value to use with MIJsonWriterOptions.OUTPUT_FORMAT_OPTION_KEY
MI_JSON_TYPE - Static variable in class psidev.psi.mi.jami.json.MIJsonWriterOptions: The json type.
MI_REGEXP - Static variable in class psidev.psi.mi.jami.bridges.ontologymanager.impl.OntologyTermWrapper: Constant MI_REGEXP
MI_SHORTLABEL_IDENTIFIER - Static variable in class psidev.psi.mi.jami.bridges.ols.utils.OlsUtils: Constant MI_SHORTLABEL_IDENTIFIER="Unique short label curated by PSI-MI"
MIBatchJobManager - Class in psidev.psi.mi.jami.batch: The psi mi enricher
MIBatchJobManager() - Constructor for class psidev.psi.mi.jami.batch.MIBatchJobManager: Constructor for MIBatchJobManager.
MIComparator<T> - Interface in psidev.psi.mi.jami.utils.comparator: A MI comparator is a comparator that can also generate a hashCode of a JAMI object that would be consistent with the comparison results
MIDataSource - Interface in psidev.psi.mi.jami.datasource: A data Source in JAMI.
MIDataSourceFactory - Class in psidev.psi.mi.jami.factory: A factory singleton to create data sources.
MIDataSourceOptionFactory - Class in psidev.psi.mi.jami.commons: The factory to populate the map of options for the DataSourceFactory
MIDataSourceOptions - Class in psidev.psi.mi.jami.factory.options: Class that lists all possible options for MIDataSource
MIDataSourceOptions() - Constructor for class psidev.psi.mi.jami.factory.options.MIDataSourceOptions
MIEdge<T> - Interface in psidev.psi.mi.jami.analysis.graph.model: A MI edge is an edge joining two JAMI objects.
MIEnricher<T> - Interface in psidev.psi.mi.jami.enricher: General interface for enriching MI objects
MIEvidenceHtmlWriter - Class in psidev.psi.mi.jami.html: HTML writer for PSI-MI interaction evidences.
MIEvidenceHtmlWriter() - Constructor for class psidev.psi.mi.jami.html.MIEvidenceHtmlWriter: Constructor for MIEvidenceHtmlWriter.
MIEvidenceHtmlWriter(File) - Constructor for class psidev.psi.mi.jami.html.MIEvidenceHtmlWriter: Constructor for MIEvidenceHtmlWriter.
MIEvidenceHtmlWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.html.MIEvidenceHtmlWriter: Constructor for MIEvidenceHtmlWriter.
MIEvidenceHtmlWriter(Writer) - Constructor for class psidev.psi.mi.jami.html.MIEvidenceHtmlWriter: Constructor for MIEvidenceHtmlWriter.
MIFileAnalyzer - Class in psidev.psi.mi.jami.commons: The file source analyzer will recognise what kind of molecular interaction source a given file is from.
MIFileAnalyzer() - Constructor for class psidev.psi.mi.jami.commons.MIFileAnalyzer
MIFileDataSource - Interface in psidev.psi.mi.jami.datasource: Interface for MIDataSource coming from a file.
MIFileDataSourceOptions - Class in psidev.psi.mi.jami.factory.options: Class that lists all possible options for MIFileDataSource.
MIFileDataSourceOptions() - Constructor for class psidev.psi.mi.jami.factory.options.MIFileDataSourceOptions
MIFileDatasourceUtils - Class in psidev.psi.mi.jami.utils: Utilisty class for MIFileDataSource
MIFileDatasourceUtils() - Constructor for class psidev.psi.mi.jami.utils.MIFileDatasourceUtils
MIFileParserCompositeListener<T extends MIFileParserListener> - Class in psidev.psi.mi.jami.listener.impl: This class contains several MI file listeners
MIFileParserCompositeListener() - Constructor for class psidev.psi.mi.jami.listener.impl.MIFileParserCompositeListener: Constructor for MIFileParserCompositeListener.
MIFileParserListener - Interface in psidev.psi.mi.jami.listener: Interface for listening to the parsing of a MI file.
MIFileParserLogger - Class in psidev.psi.mi.jami.listener.impl: Logger for MitabParser
MIFileParserLogger() - Constructor for class psidev.psi.mi.jami.listener.impl.MIFileParserLogger
MIFileType - Enum in psidev.psi.mi.jami.commons: The MI file source format
MIFileUtils - Class in psidev.psi.mi.jami.commons: Utility class for Molecular interaction datasources
MIFileUtils() - Constructor for class psidev.psi.mi.jami.commons.MIFileUtils
MIHtml - Class in psidev.psi.mi.jami.html: This class is a central access to basic methods to register html writer.
MIHtml() - Constructor for class psidev.psi.mi.jami.html.MIHtml
MIHtmlOptionFactory - Class in psidev.psi.mi.jami.html: The factory to populate the map of options for the InteractionWriterFactory for html writers
MIHtmlWriter - Class in psidev.psi.mi.jami.html: MI writer for a mix of interactions
MIHtmlWriter() - Constructor for class psidev.psi.mi.jami.html.MIHtmlWriter: Constructor for MIHtmlWriter.
MIHtmlWriter(File) - Constructor for class psidev.psi.mi.jami.html.MIHtmlWriter: Constructor for MIHtmlWriter.
MIHtmlWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.html.MIHtmlWriter: Constructor for MIHtmlWriter.
MIHtmlWriter(Writer) - Constructor for class psidev.psi.mi.jami.html.MIHtmlWriter: Constructor for MIHtmlWriter.
MIIOException - Exception in psidev.psi.mi.jami.exception: Exception thrown by a dataSource or a writer when it cannot read/write MI data
MIIOException() - Constructor for exception psidev.psi.mi.jami.exception.MIIOException: Constructor for MIIOException.
MIIOException(String) - Constructor for exception psidev.psi.mi.jami.exception.MIIOException: Constructor for MIIOException.
MIIOException(String, Throwable) - Constructor for exception psidev.psi.mi.jami.exception.MIIOException: Constructor for MIIOException.
MIIOException(Throwable) - Constructor for exception psidev.psi.mi.jami.exception.MIIOException: Constructor for MIIOException.
MIJsonBinaryEvidenceWriter - Class in psidev.psi.mi.jami.json.binary: JSON writer for InteractionEvidences
MIJsonBinaryEvidenceWriter() - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonBinaryEvidenceWriter: Constructor for MIJsonBinaryEvidenceWriter.
MIJsonBinaryEvidenceWriter(File, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonBinaryEvidenceWriter: Constructor for MIJsonBinaryEvidenceWriter.
MIJsonBinaryEvidenceWriter(OutputStream, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonBinaryEvidenceWriter: Constructor for MIJsonBinaryEvidenceWriter.
MIJsonBinaryEvidenceWriter(Writer, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonBinaryEvidenceWriter: Constructor for MIJsonBinaryEvidenceWriter.
MIJsonBinaryEvidenceWriter(Writer, OntologyTermFetcher, Map<String, String>, Map<Feature, Integer>, Map<Entity, Integer>, IncrementalIdGenerator) - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonBinaryEvidenceWriter: Constructor for MIJsonBinaryEvidenceWriter.
MIJsonBinaryEvidenceWriter(Map<String, String>, Map<Feature, Integer>, Map<Entity, Integer>, IncrementalIdGenerator) - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonBinaryEvidenceWriter: Constructor for MIJsonBinaryEvidenceWriter.
MIJsonBinaryWriter - Class in psidev.psi.mi.jami.json.binary: JSON writer for mix of modelled and experimental interactions and
MIJsonBinaryWriter() - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonBinaryWriter: Constructor for MIJsonBinaryWriter.
MIJsonBinaryWriter(File, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonBinaryWriter: Constructor for MIJsonBinaryWriter.
MIJsonBinaryWriter(OutputStream, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonBinaryWriter: Constructor for MIJsonBinaryWriter.
MIJsonBinaryWriter(Writer, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonBinaryWriter: Constructor for MIJsonBinaryWriter.
MIJsonEvidenceWriter - Class in psidev.psi.mi.jami.json.binary: The jsonWriter which writes the interaction evidences
MIJsonEvidenceWriter - Class in psidev.psi.mi.jami.json.nary: Abstract JSON writer for interactions (n-ary json format)
MIJsonEvidenceWriter() - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonEvidenceWriter: Constructor for MIJsonEvidenceWriter.
MIJsonEvidenceWriter() - Constructor for class psidev.psi.mi.jami.json.nary.MIJsonEvidenceWriter: Constructor for MIJsonEvidenceWriter.
MIJsonEvidenceWriter(File, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonEvidenceWriter: Constructor for MIJsonEvidenceWriter.
MIJsonEvidenceWriter(File, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.nary.MIJsonEvidenceWriter: Constructor for MIJsonEvidenceWriter.
MIJsonEvidenceWriter(File, OntologyTermFetcher, ComplexExpansionMethod<InteractionEvidence, BinaryInteractionEvidence>) - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonEvidenceWriter: Constructor for MIJsonEvidenceWriter.
MIJsonEvidenceWriter(OutputStream, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonEvidenceWriter: Constructor for MIJsonEvidenceWriter.
MIJsonEvidenceWriter(OutputStream, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.nary.MIJsonEvidenceWriter: Constructor for MIJsonEvidenceWriter.
MIJsonEvidenceWriter(OutputStream, OntologyTermFetcher, ComplexExpansionMethod<InteractionEvidence, BinaryInteractionEvidence>) - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonEvidenceWriter: Constructor for MIJsonEvidenceWriter.
MIJsonEvidenceWriter(Writer, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonEvidenceWriter: Constructor for MIJsonEvidenceWriter.
MIJsonEvidenceWriter(Writer, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.nary.MIJsonEvidenceWriter: Constructor for MIJsonEvidenceWriter.
MIJsonEvidenceWriter(Writer, OntologyTermFetcher, Map<String, String>, Map<Feature, Integer>, Map<Entity, Integer>, IncrementalIdGenerator) - Constructor for class psidev.psi.mi.jami.json.nary.MIJsonEvidenceWriter: Constructor for MIJsonEvidenceWriter.
MIJsonEvidenceWriter(Writer, OntologyTermFetcher, ComplexExpansionMethod<InteractionEvidence, BinaryInteractionEvidence>) - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonEvidenceWriter: Constructor for MIJsonEvidenceWriter.
MIJsonEvidenceWriter(Map<String, String>, Map<Feature, Integer>, Map<Entity, Integer>, IncrementalIdGenerator) - Constructor for class psidev.psi.mi.jami.json.nary.MIJsonEvidenceWriter: Constructor for MIJsonEvidenceWriter.
MIJsonModelledBinaryWriter - Class in psidev.psi.mi.jami.json.binary: JSON writer for ModelledInteractions
MIJsonModelledBinaryWriter() - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonModelledBinaryWriter: Constructor for MIJsonModelledBinaryWriter.
MIJsonModelledBinaryWriter(File, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonModelledBinaryWriter: Constructor for MIJsonModelledBinaryWriter.
MIJsonModelledBinaryWriter(OutputStream, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonModelledBinaryWriter: Constructor for MIJsonModelledBinaryWriter.
MIJsonModelledBinaryWriter(Writer, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonModelledBinaryWriter: Constructor for MIJsonModelledBinaryWriter.
MIJsonModelledBinaryWriter(Writer, OntologyTermFetcher, Map<String, String>, Map<Feature, Integer>, Map<Entity, Integer>, IncrementalIdGenerator) - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonModelledBinaryWriter: Constructor for MIJsonModelledBinaryWriter.
MIJsonModelledBinaryWriter(Map<String, String>, Map<Feature, Integer>, Map<Entity, Integer>, IncrementalIdGenerator) - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonModelledBinaryWriter: Constructor for MIJsonModelledBinaryWriter.
MIJsonModelledWriter - Class in psidev.psi.mi.jami.json.binary: The jsonWriter which writes the modelled interactions
MIJsonModelledWriter - Class in psidev.psi.mi.jami.json.nary: Abstract JSON writer for interactions (n-ary json format)
MIJsonModelledWriter() - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonModelledWriter: Constructor for MIJsonModelledWriter.
MIJsonModelledWriter() - Constructor for class psidev.psi.mi.jami.json.nary.MIJsonModelledWriter: Constructor for MIJsonModelledWriter.
MIJsonModelledWriter(File, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonModelledWriter: Constructor for MIJsonModelledWriter.
MIJsonModelledWriter(File, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.nary.MIJsonModelledWriter: Constructor for MIJsonModelledWriter.
MIJsonModelledWriter(File, OntologyTermFetcher, ComplexExpansionMethod<ModelledInteraction, ModelledBinaryInteraction>) - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonModelledWriter: Constructor for MIJsonModelledWriter.
MIJsonModelledWriter(OutputStream, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonModelledWriter: Constructor for MIJsonModelledWriter.
MIJsonModelledWriter(OutputStream, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.nary.MIJsonModelledWriter: Constructor for MIJsonModelledWriter.
MIJsonModelledWriter(OutputStream, OntologyTermFetcher, ComplexExpansionMethod<ModelledInteraction, ModelledBinaryInteraction>) - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonModelledWriter: Constructor for MIJsonModelledWriter.
MIJsonModelledWriter(Writer, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonModelledWriter: Constructor for MIJsonModelledWriter.
MIJsonModelledWriter(Writer, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.nary.MIJsonModelledWriter: Constructor for MIJsonModelledWriter.
MIJsonModelledWriter(Writer, OntologyTermFetcher, Map<String, String>, Map<Feature, Integer>, Map<Entity, Integer>, IncrementalIdGenerator) - Constructor for class psidev.psi.mi.jami.json.nary.MIJsonModelledWriter: Constructor for MIJsonModelledWriter.
MIJsonModelledWriter(Writer, OntologyTermFetcher, ComplexExpansionMethod<ModelledInteraction, ModelledBinaryInteraction>) - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonModelledWriter: Constructor for MIJsonModelledWriter.
MIJsonModelledWriter(Map<String, String>, Map<Feature, Integer>, Map<Entity, Integer>, IncrementalIdGenerator) - Constructor for class psidev.psi.mi.jami.json.nary.MIJsonModelledWriter: Constructor for MIJsonModelledWriter.
MIJsonOptionFactory - Class in psidev.psi.mi.jami.json: The factory to populate the map of options for the InteractionWriterFactory for json writers
MIJsonType - Enum in psidev.psi.mi.jami.json: Type of json export binary_only: the JSON writer will always write binary interactions and break n-ary interactions into binary interactions n_ary_only: the JSON writer will always write the full interaction even if it is n-ary
MIJsonUtils - Class in psidev.psi.mi.jami.json: Utility class for public properties
MIJsonUtils() - Constructor for class psidev.psi.mi.jami.json.MIJsonUtils
MIJsonWriter - Class in psidev.psi.mi.jami.json.binary: The jsonWriter which writes all interactions
MIJsonWriter - Class in psidev.psi.mi.jami.json.nary: The jsonWriter which writes the all interactions
MIJsonWriter() - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonWriter: Constructor for MIJsonWriter.
MIJsonWriter() - Constructor for class psidev.psi.mi.jami.json.nary.MIJsonWriter: Constructor for MIJsonWriter.
MIJsonWriter(File, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonWriter: Constructor for MIJsonWriter.
MIJsonWriter(File, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.nary.MIJsonWriter: Constructor for MIJsonWriter.
MIJsonWriter(File, OntologyTermFetcher, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonWriter: Constructor for MIJsonWriter.
MIJsonWriter(OutputStream, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonWriter: Constructor for MIJsonWriter.
MIJsonWriter(OutputStream, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.nary.MIJsonWriter: Constructor for MIJsonWriter.
MIJsonWriter(OutputStream, OntologyTermFetcher, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonWriter: Constructor for MIJsonWriter.
MIJsonWriter(Writer, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonWriter: Constructor for MIJsonWriter.
MIJsonWriter(Writer, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.nary.MIJsonWriter: Constructor for MIJsonWriter.
MIJsonWriter(Writer, OntologyTermFetcher, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.json.binary.MIJsonWriter: Constructor for MIJsonWriter.
MIJsonWriterOptions - Class in psidev.psi.mi.jami.json: Class that lists all possible options for InteractionViewerJson writers.
MIJsonWriterOptions() - Constructor for class psidev.psi.mi.jami.json.MIJsonWriterOptions
MILocalOntology - Class in psidev.psi.mi.jami.bridges.ontologymanager.impl.local: JAMI implementation of LocalOntology access
MILocalOntology() - Constructor for class psidev.psi.mi.jami.bridges.ontologymanager.impl.local.MILocalOntology: Constructor for MILocalOntology.
MILocalOntology(String, String, Pattern, String) - Constructor for class psidev.psi.mi.jami.bridges.ontologymanager.impl.local.MILocalOntology: Constructor for MILocalOntology.
MILocalOntology(OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.bridges.ontologymanager.impl.local.MILocalOntology: Constructor for MILocalOntology.
MILocalOntology(OntologyTermFetcher, String, String, Pattern, String) - Constructor for class psidev.psi.mi.jami.bridges.ontologymanager.impl.local.MILocalOntology: Constructor for MILocalOntology.
MIMIx - psidev.psi.mi.jami.model.CurationDepth
MIMIX_CURATION - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant MIMIX_CURATION="mimix curation"
MIMIX_CURATION_MI - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant MIMIX_CURATION_MI="MI:0960"
MIModelledHtmlWriter - Class in psidev.psi.mi.jami.html: Writer for modelled interactions
MIModelledHtmlWriter() - Constructor for class psidev.psi.mi.jami.html.MIModelledHtmlWriter: Constructor for MIModelledHtmlWriter.
MIModelledHtmlWriter(File) - Constructor for class psidev.psi.mi.jami.html.MIModelledHtmlWriter: Constructor for MIModelledHtmlWriter.
MIModelledHtmlWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.html.MIModelledHtmlWriter: Constructor for MIModelledHtmlWriter.
MIModelledHtmlWriter(Writer) - Constructor for class psidev.psi.mi.jami.html.MIModelledHtmlWriter: Constructor for MIModelledHtmlWriter.
MinimalBioactiveEntityEnricher - Class in psidev.psi.mi.jami.enricher.impl.minimal: A basic minimal enricher for bioactive entities.
MinimalBioactiveEntityEnricher(BioactiveEntityFetcher) - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalBioactiveEntityEnricher: The only constructor, fulfilling the requirement of a bioactiveEntity fetcher.
MinimalBioactiveEntityUpdater - Class in psidev.psi.mi.jami.enricher.impl.minimal: A basic minimal updater for bioactive entities.
MinimalBioactiveEntityUpdater(BioactiveEntityFetcher) - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalBioactiveEntityUpdater: A constructor which initiates with a fetcher.
MinimalBioactiveEntityUpdater(AbstractInteractorEnricher<BioactiveEntity>) - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalBioactiveEntityUpdater: Constructor for MinimalBioactiveEntityUpdater.
MinimalComplexEnricher - Class in psidev.psi.mi.jami.enricher.impl.minimal: Minimal enricher for complexes
MinimalComplexEnricher() - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalComplexEnricher: Constructor for MinimalComplexEnricher.
MinimalComplexEnricher(MinimalInteractorBaseEnricher<Complex>) - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalComplexEnricher: Constructor for MinimalComplexEnricher.
MinimalComplexUpdater - Class in psidev.psi.mi.jami.enricher.impl.minimal: Minimal updater for complexes
MinimalComplexUpdater() - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalComplexUpdater: Constructor for MinimalComplexUpdater.
MinimalComplexUpdater(MinimalInteractorBaseUpdater<Complex>) - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalComplexUpdater: Constructor for MinimalComplexUpdater.
MinimalCuratedPublicationEnricher - Class in psidev.psi.mi.jami.enricher.impl.minimal: Provides minimal enrichment of curatedPublication.
MinimalCuratedPublicationEnricher(PublicationFetcher) - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalCuratedPublicationEnricher: The only constructor.
MinimalCuratedPublicationEnricher(MinimalPublicationEnricher) - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalCuratedPublicationEnricher: Constructor for MinimalCuratedPublicationEnricher.
MinimalCuratedPublicationUpdater - Class in psidev.psi.mi.jami.enricher.impl.minimal: Provides minimal update of curated Publication.
MinimalCuratedPublicationUpdater(PublicationFetcher) - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalCuratedPublicationUpdater: Constructor for MinimalCuratedPublicationUpdater.
MinimalCuratedPublicationUpdater(MinimalPublicationEnricher) - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalCuratedPublicationUpdater: Constructor for MinimalCuratedPublicationUpdater.
MinimalCvTermEnricher<C extends CvTerm> - Class in psidev.psi.mi.jami.enricher.impl.minimal: Provides minimal enrichment of cv term.
MinimalCvTermEnricher(CvTermFetcher<C>) - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalCvTermEnricher: A constructor matching super.
MinimalCvTermUpdater<C extends CvTerm> - Class in psidev.psi.mi.jami.enricher.impl.minimal: Provides minimal update of cv term.
MinimalCvTermUpdater(CvTermFetcher<C>) - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalCvTermUpdater: A constructor matching super.
MinimalEntityEnricher - Class in psidev.psi.mi.jami.enricher.impl.minimal: The entity enricher is an enricher which can enrich either single participant or a collection.
MinimalEntityEnricher() - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalEntityEnricher
MinimalEntityUpdater - Class in psidev.psi.mi.jami.enricher.impl.minimal: The participant enricher is an enricher which can enrich either single participant or a collection.
MinimalEntityUpdater() - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalEntityUpdater
MinimalExperimentalParticipantPoolEnricher - Class in psidev.psi.mi.jami.enricher.impl.minimal: The participant pool enricher is an enricher which can enrich either single participant or a collection.
MinimalExperimentalParticipantPoolEnricher() - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentalParticipantPoolEnricher
MinimalExperimentalParticipantPoolUpdater - Class in psidev.psi.mi.jami.enricher.impl.minimal: The participant pool enricher is an enricher which can enrich either single participant or a collection.
MinimalExperimentalParticipantPoolUpdater() - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentalParticipantPoolUpdater
MinimalExperimentEnricher - Class in psidev.psi.mi.jami.enricher.impl.minimal: Provides minimal enrichment of experiment.
MinimalExperimentEnricher() - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentEnricher: Constructor for MinimalExperimentEnricher.
MinimalExperimentUpdater - Class in psidev.psi.mi.jami.enricher.impl.minimal: Provides minimal update of experiment.
MinimalExperimentUpdater() - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentUpdater: Constructor for MinimalExperimentUpdater.
MinimalFeatureEnricher<F extends Feature> - Class in psidev.psi.mi.jami.enricher.impl.minimal: Provides minimal enrichment of feature.
MinimalFeatureEnricher() - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: Constructor for MinimalFeatureEnricher.
MinimalFeatureEvidenceEnricher - Class in psidev.psi.mi.jami.enricher.impl.minimal: Provides minimal enrichment of feature evidence.
MinimalFeatureEvidenceEnricher() - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEvidenceEnricher
MinimalFeatureEvidenceUpdater - Class in psidev.psi.mi.jami.enricher.impl.minimal: Provides minimal update of feature evidence.
MinimalFeatureEvidenceUpdater() - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEvidenceUpdater: Constructor for MinimalFeatureEvidenceUpdater.
MinimalFeatureEvidenceUpdater(MinimalFeatureUpdater<FeatureEvidence>) - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEvidenceUpdater: Constructor for MinimalFeatureEvidenceUpdater.
MinimalFeatureUpdater<F extends Feature> - Class in psidev.psi.mi.jami.enricher.impl.minimal: Provides minimal update of feature.
MinimalFeatureUpdater() - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureUpdater
MinimalGeneEnricher - Class in psidev.psi.mi.jami.enricher.impl.minimal: A basic minimal enricher for genes.
MinimalGeneEnricher(GeneFetcher) - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalGeneEnricher: Constructor for MinimalGeneEnricher.
MinimalGeneUpdater - Class in psidev.psi.mi.jami.enricher.impl.minimal: A basic minimal updater for genes.
MinimalGeneUpdater(GeneFetcher) - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalGeneUpdater: Constructor for MinimalGeneUpdater.
MinimalGeneUpdater(AbstractInteractorEnricher<Gene>) - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalGeneUpdater: Constructor for MinimalGeneUpdater.
MinimalInteractionEnricher - Class in psidev.psi.mi.jami.enricher.impl.minimal: The enricher for Interactions which can enrich a single interaction or a collection.
MinimalInteractionEnricher() - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEnricher
MinimalInteractionEvidenceEnricher - Class in psidev.psi.mi.jami.enricher.impl.minimal: Minimal enricher for interaction evidence
MinimalInteractionEvidenceEnricher() - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEvidenceEnricher
MinimalInteractionEvidenceUpdater - Class in psidev.psi.mi.jami.enricher.impl.minimal: Minimal updater for interaction evidence
MinimalInteractionEvidenceUpdater() - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEvidenceUpdater: Constructor for MinimalInteractionEvidenceUpdater.
MinimalInteractionEvidenceUpdater(MinimalInteractionUpdater<InteractionEvidence>) - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEvidenceUpdater: Constructor for MinimalInteractionEvidenceUpdater.
MinimalInteractionUpdater - Class in psidev.psi.mi.jami.enricher.impl.minimal: The enricher for Interactions which can enrich a single interaction or a collection.
MinimalInteractionUpdater() - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionUpdater
MinimalInteractorBaseEnricher<T extends Interactor> - Class in psidev.psi.mi.jami.enricher.impl.minimal: A basic minimal enricher for interactors.
MinimalInteractorBaseEnricher() - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractorBaseEnricher: Constructor for MinimalInteractorBaseEnricher.
MinimalInteractorBaseEnricher(InteractorFetcher<T>) - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractorBaseEnricher: Constructor for MinimalInteractorBaseEnricher.
MinimalInteractorBaseUpdater<T extends Interactor> - Class in psidev.psi.mi.jami.enricher.impl.minimal: A basic minimal updater for interactors.
MinimalInteractorBaseUpdater() - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractorBaseUpdater: Constructor for MinimalInteractorBaseUpdater.
MinimalInteractorBaseUpdater(InteractorFetcher<T>) - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractorBaseUpdater: Constructor for MinimalInteractorBaseUpdater.
MinimalModelledInteractionEnricher - Class in psidev.psi.mi.jami.enricher.impl.minimal: Minimal enricher for modelled interactions
MinimalModelledInteractionEnricher() - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalModelledInteractionEnricher
MinimalModelledInteractionUpdater - Class in psidev.psi.mi.jami.enricher.impl.minimal: Minimal updater for modelled interaction
MinimalModelledInteractionUpdater() - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalModelledInteractionUpdater: Constructor for MinimalModelledInteractionUpdater.
MinimalModelledInteractionUpdater(MinimalInteractionUpdater) - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalModelledInteractionUpdater: Constructor for MinimalModelledInteractionUpdater.
MinimalOntologyTermEnricher - Class in psidev.psi.mi.jami.enricher.impl.minimal: Provides minimal enrichment of ontologYTerm.
MinimalOntologyTermEnricher(OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOntologyTermEnricher: A constructor matching super.
MinimalOntologyTermEnricher(MinimalCvTermEnricher<OntologyTerm>) - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOntologyTermEnricher: Constructor for MinimalOntologyTermEnricher.
MinimalOntologyTermUpdater - Class in psidev.psi.mi.jami.enricher.impl.minimal: Provides minimal update of ontologYTerm.
MinimalOntologyTermUpdater(OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOntologyTermUpdater: Constructor for MinimalOntologyTermUpdater.
MinimalOntologyTermUpdater(MinimalCvTermEnricher<OntologyTerm>) - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOntologyTermUpdater: Constructor for MinimalOntologyTermUpdater.
MinimalOrganismEnricher - Class in psidev.psi.mi.jami.enricher.impl.minimal: Provides minimum enrichment of a Organism.
MinimalOrganismEnricher(OrganismFetcher) - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOrganismEnricher: Constructor for MinimalOrganismEnricher.
MinimalOrganismUpdater - Class in psidev.psi.mi.jami.enricher.impl.minimal: Provides minimum update of a Organism.
MinimalOrganismUpdater(OrganismFetcher) - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOrganismUpdater: Constructor for MinimalOrganismUpdater.
MinimalParticipantEnricher - Class in psidev.psi.mi.jami.enricher.impl.minimal: The participant enricher is an enricher which can enrich either single participant or a collection.
MinimalParticipantEnricher() - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEnricher
MinimalParticipantEvidenceEnricher - Class in psidev.psi.mi.jami.enricher.impl.minimal: Created with IntelliJ IDEA.
MinimalParticipantEvidenceEnricher() - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEvidenceEnricher
MinimalParticipantEvidenceUpdater - Class in psidev.psi.mi.jami.enricher.impl.minimal: Created with IntelliJ IDEA.
MinimalParticipantEvidenceUpdater() - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEvidenceUpdater: Constructor for MinimalParticipantEvidenceUpdater.
MinimalParticipantEvidenceUpdater(MinimalParticipantUpdater<P, FeatureEvidence>) - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEvidenceUpdater: Constructor for MinimalParticipantEvidenceUpdater.
MinimalParticipantPoolEnricher - Class in psidev.psi.mi.jami.enricher.impl.minimal: The participant pool enricher is an enricher which can enrich either single participant or a collection.
MinimalParticipantPoolEnricher() - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantPoolEnricher
MinimalParticipantPoolUpdater - Class in psidev.psi.mi.jami.enricher.impl.minimal: The participant pool enricher is an enricher which can enrich either single participant or a collection.
MinimalParticipantPoolUpdater() - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantPoolUpdater
MinimalParticipantUpdater - Class in psidev.psi.mi.jami.enricher.impl.minimal: The participant enricher is an enricher which can enrich either single participant or a collection.
MinimalParticipantUpdater() - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantUpdater
MinimalProteinEnricher - Class in psidev.psi.mi.jami.enricher.impl.minimal: Enriches a protein to the minimum level.
MinimalProteinEnricher(ProteinFetcher) - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalProteinEnricher: The only constructor, fulfilling the requirement of a protein fetcher.
MinimalProteinUpdater - Class in psidev.psi.mi.jami.enricher.impl.minimal: Updates a protein to the minimum level.
MinimalProteinUpdater(ProteinFetcher) - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalProteinUpdater: The only constructor which forces the setting of the fetcher If the cvTerm fetcher is null, an illegal state exception will be thrown at the next enrichment.
MinimalPublicationEnricher - Class in psidev.psi.mi.jami.enricher.impl.minimal: Provides minimal enrichment of Publication.
MinimalPublicationEnricher(PublicationFetcher) - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalPublicationEnricher: The only constructor.
MinimalPublicationUpdater - Class in psidev.psi.mi.jami.enricher.impl.minimal: Provides minimal update of Publication.
MinimalPublicationUpdater(PublicationFetcher) - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalPublicationUpdater: Constructor for MinimalPublicationUpdater.
MinimalSourceEnricher - Class in psidev.psi.mi.jami.enricher.impl.minimal: Provides minimum enrichment of a Source.
MinimalSourceEnricher(SourceFetcher) - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalSourceEnricher: A constructor matching super.
MinimalSourceEnricher(MinimalCvTermEnricher<Source>) - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalSourceEnricher: Constructor for MinimalSourceEnricher.
MinimalSourceUpdater - Class in psidev.psi.mi.jami.enricher.impl.minimal: Provides minimum update of a Source.
MinimalSourceUpdater(SourceFetcher) - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalSourceUpdater: Constructor for MinimalSourceUpdater.
MinimalSourceUpdater(MinimalCvTermEnricher<Source>) - Constructor for class psidev.psi.mi.jami.enricher.impl.minimal.MinimalSourceUpdater: Constructor for MinimalSourceUpdater.
MINOR_VERSION_ATTRIBUTE - Static variable in class psidev.psi.mi.jami.xml.utils.PsiXmlUtils: Constant MINOR_VERSION_ATTRIBUTE="minorVersion"
MIOlsOntology - Class in psidev.psi.mi.jami.bridges.ontologymanager.impl.ols: jami extension for OlsOntology
MIOlsOntology() - Constructor for class psidev.psi.mi.jami.bridges.ontologymanager.impl.ols.MIOlsOntology: Constructor for MIOlsOntology.
MIOlsOntology(String, String, Pattern, String) - Constructor for class psidev.psi.mi.jami.bridges.ontologymanager.impl.ols.MIOlsOntology: Constructor for MIOlsOntology.
MIOlsOntology(OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.bridges.ontologymanager.impl.ols.MIOlsOntology: Constructor for MIOlsOntology.
MIOlsOntology(OntologyTermFetcher, String, String, Pattern, String) - Constructor for class psidev.psi.mi.jami.bridges.ontologymanager.impl.ols.MIOlsOntology: Constructor for MIOlsOntology.
MIOntologyAccess - Interface in psidev.psi.mi.jami.bridges.ontologymanager: Extension of OntologyAcessTemplate for jami
MIOntologyManager - Class in psidev.psi.mi.jami.bridges.ontologymanager: JAMI extension of the ontologyManager
MIOntologyManager(InputStream) - Constructor for class psidev.psi.mi.jami.bridges.ontologymanager.MIOntologyManager: Constructor for MIOntologyManager.
MIOntologyTermI - Interface in psidev.psi.mi.jami.bridges.ontologymanager: Extension of OntologyTermI for jami
mitab - psidev.psi.mi.jami.commons.MIFileType
MITAB_25_TITLE - Static variable in class psidev.psi.mi.jami.commons.MIFileAnalyzer: Constant MITAB_25_TITLE="#ID(s) interactor A\tID(s) interactor B"{trunked}
MITAB_EXTENDED_OPTION - Static variable in class psidev.psi.mi.jami.tab.extension.factory.options.MitabWriterOptions: The option to select more specialised writers with extended MITAB objects (features and confidences).
MITAB_HEADER_OPTION - Static variable in class psidev.psi.mi.jami.tab.extension.factory.options.MitabWriterOptions: The option to write or not the MITAB header.
MITAB_LENGTH - psidev.psi.mi.jami.tab.MitabColumnName
MITAB_VERSION_OPTION - Static variable in class psidev.psi.mi.jami.tab.extension.factory.options.MitabWriterOptions: The mitab version.
Mitab25BinaryEvidenceWriter - Class in psidev.psi.mi.jami.tab.io.writer.extended: Extended Mitab 2.5 writer for binary interaction evidences
Mitab25BinaryEvidenceWriter - Class in psidev.psi.mi.jami.tab.io.writer: Mitab 2.5 writer for binary interaction evidences
Mitab25BinaryEvidenceWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25BinaryEvidenceWriter: Constructor for Mitab25BinaryEvidenceWriter.
Mitab25BinaryEvidenceWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab25BinaryEvidenceWriter: Constructor for Mitab25BinaryEvidenceWriter.
Mitab25BinaryEvidenceWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25BinaryEvidenceWriter: Constructor for Mitab25BinaryEvidenceWriter.
Mitab25BinaryEvidenceWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab25BinaryEvidenceWriter: Constructor for Mitab25BinaryEvidenceWriter.
Mitab25BinaryEvidenceWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25BinaryEvidenceWriter: Constructor for Mitab25BinaryEvidenceWriter.
Mitab25BinaryEvidenceWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab25BinaryEvidenceWriter: Constructor for Mitab25BinaryEvidenceWriter.
Mitab25BinaryEvidenceWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25BinaryEvidenceWriter: Constructor for Mitab25BinaryEvidenceWriter.
Mitab25BinaryEvidenceWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab25BinaryEvidenceWriter: Constructor for Mitab25BinaryEvidenceWriter.
Mitab25BinaryWriter - Class in psidev.psi.mi.jami.tab.io.writer.extended: The basic Mitab 2.5 writer for BinaryInteraction
Mitab25BinaryWriter - Class in psidev.psi.mi.jami.tab.io.writer: The basic Mitab 2.5 writer for BinaryInteraction
Mitab25BinaryWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25BinaryWriter: Constructor for Mitab25BinaryWriter.
Mitab25BinaryWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab25BinaryWriter: Constructor for Mitab25BinaryWriter.
Mitab25BinaryWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25BinaryWriter: Constructor for Mitab25BinaryWriter.
Mitab25BinaryWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab25BinaryWriter: Constructor for Mitab25BinaryWriter.
Mitab25BinaryWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25BinaryWriter: Constructor for Mitab25BinaryWriter.
Mitab25BinaryWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab25BinaryWriter: Constructor for Mitab25BinaryWriter.
Mitab25BinaryWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25BinaryWriter: Constructor for Mitab25BinaryWriter.
Mitab25BinaryWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab25BinaryWriter: Constructor for Mitab25BinaryWriter.
Mitab25EvidenceWriter - Class in psidev.psi.mi.jami.tab.io.writer.extended: The mitab 2.5 writer for interaction evidence
Mitab25EvidenceWriter - Class in psidev.psi.mi.jami.tab.io.writer: The mitab 2.5 writer for interaction evidence
Mitab25EvidenceWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25EvidenceWriter: Constructor for Mitab25EvidenceWriter.
Mitab25EvidenceWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab25EvidenceWriter: Constructor for Mitab25EvidenceWriter.
Mitab25EvidenceWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25EvidenceWriter: Constructor for Mitab25EvidenceWriter.
Mitab25EvidenceWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab25EvidenceWriter: Constructor for Mitab25EvidenceWriter.
Mitab25EvidenceWriter(File, ComplexExpansionMethod<InteractionEvidence, BinaryInteractionEvidence>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25EvidenceWriter: Constructor for Mitab25EvidenceWriter.
Mitab25EvidenceWriter(File, ComplexExpansionMethod<InteractionEvidence, BinaryInteractionEvidence>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab25EvidenceWriter: Constructor for Mitab25EvidenceWriter.
Mitab25EvidenceWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25EvidenceWriter: Constructor for Mitab25EvidenceWriter.
Mitab25EvidenceWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab25EvidenceWriter: Constructor for Mitab25EvidenceWriter.
Mitab25EvidenceWriter(OutputStream, ComplexExpansionMethod<InteractionEvidence, BinaryInteractionEvidence>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25EvidenceWriter: Constructor for Mitab25EvidenceWriter.
Mitab25EvidenceWriter(OutputStream, ComplexExpansionMethod<InteractionEvidence, BinaryInteractionEvidence>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab25EvidenceWriter: Constructor for Mitab25EvidenceWriter.
Mitab25EvidenceWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25EvidenceWriter: Constructor for Mitab25EvidenceWriter.
Mitab25EvidenceWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab25EvidenceWriter: Constructor for Mitab25EvidenceWriter.
Mitab25EvidenceWriter(Writer, ComplexExpansionMethod<InteractionEvidence, BinaryInteractionEvidence>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25EvidenceWriter: Constructor for Mitab25EvidenceWriter.
Mitab25EvidenceWriter(Writer, ComplexExpansionMethod<InteractionEvidence, BinaryInteractionEvidence>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab25EvidenceWriter: Constructor for Mitab25EvidenceWriter.
Mitab25ModelledBinaryWriter - Class in psidev.psi.mi.jami.tab.io.writer.extended: Mitab 2.5 writer for modelled binary interactions
Mitab25ModelledBinaryWriter - Class in psidev.psi.mi.jami.tab.io.writer: Mitab 2.5 writer for modelled binary interactions
Mitab25ModelledBinaryWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25ModelledBinaryWriter: Constructor for Mitab25ModelledBinaryWriter.
Mitab25ModelledBinaryWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab25ModelledBinaryWriter: Constructor for Mitab25ModelledBinaryWriter.
Mitab25ModelledBinaryWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25ModelledBinaryWriter: Constructor for Mitab25ModelledBinaryWriter.
Mitab25ModelledBinaryWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab25ModelledBinaryWriter: Constructor for Mitab25ModelledBinaryWriter.
Mitab25ModelledBinaryWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25ModelledBinaryWriter: Constructor for Mitab25ModelledBinaryWriter.
Mitab25ModelledBinaryWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab25ModelledBinaryWriter: Constructor for Mitab25ModelledBinaryWriter.
Mitab25ModelledBinaryWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25ModelledBinaryWriter: Constructor for Mitab25ModelledBinaryWriter.
Mitab25ModelledBinaryWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab25ModelledBinaryWriter: Constructor for Mitab25ModelledBinaryWriter.
Mitab25ModelledWriter - Class in psidev.psi.mi.jami.tab.io.writer.extended: The mitab 2.5 writer for ModelledInteraction
Mitab25ModelledWriter - Class in psidev.psi.mi.jami.tab.io.writer: The mitab 2.5 writer for ModelledInteraction
Mitab25ModelledWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25ModelledWriter: Constructor for Mitab25ModelledWriter.
Mitab25ModelledWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab25ModelledWriter: Constructor for Mitab25ModelledWriter.
Mitab25ModelledWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25ModelledWriter: Constructor for Mitab25ModelledWriter.
Mitab25ModelledWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab25ModelledWriter: Constructor for Mitab25ModelledWriter.
Mitab25ModelledWriter(File, ComplexExpansionMethod<ModelledInteraction, ModelledBinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25ModelledWriter: Constructor for Mitab25ModelledWriter.
Mitab25ModelledWriter(File, ComplexExpansionMethod<ModelledInteraction, ModelledBinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab25ModelledWriter: Constructor for Mitab25ModelledWriter.
Mitab25ModelledWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25ModelledWriter: Constructor for Mitab25ModelledWriter.
Mitab25ModelledWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab25ModelledWriter: Constructor for Mitab25ModelledWriter.
Mitab25ModelledWriter(OutputStream, ComplexExpansionMethod<ModelledInteraction, ModelledBinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25ModelledWriter: Constructor for Mitab25ModelledWriter.
Mitab25ModelledWriter(OutputStream, ComplexExpansionMethod<ModelledInteraction, ModelledBinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab25ModelledWriter: Constructor for Mitab25ModelledWriter.
Mitab25ModelledWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25ModelledWriter: Constructor for Mitab25ModelledWriter.
Mitab25ModelledWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab25ModelledWriter: Constructor for Mitab25ModelledWriter.
Mitab25ModelledWriter(Writer, ComplexExpansionMethod<ModelledInteraction, ModelledBinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25ModelledWriter: Constructor for Mitab25ModelledWriter.
Mitab25ModelledWriter(Writer, ComplexExpansionMethod<ModelledInteraction, ModelledBinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab25ModelledWriter: Constructor for Mitab25ModelledWriter.
Mitab25Writer - Class in psidev.psi.mi.jami.tab.io.writer.extended: The simple MITAB 2.5 writer will write interactions using the JAMI interfaces.
Mitab25Writer - Class in psidev.psi.mi.jami.tab.io.writer: The simple MITAB 2.5 writer will write interactions using the JAMI interfaces.
Mitab25Writer() - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25Writer: Constructor for Mitab25Writer.
Mitab25Writer() - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab25Writer: Constructor for Mitab25Writer.
Mitab25Writer(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25Writer: Constructor for Mitab25Writer.
Mitab25Writer(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab25Writer: Constructor for Mitab25Writer.
Mitab25Writer(File, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25Writer: Constructor for Mitab25Writer.
Mitab25Writer(File, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab25Writer: Constructor for Mitab25Writer.
Mitab25Writer(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25Writer: Constructor for Mitab25Writer.
Mitab25Writer(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab25Writer: Constructor for Mitab25Writer.
Mitab25Writer(OutputStream, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25Writer: Constructor for Mitab25Writer.
Mitab25Writer(OutputStream, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab25Writer: Constructor for Mitab25Writer.
Mitab25Writer(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25Writer: Constructor for Mitab25Writer.
Mitab25Writer(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab25Writer: Constructor for Mitab25Writer.
Mitab25Writer(Writer, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25Writer: Constructor for Mitab25Writer.
Mitab25Writer(Writer, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab25Writer: Constructor for Mitab25Writer.
Mitab26BinaryEvidenceWriter - Class in psidev.psi.mi.jami.tab.io.writer.extended: Mitab 2.6 writer for binary interaction evidences
Mitab26BinaryEvidenceWriter - Class in psidev.psi.mi.jami.tab.io.writer: Mitab 2.6 writer for binary interaction evidences
Mitab26BinaryEvidenceWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26BinaryEvidenceWriter: Constructor for Mitab26BinaryEvidenceWriter.
Mitab26BinaryEvidenceWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab26BinaryEvidenceWriter: Constructor for Mitab26BinaryEvidenceWriter.
Mitab26BinaryEvidenceWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26BinaryEvidenceWriter: Constructor for Mitab26BinaryEvidenceWriter.
Mitab26BinaryEvidenceWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab26BinaryEvidenceWriter: Constructor for Mitab26BinaryEvidenceWriter.
Mitab26BinaryEvidenceWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26BinaryEvidenceWriter: Constructor for Mitab26BinaryEvidenceWriter.
Mitab26BinaryEvidenceWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab26BinaryEvidenceWriter: Constructor for Mitab26BinaryEvidenceWriter.
Mitab26BinaryEvidenceWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26BinaryEvidenceWriter: Constructor for Mitab26BinaryEvidenceWriter.
Mitab26BinaryEvidenceWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab26BinaryEvidenceWriter: Constructor for Mitab26BinaryEvidenceWriter.
Mitab26BinaryWriter - Class in psidev.psi.mi.jami.tab.io.writer.extended: The basic Mitab 2.6 writer for BinaryInteraction
Mitab26BinaryWriter - Class in psidev.psi.mi.jami.tab.io.writer: The basic Mitab 2.6 writer for BinaryInteraction
Mitab26BinaryWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26BinaryWriter: Constructor for Mitab26BinaryWriter.
Mitab26BinaryWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab26BinaryWriter: Constructor for Mitab26BinaryWriter.
Mitab26BinaryWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26BinaryWriter: Constructor for Mitab26BinaryWriter.
Mitab26BinaryWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab26BinaryWriter: Constructor for Mitab26BinaryWriter.
Mitab26BinaryWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26BinaryWriter: Constructor for Mitab26BinaryWriter.
Mitab26BinaryWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab26BinaryWriter: Constructor for Mitab26BinaryWriter.
Mitab26BinaryWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26BinaryWriter: Constructor for Mitab26BinaryWriter.
Mitab26BinaryWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab26BinaryWriter: Constructor for Mitab26BinaryWriter.
Mitab26EvidenceWriter - Class in psidev.psi.mi.jami.tab.io.writer.extended: Mitab 2.6 writer for interaction evidence
Mitab26EvidenceWriter - Class in psidev.psi.mi.jami.tab.io.writer: Mitab 2.6 writer for interaction evidence
Mitab26EvidenceWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26EvidenceWriter: Constructor for Mitab26EvidenceWriter.
Mitab26EvidenceWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab26EvidenceWriter: Constructor for Mitab26EvidenceWriter.
Mitab26EvidenceWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26EvidenceWriter: Constructor for Mitab26EvidenceWriter.
Mitab26EvidenceWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab26EvidenceWriter: Constructor for Mitab26EvidenceWriter.
Mitab26EvidenceWriter(File, ComplexExpansionMethod<InteractionEvidence, BinaryInteractionEvidence>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26EvidenceWriter: Constructor for Mitab26EvidenceWriter.
Mitab26EvidenceWriter(File, ComplexExpansionMethod<InteractionEvidence, BinaryInteractionEvidence>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab26EvidenceWriter: Constructor for Mitab26EvidenceWriter.
Mitab26EvidenceWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26EvidenceWriter: Constructor for Mitab26EvidenceWriter.
Mitab26EvidenceWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab26EvidenceWriter: Constructor for Mitab26EvidenceWriter.
Mitab26EvidenceWriter(OutputStream, ComplexExpansionMethod<InteractionEvidence, BinaryInteractionEvidence>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26EvidenceWriter: Constructor for Mitab26EvidenceWriter.
Mitab26EvidenceWriter(OutputStream, ComplexExpansionMethod<InteractionEvidence, BinaryInteractionEvidence>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab26EvidenceWriter: Constructor for Mitab26EvidenceWriter.
Mitab26EvidenceWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26EvidenceWriter: Constructor for Mitab26EvidenceWriter.
Mitab26EvidenceWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab26EvidenceWriter: Constructor for Mitab26EvidenceWriter.
Mitab26EvidenceWriter(Writer, ComplexExpansionMethod<InteractionEvidence, BinaryInteractionEvidence>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26EvidenceWriter: Constructor for Mitab26EvidenceWriter.
Mitab26EvidenceWriter(Writer, ComplexExpansionMethod<InteractionEvidence, BinaryInteractionEvidence>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab26EvidenceWriter: Constructor for Mitab26EvidenceWriter.
Mitab26ModelledBinaryWriter - Class in psidev.psi.mi.jami.tab.io.writer.extended: Mitab 2.6 writer for modelled binary interactions
Mitab26ModelledBinaryWriter - Class in psidev.psi.mi.jami.tab.io.writer: Mitab 2.6 writer for modelled binary interactions
Mitab26ModelledBinaryWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26ModelledBinaryWriter: Constructor for Mitab26ModelledBinaryWriter.
Mitab26ModelledBinaryWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab26ModelledBinaryWriter: Constructor for Mitab26ModelledBinaryWriter.
Mitab26ModelledBinaryWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26ModelledBinaryWriter: Constructor for Mitab26ModelledBinaryWriter.
Mitab26ModelledBinaryWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab26ModelledBinaryWriter: Constructor for Mitab26ModelledBinaryWriter.
Mitab26ModelledBinaryWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26ModelledBinaryWriter: Constructor for Mitab26ModelledBinaryWriter.
Mitab26ModelledBinaryWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab26ModelledBinaryWriter: Constructor for Mitab26ModelledBinaryWriter.
Mitab26ModelledBinaryWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26ModelledBinaryWriter: Constructor for Mitab26ModelledBinaryWriter.
Mitab26ModelledBinaryWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab26ModelledBinaryWriter: Constructor for Mitab26ModelledBinaryWriter.
Mitab26ModelledWriter - Class in psidev.psi.mi.jami.tab.io.writer.extended: Mitab 2.6 writer for Modelled interaction
Mitab26ModelledWriter - Class in psidev.psi.mi.jami.tab.io.writer: Mitab 2.6 writer for Modelled interaction
Mitab26ModelledWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26ModelledWriter: Constructor for Mitab26ModelledWriter.
Mitab26ModelledWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab26ModelledWriter: Constructor for Mitab26ModelledWriter.
Mitab26ModelledWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26ModelledWriter: Constructor for Mitab26ModelledWriter.
Mitab26ModelledWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab26ModelledWriter: Constructor for Mitab26ModelledWriter.
Mitab26ModelledWriter(File, ComplexExpansionMethod<ModelledInteraction, ModelledBinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26ModelledWriter: Constructor for Mitab26ModelledWriter.
Mitab26ModelledWriter(File, ComplexExpansionMethod<ModelledInteraction, ModelledBinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab26ModelledWriter: Constructor for Mitab26ModelledWriter.
Mitab26ModelledWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26ModelledWriter: Constructor for Mitab26ModelledWriter.
Mitab26ModelledWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab26ModelledWriter: Constructor for Mitab26ModelledWriter.
Mitab26ModelledWriter(OutputStream, ComplexExpansionMethod<ModelledInteraction, ModelledBinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26ModelledWriter: Constructor for Mitab26ModelledWriter.
Mitab26ModelledWriter(OutputStream, ComplexExpansionMethod<ModelledInteraction, ModelledBinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab26ModelledWriter: Constructor for Mitab26ModelledWriter.
Mitab26ModelledWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26ModelledWriter: Constructor for Mitab26ModelledWriter.
Mitab26ModelledWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab26ModelledWriter: Constructor for Mitab26ModelledWriter.
Mitab26ModelledWriter(Writer, ComplexExpansionMethod<ModelledInteraction, ModelledBinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26ModelledWriter: Constructor for Mitab26ModelledWriter.
Mitab26ModelledWriter(Writer, ComplexExpansionMethod<ModelledInteraction, ModelledBinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab26ModelledWriter: Constructor for Mitab26ModelledWriter.
Mitab26Writer - Class in psidev.psi.mi.jami.tab.io.writer.extended: The simple MITAB 2.6 writer will write interactions using the JAMI interfaces.
Mitab26Writer - Class in psidev.psi.mi.jami.tab.io.writer: The simple MITAB 2.6 writer will write interactions using the JAMI interfaces.
Mitab26Writer() - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26Writer: Constructor for Mitab26Writer.
Mitab26Writer() - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab26Writer: Constructor for Mitab26Writer.
Mitab26Writer(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26Writer: Constructor for Mitab26Writer.
Mitab26Writer(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab26Writer: Constructor for Mitab26Writer.
Mitab26Writer(File, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26Writer: Constructor for Mitab26Writer.
Mitab26Writer(File, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab26Writer: Constructor for Mitab26Writer.
Mitab26Writer(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26Writer: Constructor for Mitab26Writer.
Mitab26Writer(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab26Writer: Constructor for Mitab26Writer.
Mitab26Writer(OutputStream, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26Writer: Constructor for Mitab26Writer.
Mitab26Writer(OutputStream, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab26Writer: Constructor for Mitab26Writer.
Mitab26Writer(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26Writer: Constructor for Mitab26Writer.
Mitab26Writer(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab26Writer: Constructor for Mitab26Writer.
Mitab26Writer(Writer, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab26Writer: Constructor for Mitab26Writer.
Mitab26Writer(Writer, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab26Writer: Constructor for Mitab26Writer.
Mitab27BinaryEvidenceWriter - Class in psidev.psi.mi.jami.tab.io.writer.extended: Mitab 2.7 writer for binary interaction evidences
Mitab27BinaryEvidenceWriter - Class in psidev.psi.mi.jami.tab.io.writer: Mitab 2.7 writer for binary interaction evidences
Mitab27BinaryEvidenceWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27BinaryEvidenceWriter: Constructor for Mitab27BinaryEvidenceWriter.
Mitab27BinaryEvidenceWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab27BinaryEvidenceWriter: Constructor for Mitab27BinaryEvidenceWriter.
Mitab27BinaryEvidenceWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27BinaryEvidenceWriter: Constructor for Mitab27BinaryEvidenceWriter.
Mitab27BinaryEvidenceWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab27BinaryEvidenceWriter: Constructor for Mitab27BinaryEvidenceWriter.
Mitab27BinaryEvidenceWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27BinaryEvidenceWriter: Constructor for Mitab27BinaryEvidenceWriter.
Mitab27BinaryEvidenceWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab27BinaryEvidenceWriter: Constructor for Mitab27BinaryEvidenceWriter.
Mitab27BinaryEvidenceWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27BinaryEvidenceWriter: Constructor for Mitab27BinaryEvidenceWriter.
Mitab27BinaryEvidenceWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab27BinaryEvidenceWriter: Constructor for Mitab27BinaryEvidenceWriter.
Mitab27BinaryWriter - Class in psidev.psi.mi.jami.tab.io.writer.extended: The basic Mitab 2.7 writer for BinaryInteraction
Mitab27BinaryWriter - Class in psidev.psi.mi.jami.tab.io.writer: The basic Mitab 2.7 writer for BinaryInteraction
Mitab27BinaryWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27BinaryWriter: Constructor for Mitab27BinaryWriter.
Mitab27BinaryWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab27BinaryWriter: Constructor for Mitab27BinaryWriter.
Mitab27BinaryWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27BinaryWriter: Constructor for Mitab27BinaryWriter.
Mitab27BinaryWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab27BinaryWriter: Constructor for Mitab27BinaryWriter.
Mitab27BinaryWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27BinaryWriter: Constructor for Mitab27BinaryWriter.
Mitab27BinaryWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab27BinaryWriter: Constructor for Mitab27BinaryWriter.
Mitab27BinaryWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27BinaryWriter: Constructor for Mitab27BinaryWriter.
Mitab27BinaryWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab27BinaryWriter: Constructor for Mitab27BinaryWriter.
Mitab27EvidenceWriter - Class in psidev.psi.mi.jami.tab.io.writer.extended: Mitab 2.7 writer for interaction evidence
Mitab27EvidenceWriter - Class in psidev.psi.mi.jami.tab.io.writer: Mitab 2.7 writer for interaction evidence
Mitab27EvidenceWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27EvidenceWriter: Constructor for Mitab27EvidenceWriter.
Mitab27EvidenceWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab27EvidenceWriter: Constructor for Mitab27EvidenceWriter.
Mitab27EvidenceWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27EvidenceWriter: Constructor for Mitab27EvidenceWriter.
Mitab27EvidenceWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab27EvidenceWriter: Constructor for Mitab27EvidenceWriter.
Mitab27EvidenceWriter(File, ComplexExpansionMethod<InteractionEvidence, BinaryInteractionEvidence>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27EvidenceWriter: Constructor for Mitab27EvidenceWriter.
Mitab27EvidenceWriter(File, ComplexExpansionMethod<InteractionEvidence, BinaryInteractionEvidence>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab27EvidenceWriter: Constructor for Mitab27EvidenceWriter.
Mitab27EvidenceWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27EvidenceWriter: Constructor for Mitab27EvidenceWriter.
Mitab27EvidenceWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab27EvidenceWriter: Constructor for Mitab27EvidenceWriter.
Mitab27EvidenceWriter(OutputStream, ComplexExpansionMethod<InteractionEvidence, BinaryInteractionEvidence>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27EvidenceWriter: Constructor for Mitab27EvidenceWriter.
Mitab27EvidenceWriter(OutputStream, ComplexExpansionMethod<InteractionEvidence, BinaryInteractionEvidence>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab27EvidenceWriter: Constructor for Mitab27EvidenceWriter.
Mitab27EvidenceWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27EvidenceWriter: Constructor for Mitab27EvidenceWriter.
Mitab27EvidenceWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab27EvidenceWriter: Constructor for Mitab27EvidenceWriter.
Mitab27EvidenceWriter(Writer, ComplexExpansionMethod<InteractionEvidence, BinaryInteractionEvidence>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27EvidenceWriter: Constructor for Mitab27EvidenceWriter.
Mitab27EvidenceWriter(Writer, ComplexExpansionMethod<InteractionEvidence, BinaryInteractionEvidence>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab27EvidenceWriter: Constructor for Mitab27EvidenceWriter.
Mitab27ModelledBinaryWriter - Class in psidev.psi.mi.jami.tab.io.writer.extended: Mitab 2.7 writer for modelled binary interactions
Mitab27ModelledBinaryWriter - Class in psidev.psi.mi.jami.tab.io.writer: Mitab 2.7 writer for modelled binary interactions
Mitab27ModelledBinaryWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27ModelledBinaryWriter: Constructor for Mitab27ModelledBinaryWriter.
Mitab27ModelledBinaryWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab27ModelledBinaryWriter: Constructor for Mitab27ModelledBinaryWriter.
Mitab27ModelledBinaryWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27ModelledBinaryWriter: Constructor for Mitab27ModelledBinaryWriter.
Mitab27ModelledBinaryWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab27ModelledBinaryWriter: Constructor for Mitab27ModelledBinaryWriter.
Mitab27ModelledBinaryWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27ModelledBinaryWriter: Constructor for Mitab27ModelledBinaryWriter.
Mitab27ModelledBinaryWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab27ModelledBinaryWriter: Constructor for Mitab27ModelledBinaryWriter.
Mitab27ModelledBinaryWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27ModelledBinaryWriter: Constructor for Mitab27ModelledBinaryWriter.
Mitab27ModelledBinaryWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab27ModelledBinaryWriter: Constructor for Mitab27ModelledBinaryWriter.
Mitab27ModelledWriter - Class in psidev.psi.mi.jami.tab.io.writer.extended: Mitab 2.7 writer for Modelled interaction
Mitab27ModelledWriter - Class in psidev.psi.mi.jami.tab.io.writer: Mitab 2.7 writer for Modelled interaction
Mitab27ModelledWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27ModelledWriter: Constructor for Mitab27ModelledWriter.
Mitab27ModelledWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab27ModelledWriter: Constructor for Mitab27ModelledWriter.
Mitab27ModelledWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27ModelledWriter: Constructor for Mitab27ModelledWriter.
Mitab27ModelledWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab27ModelledWriter: Constructor for Mitab27ModelledWriter.
Mitab27ModelledWriter(File, ComplexExpansionMethod<ModelledInteraction, ModelledBinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27ModelledWriter: Constructor for Mitab27ModelledWriter.
Mitab27ModelledWriter(File, ComplexExpansionMethod<ModelledInteraction, ModelledBinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab27ModelledWriter: Constructor for Mitab27ModelledWriter.
Mitab27ModelledWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27ModelledWriter: Constructor for Mitab27ModelledWriter.
Mitab27ModelledWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab27ModelledWriter: Constructor for Mitab27ModelledWriter.
Mitab27ModelledWriter(OutputStream, ComplexExpansionMethod<ModelledInteraction, ModelledBinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27ModelledWriter: Constructor for Mitab27ModelledWriter.
Mitab27ModelledWriter(OutputStream, ComplexExpansionMethod<ModelledInteraction, ModelledBinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab27ModelledWriter: Constructor for Mitab27ModelledWriter.
Mitab27ModelledWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27ModelledWriter: Constructor for Mitab27ModelledWriter.
Mitab27ModelledWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab27ModelledWriter: Constructor for Mitab27ModelledWriter.
Mitab27ModelledWriter(Writer, ComplexExpansionMethod<ModelledInteraction, ModelledBinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27ModelledWriter: Constructor for Mitab27ModelledWriter.
Mitab27ModelledWriter(Writer, ComplexExpansionMethod<ModelledInteraction, ModelledBinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab27ModelledWriter: Constructor for Mitab27ModelledWriter.
Mitab27Writer - Class in psidev.psi.mi.jami.tab.io.writer.extended: The simple MITAB 2.7 writer will write interactions using the JAMI interfaces.
Mitab27Writer - Class in psidev.psi.mi.jami.tab.io.writer: The simple MITAB 2.7 writer will write interactions using the JAMI interfaces.
Mitab27Writer() - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27Writer: Constructor for Mitab27Writer.
Mitab27Writer() - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab27Writer: Constructor for Mitab27Writer.
Mitab27Writer(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27Writer: Constructor for Mitab27Writer.
Mitab27Writer(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab27Writer: Constructor for Mitab27Writer.
Mitab27Writer(File, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27Writer: Constructor for Mitab27Writer.
Mitab27Writer(File, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab27Writer: Constructor for Mitab27Writer.
Mitab27Writer(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27Writer: Constructor for Mitab27Writer.
Mitab27Writer(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab27Writer: Constructor for Mitab27Writer.
Mitab27Writer(OutputStream, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27Writer: Constructor for Mitab27Writer.
Mitab27Writer(OutputStream, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab27Writer: Constructor for Mitab27Writer.
Mitab27Writer(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27Writer: Constructor for Mitab27Writer.
Mitab27Writer(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab27Writer: Constructor for Mitab27Writer.
Mitab27Writer(Writer, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab27Writer: Constructor for Mitab27Writer.
Mitab27Writer(Writer, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab27Writer: Constructor for Mitab27Writer.
Mitab28BinaryEvidenceWriter - Class in psidev.psi.mi.jami.tab.io.writer.extended: Mitab 2.8 writer for binary interaction evidences
Mitab28BinaryEvidenceWriter - Class in psidev.psi.mi.jami.tab.io.writer: Mitab 2.8 writer for binary interaction evidences
Mitab28BinaryEvidenceWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28BinaryEvidenceWriter: Constructor for Mitab28BinaryEvidenceWriter.
Mitab28BinaryEvidenceWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab28BinaryEvidenceWriter: Constructor for Mitab28BinaryEvidenceWriter.
Mitab28BinaryEvidenceWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28BinaryEvidenceWriter: Constructor for Mitab28BinaryEvidenceWriter.
Mitab28BinaryEvidenceWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab28BinaryEvidenceWriter: Constructor for Mitab28BinaryEvidenceWriter.
Mitab28BinaryEvidenceWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28BinaryEvidenceWriter: Constructor for Mitab28BinaryEvidenceWriter.
Mitab28BinaryEvidenceWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab28BinaryEvidenceWriter: Constructor for Mitab28BinaryEvidenceWriter.
Mitab28BinaryEvidenceWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28BinaryEvidenceWriter: Constructor for Mitab28BinaryEvidenceWriter.
Mitab28BinaryEvidenceWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab28BinaryEvidenceWriter: Constructor for Mitab28BinaryEvidenceWriter.
Mitab28BinaryWriter - Class in psidev.psi.mi.jami.tab.io.writer.extended: The basic Mitab 2.8 writer for BinaryInteraction
Mitab28BinaryWriter - Class in psidev.psi.mi.jami.tab.io.writer: The basic Mitab 2.8 writer for BinaryInteraction
Mitab28BinaryWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28BinaryWriter: Constructor for Mitab28BinaryWriter.
Mitab28BinaryWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab28BinaryWriter: Constructor for Mitab28BinaryWriter.
Mitab28BinaryWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28BinaryWriter: Constructor for Mitab28BinaryWriter.
Mitab28BinaryWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab28BinaryWriter: Constructor for Mitab28BinaryWriter.
Mitab28BinaryWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28BinaryWriter: Constructor for Mitab28BinaryWriter.
Mitab28BinaryWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab28BinaryWriter: Constructor for Mitab28BinaryWriter.
Mitab28BinaryWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28BinaryWriter: Constructor for Mitab28BinaryWriter.
Mitab28BinaryWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab28BinaryWriter: Constructor for Mitab28BinaryWriter.
Mitab28EvidenceWriter - Class in psidev.psi.mi.jami.tab.io.writer.extended: Mitab 2.8 writer for interaction evidence
Mitab28EvidenceWriter - Class in psidev.psi.mi.jami.tab.io.writer: Mitab 2.8 writer for interaction evidence
Mitab28EvidenceWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28EvidenceWriter: Constructor for Mitab28EvidenceWriter.
Mitab28EvidenceWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab28EvidenceWriter: Constructor for Mitab28EvidenceWriter.
Mitab28EvidenceWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28EvidenceWriter: Constructor for Mitab28EvidenceWriter.
Mitab28EvidenceWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab28EvidenceWriter: Constructor for Mitab28EvidenceWriter.
Mitab28EvidenceWriter(File, ComplexExpansionMethod<InteractionEvidence, BinaryInteractionEvidence>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28EvidenceWriter: Constructor for Mitab28EvidenceWriter.
Mitab28EvidenceWriter(File, ComplexExpansionMethod<InteractionEvidence, BinaryInteractionEvidence>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab28EvidenceWriter: Constructor for Mitab28EvidenceWriter.
Mitab28EvidenceWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28EvidenceWriter: Constructor for Mitab28EvidenceWriter.
Mitab28EvidenceWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab28EvidenceWriter: Constructor for Mitab28EvidenceWriter.
Mitab28EvidenceWriter(OutputStream, ComplexExpansionMethod<InteractionEvidence, BinaryInteractionEvidence>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28EvidenceWriter: Constructor for Mitab28EvidenceWriter.
Mitab28EvidenceWriter(OutputStream, ComplexExpansionMethod<InteractionEvidence, BinaryInteractionEvidence>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab28EvidenceWriter: Constructor for Mitab28EvidenceWriter.
Mitab28EvidenceWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28EvidenceWriter: Constructor for Mitab28EvidenceWriter.
Mitab28EvidenceWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab28EvidenceWriter: Constructor for Mitab28EvidenceWriter.
Mitab28EvidenceWriter(Writer, ComplexExpansionMethod<InteractionEvidence, BinaryInteractionEvidence>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28EvidenceWriter: Constructor for Mitab28EvidenceWriter.
Mitab28EvidenceWriter(Writer, ComplexExpansionMethod<InteractionEvidence, BinaryInteractionEvidence>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab28EvidenceWriter: Constructor for Mitab28EvidenceWriter.
Mitab28ModelledBinaryWriter - Class in psidev.psi.mi.jami.tab.io.writer.extended: Mitab 2.8 writer for modelled binary interactions
Mitab28ModelledBinaryWriter - Class in psidev.psi.mi.jami.tab.io.writer: Mitab 2.8 writer for modelled binary interactions
Mitab28ModelledBinaryWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28ModelledBinaryWriter: Constructor for Mitab28ModelledBinaryWriter.
Mitab28ModelledBinaryWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab28ModelledBinaryWriter: Constructor for Mitab28ModelledBinaryWriter.
Mitab28ModelledBinaryWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28ModelledBinaryWriter: Constructor for Mitab28ModelledBinaryWriter.
Mitab28ModelledBinaryWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab28ModelledBinaryWriter: Constructor for Mitab28ModelledBinaryWriter.
Mitab28ModelledBinaryWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28ModelledBinaryWriter: Constructor for Mitab28ModelledBinaryWriter.
Mitab28ModelledBinaryWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab28ModelledBinaryWriter: Constructor for Mitab28ModelledBinaryWriter.
Mitab28ModelledBinaryWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28ModelledBinaryWriter: Constructor for Mitab28ModelledBinaryWriter.
Mitab28ModelledBinaryWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab28ModelledBinaryWriter: Constructor for Mitab28ModelledBinaryWriter.
Mitab28ModelledWriter - Class in psidev.psi.mi.jami.tab.io.writer.extended: Mitab 2.8 writer for Modelled interaction
Mitab28ModelledWriter - Class in psidev.psi.mi.jami.tab.io.writer: Mitab 2.8 writer for Modelled interaction
Mitab28ModelledWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28ModelledWriter: Constructor for Mitab28ModelledWriter.
Mitab28ModelledWriter() - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab28ModelledWriter: Constructor for Mitab28ModelledWriter.
Mitab28ModelledWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28ModelledWriter: Constructor for Mitab28ModelledWriter.
Mitab28ModelledWriter(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab28ModelledWriter: Constructor for Mitab28ModelledWriter.
Mitab28ModelledWriter(File, ComplexExpansionMethod<ModelledInteraction, ModelledBinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28ModelledWriter: Constructor for Mitab28ModelledWriter.
Mitab28ModelledWriter(File, ComplexExpansionMethod<ModelledInteraction, ModelledBinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab28ModelledWriter: Constructor for Mitab28ModelledWriter.
Mitab28ModelledWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28ModelledWriter: Constructor for Mitab28ModelledWriter.
Mitab28ModelledWriter(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab28ModelledWriter: Constructor for Mitab28ModelledWriter.
Mitab28ModelledWriter(OutputStream, ComplexExpansionMethod<ModelledInteraction, ModelledBinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28ModelledWriter: Constructor for Mitab28ModelledWriter.
Mitab28ModelledWriter(OutputStream, ComplexExpansionMethod<ModelledInteraction, ModelledBinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab28ModelledWriter: Constructor for Mitab28ModelledWriter.
Mitab28ModelledWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28ModelledWriter: Constructor for Mitab28ModelledWriter.
Mitab28ModelledWriter(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab28ModelledWriter: Constructor for Mitab28ModelledWriter.
Mitab28ModelledWriter(Writer, ComplexExpansionMethod<ModelledInteraction, ModelledBinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28ModelledWriter: Constructor for Mitab28ModelledWriter.
Mitab28ModelledWriter(Writer, ComplexExpansionMethod<ModelledInteraction, ModelledBinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab28ModelledWriter: Constructor for Mitab28ModelledWriter.
Mitab28Writer - Class in psidev.psi.mi.jami.tab.io.writer.extended: The simple MITAB 2.8 writer will write interactions using the JAMI interfaces.
Mitab28Writer - Class in psidev.psi.mi.jami.tab.io.writer: The simple MITAB 2.8 writer will write interactions using the JAMI interfaces.
Mitab28Writer() - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28Writer: Constructor for Mitab28Writer.
Mitab28Writer() - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab28Writer: Constructor for Mitab28Writer.
Mitab28Writer(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28Writer: Constructor for Mitab28Writer.
Mitab28Writer(File) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab28Writer: Constructor for Mitab28Writer.
Mitab28Writer(File, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28Writer: Constructor for Mitab28Writer.
Mitab28Writer(File, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab28Writer: Constructor for Mitab28Writer.
Mitab28Writer(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28Writer: Constructor for Mitab28Writer.
Mitab28Writer(OutputStream) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab28Writer: Constructor for Mitab28Writer.
Mitab28Writer(OutputStream, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28Writer: Constructor for Mitab28Writer.
Mitab28Writer(OutputStream, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab28Writer: Constructor for Mitab28Writer.
Mitab28Writer(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28Writer: Constructor for Mitab28Writer.
Mitab28Writer(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab28Writer: Constructor for Mitab28Writer.
Mitab28Writer(Writer, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.extended.Mitab28Writer: Constructor for Mitab28Writer.
Mitab28Writer(Writer, ComplexExpansionMethod<Interaction, BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.tab.io.writer.Mitab28Writer: Constructor for Mitab28Writer.
MitabAlias - Class in psidev.psi.mi.jami.tab.extension: Extended alias in MITAB
MitabAlias(String, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabAlias: Constructor for MitabAlias.
MitabAlias(String, String, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabAlias: Constructor for MitabAlias.
MitabAlias(String, String, FileSourceLocator) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabAlias: Constructor for MitabAlias.
MitabAlias(String, CvTerm, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabAlias: Constructor for MitabAlias.
MitabAlias(String, CvTerm, String, FileSourceLocator) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabAlias: Constructor for MitabAlias.
MitabAnnotation - Class in psidev.psi.mi.jami.tab.extension: Extension of Annotation for Mitab with a sourceLocator
MitabAnnotation(String, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabAnnotation: Constructor for MitabAnnotation.
MitabAnnotation(CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabAnnotation: Constructor for MitabAnnotation.
MitabAnnotation(CvTerm, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabAnnotation: Constructor for MitabAnnotation.
MitabAnnotation(CvTerm, String, FileSourceLocator) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabAnnotation: Constructor for MitabAnnotation.
MitabAnnotation(CvTerm, FileSourceLocator) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabAnnotation: Constructor for MitabAnnotation.
MitabAuthor - Class in psidev.psi.mi.jami.tab.extension: This class wraps information about the first author found in mitab column 8
MitabAuthor(String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabAuthor: Constructor for MitabAuthor.
MitabAuthor(String, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabAuthor: Constructor for MitabAuthor.
MitabBinaryEvidenceIterator - Class in psidev.psi.mi.jami.tab.io.iterator: A MItab iterator of BinaryInteraction evidences
MitabBinaryEvidenceIterator(MitabLineParser<BinaryInteractionEvidence, ParticipantEvidence, FeatureEvidence>) - Constructor for class psidev.psi.mi.jami.tab.io.iterator.MitabBinaryEvidenceIterator: Constructor for MitabBinaryEvidenceIterator.
MitabBinaryEvidenceSource - Class in psidev.psi.mi.jami.tab.extension.datasource: A mitab datasource that loads interaction evidences (full experimental details).
MitabBinaryEvidenceSource() - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.MitabBinaryEvidenceSource: Constructor for MitabBinaryEvidenceSource.
MitabBinaryEvidenceSource(File) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.MitabBinaryEvidenceSource: Constructor for MitabBinaryEvidenceSource.
MitabBinaryEvidenceSource(InputStream) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.MitabBinaryEvidenceSource: Constructor for MitabBinaryEvidenceSource.
MitabBinaryEvidenceSource(Reader) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.MitabBinaryEvidenceSource: Constructor for MitabBinaryEvidenceSource.
MitabBinaryEvidenceStreamSource - Class in psidev.psi.mi.jami.tab.extension.datasource: A mitab datasource that loads interaction evidences (full experimental details) It only provides an iterator of the interactions
MitabBinaryEvidenceStreamSource() - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.MitabBinaryEvidenceStreamSource: Constructor for MitabBinaryEvidenceStreamSource.
MitabBinaryEvidenceStreamSource(File) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.MitabBinaryEvidenceStreamSource: Constructor for MitabBinaryEvidenceStreamSource.
MitabBinaryEvidenceStreamSource(InputStream) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.MitabBinaryEvidenceStreamSource: Constructor for MitabBinaryEvidenceStreamSource.
MitabBinaryEvidenceStreamSource(Reader) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.MitabBinaryEvidenceStreamSource: Constructor for MitabBinaryEvidenceStreamSource.
MitabBinaryInteraction - Class in psidev.psi.mi.jami.tab.extension: A MitabBinaryInteraction is a binaryInteraction with a MitabSourceLocator
MitabBinaryInteraction() - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBinaryInteraction: Constructor for MitabBinaryInteraction.
MitabBinaryInteraction(String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBinaryInteraction: Constructor for MitabBinaryInteraction.
MitabBinaryInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBinaryInteraction: Constructor for MitabBinaryInteraction.
MitabBinaryInteraction(String, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBinaryInteraction: Constructor for MitabBinaryInteraction.
MitabBinaryInteraction(String, CvTerm, Participant, Participant) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBinaryInteraction: Constructor for MitabBinaryInteraction.
MitabBinaryInteraction(String, CvTerm, Participant, Participant, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBinaryInteraction: Constructor for MitabBinaryInteraction.
MitabBinaryInteraction(String, Participant, Participant) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBinaryInteraction: Constructor for MitabBinaryInteraction.
MitabBinaryInteraction(String, Participant, Participant, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBinaryInteraction: Constructor for MitabBinaryInteraction.
MitabBinaryInteraction(CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBinaryInteraction: Constructor for MitabBinaryInteraction.
MitabBinaryInteraction(Participant, Participant) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBinaryInteraction: Constructor for MitabBinaryInteraction.
MitabBinaryInteraction(Participant, Participant, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBinaryInteraction: Constructor for MitabBinaryInteraction.
MitabBinaryInteractionEvidence - Class in psidev.psi.mi.jami.tab.extension: TODO comment this
MitabBinaryInteractionEvidence() - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBinaryInteractionEvidence: Constructor for MitabBinaryInteractionEvidence.
MitabBinaryInteractionEvidence(String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBinaryInteractionEvidence: Constructor for MitabBinaryInteractionEvidence.
MitabBinaryInteractionEvidence(String, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBinaryInteractionEvidence: Constructor for MitabBinaryInteractionEvidence.
MitabBinaryInteractionEvidence(String, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBinaryInteractionEvidence: Constructor for MitabBinaryInteractionEvidence.
MitabBinaryInteractionEvidence(String, CvTerm, ParticipantEvidence, ParticipantEvidence) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBinaryInteractionEvidence: Constructor for MitabBinaryInteractionEvidence.
MitabBinaryInteractionEvidence(String, CvTerm, ParticipantEvidence, ParticipantEvidence, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBinaryInteractionEvidence: Constructor for MitabBinaryInteractionEvidence.
MitabBinaryInteractionEvidence(String, ParticipantEvidence, ParticipantEvidence) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBinaryInteractionEvidence: Constructor for MitabBinaryInteractionEvidence.
MitabBinaryInteractionEvidence(String, ParticipantEvidence, ParticipantEvidence, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBinaryInteractionEvidence: Constructor for MitabBinaryInteractionEvidence.
MitabBinaryInteractionEvidence(CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBinaryInteractionEvidence: Constructor for MitabBinaryInteractionEvidence.
MitabBinaryInteractionEvidence(ParticipantEvidence, ParticipantEvidence) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBinaryInteractionEvidence: Constructor for MitabBinaryInteractionEvidence.
MitabBinaryInteractionEvidence(ParticipantEvidence, ParticipantEvidence, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBinaryInteractionEvidence: Constructor for MitabBinaryInteractionEvidence.
MitabBinaryIterator - Class in psidev.psi.mi.jami.tab.io.iterator: A MItab iterator of BinaryInteraction
MitabBinaryIterator(MitabLineParser<BinaryInteraction, Participant, Feature>) - Constructor for class psidev.psi.mi.jami.tab.io.iterator.MitabBinaryIterator: Constructor for MitabBinaryIterator.
MitabBioactiveEntity - Class in psidev.psi.mi.jami.tab.extension: Mitab extension for BioactiveEntity.
MitabBioactiveEntity(String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBioactiveEntity: Constructor for MitabBioactiveEntity.
MitabBioactiveEntity(String, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBioactiveEntity: Constructor for MitabBioactiveEntity.
MitabBioactiveEntity(String, String, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBioactiveEntity: Constructor for MitabBioactiveEntity.
MitabBioactiveEntity(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBioactiveEntity: Constructor for MitabBioactiveEntity.
MitabBioactiveEntity(String, String, CvTerm, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBioactiveEntity: Constructor for MitabBioactiveEntity.
MitabBioactiveEntity(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBioactiveEntity: Constructor for MitabBioactiveEntity.
MitabBioactiveEntity(String, String, CvTerm, Organism, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBioactiveEntity: Constructor for MitabBioactiveEntity.
MitabBioactiveEntity(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBioactiveEntity: Constructor for MitabBioactiveEntity.
MitabBioactiveEntity(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBioactiveEntity: Constructor for MitabBioactiveEntity.
MitabBioactiveEntity(String, String, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBioactiveEntity: Constructor for MitabBioactiveEntity.
MitabBioactiveEntity(String, String, Organism, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBioactiveEntity: Constructor for MitabBioactiveEntity.
MitabBioactiveEntity(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBioactiveEntity: Constructor for MitabBioactiveEntity.
MitabBioactiveEntity(String, String, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBioactiveEntity: Constructor for MitabBioactiveEntity.
MitabBioactiveEntity(String, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBioactiveEntity: Constructor for MitabBioactiveEntity.
MitabBioactiveEntity(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBioactiveEntity: Constructor for MitabBioactiveEntity.
MitabBioactiveEntity(String, CvTerm, Organism, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBioactiveEntity: Constructor for MitabBioactiveEntity.
MitabBioactiveEntity(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBioactiveEntity: Constructor for MitabBioactiveEntity.
MitabBioactiveEntity(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBioactiveEntity: Constructor for MitabBioactiveEntity.
MitabBioactiveEntity(String, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBioactiveEntity: Constructor for MitabBioactiveEntity.
MitabBioactiveEntity(String, Organism, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBioactiveEntity: Constructor for MitabBioactiveEntity.
MitabBioactiveEntity(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBioactiveEntity: Constructor for MitabBioactiveEntity.
MitabBioactiveEntity(String, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabBioactiveEntity: Constructor for MitabBioactiveEntity.
MitabCausalRelationship - Class in psidev.psi.mi.jami.tab.extension
MitabCausalRelationship(CvTerm, Participant) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabCausalRelationship: Constructor for MitabCausalRelationship.
MitabChecksum - Class in psidev.psi.mi.jami.tab.extension: Mitab extension for Checksum.
MitabChecksum(String, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabChecksum: Constructor for MitabChecksum.
MitabChecksum(CvTerm, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabChecksum: Constructor for MitabChecksum.
MitabChecksum(CvTerm, String, FileSourceLocator) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabChecksum: Constructor for MitabChecksum.
MitabColumnFeeder<T extends BinaryInteraction,P extends Participant> - Interface in psidev.psi.mi.jami.tab.io.writer.feeder: A MITAB 2.5 column feeder will write the content of MITAB 2.5 columns
MitabColumnName - Enum in psidev.psi.mi.jami.tab: Mitab column names
MitabComplex - Class in psidev.psi.mi.jami.tab.extension: Mitab extension for Complex.
MitabComplex(String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabComplex: Constructor for MitabComplex.
MitabComplex(String, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabComplex: Constructor for MitabComplex.
MitabComplex(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabComplex: Constructor for MitabComplex.
MitabComplex(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabComplex: Constructor for MitabComplex.
MitabComplex(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabComplex: Constructor for MitabComplex.
MitabComplex(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabComplex: Constructor for MitabComplex.
MitabComplex(String, String, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabComplex: Constructor for MitabComplex.
MitabComplex(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabComplex: Constructor for MitabComplex.
MitabComplex(String, String, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabComplex: Constructor for MitabComplex.
MitabComplex(String, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabComplex: Constructor for MitabComplex.
MitabComplex(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabComplex: Constructor for MitabComplex.
MitabComplex(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabComplex: Constructor for MitabComplex.
MitabComplex(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabComplex: Constructor for MitabComplex.
MitabComplex(String, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabComplex: Constructor for MitabComplex.
MitabComplex(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabComplex: Constructor for MitabComplex.
MitabComplex(String, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabComplex: Constructor for MitabComplex.
MitabConfidence - Class in psidev.psi.mi.jami.tab.extension: A MitabConfidence is a confidence with some text
MitabConfidence(String, String, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabConfidence: Constructor for MitabConfidence.
MitabConfidence(CvTerm, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabConfidence: Constructor for MitabConfidence.
MitabConfidence(CvTerm, String, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabConfidence: Constructor for MitabConfidence.
MitabCvTerm - Class in psidev.psi.mi.jami.tab.extension: Mitab extension for CvTerm.
MitabCvTerm(String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabCvTerm: Constructor for MitabCvTerm.
MitabCvTerm(String, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabCvTerm: Constructor for MitabCvTerm.
MitabCvTerm(String, String, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabCvTerm: Constructor for MitabCvTerm.
MitabCvTerm(String, String, String, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabCvTerm: Constructor for MitabCvTerm.
MitabCvTerm(String, String, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabCvTerm: Constructor for MitabCvTerm.
MitabCvTerm(String, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabCvTerm: Constructor for MitabCvTerm.
MitabDataSourceFactory - Class in psidev.psi.mi.jami.tab.extension.factory: Factory for creating a mitab datasource
MitabDataSourceOptions - Class in psidev.psi.mi.jami.tab.extension.factory.options: Class that lists all possible options for MIFileDataSource reading MITAB files.
MitabDataSourceOptions() - Constructor for class psidev.psi.mi.jami.tab.extension.factory.options.MitabDataSourceOptions
MitabDate - Class in psidev.psi.mi.jami.tab.extension: This class wraps a date and a fileSourceLocator
MitabDate(String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabDate: Constructor for MitabDate.
MitabEvidenceSource - Class in psidev.psi.mi.jami.tab.extension.datasource: A mitab datasource that loads interaction evidences (full experimental details) It will load the full interaction dataset
MitabEvidenceSource() - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.MitabEvidenceSource: Constructor for MitabEvidenceSource.
MitabEvidenceSource(File) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.MitabEvidenceSource: Constructor for MitabEvidenceSource.
MitabEvidenceSource(InputStream) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.MitabEvidenceSource: Constructor for MitabEvidenceSource.
MitabEvidenceSource(Reader) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.MitabEvidenceSource: Constructor for MitabEvidenceSource.
MitabEvidenceStreamSource - Class in psidev.psi.mi.jami.tab.extension.datasource: A mitab datasource that loads interaction evidences (full experimental details) It only provides an iterator of the interactions
MitabEvidenceStreamSource() - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.MitabEvidenceStreamSource: Constructor for MitabEvidenceStreamSource.
MitabEvidenceStreamSource(File) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.MitabEvidenceStreamSource: Constructor for MitabEvidenceStreamSource.
MitabEvidenceStreamSource(InputStream) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.MitabEvidenceStreamSource: Constructor for MitabEvidenceStreamSource.
MitabEvidenceStreamSource(Reader) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.MitabEvidenceStreamSource: Constructor for MitabEvidenceStreamSource.
MitabExperiment - Class in psidev.psi.mi.jami.tab.extension: Mitab extension for Experiment.
MitabExperiment(Publication) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabExperiment: Constructor for MitabExperiment.
MitabExperiment(Publication, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabExperiment: Constructor for MitabExperiment.
MitabExperiment(Publication, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabExperiment: Constructor for MitabExperiment.
MitabFeature - Interface in psidev.psi.mi.jami.tab.extension: Basic interface for Mitab features
MitabFeatureEvidence - Class in psidev.psi.mi.jami.tab.extension: Mitab extension for FeatureEvidence
MitabFeatureEvidence() - Constructor for class psidev.psi.mi.jami.tab.extension.MitabFeatureEvidence: Constructor for MitabFeatureEvidence.
MitabFeatureEvidence(String, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabFeatureEvidence: Constructor for MitabFeatureEvidence.
MitabFeatureEvidence(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabFeatureEvidence: Constructor for MitabFeatureEvidence.
MitabFeatureEvidence(CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabFeatureEvidence: Constructor for MitabFeatureEvidence.
MitabFeatureEvidence(ParticipantEvidence) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabFeatureEvidence: Constructor for MitabFeatureEvidence.
MitabFeatureEvidence(ParticipantEvidence, String, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabFeatureEvidence: Constructor for MitabFeatureEvidence.
MitabFeatureEvidence(ParticipantEvidence, String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabFeatureEvidence: Constructor for MitabFeatureEvidence.
MitabFeatureEvidence(ParticipantEvidence, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabFeatureEvidence: Constructor for MitabFeatureEvidence.
MitabGene - Class in psidev.psi.mi.jami.tab.extension: Mitab extension for Gene.
MitabGene(String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabGene: Constructor for MitabGene.
MitabGene(String, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabGene: Constructor for MitabGene.
MitabGene(String, String, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabGene: Constructor for MitabGene.
MitabGene(String, String, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabGene: Constructor for MitabGene.
MitabGene(String, String, Organism, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabGene: Constructor for MitabGene.
MitabGene(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabGene: Constructor for MitabGene.
MitabGene(String, String, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabGene: Constructor for MitabGene.
MitabGene(String, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabGene: Constructor for MitabGene.
MitabGene(String, Organism, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabGene: Constructor for MitabGene.
MitabGene(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabGene: Constructor for MitabGene.
MitabGene(String, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabGene: Constructor for MitabGene.
MitabInteraction - Class in psidev.psi.mi.jami.tab.extension: Mitab extension for Interaction It contains a SourceLocator
MitabInteraction() - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteraction: Constructor for MitabInteraction.
MitabInteraction(String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteraction: Constructor for MitabInteraction.
MitabInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteraction: Constructor for MitabInteraction.
MitabInteractionEvidence - Class in psidev.psi.mi.jami.tab.extension: Mitab extension for InteractionEvidence
MitabInteractionEvidence() - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractionEvidence: Constructor for MitabInteractionEvidence.
MitabInteractionEvidence(String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractionEvidence: Constructor for MitabInteractionEvidence.
MitabInteractionEvidence(String, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractionEvidence: Constructor for MitabInteractionEvidence.
MitabInteractionEvidence(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractionEvidence: Constructor for MitabInteractionEvidence.
MitabInteractionEvidence(String, Source, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractionEvidence: Constructor for MitabInteractionEvidence.
MitabInteractionEvidence(String, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractionEvidence: Constructor for MitabInteractionEvidence.
MitabInteractionEvidence(Experiment) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractionEvidence: Constructor for MitabInteractionEvidence.
MitabInteractionEvidence(Experiment, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractionEvidence: Constructor for MitabInteractionEvidence.
MitabInteractionEvidence(Experiment, String, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractionEvidence: Constructor for MitabInteractionEvidence.
MitabInteractionEvidence(Experiment, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractionEvidence: Constructor for MitabInteractionEvidence.
MitabInteractionEvidence(Experiment, String, Source) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractionEvidence: Constructor for MitabInteractionEvidence.
MitabInteractionEvidence(Experiment, String, Source, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractionEvidence: Constructor for MitabInteractionEvidence.
MitabInteractionEvidence(Experiment, String, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractionEvidence: Constructor for MitabInteractionEvidence.
MitabInteractionEvidence(Experiment, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractionEvidence: Constructor for MitabInteractionEvidence.
MitabInteractionEvidence(Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractionEvidence: Constructor for MitabInteractionEvidence.
MitabInteractionEvidenceFeeder - Class in psidev.psi.mi.jami.tab.io.writer.feeder: The Mitab 2.5 column feeder for interaction evidences
MitabInteractionEvidenceFeeder(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.feeder.MitabInteractionEvidenceFeeder: Constructor for MitabInteractionEvidenceFeeder.
MitabInteractionEvidenceIterator - Class in psidev.psi.mi.jami.tab.io.iterator: A MItab iterator of BinaryInteraction evidences
MitabInteractionEvidenceIterator(MitabLineParser<InteractionEvidence, ParticipantEvidence, FeatureEvidence>) - Constructor for class psidev.psi.mi.jami.tab.io.iterator.MitabInteractionEvidenceIterator: Constructor for MitabInteractionEvidenceIterator.
MitabInteractionIterator - Class in psidev.psi.mi.jami.tab.io.iterator: A MItab iterator of BinaryInteraction
MitabInteractionIterator(MitabLineParser<Interaction, Participant, Feature>) - Constructor for class psidev.psi.mi.jami.tab.io.iterator.MitabInteractionIterator: Constructor for MitabInteractionIterator.
MitabInteractor - Class in psidev.psi.mi.jami.tab.extension: Mitab extension for interactor.
MitabInteractor(String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractor: Constructor for MitabInteractor.
MitabInteractor(String, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractor: Constructor for MitabInteractor.
MitabInteractor(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractor: Constructor for MitabInteractor.
MitabInteractor(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractor: Constructor for MitabInteractor.
MitabInteractor(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractor: Constructor for MitabInteractor.
MitabInteractor(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractor: Constructor for MitabInteractor.
MitabInteractor(String, String, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractor: Constructor for MitabInteractor.
MitabInteractor(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractor: Constructor for MitabInteractor.
MitabInteractor(String, String, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractor: Constructor for MitabInteractor.
MitabInteractor(String, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractor: Constructor for MitabInteractor.
MitabInteractor(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractor: Constructor for MitabInteractor.
MitabInteractor(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractor: Constructor for MitabInteractor.
MitabInteractor(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractor: Constructor for MitabInteractor.
MitabInteractor(String, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractor: Constructor for MitabInteractor.
MitabInteractor(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractor: Constructor for MitabInteractor.
MitabInteractor(String, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractor: Constructor for MitabInteractor.
MitabInteractorFactory - Class in psidev.psi.mi.jami.tab.extension.factory: The MITAB extension of the InteractorFactory
MitabInteractorFactory() - Constructor for class psidev.psi.mi.jami.tab.extension.factory.MitabInteractorFactory: Constructor for MitabInteractorFactory.
MitabInteractorPool - Class in psidev.psi.mi.jami.tab.extension: The mitab extension for InteractorSet
MitabInteractorPool(String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractorPool: Constructor for MitabInteractorPool.
MitabInteractorPool(String, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractorPool: Constructor for MitabInteractorPool.
MitabInteractorPool(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractorPool: Constructor for MitabInteractorPool.
MitabInteractorPool(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractorPool: Constructor for MitabInteractorPool.
MitabInteractorPool(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractorPool: Constructor for MitabInteractorPool.
MitabInteractorPool(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractorPool: Constructor for MitabInteractorPool.
MitabInteractorPool(String, String, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractorPool: Constructor for MitabInteractorPool.
MitabInteractorPool(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractorPool: Constructor for MitabInteractorPool.
MitabInteractorPool(String, String, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractorPool: Constructor for MitabInteractorPool.
MitabInteractorPool(String, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractorPool: Constructor for MitabInteractorPool.
MitabInteractorPool(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractorPool: Constructor for MitabInteractorPool.
MitabInteractorPool(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractorPool: Constructor for MitabInteractorPool.
MitabInteractorPool(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractorPool: Constructor for MitabInteractorPool.
MitabInteractorPool(String, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractorPool: Constructor for MitabInteractorPool.
MitabInteractorPool(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractorPool: Constructor for MitabInteractorPool.
MitabInteractorPool(String, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabInteractorPool: Constructor for MitabInteractorPool.
MitabLine() - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
MitabLineParser<T extends Interaction,P extends Participant,F extends Feature> - Class in psidev.psi.mi.jami.tab.io.parser
MitabLineParser(InputStream) - Constructor for class psidev.psi.mi.jami.tab.io.parser.MitabLineParser: Constructor with InputStream.
MitabLineParser(InputStream, String) - Constructor for class psidev.psi.mi.jami.tab.io.parser.MitabLineParser: Constructor with InputStream and supplied encoding.
MitabLineParser(Reader) - Constructor for class psidev.psi.mi.jami.tab.io.parser.MitabLineParser: Constructor.
MitabLineParser(MitabLineParserTokenManager) - Constructor for class psidev.psi.mi.jami.tab.io.parser.MitabLineParser: Constructor with generated Token Manager.
MitabLineParserConstants - Interface in psidev.psi.mi.jami.tab.io.parser: Token literal values and constants.
MitabLineParserTokenManager - Class in psidev.psi.mi.jami.tab.io.parser: Token Manager.
MitabLineParserTokenManager(JavaCharStream) - Constructor for class psidev.psi.mi.jami.tab.io.parser.MitabLineParserTokenManager: Constructor.
MitabLineParserTokenManager(JavaCharStream, int) - Constructor for class psidev.psi.mi.jami.tab.io.parser.MitabLineParserTokenManager: Constructor.
MitabModelledBinaryInteraction - Class in psidev.psi.mi.jami.tab.extension: A MitabBinaryInteraction is a modelled binaryInteraction with a MitabSourceLocator
MitabModelledBinaryInteraction() - Constructor for class psidev.psi.mi.jami.tab.extension.MitabModelledBinaryInteraction: Constructor for MitabModelledBinaryInteraction.
MitabModelledBinaryInteraction(String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabModelledBinaryInteraction: Constructor for MitabModelledBinaryInteraction.
MitabModelledBinaryInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabModelledBinaryInteraction: Constructor for MitabModelledBinaryInteraction.
MitabModelledBinaryInteraction(String, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabModelledBinaryInteraction: Constructor for MitabModelledBinaryInteraction.
MitabModelledBinaryInteraction(String, CvTerm, ModelledParticipant, ModelledParticipant) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabModelledBinaryInteraction: Constructor for MitabModelledBinaryInteraction.
MitabModelledBinaryInteraction(String, CvTerm, ModelledParticipant, ModelledParticipant, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabModelledBinaryInteraction: Constructor for MitabModelledBinaryInteraction.
MitabModelledBinaryInteraction(String, ModelledParticipant, ModelledParticipant) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabModelledBinaryInteraction: Constructor for MitabModelledBinaryInteraction.
MitabModelledBinaryInteraction(String, ModelledParticipant, ModelledParticipant, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabModelledBinaryInteraction: Constructor for MitabModelledBinaryInteraction.
MitabModelledBinaryInteraction(CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabModelledBinaryInteraction: Constructor for MitabModelledBinaryInteraction.
MitabModelledBinaryInteraction(ModelledParticipant, ModelledParticipant) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabModelledBinaryInteraction: Constructor for MitabModelledBinaryInteraction.
MitabModelledBinaryInteraction(ModelledParticipant, ModelledParticipant, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabModelledBinaryInteraction: Constructor for MitabModelledBinaryInteraction.
MitabModelledBinaryIterator - Class in psidev.psi.mi.jami.tab.io.iterator: A MItab iterator of modelled BinaryInteractions
MitabModelledBinaryIterator(MitabLineParser<ModelledBinaryInteraction, ModelledParticipant, ModelledFeature>) - Constructor for class psidev.psi.mi.jami.tab.io.iterator.MitabModelledBinaryIterator: Constructor for MitabModelledBinaryIterator.
MitabModelledBinarySource - Class in psidev.psi.mi.jami.tab.extension.datasource: A mitab datasource that loads modelled binary interactions and ignore experimental details.
MitabModelledBinarySource() - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.MitabModelledBinarySource: Constructor for MitabModelledBinarySource.
MitabModelledBinarySource(File) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.MitabModelledBinarySource: Constructor for MitabModelledBinarySource.
MitabModelledBinarySource(InputStream) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.MitabModelledBinarySource: Constructor for MitabModelledBinarySource.
MitabModelledBinarySource(Reader) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.MitabModelledBinarySource: Constructor for MitabModelledBinarySource.
MitabModelledBinaryStreamSource - Class in psidev.psi.mi.jami.tab.extension.datasource: A mitab datasource that loads modelled binary interactions and ignore experimental details.
MitabModelledBinaryStreamSource() - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.MitabModelledBinaryStreamSource: Constructor for MitabModelledBinaryStreamSource.
MitabModelledBinaryStreamSource(File) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.MitabModelledBinaryStreamSource: Constructor for MitabModelledBinaryStreamSource.
MitabModelledBinaryStreamSource(InputStream) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.MitabModelledBinaryStreamSource: Constructor for MitabModelledBinaryStreamSource.
MitabModelledBinaryStreamSource(Reader) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.MitabModelledBinaryStreamSource: Constructor for MitabModelledBinaryStreamSource.
MitabModelledFeature - Class in psidev.psi.mi.jami.tab.extension: Mitab extension of ModelledFeature
MitabModelledFeature() - Constructor for class psidev.psi.mi.jami.tab.extension.MitabModelledFeature: Constructor for MitabModelledFeature.
MitabModelledFeature(String, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabModelledFeature: Constructor for MitabModelledFeature.
MitabModelledFeature(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabModelledFeature: Constructor for MitabModelledFeature.
MitabModelledFeature(CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabModelledFeature: Constructor for MitabModelledFeature.
MitabModelledFeature(ModelledParticipant) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabModelledFeature: Constructor for MitabModelledFeature.
MitabModelledFeature(ModelledParticipant, String, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabModelledFeature: Constructor for MitabModelledFeature.
MitabModelledFeature(ModelledParticipant, String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabModelledFeature: Constructor for MitabModelledFeature.
MitabModelledFeature(ModelledParticipant, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabModelledFeature: Constructor for MitabModelledFeature.
MitabModelledInteraction - Class in psidev.psi.mi.jami.tab.extension: Mitab extension for ModelledInteraction.
MitabModelledInteraction() - Constructor for class psidev.psi.mi.jami.tab.extension.MitabModelledInteraction: Constructor for MitabModelledInteraction.
MitabModelledInteraction(String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabModelledInteraction: Constructor for MitabModelledInteraction.
MitabModelledInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabModelledInteraction: Constructor for MitabModelledInteraction.
MitabModelledInteraction(String, Source) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabModelledInteraction: Constructor for MitabModelledInteraction.
MitabModelledInteraction(String, Source, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabModelledInteraction: Constructor for MitabModelledInteraction.
MitabModelledInteractionFeeder - Class in psidev.psi.mi.jami.tab.io.writer.feeder: The Mitab 2.5 column feeder for Modelled interactions
MitabModelledInteractionFeeder(Writer) - Constructor for class psidev.psi.mi.jami.tab.io.writer.feeder.MitabModelledInteractionFeeder: Constructor for MitabModelledInteractionFeeder.
MitabModelledInteractionIterator - Class in psidev.psi.mi.jami.tab.io.iterator: A MItab iterator of modelled BinaryInteractions
MitabModelledInteractionIterator(MitabLineParser<ModelledInteraction, ModelledParticipant, ModelledFeature>) - Constructor for class psidev.psi.mi.jami.tab.io.iterator.MitabModelledInteractionIterator: Constructor for MitabModelledInteractionIterator.
MitabModelledParticipant - Class in psidev.psi.mi.jami.tab.extension: Mitab extension for ModelledParticipant It contains a FileSourceLocator
MitabModelledParticipant(Interactor) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabModelledParticipant: Constructor for MitabModelledParticipant.
MitabModelledParticipant(Interactor, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabModelledParticipant: Constructor for MitabModelledParticipant.
MitabModelledParticipant(Interactor, CvTerm, Stoichiometry) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabModelledParticipant: Constructor for MitabModelledParticipant.
MitabModelledParticipant(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabModelledParticipant: Constructor for MitabModelledParticipant.
MitabModelledSource - Class in psidev.psi.mi.jami.tab.extension.datasource: A mitab datasource that loads modelled interactions and ignore experimental details It will load the full interaction dataset.
MitabModelledSource() - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.MitabModelledSource: Constructor for MitabModelledSource.
MitabModelledSource(File) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.MitabModelledSource: Constructor for MitabModelledSource.
MitabModelledSource(InputStream) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.MitabModelledSource: Constructor for MitabModelledSource.
MitabModelledSource(Reader) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.MitabModelledSource: Constructor for MitabModelledSource.
MitabModelledStreamSource - Class in psidev.psi.mi.jami.tab.extension.datasource: A mitab datasource that loads modelled interactions and ignore experimental details It only provides an iterator of modelled interactions
MitabModelledStreamSource() - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.MitabModelledStreamSource: Constructor for MitabModelledStreamSource.
MitabModelledStreamSource(File) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.MitabModelledStreamSource: Constructor for MitabModelledStreamSource.
MitabModelledStreamSource(InputStream) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.MitabModelledStreamSource: Constructor for MitabModelledStreamSource.
MitabModelledStreamSource(Reader) - Constructor for class psidev.psi.mi.jami.tab.extension.datasource.MitabModelledStreamSource: Constructor for MitabModelledStreamSource.
MitabMolecule - Class in psidev.psi.mi.jami.tab.extension: Mitab extension for Molecule
MitabMolecule(String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabMolecule: Constructor for MitabMolecule.
MitabMolecule(String, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabMolecule: Constructor for MitabMolecule.
MitabMolecule(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabMolecule: Constructor for MitabMolecule.
MitabMolecule(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabMolecule: Constructor for MitabMolecule.
MitabMolecule(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabMolecule: Constructor for MitabMolecule.
MitabMolecule(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabMolecule: Constructor for MitabMolecule.
MitabMolecule(String, String, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabMolecule: Constructor for MitabMolecule.
MitabMolecule(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabMolecule: Constructor for MitabMolecule.
MitabMolecule(String, String, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabMolecule: Constructor for MitabMolecule.
MitabMolecule(String, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabMolecule: Constructor for MitabMolecule.
MitabMolecule(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabMolecule: Constructor for MitabMolecule.
MitabMolecule(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabMolecule: Constructor for MitabMolecule.
MitabMolecule(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabMolecule: Constructor for MitabMolecule.
MitabMolecule(String, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabMolecule: Constructor for MitabMolecule.
MitabMolecule(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabMolecule: Constructor for MitabMolecule.
MitabMolecule(String, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabMolecule: Constructor for MitabMolecule.
MitabNucleicAcid - Class in psidev.psi.mi.jami.tab.extension: Mitab extension for NucleicAcid It will contain a FileSourceLocator
MitabNucleicAcid(String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabNucleicAcid: Constructor for MitabNucleicAcid.
MitabNucleicAcid(String, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabNucleicAcid: Constructor for MitabNucleicAcid.
MitabNucleicAcid(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabNucleicAcid: Constructor for MitabNucleicAcid.
MitabNucleicAcid(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabNucleicAcid: Constructor for MitabNucleicAcid.
MitabNucleicAcid(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabNucleicAcid: Constructor for MitabNucleicAcid.
MitabNucleicAcid(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabNucleicAcid: Constructor for MitabNucleicAcid.
MitabNucleicAcid(String, String, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabNucleicAcid: Constructor for MitabNucleicAcid.
MitabNucleicAcid(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabNucleicAcid: Constructor for MitabNucleicAcid.
MitabNucleicAcid(String, String, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabNucleicAcid: Constructor for MitabNucleicAcid.
MitabNucleicAcid(String, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabNucleicAcid: Constructor for MitabNucleicAcid.
MitabNucleicAcid(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabNucleicAcid: Constructor for MitabNucleicAcid.
MitabNucleicAcid(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabNucleicAcid: Constructor for MitabNucleicAcid.
MitabNucleicAcid(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabNucleicAcid: Constructor for MitabNucleicAcid.
MitabNucleicAcid(String, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabNucleicAcid: Constructor for MitabNucleicAcid.
MitabNucleicAcid(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabNucleicAcid: Constructor for MitabNucleicAcid.
MitabNucleicAcid(String, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabNucleicAcid: Constructor for MitabNucleicAcid.
MitabOrganism - Class in psidev.psi.mi.jami.tab.extension: Mitab extension of Organism.
MitabOrganism(int) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabOrganism: Constructor for MitabOrganism.
MitabOrganism(int, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabOrganism: Constructor for MitabOrganism.
MitabOrganism(int, String, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabOrganism: Constructor for MitabOrganism.
MitabOrganism(int, String, String, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabOrganism: Constructor for MitabOrganism.
MitabOrganism(int, String, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabOrganism: Constructor for MitabOrganism.
MitabOrganism(int, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabOrganism: Constructor for MitabOrganism.
MitabParameter - Class in psidev.psi.mi.jami.tab.extension: Mitab extension of Parameter
MitabParameter(String, String, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabParameter: Constructor for MitabParameter.
MitabParameter(CvTerm, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabParameter: Constructor for MitabParameter.
MitabParameter(CvTerm, String, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabParameter: Constructor for MitabParameter.
MitabParameter(CvTerm, ParameterValue) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabParameter: Constructor for MitabParameter.
MitabParameter(CvTerm, ParameterValue, BigDecimal) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabParameter: Constructor for MitabParameter.
MitabParameter(CvTerm, ParameterValue, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabParameter: Constructor for MitabParameter.
MitabParameter(CvTerm, ParameterValue, CvTerm, BigDecimal) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabParameter: Constructor for MitabParameter.
MitabParserCompositeListener - Class in psidev.psi.mi.jami.tab.listener: This class contains several MI file listeners
MitabParserCompositeListener() - Constructor for class psidev.psi.mi.jami.tab.listener.MitabParserCompositeListener: Constructor for MitabParserCompositeListener.
MitabParserListener - Interface in psidev.psi.mi.jami.tab.listener: A listener listening to events when parsing a mitab file
MitabParserLogger - Class in psidev.psi.mi.jami.tab.listener: Logger for MitabParser
MitabParserLogger() - Constructor for class psidev.psi.mi.jami.tab.listener.MitabParserLogger
MitabParticipant - Class in psidev.psi.mi.jami.tab.extension: Mitab extension for Participant.
MitabParticipant(Interactor) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabParticipant: Constructor for MitabParticipant.
MitabParticipant(Interactor, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabParticipant: Constructor for MitabParticipant.
MitabParticipant(Interactor, CvTerm, Stoichiometry) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabParticipant: Constructor for MitabParticipant.
MitabParticipant(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabParticipant: Constructor for MitabParticipant.
MitabParticipantEvidence - Class in psidev.psi.mi.jami.tab.extension: Mitab extension of ParticipantEvidence.
MitabParticipantEvidence(InteractionEvidence, Interactor, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabParticipantEvidence: Constructor for MitabParticipantEvidence.
MitabParticipantEvidence(InteractionEvidence, Interactor, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabParticipantEvidence: Constructor for MitabParticipantEvidence.
MitabParticipantEvidence(InteractionEvidence, Interactor, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabParticipantEvidence: Constructor for MitabParticipantEvidence.
MitabParticipantEvidence(InteractionEvidence, Interactor, CvTerm, CvTerm, Organism, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabParticipantEvidence: Constructor for MitabParticipantEvidence.
MitabParticipantEvidence(InteractionEvidence, Interactor, CvTerm, CvTerm, Stoichiometry, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabParticipantEvidence: Constructor for MitabParticipantEvidence.
MitabParticipantEvidence(InteractionEvidence, Interactor, CvTerm, CvTerm, Stoichiometry, Organism, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabParticipantEvidence: Constructor for MitabParticipantEvidence.
MitabParticipantEvidence(InteractionEvidence, Interactor, CvTerm, Stoichiometry, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabParticipantEvidence: Constructor for MitabParticipantEvidence.
MitabParticipantEvidence(InteractionEvidence, Interactor, Stoichiometry, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabParticipantEvidence: Constructor for MitabParticipantEvidence.
MitabParticipantEvidence(Interactor) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabParticipantEvidence: Constructor for MitabParticipantEvidence.
MitabParticipantEvidence(Interactor, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabParticipantEvidence: Constructor for MitabParticipantEvidence.
MitabParticipantEvidence(Interactor, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabParticipantEvidence: Constructor for MitabParticipantEvidence.
MitabParticipantEvidence(Interactor, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabParticipantEvidence: Constructor for MitabParticipantEvidence.
MitabParticipantEvidence(Interactor, CvTerm, CvTerm, Organism, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabParticipantEvidence: Constructor for MitabParticipantEvidence.
MitabParticipantEvidence(Interactor, CvTerm, CvTerm, Stoichiometry, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabParticipantEvidence: Constructor for MitabParticipantEvidence.
MitabParticipantEvidence(Interactor, CvTerm, CvTerm, Stoichiometry, Organism, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabParticipantEvidence: Constructor for MitabParticipantEvidence.
MitabParticipantEvidence(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabParticipantEvidence: Constructor for MitabParticipantEvidence.
MitabParticipantEvidence(Interactor, Stoichiometry, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabParticipantEvidence: Constructor for MitabParticipantEvidence.
MitabPolymer - Class in psidev.psi.mi.jami.tab.extension: Mitab extension of Polymer.
MitabPolymer(String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabPolymer: Constructor for MitabPolymer.
MitabPolymer(String, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabPolymer: Constructor for MitabPolymer.
MitabPolymer(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabPolymer: Constructor for MitabPolymer.
MitabPolymer(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabPolymer: Constructor for MitabPolymer.
MitabPolymer(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabPolymer: Constructor for MitabPolymer.
MitabPolymer(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabPolymer: Constructor for MitabPolymer.
MitabPolymer(String, String, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabPolymer: Constructor for MitabPolymer.
MitabPolymer(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabPolymer: Constructor for MitabPolymer.
MitabPolymer(String, String, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabPolymer: Constructor for MitabPolymer.
MitabPolymer(String, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabPolymer: Constructor for MitabPolymer.
MitabPolymer(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabPolymer: Constructor for MitabPolymer.
MitabPolymer(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabPolymer: Constructor for MitabPolymer.
MitabPolymer(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabPolymer: Constructor for MitabPolymer.
MitabPolymer(String, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabPolymer: Constructor for MitabPolymer.
MitabPolymer(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabPolymer: Constructor for MitabPolymer.
MitabPolymer(String, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabPolymer: Constructor for MitabPolymer.
MitabProtein - Class in psidev.psi.mi.jami.tab.extension: Mitab extension of Protein.
MitabProtein(String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabProtein: Constructor for MitabProtein.
MitabProtein(String, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabProtein: Constructor for MitabProtein.
MitabProtein(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabProtein: Constructor for MitabProtein.
MitabProtein(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabProtein: Constructor for MitabProtein.
MitabProtein(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabProtein: Constructor for MitabProtein.
MitabProtein(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabProtein: Constructor for MitabProtein.
MitabProtein(String, String, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabProtein: Constructor for MitabProtein.
MitabProtein(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabProtein: Constructor for MitabProtein.
MitabProtein(String, String, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabProtein: Constructor for MitabProtein.
MitabProtein(String, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabProtein: Constructor for MitabProtein.
MitabProtein(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabProtein: Constructor for MitabProtein.
MitabProtein(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabProtein: Constructor for MitabProtein.
MitabProtein(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabProtein: Constructor for MitabProtein.
MitabProtein(String, Organism) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabProtein: Constructor for MitabProtein.
MitabProtein(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabProtein: Constructor for MitabProtein.
MitabProtein(String, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabProtein: Constructor for MitabProtein.
MitabPublication - Class in psidev.psi.mi.jami.tab.extension: Mitab extension of Publication.
MitabPublication() - Constructor for class psidev.psi.mi.jami.tab.extension.MitabPublication: Constructor for MitabPublication.
MitabPublication(String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabPublication: Constructor for MitabPublication.
MitabPublication(String, String, Date) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabPublication: Constructor for MitabPublication.
MitabPublication(String, String, Date, String, Source) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabPublication: Constructor for MitabPublication.
MitabPublication(String, String, Date, CurationDepth, Source) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabPublication: Constructor for MitabPublication.
MitabPublication(String, String, Source) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabPublication: Constructor for MitabPublication.
MitabPublication(String, CurationDepth, Source) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabPublication: Constructor for MitabPublication.
MitabPublication(Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabPublication: Constructor for MitabPublication.
MitabPublication(Xref, String, Source) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabPublication: Constructor for MitabPublication.
MitabPublication(Xref, CurationDepth, Source) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabPublication: Constructor for MitabPublication.
MitabRange - Class in psidev.psi.mi.jami.tab.extension: Mitab extension of Range It contains a FileSourceLocator
MitabRange(Position, Position) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabRange: Constructor for MitabRange.
MitabRange(Position, Position, boolean) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabRange: Constructor for MitabRange.
MitabRange(Position, Position, boolean, Participant) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabRange: Constructor for MitabRange.
MitabRange(Position, Position, boolean, ResultingSequence) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabRange: Constructor for MitabRange.
MitabRange(Position, Position, Participant) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabRange: Constructor for MitabRange.
MitabRange(Position, Position, ResultingSequence) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabRange: Constructor for MitabRange.
MitabSource - Class in psidev.psi.mi.jami.tab.extension: Mitab extension of DefaultMitabSource It contains a FileSourceLocator
MitabSource - Interface in psidev.psi.mi.jami.tab.extension.datasource: Interface for MITAB sources that can parse full MITAB files
MitabSource(String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabSource: Constructor for MitabSource.
MitabSource(String, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabSource: Constructor for MitabSource.
MitabSource(String, String, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabSource: Constructor for MitabSource.
MitabSource(String, String, String, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabSource: Constructor for MitabSource.
MitabSource(String, String, String, String, String, Publication) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabSource: Constructor for MitabSource.
MitabSource(String, String, String, String, Publication) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabSource: Constructor for MitabSource.
MitabSource(String, String, String, Publication) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabSource: Constructor for MitabSource.
MitabSource(String, String, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabSource: Constructor for MitabSource.
MitabSource(String, String, Xref, String, String, Publication) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabSource: Constructor for MitabSource.
MitabSource(String, Xref) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabSource: Constructor for MitabSource.
MitabSource(String, Xref, String, String, Publication) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabSource: Constructor for MitabSource.
MitabSourceLocator - Class in psidev.psi.mi.jami.tab.extension: A MITAB file source context
MitabSourceLocator(int, int, int) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabSourceLocator: Constructor for MitabSourceLocator.
MitabStoichiometry - Class in psidev.psi.mi.jami.tab.extension: Mitab extension for Stoichiometry.
MitabStoichiometry(int) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabStoichiometry: Constructor for MitabStoichiometry.
MitabStoichiometry(int, int) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabStoichiometry: Constructor for MitabStoichiometry.
MitabStreamSource - Interface in psidev.psi.mi.jami.tab.extension.datasource: Interface for MITAB datasources that can stream MITAB files
MitabUtils - Class in psidev.psi.mi.jami.tab.utils: Utilisty class for MitabWriter
MitabUtils() - Constructor for class psidev.psi.mi.jami.tab.utils.MitabUtils
MitabVersion - Enum in psidev.psi.mi.jami.tab: The mitab versions
MitabWriterFactory - Class in psidev.psi.mi.jami.tab.extension.factory: Factory for creating a mitab writer
MitabWriterOptions - Class in psidev.psi.mi.jami.tab.extension.factory.options: Class that lists all the options for a Mitab writer.
MitabWriterOptions() - Constructor for class psidev.psi.mi.jami.tab.extension.factory.options.MitabWriterOptions
MitabXref - Class in psidev.psi.mi.jami.tab.extension: Mitab extension for Xref.
MitabXref(String, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabXref: Constructor for MitabXref.
MitabXref(String, String, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabXref: Constructor for MitabXref.
MitabXref(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabXref: Constructor for MitabXref.
MitabXref(CvTerm, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabXref: Constructor for MitabXref.
MitabXref(CvTerm, String, String) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabXref: Constructor for MitabXref.
MitabXref(CvTerm, String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabXref: Constructor for MitabXref.
MitabXref(CvTerm, String, CvTerm) - Constructor for class psidev.psi.mi.jami.tab.extension.MitabXref: Constructor for MitabXref.
MIWriterOptionFactory - Class in psidev.psi.mi.jami.commons: The factory to get options for the InteractionWriter
mix - psidev.psi.mi.jami.crosslink.CsvType
mixed - psidev.psi.mi.jami.model.InteractionCategory
MockBioactiveEntityFetcher - Class in psidev.psi.mi.jami.bridges.fetcher.mock: Created with IntelliJ IDEA.
MockBioactiveEntityFetcher() - Constructor for class psidev.psi.mi.jami.bridges.fetcher.mock.MockBioactiveEntityFetcher
MockCvTermFetcher - Class in psidev.psi.mi.jami.bridges.fetcher.mock: A mock fetcher for testing.
MockCvTermFetcher() - Constructor for class psidev.psi.mi.jami.bridges.fetcher.mock.MockCvTermFetcher
MockFetcher<T> - Interface in psidev.psi.mi.jami.bridges.fetcher.mock: Created with IntelliJ IDEA.
MockGeneFetcher - Class in psidev.psi.mi.jami.bridges.fetcher.mock: A mock fetcher for testing.
MockGeneFetcher() - Constructor for class psidev.psi.mi.jami.bridges.fetcher.mock.MockGeneFetcher
MockImexCentralClient - Class in psidev.psi.mi.jami.bridges.imex.mock: Dummy service that one can use to write test against.
MockImexCentralClient() - Constructor for class psidev.psi.mi.jami.bridges.imex.mock.MockImexCentralClient: Constructor for MockImexCentralClient.
MockOntologyTermFetcher - Class in psidev.psi.mi.jami.bridges.fetcher.mock: A mock fetcher for testing.
MockOntologyTermFetcher() - Constructor for class psidev.psi.mi.jami.bridges.fetcher.mock.MockOntologyTermFetcher: Constructor for MockOntologyTermFetcher.
MockOrganismFetcher - Class in psidev.psi.mi.jami.bridges.fetcher.mock: A mock fetcher for testing.
MockOrganismFetcher() - Constructor for class psidev.psi.mi.jami.bridges.fetcher.mock.MockOrganismFetcher
MockProteinFetcher - Class in psidev.psi.mi.jami.bridges.fetcher.mock: A mock fetcher for testing.
MockProteinFetcher() - Constructor for class psidev.psi.mi.jami.bridges.fetcher.mock.MockProteinFetcher
MockProteinMapper - Class in psidev.psi.mi.jami.bridges.mapper.mock: Created with IntelliJ IDEA.
MockProteinMapper() - Constructor for class psidev.psi.mi.jami.bridges.mapper.mock.MockProteinMapper: Constructor for MockProteinMapper.
MockPublicationFetcher - Class in psidev.psi.mi.jami.bridges.fetcher.mock: A mock fetcher for testing.
MockPublicationFetcher() - Constructor for class psidev.psi.mi.jami.bridges.fetcher.mock.MockPublicationFetcher: Constructor for MockPublicationFetcher.
MockSourceFetcher - Class in psidev.psi.mi.jami.bridges.fetcher.mock: A mock fetcher for testing.
MockSourceFetcher() - Constructor for class psidev.psi.mi.jami.bridges.fetcher.mock.MockSourceFetcher: Constructor for MockSourceFetcher.
MOD_ALIAS_IDENTIFIER - Static variable in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Constant MOD_ALIAS_IDENTIFIER="Alternate name curated by PSI-MOD"
MOD_ALIAS_IDENTIFIER - Static variable in class psidev.psi.mi.jami.bridges.ols.utils.OlsUtils: Constant MOD_ALIAS_IDENTIFIER="Alternate name curated by PSI-MOD"
MOD_REGEXP - Static variable in class psidev.psi.mi.jami.bridges.ontologymanager.impl.OntologyTermWrapper: Constant MOD_REGEXP
MOD_SHORTLABEL_IDENTIFIER - Static variable in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Constant MOD_SHORTLABEL_IDENTIFIER="Short label curated by PSI-MOD"
MOD_SHORTLABEL_IDENTIFIER - Static variable in class psidev.psi.mi.jami.bridges.ols.utils.OlsUtils: Constant MOD_SHORTLABEL_IDENTIFIER="Short label curated by PSI-MOD"
modelled - psidev.psi.mi.jami.model.InteractionCategory
ModelledBinaryInteraction - Interface in psidev.psi.mi.jami.binary: A ModelledBinary interaction is a ModelledInteraction with only two participants
ModelledBinaryInteractionSource - Interface in psidev.psi.mi.jami.datasource: A Data source of modelled binary interactions.
ModelledBinaryInteractionStream - Interface in psidev.psi.mi.jami.datasource: A Data source of modelled binary interactions giving only a stream of interactions.
ModelledBinaryInteractionWrapper - Class in psidev.psi.mi.jami.binary.impl: A wrapper for ModelledInteraction which contains two participants
ModelledBinaryInteractionWrapper(ModelledInteraction) - Constructor for class psidev.psi.mi.jami.binary.impl.ModelledBinaryInteractionWrapper: Constructor for ModelledBinaryInteractionWrapper.
ModelledBinaryInteractionWrapper(ModelledInteraction, CvTerm) - Constructor for class psidev.psi.mi.jami.binary.impl.ModelledBinaryInteractionWrapper: Constructor for ModelledBinaryInteractionWrapper.
ModelledBinaryLineParser - Class in psidev.psi.mi.jami.tab.io.parser: An extension of MitabLineParser which parses only ModelledBinaryInteraction
ModelledBinaryLineParser(InputStream) - Constructor for class psidev.psi.mi.jami.tab.io.parser.ModelledBinaryLineParser: Constructor for ModelledBinaryLineParser.
ModelledBinaryLineParser(InputStream, String) - Constructor for class psidev.psi.mi.jami.tab.io.parser.ModelledBinaryLineParser: Constructor for ModelledBinaryLineParser.
ModelledBinaryLineParser(Reader) - Constructor for class psidev.psi.mi.jami.tab.io.parser.ModelledBinaryLineParser: Constructor for ModelledBinaryLineParser.
ModelledBinaryLineParser(MitabLineParserTokenManager) - Constructor for class psidev.psi.mi.jami.tab.io.parser.ModelledBinaryLineParser: Constructor for ModelledBinaryLineParser.
ModelledComparableParticipant - Class in psidev.psi.mi.jami.model
ModelledComparableParticipant() - Constructor for class psidev.psi.mi.jami.model.ModelledComparableParticipant
ModelledComparableParticipant(String, int) - Constructor for class psidev.psi.mi.jami.model.ModelledComparableParticipant
ModelledComparableParticipantComparator - Class in psidev.psi.mi.jami.utils.comparator.participant
ModelledComparableParticipantComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.ModelledComparableParticipantComparator
ModelledConfidence - Interface in psidev.psi.mi.jami.model: A modelled confidence is a confidence for a modelled interaction.
ModelledEntity - Interface in psidev.psi.mi.jami.model: An modelled entity with modelled features
ModelledEntityComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Basic biological entity comparator.
ModelledEntityComparator(EntityBaseComparator, CollectionComparator<ModelledFeature>) - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.ModelledEntityComparator: Creates a new ComponentComparator
ModelledEntityComparator(EntityBaseComparator, ModelledFeatureComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.ModelledEntityComparator: Creates a new ComponentComparator
ModelledEntry - Class in psidev.psi.mi.jami.xml.model.xml253: Modelled Entry implementation for JAXB read only.
ModelledEntry - Class in psidev.psi.mi.jami.xml.model.xml254: Modelled Entry implementation for JAXB read only.
ModelledEntry - Class in psidev.psi.mi.jami.xml.model.xml30: Modelled Entry implementation for JAXB read only.
ModelledEntry() - Constructor for class psidev.psi.mi.jami.xml.model.xml253.ModelledEntry
ModelledEntry() - Constructor for class psidev.psi.mi.jami.xml.model.xml254.ModelledEntry
ModelledEntry() - Constructor for class psidev.psi.mi.jami.xml.model.xml30.ModelledEntry
ModelledEntry.JAXBExperimentsWrapper - Class in psidev.psi.mi.jami.xml.model.xml253
ModelledEntry.JAXBExperimentsWrapper - Class in psidev.psi.mi.jami.xml.model.xml254
ModelledEntry.JAXBExperimentsWrapper - Class in psidev.psi.mi.jami.xml.model.xml30
ModelledEntry.JAXBInteractionsWrapper - Class in psidev.psi.mi.jami.xml.model.xml253
ModelledEntry.JAXBInteractionsWrapper - Class in psidev.psi.mi.jami.xml.model.xml254
ModelledEntry.JAXBInteractionsWrapper - Class in psidev.psi.mi.jami.xml.model.xml30
ModelledFeature - Interface in psidev.psi.mi.jami.model: Biological property of a participant that may be involved with or interfere with the binding of a molecule.
ModelledFeatureComparator - Class in psidev.psi.mi.jami.utils.comparator.feature: Basic ModelledFeature comparator.
ModelledFeatureComparator(Comparator<Feature>) - Constructor for class psidev.psi.mi.jami.utils.comparator.feature.ModelledFeatureComparator: Creates a new ModelledFeatureComparator.
ModelledInteraction - Interface in psidev.psi.mi.jami.model: An interaction that is not directly supported by experimental evidence but is based on homology statements, modelling, etc...
ModelledInteractionBipartiteExpansion - Class in psidev.psi.mi.jami.binary.expansion: Bipartite expansion for ModelledInteraction
ModelledInteractionBipartiteExpansion() - Constructor for class psidev.psi.mi.jami.binary.expansion.ModelledInteractionBipartiteExpansion
ModelledInteractionChangeListener - Interface in psidev.psi.mi.jami.listener: Listener for changes in modelled interaction
ModelledInteractionChangeLogger - Class in psidev.psi.mi.jami.listener.impl: This listener will just modelledInteraction change events
ModelledInteractionChangeLogger() - Constructor for class psidev.psi.mi.jami.listener.impl.ModelledInteractionChangeLogger
ModelledInteractionCollectionComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Comparator for collection of modelled interactions
ModelledInteractionCollectionComparator(ModelledInteractionComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.ModelledInteractionCollectionComparator: Creates a new modelled interaction CollectionComparator.
ModelledInteractionComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Basic ModelledInteraction comparator.
ModelledInteractionComparator(CollectionComparator<ModelledParticipant>, Comparator<Interaction>) - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.ModelledInteractionComparator: Constructor for ModelledInteractionComparator.
ModelledInteractionComparator(CustomizableModelledParticipantComparator, Comparator<Interaction>) - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.ModelledInteractionComparator: Constructor for ModelledInteractionComparator.
ModelledInteractionEnricher - Interface in psidev.psi.mi.jami.enricher: The enricher for Interactions which can enrich a single interaction or a collection.
ModelledInteractionEnricherListener - Interface in psidev.psi.mi.jami.enricher.listener: Listener for modelled interaction enrichment
ModelledInteractionEnricherListenerManager - Class in psidev.psi.mi.jami.enricher.listener.impl: A manager for listeners which holds a list of listeners.
ModelledInteractionEnricherListenerManager() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.ModelledInteractionEnricherListenerManager: A constructor to create a listener manager with no listeners.
ModelledInteractionEnricherListenerManager(ModelledInteractionEnricherListener...) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.ModelledInteractionEnricherListenerManager: A constructor to initiate a listener manager with as many listeners as required.
ModelledInteractionEnricherLogger - Class in psidev.psi.mi.jami.enricher.listener.impl.log: A logging listener.
ModelledInteractionEnricherLogger() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.log.ModelledInteractionEnricherLogger
ModelledInteractionEnricherStatisticsWriter - Class in psidev.psi.mi.jami.enricher.listener.impl.writer: A statistics logger which records changes made by the enricher.
ModelledInteractionEnricherStatisticsWriter() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.ModelledInteractionEnricherStatisticsWriter: Uses the known name of the JamiObject type as the seed to generate names for the success an failure log files.
ModelledInteractionEnricherStatisticsWriter(File, File) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.ModelledInteractionEnricherStatisticsWriter: Uses the exact files provided to log successful and failed enrichments.
ModelledInteractionEnricherStatisticsWriter(String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.ModelledInteractionEnricherStatisticsWriter: Creates the files from the provided seed file name with 'success' and 'failure' appended.
ModelledInteractionEnricherStatisticsWriter(String, String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.ModelledInteractionEnricherStatisticsWriter: Uses the provided names to create the files for successful and failed enrichment logging.
ModelledInteractionLineParser - Class in psidev.psi.mi.jami.tab.io.parser: An extension of MitabLineParser which parses only ModelledInteraction
ModelledInteractionLineParser(InputStream) - Constructor for class psidev.psi.mi.jami.tab.io.parser.ModelledInteractionLineParser: Constructor for ModelledInteractionLineParser.
ModelledInteractionLineParser(InputStream, String) - Constructor for class psidev.psi.mi.jami.tab.io.parser.ModelledInteractionLineParser: Constructor for ModelledInteractionLineParser.
ModelledInteractionLineParser(Reader) - Constructor for class psidev.psi.mi.jami.tab.io.parser.ModelledInteractionLineParser: Constructor for ModelledInteractionLineParser.
ModelledInteractionLineParser(MitabLineParserTokenManager) - Constructor for class psidev.psi.mi.jami.tab.io.parser.ModelledInteractionLineParser: Constructor for ModelledInteractionLineParser.
ModelledInteractionMatrixExpansion - Class in psidev.psi.mi.jami.binary.expansion: Matrix expansion for ModelledInteraction
ModelledInteractionMatrixExpansion() - Constructor for class psidev.psi.mi.jami.binary.expansion.ModelledInteractionMatrixExpansion
ModelledInteractionSource<T extends ModelledInteraction> - Interface in psidev.psi.mi.jami.datasource: A Data source of modelled interactions.
ModelledInteractionSpokeExpansion - Class in psidev.psi.mi.jami.binary.expansion: Spoke expansion for ModelledInteraction
ModelledInteractionSpokeExpansion() - Constructor for class psidev.psi.mi.jami.binary.expansion.ModelledInteractionSpokeExpansion
ModelledInteractionStream<T extends ModelledInteraction> - Interface in psidev.psi.mi.jami.datasource: A Data source of modelled interaction giving only a stream of interactions.
ModelledParameter - Interface in psidev.psi.mi.jami.model: A modelled parameter is a parameter for a modelled interaction.
ModelledParticipant - Interface in psidev.psi.mi.jami.model: Participant of a modelled interaction.
ModelledParticipantCandidate - Interface in psidev.psi.mi.jami.model: Interface for modelled participant candidates
ModelledParticipantCollectionComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Comparator for collection of biological participants
ModelledParticipantCollectionComparator(CustomizableModelledParticipantComparator<ModelledParticipant>) - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.ModelledParticipantCollectionComparator: Creates a new component CollectionComparator.
ModelledParticipantComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Basic biological participant comparator.
ModelledParticipantComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.ModelledParticipantComparator: Constructor for ModelledParticipantComparator.
ModelledParticipantComparator(ModelledParticipantPoolComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.ModelledParticipantComparator: Creates a new ComponentComparator
ModelledParticipantPool - Interface in psidev.psi.mi.jami.model: A pool of modelled participant candidates
ModelledParticipantPoolComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Basic biological participant pool comparator.
ModelledParticipantPoolComparator(ParticipantBaseComparator, CollectionComparator<ModelledFeature>, CollectionComparator<ModelledEntity>) - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.ModelledParticipantPoolComparator: Creates a new ComponentComparator
ModelledParticipantPoolComparator(ParticipantBaseComparator, ModelledFeatureComparator, ModelledEntityComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.ModelledParticipantPoolComparator: Creates a new ComponentComparator
molecule - psidev.psi.mi.jami.model.AllostericEffectorType
Molecule - Interface in psidev.psi.mi.jami.model: This interface represents a simple molecule such as a protein, nucleic acid, gene, small molecule but excludes complexes and interactorSet
MOLECULE_SET - Static variable in interface psidev.psi.mi.jami.model.InteractorPool: Constant MOLECULE_SET="molecule set"
MOLECULE_SET_MI - Static variable in interface psidev.psi.mi.jami.model.InteractorPool: Constant MOLECULE_SET_MI="MI:1304"
MoleculeEffector - Interface in psidev.psi.mi.jami.model: The participant that elicits an allosteric response in an allosteric molecule upon binding to that molecule.
MoleculeEffectorComparator - Class in psidev.psi.mi.jami.utils.comparator.cooperativity: Basic Comparator for MoleculeEffector.
MoleculeEffectorComparator(ModelledEntityComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.cooperativity.MoleculeEffectorComparator: Constructor for MoleculeEffectorComparator.
MUTATION - Static variable in interface psidev.psi.mi.jami.model.Feature: Constant MUTATION="mutation"
MUTATION_MI - Static variable in interface psidev.psi.mi.jami.model.Feature: Constant MUTATION_MI="MI:0118"

N

n_ary - psidev.psi.mi.jami.model.ComplexType
n_ary_only - psidev.psi.mi.jami.json.MIJsonType
N_TERMINAL - Static variable in interface psidev.psi.mi.jami.model.Position: Constant N_TERMINAL="n-terminal"
N_TERMINAL_FULL - Static variable in interface psidev.psi.mi.jami.model.Position: Constant N_TERMINAL_FULL="n-terminal position"
N_TERMINAL_MI - Static variable in interface psidev.psi.mi.jami.model.Position: Constant N_TERMINAL_MI="MI:0340"
N_TERMINAL_POSITION_SYMBOL - Static variable in interface psidev.psi.mi.jami.model.Range: Constant N_TERMINAL_POSITION_SYMBOL="n"
N_TERMINAL_RANGE - Static variable in interface psidev.psi.mi.jami.model.Position: Constant N_TERMINAL_RANGE="n-term range"
N_TERMINAL_RANGE_FULL - Static variable in interface psidev.psi.mi.jami.model.Position: Constant N_TERMINAL_RANGE_FULL="n-terminal range"
N_TERMINAL_RANGE_MI - Static variable in interface psidev.psi.mi.jami.model.Position: Constant N_TERMINAL_RANGE_MI="MI:1040"
name - Variable in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.SeqFeatureGroupType
NamedExperiment - Interface in psidev.psi.mi.jami.model: A named experiment is an experiment with a shortname, fullname and aliases
NamedInteraction<T extends Participant> - Interface in psidev.psi.mi.jami.model: A named interaction is an interaction having a fullname and aliases in addition to a shortname.
NamedParticipant - Interface in psidev.psi.mi.jami.model: A named entity is an entity having a short name and a fullname in addition to aliases.
NamesContainer - Class in psidev.psi.mi.jami.xml.model.extension.xml253: A container for aliases, shortname and fullname The JAXB binding is designed to be read-only and is not designed for writing
NamesContainer - Class in psidev.psi.mi.jami.xml.model.extension.xml254: A container for aliases, shortname and fullname The JAXB binding is designed to be read-only and is not designed for writing
NamesContainer - Class in psidev.psi.mi.jami.xml.model.extension.xml300: A container for aliases, shortname and fullname The JAXB binding is designed to be read-only and is not designed for writing
NamesContainer() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.NamesContainer
NamesContainer() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.NamesContainer
NamesContainer() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.NamesContainer
narygroup - psidev.psi.mi.jami.crosslink.io.parser.CrossLinkCSVColumns
needToPreProcessElementToAdd(T) - Method in class psidev.psi.mi.jami.utils.collection.AbstractCollectionWrapper: Method to know if an element to add needs some processing or being wrapped
needToPreProcessElementToRemove(Object) - Method in class psidev.psi.mi.jami.utils.collection.AbstractCollectionWrapper: needToPreProcessElementToRemove
negative() - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
NEGATIVE - psidev.psi.mi.jami.tab.MitabColumnName
NEGATIVE_EFFECT - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant NEGATIVE_EFFECT="negative cooperative effect"
NEGATIVE_EFFECT_ID - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant NEGATIVE_EFFECT_ID="MI:1155"
NEUTRAL - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant NEUTRAL="neutral component"
NEUTRAL_MI - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant NEUTRAL_MI="MI:0497"
NEW - psidev.psi.mi.jami.bridges.imex.PublicationStatus
NEW_EVENT - Static variable in class psidev.psi.mi.jami.bridges.mapper.listener.ProteinMappingStatisticsWriter: Constant NEW_EVENT="\t"
NEW_LINE - Static variable in class psidev.psi.mi.jami.bridges.mapper.listener.ProteinMappingStatisticsWriter: Constant NEW_LINE="\n"
NEW_LINE - Static variable in class psidev.psi.mi.jami.enricher.util.EnricherUtils: Constant NEW_LINE="\n"
NEW_LINE - Static variable in class psidev.psi.mi.jami.html.utils.HtmlWriterUtils: Constant NEW_LINE="System.getProperty(line.separator)"
newExperiment(Publication) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter
newPublication(String) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter
newPublication(String, String, Date) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter
newToken(int) - Static method in class psidev.psi.mi.jami.tab.io.parser.Token
newToken(int, String) - Static method in class psidev.psi.mi.jami.tab.io.parser.Token: Returns a new Token object, by default.
newXmlCvTerm(String, CvTerm, String, CvTerm) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter
newXmlSource(String) - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter
next - Variable in class psidev.psi.mi.jami.tab.io.parser.Token: A reference to the next regular (non-special) token from the input stream.
next() - Method in class psidev.psi.mi.jami.crosslink.io.iterator.CsvInteractionEvidenceIterator: next.
next() - Method in class psidev.psi.mi.jami.tab.io.iterator.AbstractMitabIterator: next.
next() - Method in class psidev.psi.mi.jami.utils.collection.IteratorHavingProperties: next
next() - Method in class psidev.psi.mi.jami.utils.collection.IteratorWrapper: next
next() - Method in class psidev.psi.mi.jami.utils.collection.ListIteratorHavingProperties: next
next() - Method in class psidev.psi.mi.jami.xml.io.iterator.AbstractXmlIterator: next.
next() - Method in class psidev.psi.mi.jami.xml.io.parser.XmlReaderWithDefaultNamespace
nextCharBuf - Variable in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream
nextCharInd - Variable in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream
nextId() - Method in class psidev.psi.mi.jami.json.IncrementalIdGenerator: nextId.
nextIndex() - Method in class psidev.psi.mi.jami.utils.collection.ListIteratorHavingProperties: nextIndex
NO_IMEX_ID - Static variable in interface psidev.psi.mi.jami.bridges.imex.ImexCentralClient: Constant NO_IMEX_ID=9
NO_OPTIONS - Static variable in class psidev.psi.mi.jami.utils.checksum.Base64: No options specified.
NO_RECORD - Static variable in interface psidev.psi.mi.jami.bridges.imex.ImexCentralClient: Constant NO_RECORD=6
NO_RECORD_CREATED - Static variable in interface psidev.psi.mi.jami.bridges.imex.ImexCentralClient: Constant NO_RECORD_CREATED=7
NonCloseableInputStreamWrapper - Class in psidev.psi.mi.jami.xml.io.parser: Wrapper of inputStream
NonCloseableInputStreamWrapper(InputStream) - Constructor for class psidev.psi.mi.jami.xml.io.parser.NonCloseableInputStreamWrapper: Constructor for NonCloseableInputStreamWrapper.
nucleic_acid - psidev.psi.mi.jami.factory.InteractorCategory
NUCLEIC_ACID_PROTEIN - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant NUCLEIC_ACID_PROTEIN="nucleicacid-protein"
NUCLEIC_ACID_PROTEIN_MI - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant NUCLEIC_ACID_PROTEIN_MI="MI:1049"
NucleicAcid - Interface in psidev.psi.mi.jami.model: Polymers of nucleotides which can interact with other molecules
NucleicAcidComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Unambiguous nucleic acids comparator.
NucleicAcidComparator(PolymerComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.NucleicAcidComparator: Creates a new UnambiguousNucleicAcidComparator.
NULCEIC_ACID - Static variable in interface psidev.psi.mi.jami.model.NucleicAcid: Constant NULCEIC_ACID="nucleic acid"
NULCEIC_ACID_MI - Static variable in interface psidev.psi.mi.jami.model.NucleicAcid: Constant NULCEIC_ACID_MI="MI:0318"

O

ObjectFactory - Class in psidev.psi.mi.jami.bridges.uniprot.rest.response.model: This object contains factory methods for each Java content interface and Java element interface generated in the psidev.psi.mi.jami.bridges.uniprot.rest.response.model.jaxb package.
ObjectFactory() - Constructor for class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.ObjectFactory: Create a new ObjectFactory that can be used to create new instances of schema derived classes for package: psidev.psi.mi.jami.bridges.uniprot.rest.response.model.jaxb
OboCvTermFetcher - Class in psidev.psi.mi.jami.bridges.obo: Simple fetcher based on OBO files
OboCvTermFetcher(String, String) - Constructor for class psidev.psi.mi.jami.bridges.obo.OboCvTermFetcher: Constructor for OboCvTermFetcher.
OboCvTermFetcher(CvTerm, String) - Constructor for class psidev.psi.mi.jami.bridges.obo.OboCvTermFetcher: Constructor for OboCvTermFetcher.
OboFetcherTemplate<T extends CvTerm> - Class in psidev.psi.mi.jami.bridges.obo: Template fetcher for OBO files
OboFetcherTemplate(String, AbstractOboLoader<T>, String) - Constructor for class psidev.psi.mi.jami.bridges.obo.OboFetcherTemplate: Constructor for OboFetcherTemplate.
OboFetcherTemplate(CvTerm, AbstractOboLoader<T>, String) - Constructor for class psidev.psi.mi.jami.bridges.obo.OboFetcherTemplate: Constructor for OboFetcherTemplate.
OboOntologyTermFetcher - Class in psidev.psi.mi.jami.bridges.obo: The ontology fetcher based on OBO file
OboOntologyTermFetcher(String, String) - Constructor for class psidev.psi.mi.jami.bridges.obo.OboOntologyTermFetcher: Constructor for OboOntologyTermFetcher.
OboOntologyTermFetcher(CvTerm, String) - Constructor for class psidev.psi.mi.jami.bridges.obo.OboOntologyTermFetcher: Constructor for OboOntologyTermFetcher.
OboSourceFetcher - Class in psidev.psi.mi.jami.bridges.obo: Simple fetcher based on OBO files
OboSourceFetcher(String, String) - Constructor for class psidev.psi.mi.jami.bridges.obo.OboSourceFetcher: Constructor for OboSourceFetcher.
OboSourceFetcher(CvTerm, String) - Constructor for class psidev.psi.mi.jami.bridges.obo.OboSourceFetcher: Constructor for OboSourceFetcher.
OBSERVED_PTM - Static variable in interface psidev.psi.mi.jami.model.Feature: Constant OBSERVED_PTM="observed ptm"
OBSERVED_PTM_MI - Static variable in interface psidev.psi.mi.jami.model.Feature: Constant OBSERVED_PTM_MI="MI:0925"
olsClient - Variable in class psidev.psi.mi.jami.bridges.ols.AbstractOlsFetcher
OlsCvTermFetcher - Class in psidev.psi.mi.jami.bridges.ols: Created with IntelliJ IDEA.
OlsCvTermFetcher() - Constructor for class psidev.psi.mi.jami.bridges.ols.OlsCvTermFetcher: Constructor for OlsCvTermFetcher.
OlsOntologyTermFetcher - Class in psidev.psi.mi.jami.bridges.ols: Finds ontology terms in the Ontology Lookup Service as well as having options to recursively find parents and or children.
OlsOntologyTermFetcher() - Constructor for class psidev.psi.mi.jami.bridges.ols.OlsOntologyTermFetcher: Constructor for OlsOntologyTermFetcher.
OlsSourceFetcher - Class in psidev.psi.mi.jami.bridges.ols: Created with IntelliJ IDEA.
OlsSourceFetcher() - Constructor for class psidev.psi.mi.jami.bridges.ols.OlsSourceFetcher: Constructor for OlsSourceFetcher.
OlsUtils - Class in psidev.psi.mi.jami.bridges.ols.utils: Utility class which contains global variables
OlsUtils() - Constructor for class psidev.psi.mi.jami.bridges.ols.utils.OlsUtils
onAddedAlias(P, Alias) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ParticipantEnricherListenerManager: Listen to the event where an alias has been added to the object aliases.
onAddedAlias(P, Alias) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ParticipantEnricherStatisticsWriter: Listen to the event where an alias has been added to the object aliases.
onAddedAlias(Complex, Alias) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ComplexEnricherListenerManager: Listen to the event where an alias has been added to the object aliases.
onAddedAlias(Complex, Alias) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ComplexEnricherStatisticsWriter: Listen to the event where an alias has been added to the object aliases.
onAddedAlias(CvTerm, Alias) - Method in class psidev.psi.mi.jami.enricher.listener.impl.CvTermEnricherListenerManager: Listen to the event where an alias has been added to the object aliases.
onAddedAlias(CvTerm, Alias) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.CvTermEnricherStatisticsWriter: Listen to the event where an alias has been added to the object aliases.
onAddedAlias(CvTerm, Alias) - Method in class psidev.psi.mi.jami.listener.impl.CvTermChangeLogger: Listen to the event where an alias has been added to the object aliases.
onAddedAlias(Organism, Alias) - Method in class psidev.psi.mi.jami.enricher.listener.impl.OrganismEnricherListenerManager: Listen to the event where an alias has been added to the object aliases.
onAddedAlias(Organism, Alias) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.OrganismEnricherStatisticsWriter: Listen to the event where an alias has been added to the object aliases.
onAddedAlias(Organism, Alias) - Method in class psidev.psi.mi.jami.listener.impl.OrganismChangeLogger: Listen to the event where an alias has been added to the object aliases.
onAddedAlias(Protein, Alias) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceEnricher: Listen to the event where an alias has been added to the object aliases.
onAddedAlias(Protein, Alias) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceUpdater: Listen to the event where an alias has been added to the object aliases.
onAddedAlias(Protein, Alias) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureUpdater: Listen to the event where an alias has been added to the object aliases.
onAddedAlias(Protein, Alias) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: Listen to the event where an alias has been added to the object aliases.
onAddedAlias(Protein, Alias) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEvidenceUpdater: Listen to the event where an alias has been added to the object aliases.
onAddedAlias(T, Alias) - Method in class psidev.psi.mi.jami.enricher.listener.impl.FeatureEnricherListenerManager: Listen to the event where an alias has been added to the object aliases.
onAddedAlias(T, Alias) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractorEnricherListenerManager: Listen to the event where an alias has been added to the object aliases.
onAddedAlias(T, Alias) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.FeatureEnricherStatisticsWriter: Listen to the event where an alias has been added to the object aliases.
onAddedAlias(T, Alias) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractorEnricherStatisticsWriter: Listen to the event where an alias has been added to the object aliases.
onAddedAlias(T, Alias) - Method in interface psidev.psi.mi.jami.listener.AliasesChangeListener: Listen to the event where an alias has been added to the object aliases.
onAddedAlias(T, Alias) - Method in class psidev.psi.mi.jami.listener.impl.FeatureChangeLogger: Listen to the event where an alias has been added to the object aliases.
onAddedAlias(T, Alias) - Method in class psidev.psi.mi.jami.listener.impl.InteractorChangeLogger: Listen to the event where an alias has been added to the object aliases.
onAddedAlias(T, Alias) - Method in class psidev.psi.mi.jami.listener.impl.ParticipantChangeLogger: Listen to the event where an alias has been added to the object aliases.
onAddedAnnotation(I, Annotation) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractionEnricherListenerManager: Listen to the event where an annotation has been added to the object annotations.
onAddedAnnotation(I, Annotation) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractionEnricherStatisticsWriter: Listen to the event where an annotation has been added to the object annotations.
onAddedAnnotation(P, Annotation) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ParticipantEnricherListenerManager: Listen to the event where an annotation has been added to the object annotations.
onAddedAnnotation(P, Annotation) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ParticipantEnricherStatisticsWriter: Listen to the event where an annotation has been added to the object annotations.
onAddedAnnotation(CvTerm, Annotation) - Method in class psidev.psi.mi.jami.enricher.listener.impl.CvTermEnricherListenerManager: Listen to the event where an annotation has been added to the object annotations.
onAddedAnnotation(CvTerm, Annotation) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.CvTermEnricherStatisticsWriter: Listen to the event where an annotation has been added to the object annotations.
onAddedAnnotation(CvTerm, Annotation) - Method in class psidev.psi.mi.jami.listener.impl.CvTermChangeLogger: Listen to the event where an annotation has been added to the object annotations.
onAddedAnnotation(Experiment, Annotation) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ExperimentEnricherListenerManager: Listen to the event where an annotation has been added to the object annotations.
onAddedAnnotation(Experiment, Annotation) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ExperimentEnricherStatisticsWriter: Listen to the event where an annotation has been added to the object annotations.
onAddedAnnotation(Experiment, Annotation) - Method in class psidev.psi.mi.jami.listener.impl.ExperimentChangeLogger: Listen to the event where an annotation has been added to the object annotations.
onAddedAnnotation(Protein, Annotation) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceEnricher: Listen to the event where an annotation has been added to the object annotations.
onAddedAnnotation(Protein, Annotation) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceUpdater: Listen to the event where an annotation has been added to the object annotations.
onAddedAnnotation(Protein, Annotation) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureUpdater: Listen to the event where an annotation has been added to the object annotations.
onAddedAnnotation(Protein, Annotation) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: Listen to the event where an annotation has been added to the object annotations.
onAddedAnnotation(Protein, Annotation) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEvidenceUpdater: Listen to the event where an annotation has been added to the object annotations.
onAddedAnnotation(Publication, Annotation) - Method in class psidev.psi.mi.jami.enricher.listener.impl.PublicationEnricherListenerManager: Listen to the event where an annotation has been added to the object annotations.
onAddedAnnotation(Publication, Annotation) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.PublicationEnricherStatisticsWriter: Listen to the event where an annotation has been added to the object annotations.
onAddedAnnotation(Publication, Annotation) - Method in class psidev.psi.mi.jami.listener.impl.PublicationChangeLogger: Listen to the event where an annotation has been added to the object annotations.
onAddedAnnotation(T, Annotation) - Method in class psidev.psi.mi.jami.enricher.listener.impl.FeatureEnricherListenerManager: Listen to the event where an annotation has been added to the object annotations.
onAddedAnnotation(T, Annotation) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractorEnricherListenerManager: Listen to the event where an annotation has been added to the object annotations.
onAddedAnnotation(T, Annotation) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.FeatureEnricherStatisticsWriter: Listen to the event where an annotation has been added to the object annotations.
onAddedAnnotation(T, Annotation) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractorEnricherStatisticsWriter: Listen to the event where an annotation has been added to the object annotations.
onAddedAnnotation(T, Annotation) - Method in interface psidev.psi.mi.jami.listener.AnnotationsChangeListener: Listen to the event where an annotation has been added to the object annotations.
onAddedAnnotation(T, Annotation) - Method in class psidev.psi.mi.jami.listener.impl.FeatureChangeLogger: Listen to the event where an annotation has been added to the object annotations.
onAddedAnnotation(T, Annotation) - Method in class psidev.psi.mi.jami.listener.impl.InteractionChangeLogger: Listen to the event where an annotation has been added to the object annotations.
onAddedAnnotation(T, Annotation) - Method in class psidev.psi.mi.jami.listener.impl.InteractorChangeLogger: Listen to the event where an annotation has been added to the object annotations.
onAddedAnnotation(T, Annotation) - Method in class psidev.psi.mi.jami.listener.impl.ParticipantChangeLogger: Listen to the event where an annotation has been added to the object annotations.
onAddedCandidate(F, ParticipantCandidate) - Method in interface psidev.psi.mi.jami.listener.ParticipantPoolChangeListener: onAddedCandidate
onAddedCandidate(P, ParticipantCandidate) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ParticipantPoolEnricherListenerManager: onAddedCandidate
onAddedCandidate(P, ParticipantCandidate) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ParticipantPoolEnricherStatisticsWriter: onAddedCandidate
onAddedCandidate(ExperimentalParticipantPool, ParticipantCandidate) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ExperimentalParticipantPoolEnricherListenerManager: onAddedCandidate
onAddedCandidate(ExperimentalParticipantPool, ParticipantCandidate) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.ExperimentalParticipantPoolEnricherLogger: onAddedCandidate
onAddedCandidate(ExperimentalParticipantPool, ParticipantCandidate) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ExperimentalParticipantPoolEnricherStatisticsWriter: onAddedCandidate
onAddedCandidate(ExperimentalParticipantPool, ParticipantCandidate) - Method in class psidev.psi.mi.jami.listener.impl.ExperimentalParticipantPoolChangeLogger: onAddedCandidate
onAddedCandidate(T, ParticipantCandidate) - Method in class psidev.psi.mi.jami.listener.impl.ParticipantPoolChangeLogger: onAddedCandidate
onAddedCausalRelationship(F, CausalRelationship) - Method in interface psidev.psi.mi.jami.listener.EntityChangeListener: onAddedCausalRelationship
onAddedCausalRelationship(P, CausalRelationship) - Method in class psidev.psi.mi.jami.enricher.listener.impl.EntityEnricherListenerManager: onAddedCausalRelationship
onAddedCausalRelationship(P, CausalRelationship) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.EntityEnricherStatisticsWriter: onAddedCausalRelationship
onAddedCausalRelationship(T, CausalRelationship) - Method in class psidev.psi.mi.jami.listener.impl.EntityChangeLogger: onAddedCausalRelationship
onAddedCausalRelationship(T, CausalRelationship) - Method in class psidev.psi.mi.jami.listener.impl.ParticipantChangeLogger: onAddedCausalRelationship
onAddedChecksum(I, Checksum) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractionEnricherListenerManager: Listen to the event where a checksum has been added to the interactor checksums.
onAddedChecksum(I, Checksum) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractionEnricherStatisticsWriter: Listen to the event where a checksum has been added to the interactor checksums.
onAddedChecksum(Protein, Checksum) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceEnricher: Listen to the event where a checksum has been added to the interactor checksums.
onAddedChecksum(Protein, Checksum) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceUpdater: Listen to the event where a checksum has been added to the interactor checksums.
onAddedChecksum(Protein, Checksum) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureUpdater: Listen to the event where a checksum has been added to the interactor checksums.
onAddedChecksum(Protein, Checksum) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: Listen to the event where a checksum has been added to the interactor checksums.
onAddedChecksum(Protein, Checksum) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEvidenceUpdater: Listen to the event where a checksum has been added to the interactor checksums.
onAddedChecksum(T, Checksum) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractorEnricherListenerManager: Listen to the event where a checksum has been added to the interactor checksums.
onAddedChecksum(T, Checksum) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractorEnricherStatisticsWriter: Listen to the event where a checksum has been added to the interactor checksums.
onAddedChecksum(T, Checksum) - Method in interface psidev.psi.mi.jami.listener.ChecksumsChangeListener: Listen to the event where a checksum has been added to the interactor checksums.
onAddedChecksum(T, Checksum) - Method in class psidev.psi.mi.jami.listener.impl.InteractionChangeLogger: Listen to the event where a checksum has been added to the interactor checksums.
onAddedChecksum(T, Checksum) - Method in class psidev.psi.mi.jami.listener.impl.InteractorChangeLogger: Listen to the event where a checksum has been added to the interactor checksums.
onAddedChild(OntologyTerm, OntologyTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.OntologyTermEnricherListenerManager: Listen to the event where a child has been added to the object children.
onAddedChild(OntologyTerm, OntologyTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.OntologyTermEnricherStatisticsWriter: Listen to the event where a child has been added to the object children.
onAddedChild(OntologyTerm, OntologyTerm) - Method in class psidev.psi.mi.jami.listener.impl.OntologyTermChangeLogger: Listen to the event where a child has been added to the object children.
onAddedChild(OntologyTerm, OntologyTerm) - Method in interface psidev.psi.mi.jami.listener.OntologyTermChangeListener: Listen to the event where a child has been added to the object children.
onAddedConfidence(I, Confidence) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ModelledInteractionEnricherListenerManager: Listen to the event where a confidence has been added to the object confidences.
onAddedConfidence(I, Confidence) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ModelledInteractionEnricherStatisticsWriter: Listen to the event where a confidence has been added to the object confidences.
onAddedConfidence(I, Confidence) - Method in class psidev.psi.mi.jami.listener.impl.ModelledInteractionChangeLogger: Listen to the event where a confidence has been added to the object confidences.
onAddedConfidence(P, Confidence) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ParticipantEvidenceEnricherListenerManager: Listen to the event where a confidence has been added to the object confidences.
onAddedConfidence(P, Confidence) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ParticipantEvidenceEnricherStatisticsWriter: Listen to the event where a confidence has been added to the object confidences.
onAddedConfidence(Complex, Confidence) - Method in class psidev.psi.mi.jami.listener.impl.ComplexChangeLogger: Listen to the event where a confidence has been added to the object confidences.
onAddedConfidence(Experiment, Confidence) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ExperimentEnricherListenerManager: Listen to the event where a confidence has been added to the object confidences.
onAddedConfidence(Experiment, Confidence) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ExperimentEnricherStatisticsWriter: Listen to the event where a confidence has been added to the object confidences.
onAddedConfidence(Experiment, Confidence) - Method in class psidev.psi.mi.jami.listener.impl.ExperimentChangeLogger: Listen to the event where a confidence has been added to the object confidences.
onAddedConfidence(InteractionEvidence, Confidence) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractionEvidenceEnricherListenerManager: Listen to the event where a confidence has been added to the object confidences.
onAddedConfidence(InteractionEvidence, Confidence) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractionEvidenceEnricherStatisticsWriter: Listen to the event where a confidence has been added to the object confidences.
onAddedConfidence(InteractionEvidence, Confidence) - Method in class psidev.psi.mi.jami.listener.impl.InteractionEvidenceChangeLogger: Listen to the event where a confidence has been added to the object confidences.
onAddedConfidence(T, Confidence) - Method in interface psidev.psi.mi.jami.listener.ConfidencesChangeListener: Listen to the event where a confidence has been added to the object confidences.
onAddedConfidence(T, Confidence) - Method in class psidev.psi.mi.jami.listener.impl.ParticipantEvidenceChangeLogger: Listen to the event where a confidence has been added to the object confidences.
onAddedCooperativeEffect(I, CooperativeEffect) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ModelledInteractionEnricherListenerManager: onAddedCooperativeEffect
onAddedCooperativeEffect(I, CooperativeEffect) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ModelledInteractionEnricherStatisticsWriter: onAddedCooperativeEffect
onAddedCooperativeEffect(I, CooperativeEffect) - Method in class psidev.psi.mi.jami.listener.impl.ModelledInteractionChangeLogger: onAddedCooperativeEffect
onAddedCooperativeEffect(I, CooperativeEffect) - Method in interface psidev.psi.mi.jami.listener.ModelledInteractionChangeListener: onAddedCooperativeEffect
onAddedCooperativeEffect(Complex, CooperativeEffect) - Method in class psidev.psi.mi.jami.listener.impl.ComplexChangeLogger: onAddedCooperativeEffect
onAddedDetectionMethod(FeatureEvidence, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.FeatureEvidenceEnricherListenerManager: onAddedDetectionMethod
onAddedDetectionMethod(FeatureEvidence, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.FeatureEvidenceEnricherStatisticsWriter: onAddedDetectionMethod
onAddedDetectionMethod(FeatureEvidence, CvTerm) - Method in interface psidev.psi.mi.jami.listener.FeatureEvidenceChangeListener: onAddedDetectionMethod
onAddedDetectionMethod(FeatureEvidence, CvTerm) - Method in class psidev.psi.mi.jami.listener.impl.FeatureEvidenceChangeLogger: onAddedDetectionMethod
onAddedExperimentalPreparation(F, CvTerm) - Method in interface psidev.psi.mi.jami.listener.ParticipantEvidenceChangeListener: onAddedExperimentalPreparation
onAddedExperimentalPreparation(P, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ParticipantEvidenceEnricherListenerManager: onAddedExperimentalPreparation
onAddedExperimentalPreparation(P, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ParticipantEvidenceEnricherStatisticsWriter: onAddedExperimentalPreparation
onAddedExperimentalPreparation(T, CvTerm) - Method in class psidev.psi.mi.jami.listener.impl.ParticipantEvidenceChangeLogger: onAddedExperimentalPreparation
onAddedFeature(F, Feature) - Method in interface psidev.psi.mi.jami.listener.EntityChangeListener: onAddedFeature
onAddedFeature(P, Feature) - Method in class psidev.psi.mi.jami.enricher.listener.impl.EntityEnricherListenerManager: onAddedFeature
onAddedFeature(P, Feature) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.EntityEnricherStatisticsWriter: onAddedFeature
onAddedFeature(T, Feature) - Method in class psidev.psi.mi.jami.listener.impl.EntityChangeLogger: onAddedFeature
onAddedFeature(T, Feature) - Method in class psidev.psi.mi.jami.listener.impl.ParticipantChangeLogger: onAddedFeature
onAddedIdentificationMethod(F, CvTerm) - Method in interface psidev.psi.mi.jami.listener.ParticipantEvidenceChangeListener: onAddedIdentificationMethod
onAddedIdentificationMethod(P, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ParticipantEvidenceEnricherListenerManager: onAddedIdentificationMethod
onAddedIdentificationMethod(P, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ParticipantEvidenceEnricherStatisticsWriter: onAddedIdentificationMethod
onAddedIdentificationMethod(T, CvTerm) - Method in class psidev.psi.mi.jami.listener.impl.ParticipantEvidenceChangeLogger: onAddedIdentificationMethod
onAddedIdentifier(I, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractionEnricherListenerManager: Listen to the event where an identifier has been added to the protein identifiers.
onAddedIdentifier(I, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractionEnricherStatisticsWriter: Listen to the event where an identifier has been added to the protein identifiers.
onAddedIdentifier(CvTerm, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.CvTermEnricherListenerManager: Listen to the event where an identifier has been added to the protein identifiers.
onAddedIdentifier(CvTerm, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.CvTermEnricherStatisticsWriter: Listen to the event where an identifier has been added to the protein identifiers.
onAddedIdentifier(CvTerm, Xref) - Method in class psidev.psi.mi.jami.listener.impl.CvTermChangeLogger: Listen to the event where an identifier has been added to the protein identifiers.
onAddedIdentifier(Protein, Xref) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceEnricher: Listen to the event where an identifier has been added to the protein identifiers.
onAddedIdentifier(Protein, Xref) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceUpdater: Listen to the event where an identifier has been added to the protein identifiers.
onAddedIdentifier(Protein, Xref) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureUpdater: Listen to the event where an identifier has been added to the protein identifiers.
onAddedIdentifier(Protein, Xref) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: Listen to the event where an identifier has been added to the protein identifiers.
onAddedIdentifier(Protein, Xref) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEvidenceUpdater: Listen to the event where an identifier has been added to the protein identifiers.
onAddedIdentifier(Publication, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.PublicationEnricherListenerManager: Listen to the event where an identifier has been added to the protein identifiers.
onAddedIdentifier(Publication, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.PublicationEnricherStatisticsWriter: Listen to the event where an identifier has been added to the protein identifiers.
onAddedIdentifier(Publication, Xref) - Method in class psidev.psi.mi.jami.listener.impl.PublicationChangeLogger: Listen to the event where an identifier has been added to the protein identifiers.
onAddedIdentifier(T, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.FeatureEnricherListenerManager: Listen to the event where an identifier has been added to the protein identifiers.
onAddedIdentifier(T, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractorEnricherListenerManager: Listen to the event where an identifier has been added to the protein identifiers.
onAddedIdentifier(T, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.FeatureEnricherStatisticsWriter: Listen to the event where an identifier has been added to the protein identifiers.
onAddedIdentifier(T, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractorEnricherStatisticsWriter: Listen to the event where an identifier has been added to the protein identifiers.
onAddedIdentifier(T, Xref) - Method in interface psidev.psi.mi.jami.listener.IdentifiersChangeListener: Listen to the event where an identifier has been added to the protein identifiers.
onAddedIdentifier(T, Xref) - Method in class psidev.psi.mi.jami.listener.impl.FeatureChangeLogger: Listen to the event where an identifier has been added to the protein identifiers.
onAddedIdentifier(T, Xref) - Method in class psidev.psi.mi.jami.listener.impl.InteractionChangeLogger: Listen to the event where an identifier has been added to the protein identifiers.
onAddedIdentifier(T, Xref) - Method in class psidev.psi.mi.jami.listener.impl.InteractorChangeLogger: Listen to the event where an identifier has been added to the protein identifiers.
onAddedInteractionEvidence(I, InteractionEvidence) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ModelledInteractionEnricherListenerManager: onAddedInteractionEvidence
onAddedInteractionEvidence(I, InteractionEvidence) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ModelledInteractionEnricherStatisticsWriter: onAddedInteractionEvidence
onAddedInteractionEvidence(I, InteractionEvidence) - Method in class psidev.psi.mi.jami.listener.impl.ModelledInteractionChangeLogger: onAddedInteractionEvidence
onAddedInteractionEvidence(I, InteractionEvidence) - Method in interface psidev.psi.mi.jami.listener.ModelledInteractionChangeListener: onAddedInteractionEvidence
onAddedInteractionEvidence(Complex, InteractionEvidence) - Method in class psidev.psi.mi.jami.listener.impl.ComplexChangeLogger: onAddedInteractionEvidence
onAddedInteractor(InteractorPool, Interactor) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractorPoolEnricherListenerManager: Listen to the event where an interactor has been added to the pool
onAddedInteractor(InteractorPool, Interactor) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractorPoolEnricherStatisticsWriter: Listen to the event where an interactor has been added to the pool
onAddedInteractor(InteractorPool, Interactor) - Method in class psidev.psi.mi.jami.listener.impl.InteractorPoolChangeLogger: Listen to the event where an interactor has been added to the pool
onAddedInteractor(InteractorPool, Interactor) - Method in interface psidev.psi.mi.jami.listener.InteractorPoolChangeListener: Listen to the event where an interactor has been added to the pool
onAddedLinkedFeature(F, F) - Method in interface psidev.psi.mi.jami.listener.FeatureChangeListener: onAddedLinkedFeature
onAddedLinkedFeature(T, T) - Method in class psidev.psi.mi.jami.enricher.listener.impl.FeatureEnricherListenerManager: onAddedLinkedFeature.
onAddedLinkedFeature(T, T) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.FeatureEnricherStatisticsWriter: onAddedLinkedFeature.
onAddedLinkedFeature(T, T) - Method in class psidev.psi.mi.jami.listener.impl.FeatureChangeLogger: onAddedLinkedFeature
onAddedParameter(I, Parameter) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ModelledInteractionEnricherListenerManager: Listen to the event where a parameter has been added to the object parameters.
onAddedParameter(I, Parameter) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ModelledInteractionEnricherStatisticsWriter: Listen to the event where a parameter has been added to the object parameters.
onAddedParameter(I, Parameter) - Method in class psidev.psi.mi.jami.listener.impl.ModelledInteractionChangeLogger: Listen to the event where a parameter has been added to the object parameters.
onAddedParameter(P, Parameter) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ParticipantEvidenceEnricherListenerManager: Listen to the event where a parameter has been added to the object parameters.
onAddedParameter(P, Parameter) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ParticipantEvidenceEnricherStatisticsWriter: Listen to the event where a parameter has been added to the object parameters.
onAddedParameter(Complex, Parameter) - Method in class psidev.psi.mi.jami.listener.impl.ComplexChangeLogger: Listen to the event where a parameter has been added to the object parameters.
onAddedParameter(FeatureEvidence, Parameter) - Method in class psidev.psi.mi.jami.enricher.listener.impl.FeatureEvidenceEnricherListenerManager: Listen to the event where a parameter has been added to the object parameters.
onAddedParameter(FeatureEvidence, Parameter) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.FeatureEvidenceEnricherStatisticsWriter: Listen to the event where a parameter has been added to the object parameters.
onAddedParameter(FeatureEvidence, Parameter) - Method in class psidev.psi.mi.jami.listener.impl.FeatureEvidenceChangeLogger: Listen to the event where a parameter has been added to the object parameters.
onAddedParameter(InteractionEvidence, Parameter) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractionEvidenceEnricherListenerManager: Listen to the event where a parameter has been added to the object parameters.
onAddedParameter(InteractionEvidence, Parameter) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractionEvidenceEnricherStatisticsWriter: Listen to the event where a parameter has been added to the object parameters.
onAddedParameter(InteractionEvidence, Parameter) - Method in class psidev.psi.mi.jami.listener.impl.InteractionEvidenceChangeLogger: Listen to the event where a parameter has been added to the object parameters.
onAddedParameter(T, Parameter) - Method in class psidev.psi.mi.jami.listener.impl.ParticipantEvidenceChangeLogger: Listen to the event where a parameter has been added to the object parameters.
onAddedParameter(T, Parameter) - Method in interface psidev.psi.mi.jami.listener.ParametersChangeListener: Listen to the event where a parameter has been added to the object parameters.
onAddedParent(OntologyTerm, OntologyTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.OntologyTermEnricherListenerManager: Listen to the event where a parent has been added to the object parents.
onAddedParent(OntologyTerm, OntologyTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.OntologyTermEnricherStatisticsWriter: Listen to the event where a parent has been added to the object parents.
onAddedParent(OntologyTerm, OntologyTerm) - Method in class psidev.psi.mi.jami.listener.impl.OntologyTermChangeLogger: Listen to the event where a parent has been added to the object parents.
onAddedParent(OntologyTerm, OntologyTerm) - Method in interface psidev.psi.mi.jami.listener.OntologyTermChangeListener: Listen to the event where a parent has been added to the object parents.
onAddedParticipant(I, Participant) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractionEnricherListenerManager: onAddedParticipant
onAddedParticipant(I, Participant) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractionEnricherStatisticsWriter: onAddedParticipant
onAddedParticipant(I, Participant) - Method in interface psidev.psi.mi.jami.listener.InteractionChangeListener: onAddedParticipant
onAddedParticipant(Complex, Participant) - Method in class psidev.psi.mi.jami.listener.impl.ComplexChangeLogger: onAddedParticipant
onAddedParticipant(T, Participant) - Method in class psidev.psi.mi.jami.listener.impl.InteractionChangeLogger: onAddedParticipant
onAddedRange(F, Range) - Method in interface psidev.psi.mi.jami.listener.FeatureChangeListener: onAddedRange
onAddedRange(T, Range) - Method in class psidev.psi.mi.jami.enricher.listener.impl.FeatureEnricherListenerManager: onAddedRange
onAddedRange(T, Range) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.FeatureEnricherStatisticsWriter: onAddedRange
onAddedRange(T, Range) - Method in class psidev.psi.mi.jami.listener.impl.FeatureChangeLogger: onAddedRange
onAddedVariableParameter(Experiment, VariableParameter) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ExperimentEnricherListenerManager: Listen to the event where a parameter has been added to the object parameters.
onAddedVariableParameter(Experiment, VariableParameter) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ExperimentEnricherStatisticsWriter: Listen to the event where a parameter has been added to the object parameters.
onAddedVariableParameter(Experiment, VariableParameter) - Method in interface psidev.psi.mi.jami.listener.ExperimentChangeListener: Listen to the event where a parameter has been added to the object parameters.
onAddedVariableParameter(Experiment, VariableParameter) - Method in class psidev.psi.mi.jami.listener.impl.ExperimentChangeLogger: Listen to the event where a parameter has been added to the object parameters.
onAddedVariableParameterValues(InteractionEvidence, VariableParameterValueSet) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractionEvidenceEnricherListenerManager: onAddedVariableParameterValues
onAddedVariableParameterValues(InteractionEvidence, VariableParameterValueSet) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractionEvidenceEnricherStatisticsWriter: onAddedVariableParameterValues
onAddedVariableParameterValues(InteractionEvidence, VariableParameterValueSet) - Method in class psidev.psi.mi.jami.listener.impl.InteractionEvidenceChangeLogger: onAddedVariableParameterValues
onAddedVariableParameterValues(InteractionEvidence, VariableParameterValueSet) - Method in interface psidev.psi.mi.jami.listener.InteractionEvidenceChangeListener: onAddedVariableParameterValues
onAddedXref(I, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractionEnricherListenerManager: Listen to the event where a xref has been added to the protein xrefs.
onAddedXref(I, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractionEnricherStatisticsWriter: Listen to the event where a xref has been added to the protein xrefs.
onAddedXref(P, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ParticipantEnricherListenerManager: Listen to the event where a xref has been added to the protein xrefs.
onAddedXref(P, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ParticipantEnricherStatisticsWriter: Listen to the event where a xref has been added to the protein xrefs.
onAddedXref(CvTerm, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.CvTermEnricherListenerManager: Listen to the event where a xref has been added to the protein xrefs.
onAddedXref(CvTerm, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.CvTermEnricherStatisticsWriter: Listen to the event where a xref has been added to the protein xrefs.
onAddedXref(CvTerm, Xref) - Method in class psidev.psi.mi.jami.listener.impl.CvTermChangeLogger: Listen to the event where a xref has been added to the protein xrefs.
onAddedXref(Experiment, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ExperimentEnricherListenerManager: Listen to the event where a xref has been added to the protein xrefs.
onAddedXref(Experiment, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ExperimentEnricherStatisticsWriter: Listen to the event where a xref has been added to the protein xrefs.
onAddedXref(Experiment, Xref) - Method in class psidev.psi.mi.jami.listener.impl.ExperimentChangeLogger: Listen to the event where a xref has been added to the protein xrefs.
onAddedXref(Protein, Xref) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceEnricher: Listen to the event where a xref has been added to the protein xrefs.
onAddedXref(Protein, Xref) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceUpdater: Listen to the event where a xref has been added to the protein xrefs.
onAddedXref(Protein, Xref) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureUpdater: Listen to the event where a xref has been added to the protein xrefs.
onAddedXref(Protein, Xref) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: Listen to the event where a xref has been added to the protein xrefs.
onAddedXref(Protein, Xref) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEvidenceUpdater: Listen to the event where a xref has been added to the protein xrefs.
onAddedXref(Publication, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.PublicationEnricherListenerManager: Listen to the event where a xref has been added to the protein xrefs.
onAddedXref(Publication, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.PublicationEnricherStatisticsWriter: Listen to the event where a xref has been added to the protein xrefs.
onAddedXref(Publication, Xref) - Method in class psidev.psi.mi.jami.listener.impl.PublicationChangeLogger: Listen to the event where a xref has been added to the protein xrefs.
onAddedXref(T, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.FeatureEnricherListenerManager: Listen to the event where a xref has been added to the protein xrefs.
onAddedXref(T, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractorEnricherListenerManager: Listen to the event where a xref has been added to the protein xrefs.
onAddedXref(T, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.FeatureEnricherStatisticsWriter: Listen to the event where a xref has been added to the protein xrefs.
onAddedXref(T, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractorEnricherStatisticsWriter: Listen to the event where a xref has been added to the protein xrefs.
onAddedXref(T, Xref) - Method in class psidev.psi.mi.jami.listener.impl.FeatureChangeLogger: Listen to the event where a xref has been added to the protein xrefs.
onAddedXref(T, Xref) - Method in class psidev.psi.mi.jami.listener.impl.InteractionChangeLogger: Listen to the event where a xref has been added to the protein xrefs.
onAddedXref(T, Xref) - Method in class psidev.psi.mi.jami.listener.impl.InteractorChangeLogger: Listen to the event where a xref has been added to the protein xrefs.
onAddedXref(T, Xref) - Method in class psidev.psi.mi.jami.listener.impl.ParticipantChangeLogger: Listen to the event where a xref has been added to the protein xrefs.
onAddedXref(T, Xref) - Method in interface psidev.psi.mi.jami.listener.XrefsChangeListener: Listen to the event where a xref has been added to the protein xrefs.
onAliasWithoutDbSource(MitabAlias) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: onAliasWithoutDbSource.
onAliasWithoutDbSource(MitabAlias) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: onAliasWithoutDbSource.
onAliasWithoutDbSource(MitabAlias) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: onAliasWithoutDbSource.
onAliasWithoutDbSource(MitabAlias) - Method in class psidev.psi.mi.jami.tab.listener.MitabParserCompositeListener: onAliasWithoutDbSource.
onAliasWithoutDbSource(MitabAlias) - Method in interface psidev.psi.mi.jami.tab.listener.MitabParserListener: onAliasWithoutDbSource.
onAliasWithoutDbSource(MitabAlias) - Method in class psidev.psi.mi.jami.tab.listener.MitabParserLogger: onAliasWithoutDbSource.
onAliasWithoutName(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Listen to an event fired when an alias does not have a name
onAliasWithoutName(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Listen to an event fired when an alias does not have a name
onAliasWithoutName(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: Listen to an event fired when an alias does not have a name
onAliasWithoutName(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: Listen to an event fired when an alias does not have a name
onAliasWithoutName(FileSourceContext) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserCompositeListener: Listen to an event fired when an alias does not have a name
onAliasWithoutName(FileSourceContext) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserLogger: Listen to an event fired when an alias does not have a name
onAliasWithoutName(FileSourceContext) - Method in interface psidev.psi.mi.jami.listener.MIFileParserListener: Listen to an event fired when an alias does not have a name
onAliasWithoutName(FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: Listen to an event fired when an alias does not have a name
onAliasWithoutName(FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Listen to an event fired when an alias does not have a name
onAliasWithoutName(FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: Listen to an event fired when an alias does not have a name
onAliasWithoutName(FileSourceContext) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Listen to an event fired when an alias does not have a name
onAliasWithoutName(FileSourceContext) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: Listen to an event fired when an alias does not have a name
onAnnotationWithoutTopic(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Listen to an event fired when an annotation does not have a topic
onAnnotationWithoutTopic(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Listen to an event fired when an annotation does not have a topic
onAnnotationWithoutTopic(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: Listen to an event fired when an annotation does not have a topic
onAnnotationWithoutTopic(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: Listen to an event fired when an annotation does not have a topic
onAnnotationWithoutTopic(FileSourceContext) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserCompositeListener: Listen to an event fired when an annotation does not have a topic
onAnnotationWithoutTopic(FileSourceContext) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserLogger: Listen to an event fired when an annotation does not have a topic
onAnnotationWithoutTopic(FileSourceContext) - Method in interface psidev.psi.mi.jami.listener.MIFileParserListener: Listen to an event fired when an annotation does not have a topic
onAnnotationWithoutTopic(FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: Listen to an event fired when an annotation does not have a topic
onAnnotationWithoutTopic(FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Listen to an event fired when an annotation does not have a topic
onAnnotationWithoutTopic(FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: Listen to an event fired when an annotation does not have a topic
onAnnotationWithoutTopic(FileSourceContext) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Listen to an event fired when an annotation does not have a topic
onAnnotationWithoutTopic(FileSourceContext) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: Listen to an event fired when an annotation does not have a topic
onAuthorAdded(Publication, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.PublicationEnricherListenerManager: onAuthorAdded
onAuthorAdded(Publication, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.PublicationEnricherStatisticsWriter: onAuthorAdded
onAuthorAdded(Publication, String) - Method in class psidev.psi.mi.jami.listener.impl.PublicationChangeLogger: onAuthorAdded
onAuthorAdded(Publication, String) - Method in interface psidev.psi.mi.jami.listener.PublicationChangeListener: onAuthorAdded
onAuthorRemoved(Publication, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.PublicationEnricherListenerManager: onAuthorRemoved
onAuthorRemoved(Publication, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.PublicationEnricherStatisticsWriter: onAuthorRemoved
onAuthorRemoved(Publication, String) - Method in class psidev.psi.mi.jami.listener.impl.PublicationChangeLogger: onAuthorRemoved
onAuthorRemoved(Publication, String) - Method in interface psidev.psi.mi.jami.listener.PublicationChangeListener: onAuthorRemoved
onBiologicalRoleUpdate(F, CvTerm) - Method in interface psidev.psi.mi.jami.listener.ParticipantChangeListener: onBiologicalRoleUpdate
onBiologicalRoleUpdate(P, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ParticipantEnricherListenerManager: onBiologicalRoleUpdate
onBiologicalRoleUpdate(P, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ParticipantEnricherStatisticsWriter: onBiologicalRoleUpdate
onBiologicalRoleUpdate(T, CvTerm) - Method in class psidev.psi.mi.jami.listener.impl.ParticipantChangeLogger: onBiologicalRoleUpdate
onCellTypeUpdate(Organism, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.OrganismEnricherListenerManager: Listen to the event where the cell type has been initialised.
onCellTypeUpdate(Organism, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.OrganismEnricherStatisticsWriter: Listen to the event where the cell type has been initialised.
onCellTypeUpdate(Organism, CvTerm) - Method in class psidev.psi.mi.jami.listener.impl.OrganismChangeLogger: Listen to the event where the cell type has been initialised.
onCellTypeUpdate(Organism, CvTerm) - Method in interface psidev.psi.mi.jami.listener.OrganismChangeListener: Listen to the event where the cell type has been initialised.
onCommonNameUpdate(Organism, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.OrganismEnricherListenerManager: Listen to the event where the commonName of an organism has been changed.
onCommonNameUpdate(Organism, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.OrganismEnricherStatisticsWriter: Listen to the event where the commonName of an organism has been changed.
onCommonNameUpdate(Organism, String) - Method in class psidev.psi.mi.jami.listener.impl.OrganismChangeLogger: Listen to the event where the commonName of an organism has been changed.
onCommonNameUpdate(Organism, String) - Method in interface psidev.psi.mi.jami.listener.OrganismChangeListener: Listen to the event where the commonName of an organism has been changed.
onCompartmentUpdate(Organism, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.OrganismEnricherListenerManager: Listen to the event where the organism compartment has been initialised.
onCompartmentUpdate(Organism, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.OrganismEnricherStatisticsWriter: Listen to the event where the organism compartment has been initialised.
onCompartmentUpdate(Organism, CvTerm) - Method in class psidev.psi.mi.jami.listener.impl.OrganismChangeLogger: Listen to the event where the organism compartment has been initialised.
onCompartmentUpdate(Organism, CvTerm) - Method in interface psidev.psi.mi.jami.listener.OrganismChangeListener: Listen to the event where the organism compartment has been initialised.
onCompletedEnrichment(BioactiveEntity) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalBioactiveEntityEnricher: onCompletedEnrichment.
onCompletedEnrichment(Gene) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalGeneEnricher: onCompletedEnrichment.
onCompletedEnrichment(Protein) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalProteinEnricher: onCompletedEnrichment.
onCompletedEnrichment(T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorEnricher: onCompletedEnrichment.
onCompletedEnrichment(T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorUpdater: onCompletedEnrichment.
onCompletedEnrichment(T) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractorBaseEnricher: onCompletedEnrichment.
onCreatedDateUpdate(I, Date) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractionEnricherListenerManager: onCreatedDateUpdate
onCreatedDateUpdate(I, Date) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractionEnricherStatisticsWriter: onCreatedDateUpdate
onCreatedDateUpdate(I, Date) - Method in interface psidev.psi.mi.jami.listener.InteractionChangeListener: onCreatedDateUpdate
onCreatedDateUpdate(Complex, Date) - Method in class psidev.psi.mi.jami.listener.impl.ComplexChangeLogger: onCreatedDateUpdate
onCreatedDateUpdate(T, Date) - Method in class psidev.psi.mi.jami.listener.impl.InteractionChangeLogger: onCreatedDateUpdate
onCurationDepthUpdate(Publication, CurationDepth) - Method in class psidev.psi.mi.jami.enricher.listener.impl.PublicationEnricherListenerManager: onCurationDepthUpdate
onCurationDepthUpdate(Publication, CurationDepth) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.PublicationEnricherStatisticsWriter: onCurationDepthUpdate
onCurationDepthUpdate(Publication, CurationDepth) - Method in class psidev.psi.mi.jami.listener.impl.PublicationChangeLogger: onCurationDepthUpdate
onCurationDepthUpdate(Publication, CurationDepth) - Method in interface psidev.psi.mi.jami.listener.PublicationChangeListener: onCurationDepthUpdate
onCurationDepthUpdated(Publication, CurationDepth) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherListenerManager: onCurationDepthUpdated.
onCurationDepthUpdated(Publication, CurationDepth) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherLogger: onCurationDepthUpdated.
onCurationDepthUpdated(Publication, CurationDepth) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherStatisticsWriter: onCurationDepthUpdated.
onCurationDepthUpdated(Publication, CurationDepth) - Method in interface psidev.psi.mi.jami.imex.listener.PublicationImexEnricherListener: onCurationDepthUpdated.
onDefinitionUpdate(OntologyTerm, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.OntologyTermEnricherListenerManager: Listen to the event where the definition of a cv term has been changed.
onDefinitionUpdate(OntologyTerm, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.OntologyTermEnricherStatisticsWriter: Listen to the event where the definition of a cv term has been changed.
onDefinitionUpdate(OntologyTerm, String) - Method in class psidev.psi.mi.jami.listener.impl.OntologyTermChangeLogger: Listen to the event where the definition of a cv term has been changed.
onDefinitionUpdate(OntologyTerm, String) - Method in interface psidev.psi.mi.jami.listener.OntologyTermChangeListener: Listen to the event where the definition of a cv term has been changed.
onDifferentValue(ComplexComparisonEvent) - Method in interface psidev.psi.mi.jami.listener.comparator.ComplexComparatorListener
onDifferentValue(ComplexComparisonEvent) - Method in class psidev.psi.mi.jami.listener.comparator.impl.ComplexComparatorListenerImpl
onDoiUpdate(Publication, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.PublicationEnricherListenerManager: onDoiUpdate
onDoiUpdate(Publication, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.PublicationEnricherStatisticsWriter: onDoiUpdate
onDoiUpdate(Publication, String) - Method in class psidev.psi.mi.jami.listener.impl.PublicationChangeLogger: onDoiUpdate
onDoiUpdate(Publication, String) - Method in interface psidev.psi.mi.jami.listener.PublicationChangeListener: onDoiUpdate
onEmptyUniqueIdentifiers(int, int, int) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: onEmptyUniqueIdentifiers.
onEmptyUniqueIdentifiers(int, int, int) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: onEmptyUniqueIdentifiers.
onEmptyUniqueIdentifiers(int, int, int) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: onEmptyUniqueIdentifiers.
onEmptyUniqueIdentifiers(int, int, int) - Method in class psidev.psi.mi.jami.tab.listener.MitabParserCompositeListener: onEmptyUniqueIdentifiers.
onEmptyUniqueIdentifiers(int, int, int) - Method in interface psidev.psi.mi.jami.tab.listener.MitabParserListener: onEmptyUniqueIdentifiers.
onEmptyUniqueIdentifiers(int, int, int) - Method in class psidev.psi.mi.jami.tab.listener.MitabParserLogger: onEmptyUniqueIdentifiers.
onEnrichedVersionNotFound(C) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalCvTermEnricher: onEnrichedVersionNotFound.
onEnrichedVersionNotFound(BioactiveEntity) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalBioactiveEntityEnricher: onEnrichedVersionNotFound.
onEnrichedVersionNotFound(Experiment) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentEnricher: onEnrichedVersionNotFound.
onEnrichedVersionNotFound(Gene) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalGeneEnricher: onEnrichedVersionNotFound.
onEnrichedVersionNotFound(OntologyTerm) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOntologyTermEnricher: onEnrichedVersionNotFound.
onEnrichedVersionNotFound(Organism) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOrganismEnricher: onEnrichedVersionNotFound.
onEnrichedVersionNotFound(Protein) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalProteinEnricher: onEnrichedVersionNotFound.
onEnrichedVersionNotFound(Publication) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalCuratedPublicationEnricher: onEnrichedVersionNotFound.
onEnrichedVersionNotFound(Publication) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalPublicationEnricher: onEnrichedVersionNotFound.
onEnrichedVersionNotFound(Publication) - Method in class psidev.psi.mi.jami.imex.ImexPublicationUpdater: onEnrichedVersionNotFound.
onEnrichedVersionNotFound(Source) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalSourceEnricher: onEnrichedVersionNotFound.
onEnrichedVersionNotFound(T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorEnricher: onEnrichedVersionNotFound.
onEnrichedVersionNotFound(T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorUpdater: onEnrichedVersionNotFound.
onEnrichedVersionNotFound(T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractMIEnricher: onEnrichedVersionNotFound.
onEnrichmentComplete(I, EnrichmentStatus, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.InteractionEnricherLogger: onEnrichmentComplete.
onEnrichmentComplete(I, EnrichmentStatus, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.ModelledInteractionEnricherLogger: onEnrichmentComplete.
onEnrichmentComplete(O, EnrichmentStatus, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.EnricherListenerManager: onEnrichmentComplete.
onEnrichmentComplete(P, EnrichmentStatus, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.EntityEnricherLogger: onEnrichmentComplete.
onEnrichmentComplete(P, EnrichmentStatus, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.ParticipantEnricherLogger: onEnrichmentComplete.
onEnrichmentComplete(P, EnrichmentStatus, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.ParticipantEvidenceEnricherLogger: onEnrichmentComplete.
onEnrichmentComplete(P, EnrichmentStatus, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.ParticipantPoolEnricherLogger: onEnrichmentComplete.
onEnrichmentComplete(P, EnrichmentStatus, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.PolymerEnricherLogger: onEnrichmentComplete.
onEnrichmentComplete(Complex, EnrichmentStatus, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.ComplexEnricherLogger: onEnrichmentComplete.
onEnrichmentComplete(CvTerm, EnrichmentStatus, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.CvTermEnricherLogger: onEnrichmentComplete.
onEnrichmentComplete(Experiment, EnrichmentStatus, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.ExperimentEnricherLogger: onEnrichmentComplete.
onEnrichmentComplete(FeatureEvidence, EnrichmentStatus, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.FeatureEvidenceEnricherLogger: onEnrichmentComplete.
onEnrichmentComplete(InteractionEvidence, EnrichmentStatus, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.InteractionEvidenceEnricherLogger: onEnrichmentComplete.
onEnrichmentComplete(InteractorPool, EnrichmentStatus, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.InteractorPoolEnricherLogger: onEnrichmentComplete.
onEnrichmentComplete(OntologyTerm, EnrichmentStatus, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.OntologyTermEnricherLogger: onEnrichmentComplete.
onEnrichmentComplete(Organism, EnrichmentStatus, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.OrganismEnricherLogger: onEnrichmentComplete.
onEnrichmentComplete(Protein, EnrichmentStatus, String) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceEnricher: onEnrichmentComplete.
onEnrichmentComplete(Protein, EnrichmentStatus, String) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceUpdater: onEnrichmentComplete.
onEnrichmentComplete(Protein, EnrichmentStatus, String) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureUpdater: onEnrichmentComplete.
onEnrichmentComplete(Protein, EnrichmentStatus, String) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: onEnrichmentComplete.
onEnrichmentComplete(Protein, EnrichmentStatus, String) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEvidenceUpdater: onEnrichmentComplete.
onEnrichmentComplete(Publication, EnrichmentStatus, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.PublicationEnricherLogger: onEnrichmentComplete.
onEnrichmentComplete(Publication, EnrichmentStatus, String) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherLogger: onEnrichmentComplete.
onEnrichmentComplete(Source, EnrichmentStatus, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.SourceEnricherLogger: onEnrichmentComplete.
onEnrichmentComplete(T, EnrichmentStatus, String) - Method in interface psidev.psi.mi.jami.enricher.listener.EnricherListener: onEnrichmentComplete.
onEnrichmentComplete(T, EnrichmentStatus, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.FeatureEnricherLogger: onEnrichmentComplete.
onEnrichmentComplete(T, EnrichmentStatus, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.InteractorEnricherLogger: onEnrichmentComplete.
onEnrichmentComplete(T, EnrichmentStatus, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.EnricherStatisticsWriter: onEnrichmentComplete.
onEnrichmentError(I, String, Exception) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.InteractionEnricherLogger: onEnrichmentError.
onEnrichmentError(I, String, Exception) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.ModelledInteractionEnricherLogger: onEnrichmentError.
onEnrichmentError(O, String, Exception) - Method in class psidev.psi.mi.jami.enricher.listener.impl.EnricherListenerManager: onEnrichmentError.
onEnrichmentError(P, String, Exception) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.EntityEnricherLogger: onEnrichmentError.
onEnrichmentError(P, String, Exception) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.ParticipantEnricherLogger: onEnrichmentError.
onEnrichmentError(P, String, Exception) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.ParticipantEvidenceEnricherLogger: onEnrichmentError.
onEnrichmentError(P, String, Exception) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.ParticipantPoolEnricherLogger: onEnrichmentError.
onEnrichmentError(P, String, Exception) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.PolymerEnricherLogger: onEnrichmentError.
onEnrichmentError(Complex, String, Exception) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.ComplexEnricherLogger: onEnrichmentError.
onEnrichmentError(CvTerm, String, Exception) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.CvTermEnricherLogger: onEnrichmentError.
onEnrichmentError(Experiment, String, Exception) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.ExperimentEnricherLogger: onEnrichmentError.
onEnrichmentError(FeatureEvidence, String, Exception) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.FeatureEvidenceEnricherLogger: onEnrichmentError.
onEnrichmentError(InteractionEvidence, String, Exception) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.InteractionEvidenceEnricherLogger: onEnrichmentError.
onEnrichmentError(InteractorPool, String, Exception) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.InteractorPoolEnricherLogger: onEnrichmentError.
onEnrichmentError(OntologyTerm, String, Exception) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.OntologyTermEnricherLogger: onEnrichmentError.
onEnrichmentError(Organism, String, Exception) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.OrganismEnricherLogger: onEnrichmentError.
onEnrichmentError(Protein, String, Exception) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceEnricher: onEnrichmentError.
onEnrichmentError(Protein, String, Exception) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceUpdater: onEnrichmentError.
onEnrichmentError(Protein, String, Exception) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureUpdater: onEnrichmentError.
onEnrichmentError(Protein, String, Exception) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: onEnrichmentError.
onEnrichmentError(Protein, String, Exception) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEvidenceUpdater: onEnrichmentError.
onEnrichmentError(Publication, String, Exception) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.PublicationEnricherLogger: onEnrichmentError.
onEnrichmentError(Publication, String, Exception) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherLogger: onEnrichmentError.
onEnrichmentError(Source, String, Exception) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.SourceEnricherLogger: onEnrichmentError.
onEnrichmentError(T, String, Exception) - Method in interface psidev.psi.mi.jami.enricher.listener.EnricherListener: onEnrichmentError.
onEnrichmentError(T, String, Exception) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.FeatureEnricherLogger: onEnrichmentError.
onEnrichmentError(T, String, Exception) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.InteractorEnricherLogger: onEnrichmentError.
onEnrichmentError(T, String, Exception) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.EnricherStatisticsWriter: onEnrichmentError.
onEvidenceTypeUpdate(I, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ModelledInteractionEnricherListenerManager: onEvidenceTypeUpdate
onEvidenceTypeUpdate(I, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ModelledInteractionEnricherStatisticsWriter: onEvidenceTypeUpdate
onEvidenceTypeUpdate(I, CvTerm) - Method in class psidev.psi.mi.jami.listener.impl.ModelledInteractionChangeLogger: onEvidenceTypeUpdate
onEvidenceTypeUpdate(I, CvTerm) - Method in interface psidev.psi.mi.jami.listener.ModelledInteractionChangeListener: onEvidenceTypeUpdate
onEvidenceTypeUpdate(Complex, CvTerm) - Method in class psidev.psi.mi.jami.listener.impl.ComplexChangeLogger: onEvidenceTypeUpdate
onExperimentalRoleUpdate(F, CvTerm) - Method in interface psidev.psi.mi.jami.listener.ParticipantEvidenceChangeListener: onExperimentalRoleUpdate
onExperimentalRoleUpdate(P, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ParticipantEvidenceEnricherListenerManager: onExperimentalRoleUpdate
onExperimentalRoleUpdate(P, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ParticipantEvidenceEnricherStatisticsWriter: onExperimentalRoleUpdate
onExperimentalRoleUpdate(T, CvTerm) - Method in class psidev.psi.mi.jami.listener.impl.ParticipantEvidenceChangeLogger: onExperimentalRoleUpdate
onExperimentUpdate(InteractionEvidence, Experiment) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractionEvidenceEnricherListenerManager: onExperimentUpdate
onExperimentUpdate(InteractionEvidence, Experiment) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractionEvidenceEnricherStatisticsWriter: onExperimentUpdate
onExperimentUpdate(InteractionEvidence, Experiment) - Method in class psidev.psi.mi.jami.listener.impl.InteractionEvidenceChangeLogger: onExperimentUpdate
onExperimentUpdate(InteractionEvidence, Experiment) - Method in interface psidev.psi.mi.jami.listener.InteractionEvidenceChangeListener: onExperimentUpdate
onExpressedInUpdate(F, Organism) - Method in interface psidev.psi.mi.jami.listener.ParticipantEvidenceChangeListener: onExpressedInUpdate
onExpressedInUpdate(P, Organism) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ParticipantEvidenceEnricherListenerManager: onExpressedInUpdate
onExpressedInUpdate(P, Organism) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ParticipantEvidenceEnricherStatisticsWriter: onExpressedInUpdate
onExpressedInUpdate(T, Organism) - Method in class psidev.psi.mi.jami.listener.impl.ParticipantEvidenceChangeLogger: onExpressedInUpdate
onFailedMapping(Protein, Collection<String>) - Method in class psidev.psi.mi.jami.bridges.mapper.listener.ProteinMappingLogger: onFailedMapping.
onFailedMapping(Protein, Collection<String>) - Method in class psidev.psi.mi.jami.bridges.mapper.listener.ProteinMappingStatisticsWriter: onFailedMapping.
onFailedMapping(Protein, Collection<String>) - Method in interface psidev.psi.mi.jami.bridges.mapper.ProteinMapperListener: onFailedMapping.
onFullNameUpdate(F, String) - Method in interface psidev.psi.mi.jami.listener.FeatureChangeListener: onFullNameUpdate
onFullNameUpdate(Complex, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ComplexEnricherListenerManager: Listens for the event where the fullName has been changed.
onFullNameUpdate(Complex, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ComplexEnricherStatisticsWriter: Listens for the event where the fullName has been changed.
onFullNameUpdate(CvTerm, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.CvTermEnricherListenerManager: Listen to the event where the fullName of a cv term has been changed.
onFullNameUpdate(CvTerm, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.CvTermEnricherStatisticsWriter: Listen to the event where the fullName of a cv term has been changed.
onFullNameUpdate(CvTerm, String) - Method in interface psidev.psi.mi.jami.listener.CvTermChangeListener: Listen to the event where the fullName of a cv term has been changed.
onFullNameUpdate(CvTerm, String) - Method in class psidev.psi.mi.jami.listener.impl.CvTermChangeLogger: Listen to the event where the fullName of a cv term has been changed.
onFullNameUpdate(Protein, String) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceEnricher: Listens for the event where the fullName has been changed.
onFullNameUpdate(Protein, String) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceUpdater: Listens for the event where the fullName has been changed.
onFullNameUpdate(Protein, String) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureUpdater: Listens for the event where the fullName has been changed.
onFullNameUpdate(Protein, String) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: Listens for the event where the fullName has been changed.
onFullNameUpdate(Protein, String) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEvidenceUpdater: Listens for the event where the fullName has been changed.
onFullNameUpdate(T, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.FeatureEnricherListenerManager: onFullNameUpdate
onFullNameUpdate(T, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractorEnricherListenerManager: Listens for the event where the fullName has been changed.
onFullNameUpdate(T, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.FeatureEnricherStatisticsWriter: onFullNameUpdate
onFullNameUpdate(T, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractorEnricherStatisticsWriter: Listens for the event where the fullName has been changed.
onFullNameUpdate(T, String) - Method in class psidev.psi.mi.jami.listener.impl.FeatureChangeLogger: onFullNameUpdate
onFullNameUpdate(T, String) - Method in class psidev.psi.mi.jami.listener.impl.InteractorChangeLogger: Listens for the event where the fullName has been changed.
onFullNameUpdate(T, String) - Method in interface psidev.psi.mi.jami.listener.InteractorChangeListener: Listens for the event where the fullName has been changed.
onHostOrganismUpdate(Experiment, Organism) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ExperimentEnricherListenerManager: onHostOrganismUpdate
onHostOrganismUpdate(Experiment, Organism) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ExperimentEnricherStatisticsWriter: onHostOrganismUpdate
onHostOrganismUpdate(Experiment, Organism) - Method in interface psidev.psi.mi.jami.listener.ExperimentChangeListener: onHostOrganismUpdate
onHostOrganismUpdate(Experiment, Organism) - Method in class psidev.psi.mi.jami.listener.impl.ExperimentChangeLogger: onHostOrganismUpdate
onImexAdminGroupUpdated(Publication, Source) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherListenerManager: onImexAdminGroupUpdated.
onImexAdminGroupUpdated(Publication, Source) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherLogger: onImexAdminGroupUpdated.
onImexAdminGroupUpdated(Publication, Source) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherStatisticsWriter: onImexAdminGroupUpdated.
onImexAdminGroupUpdated(Publication, Source) - Method in interface psidev.psi.mi.jami.imex.listener.PublicationImexEnricherListener: onImexAdminGroupUpdated.
onImexIdAssigned(Experiment, String) - Method in interface psidev.psi.mi.jami.imex.listener.ExperimentImexEnricherListener: onImexIdAssigned.
onImexIdAssigned(Experiment, String) - Method in class psidev.psi.mi.jami.imex.listener.impl.ExperimentImexEnricherListenerManager: onImexIdAssigned.
onImexIdAssigned(Experiment, String) - Method in class psidev.psi.mi.jami.imex.listener.impl.ExperimentImexEnricherLogger: onImexIdAssigned.
onImexIdAssigned(Experiment, String) - Method in class psidev.psi.mi.jami.imex.listener.impl.ExperimentImexEnricherStatisticsWriter: onImexIdAssigned.
onImexIdAssigned(InteractionEvidence, String) - Method in class psidev.psi.mi.jami.imex.listener.impl.InteractionEvidenceImexEnricherListenerManager: onImexIdAssigned.
onImexIdAssigned(InteractionEvidence, String) - Method in class psidev.psi.mi.jami.imex.listener.impl.InteractionEvidenceImexEnricherLogger: onImexIdAssigned.
onImexIdAssigned(InteractionEvidence, String) - Method in class psidev.psi.mi.jami.imex.listener.impl.InteractionEvidenceImexEnricherStatisticsWriter: onImexIdAssigned.
onImexIdAssigned(InteractionEvidence, String) - Method in interface psidev.psi.mi.jami.imex.listener.InteractionImexEnricherListener: onImexIdAssigned.
onImexIdAssigned(Publication, String) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherListenerManager: onImexIdAssigned.
onImexIdAssigned(Publication, String) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherLogger: onImexIdAssigned.
onImexIdAssigned(Publication, String) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherStatisticsWriter: onImexIdAssigned.
onImexIdAssigned(Publication, String) - Method in interface psidev.psi.mi.jami.imex.listener.PublicationImexEnricherListener: onImexIdAssigned.
onImexIdConflicts(Experiment, Collection<Xref>) - Method in interface psidev.psi.mi.jami.imex.listener.ExperimentImexEnricherListener: onImexIdConflicts.
onImexIdConflicts(Experiment, Collection<Xref>) - Method in class psidev.psi.mi.jami.imex.listener.impl.ExperimentImexEnricherListenerManager: onImexIdConflicts.
onImexIdConflicts(Experiment, Collection<Xref>) - Method in class psidev.psi.mi.jami.imex.listener.impl.ExperimentImexEnricherLogger: onImexIdConflicts.
onImexIdConflicts(Experiment, Collection<Xref>) - Method in class psidev.psi.mi.jami.imex.listener.impl.ExperimentImexEnricherStatisticsWriter: onImexIdConflicts.
onImexIdConflicts(InteractionEvidence, Collection<Xref>) - Method in class psidev.psi.mi.jami.imex.listener.impl.InteractionEvidenceImexEnricherListenerManager: onImexIdConflicts.
onImexIdConflicts(InteractionEvidence, Collection<Xref>) - Method in class psidev.psi.mi.jami.imex.listener.impl.InteractionEvidenceImexEnricherLogger: onImexIdConflicts.
onImexIdConflicts(InteractionEvidence, Collection<Xref>) - Method in class psidev.psi.mi.jami.imex.listener.impl.InteractionEvidenceImexEnricherStatisticsWriter: onImexIdConflicts.
onImexIdConflicts(InteractionEvidence, Collection<Xref>) - Method in interface psidev.psi.mi.jami.imex.listener.InteractionImexEnricherListener: onImexIdConflicts.
onImexIdConflicts(Publication, Collection<Xref>) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherListenerManager: onImexIdConflicts.
onImexIdConflicts(Publication, Collection<Xref>) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherLogger: onImexIdConflicts.
onImexIdConflicts(Publication, Collection<Xref>) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherStatisticsWriter: onImexIdConflicts.
onImexIdConflicts(Publication, Collection<Xref>) - Method in interface psidev.psi.mi.jami.imex.listener.PublicationImexEnricherListener: onImexIdConflicts.
onImexIdentifierUpdate(Publication, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.PublicationEnricherListenerManager: onImexIdentifierUpdate
onImexIdentifierUpdate(Publication, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.PublicationEnricherStatisticsWriter: onImexIdentifierUpdate
onImexIdentifierUpdate(Publication, Xref) - Method in class psidev.psi.mi.jami.listener.impl.PublicationChangeLogger: onImexIdentifierUpdate
onImexIdentifierUpdate(Publication, Xref) - Method in interface psidev.psi.mi.jami.listener.PublicationChangeListener: onImexIdentifierUpdate
onImexIdNotRecognized(Publication, String) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherListenerManager: onImexIdNotRecognized.
onImexIdNotRecognized(Publication, String) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherLogger: onImexIdNotRecognized.
onImexIdNotRecognized(Publication, String) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherStatisticsWriter: onImexIdNotRecognized.
onImexIdNotRecognized(Publication, String) - Method in interface psidev.psi.mi.jami.imex.listener.PublicationImexEnricherListener: onImexIdNotRecognized.
onImexPublicationIdentifierSynchronized(Publication) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherListenerManager: onImexPublicationIdentifierSynchronized.
onImexPublicationIdentifierSynchronized(Publication) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherLogger: onImexPublicationIdentifierSynchronized.
onImexPublicationIdentifierSynchronized(Publication) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherStatisticsWriter: onImexPublicationIdentifierSynchronized.
onImexPublicationIdentifierSynchronized(Publication) - Method in interface psidev.psi.mi.jami.imex.listener.PublicationImexEnricherListener: onImexPublicationIdentifierSynchronized.
onImexStatusUpdated(Publication, PublicationStatus) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherListenerManager: onImexStatusUpdated.
onImexStatusUpdated(Publication, PublicationStatus) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherLogger: onImexStatusUpdated.
onImexStatusUpdated(Publication, PublicationStatus) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherStatisticsWriter: onImexStatusUpdated.
onImexStatusUpdated(Publication, PublicationStatus) - Method in interface psidev.psi.mi.jami.imex.listener.PublicationImexEnricherListener: onImexStatusUpdated.
onInferredPropertyUpdate(InteractionEvidence, boolean) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractionEvidenceEnricherListenerManager: onInferredPropertyUpdate
onInferredPropertyUpdate(InteractionEvidence, boolean) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractionEvidenceEnricherStatisticsWriter: onInferredPropertyUpdate
onInferredPropertyUpdate(InteractionEvidence, boolean) - Method in class psidev.psi.mi.jami.listener.impl.InteractionEvidenceChangeLogger: onInferredPropertyUpdate
onInferredPropertyUpdate(InteractionEvidence, boolean) - Method in interface psidev.psi.mi.jami.listener.InteractionEvidenceChangeListener: onInferredPropertyUpdate
onInteractionDetectionMethodUpdate(Experiment, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ExperimentEnricherListenerManager: onInteractionDetectionMethodUpdate
onInteractionDetectionMethodUpdate(Experiment, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ExperimentEnricherStatisticsWriter: onInteractionDetectionMethodUpdate
onInteractionDetectionMethodUpdate(Experiment, CvTerm) - Method in interface psidev.psi.mi.jami.listener.ExperimentChangeListener: onInteractionDetectionMethodUpdate
onInteractionDetectionMethodUpdate(Experiment, CvTerm) - Method in class psidev.psi.mi.jami.listener.impl.ExperimentChangeLogger: onInteractionDetectionMethodUpdate
onInteractionTypeUpdate(I, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractionEnricherListenerManager: onInteractionTypeUpdate
onInteractionTypeUpdate(I, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractionEnricherStatisticsWriter: onInteractionTypeUpdate
onInteractionTypeUpdate(I, CvTerm) - Method in interface psidev.psi.mi.jami.listener.InteractionChangeListener: onInteractionTypeUpdate
onInteractionTypeUpdate(Complex, CvTerm) - Method in class psidev.psi.mi.jami.listener.impl.ComplexChangeLogger: onInteractionTypeUpdate
onInteractionTypeUpdate(T, CvTerm) - Method in class psidev.psi.mi.jami.listener.impl.InteractionChangeLogger: onInteractionTypeUpdate
onInteractionWithoutParticipants(Interaction, FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Listen to an event fired when an interaction is read and does not have any participants.
onInteractionWithoutParticipants(Interaction, FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Listen to an event fired when an interaction is read and does not have any participants.
onInteractionWithoutParticipants(Interaction, FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: Listen to an event fired when an interaction is read and does not have any participants.
onInteractionWithoutParticipants(Interaction, FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: Listen to an event fired when an interaction is read and does not have any participants.
onInteractionWithoutParticipants(Interaction, FileSourceContext) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserCompositeListener: Listen to an event fired when an interaction is read and does not have any participants.
onInteractionWithoutParticipants(Interaction, FileSourceContext) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserLogger: Listen to an event fired when an interaction is read and does not have any participants.
onInteractionWithoutParticipants(Interaction, FileSourceContext) - Method in interface psidev.psi.mi.jami.listener.MIFileParserListener: Listen to an event fired when an interaction is read and does not have any participants.
onInteractionWithoutParticipants(Interaction, FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: Listen to an event fired when an interaction is read and does not have any participants.
onInteractionWithoutParticipants(Interaction, FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Listen to an event fired when an interaction is read and does not have any participants.
onInteractionWithoutParticipants(Interaction, FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: Listen to an event fired when an interaction is read and does not have any participants.
onInteractionWithoutParticipants(Interaction, FileSourceContext) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Listen to an event fired when an interaction is read and does not have any participants.
onInteractionWithoutParticipants(Interaction, FileSourceContext) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: Listen to an event fired when an interaction is read and does not have any participants.
onInteractorCheckFailure(BioactiveEntity, BioactiveEntity) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalBioactiveEntityEnricher: onInteractorCheckFailure.
onInteractorCheckFailure(Gene, Gene) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalGeneEnricher: onInteractorCheckFailure.
onInteractorCheckFailure(Protein, Protein) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalProteinEnricher: onInteractorCheckFailure.
onInteractorCheckFailure(T, T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorEnricher: onInteractorCheckFailure.
onInteractorCheckFailure(T, T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorUpdater: onInteractorCheckFailure.
onInteractorCheckFailure(T, T) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractorBaseEnricher: onInteractorCheckFailure.
onInteractorTypeUpdate(Complex, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ComplexEnricherListenerManager: Listen to the event where the interactor type has been initialised.
onInteractorTypeUpdate(Complex, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ComplexEnricherStatisticsWriter: Listen to the event where the interactor type has been initialised.
onInteractorTypeUpdate(Protein, CvTerm) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceEnricher: Listen to the event where the interactor type has been initialised.
onInteractorTypeUpdate(Protein, CvTerm) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceUpdater: Listen to the event where the interactor type has been initialised.
onInteractorTypeUpdate(Protein, CvTerm) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureUpdater: Listen to the event where the interactor type has been initialised.
onInteractorTypeUpdate(Protein, CvTerm) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: Listen to the event where the interactor type has been initialised.
onInteractorTypeUpdate(Protein, CvTerm) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEvidenceUpdater: Listen to the event where the interactor type has been initialised.
onInteractorTypeUpdate(T, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractorEnricherListenerManager: Listen to the event where the interactor type has been initialised.
onInteractorTypeUpdate(T, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractorEnricherStatisticsWriter: Listen to the event where the interactor type has been initialised.
onInteractorTypeUpdate(T, CvTerm) - Method in class psidev.psi.mi.jami.listener.impl.InteractorChangeLogger: Listen to the event where the interactor type has been initialised.
onInteractorTypeUpdate(T, CvTerm) - Method in interface psidev.psi.mi.jami.listener.InteractorChangeListener: Listen to the event where the interactor type has been initialised.
onInteractorUpdate(Entity, Interactor) - Method in class psidev.psi.mi.jami.enricher.listener.impl.EntityEnricherListenerManager: onInteractorUpdate
onInteractorUpdate(Entity, Interactor) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.EntityEnricherStatisticsWriter: onInteractorUpdate
onInteractorUpdate(Entity, Interactor) - Method in interface psidev.psi.mi.jami.listener.EntityInteractorChangeListener: onInteractorUpdate
onInteractorUpdate(Entity, Interactor) - Method in class psidev.psi.mi.jami.listener.impl.EntityChangeLogger: onInteractorUpdate
onInteractorUpdate(Entity, Interactor) - Method in class psidev.psi.mi.jami.listener.impl.ParticipantChangeLogger: onInteractorUpdate
onInteractorUpdate(Entity, Interactor) - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipantPool: onInteractorUpdate
onInteractorUpdate(Entity, Interactor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: onInteractorUpdate
onInteractorUpdate(Entity, Interactor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: onInteractorUpdate
onInteractorUpdate(Entity, Interactor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: onInteractorUpdate
onInterproUpdate(F, String) - Method in interface psidev.psi.mi.jami.listener.FeatureChangeListener: onInterproUpdate
onInterproUpdate(T, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.FeatureEnricherListenerManager: onInterproUpdate
onInterproUpdate(T, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.FeatureEnricherStatisticsWriter: onInterproUpdate
onInterproUpdate(T, String) - Method in class psidev.psi.mi.jami.listener.impl.FeatureChangeLogger: onInterproUpdate
onInvalidOrganismTaxid(String, FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Listen to an event fired when an organism does not have a valid taxid (positive integer or -1, -2, -3, -4, -5)
onInvalidOrganismTaxid(String, FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Listen to an event fired when an organism does not have a valid taxid (positive integer or -1, -2, -3, -4, -5)
onInvalidOrganismTaxid(String, FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: Listen to an event fired when an organism does not have a valid taxid (positive integer or -1, -2, -3, -4, -5)
onInvalidOrganismTaxid(String, FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: Listen to an event fired when an organism does not have a valid taxid (positive integer or -1, -2, -3, -4, -5)
onInvalidOrganismTaxid(String, FileSourceContext) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserCompositeListener: Listen to an event fired when an organism does not have a valid taxid (positive integer or -1, -2, -3, -4, -5)
onInvalidOrganismTaxid(String, FileSourceContext) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserLogger: Listen to an event fired when an organism does not have a valid taxid (positive integer or -1, -2, -3, -4, -5)
onInvalidOrganismTaxid(String, FileSourceContext) - Method in interface psidev.psi.mi.jami.listener.MIFileParserListener: Listen to an event fired when an organism does not have a valid taxid (positive integer or -1, -2, -3, -4, -5)
onInvalidOrganismTaxid(String, FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: Listen to an event fired when an organism does not have a valid taxid (positive integer or -1, -2, -3, -4, -5)
onInvalidOrganismTaxid(String, FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Listen to an event fired when an organism does not have a valid taxid (positive integer or -1, -2, -3, -4, -5)
onInvalidOrganismTaxid(String, FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: Listen to an event fired when an organism does not have a valid taxid (positive integer or -1, -2, -3, -4, -5)
onInvalidOrganismTaxid(String, FileSourceContext) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Listen to an event fired when an organism does not have a valid taxid (positive integer or -1, -2, -3, -4, -5)
onInvalidOrganismTaxid(String, FileSourceContext) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: Listen to an event fired when an organism does not have a valid taxid (positive integer or -1, -2, -3, -4, -5)
onInvalidPosition(String, FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Listen to an event fired when a position is not valid
onInvalidPosition(String, FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Listen to an event fired when a position is not valid
onInvalidPosition(String, FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: Listen to an event fired when a position is not valid
onInvalidPosition(String, FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: Listen to an event fired when a position is not valid
onInvalidPosition(String, FileSourceContext) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserCompositeListener: Listen to an event fired when a position is not valid
onInvalidPosition(String, FileSourceContext) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserLogger: Listen to an event fired when a position is not valid
onInvalidPosition(String, FileSourceContext) - Method in interface psidev.psi.mi.jami.listener.MIFileParserListener: Listen to an event fired when a position is not valid
onInvalidPosition(String, FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: Listen to an event fired when a position is not valid
onInvalidPosition(String, FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Listen to an event fired when a position is not valid
onInvalidPosition(String, FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: Listen to an event fired when a position is not valid
onInvalidPosition(String, FileSourceContext) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Listen to an event fired when a position is not valid
onInvalidPosition(String, FileSourceContext) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: Listen to an event fired when a position is not valid
onInvalidProteinIdentifierSyntax(String[], int, int) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Event fired when we don't find protein xrefs with db|uniprotId|name
onInvalidProteinIdentifierSyntax(String[], int, int) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Event fired when we don't find protein xrefs with db|uniprotId|name
onInvalidProteinIdentifierSyntax(String[], int, int) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: Event fired when we don't find protein xrefs with db|uniprotId|name
onInvalidProteinIdentifierSyntax(String[], int, int) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: Event fired when we don't find protein xrefs with db|uniprotId|name
onInvalidProteinIdentifierSyntax(String[], int, int) - Method in interface psidev.psi.mi.jami.crosslink.listener.CsvParserListener: Event fired when we don't find protein xrefs with db|uniprotId|name
onInvalidProteinIdentifierSyntax(String[], int, int) - Method in class psidev.psi.mi.jami.crosslink.listener.CsvParserLogger: Event fired when we don't find protein xrefs with db|uniprotId|name
onInvalidRange(F, Range, Collection<String>) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: onInvalidRange.
onInvalidRange(F, Range, Collection<String>) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureUpdater: onInvalidRange.
onInvalidRange(String, FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Listen to an event fired when a range is not valid
onInvalidRange(String, FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Listen to an event fired when a range is not valid
onInvalidRange(String, FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: Listen to an event fired when a range is not valid
onInvalidRange(String, FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: Listen to an event fired when a range is not valid
onInvalidRange(String, FileSourceContext) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserCompositeListener: Listen to an event fired when a range is not valid
onInvalidRange(String, FileSourceContext) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserLogger: Listen to an event fired when a range is not valid
onInvalidRange(String, FileSourceContext) - Method in interface psidev.psi.mi.jami.listener.MIFileParserListener: Listen to an event fired when a range is not valid
onInvalidRange(String, FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: Listen to an event fired when a range is not valid
onInvalidRange(String, FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Listen to an event fired when a range is not valid
onInvalidRange(String, FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: Listen to an event fired when a range is not valid
onInvalidRange(String, FileSourceContext) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Listen to an event fired when a range is not valid
onInvalidRange(String, FileSourceContext) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: Listen to an event fired when a range is not valid
onInvalidRange(FeatureEvidence, Range, Collection<String>) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEvidenceUpdater: onInvalidRange.
onInvalidStoichiometry(String, FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Listen to an event fired when a stoichiometry is not valid
onInvalidStoichiometry(String, FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Listen to an event fired when a stoichiometry is not valid
onInvalidStoichiometry(String, FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: Listen to an event fired when a stoichiometry is not valid
onInvalidStoichiometry(String, FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: Listen to an event fired when a stoichiometry is not valid
onInvalidStoichiometry(String, FileSourceContext) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserCompositeListener: Listen to an event fired when a stoichiometry is not valid
onInvalidStoichiometry(String, FileSourceContext) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserLogger: Listen to an event fired when a stoichiometry is not valid
onInvalidStoichiometry(String, FileSourceContext) - Method in interface psidev.psi.mi.jami.listener.MIFileParserListener: Listen to an event fired when a stoichiometry is not valid
onInvalidStoichiometry(String, FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: Listen to an event fired when a stoichiometry is not valid
onInvalidStoichiometry(String, FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Listen to an event fired when a stoichiometry is not valid
onInvalidStoichiometry(String, FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: Listen to an event fired when a stoichiometry is not valid
onInvalidStoichiometry(String, FileSourceContext) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Listen to an event fired when a stoichiometry is not valid
onInvalidStoichiometry(String, FileSourceContext) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: Listen to an event fired when a stoichiometry is not valid
onInvalidSyntax(FileSourceContext, Exception) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Listen to an invalid syntax causing an Exception
onInvalidSyntax(FileSourceContext, Exception) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Listen to an invalid syntax causing an Exception
onInvalidSyntax(FileSourceContext, Exception) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: Listen to an invalid syntax causing an Exception
onInvalidSyntax(FileSourceContext, Exception) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: Listen to an invalid syntax causing an Exception
onInvalidSyntax(FileSourceContext, Exception) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserCompositeListener: Listen to an invalid syntax causing an Exception
onInvalidSyntax(FileSourceContext, Exception) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserLogger: Listen to an invalid syntax causing an Exception
onInvalidSyntax(FileSourceContext, Exception) - Method in interface psidev.psi.mi.jami.listener.MIFileParserListener: Listen to an invalid syntax causing an Exception
onInvalidSyntax(FileSourceContext, Exception) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: Listen to an invalid syntax causing an Exception
onInvalidSyntax(FileSourceContext, Exception) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Listen to an invalid syntax causing an Exception
onInvalidSyntax(FileSourceContext, Exception) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: Listen to an invalid syntax causing an Exception
onInvalidSyntax(FileSourceContext, Exception) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Listen to an invalid syntax causing an Exception
onInvalidSyntax(FileSourceContext, Exception) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: Listen to an invalid syntax causing an Exception
onJournalUpdated(Publication, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.PublicationEnricherListenerManager: onJournalUpdated
onJournalUpdated(Publication, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.PublicationEnricherStatisticsWriter: onJournalUpdated
onJournalUpdated(Publication, String) - Method in class psidev.psi.mi.jami.listener.impl.PublicationChangeLogger: onJournalUpdated
onJournalUpdated(Publication, String) - Method in interface psidev.psi.mi.jami.listener.PublicationChangeListener: onJournalUpdated
ONLY_STOICHIOMETRY_DIFFERENT - psidev.psi.mi.jami.listener.comparator.event.ComplexComparisonEvent.EventType
onMIIdentifierUpdate(CvTerm, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.CvTermEnricherListenerManager: Listen to the event where the MI identifier of a cv term has been changed.
onMIIdentifierUpdate(CvTerm, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.CvTermEnricherStatisticsWriter: Listen to the event where the MI identifier of a cv term has been changed.
onMIIdentifierUpdate(CvTerm, String) - Method in interface psidev.psi.mi.jami.listener.CvTermChangeListener: Listen to the event where the MI identifier of a cv term has been changed.
onMIIdentifierUpdate(CvTerm, String) - Method in class psidev.psi.mi.jami.listener.impl.CvTermChangeLogger: Listen to the event where the MI identifier of a cv term has been changed.
onMismatchBetweenPeptideAndLinkedPositions(List<CsvRange>, List<CsvRange>) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Event fired when the number of peptide positions is greater than one and is not the same as the number of linked positions
onMismatchBetweenPeptideAndLinkedPositions(List<CsvRange>, List<CsvRange>) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Event fired when the number of peptide positions is greater than one and is not the same as the number of linked positions
onMismatchBetweenPeptideAndLinkedPositions(List<CsvRange>, List<CsvRange>) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: Event fired when the number of peptide positions is greater than one and is not the same as the number of linked positions
onMismatchBetweenPeptideAndLinkedPositions(List<CsvRange>, List<CsvRange>) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: Event fired when the number of peptide positions is greater than one and is not the same as the number of linked positions
onMismatchBetweenPeptideAndLinkedPositions(List<CsvRange>, List<CsvRange>) - Method in interface psidev.psi.mi.jami.crosslink.listener.CsvParserListener: Event fired when the number of peptide positions is greater than one and is not the same as the number of linked positions
onMismatchBetweenPeptideAndLinkedPositions(List<CsvRange>, List<CsvRange>) - Method in class psidev.psi.mi.jami.crosslink.listener.CsvParserLogger: Event fired when the number of peptide positions is greater than one and is not the same as the number of linked positions
onMismatchBetweenRangePositionsAndProteins(List<CsvRange>, List<CsvProtein>) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Event fired when the number of range positions is superior to 1 and the number of proteins is also superior to 1 but does not match the number of ranges
onMismatchBetweenRangePositionsAndProteins(List<CsvRange>, List<CsvProtein>) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Event fired when the number of range positions is superior to 1 and the number of proteins is also superior to 1 but does not match the number of ranges
onMismatchBetweenRangePositionsAndProteins(List<CsvRange>, List<CsvProtein>) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: Event fired when the number of range positions is superior to 1 and the number of proteins is also superior to 1 but does not match the number of ranges
onMismatchBetweenRangePositionsAndProteins(List<CsvRange>, List<CsvProtein>) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: Event fired when the number of range positions is superior to 1 and the number of proteins is also superior to 1 but does not match the number of ranges
onMismatchBetweenRangePositionsAndProteins(List<CsvRange>, List<CsvProtein>) - Method in interface psidev.psi.mi.jami.crosslink.listener.CsvParserListener: Event fired when the number of range positions is superior to 1 and the number of proteins is also superior to 1 but does not match the number of ranges
onMismatchBetweenRangePositionsAndProteins(List<CsvRange>, List<CsvProtein>) - Method in class psidev.psi.mi.jami.crosslink.listener.CsvParserLogger: Event fired when the number of range positions is superior to 1 and the number of proteins is also superior to 1 but does not match the number of ranges
onMissingChecksumMethod(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Listen to an event fired when a checksum does not have a method
onMissingChecksumMethod(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Listen to an event fired when a checksum does not have a method
onMissingChecksumMethod(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: Listen to an event fired when a checksum does not have a method
onMissingChecksumMethod(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: Listen to an event fired when a checksum does not have a method
onMissingChecksumMethod(FileSourceContext) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserCompositeListener: Listen to an event fired when a checksum does not have a method
onMissingChecksumMethod(FileSourceContext) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserLogger: Listen to an event fired when a checksum does not have a method
onMissingChecksumMethod(FileSourceContext) - Method in interface psidev.psi.mi.jami.listener.MIFileParserListener: Listen to an event fired when a checksum does not have a method
onMissingChecksumMethod(FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: Listen to an event fired when a checksum does not have a method
onMissingChecksumMethod(FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Listen to an event fired when a checksum does not have a method
onMissingChecksumMethod(FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: Listen to an event fired when a checksum does not have a method
onMissingChecksumMethod(FileSourceContext) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Listen to an event fired when a checksum does not have a method
onMissingChecksumMethod(FileSourceContext) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: Listen to an event fired when a checksum does not have a method
onMissingChecksumValue(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Listen to an event fired when a checksum does not have a value
onMissingChecksumValue(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Listen to an event fired when a checksum does not have a value
onMissingChecksumValue(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: Listen to an event fired when a checksum does not have a value
onMissingChecksumValue(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: Listen to an event fired when a checksum does not have a value
onMissingChecksumValue(FileSourceContext) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserCompositeListener: Listen to an event fired when a checksum does not have a value
onMissingChecksumValue(FileSourceContext) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserLogger: Listen to an event fired when a checksum does not have a value
onMissingChecksumValue(FileSourceContext) - Method in interface psidev.psi.mi.jami.listener.MIFileParserListener: Listen to an event fired when a checksum does not have a value
onMissingChecksumValue(FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: Listen to an event fired when a checksum does not have a value
onMissingChecksumValue(FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Listen to an event fired when a checksum does not have a value
onMissingChecksumValue(FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: Listen to an event fired when a checksum does not have a value
onMissingChecksumValue(FileSourceContext) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Listen to an event fired when a checksum does not have a value
onMissingChecksumValue(FileSourceContext) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: Listen to an event fired when a checksum does not have a value
onMissingConfidenceType(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Listen to an event fired when a confidence does not have a confidence type
onMissingConfidenceType(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Listen to an event fired when a confidence does not have a confidence type
onMissingConfidenceType(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: Listen to an event fired when a confidence does not have a confidence type
onMissingConfidenceType(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: Listen to an event fired when a confidence does not have a confidence type
onMissingConfidenceType(FileSourceContext) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserCompositeListener: Listen to an event fired when a confidence does not have a confidence type
onMissingConfidenceType(FileSourceContext) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserLogger: Listen to an event fired when a confidence does not have a confidence type
onMissingConfidenceType(FileSourceContext) - Method in interface psidev.psi.mi.jami.listener.MIFileParserListener: Listen to an event fired when a confidence does not have a confidence type
onMissingConfidenceType(FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: Listen to an event fired when a confidence does not have a confidence type
onMissingConfidenceType(FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Listen to an event fired when a confidence does not have a confidence type
onMissingConfidenceType(FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: Listen to an event fired when a confidence does not have a confidence type
onMissingConfidenceType(FileSourceContext) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Listen to an event fired when a confidence does not have a confidence type
onMissingConfidenceType(FileSourceContext) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: Listen to an event fired when a confidence does not have a confidence type
onMissingConfidenceValue(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Listen to an event fired when a confidence does not have a value
onMissingConfidenceValue(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Listen to an event fired when a confidence does not have a value
onMissingConfidenceValue(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: Listen to an event fired when a confidence does not have a value
onMissingConfidenceValue(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: Listen to an event fired when a confidence does not have a value
onMissingConfidenceValue(FileSourceContext) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserCompositeListener: Listen to an event fired when a confidence does not have a value
onMissingConfidenceValue(FileSourceContext) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserLogger: Listen to an event fired when a confidence does not have a value
onMissingConfidenceValue(FileSourceContext) - Method in interface psidev.psi.mi.jami.listener.MIFileParserListener: Listen to an event fired when a confidence does not have a value
onMissingConfidenceValue(FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: Listen to an event fired when a confidence does not have a value
onMissingConfidenceValue(FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Listen to an event fired when a confidence does not have a value
onMissingConfidenceValue(FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: Listen to an event fired when a confidence does not have a value
onMissingConfidenceValue(FileSourceContext) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Listen to an event fired when a confidence does not have a value
onMissingConfidenceValue(FileSourceContext) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: Listen to an event fired when a confidence does not have a value
onMissingCvTermName(CvTerm, FileSourceContext, String) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Listen to an event fired when a CvTerm is read and does not have any names.
onMissingCvTermName(CvTerm, FileSourceContext, String) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Listen to an event fired when a CvTerm is read and does not have any names.
onMissingCvTermName(CvTerm, FileSourceContext, String) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: Listen to an event fired when a CvTerm is read and does not have any names.
onMissingCvTermName(CvTerm, FileSourceContext, String) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: Listen to an event fired when a CvTerm is read and does not have any names.
onMissingCvTermName(CvTerm, FileSourceContext, String) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserCompositeListener: Listen to an event fired when a CvTerm is read and does not have any names.
onMissingCvTermName(CvTerm, FileSourceContext, String) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserLogger: Listen to an event fired when a CvTerm is read and does not have any names.
onMissingCvTermName(CvTerm, FileSourceContext, String) - Method in interface psidev.psi.mi.jami.listener.MIFileParserListener: Listen to an event fired when a CvTerm is read and does not have any names.
onMissingCvTermName(CvTerm, FileSourceContext, String) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: Listen to an event fired when a CvTerm is read and does not have any names.
onMissingCvTermName(CvTerm, FileSourceContext, String) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Listen to an event fired when a CvTerm is read and does not have any names.
onMissingCvTermName(CvTerm, FileSourceContext, String) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: Listen to an event fired when a CvTerm is read and does not have any names.
onMissingCvTermName(CvTerm, FileSourceContext, String) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Listen to an event fired when a CvTerm is read and does not have any names.
onMissingCvTermName(CvTerm, FileSourceContext, String) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: Listen to an event fired when a CvTerm is read and does not have any names.
onMissingExpansionId(MitabCvTerm) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: onMissingExpansionId.
onMissingExpansionId(MitabCvTerm) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: onMissingExpansionId.
onMissingExpansionId(MitabCvTerm) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: onMissingExpansionId.
onMissingExpansionId(MitabCvTerm) - Method in class psidev.psi.mi.jami.tab.listener.MitabParserCompositeListener: onMissingExpansionId.
onMissingExpansionId(MitabCvTerm) - Method in interface psidev.psi.mi.jami.tab.listener.MitabParserListener: onMissingExpansionId.
onMissingExpansionId(MitabCvTerm) - Method in class psidev.psi.mi.jami.tab.listener.MitabParserLogger: onMissingExpansionId.
onMissingImexId(Publication) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherListenerManager: onMissingImexId.
onMissingImexId(Publication) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherLogger: onMissingImexId.
onMissingImexId(Publication) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherStatisticsWriter: onMissingImexId.
onMissingImexId(Publication) - Method in interface psidev.psi.mi.jami.imex.listener.PublicationImexEnricherListener: onMissingImexId.
onMissingInteractorIdentifierColumns(int, int, int) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: onMissingInteractorIdentifierColumns.
onMissingInteractorIdentifierColumns(int, int, int) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: onMissingInteractorIdentifierColumns.
onMissingInteractorIdentifierColumns(int, int, int) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: onMissingInteractorIdentifierColumns.
onMissingInteractorIdentifierColumns(int, int, int) - Method in class psidev.psi.mi.jami.tab.listener.MitabParserCompositeListener: onMissingInteractorIdentifierColumns.
onMissingInteractorIdentifierColumns(int, int, int) - Method in interface psidev.psi.mi.jami.tab.listener.MitabParserListener: onMissingInteractorIdentifierColumns.
onMissingInteractorIdentifierColumns(int, int, int) - Method in class psidev.psi.mi.jami.tab.listener.MitabParserLogger: onMissingInteractorIdentifierColumns.
onMissingInteractorName(Interactor, FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Listen to an event fired when an interactor is read and does not have any names.
onMissingInteractorName(Interactor, FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Listen to an event fired when an interactor is read and does not have any names.
onMissingInteractorName(Interactor, FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: Listen to an event fired when an interactor is read and does not have any names.
onMissingInteractorName(Interactor, FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: Listen to an event fired when an interactor is read and does not have any names.
onMissingInteractorName(Interactor, FileSourceContext) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserCompositeListener: Listen to an event fired when an interactor is read and does not have any names.
onMissingInteractorName(Interactor, FileSourceContext) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserLogger: Listen to an event fired when an interactor is read and does not have any names.
onMissingInteractorName(Interactor, FileSourceContext) - Method in interface psidev.psi.mi.jami.listener.MIFileParserListener: Listen to an event fired when an interactor is read and does not have any names.
onMissingInteractorName(Interactor, FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: Listen to an event fired when an interactor is read and does not have any names.
onMissingInteractorName(Interactor, FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Listen to an event fired when an interactor is read and does not have any names.
onMissingInteractorName(Interactor, FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: Listen to an event fired when an interactor is read and does not have any names.
onMissingInteractorName(Interactor, FileSourceContext) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Listen to an event fired when an interactor is read and does not have any names.
onMissingInteractorName(Interactor, FileSourceContext) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: Listen to an event fired when an interactor is read and does not have any names.
onMissingParameterType(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Listen to an event fired when a parameter does not have a type
onMissingParameterType(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Listen to an event fired when a parameter does not have a type
onMissingParameterType(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: Listen to an event fired when a parameter does not have a type
onMissingParameterType(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: Listen to an event fired when a parameter does not have a type
onMissingParameterType(FileSourceContext) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserCompositeListener: Listen to an event fired when a parameter does not have a type
onMissingParameterType(FileSourceContext) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserLogger: Listen to an event fired when a parameter does not have a type
onMissingParameterType(FileSourceContext) - Method in interface psidev.psi.mi.jami.listener.MIFileParserListener: Listen to an event fired when a parameter does not have a type
onMissingParameterType(FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: Listen to an event fired when a parameter does not have a type
onMissingParameterType(FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Listen to an event fired when a parameter does not have a type
onMissingParameterType(FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: Listen to an event fired when a parameter does not have a type
onMissingParameterType(FileSourceContext) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Listen to an event fired when a parameter does not have a type
onMissingParameterType(FileSourceContext) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: Listen to an event fired when a parameter does not have a type
onMissingParameterValue(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Listen to an event fired when a parameter does not have a value
onMissingParameterValue(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Listen to an event fired when a parameter does not have a value
onMissingParameterValue(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: Listen to an event fired when a parameter does not have a value
onMissingParameterValue(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: Listen to an event fired when a parameter does not have a value
onMissingParameterValue(FileSourceContext) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserCompositeListener: Listen to an event fired when a parameter does not have a value
onMissingParameterValue(FileSourceContext) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserLogger: Listen to an event fired when a parameter does not have a value
onMissingParameterValue(FileSourceContext) - Method in interface psidev.psi.mi.jami.listener.MIFileParserListener: Listen to an event fired when a parameter does not have a value
onMissingParameterValue(FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: Listen to an event fired when a parameter does not have a value
onMissingParameterValue(FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Listen to an event fired when a parameter does not have a value
onMissingParameterValue(FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: Listen to an event fired when a parameter does not have a value
onMissingParameterValue(FileSourceContext) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Listen to an event fired when a parameter does not have a value
onMissingParameterValue(FileSourceContext) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: Listen to an event fired when a parameter does not have a value
onMissingProtein1Column(int) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Event fired when the column Protein1 is missing or empty
onMissingProtein1Column(int) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Event fired when the column Protein1 is missing or empty
onMissingProtein1Column(int) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: Event fired when the column Protein1 is missing or empty
onMissingProtein1Column(int) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: Event fired when the column Protein1 is missing or empty
onMissingProtein1Column(int) - Method in interface psidev.psi.mi.jami.crosslink.listener.CsvParserListener: Event fired when the column Protein1 is missing or empty
onMissingProtein1Column(int) - Method in class psidev.psi.mi.jami.crosslink.listener.CsvParserLogger: Event fired when the column Protein1 is missing or empty
onMODIdentifierUpdate(CvTerm, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.CvTermEnricherListenerManager: Listen to the event where the MOD identifier of a cv term has been changed.
onMODIdentifierUpdate(CvTerm, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.CvTermEnricherStatisticsWriter: Listen to the event where the MOD identifier of a cv term has been changed.
onMODIdentifierUpdate(CvTerm, String) - Method in interface psidev.psi.mi.jami.listener.CvTermChangeListener: Listen to the event where the MOD identifier of a cv term has been changed.
onMODIdentifierUpdate(CvTerm, String) - Method in class psidev.psi.mi.jami.listener.impl.CvTermChangeLogger: Listen to the event where the MOD identifier of a cv term has been changed.
onNegativePropertyUpdate(InteractionEvidence, boolean) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractionEvidenceEnricherListenerManager: onNegativePropertyUpdate
onNegativePropertyUpdate(InteractionEvidence, boolean) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractionEvidenceEnricherStatisticsWriter: onNegativePropertyUpdate
onNegativePropertyUpdate(InteractionEvidence, boolean) - Method in class psidev.psi.mi.jami.listener.impl.InteractionEvidenceChangeLogger: onNegativePropertyUpdate
onNegativePropertyUpdate(InteractionEvidence, boolean) - Method in interface psidev.psi.mi.jami.listener.InteractionEvidenceChangeListener: onNegativePropertyUpdate
onOrganismUpdate(Complex, Organism) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ComplexEnricherListenerManager: Listen to the event where the organism of a interactor has been initialised.
onOrganismUpdate(Complex, Organism) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ComplexEnricherStatisticsWriter: Listen to the event where the organism of a interactor has been initialised.
onOrganismUpdate(Protein, Organism) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceEnricher: Listen to the event where the organism of a interactor has been initialised.
onOrganismUpdate(Protein, Organism) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceUpdater: Listen to the event where the organism of a interactor has been initialised.
onOrganismUpdate(Protein, Organism) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureUpdater: Listen to the event where the organism of a interactor has been initialised.
onOrganismUpdate(Protein, Organism) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: Listen to the event where the organism of a interactor has been initialised.
onOrganismUpdate(Protein, Organism) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEvidenceUpdater: Listen to the event where the organism of a interactor has been initialised.
onOrganismUpdate(T, Organism) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractorEnricherListenerManager: Listen to the event where the organism of a interactor has been initialised.
onOrganismUpdate(T, Organism) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractorEnricherStatisticsWriter: Listen to the event where the organism of a interactor has been initialised.
onOrganismUpdate(T, Organism) - Method in class psidev.psi.mi.jami.listener.impl.InteractorChangeLogger: Listen to the event where the organism of a interactor has been initialised.
onOrganismUpdate(T, Organism) - Method in interface psidev.psi.mi.jami.listener.InteractorChangeListener: Listen to the event where the organism of a interactor has been initialised.
onOutOfDateRange(F, Range, Collection<String>, String) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: onOutOfDateRange.
onOutOfDateRange(F, Range, Collection<String>, String) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureUpdater: onOutOfDateRange.
onOutOfDateRange(FeatureEvidence, Range, Collection<String>, String) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEvidenceUpdater: onOutOfDateRange.
onPARIdentifierUpdate(CvTerm, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.CvTermEnricherListenerManager: Listen to the event where the PAR identifier of a cv term has been changed.
onPARIdentifierUpdate(CvTerm, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.CvTermEnricherStatisticsWriter: Listen to the event where the PAR identifier of a cv term has been changed.
onPARIdentifierUpdate(CvTerm, String) - Method in interface psidev.psi.mi.jami.listener.CvTermChangeListener: Listen to the event where the PAR identifier of a cv term has been changed.
onPARIdentifierUpdate(CvTerm, String) - Method in class psidev.psi.mi.jami.listener.impl.CvTermChangeLogger: Listen to the event where the PAR identifier of a cv term has been changed.
onParticipantWithoutInteractor(Participant, FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Listen to en event fired when a Participant is read and no interactor details has been provided.
onParticipantWithoutInteractor(Participant, FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Listen to en event fired when a Participant is read and no interactor details has been provided.
onParticipantWithoutInteractor(Participant, FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: Listen to en event fired when a Participant is read and no interactor details has been provided.
onParticipantWithoutInteractor(Participant, FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: Listen to en event fired when a Participant is read and no interactor details has been provided.
onParticipantWithoutInteractor(Participant, FileSourceContext) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserCompositeListener: Listen to en event fired when a Participant is read and no interactor details has been provided.
onParticipantWithoutInteractor(Participant, FileSourceContext) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserLogger: Listen to en event fired when a Participant is read and no interactor details has been provided.
onParticipantWithoutInteractor(Participant, FileSourceContext) - Method in interface psidev.psi.mi.jami.listener.MIFileParserListener: Listen to en event fired when a Participant is read and no interactor details has been provided.
onParticipantWithoutInteractor(Participant, FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: Listen to en event fired when a Participant is read and no interactor details has been provided.
onParticipantWithoutInteractor(Participant, FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Listen to en event fired when a Participant is read and no interactor details has been provided.
onParticipantWithoutInteractor(Participant, FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: Listen to en event fired when a Participant is read and no interactor details has been provided.
onParticipantWithoutInteractor(Participant, FileSourceContext) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Listen to en event fired when a Participant is read and no interactor details has been provided.
onParticipantWithoutInteractor(Participant, FileSourceContext) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: Listen to en event fired when a Participant is read and no interactor details has been provided.
onPostalAddressUpdate(Source, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.SourceEnricherListenerManager: Listen to the event where the postal address of a source has been changed.
onPostalAddressUpdate(Source, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.SourceEnricherStatisticsWriter: Listen to the event where the postal address of a source has been changed.
onPostalAddressUpdate(Source, String) - Method in class psidev.psi.mi.jami.listener.impl.SourceChangeLogger: Listen to the event where the postal address of a source has been changed.
onPostalAddressUpdate(Source, String) - Method in interface psidev.psi.mi.jami.listener.SourceChangeListener: Listen to the event where the postal address of a source has been changed.
onPublicationAlreadyRegisteredInImexCentral(Publication, String) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherListenerManager: onPublicationAlreadyRegisteredInImexCentral.
onPublicationAlreadyRegisteredInImexCentral(Publication, String) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherLogger: onPublicationAlreadyRegisteredInImexCentral.
onPublicationAlreadyRegisteredInImexCentral(Publication, String) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherStatisticsWriter: onPublicationAlreadyRegisteredInImexCentral.
onPublicationAlreadyRegisteredInImexCentral(Publication, String) - Method in interface psidev.psi.mi.jami.imex.listener.PublicationImexEnricherListener: onPublicationAlreadyRegisteredInImexCentral.
onPublicationDateUpdated(Publication, Date) - Method in class psidev.psi.mi.jami.enricher.listener.impl.PublicationEnricherListenerManager: onPublicationDateUpdated
onPublicationDateUpdated(Publication, Date) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.PublicationEnricherStatisticsWriter: onPublicationDateUpdated
onPublicationDateUpdated(Publication, Date) - Method in class psidev.psi.mi.jami.listener.impl.PublicationChangeLogger: onPublicationDateUpdated
onPublicationDateUpdated(Publication, Date) - Method in interface psidev.psi.mi.jami.listener.PublicationChangeListener: onPublicationDateUpdated
onPublicationNotEligibleForImex(Publication) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherListenerManager: onPublicationNotEligibleForImex.
onPublicationNotEligibleForImex(Publication) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherLogger: onPublicationNotEligibleForImex.
onPublicationNotEligibleForImex(Publication) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherStatisticsWriter: onPublicationNotEligibleForImex.
onPublicationNotEligibleForImex(Publication) - Method in interface psidev.psi.mi.jami.imex.listener.PublicationImexEnricherListener: onPublicationNotEligibleForImex.
onPublicationRegisteredInImexCentral(Publication) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherListenerManager: onPublicationRegisteredInImexCentral.
onPublicationRegisteredInImexCentral(Publication) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherLogger: onPublicationRegisteredInImexCentral.
onPublicationRegisteredInImexCentral(Publication) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherStatisticsWriter: onPublicationRegisteredInImexCentral.
onPublicationRegisteredInImexCentral(Publication) - Method in interface psidev.psi.mi.jami.imex.listener.PublicationImexEnricherListener: onPublicationRegisteredInImexCentral.
onPublicationUpdate(Experiment, Publication) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ExperimentEnricherListenerManager: onPublicationUpdate
onPublicationUpdate(Experiment, Publication) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ExperimentEnricherStatisticsWriter: onPublicationUpdate
onPublicationUpdate(Experiment, Publication) - Method in interface psidev.psi.mi.jami.listener.ExperimentChangeListener: onPublicationUpdate
onPublicationUpdate(Experiment, Publication) - Method in class psidev.psi.mi.jami.listener.impl.ExperimentChangeLogger: onPublicationUpdate
onPublicationUpdate(Source, Publication) - Method in class psidev.psi.mi.jami.enricher.listener.impl.SourceEnricherListenerManager: Listen to the event where the publication of a source has been changed.
onPublicationUpdate(Source, Publication) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.SourceEnricherStatisticsWriter: Listen to the event where the publication of a source has been changed.
onPublicationUpdate(Source, Publication) - Method in class psidev.psi.mi.jami.listener.impl.SourceChangeLogger: Listen to the event where the publication of a source has been changed.
onPublicationUpdate(Source, Publication) - Method in interface psidev.psi.mi.jami.listener.SourceChangeListener: Listen to the event where the publication of a source has been changed.
onPublicationWhichCannotBeRegistered(Publication) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherListenerManager: onPublicationWhichCannotBeRegistered.
onPublicationWhichCannotBeRegistered(Publication) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherLogger: onPublicationWhichCannotBeRegistered.
onPublicationWhichCannotBeRegistered(Publication) - Method in class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherStatisticsWriter: onPublicationWhichCannotBeRegistered.
onPublicationWhichCannotBeRegistered(Publication) - Method in interface psidev.psi.mi.jami.imex.listener.PublicationImexEnricherListener: onPublicationWhichCannotBeRegistered.
onPubmedIdUpdate(Publication, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.PublicationEnricherListenerManager: onPubmedIdUpdate
onPubmedIdUpdate(Publication, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.PublicationEnricherStatisticsWriter: onPubmedIdUpdate
onPubmedIdUpdate(Publication, String) - Method in class psidev.psi.mi.jami.listener.impl.PublicationChangeLogger: onPubmedIdUpdate
onPubmedIdUpdate(Publication, String) - Method in interface psidev.psi.mi.jami.listener.PublicationChangeListener: onPubmedIdUpdate
onReleaseDateUpdated(Publication, Date) - Method in class psidev.psi.mi.jami.enricher.listener.impl.PublicationEnricherListenerManager: onReleaseDateUpdated
onReleaseDateUpdated(Publication, Date) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.PublicationEnricherStatisticsWriter: onReleaseDateUpdated
onReleaseDateUpdated(Publication, Date) - Method in class psidev.psi.mi.jami.listener.impl.PublicationChangeLogger: onReleaseDateUpdated
onReleaseDateUpdated(Publication, Date) - Method in interface psidev.psi.mi.jami.listener.PublicationChangeListener: onReleaseDateUpdated
onRemovedAlias(P, Alias) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ParticipantEnricherListenerManager: Listen to the event where an alias has been removed from the object aliases.
onRemovedAlias(P, Alias) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ParticipantEnricherStatisticsWriter: Listen to the event where an alias has been removed from the object aliases.
onRemovedAlias(Complex, Alias) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ComplexEnricherListenerManager: Listen to the event where an alias has been removed from the object aliases.
onRemovedAlias(Complex, Alias) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ComplexEnricherStatisticsWriter: Listen to the event where an alias has been removed from the object aliases.
onRemovedAlias(CvTerm, Alias) - Method in class psidev.psi.mi.jami.enricher.listener.impl.CvTermEnricherListenerManager: Listen to the event where an alias has been removed from the object aliases.
onRemovedAlias(CvTerm, Alias) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.CvTermEnricherStatisticsWriter: Listen to the event where an alias has been removed from the object aliases.
onRemovedAlias(CvTerm, Alias) - Method in class psidev.psi.mi.jami.listener.impl.CvTermChangeLogger: Listen to the event where an alias has been removed from the object aliases.
onRemovedAlias(Organism, Alias) - Method in class psidev.psi.mi.jami.enricher.listener.impl.OrganismEnricherListenerManager: Listen to the event where an alias has been removed from the object aliases.
onRemovedAlias(Organism, Alias) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.OrganismEnricherStatisticsWriter: Listen to the event where an alias has been removed from the object aliases.
onRemovedAlias(Organism, Alias) - Method in class psidev.psi.mi.jami.listener.impl.OrganismChangeLogger: Listen to the event where an alias has been removed from the object aliases.
onRemovedAlias(Protein, Alias) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceEnricher: Listen to the event where an alias has been removed from the object aliases.
onRemovedAlias(Protein, Alias) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceUpdater: Listen to the event where an alias has been removed from the object aliases.
onRemovedAlias(Protein, Alias) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureUpdater: Listen to the event where an alias has been removed from the object aliases.
onRemovedAlias(Protein, Alias) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: Listen to the event where an alias has been removed from the object aliases.
onRemovedAlias(Protein, Alias) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEvidenceUpdater: Listen to the event where an alias has been removed from the object aliases.
onRemovedAlias(T, Alias) - Method in class psidev.psi.mi.jami.enricher.listener.impl.FeatureEnricherListenerManager: Listen to the event where an alias has been removed from the object aliases.
onRemovedAlias(T, Alias) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractorEnricherListenerManager: Listen to the event where an alias has been removed from the object aliases.
onRemovedAlias(T, Alias) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.FeatureEnricherStatisticsWriter: Listen to the event where an alias has been removed from the object aliases.
onRemovedAlias(T, Alias) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractorEnricherStatisticsWriter: Listen to the event where an alias has been removed from the object aliases.
onRemovedAlias(T, Alias) - Method in interface psidev.psi.mi.jami.listener.AliasesChangeListener: Listen to the event where an alias has been removed from the object aliases.
onRemovedAlias(T, Alias) - Method in class psidev.psi.mi.jami.listener.impl.FeatureChangeLogger: Listen to the event where an alias has been removed from the object aliases.
onRemovedAlias(T, Alias) - Method in class psidev.psi.mi.jami.listener.impl.InteractorChangeLogger: Listen to the event where an alias has been removed from the object aliases.
onRemovedAlias(T, Alias) - Method in class psidev.psi.mi.jami.listener.impl.ParticipantChangeLogger: Listen to the event where an alias has been removed from the object aliases.
onRemovedAnnotation(I, Annotation) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractionEnricherListenerManager: Listen to the event where an annotation has been removed from the object annotations.
onRemovedAnnotation(I, Annotation) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractionEnricherStatisticsWriter: Listen to the event where an annotation has been removed from the object annotations.
onRemovedAnnotation(P, Annotation) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ParticipantEnricherListenerManager: Listen to the event where an annotation has been removed from the object annotations.
onRemovedAnnotation(P, Annotation) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ParticipantEnricherStatisticsWriter: Listen to the event where an annotation has been removed from the object annotations.
onRemovedAnnotation(CvTerm, Annotation) - Method in class psidev.psi.mi.jami.enricher.listener.impl.CvTermEnricherListenerManager: Listen to the event where an annotation has been removed from the object annotations.
onRemovedAnnotation(CvTerm, Annotation) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.CvTermEnricherStatisticsWriter: Listen to the event where an annotation has been removed from the object annotations.
onRemovedAnnotation(CvTerm, Annotation) - Method in class psidev.psi.mi.jami.listener.impl.CvTermChangeLogger: Listen to the event where an annotation has been removed from the object annotations.
onRemovedAnnotation(Experiment, Annotation) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ExperimentEnricherListenerManager: Listen to the event where an annotation has been removed from the object annotations.
onRemovedAnnotation(Experiment, Annotation) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ExperimentEnricherStatisticsWriter: Listen to the event where an annotation has been removed from the object annotations.
onRemovedAnnotation(Experiment, Annotation) - Method in class psidev.psi.mi.jami.listener.impl.ExperimentChangeLogger: Listen to the event where an annotation has been removed from the object annotations.
onRemovedAnnotation(Protein, Annotation) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceEnricher: Listen to the event where an annotation has been removed from the object annotations.
onRemovedAnnotation(Protein, Annotation) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceUpdater: Listen to the event where an annotation has been removed from the object annotations.
onRemovedAnnotation(Protein, Annotation) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureUpdater: Listen to the event where an annotation has been removed from the object annotations.
onRemovedAnnotation(Protein, Annotation) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: Listen to the event where an annotation has been removed from the object annotations.
onRemovedAnnotation(Protein, Annotation) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEvidenceUpdater: Listen to the event where an annotation has been removed from the object annotations.
onRemovedAnnotation(Publication, Annotation) - Method in class psidev.psi.mi.jami.enricher.listener.impl.PublicationEnricherListenerManager: Listen to the event where an annotation has been removed from the object annotations.
onRemovedAnnotation(Publication, Annotation) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.PublicationEnricherStatisticsWriter: Listen to the event where an annotation has been removed from the object annotations.
onRemovedAnnotation(Publication, Annotation) - Method in class psidev.psi.mi.jami.listener.impl.PublicationChangeLogger: Listen to the event where an annotation has been removed from the object annotations.
onRemovedAnnotation(T, Annotation) - Method in class psidev.psi.mi.jami.enricher.listener.impl.FeatureEnricherListenerManager: Listen to the event where an annotation has been removed from the object annotations.
onRemovedAnnotation(T, Annotation) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractorEnricherListenerManager: Listen to the event where an annotation has been removed from the object annotations.
onRemovedAnnotation(T, Annotation) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.FeatureEnricherStatisticsWriter: Listen to the event where an annotation has been removed from the object annotations.
onRemovedAnnotation(T, Annotation) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractorEnricherStatisticsWriter: Listen to the event where an annotation has been removed from the object annotations.
onRemovedAnnotation(T, Annotation) - Method in interface psidev.psi.mi.jami.listener.AnnotationsChangeListener: Listen to the event where an annotation has been removed from the object annotations.
onRemovedAnnotation(T, Annotation) - Method in class psidev.psi.mi.jami.listener.impl.FeatureChangeLogger: Listen to the event where an annotation has been removed from the object annotations.
onRemovedAnnotation(T, Annotation) - Method in class psidev.psi.mi.jami.listener.impl.InteractionChangeLogger: Listen to the event where an annotation has been removed from the object annotations.
onRemovedAnnotation(T, Annotation) - Method in class psidev.psi.mi.jami.listener.impl.InteractorChangeLogger: Listen to the event where an annotation has been removed from the object annotations.
onRemovedAnnotation(T, Annotation) - Method in class psidev.psi.mi.jami.listener.impl.ParticipantChangeLogger: Listen to the event where an annotation has been removed from the object annotations.
onRemovedCandidate(F, ParticipantCandidate) - Method in interface psidev.psi.mi.jami.listener.ParticipantPoolChangeListener: onRemovedCandidate
onRemovedCandidate(P, ParticipantCandidate) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ParticipantPoolEnricherListenerManager: onRemovedCandidate
onRemovedCandidate(P, ParticipantCandidate) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ParticipantPoolEnricherStatisticsWriter: onRemovedCandidate
onRemovedCandidate(ExperimentalParticipantPool, ParticipantCandidate) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ExperimentalParticipantPoolEnricherListenerManager: onRemovedCandidate
onRemovedCandidate(ExperimentalParticipantPool, ParticipantCandidate) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.ExperimentalParticipantPoolEnricherLogger: onRemovedCandidate
onRemovedCandidate(ExperimentalParticipantPool, ParticipantCandidate) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ExperimentalParticipantPoolEnricherStatisticsWriter: onRemovedCandidate
onRemovedCandidate(ExperimentalParticipantPool, ParticipantCandidate) - Method in class psidev.psi.mi.jami.listener.impl.ExperimentalParticipantPoolChangeLogger: onRemovedCandidate
onRemovedCandidate(T, ParticipantCandidate) - Method in class psidev.psi.mi.jami.listener.impl.ParticipantPoolChangeLogger: onRemovedCandidate
onRemovedCausalRelationship(F, CausalRelationship) - Method in interface psidev.psi.mi.jami.listener.EntityChangeListener: onRemovedCausalRelationship
onRemovedCausalRelationship(P, CausalRelationship) - Method in class psidev.psi.mi.jami.enricher.listener.impl.EntityEnricherListenerManager: onRemovedCausalRelationship
onRemovedCausalRelationship(P, CausalRelationship) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.EntityEnricherStatisticsWriter: onRemovedCausalRelationship
onRemovedCausalRelationship(T, CausalRelationship) - Method in class psidev.psi.mi.jami.listener.impl.EntityChangeLogger: onRemovedCausalRelationship
onRemovedCausalRelationship(T, CausalRelationship) - Method in class psidev.psi.mi.jami.listener.impl.ParticipantChangeLogger: onRemovedCausalRelationship
onRemovedChecksum(I, Checksum) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractionEnricherListenerManager: Listen to the event where a checksum has been removed from the interactor checksums.
onRemovedChecksum(I, Checksum) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractionEnricherStatisticsWriter: Listen to the event where a checksum has been removed from the interactor checksums.
onRemovedChecksum(Protein, Checksum) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceEnricher: Listen to the event where a checksum has been removed from the interactor checksums.
onRemovedChecksum(Protein, Checksum) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceUpdater: Listen to the event where a checksum has been removed from the interactor checksums.
onRemovedChecksum(Protein, Checksum) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureUpdater: Listen to the event where a checksum has been removed from the interactor checksums.
onRemovedChecksum(Protein, Checksum) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: Listen to the event where a checksum has been removed from the interactor checksums.
onRemovedChecksum(Protein, Checksum) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEvidenceUpdater: Listen to the event where a checksum has been removed from the interactor checksums.
onRemovedChecksum(T, Checksum) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractorEnricherListenerManager: Listen to the event where a checksum has been removed from the interactor checksums.
onRemovedChecksum(T, Checksum) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractorEnricherStatisticsWriter: Listen to the event where a checksum has been removed from the interactor checksums.
onRemovedChecksum(T, Checksum) - Method in interface psidev.psi.mi.jami.listener.ChecksumsChangeListener: Listen to the event where a checksum has been removed from the interactor checksums.
onRemovedChecksum(T, Checksum) - Method in class psidev.psi.mi.jami.listener.impl.InteractionChangeLogger: Listen to the event where a checksum has been removed from the interactor checksums.
onRemovedChecksum(T, Checksum) - Method in class psidev.psi.mi.jami.listener.impl.InteractorChangeLogger: Listen to the event where a checksum has been removed from the interactor checksums.
onRemovedChild(OntologyTerm, OntologyTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.OntologyTermEnricherListenerManager: Listen to the event where a child has been removed from the object children.
onRemovedChild(OntologyTerm, OntologyTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.OntologyTermEnricherStatisticsWriter: Listen to the event where a child has been removed from the object children.
onRemovedChild(OntologyTerm, OntologyTerm) - Method in class psidev.psi.mi.jami.listener.impl.OntologyTermChangeLogger: Listen to the event where a child has been removed from the object children.
onRemovedChild(OntologyTerm, OntologyTerm) - Method in interface psidev.psi.mi.jami.listener.OntologyTermChangeListener: Listen to the event where a child has been removed from the object children.
onRemovedConfidence(I, Confidence) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ModelledInteractionEnricherListenerManager: Listen to the event where a confidence has been removed from the object confidences.
onRemovedConfidence(I, Confidence) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ModelledInteractionEnricherStatisticsWriter: Listen to the event where a confidence has been removed from the object confidences.
onRemovedConfidence(I, Confidence) - Method in class psidev.psi.mi.jami.listener.impl.ModelledInteractionChangeLogger: Listen to the event where a confidence has been removed from the object confidences.
onRemovedConfidence(P, Confidence) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ParticipantEvidenceEnricherListenerManager: Listen to the event where a confidence has been removed from the object confidences.
onRemovedConfidence(P, Confidence) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ParticipantEvidenceEnricherStatisticsWriter: Listen to the event where a confidence has been removed from the object confidences.
onRemovedConfidence(Complex, Confidence) - Method in class psidev.psi.mi.jami.listener.impl.ComplexChangeLogger: Listen to the event where a confidence has been removed from the object confidences.
onRemovedConfidence(Experiment, Confidence) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ExperimentEnricherListenerManager: Listen to the event where a confidence has been removed from the object confidences.
onRemovedConfidence(Experiment, Confidence) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ExperimentEnricherStatisticsWriter: Listen to the event where a confidence has been removed from the object confidences.
onRemovedConfidence(Experiment, Confidence) - Method in class psidev.psi.mi.jami.listener.impl.ExperimentChangeLogger: Listen to the event where a confidence has been removed from the object confidences.
onRemovedConfidence(InteractionEvidence, Confidence) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractionEvidenceEnricherListenerManager: Listen to the event where a confidence has been removed from the object confidences.
onRemovedConfidence(InteractionEvidence, Confidence) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractionEvidenceEnricherStatisticsWriter: Listen to the event where a confidence has been removed from the object confidences.
onRemovedConfidence(InteractionEvidence, Confidence) - Method in class psidev.psi.mi.jami.listener.impl.InteractionEvidenceChangeLogger: Listen to the event where a confidence has been removed from the object confidences.
onRemovedConfidence(T, Confidence) - Method in interface psidev.psi.mi.jami.listener.ConfidencesChangeListener: Listen to the event where a confidence has been removed from the object confidences.
onRemovedConfidence(T, Confidence) - Method in class psidev.psi.mi.jami.listener.impl.ParticipantEvidenceChangeLogger: Listen to the event where a confidence has been removed from the object confidences.
onRemovedCooperativeEffect(I, CooperativeEffect) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ModelledInteractionEnricherListenerManager: onRemovedCooperativeEffect
onRemovedCooperativeEffect(I, CooperativeEffect) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ModelledInteractionEnricherStatisticsWriter: onRemovedCooperativeEffect
onRemovedCooperativeEffect(I, CooperativeEffect) - Method in class psidev.psi.mi.jami.listener.impl.ModelledInteractionChangeLogger: onRemovedCooperativeEffect
onRemovedCooperativeEffect(I, CooperativeEffect) - Method in interface psidev.psi.mi.jami.listener.ModelledInteractionChangeListener: onRemovedCooperativeEffect
onRemovedCooperativeEffect(Complex, CooperativeEffect) - Method in class psidev.psi.mi.jami.listener.impl.ComplexChangeLogger: onRemovedCooperativeEffect
onRemovedDetectionMethod(FeatureEvidence, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.FeatureEvidenceEnricherListenerManager: onRemovedDetectionMethod
onRemovedDetectionMethod(FeatureEvidence, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.FeatureEvidenceEnricherStatisticsWriter: onRemovedDetectionMethod
onRemovedDetectionMethod(FeatureEvidence, CvTerm) - Method in interface psidev.psi.mi.jami.listener.FeatureEvidenceChangeListener: onRemovedDetectionMethod
onRemovedDetectionMethod(FeatureEvidence, CvTerm) - Method in class psidev.psi.mi.jami.listener.impl.FeatureEvidenceChangeLogger: onRemovedDetectionMethod
onRemovedExperimentalPreparation(F, CvTerm) - Method in interface psidev.psi.mi.jami.listener.ParticipantEvidenceChangeListener: onRemovedExperimentalPreparation
onRemovedExperimentalPreparation(P, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ParticipantEvidenceEnricherListenerManager: onRemovedExperimentalPreparation
onRemovedExperimentalPreparation(P, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ParticipantEvidenceEnricherStatisticsWriter: onRemovedExperimentalPreparation
onRemovedExperimentalPreparation(T, CvTerm) - Method in class psidev.psi.mi.jami.listener.impl.ParticipantEvidenceChangeLogger: onRemovedExperimentalPreparation
onRemovedFeature(F, Feature) - Method in interface psidev.psi.mi.jami.listener.EntityChangeListener: onRemovedFeature
onRemovedFeature(P, Feature) - Method in class psidev.psi.mi.jami.enricher.listener.impl.EntityEnricherListenerManager: onRemovedFeature
onRemovedFeature(P, Feature) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.EntityEnricherStatisticsWriter: onRemovedFeature
onRemovedFeature(T, Feature) - Method in class psidev.psi.mi.jami.listener.impl.EntityChangeLogger: onRemovedFeature
onRemovedFeature(T, Feature) - Method in class psidev.psi.mi.jami.listener.impl.ParticipantChangeLogger: onRemovedFeature
onRemovedIdentificationMethod(F, CvTerm) - Method in interface psidev.psi.mi.jami.listener.ParticipantEvidenceChangeListener: onRemovedIdentificationMethod
onRemovedIdentificationMethod(P, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ParticipantEvidenceEnricherListenerManager: onRemovedIdentificationMethod
onRemovedIdentificationMethod(P, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ParticipantEvidenceEnricherStatisticsWriter: onRemovedIdentificationMethod
onRemovedIdentificationMethod(T, CvTerm) - Method in class psidev.psi.mi.jami.listener.impl.ParticipantEvidenceChangeLogger: onRemovedIdentificationMethod
onRemovedIdentifier(I, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractionEnricherListenerManager: Listen to the event where an identifier has been removed from the protein identifiers.
onRemovedIdentifier(I, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractionEnricherStatisticsWriter: Listen to the event where an identifier has been removed from the protein identifiers.
onRemovedIdentifier(CvTerm, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.CvTermEnricherListenerManager: Listen to the event where an identifier has been removed from the protein identifiers.
onRemovedIdentifier(CvTerm, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.CvTermEnricherStatisticsWriter: Listen to the event where an identifier has been removed from the protein identifiers.
onRemovedIdentifier(CvTerm, Xref) - Method in class psidev.psi.mi.jami.listener.impl.CvTermChangeLogger: Listen to the event where an identifier has been removed from the protein identifiers.
onRemovedIdentifier(Protein, Xref) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceEnricher: Listen to the event where an identifier has been removed from the protein identifiers.
onRemovedIdentifier(Protein, Xref) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceUpdater: Listen to the event where an identifier has been removed from the protein identifiers.
onRemovedIdentifier(Protein, Xref) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureUpdater: Listen to the event where an identifier has been removed from the protein identifiers.
onRemovedIdentifier(Protein, Xref) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: Listen to the event where an identifier has been removed from the protein identifiers.
onRemovedIdentifier(Protein, Xref) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEvidenceUpdater: Listen to the event where an identifier has been removed from the protein identifiers.
onRemovedIdentifier(Publication, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.PublicationEnricherListenerManager: Listen to the event where an identifier has been removed from the protein identifiers.
onRemovedIdentifier(Publication, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.PublicationEnricherStatisticsWriter: Listen to the event where an identifier has been removed from the protein identifiers.
onRemovedIdentifier(Publication, Xref) - Method in class psidev.psi.mi.jami.listener.impl.PublicationChangeLogger: Listen to the event where an identifier has been removed from the protein identifiers.
onRemovedIdentifier(T, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.FeatureEnricherListenerManager: Listen to the event where an identifier has been removed from the protein identifiers.
onRemovedIdentifier(T, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractorEnricherListenerManager: Listen to the event where an identifier has been removed from the protein identifiers.
onRemovedIdentifier(T, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.FeatureEnricherStatisticsWriter: Listen to the event where an identifier has been removed from the protein identifiers.
onRemovedIdentifier(T, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractorEnricherStatisticsWriter: Listen to the event where an identifier has been removed from the protein identifiers.
onRemovedIdentifier(T, Xref) - Method in interface psidev.psi.mi.jami.listener.IdentifiersChangeListener: Listen to the event where an identifier has been removed from the protein identifiers.
onRemovedIdentifier(T, Xref) - Method in class psidev.psi.mi.jami.listener.impl.FeatureChangeLogger: Listen to the event where an identifier has been removed from the protein identifiers.
onRemovedIdentifier(T, Xref) - Method in class psidev.psi.mi.jami.listener.impl.InteractionChangeLogger: Listen to the event where an identifier has been removed from the protein identifiers.
onRemovedIdentifier(T, Xref) - Method in class psidev.psi.mi.jami.listener.impl.InteractorChangeLogger: Listen to the event where an identifier has been removed from the protein identifiers.
onRemovedInteractionEvidence(I, InteractionEvidence) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ModelledInteractionEnricherListenerManager: onRemovedInteractionEvidence
onRemovedInteractionEvidence(I, InteractionEvidence) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ModelledInteractionEnricherStatisticsWriter: onRemovedInteractionEvidence
onRemovedInteractionEvidence(I, InteractionEvidence) - Method in class psidev.psi.mi.jami.listener.impl.ModelledInteractionChangeLogger: onRemovedInteractionEvidence
onRemovedInteractionEvidence(I, InteractionEvidence) - Method in interface psidev.psi.mi.jami.listener.ModelledInteractionChangeListener: onRemovedInteractionEvidence
onRemovedInteractionEvidence(Complex, InteractionEvidence) - Method in class psidev.psi.mi.jami.listener.impl.ComplexChangeLogger: onRemovedInteractionEvidence
onRemovedInteractor(InteractorPool, Interactor) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractorPoolEnricherListenerManager: Listen to the event where an interactor has been added to the pool
onRemovedInteractor(InteractorPool, Interactor) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractorPoolEnricherStatisticsWriter: Listen to the event where an interactor has been added to the pool
onRemovedInteractor(InteractorPool, Interactor) - Method in class psidev.psi.mi.jami.listener.impl.InteractorPoolChangeLogger: Listen to the event where an interactor has been added to the pool
onRemovedInteractor(InteractorPool, Interactor) - Method in interface psidev.psi.mi.jami.listener.InteractorPoolChangeListener: Listen to the event where an interactor has been added to the pool
onRemovedLinkedFeature(F, F) - Method in interface psidev.psi.mi.jami.listener.FeatureChangeListener: onRemovedLinkedFeature
onRemovedLinkedFeature(T, T) - Method in class psidev.psi.mi.jami.enricher.listener.impl.FeatureEnricherListenerManager: onRemovedLinkedFeature.
onRemovedLinkedFeature(T, T) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.FeatureEnricherStatisticsWriter: onRemovedLinkedFeature.
onRemovedLinkedFeature(T, T) - Method in class psidev.psi.mi.jami.listener.impl.FeatureChangeLogger: onRemovedLinkedFeature
onRemovedParameter(I, Parameter) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ModelledInteractionEnricherListenerManager: Listen to the event where a parameter has been removed from the object parameters.
onRemovedParameter(I, Parameter) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ModelledInteractionEnricherStatisticsWriter: Listen to the event where a parameter has been removed from the object parameters.
onRemovedParameter(I, Parameter) - Method in class psidev.psi.mi.jami.listener.impl.ModelledInteractionChangeLogger: Listen to the event where a parameter has been removed from the object parameters.
onRemovedParameter(P, Parameter) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ParticipantEvidenceEnricherListenerManager: Listen to the event where a parameter has been removed from the object parameters.
onRemovedParameter(P, Parameter) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ParticipantEvidenceEnricherStatisticsWriter: Listen to the event where a parameter has been removed from the object parameters.
onRemovedParameter(Complex, Parameter) - Method in class psidev.psi.mi.jami.listener.impl.ComplexChangeLogger: Listen to the event where a parameter has been removed from the object parameters.
onRemovedParameter(FeatureEvidence, Parameter) - Method in class psidev.psi.mi.jami.enricher.listener.impl.FeatureEvidenceEnricherListenerManager: Listen to the event where a parameter has been removed from the object parameters.
onRemovedParameter(FeatureEvidence, Parameter) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.FeatureEvidenceEnricherStatisticsWriter: Listen to the event where a parameter has been removed from the object parameters.
onRemovedParameter(FeatureEvidence, Parameter) - Method in class psidev.psi.mi.jami.listener.impl.FeatureEvidenceChangeLogger: Listen to the event where a parameter has been removed from the object parameters.
onRemovedParameter(InteractionEvidence, Parameter) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractionEvidenceEnricherListenerManager: Listen to the event where a parameter has been removed from the object parameters.
onRemovedParameter(InteractionEvidence, Parameter) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractionEvidenceEnricherStatisticsWriter: Listen to the event where a parameter has been removed from the object parameters.
onRemovedParameter(InteractionEvidence, Parameter) - Method in class psidev.psi.mi.jami.listener.impl.InteractionEvidenceChangeLogger: Listen to the event where a parameter has been removed from the object parameters.
onRemovedParameter(T, Parameter) - Method in class psidev.psi.mi.jami.listener.impl.ParticipantEvidenceChangeLogger: Listen to the event where a parameter has been removed from the object parameters.
onRemovedParameter(T, Parameter) - Method in interface psidev.psi.mi.jami.listener.ParametersChangeListener: Listen to the event where a parameter has been removed from the object parameters.
onRemovedParent(OntologyTerm, OntologyTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.OntologyTermEnricherListenerManager: Listen to the event where a parent has been removed from the object parents.
onRemovedParent(OntologyTerm, OntologyTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.OntologyTermEnricherStatisticsWriter: Listen to the event where a parent has been removed from the object parents.
onRemovedParent(OntologyTerm, OntologyTerm) - Method in class psidev.psi.mi.jami.listener.impl.OntologyTermChangeLogger: Listen to the event where a parent has been removed from the object parents.
onRemovedParent(OntologyTerm, OntologyTerm) - Method in interface psidev.psi.mi.jami.listener.OntologyTermChangeListener: Listen to the event where a parent has been removed from the object parents.
onRemovedParticipant(I, Participant) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractionEnricherListenerManager: onRemovedParticipant
onRemovedParticipant(I, Participant) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractionEnricherStatisticsWriter: onRemovedParticipant
onRemovedParticipant(I, Participant) - Method in interface psidev.psi.mi.jami.listener.InteractionChangeListener: onRemovedParticipant
onRemovedParticipant(Complex, Participant) - Method in class psidev.psi.mi.jami.listener.impl.ComplexChangeLogger: onRemovedParticipant
onRemovedParticipant(T, Participant) - Method in class psidev.psi.mi.jami.listener.impl.InteractionChangeLogger: onRemovedParticipant
onRemovedRange(F, Range) - Method in interface psidev.psi.mi.jami.listener.FeatureChangeListener: onRemovedRange
onRemovedRange(T, Range) - Method in class psidev.psi.mi.jami.enricher.listener.impl.FeatureEnricherListenerManager: onRemovedRange
onRemovedRange(T, Range) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.FeatureEnricherStatisticsWriter: onRemovedRange
onRemovedRange(T, Range) - Method in class psidev.psi.mi.jami.listener.impl.FeatureChangeLogger: onRemovedRange
onRemovedVariableParameter(Experiment, VariableParameter) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ExperimentEnricherListenerManager: Listen to the event where a parameter has been removed from the object parameters.
onRemovedVariableParameter(Experiment, VariableParameter) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ExperimentEnricherStatisticsWriter: Listen to the event where a parameter has been removed from the object parameters.
onRemovedVariableParameter(Experiment, VariableParameter) - Method in interface psidev.psi.mi.jami.listener.ExperimentChangeListener: Listen to the event where a parameter has been removed from the object parameters.
onRemovedVariableParameter(Experiment, VariableParameter) - Method in class psidev.psi.mi.jami.listener.impl.ExperimentChangeLogger: Listen to the event where a parameter has been removed from the object parameters.
onRemovedVariableParameterValues(InteractionEvidence, VariableParameterValueSet) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractionEvidenceEnricherListenerManager: onRemovedVariableParameterValues
onRemovedVariableParameterValues(InteractionEvidence, VariableParameterValueSet) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractionEvidenceEnricherStatisticsWriter: onRemovedVariableParameterValues
onRemovedVariableParameterValues(InteractionEvidence, VariableParameterValueSet) - Method in class psidev.psi.mi.jami.listener.impl.InteractionEvidenceChangeLogger: onRemovedVariableParameterValues
onRemovedVariableParameterValues(InteractionEvidence, VariableParameterValueSet) - Method in interface psidev.psi.mi.jami.listener.InteractionEvidenceChangeListener: onRemovedVariableParameterValues
onRemovedXref(I, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractionEnricherListenerManager: Listen to the event where a xref has been removed from the interactor xrefs.
onRemovedXref(I, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractionEnricherStatisticsWriter: Listen to the event where a xref has been removed from the interactor xrefs.
onRemovedXref(P, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ParticipantEnricherListenerManager: Listen to the event where a xref has been removed from the interactor xrefs.
onRemovedXref(P, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ParticipantEnricherStatisticsWriter: Listen to the event where a xref has been removed from the interactor xrefs.
onRemovedXref(CvTerm, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.CvTermEnricherListenerManager: Listen to the event where a xref has been removed from the interactor xrefs.
onRemovedXref(CvTerm, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.CvTermEnricherStatisticsWriter: Listen to the event where a xref has been removed from the interactor xrefs.
onRemovedXref(CvTerm, Xref) - Method in class psidev.psi.mi.jami.listener.impl.CvTermChangeLogger: Listen to the event where a xref has been removed from the interactor xrefs.
onRemovedXref(Experiment, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ExperimentEnricherListenerManager: Listen to the event where a xref has been removed from the interactor xrefs.
onRemovedXref(Experiment, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ExperimentEnricherStatisticsWriter: Listen to the event where a xref has been removed from the interactor xrefs.
onRemovedXref(Experiment, Xref) - Method in class psidev.psi.mi.jami.listener.impl.ExperimentChangeLogger: Listen to the event where a xref has been removed from the interactor xrefs.
onRemovedXref(Protein, Xref) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceEnricher: Listen to the event where a xref has been removed from the interactor xrefs.
onRemovedXref(Protein, Xref) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceUpdater: Listen to the event where a xref has been removed from the interactor xrefs.
onRemovedXref(Protein, Xref) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureUpdater: Listen to the event where a xref has been removed from the interactor xrefs.
onRemovedXref(Protein, Xref) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: Listen to the event where a xref has been removed from the interactor xrefs.
onRemovedXref(Protein, Xref) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEvidenceUpdater: Listen to the event where a xref has been removed from the interactor xrefs.
onRemovedXref(Publication, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.PublicationEnricherListenerManager: Listen to the event where a xref has been removed from the interactor xrefs.
onRemovedXref(Publication, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.PublicationEnricherStatisticsWriter: Listen to the event where a xref has been removed from the interactor xrefs.
onRemovedXref(Publication, Xref) - Method in class psidev.psi.mi.jami.listener.impl.PublicationChangeLogger: Listen to the event where a xref has been removed from the interactor xrefs.
onRemovedXref(T, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.FeatureEnricherListenerManager: Listen to the event where a xref has been removed from the interactor xrefs.
onRemovedXref(T, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractorEnricherListenerManager: Listen to the event where a xref has been removed from the interactor xrefs.
onRemovedXref(T, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.FeatureEnricherStatisticsWriter: Listen to the event where a xref has been removed from the interactor xrefs.
onRemovedXref(T, Xref) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractorEnricherStatisticsWriter: Listen to the event where a xref has been removed from the interactor xrefs.
onRemovedXref(T, Xref) - Method in class psidev.psi.mi.jami.listener.impl.FeatureChangeLogger: Listen to the event where a xref has been removed from the interactor xrefs.
onRemovedXref(T, Xref) - Method in class psidev.psi.mi.jami.listener.impl.InteractionChangeLogger: Listen to the event where a xref has been removed from the interactor xrefs.
onRemovedXref(T, Xref) - Method in class psidev.psi.mi.jami.listener.impl.InteractorChangeLogger: Listen to the event where a xref has been removed from the interactor xrefs.
onRemovedXref(T, Xref) - Method in class psidev.psi.mi.jami.listener.impl.ParticipantChangeLogger: Listen to the event where a xref has been removed from the interactor xrefs.
onRemovedXref(T, Xref) - Method in interface psidev.psi.mi.jami.listener.XrefsChangeListener: Listen to the event where a xref has been removed from the interactor xrefs.
onRoleUpdate(F, CvTerm) - Method in interface psidev.psi.mi.jami.listener.FeatureChangeListener: onRoleUpdate
onRoleUpdate(T, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.FeatureEnricherListenerManager: onRoleUpdate
onRoleUpdate(T, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.FeatureEnricherStatisticsWriter: onRoleUpdate
onRoleUpdate(T, CvTerm) - Method in class psidev.psi.mi.jami.listener.impl.FeatureChangeLogger: onRoleUpdate
onSameValue(ComplexComparisonEvent) - Method in interface psidev.psi.mi.jami.listener.comparator.ComplexComparatorListener
onSameValue(ComplexComparisonEvent) - Method in class psidev.psi.mi.jami.listener.comparator.impl.ComplexComparatorListenerImpl
onScientificNameUpdate(Organism, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.OrganismEnricherListenerManager: Listen to the event where the scientificName of an organism has been changed.
onScientificNameUpdate(Organism, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.OrganismEnricherStatisticsWriter: Listen to the event where the scientificName of an organism has been changed.
onScientificNameUpdate(Organism, String) - Method in class psidev.psi.mi.jami.listener.impl.OrganismChangeLogger: Listen to the event where the scientificName of an organism has been changed.
onScientificNameUpdate(Organism, String) - Method in interface psidev.psi.mi.jami.listener.OrganismChangeListener: Listen to the event where the scientificName of an organism has been changed.
onSequenceUpdate(P, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.PolymerEnricherListenerManager: Listen to the event where the sequence of a protein has been changed.
onSequenceUpdate(P, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.PolymerEnricherStatisticsWriter: Listen to the event where the sequence of a protein has been changed.
onSequenceUpdate(P, String) - Method in class psidev.psi.mi.jami.listener.impl.PolymerChangeLogger: Listen to the event where the sequence of a protein has been changed.
onSequenceUpdate(P, String) - Method in interface psidev.psi.mi.jami.listener.PolymerChangeListener: Listen to the event where the sequence of a protein has been changed.
onSequenceUpdate(Protein, String) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceEnricher: Listen to the event where the sequence of a protein has been changed.
onSequenceUpdate(Protein, String) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceUpdater: Listen to the event where the sequence of a protein has been changed.
onSequenceUpdate(Protein, String) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureUpdater: Listen to the event where the sequence of a protein has been changed.
onSequenceUpdate(Protein, String) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: Listen to the event where the sequence of a protein has been changed.
onSequenceUpdate(Protein, String) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEvidenceUpdater: Listen to the event where the sequence of a protein has been changed.
onSeveralCreatedDateFound(Collection<MitabDate>) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: onSeveralCreatedDateFound.
onSeveralCreatedDateFound(Collection<MitabDate>) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: onSeveralCreatedDateFound.
onSeveralCreatedDateFound(Collection<MitabDate>) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: onSeveralCreatedDateFound.
onSeveralCreatedDateFound(Collection<MitabDate>) - Method in class psidev.psi.mi.jami.tab.listener.MitabParserCompositeListener: onSeveralCreatedDateFound.
onSeveralCreatedDateFound(Collection<MitabDate>) - Method in interface psidev.psi.mi.jami.tab.listener.MitabParserListener: onSeveralCreatedDateFound.
onSeveralCreatedDateFound(Collection<MitabDate>) - Method in class psidev.psi.mi.jami.tab.listener.MitabParserLogger: onSeveralCreatedDateFound.
onSeveralCvTermsFound(Collection<MitabCvTerm>, FileSourceContext, String) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: Listen to an event where several CvTerms were found and only one was expected.
onSeveralCvTermsFound(Collection<MitabCvTerm>, FileSourceContext, String) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Listen to an event where several CvTerms were found and only one was expected.
onSeveralCvTermsFound(Collection<MitabCvTerm>, FileSourceContext, String) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: Listen to an event where several CvTerms were found and only one was expected.
onSeveralCvTermsFound(Collection<MitabCvTerm>, FileSourceContext, String) - Method in class psidev.psi.mi.jami.tab.listener.MitabParserCompositeListener: Listen to an event where several CvTerms were found and only one was expected.
onSeveralCvTermsFound(Collection<MitabCvTerm>, FileSourceContext, String) - Method in interface psidev.psi.mi.jami.tab.listener.MitabParserListener: Listen to an event where several CvTerms were found and only one was expected.
onSeveralCvTermsFound(Collection<MitabCvTerm>, FileSourceContext, String) - Method in class psidev.psi.mi.jami.tab.listener.MitabParserLogger: Listen to an event where several CvTerms were found and only one was expected.
onSeveralExperimentalRolesFound(Collection<CvTerm>, FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.listener.PsiXmlParserCompositeListener: onSeveralExperimentalRolesFound.
onSeveralExperimentalRolesFound(Collection<CvTerm>, FileSourceLocator) - Method in interface psidev.psi.mi.jami.xml.listener.PsiXmlParserListener: onSeveralExperimentalRolesFound.
onSeveralExperimentalRolesFound(Collection<CvTerm>, FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.listener.PsiXmlParserLogger: onSeveralExperimentalRolesFound.
onSeveralExperimentalRolesFound(Collection<CvTerm>, FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: onSeveralExperimentalRolesFound.
onSeveralExperimentalRolesFound(Collection<CvTerm>, FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: onSeveralExperimentalRolesFound.
onSeveralExperimentsFound(Collection<Experiment>, FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.listener.PsiXmlParserCompositeListener: onSeveralExperimentsFound.
onSeveralExperimentsFound(Collection<Experiment>, FileSourceLocator) - Method in interface psidev.psi.mi.jami.xml.listener.PsiXmlParserListener: onSeveralExperimentsFound.
onSeveralExperimentsFound(Collection<Experiment>, FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.listener.PsiXmlParserLogger: onSeveralExperimentsFound.
onSeveralExperimentsFound(Collection<Experiment>, FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: onSeveralExperimentsFound.
onSeveralExperimentsFound(Collection<Experiment>, FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: onSeveralExperimentsFound.
onSeveralExpressedInOrganismFound(Collection<Organism>, FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.listener.PsiXmlParserCompositeListener: onSeveralExpressedInOrganismFound.
onSeveralExpressedInOrganismFound(Collection<Organism>, FileSourceLocator) - Method in interface psidev.psi.mi.jami.xml.listener.PsiXmlParserListener: onSeveralExpressedInOrganismFound.
onSeveralExpressedInOrganismFound(Collection<Organism>, FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.listener.PsiXmlParserLogger: onSeveralExpressedInOrganismFound.
onSeveralExpressedInOrganismFound(Collection<Organism>, FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: onSeveralExpressedInOrganismFound.
onSeveralExpressedInOrganismFound(Collection<Organism>, FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: onSeveralExpressedInOrganismFound.
onSeveralFirstAuthorFound(Collection<MitabAuthor>) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: onSeveralFirstAuthorFound.
onSeveralFirstAuthorFound(Collection<MitabAuthor>) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: onSeveralFirstAuthorFound.
onSeveralFirstAuthorFound(Collection<MitabAuthor>) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: onSeveralFirstAuthorFound.
onSeveralFirstAuthorFound(Collection<MitabAuthor>) - Method in class psidev.psi.mi.jami.tab.listener.MitabParserCompositeListener: onSeveralFirstAuthorFound.
onSeveralFirstAuthorFound(Collection<MitabAuthor>) - Method in interface psidev.psi.mi.jami.tab.listener.MitabParserListener: onSeveralFirstAuthorFound.
onSeveralFirstAuthorFound(Collection<MitabAuthor>) - Method in class psidev.psi.mi.jami.tab.listener.MitabParserLogger: onSeveralFirstAuthorFound.
onSeveralHostOrganismFound(Collection<Organism>, FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.listener.PsiXmlParserCompositeListener: onSeveralHostOrganismFound.
onSeveralHostOrganismFound(Collection<Organism>, FileSourceLocator) - Method in interface psidev.psi.mi.jami.xml.listener.PsiXmlParserListener: onSeveralHostOrganismFound.
onSeveralHostOrganismFound(Collection<Organism>, FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.listener.PsiXmlParserLogger: onSeveralHostOrganismFound.
onSeveralHostOrganismFound(Collection<Organism>, FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: onSeveralHostOrganismFound.
onSeveralHostOrganismFound(Collection<Organism>, FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: onSeveralHostOrganismFound.
onSeveralHostOrganismFound(Collection<MitabOrganism>, FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: Listen to an event where several host organisms were found in a single experiment and only one was expected.
onSeveralHostOrganismFound(Collection<MitabOrganism>, FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Listen to an event where several host organisms were found in a single experiment and only one was expected.
onSeveralHostOrganismFound(Collection<MitabOrganism>, FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: Listen to an event where several host organisms were found in a single experiment and only one was expected.
onSeveralHostOrganismFound(Collection<MitabOrganism>, FileSourceContext) - Method in class psidev.psi.mi.jami.tab.listener.MitabParserCompositeListener: Listen to an event where several host organisms were found in a single experiment and only one was expected.
onSeveralHostOrganismFound(Collection<MitabOrganism>, FileSourceContext) - Method in interface psidev.psi.mi.jami.tab.listener.MitabParserListener: Listen to an event where several host organisms were found in a single experiment and only one was expected.
onSeveralHostOrganismFound(Collection<MitabOrganism>, FileSourceContext) - Method in class psidev.psi.mi.jami.tab.listener.MitabParserLogger: Listen to an event where several host organisms were found in a single experiment and only one was expected.
onSeveralOrganismFound(Collection<MitabOrganism>) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: onSeveralOrganismFound.
onSeveralOrganismFound(Collection<MitabOrganism>) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: onSeveralOrganismFound.
onSeveralOrganismFound(Collection<MitabOrganism>) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: onSeveralOrganismFound.
onSeveralOrganismFound(Collection<MitabOrganism>) - Method in class psidev.psi.mi.jami.tab.listener.MitabParserCompositeListener: onSeveralOrganismFound.
onSeveralOrganismFound(Collection<MitabOrganism>) - Method in interface psidev.psi.mi.jami.tab.listener.MitabParserListener: onSeveralOrganismFound.
onSeveralOrganismFound(Collection<MitabOrganism>) - Method in class psidev.psi.mi.jami.tab.listener.MitabParserLogger: onSeveralOrganismFound.
onSeveralSourceFound(Collection<MitabSource>) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: onSeveralSourceFound.
onSeveralSourceFound(Collection<MitabSource>) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: onSeveralSourceFound.
onSeveralSourceFound(Collection<MitabSource>) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: onSeveralSourceFound.
onSeveralSourceFound(Collection<MitabSource>) - Method in class psidev.psi.mi.jami.tab.listener.MitabParserCompositeListener: onSeveralSourceFound.
onSeveralSourceFound(Collection<MitabSource>) - Method in interface psidev.psi.mi.jami.tab.listener.MitabParserListener: onSeveralSourceFound.
onSeveralSourceFound(Collection<MitabSource>) - Method in class psidev.psi.mi.jami.tab.listener.MitabParserLogger: onSeveralSourceFound.
onSeveralStoichiometryFound(Collection<MitabStoichiometry>) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: onSeveralStoichiometryFound.
onSeveralStoichiometryFound(Collection<MitabStoichiometry>) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: onSeveralStoichiometryFound.
onSeveralStoichiometryFound(Collection<MitabStoichiometry>) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: onSeveralStoichiometryFound.
onSeveralStoichiometryFound(Collection<MitabStoichiometry>) - Method in class psidev.psi.mi.jami.tab.listener.MitabParserCompositeListener: onSeveralStoichiometryFound.
onSeveralStoichiometryFound(Collection<MitabStoichiometry>) - Method in interface psidev.psi.mi.jami.tab.listener.MitabParserListener: onSeveralStoichiometryFound.
onSeveralStoichiometryFound(Collection<MitabStoichiometry>) - Method in class psidev.psi.mi.jami.tab.listener.MitabParserLogger: onSeveralStoichiometryFound.
onSeveralUniqueIdentifiers(Collection<MitabXref>) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: onSeveralUniqueIdentifiers.
onSeveralUniqueIdentifiers(Collection<MitabXref>) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: onSeveralUniqueIdentifiers.
onSeveralUniqueIdentifiers(Collection<MitabXref>) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: onSeveralUniqueIdentifiers.
onSeveralUniqueIdentifiers(Collection<MitabXref>) - Method in class psidev.psi.mi.jami.tab.listener.MitabParserCompositeListener: onSeveralUniqueIdentifiers.
onSeveralUniqueIdentifiers(Collection<MitabXref>) - Method in interface psidev.psi.mi.jami.tab.listener.MitabParserListener: onSeveralUniqueIdentifiers.
onSeveralUniqueIdentifiers(Collection<MitabXref>) - Method in class psidev.psi.mi.jami.tab.listener.MitabParserLogger: onSeveralUniqueIdentifiers.
onSeveralUpdatedDateFound(Collection<MitabDate>) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: onSeveralUpdatedDateFound.
onSeveralUpdatedDateFound(Collection<MitabDate>) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: onSeveralUpdatedDateFound.
onSeveralUpdatedDateFound(Collection<MitabDate>) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: onSeveralUpdatedDateFound.
onSeveralUpdatedDateFound(Collection<MitabDate>) - Method in class psidev.psi.mi.jami.tab.listener.MitabParserCompositeListener: onSeveralUpdatedDateFound.
onSeveralUpdatedDateFound(Collection<MitabDate>) - Method in interface psidev.psi.mi.jami.tab.listener.MitabParserListener: onSeveralUpdatedDateFound.
onSeveralUpdatedDateFound(Collection<MitabDate>) - Method in class psidev.psi.mi.jami.tab.listener.MitabParserLogger: onSeveralUpdatedDateFound.
onShortNameUpdate(F, String) - Method in interface psidev.psi.mi.jami.listener.FeatureChangeListener: onShortNameUpdate
onShortNameUpdate(I, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractionEnricherListenerManager: onShortNameUpdate
onShortNameUpdate(I, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractionEnricherStatisticsWriter: onShortNameUpdate
onShortNameUpdate(I, String) - Method in interface psidev.psi.mi.jami.listener.InteractionChangeListener: onShortNameUpdate
onShortNameUpdate(CvTerm, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.CvTermEnricherListenerManager: Listen to the event where the shortName of a cv term has been changed.
onShortNameUpdate(CvTerm, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.CvTermEnricherStatisticsWriter: Listen to the event where the shortName of a cv term has been changed.
onShortNameUpdate(CvTerm, String) - Method in interface psidev.psi.mi.jami.listener.CvTermChangeListener: Listen to the event where the shortName of a cv term has been changed.
onShortNameUpdate(CvTerm, String) - Method in class psidev.psi.mi.jami.listener.impl.CvTermChangeLogger: Listen to the event where the shortName of a cv term has been changed.
onShortNameUpdate(Protein, String) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceEnricher: Listens for the event where the shortName has been changed.
onShortNameUpdate(Protein, String) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceUpdater: Listens for the event where the shortName has been changed.
onShortNameUpdate(Protein, String) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureUpdater: Listens for the event where the shortName has been changed.
onShortNameUpdate(Protein, String) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: Listens for the event where the shortName has been changed.
onShortNameUpdate(Protein, String) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEvidenceUpdater: Listens for the event where the shortName has been changed.
onShortNameUpdate(T, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.FeatureEnricherListenerManager: onShortNameUpdate
onShortNameUpdate(T, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractorEnricherListenerManager: Listens for the event where the shortName has been changed.
onShortNameUpdate(T, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.FeatureEnricherStatisticsWriter: onShortNameUpdate
onShortNameUpdate(T, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractorEnricherStatisticsWriter: Listens for the event where the shortName has been changed.
onShortNameUpdate(T, String) - Method in class psidev.psi.mi.jami.listener.impl.FeatureChangeLogger: onShortNameUpdate
onShortNameUpdate(T, String) - Method in class psidev.psi.mi.jami.listener.impl.InteractionChangeLogger: onShortNameUpdate
onShortNameUpdate(T, String) - Method in class psidev.psi.mi.jami.listener.impl.InteractorChangeLogger: Listens for the event where the shortName has been changed.
onShortNameUpdate(T, String) - Method in interface psidev.psi.mi.jami.listener.InteractorChangeListener: Listens for the event where the shortName has been changed.
onSourceUpdate(I, Source) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ModelledInteractionEnricherListenerManager: onSourceUpdate
onSourceUpdate(I, Source) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ModelledInteractionEnricherStatisticsWriter: onSourceUpdate
onSourceUpdate(I, Source) - Method in class psidev.psi.mi.jami.listener.impl.ModelledInteractionChangeLogger: onSourceUpdate
onSourceUpdate(I, Source) - Method in interface psidev.psi.mi.jami.listener.ModelledInteractionChangeListener: onSourceUpdate
onSourceUpdate(Complex, Source) - Method in class psidev.psi.mi.jami.listener.impl.ComplexChangeLogger: onSourceUpdate
onSourceUpdated(Publication, Source) - Method in class psidev.psi.mi.jami.enricher.listener.impl.PublicationEnricherListenerManager: onSourceUpdated
onSourceUpdated(Publication, Source) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.PublicationEnricherStatisticsWriter: onSourceUpdated
onSourceUpdated(Publication, Source) - Method in class psidev.psi.mi.jami.listener.impl.PublicationChangeLogger: onSourceUpdated
onSourceUpdated(Publication, Source) - Method in interface psidev.psi.mi.jami.listener.PublicationChangeListener: onSourceUpdated
onStoichiometryUpdate(F, Stoichiometry) - Method in interface psidev.psi.mi.jami.listener.EntityChangeListener: onStoichiometryUpdate
onStoichiometryUpdate(P, Stoichiometry) - Method in class psidev.psi.mi.jami.enricher.listener.impl.EntityEnricherListenerManager: onStoichiometryUpdate
onStoichiometryUpdate(P, Stoichiometry) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.EntityEnricherStatisticsWriter: onStoichiometryUpdate
onStoichiometryUpdate(T, Stoichiometry) - Method in class psidev.psi.mi.jami.listener.impl.EntityChangeLogger: onStoichiometryUpdate
onStoichiometryUpdate(T, Stoichiometry) - Method in class psidev.psi.mi.jami.listener.impl.ParticipantChangeLogger: onStoichiometryUpdate
onSuccessfulMapping(Protein, Collection<String>) - Method in class psidev.psi.mi.jami.bridges.mapper.listener.ProteinMappingLogger: A stacked report listing the exit case first, followed by any errors, the approaches used and the strategy.
onSuccessfulMapping(Protein, Collection<String>) - Method in class psidev.psi.mi.jami.bridges.mapper.listener.ProteinMappingStatisticsWriter: A stacked report listing the exit case first, followed by any errors, the approaches used and the strategy.
onSuccessfulMapping(Protein, Collection<String>) - Method in interface psidev.psi.mi.jami.bridges.mapper.ProteinMapperListener: A stacked report listing the exit case first, followed by any errors, the approaches used and the strategy.
onSyntaxWarning(FileSourceContext, String) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Listen to an event fired when the syntax of the file is valid but the content is not expected or some information may be lost.
onSyntaxWarning(FileSourceContext, String) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Listen to an event fired when the syntax of the file is valid but the content is not expected or some information may be lost.
onSyntaxWarning(FileSourceContext, String) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: Listen to an event fired when the syntax of the file is valid but the content is not expected or some information may be lost.
onSyntaxWarning(FileSourceContext, String) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: Listen to an event fired when the syntax of the file is valid but the content is not expected or some information may be lost.
onSyntaxWarning(FileSourceContext, String) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserCompositeListener: Listen to an event fired when the syntax of the file is valid but the content is not expected or some information may be lost.
onSyntaxWarning(FileSourceContext, String) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserLogger: Listen to an event fired when the syntax of the file is valid but the content is not expected or some information may be lost.
onSyntaxWarning(FileSourceContext, String) - Method in interface psidev.psi.mi.jami.listener.MIFileParserListener: Listen to an event fired when the syntax of the file is valid but the content is not expected or some information may be lost.
onSyntaxWarning(FileSourceContext, String) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: Listen to an event fired when the syntax of the file is valid but the content is not expected or some information may be lost.
onSyntaxWarning(FileSourceContext, String) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Listen to an event fired when the syntax of the file is valid but the content is not expected or some information may be lost.
onSyntaxWarning(FileSourceContext, String) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: Listen to an event fired when the syntax of the file is valid but the content is not expected or some information may be lost.
onSyntaxWarning(FileSourceContext, String) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Listen to an event fired when the syntax of the file is valid but the content is not expected or some information may be lost.
onSyntaxWarning(FileSourceContext, String) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: Listen to an event fired when the syntax of the file is valid but the content is not expected or some information may be lost.
onTaxidUpdate(Organism, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.OrganismEnricherListenerManager: Listen to the event where the taxid of an organism has been changed.
onTaxidUpdate(Organism, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.OrganismEnricherStatisticsWriter: Listen to the event where the taxid of an organism has been changed.
onTaxidUpdate(Organism, String) - Method in class psidev.psi.mi.jami.listener.impl.OrganismChangeLogger: Listen to the event where the taxid of an organism has been changed.
onTaxidUpdate(Organism, String) - Method in interface psidev.psi.mi.jami.listener.OrganismChangeListener: Listen to the event where the taxid of an organism has been changed.
onTextFoundInConfidence(MitabConfidence) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: onTextFoundInConfidence.
onTextFoundInConfidence(MitabConfidence) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: onTextFoundInConfidence.
onTextFoundInConfidence(MitabConfidence) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: onTextFoundInConfidence.
onTextFoundInConfidence(MitabConfidence) - Method in class psidev.psi.mi.jami.tab.listener.MitabParserCompositeListener: onTextFoundInConfidence.
onTextFoundInConfidence(MitabConfidence) - Method in interface psidev.psi.mi.jami.tab.listener.MitabParserListener: onTextFoundInConfidence.
onTextFoundInConfidence(MitabConfidence) - Method in class psidev.psi.mi.jami.tab.listener.MitabParserLogger: onTextFoundInConfidence.
onTextFoundInIdentifier(MitabXref) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: onTextFoundInIdentifier.
onTextFoundInIdentifier(MitabXref) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: onTextFoundInIdentifier.
onTextFoundInIdentifier(MitabXref) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: onTextFoundInIdentifier.
onTextFoundInIdentifier(MitabXref) - Method in class psidev.psi.mi.jami.tab.listener.MitabParserCompositeListener: onTextFoundInIdentifier.
onTextFoundInIdentifier(MitabXref) - Method in interface psidev.psi.mi.jami.tab.listener.MitabParserListener: onTextFoundInIdentifier.
onTextFoundInIdentifier(MitabXref) - Method in class psidev.psi.mi.jami.tab.listener.MitabParserLogger: onTextFoundInIdentifier.
onTissueUpdate(Organism, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.OrganismEnricherListenerManager: Listen to the event where the organism tissue has been initialised.
onTissueUpdate(Organism, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.OrganismEnricherStatisticsWriter: Listen to the event where the organism tissue has been initialised.
onTissueUpdate(Organism, CvTerm) - Method in class psidev.psi.mi.jami.listener.impl.OrganismChangeLogger: Listen to the event where the organism tissue has been initialised.
onTissueUpdate(Organism, CvTerm) - Method in interface psidev.psi.mi.jami.listener.OrganismChangeListener: Listen to the event where the organism tissue has been initialised.
onTitleUpdated(Publication, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.PublicationEnricherListenerManager: onTitleUpdated
onTitleUpdated(Publication, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.PublicationEnricherStatisticsWriter: onTitleUpdated
onTitleUpdated(Publication, String) - Method in class psidev.psi.mi.jami.listener.impl.PublicationChangeLogger: onTitleUpdated
onTitleUpdated(Publication, String) - Method in interface psidev.psi.mi.jami.listener.PublicationChangeListener: onTitleUpdated
onToBeReviewedMapping(Protein, Collection<String>) - Method in class psidev.psi.mi.jami.bridges.mapper.listener.ProteinMappingLogger: onToBeReviewedMapping.
onToBeReviewedMapping(Protein, Collection<String>) - Method in class psidev.psi.mi.jami.bridges.mapper.listener.ProteinMappingStatisticsWriter: onToBeReviewedMapping.
onToBeReviewedMapping(Protein, Collection<String>) - Method in interface psidev.psi.mi.jami.bridges.mapper.ProteinMapperListener: onToBeReviewedMapping.
ONTOLOGY_FETCHER_OPTION_KEY - Static variable in class psidev.psi.mi.jami.json.MIJsonWriterOptions: Option to load an object instance implementing the OntologyFetcher interface.
OntologyOboLoader - Class in psidev.psi.mi.jami.bridges.obo: The ontologyOboLoader is a loader of OntologyTerm with parents and children
OntologyOboLoader(String) - Constructor for class psidev.psi.mi.jami.bridges.obo.OntologyOboLoader: Constructor for OntologyOboLoader.
OntologyOboLoader(CvTerm) - Constructor for class psidev.psi.mi.jami.bridges.obo.OntologyOboLoader: Constructor for OntologyOboLoader.
OntologyTerm - Interface in psidev.psi.mi.jami.model: Ontology term with definition, parents and children
OntologyTermChangeListener - Interface in psidev.psi.mi.jami.listener: OntologyTerm change listener
OntologyTermChangeLogger - Class in psidev.psi.mi.jami.listener.impl: This listener will just log ontologyTerm change events
OntologyTermChangeLogger() - Constructor for class psidev.psi.mi.jami.listener.impl.OntologyTermChangeLogger
OntologyTermCompositeFetcher - Class in psidev.psi.mi.jami.bridges.fetcher.mock: Ontology fetcher that delegates to different ontologyTermFetchers
OntologyTermCompositeFetcher() - Constructor for class psidev.psi.mi.jami.bridges.fetcher.mock.OntologyTermCompositeFetcher
OntologyTermEnricherListener - Interface in psidev.psi.mi.jami.enricher.listener: An extension of the OntologyTermChangeListener with specific methods related to the process of enriching.
OntologyTermEnricherListenerManager - Class in psidev.psi.mi.jami.enricher.listener.impl: A manager for listeners which holds a list of listeners.
OntologyTermEnricherListenerManager() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.OntologyTermEnricherListenerManager: A constructor to create a listener manager with no listeners.
OntologyTermEnricherListenerManager(OntologyTermEnricherListener...) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.OntologyTermEnricherListenerManager: A constructor to initiate a listener manager with as many listeners as required.
OntologyTermEnricherLogger - Class in psidev.psi.mi.jami.enricher.listener.impl.log: A logging listener.
OntologyTermEnricherLogger() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.log.OntologyTermEnricherLogger
OntologyTermEnricherStatisticsWriter - Class in psidev.psi.mi.jami.enricher.listener.impl.writer: A statistics logger which records changes made by the enricher.
OntologyTermEnricherStatisticsWriter() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.OntologyTermEnricherStatisticsWriter: Uses the known name of the JamiObject type as the seed to generate names for the success an failure log files.
OntologyTermEnricherStatisticsWriter(File, File) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.OntologyTermEnricherStatisticsWriter: Uses the exact files provided to log successful and failed enrichments.
OntologyTermEnricherStatisticsWriter(String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.OntologyTermEnricherStatisticsWriter: Creates the files from the provided seed file name with 'success' and 'failure' appended.
OntologyTermEnricherStatisticsWriter(String, String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.OntologyTermEnricherStatisticsWriter: Uses the provided names to create the files for successful and failed enrichment logging.
OntologyTermFetcher - Interface in psidev.psi.mi.jami.bridges.fetcher: Finds ontology terms in the Ontology Lookup Service as well as having options to recursively find parents and or children.
OntologyTermUtils - Class in psidev.psi.mi.jami.utils: Utility class for OntologyTerm
OntologyTermUtils() - Constructor for class psidev.psi.mi.jami.utils.OntologyTermUtils
OntologyTermWrapper - Class in psidev.psi.mi.jami.bridges.ontologymanager.impl: Ontology term for PSI-MI JAMI
OntologyTermWrapper(OntologyTerm) - Constructor for class psidev.psi.mi.jami.bridges.ontologymanager.impl.OntologyTermWrapper: Constructor for OntologyTermWrapper.
onTypeUpdate(F, CvTerm) - Method in interface psidev.psi.mi.jami.listener.FeatureChangeListener: onTypeUpdate
onTypeUpdate(F, CvTerm) - Method in interface psidev.psi.mi.jami.listener.ParticipantPoolChangeListener: onTypeUpdate
onTypeUpdate(P, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ParticipantPoolEnricherListenerManager: onTypeUpdate
onTypeUpdate(P, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ParticipantPoolEnricherStatisticsWriter: onTypeUpdate
onTypeUpdate(ExperimentalParticipantPool, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.ExperimentalParticipantPoolEnricherListenerManager: onTypeUpdate
onTypeUpdate(ExperimentalParticipantPool, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.log.ExperimentalParticipantPoolEnricherLogger: onTypeUpdate
onTypeUpdate(ExperimentalParticipantPool, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.ExperimentalParticipantPoolEnricherStatisticsWriter: onTypeUpdate
onTypeUpdate(ExperimentalParticipantPool, CvTerm) - Method in class psidev.psi.mi.jami.listener.impl.ExperimentalParticipantPoolChangeLogger: onTypeUpdate
onTypeUpdate(T, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.FeatureEnricherListenerManager: onTypeUpdate
onTypeUpdate(T, CvTerm) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.FeatureEnricherStatisticsWriter: onTypeUpdate
onTypeUpdate(T, CvTerm) - Method in class psidev.psi.mi.jami.listener.impl.FeatureChangeLogger: onTypeUpdate
onTypeUpdate(T, CvTerm) - Method in class psidev.psi.mi.jami.listener.impl.ParticipantPoolChangeLogger: onTypeUpdate
onUnresolvedReference(XmlIdReference, String) - Method in class psidev.psi.mi.jami.xml.listener.PsiXmlParserCompositeListener: onUnresolvedReference.
onUnresolvedReference(XmlIdReference, String) - Method in interface psidev.psi.mi.jami.xml.listener.PsiXmlParserListener: onUnresolvedReference.
onUnresolvedReference(XmlIdReference, String) - Method in class psidev.psi.mi.jami.xml.listener.PsiXmlParserLogger: onUnresolvedReference.
onUnresolvedReference(XmlIdReference, String) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: onUnresolvedReference.
onUnresolvedReference(XmlIdReference, String) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: onUnresolvedReference.
onUpdatedDateUpdate(I, Date) - Method in class psidev.psi.mi.jami.enricher.listener.impl.InteractionEnricherListenerManager: onUpdatedDateUpdate
onUpdatedDateUpdate(I, Date) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.InteractionEnricherStatisticsWriter: onUpdatedDateUpdate
onUpdatedDateUpdate(I, Date) - Method in interface psidev.psi.mi.jami.listener.InteractionChangeListener: onUpdatedDateUpdate
onUpdatedDateUpdate(Complex, Date) - Method in class psidev.psi.mi.jami.listener.impl.ComplexChangeLogger: onUpdatedDateUpdate
onUpdatedDateUpdate(T, Date) - Method in class psidev.psi.mi.jami.listener.impl.InteractionChangeLogger: onUpdatedDateUpdate
onUpdatedRangePositions(F, Range, Position, Position) - Method in interface psidev.psi.mi.jami.listener.FeatureChangeListener: onUpdatedRangePositions
onUpdatedRangePositions(T, Range, Position, Position) - Method in class psidev.psi.mi.jami.enricher.listener.impl.FeatureEnricherListenerManager: onUpdatedRangePositions
onUpdatedRangePositions(T, Range, Position, Position) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.FeatureEnricherStatisticsWriter: onUpdatedRangePositions
onUpdatedRangePositions(T, Range, Position, Position) - Method in class psidev.psi.mi.jami.listener.impl.FeatureChangeLogger: onUpdatedRangePositions
onUrlUpdate(Source, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.SourceEnricherListenerManager: Listen to the event where the URL of a source has been changed.
onUrlUpdate(Source, String) - Method in class psidev.psi.mi.jami.enricher.listener.impl.writer.SourceEnricherStatisticsWriter: Listen to the event where the URL of a source has been changed.
onUrlUpdate(Source, String) - Method in class psidev.psi.mi.jami.listener.impl.SourceChangeLogger: Listen to the event where the URL of a source has been changed.
onUrlUpdate(Source, String) - Method in interface psidev.psi.mi.jami.listener.SourceChangeListener: Listen to the event where the URL of a source has been changed.
onXrefWithoutDatabase(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Listen to an event fired when a xref does not have a database
onXrefWithoutDatabase(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Listen to an event fired when a xref does not have a database
onXrefWithoutDatabase(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: Listen to an event fired when a xref does not have a database
onXrefWithoutDatabase(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: Listen to an event fired when a xref does not have a database
onXrefWithoutDatabase(FileSourceContext) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserCompositeListener: Listen to an event fired when a xref does not have a database
onXrefWithoutDatabase(FileSourceContext) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserLogger: Listen to an event fired when a xref does not have a database
onXrefWithoutDatabase(FileSourceContext) - Method in interface psidev.psi.mi.jami.listener.MIFileParserListener: Listen to an event fired when a xref does not have a database
onXrefWithoutDatabase(FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: Listen to an event fired when a xref does not have a database
onXrefWithoutDatabase(FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Listen to an event fired when a xref does not have a database
onXrefWithoutDatabase(FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: Listen to an event fired when a xref does not have a database
onXrefWithoutDatabase(FileSourceContext) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Listen to an event fired when a xref does not have a database
onXrefWithoutDatabase(FileSourceContext) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: Listen to an event fired when a xref does not have a database
onXrefWithoutId(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Listen to an event fired when a xref does not have an id
onXrefWithoutId(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Listen to an event fired when a xref does not have an id
onXrefWithoutId(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: Listen to an event fired when a xref does not have an id
onXrefWithoutId(FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: Listen to an event fired when a xref does not have an id
onXrefWithoutId(FileSourceContext) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserCompositeListener: Listen to an event fired when a xref does not have an id
onXrefWithoutId(FileSourceContext) - Method in class psidev.psi.mi.jami.listener.impl.MIFileParserLogger: Listen to an event fired when a xref does not have an id
onXrefWithoutId(FileSourceContext) - Method in interface psidev.psi.mi.jami.listener.MIFileParserListener: Listen to an event fired when a xref does not have an id
onXrefWithoutId(FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: Listen to an event fired when a xref does not have an id
onXrefWithoutId(FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Listen to an event fired when a xref does not have an id
onXrefWithoutId(FileSourceContext) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: Listen to an event fired when a xref does not have an id
onXrefWithoutId(FileSourceContext) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Listen to an event fired when a xref does not have an id
onXrefWithoutId(FileSourceContext) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: Listen to an event fired when a xref does not have an id
OPEN - Static variable in class psidev.psi.mi.jami.json.MIJsonUtils: Constant OPEN="{"
OPEN_ARRAY - Static variable in class psidev.psi.mi.jami.json.MIJsonUtils: Constant OPEN_ARRAY="["
OPEN_PAREN - psidev.psi.mi.jami.tab.io.parser.TokenKind
OPEN_PAREN - Static variable in interface psidev.psi.mi.jami.tab.io.parser.MitabLineParserConstants: RegularExpression Id.
OPEN_SET - Static variable in interface psidev.psi.mi.jami.model.InteractorPool: Constant OPEN_SET="open set"
OPEN_SET_MI - Static variable in interface psidev.psi.mi.jami.model.InteractorPool: Constant OPEN_SET_MI="MI:1306"
OpenedInputStream - Class in psidev.psi.mi.jami.commons: The openedInputStream contains a PushbackReader reader that can read the opened input stream and the type of dataSourceFile it represents.
OpenedInputStream(PushbackReader, MIFileType) - Constructor for class psidev.psi.mi.jami.commons.OpenedInputStream: Constructor for OpenedInputStream.
operation - Variable in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch.Diff
Operation - Enum in psidev.psi.mi.jami.bridges.imex: Operations supported for some of the web service update methods.
Operation - Enum in psidev.psi.mi.jami.enricher.util.diff: - The data structure representing a diff is a Linked list of Diff objects: {Diff(Operation.DELETE, "Hello"), Diff(Operation.INSERT, "Goodbye"), Diff(Operation.EQUAL, " world.")} which means: delete "Hello", add "Goodbye" and keep " world."
OPERATION_NOT_SUPPORTED - Static variable in interface psidev.psi.mi.jami.bridges.imex.ImexCentralClient: Constant OPERATION_NOT_SUPPORTED=98
OPERATION_NOT_VALID - Static variable in interface psidev.psi.mi.jami.bridges.imex.ImexCentralClient: Constant OPERATION_NOT_VALID=3
ORDERED - Static variable in class psidev.psi.mi.jami.utils.checksum.Base64: Encode using the special "ordered" dialect of Base64 described here: http://www.faqs.org/qa/rfcc-1940.html.
ORF_NAME - Static variable in interface psidev.psi.mi.jami.model.Alias: Constant ORF_NAME="orf name"
ORF_NAME_MI - Static variable in interface psidev.psi.mi.jami.model.Alias: Constant ORF_NAME_MI="MI:0306"
organism(int) - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
Organism - Interface in psidev.psi.mi.jami.model: The organism is defined by a taxonomy identifier.
OrganismChangeListener - Interface in psidev.psi.mi.jami.listener: This listener listen to Organism changes
OrganismChangeLogger - Class in psidev.psi.mi.jami.listener.impl: This listener will just log organism change events
OrganismChangeLogger() - Constructor for class psidev.psi.mi.jami.listener.impl.OrganismChangeLogger
OrganismCloner - Class in psidev.psi.mi.jami.utils.clone: Utility class for cloning organisms
OrganismCloner() - Constructor for class psidev.psi.mi.jami.utils.clone.OrganismCloner
OrganismComparator - Class in psidev.psi.mi.jami.utils.comparator.organism: Basic organism comparator.
OrganismComparator(Comparator<CvTerm>) - Constructor for class psidev.psi.mi.jami.utils.comparator.organism.OrganismComparator: Creates a new OrganismComparator.
OrganismEnricher - Interface in psidev.psi.mi.jami.enricher: An organism enricher which can enrich either a single organism or a collection.
OrganismEnricherListener - Interface in psidev.psi.mi.jami.enricher.listener: Created with IntelliJ IDEA.
OrganismEnricherListenerManager - Class in psidev.psi.mi.jami.enricher.listener.impl: A manager for listeners which holds a list of listeners.
OrganismEnricherListenerManager() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.OrganismEnricherListenerManager: A constructor to create a listener manager with no listeners.
OrganismEnricherListenerManager(OrganismEnricherListener...) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.OrganismEnricherListenerManager: A constructor to initiate a listener manager with as many listeners as required.
OrganismEnricherLogger - Class in psidev.psi.mi.jami.enricher.listener.impl.log: A logging listener.
OrganismEnricherLogger() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.log.OrganismEnricherLogger
OrganismEnricherStatisticsWriter - Class in psidev.psi.mi.jami.enricher.listener.impl.writer: A statistics logger which records changes made by the enricher.
OrganismEnricherStatisticsWriter() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.OrganismEnricherStatisticsWriter: Uses the known name of the JamiObject type as the seed to generate names for the success an failure log files.
OrganismEnricherStatisticsWriter(File, File) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.OrganismEnricherStatisticsWriter: Uses the exact files provided to log successful and failed enrichments.
OrganismEnricherStatisticsWriter(String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.OrganismEnricherStatisticsWriter: Creates the files from the provided seed file name with 'success' and 'failure' appended.
OrganismEnricherStatisticsWriter(String, String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.OrganismEnricherStatisticsWriter: Uses the provided names to create the files for successful and failed enrichment logging.
OrganismFetcher - Interface in psidev.psi.mi.jami.bridges.fetcher: Interface for fetching an organism from an external service.
OrganismStream - Interface in psidev.psi.mi.jami.datasource: An organism data source allows to stream the organisms of a given dataSource
OrganismTaxIdComparator - Class in psidev.psi.mi.jami.utils.comparator.organism: Simple organism comparator based on the taxIds.
OrganismTaxIdComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.organism.OrganismTaxIdComparator: Creates a new OrganismComparator
OrganismUtils - Class in psidev.psi.mi.jami.utils: Created with IntelliJ IDEA.
OrganismUtils() - Constructor for class psidev.psi.mi.jami.utils.OrganismUtils
other - psidev.psi.mi.jami.commons.MIFileType
other - psidev.psi.mi.jami.factory.InteractorCategory
other - psidev.psi.mi.jami.model.AllostericEffectorType
OUTPUT_FORMAT_OPTION_KEY - Static variable in class psidev.psi.mi.jami.factory.options.InteractionWriterOptions: The file format (for instance psi25_xml, mitab).
OUTPUT_OPTION_KEY - Static variable in class psidev.psi.mi.jami.factory.options.InteractionWriterOptions: The option to select where to write the interactions.
OutputStream(OutputStream) - Constructor for class psidev.psi.mi.jami.utils.checksum.Base64.OutputStream: Constructs a Base64.OutputStream in ENCODE mode.
OutputStream(OutputStream, int) - Constructor for class psidev.psi.mi.jami.utils.checksum.Base64.OutputStream: Constructs a Base64.OutputStream in either ENCODE or DECODE mode.

P

parameter() - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
Parameter - Interface in psidev.psi.mi.jami.model: A numeric parameter e.g.
parameterCollectionComparator - Variable in class psidev.psi.mi.jami.utils.comparator.feature.UnambiguousFeatureEvidenceComparator
ParameterCollectionComparator - Class in psidev.psi.mi.jami.utils.comparator.parameter: Comparator for collection of parameters
ParameterCollectionComparator(ParameterComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.parameter.ParameterCollectionComparator: Creates a new parameter CollectionComparator.
ParameterComparator - Class in psidev.psi.mi.jami.utils.comparator.parameter: Simple comparator for Parameter It first compares parameter types, then parameter units and then it uses ParameterValueComparator for comparing parameter values It will also compare the uncertainty.
ParameterComparator(Comparator<CvTerm>) - Constructor for class psidev.psi.mi.jami.utils.comparator.parameter.ParameterComparator: Creates a new ParameterComparator
ParameterComparator(Comparator<CvTerm>, ParameterValueComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.parameter.ParameterComparator: Creates a new ParameterComparator
parameters() - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
PARAMETERS_I - psidev.psi.mi.jami.tab.MitabColumnName
ParametersChangeListener<T> - Interface in psidev.psi.mi.jami.listener: A listener for changes to an object parameters list.
ParameterUtils - Class in psidev.psi.mi.jami.utils: Utility class for parameters
ParameterUtils() - Constructor for class psidev.psi.mi.jami.utils.ParameterUtils
ParameterValue - Class in psidev.psi.mi.jami.model: A parameter numeric value.
ParameterValue(BigDecimal) - Constructor for class psidev.psi.mi.jami.model.ParameterValue: Constructor for ParameterValue.
ParameterValue(BigDecimal, short, short) - Constructor for class psidev.psi.mi.jami.model.ParameterValue: Constructor for ParameterValue.
ParameterValueComparator - Class in psidev.psi.mi.jami.utils.comparator.parameter: Comparator for ParameterValue.
ParameterValueComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.parameter.ParameterValueComparator
parseAttributeList(XmlEntryContext) - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: parseAttributeList.
parseAvailabilityList(XmlEntryContext) - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: parseAvailabilityList.
parseAvailabilityList(XmlEntryContext) - Method in class psidev.psi.mi.jami.xml.io.parser.LightXmlParser: parseAvailabilityList.
parseAvailabilityList(XmlEntryContext) - Method in class psidev.psi.mi.jami.xml.io.parser.XmlComplexParser: parseAvailabilityList.
parseAvailabilityList(XmlEntryContext) - Method in class psidev.psi.mi.jami.xml.io.parser.XmlModelledParser: parseAvailabilityList.
parseCrossLinkingFeatures(String, String, int, int, int) - Method in class psidev.psi.mi.jami.crosslink.io.parser.AbstractCsvInteractionEvidenceParser: parseCrossLinkingFeatures.
parseEntry(String...) - Method in class psidev.psi.mi.jami.crosslink.io.parser.AbstractCsvInteractionEvidenceParser: parseEntry.
parseEntrySet() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractFullPsiXmlParser: parseEntrySet.
ParseException - Exception in psidev.psi.mi.jami.tab.io.parser: This exception is thrown when parse errors are encountered.
ParseException() - Constructor for exception psidev.psi.mi.jami.tab.io.parser.ParseException: The following constructors are for use by you for whatever purpose you can think of.
ParseException(String) - Constructor for exception psidev.psi.mi.jami.tab.io.parser.ParseException: Constructor with message.
ParseException(Token, int[][], String[]) - Constructor for exception psidev.psi.mi.jami.tab.io.parser.ParseException: This constructor is used by the method "generateParseException" in the generated parser.
parseExperimentList() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: parseExperimentList.
parseExperimentList() - Method in class psidev.psi.mi.jami.xml.io.parser.LightXmlParser: parseExperimentList.
parseInteractionList(XmlEntryContext, T) - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: parseInteractionList.
parseInteractionTag(XmlEntryContext) - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: The unmarshaller must be able to return the expected interaction type
parseInteractorList() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: parseInteractorList.
parseNextInteraction() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractFullPsiXmlParser: parseNextInteraction.
parseNextInteraction() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsixmlBinaryParser: parseNextInteraction.
parseNextInteraction() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: parseNextInteraction.
parseNextInteraction() - Method in interface psidev.psi.mi.jami.xml.io.parser.PsiXmlParser: parseNextInteraction.
parseNextPreLoadedInteraction() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: parseNextPreLoadedInteraction.
parseOboFile(File, Map<String, T>, Map<String, T>) - Method in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Parse the given OBO file and build a representation of the DAG into an Ontology.
parsePositions(String, int, int) - Method in class psidev.psi.mi.jami.crosslink.io.parser.AbstractCsvInteractionEvidenceParser: parsePositions.
PARSER_LISTENER_OPTION_KEY - Static variable in class psidev.psi.mi.jami.factory.options.MIFileDataSourceOptions: The parser listener instance that will listen to the MI parsing events.
parseSource(XmlEntryContext) - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: parseSource.
PARTIAL_COVERAGE - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant PARTIAL_COVERAGE="partial coverage"
PARTIAL_COVERAGE_MI - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant PARTIAL_COVERAGE_MI="MI:0958"
Participant - Interface in psidev.psi.mi.jami.model: Participant identified in an interaction
PARTICIPANT_IDENT_MED_A - psidev.psi.mi.jami.tab.MitabColumnName
PARTICIPANT_IDENT_MED_B - psidev.psi.mi.jami.tab.MitabColumnName
PARTICIPANT_REF - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant PARTICIPANT_REF="participant-ref"
PARTICIPANT_REF_ID - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant PARTICIPANT_REF_ID="MI:1151"
ParticipantBaseComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Basic participant comparator.
ParticipantBaseComparator(EntityBaseComparator, Comparator<CvTerm>) - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.ParticipantBaseComparator: Creates a new ParticipantBaseComparator
ParticipantCandidate - Interface in psidev.psi.mi.jami.model: A participant candidate is part of a participant pool and contains the molecule which can interact plus some participant details such as features and causal relationships
ParticipantCandidateCloner - Class in psidev.psi.mi.jami.utils.clone: Utility class for cloning a participant candidate
ParticipantCandidateCloner() - Constructor for class psidev.psi.mi.jami.utils.clone.ParticipantCandidateCloner
ParticipantChangeListener<F extends Participant> - Interface in psidev.psi.mi.jami.listener: Listener for changes in a participant
ParticipantChangeLogger<T extends Participant> - Class in psidev.psi.mi.jami.listener.impl: This listener will just interactor change events
ParticipantChangeLogger() - Constructor for class psidev.psi.mi.jami.listener.impl.ParticipantChangeLogger
ParticipantCloner - Class in psidev.psi.mi.jami.utils.clone: Utility class for cloning a participant
ParticipantCloner() - Constructor for class psidev.psi.mi.jami.utils.clone.ParticipantCloner
ParticipantCollectionComparator<T extends Entity> - Class in psidev.psi.mi.jami.utils.comparator.participant: Comparator for collection of participants
ParticipantCollectionComparator(Comparator<T>) - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.ParticipantCollectionComparator: Creates a new participant CollectionComparator.
ParticipantComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Generic participant comparator.
ParticipantComparator(ParticipantBaseComparator, ParticipantEvidenceComparator, ModelledParticipantComparator, ParticipantPoolComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.ParticipantComparator: Constructor for ParticipantComparator.
ParticipantEnricher - Interface in psidev.psi.mi.jami.enricher: Sub enrichers: Protein, CvTerm, Feature, Bioactive3Entity
ParticipantEnricherListener - Interface in psidev.psi.mi.jami.enricher.listener: Created with IntelliJ IDEA.
ParticipantEnricherListenerManager - Class in psidev.psi.mi.jami.enricher.listener.impl: A manager for listeners which holds a list of listeners.
ParticipantEnricherListenerManager() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.ParticipantEnricherListenerManager: A constructor to create a listener manager with no listeners.
ParticipantEnricherListenerManager(ParticipantEnricherListener...) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.ParticipantEnricherListenerManager: A constructor to initiate a listener manager with as many listeners as required.
ParticipantEnricherLogger - Class in psidev.psi.mi.jami.enricher.listener.impl.log: A logging listener.
ParticipantEnricherLogger() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.log.ParticipantEnricherLogger
ParticipantEnricherStatisticsWriter - Class in psidev.psi.mi.jami.enricher.listener.impl.writer: A statistics logger which records changes made by the enricher.
ParticipantEnricherStatisticsWriter() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.ParticipantEnricherStatisticsWriter: Uses the known name of the JamiObject type as the seed to generate names for the success an failure log files.
ParticipantEnricherStatisticsWriter(File, File) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.ParticipantEnricherStatisticsWriter: Uses the exact files provided to log successful and failed enrichments.
ParticipantEnricherStatisticsWriter(String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.ParticipantEnricherStatisticsWriter: Creates the files from the provided seed file name with 'success' and 'failure' appended.
ParticipantEnricherStatisticsWriter(String, String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.ParticipantEnricherStatisticsWriter: Uses the provided names to create the files for successful and failed enrichment logging.
ParticipantEvidence - Interface in psidev.psi.mi.jami.model: Participant of an interaction which is supported by experimental evidences
ParticipantEvidenceChangeListener<F extends ParticipantEvidence> - Interface in psidev.psi.mi.jami.listener: Listener for changes in an experimental entity
ParticipantEvidenceChangeLogger<T extends ParticipantEvidence> - Class in psidev.psi.mi.jami.listener.impl: This listener will just interactor change events
ParticipantEvidenceChangeLogger() - Constructor for class psidev.psi.mi.jami.listener.impl.ParticipantEvidenceChangeLogger
ParticipantEvidenceComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Basic Experimental participant comparator.
ParticipantEvidenceComparator(ExperimentalParticipantPoolComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.ParticipantEvidenceComparator: Creates a new ParticipantEvidenceComparator
ParticipantEvidenceEnricher<T extends ParticipantEvidence> - Interface in psidev.psi.mi.jami.enricher: The Participant pool enricher is an enricher which can enrich either single Participant pool or a collection.
ParticipantEvidenceEnricherListener - Interface in psidev.psi.mi.jami.enricher.listener: Created with IntelliJ IDEA.
ParticipantEvidenceEnricherListenerManager - Class in psidev.psi.mi.jami.enricher.listener.impl: A manager for listeners which holds a list of listeners.
ParticipantEvidenceEnricherListenerManager() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.ParticipantEvidenceEnricherListenerManager: A constructor to create a listener manager with no listeners.
ParticipantEvidenceEnricherListenerManager(ParticipantEvidenceEnricherListener...) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.ParticipantEvidenceEnricherListenerManager: A constructor to initiate a listener manager with as many listeners as required.
ParticipantEvidenceEnricherLogger - Class in psidev.psi.mi.jami.enricher.listener.impl.log: A logging listener.
ParticipantEvidenceEnricherLogger() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.log.ParticipantEvidenceEnricherLogger
ParticipantEvidenceEnricherStatisticsWriter - Class in psidev.psi.mi.jami.enricher.listener.impl.writer: A statistics logger which records changes made by the enricher.
ParticipantEvidenceEnricherStatisticsWriter() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.ParticipantEvidenceEnricherStatisticsWriter: Uses the known name of the JamiObject type as the seed to generate names for the success an failure log files.
ParticipantEvidenceEnricherStatisticsWriter(File, File) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.ParticipantEvidenceEnricherStatisticsWriter: Uses the exact files provided to log successful and failed enrichments.
ParticipantEvidenceEnricherStatisticsWriter(String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.ParticipantEvidenceEnricherStatisticsWriter: Creates the files from the provided seed file name with 'success' and 'failure' appended.
ParticipantEvidenceEnricherStatisticsWriter(String, String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.ParticipantEvidenceEnricherStatisticsWriter: Uses the provided names to create the files for successful and failed enrichment logging.
ParticipantInteractorComparator<T extends Entity> - Class in psidev.psi.mi.jami.utils.comparator.participant: Participant comparator only based on the interactor.
ParticipantInteractorComparator(InteractorComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.ParticipantInteractorComparator: Creates a new ParticipantInteractorComparator.
ParticipantPool - Interface in psidev.psi.mi.jami.model: A pool of participants that can be grouped together as a single participant as they are interchangeable
ParticipantPoolChangeListener<F extends ParticipantPool> - Interface in psidev.psi.mi.jami.listener: Listener for changes in a participant pool
ParticipantPoolChangeLogger<T extends ParticipantPool> - Class in psidev.psi.mi.jami.listener.impl: This listener will just interactor change events
ParticipantPoolChangeLogger() - Constructor for class psidev.psi.mi.jami.listener.impl.ParticipantPoolChangeLogger
ParticipantPoolComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Basic participant pool comparator.
ParticipantPoolComparator(ParticipantBaseComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.ParticipantPoolComparator: Creates a new ParticipantPoolComparator
ParticipantPoolComparator(ParticipantBaseComparator, CollectionComparator<Entity>) - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.ParticipantPoolComparator: Constructor for ParticipantPoolComparator.
ParticipantPoolEnricher - Interface in psidev.psi.mi.jami.enricher: Sub enrichers: Protein, CvTerm, Feature, Bioactive3Entity
ParticipantPoolEnricherListener - Interface in psidev.psi.mi.jami.enricher.listener: Participant pool enricher listener
ParticipantPoolEnricherListenerManager - Class in psidev.psi.mi.jami.enricher.listener.impl: A manager for listeners which holds a list of listeners.
ParticipantPoolEnricherListenerManager() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.ParticipantPoolEnricherListenerManager: A constructor to create a listener manager with no listeners.
ParticipantPoolEnricherListenerManager(ParticipantEnricherListener...) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.ParticipantPoolEnricherListenerManager: A constructor to initiate a listener manager with as many listeners as required.
ParticipantPoolEnricherLogger - Class in psidev.psi.mi.jami.enricher.listener.impl.log: A logging listener.
ParticipantPoolEnricherLogger() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.log.ParticipantPoolEnricherLogger
ParticipantPoolEnricherStatisticsWriter - Class in psidev.psi.mi.jami.enricher.listener.impl.writer: A statistics logger which records changes made by the enricher.
ParticipantPoolEnricherStatisticsWriter() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.ParticipantPoolEnricherStatisticsWriter: Uses the known name of the JamiObject type as the seed to generate names for the success an failure log files.
ParticipantPoolEnricherStatisticsWriter(File, File) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.ParticipantPoolEnricherStatisticsWriter: Uses the exact files provided to log successful and failed enrichments.
ParticipantPoolEnricherStatisticsWriter(String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.ParticipantPoolEnricherStatisticsWriter: Creates the files from the provided seed file name with 'success' and 'failure' appended.
ParticipantPoolEnricherStatisticsWriter(String, String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.ParticipantPoolEnricherStatisticsWriter: Uses the provided names to create the files for successful and failed enrichment logging.
ParticipantUtils - Class in psidev.psi.mi.jami.utils: Factory for participants
ParticipantUtils() - Constructor for class psidev.psi.mi.jami.utils.ParticipantUtils
Patch() - Constructor for class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch.Patch: Constructor.
patch_addContext(diff_match_patch.Patch, String) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch: Increase the context until it is unique, but don't let the pattern expand beyond Match_MaxBits.
patch_addPadding(LinkedList<diff_match_patch.Patch>) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch: Add some padding on text start and end so that edges can match something.
patch_apply(LinkedList<diff_match_patch.Patch>, String) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch: Merge a set of patches onto the text.
patch_fromText(String) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch: Parse a textual representation of patches and return a List of Patch objects.
patch_make(String, String) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch: Compute a list of patches to turn text1 into text2.
patch_make(String, String, LinkedList<diff_match_patch.Diff>) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch: Compute a list of patches to turn text1 into text2.
patch_make(LinkedList<diff_match_patch.Diff>) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch: Compute a list of patches to turn text1 into text2.
Patch_Margin - Variable in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch
patch_splitMax(LinkedList<diff_match_patch.Patch>) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch: Look through the patches and break up any which are longer than the maximum limit of the match algorithm.
patch_toText(List<diff_match_patch.Patch>) - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch: Take a list of patches and return a textual representation.
PDB - psidev.psi.mi.jami.bridges.uniprot.rest.SearchDatabase
peppos1 - psidev.psi.mi.jami.crosslink.io.parser.CrossLinkCSVColumns
peppos2 - psidev.psi.mi.jami.crosslink.io.parser.CrossLinkCSVColumns
PEPTIDE - Static variable in interface psidev.psi.mi.jami.model.Protein: Constant PEPTIDE="peptide"
PEPTIDE_MI - Static variable in interface psidev.psi.mi.jami.model.Protein: Constant PEPTIDE_MI="MI:0327"
PHOSPHATE_ACCEPTOR_ROLE - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant PHOSPHATE_ACCEPTOR_ROLE="phosphate acceptor"
PHOSPHATE_ACCEPTOR_ROLE_MI - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant PHOSPHATE_ACCEPTOR_ROLE_MI="MI:0843"
PHOSPHATE_DONOR_ROLE - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant PHOSPHATE_DONOR_ROLE="phosphate donor"
PHOSPHATE_DONOR_ROLE_MI - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant PHOSPHATE_DONOR_ROLE_MI="MI:0842"
PHOTON_ACCEPTOR_ROLE - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant PHOTON_ACCEPTOR_ROLE="photon acceptor"
PHOTON_ACCEPTOR_ROLE_MI - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant PHOTON_ACCEPTOR_ROLE_MI="MI:1085"
PHOTON_DONOR_ROLE - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant PHOTON_DONOR_ROLE="photon donor"
PHOTON_DONOR_ROLE_MI - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant PHOTON_DONOR_ROLE_MI="MI:1084"
PHYSICAL_INTERACTION - Static variable in class psidev.psi.mi.jami.crosslink.utils.CsvUtils: Constant PHYSICAL_INTERACTION="physical association"
PHYSICAL_INTERACTION_MI - Static variable in class psidev.psi.mi.jami.crosslink.utils.CsvUtils: Constant PHYSICAL_INTERACTION_MI="MI:0915"
PIR - psidev.psi.mi.jami.bridges.uniprot.rest.SearchDatabase
PIRARC - psidev.psi.mi.jami.bridges.uniprot.rest.SearchDatabase
PMID - Static variable in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Constant PMID="PMID"
PMID - Static variable in class psidev.psi.mi.jami.bridges.obo.OntologyOboLoader: Constant PMID="PMID"
PMID - Static variable in class psidev.psi.mi.jami.bridges.ols.utils.OlsUtils: Constant PMID="PMID"
PMID_APPLICATION - Static variable in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Constant PMID_APPLICATION="PMID for application instance"
PMID_APPLICATION - Static variable in class psidev.psi.mi.jami.bridges.ols.utils.OlsUtils: Constant PMID_APPLICATION="PMID for application instance"
polymer - psidev.psi.mi.jami.factory.InteractorCategory
Polymer - Interface in psidev.psi.mi.jami.model: A polymer is an interactor with a sequence
POLYMER - Static variable in interface psidev.psi.mi.jami.model.Polymer: Constant POLYMER="biopolymer"
POLYMER_MI - Static variable in interface psidev.psi.mi.jami.model.Polymer: Constant POLYMER_MI="MI:0383"
PolymerChangeListener - Interface in psidev.psi.mi.jami.listener: Listener for changes in polymer
PolymerChangeLogger - Class in psidev.psi.mi.jami.listener.impl: This listener will just protein change events
PolymerChangeLogger() - Constructor for class psidev.psi.mi.jami.listener.impl.PolymerChangeLogger
PolymerComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: polymer comparator.
PolymerComparator(Comparator<Interactor>, OrganismTaxIdComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.PolymerComparator: Creates a new UnambiguousPolymerComparator.
PolymerEnricherListener<T extends Polymer> - Interface in psidev.psi.mi.jami.enricher.listener: Interface for polymer enricher listener
PolymerEnricherListenerManager - Class in psidev.psi.mi.jami.enricher.listener.impl: A manager for listeners which holds a list of listeners.
PolymerEnricherListenerManager() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.PolymerEnricherListenerManager: A constructor to create a listener manager with no listeners.
PolymerEnricherListenerManager(InteractorEnricherListener...) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.PolymerEnricherListenerManager: A constructor to initiate a listener manager with as many listeners as required.
PolymerEnricherLogger - Class in psidev.psi.mi.jami.enricher.listener.impl.log: A logging listener.
PolymerEnricherLogger() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.log.PolymerEnricherLogger
PolymerEnricherStatisticsWriter - Class in psidev.psi.mi.jami.enricher.listener.impl.writer: A statistics logger which records changes made by the enricher.
PolymerEnricherStatisticsWriter() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.PolymerEnricherStatisticsWriter: Uses the known name of the JamiObject type as the seed to generate names for the success an failure log files.
PolymerEnricherStatisticsWriter(File, File) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.PolymerEnricherStatisticsWriter: Uses the exact files provided to log successful and failed enrichments.
PolymerEnricherStatisticsWriter(String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.PolymerEnricherStatisticsWriter: Creates the files from the provided seed file name with 'success' and 'failure' appended.
PolymerEnricherStatisticsWriter(String, String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.PolymerEnricherStatisticsWriter: Uses the provided names to create the files for successful and failed enrichment logging.
POLYSACCHARIDE - Static variable in interface psidev.psi.mi.jami.model.BioactiveEntity: Constant POLYSACCHARIDE="polysaccharide"
POLYSACCHARIDE_MI - Static variable in interface psidev.psi.mi.jami.model.BioactiveEntity: Constant POLYSACCHARIDE_MI="MI:0904"
Position - Interface in psidev.psi.mi.jami.model: The position of a feature in the interactor sequence
POSITION_SEPARATOR - Static variable in interface psidev.psi.mi.jami.model.Range: Constant POSITION_SEPARATOR="-"
PositionComparator - Class in psidev.psi.mi.jami.utils.comparator.range: Simple Position comparator.
PositionComparator(Comparator<CvTerm>) - Constructor for class psidev.psi.mi.jami.utils.comparator.range.PositionComparator: Creates a new positionComparator
PositionUtils - Class in psidev.psi.mi.jami.utils: Utility class for Positions
PositionUtils() - Constructor for class psidev.psi.mi.jami.utils.PositionUtils
POSITIVE_EFFECT - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant POSITIVE_EFFECT="positive cooperative effect"
POSITIVE_EFFECT_ID - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant POSITIVE_EFFECT_ID="MI:1154"
POSTAL_ADDRESS - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant POSTAL_ADDRESS="postaladdress"
PRE_ORGANIZATION - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant PRE_ORGANIZATION="configurational pre-organization"
PRE_ORGANIZATION_ID - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant PRE_ORGANIZATION_ID="MI:1174"
Preassembly - Interface in psidev.psi.mi.jami.model: The pre-assembly cooperative effect.
PREASSEMBLY - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant PREASSEMBLY="pre-assembly"
PREASSEMBLY_ID - Static variable in interface psidev.psi.mi.jami.model.CooperativeEffect: Constant PREASSEMBLY_ID="MI:1158"
PREDETERMINED - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant PREDETERMINED="predetermined"
PREDETERMINED_MI - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant PREDETERMINED_MI="MI:0396"
PREDICTED - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant PREDICTED="predicted"
PREDICTED_MI - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant PREDICTED_MI="MI:1057"
PREREQUISITE_PTM - Static variable in interface psidev.psi.mi.jami.model.Feature: Constant PREREQUISITE_PTM="prerequisite-ptm"
PREREQUISITE_PTM_MI - Static variable in interface psidev.psi.mi.jami.model.Feature: Constant PREREQUISITE_PTM_MI="MI:0638"
prevCharIsCR - Variable in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream
prevCharIsCR - Variable in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream
prevCharIsLF - Variable in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream
prevCharIsLF - Variable in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream
previous() - Method in class psidev.psi.mi.jami.utils.collection.ListIteratorHavingProperties: previous
previousIndex() - Method in class psidev.psi.mi.jami.utils.collection.ListIteratorHavingProperties: previousIndex
PREY - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant PREY="prey"
PREY_MI - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant PREY_MI="MI:0498"
PRF - psidev.psi.mi.jami.bridges.uniprot.rest.SearchDatabase
PRIMARY - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant PRIMARY="primary-reference"
PRIMARY_MI - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant PRIMARY_MI="MI:0358"
processAddedAliasEvent(Alias) - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: processAddedAliasEvent
processAddedAliasEvent(Alias) - Method in class psidev.psi.mi.jami.model.impl.DefaultProtein: processAddedAliasEvent
processAddedAnnotationEvent(Annotation) - Method in class psidev.psi.mi.jami.bridges.ols.LazySource: processAddedAnnotationEvent.
processAddedAnnotationEvent(Annotation) - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: processAddedAnnotationEvent
processAddedAnnotationEvent(Annotation) - Method in class psidev.psi.mi.jami.model.impl.DefaultSource: processAddedAnnotationEvent
processAddedChecksumEvent(Checksum) - Method in class psidev.psi.mi.jami.model.impl.AbstractInteraction: processAddedChecksumEvent
processAddedChecksumEvent(Checksum) - Method in class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: processAddedChecksumEvent
processAddedChecksumEvent(Checksum) - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: processAddedChecksumEvent
processAddedChecksumEvent(Checksum) - Method in class psidev.psi.mi.jami.model.impl.DefaultProtein: processAddedChecksumEvent
processAddedFeature(F) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity: processAddedFeature.
processAddedFeature(F) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity: processAddedFeature.
processAddedFeature(F) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity: processAddedFeature.
processAddedFeature(FeatureEvidence) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidate: processAddedFeature.
processAddedFeature(FeatureEvidence) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: processAddedFeature.
processAddedFeature(FeatureEvidence) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidate: processAddedFeature.
processAddedFeature(FeatureEvidence) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: processAddedFeature.
processAddedFeature(FeatureEvidence) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidate: processAddedFeature.
processAddedFeature(FeatureEvidence) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: processAddedFeature.
processAddedIdentifierEvent(Xref) - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature: processAddedIdentifierEvent
processAddedIdentifierEvent(Xref) - Method in class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: processAddedIdentifierEvent
processAddedIdentifierEvent(Xref) - Method in class psidev.psi.mi.jami.model.impl.DefaultCvTerm: processAddedIdentifierEvent
processAddedIdentifierEvent(Xref) - Method in class psidev.psi.mi.jami.model.impl.DefaultGene: processAddedIdentifierEvent
processAddedIdentifierEvent(Xref) - Method in class psidev.psi.mi.jami.model.impl.DefaultProtein: processAddedIdentifierEvent
processAddedIdentifierEvent(Xref) - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: processAddedIdentifierEvent
processAddedIdentifierEvent(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.CvTermXrefContainer: processAddedIdentifierEvent.
processAddedIdentifierEvent(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.FeatureXrefContainer: processAddedIdentifierEvent.
processAddedIdentifierEvent(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.PublicationXrefContainer: processAddedIdentifierEvent.
processAddedIdentifierEvent(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.CvTermXrefContainer: processAddedIdentifierEvent.
processAddedIdentifierEvent(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.FeatureXrefContainer: processAddedIdentifierEvent.
processAddedIdentifierEvent(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.PublicationXrefContainer: processAddedIdentifierEvent.
processAddedIdentifierEvent(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.CvTermXrefContainer: processAddedIdentifierEvent.
processAddedIdentifierEvent(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.FeatureXrefContainer: processAddedIdentifierEvent.
processAddedIdentifierEvent(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.PublicationXrefContainer: processAddedIdentifierEvent.
processAddedIdentifiersEvent(Xref) - Method in class psidev.psi.mi.jami.model.impl.DefaultNucleicAcid: processAddedIdentifiersEvent
processAddedObjectEvent(Xref) - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature.FeatureIdentifierList
processAddedObjectEvent(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence.ExperimentalBinaryInteractionXrefList
processAddedObjectEvent(T) - Method in class psidev.psi.mi.jami.utils.collection.AbstractListHavingProperties: processAddedObjectEvent
processAddedParticipant(ParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: processAddedParticipant.
processAddedParticipant(ParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: processAddedParticipant.
processAddedParticipant(ParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: processAddedParticipant.
processAddedParticipant(T) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: processAddedParticipant.
processAddedParticipant(T) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: processAddedParticipant.
processAddedParticipant(T) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: processAddedParticipant.
processAddedPotentialComplexAc(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.InteractionXrefContainer
processAddedPotentialComplexAc(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.InteractionXrefContainer
processAddedPotentialComplexAc(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.InteractionXrefContainer
processAddedPotentialImex(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.ExperimentXrefContainer: processAddedPotentialImex.
processAddedPotentialImex(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.InteractionXrefContainer: processAddedPotentialImex.
processAddedPotentialImex(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.PublicationXrefContainer: processAddedPotentialImex.
processAddedPotentialImex(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.ExperimentXrefContainer: processAddedPotentialImex.
processAddedPotentialImex(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.InteractionXrefContainer: processAddedPotentialImex.
processAddedPotentialImex(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.PublicationXrefContainer: processAddedPotentialImex.
processAddedPotentialImex(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.ExperimentXrefContainer: processAddedPotentialImex.
processAddedPotentialImex(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.InteractionXrefContainer: processAddedPotentialImex.
processAddedPotentialImex(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.PublicationXrefContainer: processAddedPotentialImex.
processAddedPrimaryRef(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.CvTermXrefContainer: processAddedPrimaryRef.
processAddedPrimaryRef(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.FeatureXrefContainer: processAddedPrimaryRef.
processAddedPrimaryRef(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.InteractionXrefContainer: processAddedPrimaryRef.
processAddedPrimaryRef(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.InteractorXrefContainer: processAddedPrimaryRef.
processAddedPrimaryRef(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.PublicationXrefContainer: processAddedPrimaryRef.
processAddedPrimaryRef(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XrefContainer: processAddedPrimaryRef.
processAddedPrimaryRef(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.CvTermXrefContainer: processAddedPrimaryRef.
processAddedPrimaryRef(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.FeatureXrefContainer: processAddedPrimaryRef.
processAddedPrimaryRef(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.InteractionXrefContainer: processAddedPrimaryRef.
processAddedPrimaryRef(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.InteractorXrefContainer: processAddedPrimaryRef.
processAddedPrimaryRef(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.PublicationXrefContainer: processAddedPrimaryRef.
processAddedPrimaryRef(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XrefContainer: processAddedPrimaryRef.
processAddedPrimaryRef(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.CvTermXrefContainer: processAddedPrimaryRef.
processAddedPrimaryRef(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.FeatureXrefContainer: processAddedPrimaryRef.
processAddedPrimaryRef(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.InteractionXrefContainer: processAddedPrimaryRef.
processAddedPrimaryRef(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.InteractorXrefContainer: processAddedPrimaryRef.
processAddedPrimaryRef(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.PublicationXrefContainer: processAddedPrimaryRef.
processAddedPrimaryRef(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XrefContainer: processAddedPrimaryRef.
processAddedXrefEvent(Xref) - Method in class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: processAddedXrefEvent
processAddedXrefEvent(Xref) - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: processAddedXrefEvent
processAddedXrefEvent(Xref) - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: processAddedXrefEvent
processAddedXrefEvent(Xref) - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: processAddedXrefEvent
processAddedXrefEvent(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: processAddedXrefEvent.
processAliases(F, F) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEnricher: processAliases.
processAliases(F, F) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureUpdater: processAliases.
processAliases(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEvidenceUpdater: processAliases.
processAliases(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantUpdater: processAliases.
processAliases(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEnricher: processAliases.
processAliases(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEvidenceUpdater: processAliases.
processAliases(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantUpdater: processAliases.
processAliases(Organism, Organism) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullOrganismEnricher: processAliases.
processAliases(Organism, Organism) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullOrganismUpdater: processAliases.
processAliases(T, T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorEnricher: processAliases.
processAliases(T, T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorUpdater: processAliases.
processAnnotation(Integer, Annotation) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction.JAXBAttributeWrapper.JAXBAttributeList
processAnnotation(Integer, Annotation) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction.JAXBAttributeWrapper.JAXBAttributeList
processAnnotation(Integer, Annotation) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction.JAXBAttributeWrapper.JAXBAttributeList
processAnnotations(C, C) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullCvTermEnricher: processAnnotations.
processAnnotations(C, C) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullCvTermUpdater: processAnnotations.
processAnnotations(F, F) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEnricher: processAnnotations.
processAnnotations(F, F) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureUpdater: processAnnotations.
processAnnotations(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionEnricher: processAnnotations.
processAnnotations(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionUpdater: processAnnotations.
processAnnotations(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEnricher: processAnnotations.
processAnnotations(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantUpdater: processAnnotations.
processAnnotations(Experiment, Experiment) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullExperimentEnricher: processAnnotations.
processAnnotations(Experiment, Experiment) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullExperimentUpdater: processAnnotations.
processAnnotations(Experiment, Experiment) - Method in class psidev.psi.mi.jami.imex.ImexExperimentUpdater: processAnnotations.
processAnnotations(Interaction, Interaction) - Method in class psidev.psi.mi.jami.imex.ImexInteractionUpdater: processAnnotations.
processAnnotations(Publication, Publication) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullPublicationEnricher: processAnnotations.
processAnnotations(Publication, Publication) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullPublicationUpdater: processAnnotations.
processAnnotations(Publication, Publication) - Method in class psidev.psi.mi.jami.imex.ImexPublicationAssigner: processAnnotations.
processAnnotations(Publication, Publication) - Method in class psidev.psi.mi.jami.imex.ImexPublicationRegister: processAnnotations.
processAnnotations(Publication, Publication) - Method in class psidev.psi.mi.jami.imex.ImexPublicationUpdater: processAnnotations.
processAnnotations(T, T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorEnricher: processAnnotations.
processAnnotations(T, T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorUpdater: processAnnotations.
processAnnotations(Term, OntologyTerm) - Method in class psidev.psi.mi.jami.bridges.obo.OntologyOboLoader: Process the annotations of a term
processAnnotations(Term, T) - Method in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Process the annotations of a term
processAuthors(Publication, Publication) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalPublicationEnricher: processAuthors.
processAuthors(Publication, Publication) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalPublicationUpdater: processAuthors.
processAuthors(Publication, Publication) - Method in class psidev.psi.mi.jami.imex.ImexPublicationAssigner: processAuthors.
processAuthors(Publication, Publication) - Method in class psidev.psi.mi.jami.imex.ImexPublicationRegister: processAuthors.
processAuthors(Publication, Publication) - Method in class psidev.psi.mi.jami.imex.ImexPublicationUpdater: processAuthors.
processAvailabilityList(XmlEntryContext) - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: processAvailabilityList.
processBinaryInteraction(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: processBinaryInteraction.
processBinaryInteraction(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: processBinaryInteraction.
processBiologicalRole(P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEnricher: processBiologicalRole.
processBiologicalRole(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEvidenceUpdater: processBiologicalRole.
processBiologicalRole(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantUpdater: processBiologicalRole.
processBiologicalRole(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEnricher: processBiologicalRole.
processBiologicalRole(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEvidenceUpdater: processBiologicalRole.
processBiologicalRole(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantUpdater: processBiologicalRole.
processCausalRelationships(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullEntityEnricher: processCausalRelationships.
processCausalRelationships(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullEntityUpdater: processCausalRelationships.
processCausalRelationships(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEnricher: processCausalRelationships.
processCausalRelationships(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantUpdater: processCausalRelationships.
processCellType(Organism, Organism) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullOrganismEnricher: processCellType.
processCellType(Organism, Organism) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullOrganismUpdater: processCellType.
processChecksums(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionEnricher: processChecksums.
processChecksums(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionUpdater: processChecksums.
processChecksums(Interaction, Interaction) - Method in class psidev.psi.mi.jami.imex.ImexInteractionUpdater: processChecksums.
processChecksums(T, T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorEnricher: processChecksums.
processChecksums(T, T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorUpdater: processChecksums.
processChildren(OntologyTerm, OntologyTerm) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOntologyTermEnricher: processChildren.
processChildren(OntologyTerm, OntologyTerm) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOntologyTermUpdater: processChildren.
processCommonName(Organism, Organism) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOrganismEnricher: processCommonName.
processCommonName(Organism, Organism) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOrganismUpdater: processCommonName.
processCompartment(Organism, Organism) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullOrganismEnricher: processCompartment.
processCompartment(Organism, Organism) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullOrganismUpdater: processCompartment.
processConfidences(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullModelledInteractionEnricher: processConfidences.
processConfidences(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullModelledInteractionUpdater: processConfidences.
processConfidences(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEvidenceEnricher: processConfidences.
processConfidences(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEvidenceUpdater: processConfidences.
processConfidences(Experiment, Experiment) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullExperimentEnricher: processConfidences.
processConfidences(Experiment, Experiment) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullExperimentUpdater: processConfidences.
processConfidences(Experiment, Experiment) - Method in class psidev.psi.mi.jami.imex.ImexExperimentUpdater: processConfidences.
processConfidences(InteractionEvidence, InteractionEvidence) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionEvidenceEnricher: processConfidences.
processConfidences(InteractionEvidence, InteractionEvidence) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionEvidenceUpdater: processConfidences.
processCooperativeEffects(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullModelledInteractionEnricher: processCooperativeEffects.
processCooperativeEffects(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullModelledInteractionUpdater: processCooperativeEffects.
processCreatedDate(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEnricher: processCreatedDate.
processCreatedDate(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionUpdater: processCreatedDate.
processCreatedDate(Interaction, Interaction) - Method in class psidev.psi.mi.jami.imex.ImexInteractionUpdater: processCreatedDate.
processCurationDepth(Publication, Publication) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullCuratedPublicationEnricher: processCurationDepth.
processCurationDepth(Publication, Publication) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullCuratedPublicationUpdater: processCurationDepth.
processCurationDepth(Publication, Publication) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullPublicationEnricher: processCurationDepth.
processCurationDepth(Publication, Publication) - Method in class psidev.psi.mi.jami.imex.ImexPublicationAssigner: processCurationDepth.
processCurationDepth(Publication, Publication) - Method in class psidev.psi.mi.jami.imex.ImexPublicationRegister: processCurationDepth.
processCurationDepth(Publication, Publication) - Method in class psidev.psi.mi.jami.imex.ImexPublicationUpdater: processCurationDepth.
processCvTerm(C, C) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullCvTermEnricher: A method that can be overridden to add to or change the behaviour of enrichment without effecting fetching.
processCvTerm(C, C) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalCvTermEnricher: A method that can be overridden to add to or change the behaviour of enrichment without effecting fetching.
processCvTerm(C, C) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalCvTermUpdater: A method that can be overridden to add to or change the behaviour of enrichment without effecting fetching.
processDeadUniprotIdentity(Protein, String) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalProteinUpdater: processDeadUniprotIdentity.
processDeadUniprotIdentity(Protein, Xref) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalProteinEnricher: processDeadUniprotIdentity.
processDefinition(String, OntologyTerm) - Method in class psidev.psi.mi.jami.bridges.obo.OntologyOboLoader: Process the definition String
processDefinition(String, T) - Method in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Process the definition String
processDefinition(OntologyTerm, OntologyTerm) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOntologyTermEnricher: processDefinition.
processDefinition(OntologyTerm, OntologyTerm) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOntologyTermUpdater: processDefinition.
processDefinition(Term, OntologyTerm) - Method in class psidev.psi.mi.jami.bridges.obo.OntologyOboLoader: Process the definition of a term
processDefinition(Term, T) - Method in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Process the definition of a term
processDetectionMethods(FeatureEvidence) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEvidenceEnricher: processDetectionMethods.
processDetectionMethods(FeatureEvidence, FeatureEvidence) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEvidenceEnricher: processDetectionMethods.
processDetectionMethods(FeatureEvidence, FeatureEvidence) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEvidenceUpdater: processDetectionMethods.
PROCESSED - psidev.psi.mi.jami.bridges.imex.PublicationStatus
processElementToRemove(Object) - Method in class psidev.psi.mi.jami.utils.collection.AbstractCollectionWrapper: processElementToRemove
processEntry(XmlEntryContext) - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: Creates a new Entry, parses the entry and return the next available interaction
processEntryAndLoadNextInteraction(XmlEntryContext, Location) - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: Process an entry that is opened (source, experimentList, etc) and read the first interaction
processEvidenceType(I) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullModelledInteractionEnricher: processEvidenceType.
processEvidenceType(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullModelledInteractionEnricher: processEvidenceType.
processEvidenceType(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullModelledInteractionUpdater: processEvidenceType.
processExperiment(Experiment) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentEnricher: processExperiment.
processExperiment(Experiment, Experiment) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullExperimentUpdater: processExperiment.
processExperiment(Experiment, Experiment) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentEnricher: processExperiment.
processExperiment(InteractionEvidence) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEvidenceEnricher: processExperiment.
processExperiment(InteractionEvidence, InteractionEvidence) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionEvidenceUpdater: processExperiment.
processExperiment(InteractionEvidence, InteractionEvidence) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEvidenceEnricher: processExperiment.
processExperiment(InteractionEvidence, InteractionEvidence) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEvidenceUpdater: processExperiment.
processExperimentalPreparations(P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEvidenceEnricher: processExperimentalPreparations.
processExperimentalPreparations(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEvidenceEnricher: processExperimentalPreparations.
processExperimentalPreparations(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEvidenceUpdater: processExperimentalPreparations.
processExperimentalRole(P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEvidenceEnricher: processExperimentalRole.
processExperimentalRole(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEvidenceUpdater: processExperimentalRole.
processExperimentalRole(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEvidenceEnricher: processExperimentalRole.
processExperimentalRole(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEvidenceUpdater: processExperimentalRole.
processExpressedInOrganism(P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEvidenceEnricher: processExpressedInOrganism.
processExpressedInOrganism(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEvidenceEnricher: processExpressedInOrganism.
processExpressedInOrganism(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEvidenceUpdater: processExpressedInOrganism.
processFeatures(P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalEntityEnricher: processFeatures.
processFeatures(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullEntityUpdater: processFeatures.
processFeatures(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEvidenceUpdater: processFeatures.
processFeatures(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantUpdater: processFeatures.
processFeatures(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalEntityEnricher: processFeatures.
processFeatures(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalEntityUpdater: processFeatures.
processFeatures(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEvidenceUpdater: processFeatures.
processFeatures(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantUpdater: processFeatures.
processFeatureType(F) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: processFeatureType.
processFeatureType(F, F) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: processFeatureType.
processFeatureType(F, F) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureUpdater: processFeatureType.
processFullName(C, C) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalCvTermEnricher: processFullName.
processFullName(C, C) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalCvTermUpdater: processFullName.
processFullName(F, F) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: processFullName.
processFullName(F, F) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureUpdater: processFullName.
processFullName(T, T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorEnricher: processFullName.
processFullName(T, T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorUpdater: processFullName.
processIdentificationMethods(P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEvidenceEnricher: processIdentificationMethods.
processIdentificationMethods(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEvidenceUpdater: processIdentificationMethods.
processIdentificationMethods(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEvidenceEnricher: processIdentificationMethods.
processIdentificationMethods(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEvidenceUpdater: processIdentificationMethods.
processIdentifiers(C, C) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalCvTermEnricher: processIdentifiers.
processIdentifiers(C, C) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalCvTermUpdater: processIdentifiers.
processIdentifiers(F, F) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: processIdentifiers.
processIdentifiers(F, F) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureUpdater: processIdentifiers.
processIdentifiers(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEnricher: processIdentifiers.
processIdentifiers(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionUpdater: processIdentifiers.
processIdentifiers(Interaction, Interaction) - Method in class psidev.psi.mi.jami.imex.ImexInteractionUpdater: processIdentifiers.
processIdentifiers(Publication, Publication) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalPublicationEnricher: processIdentifiers.
processIdentifiers(Publication, Publication) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalPublicationUpdater: processIdentifiers.
processIdentifiers(Publication, Publication) - Method in class psidev.psi.mi.jami.imex.ImexPublicationAssigner: processIdentifiers.
processIdentifiers(Publication, Publication) - Method in class psidev.psi.mi.jami.imex.ImexPublicationRegister: processIdentifiers.
processIdentifiers(Publication, Publication) - Method in class psidev.psi.mi.jami.imex.ImexPublicationUpdater: processIdentifiers.
processIdentifiers(T, T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorEnricher: processIdentifiers.
processIdentifiers(T, T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorUpdater: processIdentifiers.
processInfoInDescription(String, String, OntologyTerm) - Method in class psidev.psi.mi.jami.bridges.obo.OntologyOboLoader: Process the other information in the description
processInfoInDescription(String, String, T) - Method in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Process the other information in the description
processInteractionDetectionMethod(Experiment) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentEnricher: processInteractionDetectionMethod.
processInteractionDetectionMethod(Experiment) - Method in class psidev.psi.mi.jami.imex.ImexExperimentUpdater: processInteractionDetectionMethod.
processInteractionDetectionMethod(Experiment, Experiment) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentEnricher: processInteractionDetectionMethod.
processInteractionDetectionMethod(Experiment, Experiment) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentUpdater: processInteractionDetectionMethod.
processInteractionDetectionMethod(Experiment, Experiment) - Method in class psidev.psi.mi.jami.imex.ImexExperimentUpdater: processInteractionDetectionMethod.
processInteractionEvidences(I) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullModelledInteractionEnricher: processInteractionEvidences.
processInteractionEvidences(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullModelledInteractionEnricher: processInteractionEvidences.
processInteractionEvidences(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullModelledInteractionUpdater: processInteractionEvidences.
processInteractionType(I) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEnricher: processInteractionType.
processInteractionType(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEnricher: processInteractionType.
processInteractionType(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionUpdater: processInteractionType.
processInteractionType(Interaction) - Method in class psidev.psi.mi.jami.imex.ImexInteractionUpdater: processInteractionType.
processInteractionType(Interaction, Interaction) - Method in class psidev.psi.mi.jami.imex.ImexInteractionUpdater: processInteractionType.
processInteractor(P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalEntityEnricher: processInteractor.
processInteractor(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullEntityUpdater: processInteractor.
processInteractor(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEvidenceUpdater: processInteractor.
processInteractor(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantUpdater: processInteractor.
processInteractor(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalEntityEnricher: processInteractor.
processInteractor(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalEntityUpdater: processInteractor.
processInteractor(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEnricher: processInteractor.
processInteractor(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEvidenceUpdater: processInteractor.
processInteractor(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantUpdater: processInteractor.
processInteractorPool(Collection<MitabXref>, InteractorPool) - Method in class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionLineParser: processInteractorPool.
processInteractorType(T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorEnricher: processInteractorType.
processInteractorType(T, T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorEnricher: processInteractorType.
processInteractorType(T, T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorUpdater: processInteractorType.
processInvalidPosition(String, FileSourceContext) - Method in class psidev.psi.mi.jami.crosslink.io.parser.AbstractCsvInteractionEvidenceParser: processInvalidPosition.
processJournal(Publication, Publication) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullPublicationEnricher: processJournal.
processJournal(Publication, Publication) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullPublicationUpdater: processJournal.
processJournal(Publication, Publication) - Method in class psidev.psi.mi.jami.imex.ImexPublicationAssigner: processJournal.
processJournal(Publication, Publication) - Method in class psidev.psi.mi.jami.imex.ImexPublicationRegister: processJournal.
processJournal(Publication, Publication) - Method in class psidev.psi.mi.jami.imex.ImexPublicationUpdater: processJournal.
processLinkedFeatures(F, F) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEnricher: processLinkedFeatures.
processLinkedFeatures(F, F) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureUpdater: processLinkedFeatures.
processMembers(InteractorPool, InteractorPool) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractorPoolEnricher: processMembers.
processMembers(InteractorPool, InteractorPool) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractorPoolUpdater: processMembers.
processMinimalUpdates(C, C) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullCvTermEnricher: processMinimalUpdates.
processMinimalUpdates(C, C) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullCvTermUpdater: processMinimalUpdates.
processMinimalUpdates(F) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: processMinimalUpdates.
processMinimalUpdates(F, F) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: processMinimalUpdates.
processMinimalUpdates(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionUpdater: processMinimalUpdates.
processMinimalUpdates(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEnricher: processMinimalUpdates.
processMinimalUpdates(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalModelledInteractionUpdater: processMinimalUpdates.
processMinimalUpdates(FeatureEvidence, FeatureEvidence) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceEnricher: processMinimalUpdates.
processMinimalUpdates(FeatureEvidence, FeatureEvidence) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceUpdater: processMinimalUpdates.
processMinimalUpdates(InteractionEvidence, InteractionEvidence) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEvidenceUpdater: processMinimalUpdates.
processMismatchPeptidePositions(List<CsvRange>, List<CsvRange>) - Method in class psidev.psi.mi.jami.crosslink.io.parser.AbstractCsvInteractionEvidenceParser: processMismatchPeptidePositions.
processMismatchProteinPositions(List<CsvRange>, List<CsvProtein>) - Method in class psidev.psi.mi.jami.crosslink.io.parser.AbstractCsvInteractionEvidenceParser: processMismatchProteinPositions.
processNoProtein1Error(int) - Method in class psidev.psi.mi.jami.crosslink.io.parser.AbstractCsvInteractionEvidenceParser: processNoProtein1Error.
processOntologyTerm(OntologyTerm, OntologyTerm) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOntologyTermEnricher: A method that can be overridden to add to or change the behaviour of enrichment without effecting fetching.
processOrganism(Experiment) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentEnricher: processOrganism.
processOrganism(Experiment) - Method in class psidev.psi.mi.jami.imex.ImexExperimentUpdater: processOrganism.
processOrganism(Experiment, Experiment) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentEnricher: processOrganism.
processOrganism(Experiment, Experiment) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentUpdater: processOrganism.
processOrganism(Experiment, Experiment) - Method in class psidev.psi.mi.jami.imex.ImexExperimentUpdater: processOrganism.
processOrganism(T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorEnricher: processOrganism.
processOrganism(T, T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorEnricher: processOrganism.
processOrganism(T, T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorUpdater: processOrganism.
processOrWrapElementToAdd(T) - Method in class psidev.psi.mi.jami.utils.collection.AbstractCollectionWrapper: Method to process or wrap an element to be added to the list
processOtherProperties(F) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEnricher: processOtherProperties.
processOtherProperties(F) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: processOtherProperties.
processOtherProperties(F, F) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEnricher: processOtherProperties.
processOtherProperties(F, F) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: processOtherProperties.
processOtherProperties(I) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionEnricher: The strategy used for enriching the interaction.
processOtherProperties(I) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullModelledInteractionEnricher: Strategy for the Interaction enrichment.
processOtherProperties(I) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEnricher: The strategy used for enriching the interaction.
processOtherProperties(I) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalModelledInteractionEnricher: Strategy for the Interaction enrichment.
processOtherProperties(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionEnricher: processOtherProperties.
processOtherProperties(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullModelledInteractionEnricher: processOtherProperties.
processOtherProperties(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEnricher: processOtherProperties.
processOtherProperties(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionUpdater: processOtherProperties.
processOtherProperties(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalModelledInteractionEnricher: processOtherProperties.
processOtherProperties(P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEvidenceEnricher: processOtherProperties.
processOtherProperties(P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalEntityEnricher: processOtherProperties.
processOtherProperties(P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEnricher: processOtherProperties.
processOtherProperties(P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEvidenceEnricher: processOtherProperties.
processOtherProperties(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullEntityEnricher: processOtherProperties.
processOtherProperties(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEnricher: processOtherProperties.
processOtherProperties(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEvidenceEnricher: processOtherProperties.
processOtherProperties(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantPoolEnricher: processOtherProperties.
processOtherProperties(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantPoolUpdater: processOtherProperties.
processOtherProperties(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalEntityEnricher: processOtherProperties.
processOtherProperties(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEnricher: processOtherProperties.
processOtherProperties(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEvidenceEnricher: processOtherProperties.
processOtherProperties(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantPoolEnricher: processOtherProperties.
processOtherProperties(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantPoolUpdater: processOtherProperties.
processOtherProperties(Complex) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullComplexEnricher: Strategy for the Interaction enrichment.
processOtherProperties(Complex) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullComplexUpdater: Strategy for the Interaction enrichment.
processOtherProperties(Complex) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalComplexEnricher: Strategy for the Interaction enrichment.
processOtherProperties(Complex) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalComplexUpdater: Strategy for the Interaction enrichment.
processOtherProperties(Complex, Complex) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullComplexEnricher: processOtherProperties.
processOtherProperties(Complex, Complex) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullComplexUpdater: processOtherProperties.
processOtherProperties(Complex, Complex) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalComplexEnricher: processOtherProperties.
processOtherProperties(Complex, Complex) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalComplexUpdater: processOtherProperties.
processOtherProperties(Experiment) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullExperimentEnricher: processOtherProperties.
processOtherProperties(Experiment) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentEnricher: processOtherProperties.
processOtherProperties(Experiment) - Method in class psidev.psi.mi.jami.imex.ImexExperimentUpdater: processOtherProperties.
processOtherProperties(ExperimentalParticipantPool, ExperimentalParticipantPool) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullExperimentalParticipantPoolEnricher: processOtherProperties.
processOtherProperties(ExperimentalParticipantPool, ExperimentalParticipantPool) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullExperimentalParticipantPoolUpdater: processOtherProperties.
processOtherProperties(ExperimentalParticipantPool, ExperimentalParticipantPool) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentalParticipantPoolEnricher: processOtherProperties.
processOtherProperties(ExperimentalParticipantPool, ExperimentalParticipantPool) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentalParticipantPoolUpdater: processOtherProperties.
processOtherProperties(Experiment, Experiment) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullExperimentEnricher: processOtherProperties.
processOtherProperties(Experiment, Experiment) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentEnricher: processOtherProperties.
processOtherProperties(FeatureEvidence) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEvidenceEnricher: processOtherProperties.
processOtherProperties(FeatureEvidence, FeatureEvidence) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceEnricher: processOtherProperties.
processOtherProperties(FeatureEvidence, FeatureEvidence) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceUpdater: processOtherProperties.
processOtherProperties(FeatureEvidence, FeatureEvidence) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEvidenceEnricher: processOtherProperties.
processOtherProperties(Interaction) - Method in class psidev.psi.mi.jami.imex.ImexInteractionUpdater: The strategy used for enriching the interaction.
processOtherProperties(InteractionEvidence) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionEvidenceEnricher: The strategy used for enriching the interaction.
processOtherProperties(InteractionEvidence) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEvidenceEnricher: The strategy used for enriching the interaction.
processOtherProperties(InteractionEvidence, InteractionEvidence) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionEvidenceEnricher: processOtherProperties.
processOtherProperties(InteractionEvidence, InteractionEvidence) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionEvidenceUpdater: processOtherProperties.
processOtherProperties(InteractionEvidence, InteractionEvidence) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEvidenceEnricher: processOtherProperties.
processOtherProperties(InteractionEvidence, InteractionEvidence) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEvidenceUpdater: processOtherProperties.
processOtherProperties(InteractorPool, InteractorPool) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractorPoolEnricher: processOtherProperties.
processOtherProperties(InteractorPool, InteractorPool) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractorPoolUpdater: processOtherProperties.
processOtherProperties(Organism, Organism) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullOrganismEnricher: processOtherProperties.
processOtherProperties(Organism, Organism) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullOrganismUpdater: processOtherProperties.
processOtherProperties(Organism, Organism) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOrganismEnricher: processOtherProperties.
processOtherProperties(Protein, Protein) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullProteinEnricher: processOtherProperties.
processOtherProperties(Protein, Protein) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullProteinUpdater: processOtherProperties.
processOtherProperties(Publication, Publication) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullCuratedPublicationEnricher: processOtherProperties.
processOtherProperties(Publication, Publication) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullPublicationEnricher: processOtherProperties.
processOtherProperties(Publication, Publication) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalCuratedPublicationEnricher: processOtherProperties.
processOtherProperties(Publication, Publication) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalPublicationEnricher: processOtherProperties.
processOtherProperties(T, T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorEnricher: processOtherProperties.
processOtherProperties(T, T) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullPolymerEnricher: processOtherProperties.
processOtherProperties(T, T) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullPolymerUpdater: processOtherProperties.
processParameters(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullModelledInteractionEnricher: processParameters.
processParameters(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullModelledInteractionUpdater: processParameters.
processParameters(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEvidenceEnricher: processParameters.
processParameters(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEvidenceUpdater: processParameters.
processParameters(FeatureEvidence, FeatureEvidence) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceEnricher: processParameters.
processParameters(FeatureEvidence, FeatureEvidence) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceUpdater: processParameters.
processParameters(InteractionEvidence, InteractionEvidence) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionEvidenceEnricher: processParameters.
processParameters(InteractionEvidence, InteractionEvidence) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionEvidenceUpdater: processParameters.
processParticipantCandidates(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantPoolEnricher: processParticipantCandidates.
processParticipantCandidates(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantPoolUpdater: processParticipantCandidates.
processParticipantCandidates(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantPoolEnricher: processParticipantCandidates.
processParticipantCandidates(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantPoolUpdater: processParticipantCandidates.
processParticipantCandidates(ExperimentalParticipantPool, ExperimentalParticipantPool) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullExperimentalParticipantPoolEnricher: processParticipantCandidates.
processParticipantCandidates(ExperimentalParticipantPool, ExperimentalParticipantPool) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullExperimentalParticipantPoolUpdater: processParticipantCandidates.
processParticipantCandidates(ExperimentalParticipantPool, ExperimentalParticipantPool) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentalParticipantPoolEnricher: processParticipantCandidates.
processParticipantCandidates(ExperimentalParticipantPool, ExperimentalParticipantPool) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentalParticipantPoolUpdater: processParticipantCandidates.
processParticipants(I) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEnricher: processParticipants.
processParticipants(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEnricher: processParticipants.
processParticipants(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionUpdater: processParticipants.
processParticipants(Interaction) - Method in class psidev.psi.mi.jami.imex.ImexInteractionUpdater: processParticipants.
processParticipants(Interaction, Interaction) - Method in class psidev.psi.mi.jami.imex.ImexInteractionUpdater: processParticipants.
processProteinIdentifiersError(String[], int, int) - Method in class psidev.psi.mi.jami.crosslink.io.parser.AbstractCsvInteractionEvidenceParser: processProteinIdentifiersError.
processPublication(Experiment) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentEnricher: processPublication.
processPublication(Experiment, Experiment) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentEnricher: processPublication.
processPublication(Experiment, Experiment) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentUpdater: processPublication.
processPublication(Publication, Publication) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullCuratedPublicationUpdater: The strategy for the enrichment of the publication.
processPublication(Publication, Publication) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullPublicationUpdater: The strategy for the enrichment of the publication.
processPublication(Publication, Publication) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalCuratedPublicationEnricher: The strategy for the enrichment of the publication.
processPublication(Publication, Publication) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalPublicationEnricher: The strategy for the enrichment of the publication.
processPublication(Source, Source) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalSourceEnricher: processPublication.
processPublication(Source, Source) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalSourceUpdater: processPublication.
processPublicationDate(Publication, Publication) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalPublicationEnricher: processPublicationDate.
processPublicationDate(Publication, Publication) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalPublicationUpdater: processPublicationDate.
processPublicationDate(Publication, Publication) - Method in class psidev.psi.mi.jami.imex.ImexPublicationAssigner: processPublicationDate.
processPublicationDate(Publication, Publication) - Method in class psidev.psi.mi.jami.imex.ImexPublicationRegister: processPublicationDate.
processPublicationDate(Publication, Publication) - Method in class psidev.psi.mi.jami.imex.ImexPublicationUpdater: processPublicationDate.
processPublicationTitle(Publication, Publication) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullPublicationEnricher: processPublicationTitle.
processPublicationTitle(Publication, Publication) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullPublicationUpdater: processPublicationTitle.
processPublicationTitle(Publication, Publication) - Method in class psidev.psi.mi.jami.imex.ImexPublicationAssigner: processPublicationTitle.
processPublicationTitle(Publication, Publication) - Method in class psidev.psi.mi.jami.imex.ImexPublicationRegister: processPublicationTitle.
processPublicationTitle(Publication, Publication) - Method in class psidev.psi.mi.jami.imex.ImexPublicationUpdater: processPublicationTitle.
processRanges(F) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: processRanges.
processRanges(F, F) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: processRanges.
processRanges(F, F) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureUpdater: processRanges.
processRangeStatus(CvTerm) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: processRangeStatus.
processReleasedDate(Publication, Publication) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullCuratedPublicationEnricher: processReleasedDate.
processReleasedDate(Publication, Publication) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullCuratedPublicationUpdater: processReleasedDate.
processReleasedDate(Publication, Publication) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullPublicationEnricher: processReleasedDate.
processReleasedDate(Publication, Publication) - Method in class psidev.psi.mi.jami.imex.ImexPublicationAssigner: processReleasedDate.
processReleasedDate(Publication, Publication) - Method in class psidev.psi.mi.jami.imex.ImexPublicationRegister: processReleasedDate.
processReleasedDate(Publication, Publication) - Method in class psidev.psi.mi.jami.imex.ImexPublicationUpdater: processReleasedDate.
processRemovedAliasEvent(Alias) - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: processRemovedAliasEvent
processRemovedAliasEvent(Alias) - Method in class psidev.psi.mi.jami.model.impl.DefaultProtein: processRemovedAliasEvent
processRemovedAnnotationEvent(Annotation) - Method in class psidev.psi.mi.jami.bridges.ols.LazySource: processRemovedAnnotationEvent.
processRemovedAnnotationEvent(Annotation) - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: processRemovedAnnotationEvent
processRemovedAnnotationEvent(Annotation) - Method in class psidev.psi.mi.jami.model.impl.DefaultSource: processRemovedAnnotationEvent
processRemovedChecksumEvent(Checksum) - Method in class psidev.psi.mi.jami.model.impl.AbstractInteraction: processRemovedChecksumEvent
processRemovedChecksumEvent(Checksum) - Method in class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: processRemovedChecksumEvent
processRemovedChecksumEvent(Checksum) - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: processRemovedChecksumEvent
processRemovedChecksumEvent(Checksum) - Method in class psidev.psi.mi.jami.model.impl.DefaultProtein: processRemovedChecksumEvent
processRemovedIdentifierEvent(Xref) - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature: processRemovedIdentifierEvent
processRemovedIdentifierEvent(Xref) - Method in class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity
processRemovedIdentifierEvent(Xref) - Method in class psidev.psi.mi.jami.model.impl.DefaultCvTerm: processRemovedIdentifierEvent
processRemovedIdentifierEvent(Xref) - Method in class psidev.psi.mi.jami.model.impl.DefaultGene: processRemovedIdentifierEvent
processRemovedIdentifierEvent(Xref) - Method in class psidev.psi.mi.jami.model.impl.DefaultNucleicAcid
processRemovedIdentifierEvent(Xref) - Method in class psidev.psi.mi.jami.model.impl.DefaultProtein: processRemovedIdentifierEvent
processRemovedIdentifierEvent(Xref) - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: processRemovedIdentifierEvent
processRemovedIdentifierEvent(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.CvTermXrefContainer: processRemovedIdentifierEvent.
processRemovedIdentifierEvent(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.FeatureXrefContainer: processRemovedIdentifierEvent.
processRemovedIdentifierEvent(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.PublicationXrefContainer: processRemovedIdentifierEvent.
processRemovedIdentifierEvent(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.CvTermXrefContainer: processRemovedIdentifierEvent.
processRemovedIdentifierEvent(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.FeatureXrefContainer: processRemovedIdentifierEvent.
processRemovedIdentifierEvent(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.PublicationXrefContainer: processRemovedIdentifierEvent.
processRemovedIdentifierEvent(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.CvTermXrefContainer: processRemovedIdentifierEvent.
processRemovedIdentifierEvent(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.FeatureXrefContainer: processRemovedIdentifierEvent.
processRemovedIdentifierEvent(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.PublicationXrefContainer: processRemovedIdentifierEvent.
processRemovedObjectEvent(Xref) - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature.FeatureIdentifierList
processRemovedObjectEvent(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence.ExperimentalBinaryInteractionXrefList
processRemovedObjectEvent(T) - Method in class psidev.psi.mi.jami.utils.collection.AbstractListHavingProperties: processRemovedObjectEvent
processRemovedPotentialComplexAc(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.InteractionXrefContainer
processRemovedPotentialComplexAc(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.InteractionXrefContainer
processRemovedPotentialComplexAc(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.InteractionXrefContainer
processRemovedPotentialImex(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.ExperimentXrefContainer: processRemovedPotentialImex.
processRemovedPotentialImex(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.InteractionXrefContainer: processRemovedPotentialImex.
processRemovedPotentialImex(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.PublicationXrefContainer: processRemovedPotentialImex.
processRemovedPotentialImex(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.ExperimentXrefContainer: processRemovedPotentialImex.
processRemovedPotentialImex(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.InteractionXrefContainer: processRemovedPotentialImex.
processRemovedPotentialImex(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.PublicationXrefContainer: processRemovedPotentialImex.
processRemovedPotentialImex(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.ExperimentXrefContainer: processRemovedPotentialImex.
processRemovedPotentialImex(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.InteractionXrefContainer: processRemovedPotentialImex.
processRemovedPotentialImex(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.PublicationXrefContainer: processRemovedPotentialImex.
processRemovedXrefEvent(Xref) - Method in class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: processRemovedXrefEvent
processRemovedXrefEvent(Xref) - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: processRemovedXrefEvent
processRemovedXrefEvent(Xref) - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: processRemovedXrefEvent
processRemovedXrefEvent(Xref) - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: processRemovedXrefEvent
processRemovedXrefEvent(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: processRemovedXrefEvent.
processRigid(I) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionEnricher: processRigid.
processRigid(I) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionUpdater: processRigid.
processRigid(Interaction) - Method in class psidev.psi.mi.jami.imex.ImexInteractionUpdater: processRigid.
processRole(F) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEnricher: processRole.
processRole(F, F) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEnricher: processRole.
processRole(F, F) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureUpdater: processRole.
processScientificName(Organism, Organism) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOrganismEnricher: processScientificName.
processScientificName(Organism, Organism) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOrganismUpdater: processScientificName.
processSequence(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlInteractorWriter: processSequence.
processShortabel(C, C) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalCvTermUpdater: processShortabel.
processShortLabel(F, F) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: processShortLabel.
processShortLabel(F, F) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureUpdater: processShortLabel.
processShortLabel(T, T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorEnricher: processShortLabel.
processShortLabel(T, T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorUpdater: processShortLabel.
processShortLabel(Term, OntologyTerm) - Method in class psidev.psi.mi.jami.bridges.obo.OntologyOboLoader: processShortLabel.
processShortLabel(Term, T) - Method in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: processShortLabel.
processShortName(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEnricher: processShortName.
processShortName(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionUpdater: processShortName.
processShortName(Interaction, Interaction) - Method in class psidev.psi.mi.jami.imex.ImexInteractionUpdater: processShortName.
processSource(I) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalModelledInteractionEnricher: processSource.
processSource(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullModelledInteractionUpdater: processSource.
processSource(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalModelledInteractionEnricher: processSource.
processSource(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalModelledInteractionUpdater: processSource.
processSource(Publication, Publication) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalCuratedPublicationEnricher: processSource.
processSource(Publication, Publication) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalCuratedPublicationUpdater: processSource.
processSource(Source, Source) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalSourceEnricher: A method that can be overridden to add to or change the behaviour of enrichment without effecting fetching.
processSynonyms(C, C) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullCvTermEnricher: processSynonyms.
processSynonyms(C, C) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullCvTermUpdater: processSynonyms.
processSynonyms(Term, OntologyTerm) - Method in class psidev.psi.mi.jami.bridges.obo.OntologyOboLoader: processSynonyms.
processSynonyms(Term, T) - Method in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: processSynonyms.
processTaxid(Organism, Organism) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOrganismEnricher: processTaxid.
processTaxid(Organism, Organism) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOrganismUpdater: processTaxid.
processTextFor(MitabFeature, String) - Method in class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionLineParser: processTextFor.
processTissue(Organism, Organism) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullOrganismEnricher: processTissue.
processTissue(Organism, Organism) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullOrganismUpdater: processTissue.
processUnexpectedNode() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: processUnexpectedNode.
processUpdateDate(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEnricher: processUpdateDate.
processUpdateDate(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionUpdater: processUpdateDate.
processUpdateDate(Interaction, Interaction) - Method in class psidev.psi.mi.jami.imex.ImexInteractionUpdater: processUpdateDate.
processVariableParameters(Experiment, Experiment) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullExperimentEnricher: processVariableParameters.
processVariableParameters(Experiment, Experiment) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullExperimentUpdater: processVariableParameters.
processVariableParameters(Experiment, Experiment) - Method in class psidev.psi.mi.jami.imex.ImexExperimentUpdater: processVariableParameters.
processVariableParameters(InteractionEvidence, InteractionEvidence) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionEvidenceEnricher: processVariableParameters.
processVariableParameters(InteractionEvidence, InteractionEvidence) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionEvidenceUpdater: processVariableParameters.
processXref(String, String, OntologyTerm) - Method in class psidev.psi.mi.jami.bridges.obo.OntologyOboLoader: processXref.
processXref(String, String, T) - Method in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: processXref.
processXrefDefinition(String, String, String, String, OntologyTerm) - Method in class psidev.psi.mi.jami.bridges.obo.OntologyOboLoader: processXrefDefinition.
processXrefDefinition(String, String, String, String, T) - Method in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: processXrefDefinition.
processXrefs(C, C) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullCvTermEnricher: processXrefs.
processXrefs(C, C) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullCvTermUpdater: processXrefs.
processXrefs(F, F) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEnricher: processXrefs.
processXrefs(F, F) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureUpdater: processXrefs.
processXrefs(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionEnricher: processXrefs.
processXrefs(I, I) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionUpdater: processXrefs.
processXrefs(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEnricher: processXrefs.
processXrefs(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEvidenceEnricher: processXrefs.
processXrefs(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEvidenceUpdater: processXrefs.
processXrefs(P, P) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantUpdater: processXrefs.
processXrefs(Experiment, Experiment) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullExperimentEnricher: processXrefs.
processXrefs(Experiment, Experiment) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullExperimentUpdater: processXrefs.
processXrefs(Experiment, Experiment) - Method in class psidev.psi.mi.jami.imex.ImexExperimentUpdater: processXrefs.
processXrefs(Interaction, Interaction) - Method in class psidev.psi.mi.jami.imex.ImexInteractionUpdater: processXrefs.
processXrefs(Publication, Publication) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullPublicationEnricher: processXrefs.
processXrefs(Publication, Publication) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullPublicationUpdater: processXrefs.
processXrefs(Publication, Publication) - Method in class psidev.psi.mi.jami.imex.ImexPublicationAssigner: processXrefs.
processXrefs(Publication, Publication) - Method in class psidev.psi.mi.jami.imex.ImexPublicationRegister: processXrefs.
processXrefs(Publication, Publication) - Method in class psidev.psi.mi.jami.imex.ImexPublicationUpdater: processXrefs.
processXrefs(T, T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorEnricher: processXrefs.
processXrefs(T, T) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorUpdater: processXrefs.
processXrefs(Term, OntologyTerm) - Method in class psidev.psi.mi.jami.bridges.obo.OntologyOboLoader: processXrefs.
processXrefs(Term, T) - Method in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: processXrefs.
property - Variable in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.DbReferenceType
PROPERTY_DELIMITER - Static variable in class psidev.psi.mi.jami.json.MIJsonUtils: Constant PROPERTY_DELIMITER="\""
PROPERTY_VALUE_SEPARATOR - Static variable in class psidev.psi.mi.jami.json.MIJsonUtils: Constant PROPERTY_VALUE_SEPARATOR=":"
PropertyType - Class in psidev.psi.mi.jami.bridges.uniprot.rest.response.model: Java class for propertyType complex type.
PropertyType() - Constructor for class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.PropertyType
protein - psidev.psi.mi.jami.factory.InteractorCategory
Protein - Interface in psidev.psi.mi.jami.model: Polymer of amino acids which can interact with other molecules.
PROTEIN - Static variable in interface psidev.psi.mi.jami.model.Protein: Constant PROTEIN="protein"
PROTEIN_MI - Static variable in interface psidev.psi.mi.jami.model.Protein: Constant PROTEIN_MI="MI:0326"
PROTEIN_PROTEIN - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant PROTEIN_PROTEIN="protein-protein"
PROTEIN_PROTEIN_MI - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant PROTEIN_PROTEIN_MI="MI:1047"
PROTEIN_SEPARATOR - Static variable in class psidev.psi.mi.jami.crosslink.utils.CsvUtils: Constant PROTEIN_SEPARATOR=";"
protein1 - psidev.psi.mi.jami.crosslink.io.parser.CrossLinkCSVColumns
protein2 - psidev.psi.mi.jami.crosslink.io.parser.CrossLinkCSVColumns
ProteinChangeListener - Interface in psidev.psi.mi.jami.listener: This listener listen to Protein changes
ProteinChangeLogger - Class in psidev.psi.mi.jami.listener.impl: This listener will just protein change events
ProteinChangeLogger() - Constructor for class psidev.psi.mi.jami.listener.impl.ProteinChangeLogger
ProteinComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: proteins comparator.
ProteinComparator(PolymerComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.ProteinComparator: Creates a new UnambiguousProteinComparator.
ProteinEnricher - Interface in psidev.psi.mi.jami.enricher: The Protein enricher is an enricher which can enrich either single protein or a collection.
ProteinEnricherListener - Interface in psidev.psi.mi.jami.enricher.listener: Created with IntelliJ IDEA.
ProteinEnricherListenerManager - Class in psidev.psi.mi.jami.enricher.listener.impl: A manager for listeners which holds a list of listeners.
ProteinEnricherListenerManager() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.ProteinEnricherListenerManager: A constructor to create a listener manager with no listeners.
ProteinEnricherListenerManager(ProteinEnricherListener...) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.ProteinEnricherListenerManager: A constructor to initiate a listener manager with as many listeners as required.
ProteinEnricherLogger - Class in psidev.psi.mi.jami.enricher.listener.impl.log: A logging listener.
ProteinEnricherLogger() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.log.ProteinEnricherLogger
ProteinEnricherStatisticsWriter - Class in psidev.psi.mi.jami.enricher.listener.impl.writer: A statistics logger which records changes made by the enricher.
ProteinEnricherStatisticsWriter() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.ProteinEnricherStatisticsWriter: Uses the known name of the JamiObject type as the seed to generate names for the success an failure log files.
ProteinEnricherStatisticsWriter(File, File) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.ProteinEnricherStatisticsWriter: Uses the exact files provided to log successful and failed enrichments.
ProteinEnricherStatisticsWriter(String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.ProteinEnricherStatisticsWriter: Creates the files from the provided seed file name with 'success' and 'failure' appended.
ProteinEnricherStatisticsWriter(String, String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.ProteinEnricherStatisticsWriter: Uses the provided names to create the files for successful and failed enrichment logging.
ProteinFetcher - Interface in psidev.psi.mi.jami.bridges.fetcher: Fetches the complete records which match a protein.
ProteinListeningFeatureEnricher<F extends Feature> - Interface in psidev.psi.mi.jami.enricher: An extension to the feature enricher, the protein listening form also updates ranges.
ProteinMapper - Interface in psidev.psi.mi.jami.bridges.mapper: Created with IntelliJ IDEA.
ProteinMapperListener - Interface in psidev.psi.mi.jami.bridges.mapper: Created with IntelliJ IDEA.
ProteinMappingLogger - Class in psidev.psi.mi.jami.bridges.mapper.listener: Created with IntelliJ IDEA.
ProteinMappingLogger() - Constructor for class psidev.psi.mi.jami.bridges.mapper.listener.ProteinMappingLogger
ProteinMappingStatisticsWriter - Class in psidev.psi.mi.jami.bridges.mapper.listener: Created with IntelliJ IDEA.
ProteinMappingStatisticsWriter(String) - Constructor for class psidev.psi.mi.jami.bridges.mapper.listener.ProteinMappingStatisticsWriter: Constructor for ProteinMappingStatisticsWriter.
PSI_MI - Static variable in interface psidev.psi.mi.jami.model.CvTerm: Constant PSI_MI="psi-mi"
PSI_MI_MI - Static variable in interface psidev.psi.mi.jami.model.CvTerm: Constant PSI_MI_MI="MI:0488"
PSI_MOD - Static variable in interface psidev.psi.mi.jami.model.CvTerm: Constant PSI_MOD="psi-mod"
PSI_MOD_MI - Static variable in interface psidev.psi.mi.jami.model.CvTerm: Constant PSI_MOD_MI="MI:0897"
PSI_PAR - Static variable in interface psidev.psi.mi.jami.model.CvTerm: Constant PSI_PAR="psi-par"
PSI_SCHEMA_253_LOCATION - Static variable in class psidev.psi.mi.jami.xml.utils.PsiXmlUtils: Constant PSI_SCHEMA_253_LOCATION="net:sf:psidev:mi https://raw.githubuser"{trunked}
PSI_SCHEMA_254_LOCATION - Static variable in class psidev.psi.mi.jami.xml.utils.PsiXmlUtils: Constant PSI_SCHEMA_254_LOCATION="http://psi.hupo.org/mi/mif https://raw."{trunked}
PSI_SCHEMA_300_LOCATION - Static variable in class psidev.psi.mi.jami.xml.utils.PsiXmlUtils: Constant PSI_SCHEMA_300_LOCATION="http://psi.hupo.org/mi/mif300 https://r"{trunked}
psidev.psi.mi.jami.analysis.graph - package psidev.psi.mi.jami.analysis.graph
psidev.psi.mi.jami.analysis.graph.model - package psidev.psi.mi.jami.analysis.graph.model
psidev.psi.mi.jami.batch - package psidev.psi.mi.jami.batch
psidev.psi.mi.jami.binary - package psidev.psi.mi.jami.binary
psidev.psi.mi.jami.binary.expansion - package psidev.psi.mi.jami.binary.expansion
psidev.psi.mi.jami.binary.impl - package psidev.psi.mi.jami.binary.impl
psidev.psi.mi.jami.bridges.chebi - package psidev.psi.mi.jami.bridges.chebi
psidev.psi.mi.jami.bridges.europubmedcentral - package psidev.psi.mi.jami.bridges.europubmedcentral
psidev.psi.mi.jami.bridges.exception - package psidev.psi.mi.jami.bridges.exception
psidev.psi.mi.jami.bridges.fetcher - package psidev.psi.mi.jami.bridges.fetcher
psidev.psi.mi.jami.bridges.fetcher.mock - package psidev.psi.mi.jami.bridges.fetcher.mock
psidev.psi.mi.jami.bridges.imex - package psidev.psi.mi.jami.bridges.imex
psidev.psi.mi.jami.bridges.imex.extension - package psidev.psi.mi.jami.bridges.imex.extension
psidev.psi.mi.jami.bridges.imex.mock - package psidev.psi.mi.jami.bridges.imex.mock
psidev.psi.mi.jami.bridges.mapper - package psidev.psi.mi.jami.bridges.mapper
psidev.psi.mi.jami.bridges.mapper.listener - package psidev.psi.mi.jami.bridges.mapper.listener
psidev.psi.mi.jami.bridges.mapper.mock - package psidev.psi.mi.jami.bridges.mapper.mock
psidev.psi.mi.jami.bridges.obo - package psidev.psi.mi.jami.bridges.obo
psidev.psi.mi.jami.bridges.ols - package psidev.psi.mi.jami.bridges.ols
psidev.psi.mi.jami.bridges.ols.utils - package psidev.psi.mi.jami.bridges.ols.utils
psidev.psi.mi.jami.bridges.ontologymanager - package psidev.psi.mi.jami.bridges.ontologymanager
psidev.psi.mi.jami.bridges.ontologymanager.impl - package psidev.psi.mi.jami.bridges.ontologymanager.impl
psidev.psi.mi.jami.bridges.ontologymanager.impl.local - package psidev.psi.mi.jami.bridges.ontologymanager.impl.local
psidev.psi.mi.jami.bridges.ontologymanager.impl.ols - package psidev.psi.mi.jami.bridges.ontologymanager.impl.ols
psidev.psi.mi.jami.bridges.uniprot - package psidev.psi.mi.jami.bridges.uniprot
psidev.psi.mi.jami.bridges.uniprot.rest - package psidev.psi.mi.jami.bridges.uniprot.rest
psidev.psi.mi.jami.bridges.uniprot.rest.response.model - package psidev.psi.mi.jami.bridges.uniprot.rest.response.model
psidev.psi.mi.jami.bridges.uniprot.taxonomy - package psidev.psi.mi.jami.bridges.uniprot.taxonomy
psidev.psi.mi.jami.bridges.uniprot.util - package psidev.psi.mi.jami.bridges.uniprot.util
psidev.psi.mi.jami.bridges.unisave - package psidev.psi.mi.jami.bridges.unisave
psidev.psi.mi.jami.commons - package psidev.psi.mi.jami.commons
psidev.psi.mi.jami.crosslink - package psidev.psi.mi.jami.crosslink
psidev.psi.mi.jami.crosslink.extension - package psidev.psi.mi.jami.crosslink.extension
psidev.psi.mi.jami.crosslink.extension.datasource - package psidev.psi.mi.jami.crosslink.extension.datasource
psidev.psi.mi.jami.crosslink.io.iterator - package psidev.psi.mi.jami.crosslink.io.iterator
psidev.psi.mi.jami.crosslink.io.parser - package psidev.psi.mi.jami.crosslink.io.parser
psidev.psi.mi.jami.crosslink.listener - package psidev.psi.mi.jami.crosslink.listener
psidev.psi.mi.jami.crosslink.utils - package psidev.psi.mi.jami.crosslink.utils
psidev.psi.mi.jami.datasource - package psidev.psi.mi.jami.datasource
psidev.psi.mi.jami.enricher - package psidev.psi.mi.jami.enricher
psidev.psi.mi.jami.enricher.exception - package psidev.psi.mi.jami.enricher.exception
psidev.psi.mi.jami.enricher.impl - package psidev.psi.mi.jami.enricher.impl
psidev.psi.mi.jami.enricher.impl.full - package psidev.psi.mi.jami.enricher.impl.full
psidev.psi.mi.jami.enricher.impl.minimal - package psidev.psi.mi.jami.enricher.impl.minimal
psidev.psi.mi.jami.enricher.listener - package psidev.psi.mi.jami.enricher.listener
psidev.psi.mi.jami.enricher.listener.impl - package psidev.psi.mi.jami.enricher.listener.impl
psidev.psi.mi.jami.enricher.listener.impl.log - package psidev.psi.mi.jami.enricher.listener.impl.log
psidev.psi.mi.jami.enricher.listener.impl.writer - package psidev.psi.mi.jami.enricher.listener.impl.writer
psidev.psi.mi.jami.enricher.util - package psidev.psi.mi.jami.enricher.util
psidev.psi.mi.jami.enricher.util.diff - package psidev.psi.mi.jami.enricher.util.diff
psidev.psi.mi.jami.examples.bridges - package psidev.psi.mi.jami.examples.bridges
psidev.psi.mi.jami.examples.core - package psidev.psi.mi.jami.examples.core
psidev.psi.mi.jami.examples.crosslinkCSV - package psidev.psi.mi.jami.examples.crosslinkCSV
psidev.psi.mi.jami.examples.html - package psidev.psi.mi.jami.examples.html
psidev.psi.mi.jami.examples.interactionviewer - package psidev.psi.mi.jami.examples.interactionviewer
psidev.psi.mi.jami.exception - package psidev.psi.mi.jami.exception
psidev.psi.mi.jami.factory - package psidev.psi.mi.jami.factory
psidev.psi.mi.jami.factory.options - package psidev.psi.mi.jami.factory.options
psidev.psi.mi.jami.html - package psidev.psi.mi.jami.html
psidev.psi.mi.jami.html.utils - package psidev.psi.mi.jami.html.utils
psidev.psi.mi.jami.imex - package psidev.psi.mi.jami.imex
psidev.psi.mi.jami.imex.actions - package psidev.psi.mi.jami.imex.actions
psidev.psi.mi.jami.imex.actions.impl - package psidev.psi.mi.jami.imex.actions.impl
psidev.psi.mi.jami.imex.listener - package psidev.psi.mi.jami.imex.listener
psidev.psi.mi.jami.imex.listener.impl - package psidev.psi.mi.jami.imex.listener.impl
psidev.psi.mi.jami.json - package psidev.psi.mi.jami.json
psidev.psi.mi.jami.json.binary - package psidev.psi.mi.jami.json.binary
psidev.psi.mi.jami.json.binary.elements - package psidev.psi.mi.jami.json.binary.elements
psidev.psi.mi.jami.json.elements - package psidev.psi.mi.jami.json.elements
psidev.psi.mi.jami.json.nary - package psidev.psi.mi.jami.json.nary
psidev.psi.mi.jami.listener - package psidev.psi.mi.jami.listener
psidev.psi.mi.jami.listener.comparator - package psidev.psi.mi.jami.listener.comparator
psidev.psi.mi.jami.listener.comparator.analyzer - package psidev.psi.mi.jami.listener.comparator.analyzer
psidev.psi.mi.jami.listener.comparator.event - package psidev.psi.mi.jami.listener.comparator.event
psidev.psi.mi.jami.listener.comparator.impl - package psidev.psi.mi.jami.listener.comparator.impl
psidev.psi.mi.jami.listener.comparator.observer - package psidev.psi.mi.jami.listener.comparator.observer
psidev.psi.mi.jami.listener.impl - package psidev.psi.mi.jami.listener.impl
psidev.psi.mi.jami.model - package psidev.psi.mi.jami.model
psidev.psi.mi.jami.model.impl - package psidev.psi.mi.jami.model.impl
psidev.psi.mi.jami.tab - package psidev.psi.mi.jami.tab
psidev.psi.mi.jami.tab.extension - package psidev.psi.mi.jami.tab.extension
psidev.psi.mi.jami.tab.extension.datasource - package psidev.psi.mi.jami.tab.extension.datasource
psidev.psi.mi.jami.tab.extension.factory - package psidev.psi.mi.jami.tab.extension.factory
psidev.psi.mi.jami.tab.extension.factory.options - package psidev.psi.mi.jami.tab.extension.factory.options
psidev.psi.mi.jami.tab.io.iterator - package psidev.psi.mi.jami.tab.io.iterator
psidev.psi.mi.jami.tab.io.parser - package psidev.psi.mi.jami.tab.io.parser
psidev.psi.mi.jami.tab.io.writer - package psidev.psi.mi.jami.tab.io.writer
psidev.psi.mi.jami.tab.io.writer.extended - package psidev.psi.mi.jami.tab.io.writer.extended
psidev.psi.mi.jami.tab.io.writer.feeder - package psidev.psi.mi.jami.tab.io.writer.feeder
psidev.psi.mi.jami.tab.io.writer.feeder.extended - package psidev.psi.mi.jami.tab.io.writer.feeder.extended
psidev.psi.mi.jami.tab.listener - package psidev.psi.mi.jami.tab.listener
psidev.psi.mi.jami.tab.utils - package psidev.psi.mi.jami.tab.utils
psidev.psi.mi.jami.utils - package psidev.psi.mi.jami.utils
psidev.psi.mi.jami.utils.checksum - package psidev.psi.mi.jami.utils.checksum
psidev.psi.mi.jami.utils.clone - package psidev.psi.mi.jami.utils.clone
psidev.psi.mi.jami.utils.collection - package psidev.psi.mi.jami.utils.collection
psidev.psi.mi.jami.utils.comparator - package psidev.psi.mi.jami.utils.comparator
psidev.psi.mi.jami.utils.comparator.alias - package psidev.psi.mi.jami.utils.comparator.alias
psidev.psi.mi.jami.utils.comparator.annotation - package psidev.psi.mi.jami.utils.comparator.annotation
psidev.psi.mi.jami.utils.comparator.checksum - package psidev.psi.mi.jami.utils.comparator.checksum
psidev.psi.mi.jami.utils.comparator.confidence - package psidev.psi.mi.jami.utils.comparator.confidence
psidev.psi.mi.jami.utils.comparator.cooperativity - package psidev.psi.mi.jami.utils.comparator.cooperativity
psidev.psi.mi.jami.utils.comparator.cv - package psidev.psi.mi.jami.utils.comparator.cv
psidev.psi.mi.jami.utils.comparator.experiment - package psidev.psi.mi.jami.utils.comparator.experiment
psidev.psi.mi.jami.utils.comparator.feature - package psidev.psi.mi.jami.utils.comparator.feature
psidev.psi.mi.jami.utils.comparator.interaction - package psidev.psi.mi.jami.utils.comparator.interaction
psidev.psi.mi.jami.utils.comparator.interactor - package psidev.psi.mi.jami.utils.comparator.interactor
psidev.psi.mi.jami.utils.comparator.organism - package psidev.psi.mi.jami.utils.comparator.organism
psidev.psi.mi.jami.utils.comparator.parameter - package psidev.psi.mi.jami.utils.comparator.parameter
psidev.psi.mi.jami.utils.comparator.participant - package psidev.psi.mi.jami.utils.comparator.participant
psidev.psi.mi.jami.utils.comparator.publication - package psidev.psi.mi.jami.utils.comparator.publication
psidev.psi.mi.jami.utils.comparator.range - package psidev.psi.mi.jami.utils.comparator.range
psidev.psi.mi.jami.utils.comparator.xref - package psidev.psi.mi.jami.utils.comparator.xref
psidev.psi.mi.jami.xml - package psidev.psi.mi.jami.xml
psidev.psi.mi.jami.xml.cache - package psidev.psi.mi.jami.xml.cache
psidev.psi.mi.jami.xml.exception - package psidev.psi.mi.jami.xml.exception
psidev.psi.mi.jami.xml.io.iterator - package psidev.psi.mi.jami.xml.io.iterator
psidev.psi.mi.jami.xml.io.parser - package psidev.psi.mi.jami.xml.io.parser
psidev.psi.mi.jami.xml.io.writer - package psidev.psi.mi.jami.xml.io.writer
psidev.psi.mi.jami.xml.io.writer.compact - package psidev.psi.mi.jami.xml.io.writer.compact
psidev.psi.mi.jami.xml.io.writer.compact.extended - package psidev.psi.mi.jami.xml.io.writer.compact.extended
psidev.psi.mi.jami.xml.io.writer.elements - package psidev.psi.mi.jami.xml.io.writer.elements
psidev.psi.mi.jami.xml.io.writer.elements.impl - package psidev.psi.mi.jami.xml.io.writer.elements.impl
psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts - package psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts
psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25 - package psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25
psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30 - package psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30
psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25 - package psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25
psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30 - package psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30
psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25 - package psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25
psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30 - package psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30
psidev.psi.mi.jami.xml.io.writer.elements.impl.extended - package psidev.psi.mi.jami.xml.io.writer.elements.impl.extended
psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact - package psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact
psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25 - package psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25
psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30 - package psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30
psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded - package psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded
psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25 - package psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25
psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30 - package psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30
psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25 - package psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25
psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml253 - package psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml253
psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml254 - package psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml254
psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30 - package psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30
psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25 - package psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25
psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30 - package psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30
psidev.psi.mi.jami.xml.io.writer.expanded - package psidev.psi.mi.jami.xml.io.writer.expanded
psidev.psi.mi.jami.xml.io.writer.expanded.extended - package psidev.psi.mi.jami.xml.io.writer.expanded.extended
psidev.psi.mi.jami.xml.listener - package psidev.psi.mi.jami.xml.listener
psidev.psi.mi.jami.xml.model - package psidev.psi.mi.jami.xml.model
psidev.psi.mi.jami.xml.model.extension - package psidev.psi.mi.jami.xml.model.extension
psidev.psi.mi.jami.xml.model.extension.binary - package psidev.psi.mi.jami.xml.model.extension.binary
psidev.psi.mi.jami.xml.model.extension.binary.xml253 - package psidev.psi.mi.jami.xml.model.extension.binary.xml253
psidev.psi.mi.jami.xml.model.extension.binary.xml254 - package psidev.psi.mi.jami.xml.model.extension.binary.xml254
psidev.psi.mi.jami.xml.model.extension.binary.xml30 - package psidev.psi.mi.jami.xml.model.extension.binary.xml30
psidev.psi.mi.jami.xml.model.extension.datasource - package psidev.psi.mi.jami.xml.model.extension.datasource
psidev.psi.mi.jami.xml.model.extension.factory - package psidev.psi.mi.jami.xml.model.extension.factory
psidev.psi.mi.jami.xml.model.extension.factory.options - package psidev.psi.mi.jami.xml.model.extension.factory.options
psidev.psi.mi.jami.xml.model.extension.factory.xml25 - package psidev.psi.mi.jami.xml.model.extension.factory.xml25
psidev.psi.mi.jami.xml.model.extension.factory.xml30 - package psidev.psi.mi.jami.xml.model.extension.factory.xml30
psidev.psi.mi.jami.xml.model.extension.xml253 - package psidev.psi.mi.jami.xml.model.extension.xml253
psidev.psi.mi.jami.xml.model.extension.xml254 - package psidev.psi.mi.jami.xml.model.extension.xml254
psidev.psi.mi.jami.xml.model.extension.xml300 - package psidev.psi.mi.jami.xml.model.extension.xml300
psidev.psi.mi.jami.xml.model.reference - package psidev.psi.mi.jami.xml.model.reference
psidev.psi.mi.jami.xml.model.reference.xml253 - package psidev.psi.mi.jami.xml.model.reference.xml253
psidev.psi.mi.jami.xml.model.reference.xml254 - package psidev.psi.mi.jami.xml.model.reference.xml254
psidev.psi.mi.jami.xml.model.reference.xml300 - package psidev.psi.mi.jami.xml.model.reference.xml300
psidev.psi.mi.jami.xml.model.xml253 - package psidev.psi.mi.jami.xml.model.xml253
psidev.psi.mi.jami.xml.model.xml254 - package psidev.psi.mi.jami.xml.model.xml254
psidev.psi.mi.jami.xml.model.xml30 - package psidev.psi.mi.jami.xml.model.xml30
psidev.psi.mi.jami.xml.utils - package psidev.psi.mi.jami.xml.utils
PsiJami - Class in psidev.psi.mi.jami.commons: This class is a central access to basic methods in psi-jami.
PsiJami() - Constructor for class psidev.psi.mi.jami.commons.PsiJami
psimi_xml - psidev.psi.mi.jami.commons.MIFileType
PsiXmlCausalRelationshipWriter - Interface in psidev.psi.mi.jami.xml.io.writer.elements: Interface for writers of PSI-XML causal relationships elements It asks for the participant source in addition to the causal relationship
PsiXmlDataSourceFactory - Class in psidev.psi.mi.jami.xml.model.extension.factory: Factory for creating a Psi-XML datasource
PsiXmlDataSourceOptions - Class in psidev.psi.mi.jami.xml.model.extension.factory.options: Class that lists all possible options for PsiXml DataSource.
PsiXmlDataSourceOptions() - Constructor for class psidev.psi.mi.jami.xml.model.extension.factory.options.PsiXmlDataSourceOptions
PsiXmlElementWriter<T> - Interface in psidev.psi.mi.jami.xml.io.writer.elements: Interface for writers of PSI-XML elements
PsiXmlElementWriterFactory - Class in psidev.psi.mi.jami.xml.io.writer.elements: Factory to initialise PSI-XML element writers depending on the version and the interaction object category
PsiXmlExperimentWriter - Interface in psidev.psi.mi.jami.xml.io.writer.elements: PsiXml Experiment Writer
PsiXmlExtendedInteractionWriter<T extends Interaction> - Interface in psidev.psi.mi.jami.xml.io.writer.elements: Interface for interaction writers writing extensions
PsiXmlFileIndexCache - Class in psidev.psi.mi.jami.xml.cache: Cache using a file and a weak map to cache the objects
PsiXmlFileIndexCache(File, Unmarshaller, PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: Constructor for PsiXmlFileIndexCache.
PsiXmlFileIndexCache(File, PsiXmlVersion, InteractionCategory) - Constructor for class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: Constructor for PsiXmlFileIndexCache.
PsiXmlIdCache - Interface in psidev.psi.mi.jami.xml.cache: Index that can retrieve a MI object given its id
PsiXmlInteraction<T extends Participant> - Interface in psidev.psi.mi.jami.xml.model.extension: Interaction for PSI-XML which contains the entry
PsiXmlInteractionWriter<T extends Interaction> - Interface in psidev.psi.mi.jami.xml.io.writer.elements: Interface for PSI-XML interaction writers that have to write an experiment in XML even if the interaction does not have any experimental details
PsiXmlLocator - Class in psidev.psi.mi.jami.xml.model.extension: Psi-XML source locator
PsiXmlLocator(int, int, int) - Constructor for class psidev.psi.mi.jami.xml.model.extension.PsiXmlLocator: Constructor for PsiXmlLocator.
PsiXmlLocator(int, int, Integer) - Constructor for class psidev.psi.mi.jami.xml.model.extension.PsiXmlLocator: Constructor for PsiXmlLocator.
PsiXmlObjectCache - Interface in psidev.psi.mi.jami.xml.cache: Index that can assign/retrieve an id for a given MI object in a compact XML environment
PsiXmlParameterWriter - Interface in psidev.psi.mi.jami.xml.io.writer.elements: Psi XML writer for parameters.
PsiXmlParser<T extends Interaction> - Interface in psidev.psi.mi.jami.xml.io.parser: Interface for PsiXmlParser
PsiXmlParserCompositeListener - Class in psidev.psi.mi.jami.xml.listener: This class contains several MI file listeners
PsiXmlParserCompositeListener() - Constructor for class psidev.psi.mi.jami.xml.listener.PsiXmlParserCompositeListener: Constructor for PsiXmlParserCompositeListener.
PsiXmlParserException - Exception in psidev.psi.mi.jami.xml.exception: An exception to be thrown when a XML file is invalid and cannot be parsed properly
PsiXmlParserException() - Constructor for exception psidev.psi.mi.jami.xml.exception.PsiXmlParserException: Constructor for PsiXmlParserException.
PsiXmlParserException(int, int) - Constructor for exception psidev.psi.mi.jami.xml.exception.PsiXmlParserException: Constructor for PsiXmlParserException.
PsiXmlParserException(int, int, String, Throwable) - Constructor for exception psidev.psi.mi.jami.xml.exception.PsiXmlParserException: Constructor for PsiXmlParserException.
PsiXmlParserException(String) - Constructor for exception psidev.psi.mi.jami.xml.exception.PsiXmlParserException: Constructor for PsiXmlParserException.
PsiXmlParserException(String, Throwable) - Constructor for exception psidev.psi.mi.jami.xml.exception.PsiXmlParserException: Constructor for PsiXmlParserException.
PsiXmlParserException(Throwable) - Constructor for exception psidev.psi.mi.jami.xml.exception.PsiXmlParserException: Constructor for PsiXmlParserException.
PsiXmlParserException(FileSourceLocator) - Constructor for exception psidev.psi.mi.jami.xml.exception.PsiXmlParserException: Constructor for PsiXmlParserException.
PsiXmlParserException(FileSourceLocator, String, Throwable) - Constructor for exception psidev.psi.mi.jami.xml.exception.PsiXmlParserException: Constructor for PsiXmlParserException.
PsiXmlParserListener - Interface in psidev.psi.mi.jami.xml.listener: A listener listening to events when parsing a mitab file
PsiXmlParserLogger - Class in psidev.psi.mi.jami.xml.listener: Logger for MitabParser
PsiXmlParserLogger() - Constructor for class psidev.psi.mi.jami.xml.listener.PsiXmlParserLogger
PsiXmlParticipantWriter<T extends Participant> - Interface in psidev.psi.mi.jami.xml.io.writer.elements: Interface for PSI-XML participant writers.
PsiXmlPublicationWriter - Interface in psidev.psi.mi.jami.xml.io.writer.elements: Interface for XmlPublicationWriter.
PsiXmlSource - Interface in psidev.psi.mi.jami.xml.model.extension.datasource: Interface for PSI-MI XML sources that can parse full PSI-MI XML files
PsiXmlSourceWriter - Interface in psidev.psi.mi.jami.xml.io.writer.elements: Interface for PSI-XML source writers
PsiXmlStreamSource - Interface in psidev.psi.mi.jami.xml.model.extension.datasource: Interface for PSI-MI XML datasources that can stream PSI-MI XML files
PsiXmlType - Enum in psidev.psi.mi.jami.xml: The type of PSI-XML.
PsiXmlUtils - Class in psidev.psi.mi.jami.xml.utils: Utility class for psixml
PsiXmlUtils() - Constructor for class psidev.psi.mi.jami.xml.utils.PsiXmlUtils
PsiXmlVariableNameWriter<T> - Interface in psidev.psi.mi.jami.xml.io.writer.elements: Interface for writers of PSI-XML object elements that do have a variable node name but otherwise are the same element type.
PsiXmlVersion - Enum in psidev.psi.mi.jami.xml: Existing PSI-MI xml versions
PsiXmlWriterFactory - Class in psidev.psi.mi.jami.xml.model.extension.factory: Factory for creating a PSI-XML writer
PsiXmlWriterOptions - Class in psidev.psi.mi.jami.xml.model.extension.factory.options: Class that lists all possible options for PsiXml Writer.
PsiXmlWriterOptions() - Constructor for class psidev.psi.mi.jami.xml.model.extension.factory.options.PsiXmlWriterOptions
PsiXmlXrefWriter - Interface in psidev.psi.mi.jami.xml.io.writer.elements: Interface for PSI-XML Xref writers
PUB_AUTH - psidev.psi.mi.jami.tab.MitabColumnName
PUB_ID - psidev.psi.mi.jami.tab.MitabColumnName
Publication - Interface in psidev.psi.mi.jami.model: A scientific publication which has been curated by an interaction database.
PUBLICATION_JOURNAL - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant PUBLICATION_JOURNAL="journal"
PUBLICATION_JOURNAL_MI - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant PUBLICATION_JOURNAL_MI="MI:0885"
PUBLICATION_TITLE - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant PUBLICATION_TITLE="publication title"
PUBLICATION_TITLE_MI - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant PUBLICATION_TITLE_MI="MI:1091"
PUBLICATION_YEAR - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant PUBLICATION_YEAR="publication year"
PUBLICATION_YEAR_FORMAT - Static variable in class psidev.psi.mi.jami.tab.utils.MitabUtils: Constant PUBLICATION_YEAR_FORMAT
PUBLICATION_YEAR_MI - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant PUBLICATION_YEAR_MI="MI:0886"
PublicationAdminGroupSynchronizer - Interface in psidev.psi.mi.jami.imex.actions: Interface for synchronizing admin group of a publication in IMEx central
PublicationAdminGroupSynchronizerImpl - Class in psidev.psi.mi.jami.imex.actions.impl: This class is for synchronizing the admin group of a publication in imex central
PublicationAdminGroupSynchronizerImpl(ImexCentralClient) - Constructor for class psidev.psi.mi.jami.imex.actions.impl.PublicationAdminGroupSynchronizerImpl: Constructor for PublicationAdminGroupSynchronizerImpl.
PublicationChangeListener - Interface in psidev.psi.mi.jami.listener: Listener to publication changes
PublicationChangeLogger - Class in psidev.psi.mi.jami.listener.impl: This listener will listen to publication change events
PublicationChangeLogger() - Constructor for class psidev.psi.mi.jami.listener.impl.PublicationChangeLogger
PublicationCloner - Class in psidev.psi.mi.jami.utils.clone: Utility class for cloning publications
PublicationCloner() - Constructor for class psidev.psi.mi.jami.utils.clone.PublicationCloner
PublicationComparator - Class in psidev.psi.mi.jami.utils.comparator.publication: publication comparator.
PublicationComparator(Comparator<Xref>) - Constructor for class psidev.psi.mi.jami.utils.comparator.publication.PublicationComparator: Constructor for PublicationComparator.
PublicationComparator(CollectionComparator<Xref>) - Constructor for class psidev.psi.mi.jami.utils.comparator.publication.PublicationComparator: Constructor for PublicationComparator.
PublicationEnricher - Interface in psidev.psi.mi.jami.enricher: An enricher for publications which can enrich either a single publication or a collection.
PublicationEnricherListener - Interface in psidev.psi.mi.jami.enricher.listener: An extension of the PublicationChangeListener with specific methods related to the process of enriching.
PublicationEnricherListenerManager - Class in psidev.psi.mi.jami.enricher.listener.impl: A manager for listeners which holds a list of listeners.
PublicationEnricherListenerManager() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.PublicationEnricherListenerManager: A constructor to create a listener manager with no listeners.
PublicationEnricherListenerManager(PublicationEnricherListener...) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.PublicationEnricherListenerManager: A constructor to initiate a listener manager with as many listeners as required.
PublicationEnricherLogger - Class in psidev.psi.mi.jami.enricher.listener.impl.log: A logging listener.
PublicationEnricherLogger() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.log.PublicationEnricherLogger
PublicationEnricherStatisticsWriter - Class in psidev.psi.mi.jami.enricher.listener.impl.writer: A statistics logger which records changes made by the enricher.
PublicationEnricherStatisticsWriter() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.PublicationEnricherStatisticsWriter: Uses the known name of the JamiObject type as the seed to generate names for the success an failure log files.
PublicationEnricherStatisticsWriter(File, File) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.PublicationEnricherStatisticsWriter: Uses the exact files provided to log successful and failed enrichments.
PublicationEnricherStatisticsWriter(String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.PublicationEnricherStatisticsWriter: Creates the files from the provided seed file name with 'success' and 'failure' appended.
PublicationEnricherStatisticsWriter(String, String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.PublicationEnricherStatisticsWriter: Uses the provided names to create the files for successful and failed enrichment logging.
PublicationFetcher - Interface in psidev.psi.mi.jami.bridges.fetcher: The interface for fetching a publication record.
PublicationIdentifierSynchronizer - Interface in psidev.psi.mi.jami.imex.actions: Interface for synchronizing publication identifiers with IMEx central
PublicationIdentifierSynchronizerImpl - Class in psidev.psi.mi.jami.imex.actions.impl: Class which update identifiers in IMEx central if a submitted publication has been published in PubMed
PublicationIdentifierSynchronizerImpl(ImexCentralClient) - Constructor for class psidev.psi.mi.jami.imex.actions.impl.PublicationIdentifierSynchronizerImpl: Constructor for PublicationIdentifierSynchronizerImpl.
PublicationImexEnricherListener - Interface in psidev.psi.mi.jami.imex.listener: An extension of the PublicationEnricherListener with specific methods related to the process of enriching.
PublicationImexEnricherListenerManager - Class in psidev.psi.mi.jami.imex.listener.impl: A manager for listeners which holds a list of listeners.
PublicationImexEnricherListenerManager() - Constructor for class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherListenerManager: A constructor to create a listener manager with no listeners.
PublicationImexEnricherListenerManager(PublicationImexEnricherListener...) - Constructor for class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherListenerManager: A constructor to initiate a listener manager with as many listeners as required.
PublicationImexEnricherLogger - Class in psidev.psi.mi.jami.imex.listener.impl: A logging listener.
PublicationImexEnricherLogger() - Constructor for class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherLogger
PublicationImexEnricherStatisticsWriter - Class in psidev.psi.mi.jami.imex.listener.impl: A statistics logger which records changes made by the enricher.
PublicationImexEnricherStatisticsWriter() - Constructor for class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherStatisticsWriter: Uses the known name of the JamiObject type as the seed to generate names for the success an failure log files.
PublicationImexEnricherStatisticsWriter(File, File) - Constructor for class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherStatisticsWriter: Uses the exact files provided to log successful and failed enrichments.
PublicationImexEnricherStatisticsWriter(String) - Constructor for class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherStatisticsWriter: Creates the files from the provided seed file name with 'success' and 'failure' appended.
PublicationImexEnricherStatisticsWriter(String, String) - Constructor for class psidev.psi.mi.jami.imex.listener.impl.PublicationImexEnricherStatisticsWriter: Uses the provided names to create the files for successful and failed enrichment logging.
PublicationStatus - Enum in psidev.psi.mi.jami.bridges.imex: Various statuses an IMEx publication can have.
PublicationStatusSynchronizer - Interface in psidev.psi.mi.jami.imex.actions: interface for synchronizing publication status with IMEx central
PublicationStatusSynchronizerImpl - Class in psidev.psi.mi.jami.imex.actions.impl: It updates and synchronize the publications status if it is released (has a released date)
PublicationStatusSynchronizerImpl(ImexCentralClient) - Constructor for class psidev.psi.mi.jami.imex.actions.impl.PublicationStatusSynchronizerImpl: Constructor for PublicationStatusSynchronizerImpl.
PublicationStream - Interface in psidev.psi.mi.jami.datasource: A publication data source allows to stream the publications of a given dataSource
PublicationUtils - Class in psidev.psi.mi.jami.utils: Factory for publications
PublicationUtils() - Constructor for class psidev.psi.mi.jami.utils.PublicationUtils
PublicationXrefContainer - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xref container for a Publication
PublicationXrefContainer - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xref container for a Publication
PublicationXrefContainer - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xref container for a Publication
PublicationXrefContainer() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.PublicationXrefContainer
PublicationXrefContainer() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.PublicationXrefContainer
PublicationXrefContainer() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.PublicationXrefContainer
PUBMED - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant PUBMED="pubmed"
PUBMED_MI - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant PUBMED_MI="MI:0446"
pubmed_regexp - Static variable in interface psidev.psi.mi.jami.bridges.imex.ImexCentralClient: Constant pubmed_regexp
PUTATIVE_SELF_ROLE - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant PUTATIVE_SELF_ROLE="putative self"
PUTATIVE_SELF_ROLE_MI - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant PUTATIVE_SELF_ROLE_MI="MI:0898"

Q

QUOTE - Static variable in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Constant QUOTE="""
QUOTE - Static variable in class psidev.psi.mi.jami.bridges.ols.utils.OlsUtils: Constant QUOTE="""
QUOTED_STRING - psidev.psi.mi.jami.tab.io.parser.TokenKind
QUOTED_STRING - Static variable in interface psidev.psi.mi.jami.tab.io.parser.MitabLineParserConstants: RegularExpression Id.

R

RAGGED_N_TERMINAL - Static variable in interface psidev.psi.mi.jami.model.Position: Constant RAGGED_N_TERMINAL="ragged n-terminus"
RAGGED_N_TERMINAL_MI - Static variable in interface psidev.psi.mi.jami.model.Position: Constant RAGGED_N_TERMINAL_MI="MI:0341"
range(int) - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
Range - Interface in psidev.psi.mi.jami.model: A feature range indicates the positions of a feature in the interactor sequence
RANGE - Static variable in interface psidev.psi.mi.jami.model.Position: Constant RANGE="range"
RANGE_FULL - Static variable in interface psidev.psi.mi.jami.model.Position: Constant RANGE_FULL="range"
RANGE_MI - Static variable in interface psidev.psi.mi.jami.model.Position: Constant RANGE_MI="MI:0338"
RANGE_SEPARATOR - psidev.psi.mi.jami.tab.io.parser.TokenKind
RANGE_SEPARATOR - Static variable in interface psidev.psi.mi.jami.tab.io.parser.MitabLineParserConstants: RegularExpression Id.
RANGE_SEPARATOR - Static variable in class psidev.psi.mi.jami.tab.utils.MitabUtils: Constant RANGE_SEPARATOR=","
RangeAndResultingSequenceComparator - Class in psidev.psi.mi.jami.utils.comparator.range: Simple range comparator that will also compare resulting sequences..
RangeAndResultingSequenceComparator(PositionComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.range.RangeAndResultingSequenceComparator: Creates a new RangeComparator
RangeCloner - Class in psidev.psi.mi.jami.utils.clone: Utility class for cloning ranges
RangeCloner() - Constructor for class psidev.psi.mi.jami.utils.clone.RangeCloner
RangeCollectionComparator - Class in psidev.psi.mi.jami.utils.comparator.range: Comparator for collection of Ranges
RangeCollectionComparator(RangeComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.range.RangeCollectionComparator: Creates a new range CollectionComparator.
RangeComparator - Class in psidev.psi.mi.jami.utils.comparator.range: Simple range comparator.
RangeComparator(PositionComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.range.RangeComparator: Creates a new RangeComparator
RangeUtils - Class in psidev.psi.mi.jami.utils: Utility methods for Ranges
RangeUtils() - Constructor for class psidev.psi.mi.jami.utils.RangeUtils
rapid_curation - psidev.psi.mi.jami.model.CurationDepth
RAPID_CURATION - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant RAPID_CURATION="rapid curation"
RAPID_CURATION_MI - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant RAPID_CURATION_MI="MI:0961"
read() - Method in class psidev.psi.mi.jami.utils.checksum.Base64.InputStream: Reads enough of the input stream to convert to/from Base64 and returns the next byte.
read() - Method in class psidev.psi.mi.jami.xml.io.parser.NonCloseableInputStreamWrapper
read(byte[]) - Method in class psidev.psi.mi.jami.xml.io.parser.NonCloseableInputStreamWrapper
read(byte[], int, int) - Method in class psidev.psi.mi.jami.utils.checksum.Base64.InputStream: Calls Base64.InputStream.read() repeatedly until the end of stream is reached or len bytes are read.
read(byte[], int, int) - Method in class psidev.psi.mi.jami.xml.io.parser.NonCloseableInputStreamWrapper
ReadByte() - Method in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream
readChar() - Method in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream: Read a character.
readChar() - Method in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Read a character.
ReadWriteCrosslinkCsvWithJami - Class in psidev.psi.mi.jami.examples.crosslinkCSV: This class shows how to read MITAB/PSI-MI XML (and other sources) and how to write JAMI objects in MITAB/PSI-MI XML (or other JAMI interaction writers)
ReadWriteCrosslinkCsvWithJami() - Constructor for class psidev.psi.mi.jami.examples.crosslinkCSV.ReadWriteCrosslinkCsvWithJami
ReadWriteHtmlWithJami - Class in psidev.psi.mi.jami.examples.html: This class shows how to read MITAB/PSI-MI XML (and other sources) and how to write JAMI objects in MITAB/PSI-MI XML (or other JAMI interaction writers)
ReadWriteHtmlWithJami() - Constructor for class psidev.psi.mi.jami.examples.html.ReadWriteHtmlWithJami
ReadWriteJsonWithJami - Class in psidev.psi.mi.jami.examples.interactionviewer: This class shows how to read MITAB/PSI-MI XML (and other sources) and how to write JAMI objects in MITAB/PSI-MI XML (or other JAMI interaction writers)
ReadWriteJsonWithJami() - Constructor for class psidev.psi.mi.jami.examples.interactionviewer.ReadWriteJsonWithJami
ReadWriteWithJami - Class in psidev.psi.mi.jami.examples.core: This class shows how to read MITAB/PSI-MI XML (and other sources) and how to write JAMI objects in MITAB/PSI-MI XML (or other JAMI interaction writers)
ReadWriteWithJami() - Constructor for class psidev.psi.mi.jami.examples.core.ReadWriteWithJami
recognizeFeatureCategory(F) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonFeatureWriter: recognizeFeatureCategory.
ref - Variable in class psidev.psi.mi.jami.xml.model.reference.AbstractXmlIdReference
ref - Variable in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractAvailabilityRef
ref - Variable in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractAvailabilityRef
ref - Variable in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractAvailabilityRef
REFSEQ - psidev.psi.mi.jami.bridges.uniprot.rest.SearchDatabase
REFSEQ - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant REFSEQ="refseq"
REFSEQ_MI - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant REFSEQ_MI="MI:0481"
registerAllInteractionsProperties() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: registerAllInteractionsProperties.
registerAllInteractors(T) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: registerAllInteractors.
registerAllInteractorsAndExperimentsFrom(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: registerAllInteractorsAndExperimentsFrom.
registerAndWriteInteractor(Participant) - Method in class psidev.psi.mi.jami.json.nary.AbstractMIJsonWriter: registerAndWriteInteractor.
registerAvailabilities(I) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlMixWriter: registerAvailabilities.
registerAvailabilities(BinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.LightCompactXmlBinaryWriter: registerAvailabilities.
registerAvailabilities(BinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.LightCompactXmlBinaryWriter: registerAvailabilities.
registerAvailabilities(BinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.LightCompactXmlNamedBinaryWriter: registerAvailabilities.
registerAvailabilities(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlBinaryEvidenceWriter: registerAvailabilities.
registerAvailabilities(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedBinaryEvidenceWriter: registerAvailabilities.
registerAvailabilities(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlBinaryEvidenceWriter: registerAvailabilities.
registerAvailabilities(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlModelledBinaryWriter: registerAvailabilities.
registerAvailabilities(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedModelledBinaryWriter: registerAvailabilities.
registerAvailabilities(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlModelledBinaryWriter: registerAvailabilities.
registerAvailabilities(Complex) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlComplexWriter: registerAvailabilities.
registerAvailabilities(Complex) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlComplexWriter: registerAvailabilities.
registerAvailabilities(Interaction) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.LightCompactXmlWriter: registerAvailabilities.
registerAvailabilities(Interaction) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.LightCompactXmlNamedWriter: registerAvailabilities.
registerAvailabilities(Interaction) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.LightCompactXmlWriter: registerAvailabilities.
registerAvailabilities(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlEvidenceWriter: registerAvailabilities.
registerAvailabilities(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedEvidenceWriter: registerAvailabilities.
registerAvailabilities(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlEvidenceWriter: registerAvailabilities.
registerAvailabilities(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlModelledWriter: registerAvailabilities.
registerAvailabilities(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedModelledWriter: registerAvailabilities.
registerAvailabilities(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlModelledWriter: registerAvailabilities.
registerAvailabilities(T) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: registerAvailabilities.
registerAvailability(int, AbstractAvailability) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: Register an availability with an id
registerAvailability(int, AbstractAvailability) - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: Register an availability with an id
registerAvailability(int, AbstractAvailability) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: Register an availability with an id
registerAvailability(int, AbstractAvailability) - Method in class psidev.psi.mi.jami.xml.XmlEntryContext: registerAvailability.
registerBindingFeature(BindingFeatures) - Method in class psidev.psi.mi.jami.xml.XmlEntryContext: registerBindingFeature.
registerComplex(int, Complex) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: Register a complex with an id
registerComplex(int, Complex) - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: Register a complex with an id
registerComplex(int, Complex) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: Register a complex with an id
registerComplex(int, Complex) - Method in class psidev.psi.mi.jami.xml.XmlEntryContext: registerComplex.
registerComplexFeature(int, ModelledFeature) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: Register a complex feature with an id
registerComplexFeature(int, ModelledFeature) - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: Register a complex feature with an id
registerComplexFeature(int, ModelledFeature) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: Register a complex feature with an id
registerComplexFeature(int, ModelledFeature) - Method in class psidev.psi.mi.jami.xml.XmlEntryContext: registerComplexFeature.
registerComplexLoadedFrom(Interaction) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: registerComplexLoadedFrom.
registerComplexLoadedFrom(Interaction) - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: registerComplexLoadedFrom.
registerComplexLoadedFrom(Interaction) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: registerComplexLoadedFrom.
registerComplexParticipant(int, ModelledEntity) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: Register a participant involved in a complex with an id
registerComplexParticipant(int, ModelledEntity) - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: Register a participant involved in a complex with an id
registerComplexParticipant(int, ModelledEntity) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: Register a participant involved in a complex with an id
registerComplexParticipant(int, ModelledEntity) - Method in class psidev.psi.mi.jami.xml.XmlEntryContext: registerComplexParticipant.
registerDataSource(Class<? extends MIDataSource>, Map<String, Object>) - Method in class psidev.psi.mi.jami.factory.MIDataSourceFactory: Register a datasource with options in this factory
registerDataSourceWriter(Class<? extends InteractionWriter>, Map<String, Object>) - Method in class psidev.psi.mi.jami.factory.InteractionWriterFactory: Register a datasource writer with options in this factory
registerExperiment(int, Experiment) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: Register an experiment with an id
registerExperiment(int, Experiment) - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: Register an experiment with an id
registerExperiment(int, Experiment) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: Register an experiment with an id
registerExperiment(int, Experiment) - Method in class psidev.psi.mi.jami.xml.XmlEntryContext: registerExperiment.
registerExperiment(I) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlMixWriter: registerExperiment.
registerExperiment(BinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.LightCompactXmlBinaryWriter: registerExperiment.
registerExperiment(BinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.LightCompactXmlBinaryWriter: registerExperiment.
registerExperiment(BinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.LightCompactXmlNamedBinaryWriter: registerExperiment.
registerExperiment(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlBinaryEvidenceWriter: registerExperiment.
registerExperiment(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedBinaryEvidenceWriter: registerExperiment.
registerExperiment(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlBinaryEvidenceWriter: registerExperiment.
registerExperiment(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlModelledBinaryWriter: registerExperiment.
registerExperiment(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedModelledBinaryWriter: registerExperiment.
registerExperiment(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlModelledBinaryWriter: registerExperiment.
registerExperiment(Complex) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlComplexWriter: registerExperiment.
registerExperiment(Complex) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlComplexWriter: registerExperiment.
registerExperiment(Interaction) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.LightCompactXmlWriter: registerExperiment.
registerExperiment(Interaction) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.LightCompactXmlNamedWriter: registerExperiment.
registerExperiment(Interaction) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.LightCompactXmlWriter: registerExperiment.
registerExperiment(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlEvidenceWriter: registerExperiment.
registerExperiment(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedEvidenceWriter: registerExperiment.
registerExperiment(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlEvidenceWriter: registerExperiment.
registerExperiment(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlModelledWriter: registerExperiment.
registerExperiment(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedModelledWriter: registerExperiment.
registerExperiment(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlModelledWriter: registerExperiment.
registerExperiment(T) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: registerExperiment.
registerFeature(int, Feature) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: Register a feature with an id
registerFeature(int, Feature) - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: Register a feature with an id
registerFeature(int, Feature) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: Register a feature with an id
registerFeature(int, Feature) - Method in class psidev.psi.mi.jami.xml.XmlEntryContext: registerFeature.
registerForResolution() - Method in class psidev.psi.mi.jami.xml.model.reference.AbstractXmlIdReference: registerForResolution.
registerForResolution() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractAvailabilityRef: registerForResolution.
registerForResolution() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractAvailabilityRef: registerForResolution.
registerForResolution() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractAvailabilityRef: registerForResolution.
registerForResolution() - Method in interface psidev.psi.mi.jami.xml.model.reference.XmlIdReference: Register itself as an id to resolve later
registerInferredInteraction(AbstractInferredInteraction) - Method in class psidev.psi.mi.jami.xml.XmlEntryContext: registerInferredInteraction.
registerInteraction(int, Interaction) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: Register an interaction with an id
registerInteraction(int, Interaction) - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: Register an interaction with an id
registerInteraction(int, Interaction) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: Register an interaction with an id
registerInteraction(int, Interaction) - Method in class psidev.psi.mi.jami.xml.XmlEntryContext: registerInteraction.
registerInteractionProperties() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: registerInteractionProperties.
registerInteractionProperties() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlComplexWriter: registerInteractionProperties.
registerInteractionProperties() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlModelledBinaryWriter: registerInteractionProperties.
registerInteractionProperties() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlModelledWriter: registerInteractionProperties.
registerInteractionProperties() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedModelledBinaryWriter: registerInteractionProperties.
registerInteractionProperties() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedModelledWriter: registerInteractionProperties.
registerInteractionProperties() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlComplexWriter: registerInteractionProperties.
registerInteractionProperties() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlModelledBinaryWriter: registerInteractionProperties.
registerInteractionProperties() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlModelledWriter: registerInteractionProperties.
registerInteractor(int, Interactor) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: Register an interactor with an id
registerInteractor(int, Interactor) - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: Register an interactor with an id
registerInteractor(int, Interactor) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: Register an interactor with an id
registerInteractor(int, Interactor) - Method in class psidev.psi.mi.jami.xml.XmlEntryContext: registerInteractor.
registerModelledFeatureLoadedFrom(Feature) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: registerModelledFeatureLoadedFrom.
registerModelledFeatureLoadedFrom(Feature) - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: registerModelledFeatureLoadedFrom.
registerModelledFeatureLoadedFrom(Feature) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: registerModelledFeatureLoadedFrom.
registerModelledParticipantLoadedFrom(Entity) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: registerModelledParticipantLoadedFrom.
registerModelledParticipantLoadedFrom(Entity) - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: registerModelledParticipantLoadedFrom.
registerModelledParticipantLoadedFrom(Entity) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: registerModelledParticipantLoadedFrom.
registerParticipant(int, Entity) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: Register a participant with an id
registerParticipant(int, Entity) - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: Register a participant with an id
registerParticipant(int, Entity) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: Register a participant with an id
registerParticipant(int, Entity) - Method in class psidev.psi.mi.jami.xml.XmlEntryContext: registerParticipant.
registerParticipantInteractor(Entity) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: registerParticipantInteractor.
registerParticipantPoolInteractor(ParticipantPool) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: registerParticipantPoolInteractor.
registerPublicationInImexCentral(Publication) - Method in interface psidev.psi.mi.jami.imex.actions.ImexCentralPublicationRegister: Register a publication in IMEx central which is not existing in IMEx central.
registerPublicationInImexCentral(Publication) - Method in class psidev.psi.mi.jami.imex.actions.impl.ImexCentralPublicationRegisterImpl: Register a publication in IMEx central which is not existing in IMEx central.
registerReference(XmlIdReference) - Method in class psidev.psi.mi.jami.xml.XmlEntryContext: registerReference.
registerSubComplex(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryIdentityObjectCache: This method will register a complex that is used as an interactor
registerSubComplex(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryLightIdentityObjectCache: This method will register a complex that is used as an interactor
registerSubComplex(ModelledInteraction) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlObjectCache: This method will register a complex that is used as an interactor
registerVariableParameterValue(int, VariableParameterValue) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryPsiXmlCache: Register a variable parameter value with an id
registerVariableParameterValue(int, VariableParameterValue) - Method in class psidev.psi.mi.jami.xml.cache.PsiXmlFileIndexCache: Register a variable parameter value with an id
registerVariableParameterValue(int, VariableParameterValue) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlIdCache: Register a variable parameter value with an id
registerVariableParameterValue(int, VariableParameterValue) - Method in class psidev.psi.mi.jami.xml.XmlEntryContext: registerVariableParameterValue.
reInit() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: reInit.
reInit() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: reInit.
reInit() - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: reInit.
reInit() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractFullPsiXmlParser: reInit.
reInit() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsixmlBinaryParser: reInit.
reInit() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: reInit.
reInit() - Method in interface psidev.psi.mi.jami.xml.io.parser.FullPsiXmlParser: reInit.
reInit() - Method in interface psidev.psi.mi.jami.xml.io.parser.PsiXmlParser: reInit.
reInit() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: reInit.
ReInit(InputStream) - Method in class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionLineParser: Reinitialise.
ReInit(InputStream) - Method in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream: Reinitialise.
ReInit(InputStream) - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser: Reinitialise.
ReInit(InputStream) - Method in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Reinitialise.
ReInit(InputStream, int, int) - Method in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream: Reinitialise.
ReInit(InputStream, int, int) - Method in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Reinitialise.
ReInit(InputStream, int, int, int) - Method in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream: Reinitialise.
ReInit(InputStream, int, int, int) - Method in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Reinitialise.
ReInit(InputStream, String) - Method in class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionLineParser: Reinitialise.
ReInit(InputStream, String) - Method in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream: Reinitialise.
ReInit(InputStream, String) - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser: Reinitialise.
ReInit(InputStream, String) - Method in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Reinitialise.
ReInit(InputStream, String, int, int) - Method in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream: Reinitialise.
ReInit(InputStream, String, int, int) - Method in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Reinitialise.
ReInit(InputStream, String, int, int, int) - Method in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream: Reinitialise.
ReInit(InputStream, String, int, int, int) - Method in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Reinitialise.
ReInit(Reader) - Method in class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionLineParser: Reinitialise.
ReInit(Reader) - Method in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream: Reinitialise.
ReInit(Reader) - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser: Reinitialise.
ReInit(Reader) - Method in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Reinitialise.
ReInit(Reader, int, int) - Method in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream: Reinitialise.
ReInit(Reader, int, int) - Method in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Reinitialise.
ReInit(Reader, int, int, int) - Method in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream: Reinitialise.
ReInit(Reader, int, int, int) - Method in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Reinitialise.
ReInit(JavaCharStream) - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParserTokenManager: Reinitialise parser.
ReInit(JavaCharStream, int) - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParserTokenManager: Reinitialise parser.
ReInit(MitabLineParserTokenManager) - Method in class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionLineParser: Reinitialise.
ReInit(MitabLineParserTokenManager) - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser: Reinitialise.
RELEASED - psidev.psi.mi.jami.bridges.imex.PublicationStatus
remapProtein(Protein) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalProteinEnricher: Attempts to remap the protein using the provided proteinRemapper.
remove() - Method in class psidev.psi.mi.jami.crosslink.io.iterator.CsvInteractionEvidenceIterator: remove.
remove() - Method in class psidev.psi.mi.jami.tab.io.iterator.AbstractMitabIterator: remove.
remove() - Method in class psidev.psi.mi.jami.utils.collection.IteratorHavingProperties: remove
remove() - Method in class psidev.psi.mi.jami.utils.collection.IteratorWrapper: remove
remove() - Method in class psidev.psi.mi.jami.xml.io.iterator.AbstractXmlIterator: remove.
remove() - Static method in class psidev.psi.mi.jami.xml.XmlEntryContext: remove.
remove(int) - Method in class psidev.psi.mi.jami.utils.collection.AbstractListHavingProperties
remove(Object) - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipantPool
remove(Object) - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractorPool
remove(Object) - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameterValueSet
remove(Object) - Method in class psidev.psi.mi.jami.utils.collection.AbstractCollectionWrapper
remove(Object) - Method in class psidev.psi.mi.jami.utils.collection.AbstractListHavingProperties
remove(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool
remove(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantPoolWrapper
remove(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractorPool
remove(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantPoolWrapper
remove(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool
remove(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantPoolWrapper
remove(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractorPool
remove(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantPoolWrapper
remove(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool
remove(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantPoolWrapper
remove(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractorPool
remove(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantPoolWrapper
remove(Object) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameterValueSet
removeAll(Collection<?>) - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipantPool
removeAll(Collection<?>) - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractorPool
removeAll(Collection<?>) - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameterValueSet
removeAll(Collection<?>) - Method in class psidev.psi.mi.jami.utils.collection.AbstractCollectionWrapper
removeAll(Collection<?>) - Method in class psidev.psi.mi.jami.utils.collection.AbstractListHavingProperties
removeAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool
removeAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantPoolWrapper
removeAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractorPool
removeAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantPoolWrapper
removeAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool
removeAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantPoolWrapper
removeAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractorPool
removeAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantPoolWrapper
removeAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool
removeAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantPoolWrapper
removeAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractorPool
removeAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantPoolWrapper
removeAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameterValueSet
removeAllAliasesWithType(Collection<? extends Alias>, String, String) - Static method in class psidev.psi.mi.jami.utils.AliasUtils: Remove all Alias having this method name/method id from the collection of aliases
removeAllAliasesWithTypeAndName(Collection<Alias>, String, String, String) - Static method in class psidev.psi.mi.jami.utils.AliasUtils: Remove all Alias having this method name/method id from the collection of aliases
removeAllAnnotationsWithTopic(Collection<? extends Annotation>, String, String) - Static method in class psidev.psi.mi.jami.utils.AnnotationUtils: Remove all annotations having this topic name/database id from the collection of annotations
removeAllAnnotationsWithTopicAndValue(Collection<? extends Annotation>, String, String, String) - Static method in class psidev.psi.mi.jami.utils.AnnotationUtils: Remove all annotations having this topic name/database id from the collection of annotations
removeAllAnnotationsWithTopicAndValueLike(Collection<? extends Annotation>, String, String, String) - Static method in class psidev.psi.mi.jami.utils.AnnotationUtils: Remove all annotations having this topic name/database id and like value from the collection of annotations
removeAllChecksumWithMethod(Collection<? extends Checksum>, String, String) - Static method in class psidev.psi.mi.jami.utils.ChecksumUtils: Remove all Checksum having this method name/method id from the collection of checksums
removeAllChecksumWithMethod(Collection<? extends Checksum>, String, String, String) - Static method in class psidev.psi.mi.jami.utils.ChecksumUtils: Remove all Checksum having this method name/method id from the collection of checksums
removeAllExperiments(Collection<? extends Experiment>) - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: This method will remove the experiments and set the publication of the removed experiments to null.
removeAllExperiments(Collection<? extends Experiment>) - Method in interface psidev.psi.mi.jami.model.Publication: This method will remove the experiments and set the publication of the removed experiments to null.
removeAllExperiments(Collection<? extends Experiment>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: This method will remove the experiments and set the publication of the removed experiments to null.
removeAllExperiments(Collection<? extends Experiment>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: This method will remove the experiments and set the publication of the removed experiments to null.
removeAllExperiments(Collection<? extends Experiment>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: This method will remove the experiments and set the publication of the removed experiments to null.
removeAllFeatures(Collection<? extends F>) - Method in interface psidev.psi.mi.jami.model.Entity: This method will remove all the features and set the entity of the removed features to null.
removeAllFeatures(Collection<? extends F>) - Method in class psidev.psi.mi.jami.model.impl.AbstractEntity: This method will remove all the features and set the entity of the removed features to null.
removeAllFeatures(Collection<? extends F>) - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipant: This method will remove all the features and set the entity of the removed features to null.
removeAllFeatures(Collection<? extends F>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity: This method will remove all the features and set the entity of the removed features to null.
removeAllFeatures(Collection<? extends F>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: This method will remove all the features and set the entity of the removed features to null.
removeAllFeatures(Collection<? extends F>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity: This method will remove all the features and set the entity of the removed features to null.
removeAllFeatures(Collection<? extends F>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: This method will remove all the features and set the entity of the removed features to null.
removeAllFeatures(Collection<? extends F>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity: This method will remove all the features and set the entity of the removed features to null.
removeAllFeatures(Collection<? extends F>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: This method will remove all the features and set the entity of the removed features to null.
removeAllFeatures(Collection<? extends ModelledFeature>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidateWrapper: This method will remove all the features and set the entity of the removed features to null.
removeAllFeatures(Collection<? extends ModelledFeature>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantCandidateWrapper: This method will remove all the features and set the entity of the removed features to null.
removeAllFeatures(Collection<? extends ModelledFeature>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: This method will remove all the features and set the entity of the removed features to null.
removeAllFeatures(Collection<? extends ModelledFeature>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: This method will remove all the features and set the entity of the removed features to null.
removeAllFeatures(Collection<? extends ModelledFeature>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidateWrapper: This method will remove all the features and set the entity of the removed features to null.
removeAllFeatures(Collection<? extends ModelledFeature>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantCandidateWrapper: This method will remove all the features and set the entity of the removed features to null.
removeAllFeatures(Collection<? extends ModelledFeature>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: This method will remove all the features and set the entity of the removed features to null.
removeAllFeatures(Collection<? extends ModelledFeature>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: This method will remove all the features and set the entity of the removed features to null.
removeAllFeatures(Collection<? extends ModelledFeature>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidateWrapper: This method will remove all the features and set the entity of the removed features to null.
removeAllFeatures(Collection<? extends ModelledFeature>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantCandidateWrapper: This method will remove all the features and set the entity of the removed features to null.
removeAllFeatures(Collection<? extends ModelledFeature>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: This method will remove all the features and set the entity of the removed features to null.
removeAllFeatures(Collection<? extends ModelledFeature>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: This method will remove all the features and set the entity of the removed features to null.
removeAllFeatures(Collection<? extends T>) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractEntityRef: This method will remove all the features and set the entity of the removed features to null.
removeAllFeatures(Collection<? extends T>) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractParticipantRef: This method will remove all the features and set the entity of the removed features to null.
removeAllFeatures(Collection<? extends T>) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractEntityRef: This method will remove all the features and set the entity of the removed features to null.
removeAllFeatures(Collection<? extends T>) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractParticipantRef: This method will remove all the features and set the entity of the removed features to null.
removeAllFeatures(Collection<? extends T>) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractEntityRef: This method will remove all the features and set the entity of the removed features to null.
removeAllFeatures(Collection<? extends T>) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractParticipantRef: This method will remove all the features and set the entity of the removed features to null.
removeAllInteractionEvidences(Collection<? extends InteractionEvidence>) - Method in interface psidev.psi.mi.jami.model.Experiment: This method will remove the interaction evidences and set the experiment of the removed interaction evidences to null.
removeAllInteractionEvidences(Collection<? extends InteractionEvidence>) - Method in class psidev.psi.mi.jami.model.impl.DefaultExperiment: This method will remove the interaction evidences and set the experiment of the removed interaction evidences to null.
removeAllInteractionEvidences(Collection<? extends InteractionEvidence>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: This method will remove the interaction evidences and set the experiment of the removed interaction evidences to null.
removeAllInteractionEvidences(Collection<? extends InteractionEvidence>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: This method will remove the interaction evidences and set the experiment of the removed interaction evidences to null.
removeAllInteractionEvidences(Collection<? extends InteractionEvidence>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: This method will remove the interaction evidences and set the experiment of the removed interaction evidences to null.
removeAllInteractionEvidences(Collection<? extends InteractionEvidence>) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: This method will remove the interaction evidences and set the experiment of the removed interaction evidences to null.
removeAllInteractionEvidences(Collection<? extends InteractionEvidence>) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: This method will remove the interaction evidences and set the experiment of the removed interaction evidences to null.
removeAllInteractionEvidences(Collection<? extends InteractionEvidence>) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: This method will remove the interaction evidences and set the experiment of the removed interaction evidences to null.
removeAllOnly(Collection<?>) - Method in class psidev.psi.mi.jami.utils.collection.AbstractListHavingProperties: removeAllOnly
removeAllParticipants(Collection<? extends ModelledParticipant>) - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: This method will remove the participant and set the interaction of the removed participant to null.
removeAllParticipants(Collection<? extends ModelledParticipant>) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: This method will remove the participant and set the interaction of the removed participant to null.
removeAllParticipants(Collection<? extends ModelledParticipant>) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: This method will remove the participant and set the interaction of the removed participant to null.
removeAllParticipants(Collection<? extends ModelledParticipant>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: This method will remove the participant and set the interaction of the removed participant to null.
removeAllParticipants(Collection<? extends ModelledParticipant>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: This method will remove the participant and set the interaction of the removed participant to null.
removeAllParticipants(Collection<? extends ModelledParticipant>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: This method will remove the participant and set the interaction of the removed participant to null.
removeAllParticipants(Collection<? extends ModelledParticipant>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: This method will remove the participant and set the interaction of the removed participant to null.
removeAllParticipants(Collection<? extends ModelledParticipant>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: This method will remove the participant and set the interaction of the removed participant to null.
removeAllParticipants(Collection<? extends ModelledParticipant>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: This method will remove the participant and set the interaction of the removed participant to null.
removeAllParticipants(Collection<? extends ModelledParticipant>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: This method will remove the participant and set the interaction of the removed participant to null.
removeAllParticipants(Collection<? extends ModelledParticipant>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: This method will remove the participant and set the interaction of the removed participant to null.
removeAllParticipants(Collection<? extends ModelledParticipant>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: This method will remove the participant and set the interaction of the removed participant to null.
removeAllParticipants(Collection<? extends ModelledParticipant>) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: This method will remove the participant and set the interaction of the removed participant to null.
removeAllParticipants(Collection<? extends ModelledParticipant>) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: This method will remove the participant and set the interaction of the removed participant to null.
removeAllParticipants(Collection<? extends ModelledParticipant>) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: This method will remove the participant and set the interaction of the removed participant to null.
removeAllParticipants(Collection<? extends Participant>) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: This method will remove the participant and set the interaction of the removed participant to null.
removeAllParticipants(Collection<? extends ParticipantEvidence>) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: This method will remove the participant and set the interaction of the removed participant to null.
removeAllParticipants(Collection<? extends T>) - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteraction: This method will remove the participant and set the interaction of the removed participant to null.
removeAllParticipants(Collection<? extends T>) - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteractionWrapper: This method will remove the participant and set the interaction of the removed participant to null.
removeAllParticipants(Collection<? extends T>) - Method in class psidev.psi.mi.jami.model.impl.AbstractInteraction: This method will remove the participant and set the interaction of the removed participant to null.
removeAllParticipants(Collection<? extends T>) - Method in interface psidev.psi.mi.jami.model.Interaction: This method will remove the participant and set the interaction of the removed participant to null.
removeAllParticipants(Collection<? extends T>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: This method will remove the participant and set the interaction of the removed participant to null.
removeAllParticipants(Collection<? extends T>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: This method will remove the participant and set the interaction of the removed participant to null.
removeAllParticipants(Collection<? extends T>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: This method will remove the participant and set the interaction of the removed participant to null.
removeAllVariableParameters(Collection<? extends VariableParameter>) - Method in interface psidev.psi.mi.jami.model.Experiment: This method will remove all the variableParameters and set the experiment of the removed variableParameters to null.
removeAllVariableParameters(Collection<? extends VariableParameter>) - Method in class psidev.psi.mi.jami.model.impl.DefaultExperiment: This method will remove all the variableParameters and set the experiment of the removed variableParameters to null.
removeAllVariableParameters(Collection<? extends VariableParameter>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: This method will remove all the variableParameters and set the experiment of the removed variableParameters to null.
removeAllVariableParameters(Collection<? extends VariableParameter>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: This method will remove all the variableParameters and set the experiment of the removed variableParameters to null.
removeAllVariableParameters(Collection<? extends VariableParameter>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: This method will remove all the variableParameters and set the experiment of the removed variableParameters to null.
removeAllVariableParameters(Collection<? extends VariableParameter>) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: This method will remove all the variableParameters and set the experiment of the removed variableParameters to null.
removeAllVariableParameters(Collection<? extends VariableParameter>) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: This method will remove all the variableParameters and set the experiment of the removed variableParameters to null.
removeAllVariableParameters(Collection<? extends VariableParameter>) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: This method will remove all the variableParameters and set the experiment of the removed variableParameters to null.
removeAllXrefsWithDatabase(Collection<? extends Xref>, String, String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: Remove all Xrefs having this database name/database id from the collection of xrefs
removeAllXrefsWithDatabaseAndId(Collection<? extends Xref>, String, String, String) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: Remove all Xrefs having this database name/database id from the collection of xrefs
removeCvTermFetcher(String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.CvTermCompositeFetcherTemplate: removeCvTermFetcher.
removeDataSource(Class<? extends MIDataSource>) - Method in class psidev.psi.mi.jami.factory.MIDataSourceFactory: Remove the dataSource from this factory
removeDataSourceWriter(Class<? extends InteractionWriter>) - Method in class psidev.psi.mi.jami.factory.InteractionWriterFactory: Remove the interactionDataSourceWriter from this factory
removeEntry(String) - Method in class psidev.psi.mi.jami.bridges.fetcher.mock.AbstractMockFetcher: Removes an entry from the
removeEntry(String) - Method in interface psidev.psi.mi.jami.bridges.fetcher.mock.MockFetcher: Removes an entry from the
removeExperiment(Experiment) - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: This method will remove the experiment and set the publication of the removed experiment to null.
removeExperiment(Experiment) - Method in interface psidev.psi.mi.jami.model.Publication: This method will remove the experiment and set the publication of the removed experiment to null.
removeExperiment(Experiment) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: This method will remove the experiment and set the publication of the removed experiment to null.
removeExperiment(Experiment) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: This method will remove the experiment and set the publication of the removed experiment to null.
removeExperiment(Experiment) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: This method will remove the experiment and set the publication of the removed experiment to null.
removeFeature(F) - Method in interface psidev.psi.mi.jami.model.Entity: This method will remove the feature and set the entity of the removed feature to null.
removeFeature(F) - Method in class psidev.psi.mi.jami.model.impl.AbstractEntity: removeFeature
removeFeature(F) - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipant: removeFeature
removeFeature(F) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity: removeFeature.
removeFeature(F) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: removeFeature.
removeFeature(F) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity: removeFeature.
removeFeature(F) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: removeFeature.
removeFeature(F) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity: removeFeature.
removeFeature(F) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: removeFeature.
removeFeature(ModelledFeature) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidateWrapper: This method will remove the feature and set the entity of the removed feature to null.
removeFeature(ModelledFeature) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantCandidateWrapper: This method will remove the feature and set the entity of the removed feature to null.
removeFeature(ModelledFeature) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: This method will remove the feature and set the entity of the removed feature to null.
removeFeature(ModelledFeature) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: This method will remove the feature and set the entity of the removed feature to null.
removeFeature(ModelledFeature) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidateWrapper: This method will remove the feature and set the entity of the removed feature to null.
removeFeature(ModelledFeature) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantCandidateWrapper: This method will remove the feature and set the entity of the removed feature to null.
removeFeature(ModelledFeature) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: This method will remove the feature and set the entity of the removed feature to null.
removeFeature(ModelledFeature) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: This method will remove the feature and set the entity of the removed feature to null.
removeFeature(ModelledFeature) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidateWrapper: This method will remove the feature and set the entity of the removed feature to null.
removeFeature(ModelledFeature) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantCandidateWrapper: This method will remove the feature and set the entity of the removed feature to null.
removeFeature(ModelledFeature) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: This method will remove the feature and set the entity of the removed feature to null.
removeFeature(ModelledFeature) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: This method will remove the feature and set the entity of the removed feature to null.
removeFeature(T) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractEntityRef: removeFeature.
removeFeature(T) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractParticipantRef: removeFeature.
removeFeature(T) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractEntityRef: removeFeature.
removeFeature(T) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractParticipantRef: removeFeature.
removeFeature(T) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractEntityRef: removeFeature.
removeFeature(T) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractParticipantRef: removeFeature.
removeInteractionEvidence(InteractionEvidence) - Method in interface psidev.psi.mi.jami.model.Experiment: This method will remove the interaction evidence and set the experiment of the new interaction evidence to null
removeInteractionEvidence(InteractionEvidence) - Method in class psidev.psi.mi.jami.model.impl.DefaultExperiment: This method will remove the interaction evidence and set the experiment of the new interaction evidence to null
removeInteractionEvidence(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: This method will remove the interaction evidence and set the experiment of the new interaction evidence to null
removeInteractionEvidence(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: This method will remove the interaction evidence and set the experiment of the new interaction evidence to null
removeInteractionEvidence(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: This method will remove the interaction evidence and set the experiment of the new interaction evidence to null
removeInteractionEvidence(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: This method will remove the interaction evidence and set the experiment of the new interaction evidence to null
removeInteractionEvidence(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: This method will remove the interaction evidence and set the experiment of the new interaction evidence to null
removeInteractionEvidence(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: This method will remove the interaction evidence and set the experiment of the new interaction evidence to null
removeObject(Object) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryIdentityObjectCache: removeObject.
removeObject(Object) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryLightIdentityObjectCache: removeObject.
removeObject(Object) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlObjectCache: removeObject.
removeOnly(int) - Method in class psidev.psi.mi.jami.utils.collection.AbstractListHavingProperties: removeOnly
removeOnly(Object) - Method in class psidev.psi.mi.jami.utils.collection.AbstractListHavingProperties: removeOnly
removeParticipant(ModelledParticipant) - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: removeParticipant
removeParticipant(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: This method will remove the participant and set the interaction of the new participant to null
removeParticipant(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: This method will remove the participant and set the interaction of the new participant to null
removeParticipant(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: removeParticipant.
removeParticipant(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: removeParticipant.
removeParticipant(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: removeParticipant.
removeParticipant(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: removeParticipant.
removeParticipant(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: removeParticipant.
removeParticipant(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: removeParticipant.
removeParticipant(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: removeParticipant.
removeParticipant(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: removeParticipant.
removeParticipant(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: removeParticipant.
removeParticipant(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: removeParticipant.
removeParticipant(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: removeParticipant.
removeParticipant(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: removeParticipant.
removeParticipant(Participant) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: This method will remove the participant and set the interaction of the new participant to null
removeParticipant(ParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: This method will remove the participant and set the interaction of the new participant to null
removeParticipant(T) - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteraction: removeParticipant
removeParticipant(T) - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteractionWrapper: Removes the Participant from this binary interaction
removeParticipant(T) - Method in class psidev.psi.mi.jami.model.impl.AbstractInteraction: removeParticipant
removeParticipant(T) - Method in interface psidev.psi.mi.jami.model.Interaction: This method will remove the participant and set the interaction of the new participant to null
removeParticipant(T) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: removeParticipant.
removeParticipant(T) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: removeParticipant.
removeParticipant(T) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: removeParticipant.
removeRange(int, int) - Method in class psidev.psi.mi.jami.utils.collection.AbstractListHavingProperties
removeRangeOnly(int, int) - Method in class psidev.psi.mi.jami.utils.collection.AbstractListHavingProperties: removeRangeOnly
removeVariableParameter(VariableParameter) - Method in interface psidev.psi.mi.jami.model.Experiment: This method will remove the variableParameter and set the experiment of the removed variableParameter to null.
removeVariableParameter(VariableParameter) - Method in class psidev.psi.mi.jami.model.impl.DefaultExperiment: This method will remove the variableParameter and set the experiment of the removed variableParameter to null.
removeVariableParameter(VariableParameter) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: This method will remove the variableParameter and set the experiment of the removed variableParameter to null.
removeVariableParameter(VariableParameter) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: This method will remove the variableParameter and set the experiment of the removed variableParameter to null.
removeVariableParameter(VariableParameter) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: This method will remove the variableParameter and set the experiment of the removed variableParameter to null.
removeVariableParameter(VariableParameter) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: This method will remove the variableParameter and set the experiment of the removed variableParameter to null.
removeVariableParameter(VariableParameter) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: This method will remove the variableParameter and set the experiment of the removed variableParameter to null.
removeVariableParameter(VariableParameter) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: This method will remove the variableParameter and set the experiment of the removed variableParameter to null.
RESERVED - psidev.psi.mi.jami.bridges.imex.PublicationStatus
reset() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: reset.
reset() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: reset.
reset() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: reset.
reset() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: reset.
reset() - Method in interface psidev.psi.mi.jami.datasource.InteractionWriter: This method will reset the writer from all loaded options.
reset() - Method in interface psidev.psi.mi.jami.datasource.MIDataSource: This method will reset the data sources from all loaded options.
reset() - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: reset
reset() - Method in class psidev.psi.mi.jami.html.MIHtmlWriter: reset
reset() - Method in class psidev.psi.mi.jami.json.binary.AbstractMIJsonBinaryWriter: reset.
reset() - Method in class psidev.psi.mi.jami.json.binary.AbstractMIJsonWriter: reset.
reset() - Method in class psidev.psi.mi.jami.json.binary.MIJsonBinaryWriter: reset.
reset() - Method in class psidev.psi.mi.jami.json.nary.AbstractMIJsonWriter: reset.
reset() - Method in class psidev.psi.mi.jami.json.nary.MIJsonEvidenceWriter: reset.
reset() - Method in class psidev.psi.mi.jami.json.nary.MIJsonWriter: reset.
reset() - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: reset.
reset() - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: reset.
reset() - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: reset.
reset() - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitab25BinaryWriter: reset.
reset() - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitabWriter: reset.
reset() - Method in class psidev.psi.mi.jami.tab.io.writer.DefaultMitabWriter: reset.
reset() - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25Writer: reset.
reset() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25BinaryWriter: reset.
reset() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25Writer: reset.
reset() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab26BinaryWriter: reset.
reset() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab27BinaryWriter: reset.
reset() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab28BinaryWriter: reset.
reset() - Method in class psidev.psi.mi.jami.xml.io.parser.NonCloseableInputStreamWrapper
reset() - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: reset.
reset() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlMixWriter: reset.
reset() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: reset.
reset() - Method in class psidev.psi.mi.jami.xml.io.writer.DefaultXmlWriter: reset.
reset() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlMixWriter: reset.
reset() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlSource: This method will reset the data sources from all loaded options.
reset() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: This method will reset the data sources from all loaded options.
reset() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: reset.
resetLastGeneratedIdTo(int) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryIdentityObjectCache: Reset the last generated id to a specific value
resetLastGeneratedIdTo(int) - Method in class psidev.psi.mi.jami.xml.cache.InMemoryLightIdentityObjectCache: Reset the last generated id to a specific value
resetLastGeneratedIdTo(int) - Method in interface psidev.psi.mi.jami.xml.cache.PsiXmlObjectCache: Reset the last generated id to a specific value
RESID - Static variable in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Constant RESID="resid"
RESID - Static variable in class psidev.psi.mi.jami.bridges.obo.OntologyOboLoader: Constant RESID="resid"
RESID - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant RESID="resid"
RESID_IDENTIFIER - Static variable in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Constant RESID_IDENTIFIER="Alternate name from RESID"
RESID_IDENTIFIER - Static variable in class psidev.psi.mi.jami.bridges.ols.utils.OlsUtils: Constant RESID_IDENTIFIER="Alternate name from RESID"
RESID_MI - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant RESID_MI="MI:0248"
RESID_MI_REF - Static variable in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Constant RESID_MI_REF="MI:0248"
RESID_MI_REF - Static variable in class psidev.psi.mi.jami.bridges.obo.OntologyOboLoader: Constant RESID_MI_REF="MI:0248"
RESID_MISNOMER_IDENTIFIER - Static variable in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Constant RESID_MISNOMER_IDENTIFIER="Misnomer tagged alternate name from RES"{trunked}
RESID_MISNOMER_IDENTIFIER - Static variable in class psidev.psi.mi.jami.bridges.ols.utils.OlsUtils: Constant RESID_MISNOMER_IDENTIFIER="Misnomer tagged alternate name from RES"{trunked}
RESID_NAME_IDENTIFIER - Static variable in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Constant RESID_NAME_IDENTIFIER="Name from RESID"
RESID_NAME_IDENTIFIER - Static variable in class psidev.psi.mi.jami.bridges.ols.utils.OlsUtils: Constant RESID_NAME_IDENTIFIER="Name from RESID"
RESID_SYSTEMATIC_IDENTIFIER - Static variable in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Constant RESID_SYSTEMATIC_IDENTIFIER="Systematic name from RESID"
RESID_SYSTEMATIC_IDENTIFIER - Static variable in class psidev.psi.mi.jami.bridges.ols.utils.OlsUtils: Constant RESID_SYSTEMATIC_IDENTIFIER="Systematic name from RESID"
resolve(PsiXmlIdCache) - Method in interface psidev.psi.mi.jami.xml.model.reference.XmlIdReference: Resolve the references given a map of parsed objects
resolveInferredInteractionRefs() - Method in class psidev.psi.mi.jami.xml.XmlEntryContext: resolveInferredInteractionRefs.
resolveInteractorAndExperimentRefs() - Method in class psidev.psi.mi.jami.xml.XmlEntryContext: resolveInteractorAndExperimentRefs.
restartJob(long) - Method in class psidev.psi.mi.jami.batch.MIBatchJobManager: Restart a job with a given execution id
restartJob(String, String) - Method in class psidev.psi.mi.jami.batch.MIBatchJobManager: This method will restart the last job which has been executed with a given name
RESULTING_CLEAVAGE - Static variable in interface psidev.psi.mi.jami.model.Feature: Constant RESULTING_CLEAVAGE="resulting-cleavage"
RESULTING_CLEAVAGE_MI - Static variable in interface psidev.psi.mi.jami.model.Feature: Constant RESULTING_CLEAVAGE_MI="MI:1233"
RESULTING_PTM - Static variable in interface psidev.psi.mi.jami.model.Feature: Constant RESULTING_PTM="resulting-ptm"
RESULTING_PTM_MI - Static variable in interface psidev.psi.mi.jami.model.Feature: Constant RESULTING_PTM_MI="MI:0639"
ResultingSequence - Interface in psidev.psi.mi.jami.model: This interface is for representing a sequence portion that has been changed (by mutation, a variant, etc.)
ResultingSequenceComparator - Class in psidev.psi.mi.jami.utils.comparator.range: Simple resultingSequence comparator It will first compare the original sequence and then if the original sequences are the same, it will compare the new sequences (case insensitive).
ResultingSequenceComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.range.ResultingSequenceComparator
resumeEncoding() - Method in class psidev.psi.mi.jami.utils.checksum.Base64.OutputStream: Resumes encoding of the stream.
retainAll(Collection<?>) - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipantPool
retainAll(Collection<?>) - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractorPool
retainAll(Collection<?>) - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameterValueSet
retainAll(Collection<?>) - Method in class psidev.psi.mi.jami.utils.collection.AbstractCollectionWrapper
retainAll(Collection<?>) - Method in class psidev.psi.mi.jami.utils.collection.AbstractListHavingProperties
retainAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool
retainAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantPoolWrapper
retainAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractorPool
retainAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantPoolWrapper
retainAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool
retainAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantPoolWrapper
retainAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractorPool
retainAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantPoolWrapper
retainAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool
retainAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantPoolWrapper
retainAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractorPool
retainAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantPoolWrapper
retainAll(Collection<?>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameterValueSet
retainAllOnly(Collection<?>) - Method in class psidev.psi.mi.jami.utils.collection.AbstractListHavingProperties: retainAllOnly
REVIEW - psidev.psi.mi.jami.bridges.imex.PublicationStatus
RIGID - Static variable in interface psidev.psi.mi.jami.model.Checksum: Constant RIGID="rigid"
RIGID_MI - Static variable in interface psidev.psi.mi.jami.model.Checksum: Constant RIGID_MI="MI:1334"
RigidGenerator - Class in psidev.psi.mi.jami.utils.checksum: Rigid generator
RigidGenerator() - Constructor for class psidev.psi.mi.jami.utils.checksum.RigidGenerator: Constructor for RigidGenerator.
ROGID - Static variable in interface psidev.psi.mi.jami.model.Checksum: Constant ROGID="rogid"
ROGID_MI - Static variable in interface psidev.psi.mi.jami.model.Checksum: Constant ROGID_MI="MI:1333"
RogidGenerator - Class in psidev.psi.mi.jami.utils.checksum: Rogid generator
RogidGenerator() - Constructor for class psidev.psi.mi.jami.utils.checksum.RogidGenerator: Constructor for RogidGenerator.

S

safeFreeText() - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
safePosition() - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
safeStoichiometry() - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
safeString() - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
SCHEMA_FEATURE - Static variable in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Constant SCHEMA_FEATURE="http://apache.org/xml/features/validati"{trunked}
SCHEMA_LOCATION_ATTRIBUTE - Static variable in class psidev.psi.mi.jami.xml.utils.PsiXmlUtils: Constant SCHEMA_LOCATION_ATTRIBUTE="schemaLocation"
SEARCH_URL - Static variable in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Constant SEARCH_URL="search-url"
SEARCH_URL - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant SEARCH_URL="search-url"
SEARCH_URL_MI - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant SEARCH_URL_MI="MI:0615"
SEARCH_URL_MI_REF - Static variable in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Constant SEARCH_URL_MI_REF="MI:0615"
searchAllXrefsHavingDatabaseAndQualifier(Collection<Xref>, Collection<String>, Collection<String>, Collection<String>, Collection<String>) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: Collect all cross references having specific databases and qualifiers
searchAllXrefsHavingDatabases(Collection<Xref>, Collection<String>, Collection<String>) - Static method in class psidev.psi.mi.jami.utils.XrefUtils: Collect all Xrefs having specific databases
SearchDatabase - Enum in psidev.psi.mi.jami.bridges.uniprot.rest: TODO: Work in progress to adapt the databases
SECONDARY - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant SECONDARY="secondary-ac"
SECONDARY_MI - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant SECONDARY_MI="MI:0360"
SEE_ALSO - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant SEE_ALSO="see-also"
SEE_ALSO_MI - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant SEE_ALSO_MI="MI:0361"
SeguidException - Exception in psidev.psi.mi.jami.utils.checksum: Custom Exception class to handle exceptions from this module
SeguidException() - Constructor for exception psidev.psi.mi.jami.utils.checksum.SeguidException: Constructor for SeguidException.
SeguidException(String) - Constructor for exception psidev.psi.mi.jami.utils.checksum.SeguidException: Constructor for SeguidException.
SeguidException(String, Throwable) - Constructor for exception psidev.psi.mi.jami.utils.checksum.SeguidException: Constructor for SeguidException.
SeguidException(Throwable) - Constructor for exception psidev.psi.mi.jami.utils.checksum.SeguidException: Constructor for SeguidException.
self_inter_molecular - psidev.psi.mi.jami.model.ComplexType
self_intra_molecular - psidev.psi.mi.jami.model.ComplexType
SELF_ROLE - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant SELF_ROLE="self"
SELF_ROLE_MI - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant SELF_ROLE_MI="MI:0503"
SeqFeatureGroupType - Class in psidev.psi.mi.jami.bridges.uniprot.rest.response.model: Java class for seqFeatureGroupType complex type.
SeqFeatureGroupType() - Constructor for class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.SeqFeatureGroupType
SeqFeatureType - Class in psidev.psi.mi.jami.bridges.uniprot.rest.response.model: Java class for seqFeatureType complex type.
SeqFeatureType() - Constructor for class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.SeqFeatureType
sequence - Variable in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Entry
Sequence - Class in psidev.psi.mi.jami.bridges.uniprot.rest.response.model: Java class for anonymous complex type.
Sequence() - Constructor for class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Sequence
SEQUENCE_TAG - Static variable in class psidev.psi.mi.jami.crosslink.utils.CsvUtils: Constant SEQUENCE_TAG="sequence tag"
SEQUENCE_TAG_MI - Static variable in class psidev.psi.mi.jami.crosslink.utils.CsvUtils: Constant SEQUENCE_TAG_MI="MI:0102"
SequenceVersion - Class in psidev.psi.mi.jami.bridges.unisave: Represent a sequence version: fasta + sequence version number.
SequenceVersion(FastaSequence, int) - Constructor for class psidev.psi.mi.jami.bridges.unisave.SequenceVersion: Constructor for SequenceVersion.
SequenceVersionFetcher - Interface in psidev.psi.mi.jami.bridges.fetcher: A fetcher that fetches a sequence from a specific version and/or a version from a specific sequence
set(int, T) - Method in class psidev.psi.mi.jami.utils.collection.AbstractListHavingProperties
set(T) - Method in class psidev.psi.mi.jami.utils.collection.ListIteratorHavingProperties: set
setAccession(String) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Entry: Sets the value of the accession property.
setActive(String) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.DbReferenceType: Sets the value of the active property.
setAdminGroupSynchronizer(PublicationAdminGroupSynchronizer) - Method in class psidev.psi.mi.jami.imex.ImexPublicationRegister: Setter for the field adminGroupSynchronizer.
setAdminGroupSynchronizer(PublicationAdminGroupSynchronizer) - Method in class psidev.psi.mi.jami.imex.ImexPublicationUpdater: Setter for the field adminGroupSynchronizer.
setAliasWriter(PsiXmlElementWriter<Alias>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlFeatureWriter: Setter for the field aliasWriter.
setAliasWriter(PsiXmlElementWriter<Alias>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlModelledInteractionWriter: Setter for the field aliasWriter.
setAliasWriter(PsiXmlElementWriter<Alias>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlOrganismWriter: Setter for the field aliasWriter.
setAliasWriter(PsiXmlElementWriter<Alias>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: Setter for the field aliasWriter.
setAliasWriter(PsiXmlElementWriter<Alias>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.AbstractXmlSourceWriter: Setter for the field aliasWriter.
setAliasWriter(PsiXmlElementWriter<Alias>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedBinaryInteractionEvidenceWriter: Setter for the field aliasWriter.
setAliasWriter(PsiXmlElementWriter<Alias>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedBinaryInteractionWriter: Setter for the field aliasWriter.
setAliasWriter(PsiXmlElementWriter<Alias>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedInteractionEvidenceWriter: Setter for the field aliasWriter.
setAliasWriter(PsiXmlElementWriter<Alias>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedInteractionWriter: Setter for the field aliasWriter.
setAliasWriter(PsiXmlElementWriter<Alias>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlNamedBinaryInteractionEvidenceWriter: Setter for the field aliasWriter.
setAliasWriter(PsiXmlElementWriter<Alias>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlNamedInteractionEvidenceWriter: Setter for the field aliasWriter.
setAliasWriter(PsiXmlElementWriter<Alias>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedBinaryInteractionEvidenceWriter: Setter for the field aliasWriter.
setAliasWriter(PsiXmlElementWriter<Alias>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedBinaryInteractionWriter: Setter for the field aliasWriter.
setAliasWriter(PsiXmlElementWriter<Alias>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedInteractionEvidenceWriter: Setter for the field aliasWriter.
setAliasWriter(PsiXmlElementWriter<Alias>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedInteractionWriter: Setter for the field aliasWriter.
setAliasWriter(PsiXmlElementWriter<Alias>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlNamedBinaryInteractionEvidenceWriter: Setter for the field aliasWriter.
setAliasWriter(PsiXmlElementWriter<Alias>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlNamedInteractionEvidenceWriter: Setter for the field aliasWriter.
setAliasWriter(PsiXmlElementWriter<Alias>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.AbstractXmlInteractionEvidenceWriter: Setter for the field aliasWriter.
setAliasWriter(PsiXmlElementWriter<Alias>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlInteractionWriter: Setter for the field aliasWriter.
setAliasWriter(PsiXmlElementWriter<Alias>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25.XmlNamedExperimentWriter: Setter for the field aliasWriter.
setAliasWriter(PsiXmlElementWriter<Alias>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlNamedExperimentWriter: Setter for the field aliasWriter.
setAliasWriter(PsiXmlElementWriter<Alias>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlCvTermWriter: Setter for the field aliasWriter.
setAliasWriter(PsiXmlElementWriter<Alias>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlInteractorWriter: Setter for the field aliasWriter.
setAllostericEffector(AllostericEffector) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAllostery: Sets the effector that elicits an allosteric response.
setAllostericEffector(T) - Method in interface psidev.psi.mi.jami.model.Allostery: Sets the effector that elicits an allosteric response.
setAllostericEffector(T) - Method in class psidev.psi.mi.jami.model.impl.DefaultAllostery: Setter for the field allostericEffector.
setAllostericEffector(T) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAllostery: Setter for the field allostericEffector.
setAllostericEffector(T) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAllostery: Setter for the field allostericEffector.
setAllostericEffectorRef(int, PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAllostery: setAllostericEffectorRef.
setAllostericEffectorRef(int, PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAllostery: setAllostericEffectorRef.
setAllostericMechanism(CvTerm) - Method in interface psidev.psi.mi.jami.model.Allostery: Sets the allosteric mechanism.
setAllostericMechanism(CvTerm) - Method in class psidev.psi.mi.jami.model.impl.DefaultAllostery: Sets the allosteric mechanism.
setAllostericMechanism(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAllostery: Sets the allosteric mechanism.
setAllostericMechanism(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAllostery: Sets the allosteric mechanism.
setAllostericMechanism(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAllostery: Sets the allosteric mechanism.
setAllostericMolecule(ModelledEntity) - Method in interface psidev.psi.mi.jami.model.Allostery: Sets the allosteric molecule.
setAllostericMolecule(ModelledEntity) - Method in class psidev.psi.mi.jami.model.impl.DefaultAllostery: Sets the allosteric molecule.
setAllostericMolecule(ModelledEntity) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAllostery: Sets the allosteric molecule.
setAllostericMolecule(ModelledEntity) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAllostery: Sets the allosteric molecule.
setAllostericMolecule(ModelledEntity) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAllostery: Sets the allosteric molecule.
setAllostericMoleculeRef(int, PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAllostery: setAllostericMoleculeRef.
setAllostericMoleculeRef(int, PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAllostery: setAllostericMoleculeRef.
setAllostericPTMRef(int, PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAllostery: setAllostericPTMRef.
setAllostericPTMRef(int, PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAllostery: setAllostericPTMRef.
setAllosteryType(CvTerm) - Method in interface psidev.psi.mi.jami.model.Allostery: Sets the allostery type.
setAllosteryType(CvTerm) - Method in class psidev.psi.mi.jami.model.impl.DefaultAllostery: Sets the allostery type.
setAllosteryType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAllostery: Sets the allostery type.
setAllosteryType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAllostery: Sets the allostery type.
setAllosteryType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAllostery: Sets the allostery type.
setAllosteryWriter(PsiXmlElementWriter<Allostery>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledInteractionWriter: Setter for the field allosteryWriter.
setAllosteryWriter(PsiXmlElementWriter<Allostery>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlModelledInteractionWriter: Setter for the field allosteryWriter.
setAnnotationsWrapper(AbstractBaseEntry.AbstractJAXBAnnotationsWrapper) - Method in class psidev.psi.mi.jami.xml.model.AbstractBaseEntry: Setter for the field annotationsWrapper.
setAnnotationsWriter(PsiXmlElementWriter<Annotation>) - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Setter for the field annotationsWriter.
setAnnotationWriter(JsonElementWriter<Annotation>) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonExperimentWriter: Setter for the field annotationWriter.
setAnnotationWriter(PsiXmlElementWriter<Annotation>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.XmlDbXrefWriter: Setter for the field annotationWriter.
setAscending(boolean) - Method in class psidev.psi.mi.jami.utils.comparator.IntegerComparator: Setter for the field ascending.
setAttributeWrapper(AbstractXmlCvTerm.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm: setAttributeWrapper.
setAttributeWrapper(AbstractXmlCvTerm.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm: setAttributeWrapper.
setAttributeWrapper(AbstractXmlCvTerm.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm: setAttributeWrapper.
setAttributeWriter(PsiXmlElementWriter<Annotation>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: Setter for the field attributeWriter.
setAttributeWriter(PsiXmlElementWriter<Annotation>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlFeatureWriter: Setter for the field attributeWriter.
setAttributeWriter(PsiXmlElementWriter<Annotation>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: Setter for the field attributeWriter.
setAttributeWriter(PsiXmlElementWriter<Annotation>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: Setter for the field attributeWriter.
setAttributeWriter(PsiXmlElementWriter<Annotation>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlPublicationWriter: Setter for the field attributeWriter.
setAttributeWriter(PsiXmlElementWriter<Annotation>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlCooperativeEffectWriter: Setter for the field attributeWriter.
setAttributeWriter(PsiXmlElementWriter<Annotation>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.AbstractXmlSourceWriter: Setter for the field attributeWriter.
setAttributeWriter(PsiXmlElementWriter<Annotation>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlInteractorWriter: Setter for the field attributeWriter.
setAttributeWriter(PsiXmlElementWriter<Annotation>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlOpenCvTermWriter: Setter for the field attributeWriter.
setAvailability(String) - Method in class psidev.psi.mi.jami.binary.impl.BinaryInteractionEvidenceWrapper: Sets the availability.
setAvailability(String) - Method in class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: Sets the availability.
setAvailability(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: Sets the availability.
setAvailability(String) - Method in interface psidev.psi.mi.jami.model.InteractionEvidence: Sets the availability.
setAvailability(String) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: Sets the availability.
setAvailability(String) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: Sets the availability.
setAvailability(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: Sets the availability.
setAvailability(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: Sets the availability.
setAvailability(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: Sets the availability.
setAvailabilitySet(Set<String>) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlMixWriter: setAvailabilitySet.
setAvailabilitySet(Set<String>) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: setAvailabilitySet.
setAvailabilityWriter(PsiXmlElementWriter<String>) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlMixWriter: Setter for the field availabilityWriter.
setAvailabilityWriter(PsiXmlElementWriter<String>) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: Setter for the field availabilityWriter.
setAvailabilityWriter(PsiXmlElementWriter<String>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionEvidenceWriter: Setter for the field availabilityWriter.
setBinaryEvidenceWriter(AbstractMitab25BinaryWriter<BinaryInteractionEvidence, ParticipantEvidence>) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25BinaryWriter: Setter for the field binaryEvidenceWriter.
setBinaryEvidenceWriter(AbstractMitab26BinaryWriter<BinaryInteractionEvidence, ParticipantEvidence>) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab26BinaryWriter: Setter for the field binaryEvidenceWriter.
setBinaryEvidenceWriter(AbstractMitab27BinaryWriter<BinaryInteractionEvidence, ParticipantEvidence>) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab27BinaryWriter: Setter for the field binaryEvidenceWriter.
setBinaryEvidenceWriter(AbstractMitab28BinaryWriter<BinaryInteractionEvidence, ParticipantEvidence>) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab28BinaryWriter: Setter for the field binaryEvidenceWriter.
setBinaryInteractionFactory(BinaryInteractionFactory) - Method in class psidev.psi.mi.jami.binary.expansion.AbstractComplexExpansionMethod: Sets the binary interaction factory
setBinaryInteractionFactory(BinaryInteractionFactory) - Method in class psidev.psi.mi.jami.binary.expansion.BipartiteExpansion: Sets the binary interaction factory
setBinaryInteractionFactory(BinaryInteractionFactory) - Method in interface psidev.psi.mi.jami.binary.expansion.ComplexExpansionMethod: Sets the binary interaction factory
setBinaryInteractionFactory(BinaryInteractionFactory) - Method in class psidev.psi.mi.jami.binary.expansion.MatrixExpansion: Sets the binary interaction factory
setBinaryInteractionFactory(BinaryInteractionFactory) - Method in class psidev.psi.mi.jami.binary.expansion.SpokeExpansion: Sets the binary interaction factory
setBinaryWriter(AbstractMIJsonBinaryWriter) - Method in class psidev.psi.mi.jami.json.binary.AbstractMIJsonWriter: Setter for the field binaryWriter.
setBinaryWriter(AbstractMitab25BinaryWriter<B, P>) - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitabWriter: Setter for the field binaryWriter.
setBindingFeaturesWriter(PsiXmlElementWriter<Set<Feature>>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledInteractionWriter: Setter for the field bindingFeaturesWriter.
setBindingFeaturesWriter(PsiXmlElementWriter<Set<Feature>>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlModelledInteractionWriter: Setter for the field bindingFeaturesWriter.
setBioactiveEntityEnricher(InteractorEnricher<BioactiveEntity>) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeInteractorEnricher: Setter for the field bioactiveEntityEnricher.
setBiologicalEffect(CvTerm) - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipant: setBiologicalEffect
setBiologicalEffect(CvTerm) - Method in interface psidev.psi.mi.jami.model.Participant: Sets the biological effect of the participant in a causal interaction.
setBiologicalEffect(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant: Sets the biological effect of the participant in a causal interaction.
setBiologicalEffect(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: Sets the biological effect of the participant in a causal interaction.
setBiologicalEffect(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: Sets the biological effect of the participant in a causal interaction.
setBiologicalEffect(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: Sets the biological effect of the participant in a causal interaction.
setBiologicalEffect(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant: Sets the biological effect of the participant in a causal interaction.
setBiologicalEffect(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: Sets the biological effect of the participant in a causal interaction.
setBiologicalEffect(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: Sets the biological effect of the participant in a causal interaction.
setBiologicalEffect(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: Sets the biological effect of the participant in a causal interaction.
setBiologicalEffect(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant: Sets the biological effect of the participant in a causal interaction.
setBiologicalEffect(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: Sets the biological effect of the participant in a causal interaction.
setBiologicalEffect(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: Sets the biological effect of the participant in a causal interaction.
setBiologicalEffect(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: Sets the biological effect of the participant in a causal interaction.
setBiologicalEffect(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractParticipantRef: Sets the biological effect of the participant in a causal interaction.
setBiologicalEffect(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractParticipantRef: Sets the biological effect of the participant in a causal interaction.
setBiologicalEffect(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractParticipantRef: Sets the biological effect of the participant in a causal interaction.
setBiologicalRole(CvTerm) - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipant: Sets the biological role.
setBiologicalRole(CvTerm) - Method in interface psidev.psi.mi.jami.model.Participant: Sets the biological role.
setBiologicalRole(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant: Sets the biological role.
setBiologicalRole(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: Sets the biological role.
setBiologicalRole(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: Sets the biological role.
setBiologicalRole(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: Sets the biological role.
setBiologicalRole(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant: Sets the biological role.
setBiologicalRole(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: Sets the biological role.
setBiologicalRole(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: Sets the biological role.
setBiologicalRole(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: Sets the biological role.
setBiologicalRole(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant: Sets the biological role.
setBiologicalRole(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: Sets the biological role.
setBiologicalRole(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: Sets the biological role.
setBiologicalRole(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: Sets the biological role.
setBiologicalRole(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractParticipantRef: Sets the biological role.
setBiologicalRole(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractParticipantRef: Sets the biological role.
setBiologicalRole(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractParticipantRef: Sets the biological role.
setBiologicalRoleWriter(PsiXmlVariableNameWriter<CvTerm>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: Setter for the field biologicalRoleWriter.
setCacheOfObjects(PsiXmlIdCache) - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractFullPsiXmlParser: setCacheOfObjects.
setCacheOfObjects(PsiXmlIdCache) - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsixmlBinaryParser: setCacheOfObjects.
setCacheOfObjects(PsiXmlIdCache) - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: setCacheOfObjects.
setCacheOfObjects(PsiXmlIdCache) - Method in interface psidev.psi.mi.jami.xml.io.parser.FullPsiXmlParser: setCacheOfObjects.
setCacheOfObjects(PsiXmlIdCache) - Method in interface psidev.psi.mi.jami.xml.io.parser.PsiXmlParser: setCacheOfObjects.
setCausalRegulatoryMechanism(CvTerm) - Method in interface psidev.psi.mi.jami.binary.BinaryInteraction: Sets the causal regulatory mechanism of this binary interaction
setCausalRegulatoryMechanism(CvTerm) - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteraction: Setter for the field causalRegulatoryMechanism.
setCausalRegulatoryMechanism(CvTerm) - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteractionWrapper: Setter for the field causalRegulatoryMechanism.
setCausalRegulatoryMechanism(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: Sets the causal regulatory mechanism of this binary interaction
setCausalRegulatoryMechanism(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: Sets the causal regulatory mechanism of this binary interaction
setCausalRegulatoryMechanism(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: Sets the causal regulatory mechanism of this binary interaction
setCausalRegulatoryMechanism(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: Sets the causal regulatory mechanism of this binary interaction
setCausalRelationshipWriter(PsiXmlCausalRelationshipWriter) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlInteractionEvidenceWriter: Setter for the field causalRelationshipWriter.
setCausalRelationshipWriter(PsiXmlCausalRelationshipWriter) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledInteractionWriter: Setter for the field causalRelationshipWriter.
setCausalRelationshipWriter(PsiXmlCausalRelationshipWriter) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlInteractionEvidenceWriter: Setter for the field causalRelationshipWriter.
setCausalRelationshipWriter(PsiXmlCausalRelationshipWriter) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlModelledInteractionWriter: Setter for the field causalRelationshipWriter.
setCausalStatementWriter(PsiXmlVariableNameWriter<CvTerm>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlCausalRelationshipWriter: Setter for the field causalStatementWriter.
setCellType(CvTerm) - Method in class psidev.psi.mi.jami.model.impl.DefaultOrganism: Sets the cell type
setCellType(CvTerm) - Method in interface psidev.psi.mi.jami.model.Organism: Sets the cell type
setCellType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOrganism: Sets the cell type
setCellType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOrganism: Sets the cell type
setCellType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOrganism: Sets the cell type
setChangeListener(EntityInteractorChangeListener) - Method in interface psidev.psi.mi.jami.model.Entity: Sets the entity change listener
setChangeListener(EntityInteractorChangeListener) - Method in class psidev.psi.mi.jami.model.impl.AbstractEntity: Sets the entity change listener
setChangeListener(EntityInteractorChangeListener) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity: Sets the entity change listener
setChangeListener(EntityInteractorChangeListener) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: Sets the entity change listener
setChangeListener(EntityInteractorChangeListener) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidateWrapper: Sets the entity change listener
setChangeListener(EntityInteractorChangeListener) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantCandidateWrapper: Sets the entity change listener
setChangeListener(EntityInteractorChangeListener) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: Sets the entity change listener
setChangeListener(EntityInteractorChangeListener) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: Sets the entity change listener
setChangeListener(EntityInteractorChangeListener) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity: Sets the entity change listener
setChangeListener(EntityInteractorChangeListener) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: Sets the entity change listener
setChangeListener(EntityInteractorChangeListener) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidateWrapper: Sets the entity change listener
setChangeListener(EntityInteractorChangeListener) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantCandidateWrapper: Sets the entity change listener
setChangeListener(EntityInteractorChangeListener) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: Sets the entity change listener
setChangeListener(EntityInteractorChangeListener) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: Sets the entity change listener
setChangeListener(EntityInteractorChangeListener) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity: Sets the entity change listener
setChangeListener(EntityInteractorChangeListener) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: Sets the entity change listener
setChangeListener(EntityInteractorChangeListener) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidateWrapper: Sets the entity change listener
setChangeListener(EntityInteractorChangeListener) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantCandidateWrapper: Sets the entity change listener
setChangeListener(EntityInteractorChangeListener) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: Sets the entity change listener
setChangeListener(EntityInteractorChangeListener) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: Sets the entity change listener
setChangeListener(EntityInteractorChangeListener) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractEntityRef: Sets the entity change listener
setChangeListener(EntityInteractorChangeListener) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractParticipantRef: Sets the entity change listener
setChangeListener(EntityInteractorChangeListener) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractEntityRef: Sets the entity change listener
setChangeListener(EntityInteractorChangeListener) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractParticipantRef: Sets the entity change listener
setChangeListener(EntityInteractorChangeListener) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractEntityRef: Sets the entity change listener
setChangeListener(EntityInteractorChangeListener) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractParticipantRef: Sets the entity change listener
setCharacterOffset(int) - Method in class psidev.psi.mi.jami.xml.model.extension.PsiXmlLocator: Setter for the field characterOffset.
setChebi(String) - Method in interface psidev.psi.mi.jami.model.BioactiveEntity: Sets the CHEBI identifier.
setChebi(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: Sets the CHEBI identifier.
setCheckComplexesAsInteractors(boolean) - Method in interface psidev.psi.mi.jami.utils.comparator.participant.CustomizableModelledParticipantComparator: setCheckComplexesAsInteractors
setCheckComplexesAsInteractors(boolean) - Method in class psidev.psi.mi.jami.utils.comparator.participant.ModelledEntityComparator: setCheckComplexesAsInteractors
setCheckComplexesAsInteractors(boolean) - Method in class psidev.psi.mi.jami.utils.comparator.participant.ModelledParticipantComparator: setCheckComplexesAsInteractors
setCheckComplexesAsInteractors(boolean) - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactModelledParticipantInteractorComparator: setCheckComplexesAsInteractors
setCheckComplexesAsInteractors(boolean) - Method in class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousModelledParticipantInteractorComparator: setCheckComplexesAsInteractors
setCheckingEnabled(boolean) - Method in class psidev.psi.mi.jami.bridges.mapper.mock.MockProteinMapper: setCheckingEnabled.
setCheckpoint(Integer) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Uniparc: Sets the value of the checkpoint property.
setChecksum(String) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Sequence: Sets the value of the checksum property.
setChecksumWriter(PsiXmlElementWriter<Checksum>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: Setter for the field checksumWriter.
setChecksumWriter(PsiXmlElementWriter<Checksum>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlInteractorWriter: Setter for the field checksumWriter.
setColumnFeeder(MitabColumnFeeder<T, P>) - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitab25BinaryWriter: Setter for the field columnFeeder.
setCommonName(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultOrganism: Set the common name
setCommonName(String) - Method in interface psidev.psi.mi.jami.model.Organism: Set the common name
setCommonName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOrganism: Set the common name
setCommonName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOrganism: Set the common name
setCommonName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOrganism: Set the common name
setCompartment(CvTerm) - Method in class psidev.psi.mi.jami.model.impl.DefaultOrganism: Sets the compartment.
setCompartment(CvTerm) - Method in interface psidev.psi.mi.jami.model.Organism: Sets the compartment.
setCompartment(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOrganism: Sets the compartment.
setCompartment(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOrganism: Sets the compartment.
setCompartment(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOrganism: Sets the compartment.
setComplex1(Complex) - Method in class psidev.psi.mi.jami.listener.comparator.observer.ComplexComparatorObserver
setComplex2(Complex) - Method in class psidev.psi.mi.jami.listener.comparator.observer.ComplexComparatorObserver
setComplexAsInteractor(boolean) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: Sets the property of the writer to write a complex as an interactor or as an interaction
setComplexAsInteractor(boolean) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: Sets the property of the writer to write a complex as an interactor or as an interaction
setComplexAsInteractor(boolean) - Method in interface psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlInteractionWriter: Sets the property of the writer to write a complex as an interactor or as an interaction
setComplexAsInteractor(boolean) - Method in interface psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlParticipantWriter: Sets the property of the writer to write a complex as an interactor or as an interaction
setComplexComparatorObservations(List<ComplexComparatorObserver>) - Method in class psidev.psi.mi.jami.listener.comparator.impl.ComplexComparatorListenerImpl
setComplexEnricher(ComplexEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeInteractorEnricher: Setter for the field complexEnricher.
setComplexExpansion(CvTerm) - Method in interface psidev.psi.mi.jami.binary.BinaryInteraction: Sets the complex expansion of this binary interaction
setComplexExpansion(CvTerm) - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteraction: Sets the complex expansion of this binary interaction
setComplexExpansion(CvTerm) - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteractionWrapper: Sets the complex expansion of this binary interaction
setComplexExpansion(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: Sets the complex expansion of this binary interaction
setComplexExpansion(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: Sets the complex expansion of this binary interaction
setComplexExpansion(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: Sets the complex expansion of this binary interaction
setComplexExpansion(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: Sets the complex expansion of this binary interaction
setComplexWriter(PsiXmlInteractionWriter<ModelledInteraction>) - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Setter for the field complexWriter.
setComplexWriter(PsiXmlInteractionWriter<ModelledInteraction>) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlMixWriter: Setter for the field complexWriter.
setComplexWriter(PsiXmlInteractionWriter<ModelledInteraction>) - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlMixWriter: Setter for the field complexWriter.
setConfidenceWriter(JsonElementWriter<Confidence>) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionEvidenceWriter: Setter for the field confidenceWriter.
setConfidenceWriter(JsonElementWriter<Confidence>) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonModelledInteractionWriter: Setter for the field confidenceWriter.
setConfidenceWriter(JsonElementWriter<Confidence>) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonParticipantEvidenceWriter: Setter for the field confidenceWriter.
setConfidenceWriter(PsiXmlElementWriter<Confidence>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: Setter for the field confidenceWriter.
setConfidenceWriter(PsiXmlElementWriter<Confidence>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionEvidenceWriter: Setter for the field confidenceWriter.
setConfidenceWriter(PsiXmlElementWriter<Confidence>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlModelledInteractionWriter: Setter for the field confidenceWriter.
setConfidenceWriter(PsiXmlElementWriter<Confidence>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantEvidenceWriter: Setter for the field confidenceWriter.
setConnectionTimeOut(int) - Method in class psidev.psi.mi.jami.bridges.unisave.UnisaveClient: Setter for the field connectionTimeOut.
setContent(String) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Sequence: Sets the value of the content property.
setCooperativityEvidenceWriter(PsiXmlElementWriter<CooperativityEvidence>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlCooperativeEffectWriter: Setter for the field cooperativityEvidenceWriter.
setCopyright(String) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Uniparc: Sets the value of the copyright property.
setCreated(XMLGregorianCalendar) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.DbReferenceType: Sets the value of the created property.
setCreatedDate(Date) - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteractionWrapper: Sets the created date
setCreatedDate(Date) - Method in class psidev.psi.mi.jami.model.impl.AbstractInteraction: Sets the created date
setCreatedDate(Date) - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: Sets the created date
setCreatedDate(Date) - Method in interface psidev.psi.mi.jami.model.Interaction: Sets the created date
setCreatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: Sets the created date
setCreatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: Sets the created date
setCreatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: Sets the created date
setCreatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: Sets the created date
setCreatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: Sets the created date
setCreatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: Sets the created date
setCreatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: Sets the created date
setCreatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: Sets the created date
setCreatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: Sets the created date
setCreatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: Sets the created date
setCreatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: Sets the created date
setCreatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: Sets the created date
setCreatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: Sets the created date
setCreatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: Sets the created date
setCreatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: Sets the created date
setCreatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: Sets the created date
setCreatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: Sets the created date
setCreatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: Sets the created date
setCreatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: Sets the created date
setCsvFileParserListener(CsvParserListener) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: setCsvFileParserListener.
setCsvFileParserListener(CsvParserListener) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: setCsvFileParserListener.
setCurationDepth(CurationDepth) - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: Set the curation depth of the publication.
setCurationDepth(CurationDepth) - Method in interface psidev.psi.mi.jami.model.Publication: Set the curation depth of the publication.
setCurationDepth(CurationDepth) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: Set the curation depth of the publication.
setCurationDepth(CurationDepth) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: Set the curation depth of the publication.
setCurationDepth(CurationDepth) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: Set the curation depth of the publication.
setCurrentElement(String) - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: Setter for the field currentElement.
setCurrentIndex(int) - Method in class psidev.psi.mi.jami.imex.actions.impl.ImexAssignerImpl: Setter for the field currentIndex.
setCurrentInteraction(T) - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Setter for the field currentInteraction.
setCurrentSource(Source) - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Setter for the field currentSource.
setCurrentSource(Entry) - Method in class psidev.psi.mi.jami.xml.XmlEntryContext: setCurrentSource.
setCvTermEnricher(CvTermEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullComplexEnricher: setCvTermEnricher.
setCvTermEnricher(CvTermEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullComplexUpdater: setCvTermEnricher.
setCvTermEnricher(CvTermEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceEnricher: setCvTermEnricher.
setCvTermEnricher(CvTermEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceUpdater: setCvTermEnricher.
setCvTermEnricher(CvTermEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureUpdater: setCvTermEnricher.
setCvTermEnricher(CvTermEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionEvidenceEnricher: setCvTermEnricher.
setCvTermEnricher(CvTermEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullModelledInteractionEnricher: setCvTermEnricher.
setCvTermEnricher(CvTermEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalComplexEnricher: setCvTermEnricher.
setCvTermEnricher(CvTermEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalComplexUpdater: setCvTermEnricher.
setCvTermEnricher(CvTermEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentEnricher: setCvTermEnricher.
setCvTermEnricher(CvTermEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: setCvTermEnricher.
setCvTermEnricher(CvTermEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEvidenceUpdater: setCvTermEnricher.
setCvTermEnricher(CvTermEnricher<CvTerm>) - Method in interface psidev.psi.mi.jami.enricher.ExperimentEnricher: setCvTermEnricher.
setCvTermEnricher(CvTermEnricher<CvTerm>) - Method in interface psidev.psi.mi.jami.enricher.FeatureEnricher: setCvTermEnricher.
setCvTermEnricher(CvTermEnricher<CvTerm>) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorEnricher: setCvTermEnricher.
setCvTermEnricher(CvTermEnricher<CvTerm>) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeInteractorEnricher: setCvTermEnricher.
setCvTermEnricher(CvTermEnricher<CvTerm>) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeModelledParticipantEnricher: setCvTermEnricher.
setCvTermEnricher(CvTermEnricher<CvTerm>) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeParticipantEnricher: setCvTermEnricher.
setCvTermEnricher(CvTermEnricher<CvTerm>) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeParticipantEvidenceEnricher: setCvTermEnricher.
setCvTermEnricher(CvTermEnricher<CvTerm>) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionUpdater: setCvTermEnricher.
setCvTermEnricher(CvTermEnricher<CvTerm>) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullOrganismEnricher: setCvTermEnricher.
setCvTermEnricher(CvTermEnricher<CvTerm>) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullOrganismUpdater: setCvTermEnricher.
setCvTermEnricher(CvTermEnricher<CvTerm>) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEvidenceUpdater: setCvTermEnricher.
setCvTermEnricher(CvTermEnricher<CvTerm>) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEnricher: setCvTermEnricher.
setCvTermEnricher(CvTermEnricher<CvTerm>) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEvidenceUpdater: setCvTermEnricher.
setCvTermEnricher(CvTermEnricher<CvTerm>) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalModelledInteractionUpdater: setCvTermEnricher.
setCvTermEnricher(CvTermEnricher<CvTerm>) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOrganismEnricher: setCvTermEnricher.
setCvTermEnricher(CvTermEnricher<CvTerm>) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEnricher: setCvTermEnricher.
setCvTermEnricher(CvTermEnricher<CvTerm>) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEvidenceUpdater: setCvTermEnricher.
setCvTermEnricher(CvTermEnricher<CvTerm>) - Method in interface psidev.psi.mi.jami.enricher.InteractionEnricher: setCvTermEnricher.
setCvTermEnricher(CvTermEnricher<CvTerm>) - Method in interface psidev.psi.mi.jami.enricher.InteractorEnricher: setCvTermEnricher.
setCvTermEnricher(CvTermEnricher<CvTerm>) - Method in interface psidev.psi.mi.jami.enricher.OrganismEnricher: setCvTermEnricher.
setCvTermEnricher(CvTermEnricher<CvTerm>) - Method in interface psidev.psi.mi.jami.enricher.ParticipantEnricher: setCvTermEnricher.
setCvTermEnricherListener(CvTermEnricherListener<C>) - Method in interface psidev.psi.mi.jami.enricher.CvTermEnricher: setCvTermEnricherListener.
setCvTermEnricherListener(CvTermEnricherListener<C>) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullCvTermUpdater: setCvTermEnricherListener.
setCvTermEnricherListener(CvTermEnricherListener<C>) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalCvTermEnricher: setCvTermEnricherListener.
setCvTermEnricherListener(CvTermEnricherListener<OntologyTerm>) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOntologyTermEnricher: setCvTermEnricherListener.
setCvTermEnricherListener(CvTermEnricherListener<Source>) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalSourceEnricher: setCvTermEnricherListener.
setCvWriter(JsonElementWriter<CvTerm>) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonExperimentWriter: Setter for the field cvWriter.
setCvWriter(JsonElementWriter<CvTerm>) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonFeatureWriter: Setter for the field cvWriter.
setCvWriter(JsonElementWriter<CvTerm>) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonHostOrganismWriter: Setter for the field cvWriter.
setCvWriter(JsonElementWriter<CvTerm>) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionWriter: Setter for the field cvWriter.
setCvWriter(JsonElementWriter<CvTerm>) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractorWriter: Setter for the field cvWriter.
setCvWriter(JsonElementWriter<CvTerm>) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonParticipantWriter: Setter for the field cvWriter.
setCvWriter(JsonElementWriter<CvTerm>) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonPublicationWriter: Setter for the field cvWriter.
setCvWriter(PsiXmlVariableNameWriter<CvTerm>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlOrganismWriter: Setter for the field cvWriter.
setCvWriter(PsiXmlVariableNameWriter<CvTerm>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlCooperativeEffectWriter: Setter for the field cvWriter.
setCvWriter(PsiXmlVariableNameWriter<CvTerm>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlCooperativityEvidenceWriter: Setter for the field cvWriter.
setDatabase(String) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.SeqFeatureType: Sets the value of the database property.
setDataset(String) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Entry: Sets the value of the dataset property.
setDataSource(DataSource) - Method in class psidev.psi.mi.jami.batch.BatchDataSourceInitializer: Setter for the field dataSource.
setDdbjEmblGenbank(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultNucleicAcid: Sets the DDBJ/EMBL/GemBank identifier.
setDdbjEmblGenbank(String) - Method in interface psidev.psi.mi.jami.model.NucleicAcid: Sets the DDBJ/EMBL/GemBank identifier.
setDebugStream(PrintStream) - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParserTokenManager: Set debug output.
setDefaultExperiment(Experiment) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionEvidenceWriter: Sets the default experiment that will be used to write a valid XML file even if the interaction does not have any valid experiment
setDefaultExperiment(Experiment) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: Sets the default experiment that will be used to write a valid XML file even if the interaction does not have any valid experiment
setDefaultExperiment(Experiment) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlModelledInteractionWriter: Sets the default experiment that will be used to write a valid XML file even if the interaction does not have any valid experiment
setDefaultExperiment(Experiment) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParameterWriter: Sets the default experiment that will be used to write a valid XML file even if the interaction does not have any valid experiment
setDefaultExperiment(Experiment) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlModelledInteractionWriter: Sets the default experiment that will be used to write a valid XML file even if the interaction does not have any valid experiment
setDefaultExperiment(Experiment) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlModelledInteractionWriter: Sets the default experiment that will be used to write a valid XML file even if the interaction does not have any valid experiment
setDefaultExperiment(Experiment) - Method in interface psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlInteractionWriter: Sets the default experiment that will be used to write a valid XML file even if the interaction does not have any valid experiment
setDefaultExperiment(Experiment) - Method in interface psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlParameterWriter: Sets the default experiment that will be used to write a valid XML file even if the interaction does not have any valid experiment
setDefaultExperiments(List<Experiment>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.AbstractXmlInteractionEvidenceWriter: Sets the default experiments that will be used to write a valid XML file even if the interaction does not have any valid experiment
setDefaultExperiments(List<Experiment>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.AbstractXmlModelledInteractionWriter: Sets the default experiments that will be used to write a valid XML file even if the interaction does not have any valid experiment
setDefaultExperiments(List<Experiment>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlInteractionWriter: Sets the default experiments that will be used to write a valid XML file even if the interaction does not have any valid experiment
setDefaultExperiments(List<Experiment>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlModelledInteractionWriter: Sets the default experiments that will be used to write a valid XML file even if the interaction does not have any valid experiment
setDefaultExperiments(List<Experiment>) - Method in interface psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlExtendedInteractionWriter: Sets the default experiments that will be used to write a valid XML file even if the interaction does not have any valid experiment
setDefaultPublication(Publication) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: Sets the default publication to write in case an experiment does not have a publication
setDefaultPublication(Publication) - Method in interface psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlExperimentWriter: Sets the default publication to write in case an experiment does not have a publication
setDefaultRefType(String) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlDbXrefWriter: Sets the default refType that will be used when a Xref object does not have a qualifier
setDefaultRefType(String) - Method in interface psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlXrefWriter: Sets the default refType that will be used when a Xref object does not have a qualifier
setDefaultRefTypeAc(String) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlDbXrefWriter: Sets the default refTypeAc that will be used when a Xref object does not have a qualifier
setDefaultRefTypeAc(String) - Method in interface psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlXrefWriter: Sets the default refTypeAc that will be used when a Xref object does not have a qualifier
setDefaultReleaseDate(XMLGregorianCalendar) - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Setter for the field defaultReleaseDate.
setDefaultReleaseDate(XMLGregorianCalendar) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlMixWriter: Setter for the field defaultReleaseDate.
setDefaultReleaseDate(XMLGregorianCalendar) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.AbstractXmlSourceWriter: Sets the default release date
setDefaultReleaseDate(XMLGregorianCalendar) - Method in interface psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlSourceWriter: Sets the default release date
setDefaultReleaseDate(XMLGregorianCalendar) - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlMixWriter: Setter for the field defaultReleaseDate.
setDefaultSource(Source) - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Setter for the field defaultSource.
setDefaultSource(Source) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlMixWriter: Setter for the field defaultSource.
setDefaultSource(Source) - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlMixWriter: Setter for the field defaultSource.
setDefinition(String) - Method in class psidev.psi.mi.jami.bridges.ols.LazyOntologyTerm: Set the definition
setDefinition(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultOntologyTerm: Set the definition
setDefinition(String) - Method in interface psidev.psi.mi.jami.model.OntologyTerm: Set the definition
setDelegate(InteractionWriter) - Method in class psidev.psi.mi.jami.tab.io.writer.DefaultMitabWriter: Setter for the field delegate.
setDelegate(InteractionWriter) - Method in class psidev.psi.mi.jami.xml.io.writer.DefaultXmlWriter: Setter for the field delegate.
setDelegate(MitabStreamSource) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: Setter for the field delegate.
setDelegate(PsiXmlStreamSource) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: Setter for the field delegate.
setDelegate(ExtendedPsiXmlEntity<T>) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractEntityRef: Setter for the field delegate.
setDelegate(ExtendedPsiXmlEntity<T>) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractEntityRef: Setter for the field delegate.
setDelegate(ExtendedPsiXmlEntity<T>) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractEntityRef: Setter for the field delegate.
setDelegate(ExtendedPsiXmlFeature<E, F>) - Method in class psidev.psi.mi.jami.xml.model.reference.AbstractFeatureRef: Setter for the field delegate.
setDelegate(ExtendedPsiXmlInteractor) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractInteractorRef: Setter for the field delegate.
setDelegate(ExtendedPsiXmlInteractor) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractInteractorRef: Setter for the field delegate.
setDelegate(ExtendedPsiXmlInteractor) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractInteractorRef: Setter for the field delegate.
setDelegate(AbstractXmlParticipant<I, F>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: Setter for the field delegate.
setDelegate(AbstractXmlParticipant<I, F>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: Setter for the field delegate.
setDelegate(AbstractXmlParticipant<I, F>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: Setter for the field delegate.
setDescription(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameter: Sets the short description of this parameter.
setDescription(String) - Method in interface psidev.psi.mi.jami.model.VariableParameter: Sets the short description of this parameter.
setDescription(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameter: Sets the short description of this parameter.
setDescription(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameter: Sets the short description of this parameter.
setDescription(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameter: Sets the short description of this parameter.
setDestroyScripts(Resource[]) - Method in class psidev.psi.mi.jami.batch.BatchDataSourceInitializer: Setter for the field destroyScripts.
setDetectionMethodWriter(PsiXmlVariableNameWriter<CvTerm>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: Setter for the field detectionMethodWriter.
setDifferentObservations(Collection<ComplexComparisonEvent>) - Method in class psidev.psi.mi.jami.listener.comparator.observer.ComplexComparatorObserver
setDoi(String) - Method in class psidev.psi.mi.jami.bridges.imex.extension.ImexPublication: Sets the doi.
setDoi(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: Sets the doi.
setDoi(String) - Method in interface psidev.psi.mi.jami.model.Publication: Sets the doi.
setDoi(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: Sets the doi.
setDoi(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.PublicationXrefContainer: Setter for the field doi.
setDoi(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: Sets the doi.
setDoi(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.PublicationXrefContainer: Setter for the field doi.
setDoi(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: Sets the doi.
setDoi(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.PublicationXrefContainer: Setter for the field doi.
setElementCache(PsiXmlIdCache) - Method in class psidev.psi.mi.jami.xml.XmlEntryContext: Setter for the field elementCache.
setElementCache(PsiXmlObjectCache) - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Setter for the field elementCache.
setElementCache(PsiXmlObjectCache) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlMixWriter: Setter for the field elementCache.
setElementCache(PsiXmlObjectCache) - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlMixWriter: Setter for the field elementCache.
setEnd(int) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.LocationType: Sets the value of the end property.
setEndPositionWriter(PsiXmlElementWriter<Position>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlRangeWriter: Setter for the field endPositionWriter.
setEnsembl(String) - Method in interface psidev.psi.mi.jami.model.Gene: Sets the Ensembl accession for this gene.
setEnsembl(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultGene: Sets the Ensembl accession for this gene.
setEnsemblGenome(String) - Method in interface psidev.psi.mi.jami.model.Gene: Sets the Ensembl genomes identifier It will remove the old ensembl genomes identifier from the collection of identifiers and replace it with the new ensembl genomes identifier.
setEnsemblGenome(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultGene: Sets the Ensembl genomes identifier It will remove the old ensembl genomes identifier from the collection of identifiers and replace it with the new ensembl genomes identifier.
setEntrezGeneId(String) - Method in interface psidev.psi.mi.jami.model.Gene: Sets the Entrez gene id.
setEntrezGeneId(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultGene: Sets the Entrez gene id.
setEntry(Entry) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractExtendedXmlBinaryInteraction: setEntry.
setEntry(Entry) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteraction: setEntry.
setEntry(Entry) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: setEntry.
setEntry(Entry) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: setEntry.
setEntry(Entry) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: setEntry.
setEntry(Entry) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: setEntry.
setEntry(Entry) - Method in interface psidev.psi.mi.jami.xml.model.extension.PsiXmlInteraction: setEntry.
setEntry(Entry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: Setter for the field entry.
setEntry(Entry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: setEntry.
setEntry(Entry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: setEntry.
setEntry(Entry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: setEntry.
setEntry(Entry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: Setter for the field entry.
setEntry(Entry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: setEntry.
setEntry(Entry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: setEntry.
setEntry(Entry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: setEntry.
setEntry(Entry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: Setter for the field entry.
setEntry(Entry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: setEntry.
setEntry(Entry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: setEntry.
setEntry(Entry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: setEntry.
setEntry(Entry) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: setEntry.
setEntry(Entry) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: setEntry.
setEntry(Entry) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: setEntry.
setEntryAnnotations(Collection<Annotation>) - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Setter for the field entryAnnotations.
setEvidenceEnricher(InteractionEvidenceEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullModelledInteractionEnricher: Setter for the field evidenceEnricher.
setEvidenceType(CvTerm) - Method in class psidev.psi.mi.jami.binary.impl.DefaultModelledBinaryInteraction: Sets the evidence type
setEvidenceType(CvTerm) - Method in class psidev.psi.mi.jami.binary.impl.ModelledBinaryInteractionWrapper: Sets the evidence type
setEvidenceType(CvTerm) - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: Sets the evidence type
setEvidenceType(CvTerm) - Method in class psidev.psi.mi.jami.model.impl.DefaultModelledInteraction: Sets the evidence type
setEvidenceType(CvTerm) - Method in interface psidev.psi.mi.jami.model.ModelledInteraction: Sets the evidence type
setEvidenceType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: Sets the evidence type
setEvidenceType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: Sets the evidence type
setEvidenceType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteraction: Sets the evidence type
setEvidenceType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: Sets the evidence type
setEvidenceType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction: Sets the evidence type
setEvidenceType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: Sets the evidence type
setEvidenceType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: Sets the evidence type
setEvidenceType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: Sets the evidence type
setEvidenceType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction: Sets the evidence type
setEvidenceType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: Sets the evidence type
setEvidenceType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: Sets the evidence type
setEvidenceType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: Sets the evidence type
setEvidenceType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction: Sets the evidence type
setEvidenceType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: Sets the evidence type
setEvidenceType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: Sets the evidence type
setEvidenceType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: Sets the evidence type
setEvidenceType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: Sets the evidence type
setEvidenceType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef
setEvidenceType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef
setEvidenceType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef
setEvidenceWriter(AbstractCompactXmlWriter<E>) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlMixWriter: Setter for the field evidenceWriter.
setEvidenceWriter(AbstractExpandedXmlWriter<E>) - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlMixWriter: Setter for the field evidenceWriter.
setExpansionId(Integer) - Method in class psidev.psi.mi.jami.json.binary.AbstractMIJsonBinaryWriter: Setter for the field expansionId.
setExpansionId(Integer) - Method in class psidev.psi.mi.jami.json.binary.elements.SimpleJsonBinaryInteractionEvidenceWriter: Setter for the field expansionId.
setExpansionId(Integer) - Method in class psidev.psi.mi.jami.json.binary.elements.SimpleJsonBinaryInteractionWriter: Setter for the field expansionId.
setExpansionId(Integer) - Method in class psidev.psi.mi.jami.json.binary.elements.SimpleJsonModelledBinaryInteractionWriter: Setter for the field expansionId.
setExpansionMethod(ComplexExpansionMethod<I, B>) - Method in class psidev.psi.mi.jami.json.binary.AbstractMIJsonWriter: Setter for the field expansionMethod.
setExpansionMethod(ComplexExpansionMethod<T, B>) - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitabWriter: Setter for the field expansionMethod.
setExpansionMethod(ComplexExpansionMethod<T, B>) - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsixmlBinaryParser: Setter for the field expansionMethod.
setExperiment(Experiment) - Method in class psidev.psi.mi.jami.binary.impl.BinaryInteractionEvidenceWrapper: Sets the experiment for this interaction.
setExperiment(Experiment) - Method in class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: Sets the experiment for this interaction.
setExperiment(Experiment) - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: Sets the experiment for this interaction.
setExperiment(Experiment) - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameter: Sets the experiment for this variableParameter
setExperiment(Experiment) - Method in interface psidev.psi.mi.jami.model.InteractionEvidence: Sets the experiment for this interaction.
setExperiment(Experiment) - Method in interface psidev.psi.mi.jami.model.VariableParameter: Sets the experiment for this variableParameter
setExperiment(Experiment) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: Sets the experiment for this interaction.
setExperiment(Experiment) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: Sets the experiment for this interaction.
setExperiment(Experiment) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: Sets the experiment for this interaction.
setExperiment(Experiment) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParameter: Setter for the field experiment.
setExperiment(Experiment) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameter: Sets the experiment for this variableParameter
setExperiment(Experiment) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: Sets the experiment for this interaction.
setExperiment(Experiment) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParameter: Setter for the field experiment.
setExperiment(Experiment) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameter: Sets the experiment for this variableParameter
setExperiment(Experiment) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: Sets the experiment for this interaction.
setExperiment(Experiment) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParameter: Setter for the field experiment.
setExperiment(Experiment) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameter: Sets the experiment for this variableParameter
setExperimentalCvWriter(PsiXmlVariableNameWriter<CvTerm>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantEvidenceWriter: setExperimentalCvWriter.
setExperimentalEntityEnricher(EntityEnricher<ExperimentalEntity, FeatureEvidence>) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeEntityEnricher: Setter for the field experimentalEntityEnricher.
setExperimentalEntityEnricher(CompositeParticipantEvidenceEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeParticipantEnricher: Setter for the field experimentalEntityEnricher.
setExperimentalInteractorWrapper(XmlParticipantEvidence.JAXBExperimentalInteractorWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: setExperimentalInteractorWrapper.
setExperimentalInteractorWrapper(XmlParticipantEvidence.JAXBExperimentalInteractorWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: setExperimentalInteractorWrapper.
setExperimentalInteractorWrapper(XmlParticipantEvidence.JAXBExperimentalInteractorWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: setExperimentalInteractorWrapper.
setExperimentalInteractorWriter(CompactPsiXmlElementWriter<AbstractExperimentalInteractor>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlParticipantEvidenceWriter: Setter for the field experimentalInteractorWriter.
setExperimentalInteractorWriter(CompactPsiXmlElementWriter<AbstractExperimentalInteractor>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlParticipantEvidenceWriter: Setter for the field experimentalInteractorWriter.
setExperimentalInteractorWriter(ExpandedPsiXmlElementWriter<AbstractExperimentalInteractor>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlParticipantEvidenceWriter: Setter for the field experimentalInteractorWriter.
setExperimentalInteractorWriter(ExpandedPsiXmlElementWriter<AbstractExperimentalInteractor>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlParticipantEvidenceWriter: Setter for the field experimentalInteractorWriter.
setExperimentalRole(CvTerm) - Method in class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantPool: Sets the experimental role.
setExperimentalRole(CvTerm) - Method in class psidev.psi.mi.jami.model.impl.DefaultParticipantEvidence: Sets the experimental role.
setExperimentalRole(CvTerm) - Method in interface psidev.psi.mi.jami.model.ParticipantEvidence: Sets the experimental role.
setExperimentalRole(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantPool: Sets the experimental role.
setExperimentalRole(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: Sets the experimental role.
setExperimentalRole(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantPool: Sets the experimental role.
setExperimentalRole(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: Sets the experimental role.
setExperimentalRole(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantPool: Sets the experimental role.
setExperimentalRole(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: Sets the experimental role.
setExperimentAndAddInteractionEvidence(Experiment) - Method in class psidev.psi.mi.jami.binary.impl.BinaryInteractionEvidenceWrapper: Sets the experiment for this interaction and add the interaction to the list of interaction evidences If the given experiment is null, it will remove this interaction evidence from the previous experiment attached to this interaction
setExperimentAndAddInteractionEvidence(Experiment) - Method in class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: Sets the experiment for this interaction and add the interaction to the list of interaction evidences If the given experiment is null, it will remove this interaction evidence from the previous experiment attached to this interaction
setExperimentAndAddInteractionEvidence(Experiment) - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: Sets the experiment for this interaction and add the interaction to the list of interaction evidences If the given experiment is null, it will remove this interaction evidence from the previous experiment attached to this interaction
setExperimentAndAddInteractionEvidence(Experiment) - Method in interface psidev.psi.mi.jami.model.InteractionEvidence: Sets the experiment for this interaction and add the interaction to the list of interaction evidences If the given experiment is null, it will remove this interaction evidence from the previous experiment attached to this interaction
setExperimentAndAddInteractionEvidence(Experiment) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: Sets the experiment for this interaction and add the interaction to the list of interaction evidences If the given experiment is null, it will remove this interaction evidence from the previous experiment attached to this interaction
setExperimentAndAddInteractionEvidence(Experiment) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: Sets the experiment for this interaction and add the interaction to the list of interaction evidences If the given experiment is null, it will remove this interaction evidence from the previous experiment attached to this interaction
setExperimentAndAddInteractionEvidence(Experiment) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: Sets the experiment for this interaction and add the interaction to the list of interaction evidences If the given experiment is null, it will remove this interaction evidence from the previous experiment attached to this interaction
setExperimentAndAddInteractionEvidence(Experiment) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: Sets the experiment for this interaction and add the interaction to the list of interaction evidences If the given experiment is null, it will remove this interaction evidence from the previous experiment attached to this interaction
setExperimentAndAddInteractionEvidence(Experiment) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: Sets the experiment for this interaction and add the interaction to the list of interaction evidences If the given experiment is null, it will remove this interaction evidence from the previous experiment attached to this interaction
setExperimentAndAddVariableParameter(Experiment) - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameter: Sets the experiment for this variableParameter and add this variableParameter to the list of variableParameters of this experiment.
setExperimentAndAddVariableParameter(Experiment) - Method in interface psidev.psi.mi.jami.model.VariableParameter: Sets the experiment for this variableParameter and add this variableParameter to the list of variableParameters of this experiment.
setExperimentAndAddVariableParameter(Experiment) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameter: Sets the experiment for this variableParameter and add this variableParameter to the list of variableParameters of this experiment.
setExperimentAndAddVariableParameter(Experiment) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameter: Sets the experiment for this variableParameter and add this variableParameter to the list of variableParameters of this experiment.
setExperimentAndAddVariableParameter(Experiment) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameter: Sets the experiment for this variableParameter and add this variableParameter to the list of variableParameters of this experiment.
setExperimentEnricher(ExperimentEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEvidenceEnricher: setExperimentEnricher.
setExperimentEnricher(ExperimentEnricher) - Method in interface psidev.psi.mi.jami.enricher.InteractionEvidenceEnricher: setExperimentEnricher.
setExperimentEnricherListener(ExperimentEnricherListener) - Method in interface psidev.psi.mi.jami.enricher.ExperimentEnricher: setExperimentEnricherListener.
setExperimentEnricherListener(ExperimentEnricherListener) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentEnricher: setExperimentEnricherListener.
setExperimentNamesContainer(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: Sets the value of the experimentNamesContainer property.
setExperimentNamesContainer(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: Sets the value of the experimentNamesContainer property.
setExperimentNamesContainer(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: Sets the value of the experimentNamesContainer property.
setExperiments(List<Experiment>) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractExperimentalInteractor.AbstractJAXBExperimentRefWrapper
setExperimentSet(Set<Experiment>) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlMixWriter: setExperimentSet.
setExperimentSet(Set<Experiment>) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: setExperimentSet.
setExperimentWriter(JsonElementWriter<InteractionEvidence>) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionEvidenceWriter: Setter for the field experimentWriter.
setExperimentWriter(PsiXmlExperimentWriter) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlMixWriter: Setter for the field experimentWriter.
setExperimentWriter(PsiXmlExperimentWriter) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: Setter for the field experimentWriter.
setExperimentWriter(PsiXmlExperimentWriter) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: Setter for the field experimentWriter.
setExperimentXrefContainer(ExperimentXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: Sets the value of the xref property.
setExperimentXrefContainer(ExperimentXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: Sets the value of the xref property.
setExperimentXrefContainer(ExperimentXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: Sets the value of the xref property.
setExpressedInOrganism(Organism) - Method in class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantPool: Sets the expressed in organism
setExpressedInOrganism(Organism) - Method in class psidev.psi.mi.jami.model.impl.DefaultParticipantEvidence: Sets the expressed in organism
setExpressedInOrganism(Organism) - Method in interface psidev.psi.mi.jami.model.ParticipantEvidence: Sets the expressed in organism
setExpressedInOrganism(Organism) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantPool: Sets the expressed in organism
setExpressedInOrganism(Organism) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: Sets the expressed in organism
setExpressedInOrganism(Organism) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantPool: Sets the expressed in organism
setExpressedInOrganism(Organism) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: Sets the expressed in organism
setExpressedInOrganism(Organism) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantPool: Sets the expressed in organism
setExpressedInOrganism(Organism) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: Sets the expressed in organism
setFeature(Feature) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractInferredInteractionParticipant: Setter for the field feature.
setFeatureDetectionMethod(CvTerm) - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlExperiment: setFeatureDetectionMethod.
setFeatureDetectionMethod(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: setFeatureDetectionMethod.
setFeatureDetectionMethod(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: setFeatureDetectionMethod.
setFeatureDetectionMethod(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: setFeatureDetectionMethod.
setFeatureDetectionMethod(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: setFeatureDetectionMethod.
setFeatureDetectionMethod(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: setFeatureDetectionMethod.
setFeatureDetectionMethod(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: setFeatureDetectionMethod.
setFeatureEnricher(FeatureEnricher<F>) - Method in interface psidev.psi.mi.jami.enricher.EntityEnricher: setFeatureEnricher.
setFeatureEnricher(FeatureEnricher<F>) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalEntityEnricher: setFeatureEnricher.
setFeatureEnricher(FeatureEnricher<Feature>) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeEntityEnricher: setFeatureEnricher.
setFeatureEnricher(FeatureEnricher<Feature>) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeParticipantEnricher: setFeatureEnricher.
setFeatureEnricher(FeatureEnricher<FeatureEvidence>) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeParticipantEvidenceEnricher: setFeatureEnricher.
setFeatureEnricher(FeatureEnricher<FeatureEvidence>) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEvidenceUpdater: setFeatureEnricher.
setFeatureEnricher(FeatureEnricher<FeatureEvidence>) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEvidenceUpdater: setFeatureEnricher.
setFeatureEnricher(FeatureEnricher<ModelledFeature>) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeModelledParticipantEnricher: setFeatureEnricher.
setFeatureEnricherListener(FeatureEnricherListener<F>) - Method in interface psidev.psi.mi.jami.enricher.FeatureEnricher: setFeatureEnricherListener.
setFeatureEnricherListener(FeatureEnricherListener<F>) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureUpdater: setFeatureEnricherListener.
setFeatureEnricherListener(FeatureEnricherListener<F>) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: setFeatureEnricherListener.
setFeatureEnricherListener(FeatureEnricherListener<FeatureEvidence>) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceEnricher: setFeatureEnricherListener.
setFeatureEnricherListener(FeatureEnricherListener<FeatureEvidence>) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullFeatureEvidenceUpdater: setFeatureEnricherListener.
setFeatureEnricherListener(FeatureEnricherListener<FeatureEvidence>) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEvidenceUpdater: setFeatureEnricherListener.
setFeaturesWithRangesToUpdate(Collection<F>) - Method in interface psidev.psi.mi.jami.enricher.FeatureEnricher: setFeaturesWithRangesToUpdate.
setFeaturesWithRangesToUpdate(Collection<F>) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: setFeaturesWithRangesToUpdate.
setFeatureTypeWriter(PsiXmlVariableNameWriter<CvTerm>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlFeatureWriter: Setter for the field featureTypeWriter.
setFeatureWrapper(AbstractXmlEntity.JAXBFeatureWrapper<F>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity: setFeatureWrapper.
setFeatureWrapper(XmlParticipantEvidence.JAXBFeatureWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: setFeatureWrapper.
setFeatureWrapper(AbstractXmlEntity.JAXBFeatureWrapper<F>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity: setFeatureWrapper.
setFeatureWrapper(XmlParticipantEvidence.JAXBFeatureWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: setFeatureWrapper.
setFeatureWrapper(AbstractXmlEntity.JAXBFeatureWrapper<F>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity: setFeatureWrapper.
setFeatureWrapper(XmlParticipantEvidence.JAXBFeatureWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: setFeatureWrapper.
setFeatureWriter(JsonElementWriter) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonParticipantWriter: Setter for the field featureWriter.
setFeatureWriter(PsiXmlElementWriter<F>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: Setter for the field featureWriter.
setFeatureWriter(PsiXmlElementWriter<F>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlParticipantCandidateWriter: Setter for the field featureWriter.
setFetcher(OntologyTermFetcher) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionWriter: Setter for the field fetcher.
setFetcher(OntologyTermFetcher) - Method in class psidev.psi.mi.jami.json.nary.AbstractMIJsonWriter: Setter for the field fetcher.
setFileParserListener(MIFileParserListener) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: setFileParserListener
setFileParserListener(MIFileParserListener) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: setFileParserListener
setFileParserListener(MIFileParserListener) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: setFileParserListener
setFileParserListener(MIFileParserListener) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: setFileParserListener
setFileParserListener(MIFileParserListener) - Method in interface psidev.psi.mi.jami.datasource.MIFileDataSource: setFileParserListener
setFileParserListener(MIFileParserListener) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: setFileParserListener
setFileParserListener(MIFileParserListener) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: setFileParserListener
setFileParserListener(MIFileParserListener) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: setFileParserListener
setFileParserListener(MIFileParserListener) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: setFileParserListener
setFileParserListener(MIFileParserListener) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: setFileParserListener
setFullName(String) - Method in class psidev.psi.mi.jami.binary.impl.DefaultNamedBinaryInteraction: Sets the full name of the interaction
setFullName(String) - Method in class psidev.psi.mi.jami.binary.impl.DefaultNamedBinaryInteractionEvidence: Sets the full name of the interaction
setFullName(String) - Method in class psidev.psi.mi.jami.binary.impl.DefaultNamedModelledBinaryInteraction: Sets the full name of the interaction
setFullName(String) - Method in interface psidev.psi.mi.jami.model.CvTerm: Set the full name
setFullName(String) - Method in interface psidev.psi.mi.jami.model.Feature: Sets the full name that describes the molecule
setFullName(String) - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature: Sets the full name that describes the molecule
setFullName(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultCvTerm: Set the full name
setFullName(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractor: Sets the full name of the interactor
setFullName(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultNamedExperiment: Sets the full name of the experiment
setFullName(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultNamedInteraction: Sets the full name of the interaction
setFullName(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultNamedInteractionEvidence: Sets the full name of the interaction
setFullName(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultNamedModelledInteraction: Sets the full name of the interaction
setFullName(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultNamedModelledParticipant: Sets the full name of the entity
setFullName(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultNamedParticipant: Sets the full name of the entity
setFullName(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultNamedParticipantEvidence: Sets the full name of the entity
setFullName(String) - Method in interface psidev.psi.mi.jami.model.Interactor: Sets the full name of the interactor
setFullName(String) - Method in interface psidev.psi.mi.jami.model.NamedExperiment: Sets the full name of the experiment
setFullName(String) - Method in interface psidev.psi.mi.jami.model.NamedInteraction: Sets the full name of the interaction
setFullName(String) - Method in interface psidev.psi.mi.jami.model.NamedParticipant: Sets the full name of the entity
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: Sets the full name of the interactor
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractNamesContainer: Sets the value of the fullName property.
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractExtendedXmlBinaryInteraction: Sets the full name of the interaction
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteraction: Sets the full name of the interaction
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: Sets the full name of the interaction
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: Sets the full name of the interaction
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: Sets the full name of the interaction
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: Sets the full name of the interaction
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm: Set the full name
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: Sets the full name of the experiment
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: Sets the full name that describes the molecule
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: Sets the full name of the interaction
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant: Sets the full name of the entity
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: Sets the full name of the entity
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.NamesContainer: Sets the value of the fullName property.
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: Sets the full name of the interactor
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidenceWrapper: Sets the full name that describes the molecule
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureWrapper: Sets the full name that describes the molecule
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: Sets the full name of the interactor
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: Sets the full name of the interactor
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: Sets the full name of the entity
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: Sets the full name of the entity
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm: Set the full name
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: Sets the full name of the experiment
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: Sets the full name that describes the molecule
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: Sets the full name of the interaction
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant: Sets the full name of the entity
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: Sets the full name of the entity
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.NamesContainer: Sets the value of the fullName property.
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: Sets the full name of the interactor
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidenceWrapper: Sets the full name that describes the molecule
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureWrapper: Sets the full name that describes the molecule
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: Sets the full name of the interactor
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: Sets the full name of the interactor
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: Sets the full name of the entity
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: Sets the full name of the entity
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm: Set the full name
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: Sets the full name of the experiment
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: Sets the full name that describes the molecule
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: Sets the full name of the interaction
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant: Sets the full name of the entity
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: Sets the full name of the entity
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.NamesContainer: Sets the value of the fullName property.
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: Sets the full name of the interactor
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidenceWrapper: Sets the full name that describes the molecule
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureWrapper: Sets the full name that describes the molecule
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: Sets the full name of the interactor
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: Sets the full name of the interactor
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: Sets the full name of the entity
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: Sets the full name of the entity
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.reference.AbstractFeatureRef: Sets the full name that describes the molecule
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: Sets the full name of the experiment
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractInteractorRef: Sets the full name of the interactor
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractParticipantRef: Sets the full name of the entity
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: Sets the full name of the experiment
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractInteractorRef: Sets the full name of the interactor
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractParticipantRef: Sets the full name of the entity
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: Sets the full name of the experiment
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractInteractorRef: Sets the full name of the interactor
setFullName(String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractParticipantRef: Sets the full name of the entity
setGeneEnricher(InteractorEnricher<Gene>) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeInteractorEnricher: Setter for the field geneEnricher.
setGeneName(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultProtein: Sets the gene name.
setGeneName(String) - Method in interface psidev.psi.mi.jami.model.Protein: Sets the gene name.
setHasLoadedFullEntry(boolean) - Method in class psidev.psi.mi.jami.xml.model.AbstractBaseEntry: Setter for the field hasLoadedFullEntry.
setHasLoadedFullEntry(boolean) - Method in class psidev.psi.mi.jami.xml.model.Entry: Setter for the field hasLoadedFullEntry.
setHostOrganism(Organism) - Method in interface psidev.psi.mi.jami.model.Experiment: Sets the host organism of an experiment
setHostOrganism(Organism) - Method in class psidev.psi.mi.jami.model.impl.DefaultExperiment: Sets the host organism of an experiment
setHostOrganism(Organism) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: Sets the host organism of an experiment
setHostOrganism(Organism) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: Sets the host organism of an experiment
setHostOrganism(Organism) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: Sets the host organism of an experiment
setHostOrganism(Organism) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: Sets the host organism of an experiment
setHostOrganism(Organism) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: Sets the host organism of an experiment
setHostOrganism(Organism) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: Sets the host organism of an experiment
setHostOrganismWriter(JsonElementWriter<Organism>) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonExperimentWriter: Setter for the field hostOrganismWriter.
setHostOrganismWriter(JsonElementWriter<Organism>) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonParticipantEvidenceWriter: Setter for the field hostOrganismWriter.
setHostOrganismWriter(PsiXmlElementWriter<Organism>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: Setter for the field hostOrganismWriter.
setHostOrganismWriter(PsiXmlElementWriter<Organism>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantEvidenceWriter: Setter for the field hostOrganismWriter.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractAvailability: Sets the value of the id property.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractExtendedXmlBinaryInteraction: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteraction: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: setId.
setId(int) - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlEntity: setId.
setId(int) - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlExperiment: setId.
setId(int) - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlFeature: setId.
setId(int) - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlInteractor: setId.
setId(int) - Method in interface psidev.psi.mi.jami.xml.model.extension.PsiXmlInteraction: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: Sets the value of the id property.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: Sets the value of the id property.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.Availability: Sets the value of the id property.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.DefaultAvailability: Sets the value of the id property.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBioactiveEntity: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidateWrapper: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidenceWrapper: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureWrapper: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlGene: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipantPool: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlNucleicAcid: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantCandidateWrapper: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlProtein: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: Sets the value of the id property.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: Sets the value of the id property.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.Availability: Sets the value of the id property.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.DefaultAvailability: Sets the value of the id property.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBioactiveEntity: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidateWrapper: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidenceWrapper: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureWrapper: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlGene: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipantPool: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlNucleicAcid: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantCandidateWrapper: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlProtein: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: Sets the value of the id property.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: Sets the value of the id property.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.Availability: Sets the value of the id property.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.DefaultAvailability: Sets the value of the id property.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBioactiveEntity: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidateWrapper: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidenceWrapper: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureWrapper: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlGene: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipantPool: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlNucleicAcid: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantCandidateWrapper: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlProtein: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.reference.AbstractFeatureRef: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractAvailabilityRef: Sets the value of the id property.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractEntityRef: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractInteractorRef: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractParticipantRef: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractAvailabilityRef: Sets the value of the id property.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractEntityRef: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractInteractorRef: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractParticipantRef: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractAvailabilityRef: Sets the value of the id property.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractEntityRef: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractInteractorRef: setId.
setId(int) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractParticipantRef: setId.
setId(String) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.DbReferenceType: Sets the value of the id property.
setId(String) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.SeqFeatureGroupType: Sets the value of the id property.
setId(String) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.SeqFeatureType: Sets the value of the id property.
setIdentifierSynchronizer(PublicationIdentifierSynchronizer) - Method in class psidev.psi.mi.jami.imex.ImexPublicationUpdater: Setter for the field identifierSynchronizer.
setIdentifierWriter(JsonElementWriter<Xref>) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonFeatureWriter: Setter for the field identifierWriter.
setIdentifierWriter(JsonElementWriter<Xref>) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionWriter: Setter for the field identifierWriter.
setIdentifierWriter(JsonElementWriter<Xref>) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractorWriter: Setter for the field identifierWriter.
setIdentifierWriter(JsonElementWriter<Xref>) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonPublicationWriter: Setter for the field identifierWriter.
setIdGenerator(IncrementalIdGenerator) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonFeatureWriter: Setter for the field idGenerator.
setIdGenerator(IncrementalIdGenerator) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionWriter: Setter for the field idGenerator.
setIdGenerator(IncrementalIdGenerator) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractorWriter: Setter for the field idGenerator.
setIdGenerator(IncrementalIdGenerator) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonParticipantWriter: Setter for the field idGenerator.
setIdGenerator(IncrementalIdGenerator) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonRangeWriter: Setter for the field idGenerator.
setIgnoreFailedDrop(boolean) - Method in class psidev.psi.mi.jami.batch.BatchDataSourceInitializer: Setter for the field ignoreFailedDrop.
setIgnoreInteractors(boolean) - Method in class psidev.psi.mi.jami.utils.comparator.participant.EntityBaseComparator: Setter for the field ignoreInteractors.
setIgnoreInteractors(boolean) - Method in class psidev.psi.mi.jami.utils.comparator.participant.ParticipantBaseComparator: setIgnoreInteractors
setIgnoreStoichiometry(boolean) - Method in class psidev.psi.mi.jami.utils.comparator.participant.EntityBaseComparator: setIgnoreStoichiometry
setIgnoreStoichiometry(boolean) - Method in class psidev.psi.mi.jami.utils.comparator.participant.ModelledComparableParticipantComparator
setIgnoreStoichiometry(boolean) - Method in class psidev.psi.mi.jami.utils.comparator.participant.ParticipantBaseComparator: setIgnoreStoichiometry
setImexAssigner(ImexAssigner) - Method in class psidev.psi.mi.jami.imex.ImexExperimentUpdater: Setter for the field imexAssigner.
setImexAssigner(ImexAssigner) - Method in class psidev.psi.mi.jami.imex.ImexInteractionUpdater: Setter for the field imexAssigner.
setImexAssigner(ImexAssigner) - Method in class psidev.psi.mi.jami.imex.ImexPublicationAssigner: Setter for the field imexAssigner.
setImexId(CvTerm, String, CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence
setImexId(CvTerm, String, CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml253.XmlBinaryInteractionEvidence
setImexId(CvTerm, String, CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml254.XmlBinaryInteractionEvidence
setImexId(CvTerm, String, CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlBinaryInteractionEvidence
setImexId(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence
setInferred(boolean) - Method in class psidev.psi.mi.jami.binary.impl.BinaryInteractionEvidenceWrapper: Sets the inferred boolean value
setInferred(boolean) - Method in class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: Sets the inferred boolean value
setInferred(boolean) - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: Sets the inferred boolean value
setInferred(boolean) - Method in interface psidev.psi.mi.jami.model.InteractionEvidence: Sets the inferred boolean value
setInferred(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: Sets the inferred boolean value
setInferred(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: Sets the inferred boolean value
setInferred(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: Sets the inferred boolean value
setInferred(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: Sets the inferred boolean value
setInferred(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: Sets the inferred boolean value
setInferredInteractionWriter(PsiXmlElementWriter<Set<Feature>>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: Setter for the field inferredInteractionWriter.
setInitScripts(Resource[]) - Method in class psidev.psi.mi.jami.batch.BatchDataSourceInitializer: Setter for the field initScripts.
setInteraction(I) - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipant: Setter for the field interaction.
setInteraction(I) - Method in interface psidev.psi.mi.jami.model.Participant: Sets the interaction.
setInteraction(I) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant: Setter for the field interaction.
setInteraction(I) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: Sets the interaction.
setInteraction(I) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant: Setter for the field interaction.
setInteraction(I) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: Sets the interaction.
setInteraction(I) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant: Setter for the field interaction.
setInteraction(I) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: Sets the interaction.
setInteraction(I) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractParticipantRef: Sets the interaction.
setInteraction(I) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractParticipantRef: Sets the interaction.
setInteraction(I) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractParticipantRef: Sets the interaction.
setInteraction(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: Sets the interaction.
setInteraction(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: Sets the interaction.
setInteraction(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: Sets the interaction.
setInteraction(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: Sets the interaction.
setInteraction(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: Sets the interaction.
setInteraction(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: Sets the interaction.
setInteractionAndAddParticipant(I) - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipant: setInteractionAndAddParticipant
setInteractionAndAddParticipant(I) - Method in interface psidev.psi.mi.jami.model.Participant: Sets the Interaction and add the new Participant to its list of Participants.
setInteractionAndAddParticipant(I) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant: setInteractionAndAddParticipant.
setInteractionAndAddParticipant(I) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: Sets the Interaction and add the new Participant to its list of Participants.
setInteractionAndAddParticipant(I) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant: setInteractionAndAddParticipant.
setInteractionAndAddParticipant(I) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: Sets the Interaction and add the new Participant to its list of Participants.
setInteractionAndAddParticipant(I) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant: setInteractionAndAddParticipant.
setInteractionAndAddParticipant(I) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: Sets the Interaction and add the new Participant to its list of Participants.
setInteractionAndAddParticipant(I) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractParticipantRef: Sets the Interaction and add the new Participant to its list of Participants.
setInteractionAndAddParticipant(I) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractParticipantRef: Sets the Interaction and add the new Participant to its list of Participants.
setInteractionAndAddParticipant(I) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractParticipantRef: Sets the Interaction and add the new Participant to its list of Participants.
setInteractionAndAddParticipant(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: Sets the Interaction and add the new Participant to its list of Participants.
setInteractionAndAddParticipant(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: Sets the Interaction and add the new Participant to its list of Participants.
setInteractionAndAddParticipant(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: Sets the Interaction and add the new Participant to its list of Participants.
setInteractionAndAddParticipant(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: Sets the Interaction and add the new Participant to its list of Participants.
setInteractionAndAddParticipant(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: Sets the Interaction and add the new Participant to its list of Participants.
setInteractionAndAddParticipant(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: Sets the Interaction and add the new Participant to its list of Participants.
setInteractionDetectionMethod(CvTerm) - Method in interface psidev.psi.mi.jami.model.Experiment: Set the interaction detection method for this experiment If term is null, this method will set the interaction detection method to 'unspecified method' (MI:0686).
setInteractionDetectionMethod(CvTerm) - Method in class psidev.psi.mi.jami.model.impl.DefaultExperiment: Set the interaction detection method for this experiment If term is null, this method will set the interaction detection method to 'unspecified method' (MI:0686).
setInteractionDetectionMethod(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: Set the interaction detection method for this experiment If term is null, this method will set the interaction detection method to 'unspecified method' (MI:0686).
setInteractionDetectionMethod(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: Set the interaction detection method for this experiment If term is null, this method will set the interaction detection method to 'unspecified method' (MI:0686).
setInteractionDetectionMethod(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: Set the interaction detection method for this experiment If term is null, this method will set the interaction detection method to 'unspecified method' (MI:0686).
setInteractionDetectionMethod(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: Set the interaction detection method for this experiment If term is null, this method will set the interaction detection method to 'unspecified method' (MI:0686).
setInteractionDetectionMethod(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: Set the interaction detection method for this experiment If term is null, this method will set the interaction detection method to 'unspecified method' (MI:0686).
setInteractionDetectionMethod(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: Set the interaction detection method for this experiment If term is null, this method will set the interaction detection method to 'unspecified method' (MI:0686).
setInteractionEnricherListener(InteractionEnricherListener) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionEvidenceEnricher: setInteractionEnricherListener.
setInteractionEnricherListener(InteractionEnricherListener) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionUpdater: setInteractionEnricherListener.
setInteractionEnricherListener(InteractionEnricherListener) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullModelledInteractionEnricher: setInteractionEnricherListener.
setInteractionEnricherListener(InteractionEnricherListener) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEnricher: setInteractionEnricherListener.
setInteractionEnricherListener(InteractionEnricherListener) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalModelledInteractionUpdater: setInteractionEnricherListener.
setInteractionEnricherListener(InteractionEnricherListener) - Method in interface psidev.psi.mi.jami.enricher.InteractionEnricher: setInteractionEnricherListener.
setInteractionEnricherListener(InteractionEnricherListener<InteractionEvidence>) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEvidenceUpdater: setInteractionEnricherListener.
setInteractionEvidenceWriter(Mitab25EvidenceWriter) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25Writer: Setter for the field interactionEvidenceWriter.
setInteractionEvidenceWriter(Mitab25EvidenceWriter) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25Writer: Setter for the field interactionEvidenceWriter.
setInteractionNamesContainer(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlBasicInteraction: Sets the value of the names property.
setInteractionNamesContainer(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: Sets the value of the names property.
setInteractionNamesContainer(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: Sets the value of the names property.
setInteractionNamesContainer(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction: Sets the value of the names property.
setInteractionNamesContainer(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlBasicInteraction: Sets the value of the names property.
setInteractionNamesContainer(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: Sets the value of the names property.
setInteractionNamesContainer(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: Sets the value of the names property.
setInteractionNamesContainer(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction: Sets the value of the names property.
setInteractionNamesContainer(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlBasicInteraction: Sets the value of the names property.
setInteractionNamesContainer(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: Sets the value of the names property.
setInteractionNamesContainer(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: Sets the value of the names property.
setInteractionNamesContainer(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction: Sets the value of the names property.
setInteractionSet(Set<Interaction>) - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: setInteractionSet.
setInteractionSet(Set<Interaction>) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlMixWriter: setInteractionSet.
setInteractionSet(Set<Interaction>) - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlMixWriter: setInteractionSet.
setInteractionsIterator(Iterator<? extends T>) - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Setter for the field interactionsIterator.
setInteractionsWrapper(AbstractBaseEntry.AbstractJAXBInteractionsWrapper) - Method in class psidev.psi.mi.jami.xml.model.AbstractBaseEntry: Setter for the field interactionsWrapper.
setInteractionType(CvTerm) - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteractionWrapper: Sets the interaction type.
setInteractionType(CvTerm) - Method in class psidev.psi.mi.jami.model.impl.AbstractInteraction: Sets the interaction type.
setInteractionType(CvTerm) - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: Sets the interaction type.
setInteractionType(CvTerm) - Method in interface psidev.psi.mi.jami.model.Interaction: Sets the interaction type.
setInteractionType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractExtendedXmlBinaryInteraction: Sets the interaction type.
setInteractionType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: Sets the interaction type.
setInteractionType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: Sets the interaction type.
setInteractionType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: Sets the interaction type.
setInteractionType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: Sets the interaction type.
setInteractionType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractPsiXmlInteraction: Sets the interaction type.
setInteractionType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: Sets the interaction type.
setInteractionType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: Sets the interaction type.
setInteractionType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: Sets the interaction type.
setInteractionType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: Sets the interaction type.
setInteractionType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractPsiXmlInteraction: Sets the interaction type.
setInteractionType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: Sets the interaction type.
setInteractionType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: Sets the interaction type.
setInteractionType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: Sets the interaction type.
setInteractionType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: Sets the interaction type.
setInteractionType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractPsiXmlInteraction: Sets the interaction type.
setInteractionType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: Sets the interaction type.
setInteractionType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: Sets the interaction type.
setInteractionType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: Sets the interaction type.
setInteractionType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: Sets the interaction type.
setInteractionType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: Sets the interaction type.
setInteractionType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: Sets the interaction type.
setInteractionType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: Sets the interaction type.
setInteractionType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: Sets the interaction type.
setInteractionTypeWriter(PsiXmlVariableNameWriter<CvTerm>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: Setter for the field interactionTypeWriter.
setInteractionWriter(JsonElementWriter) - Method in class psidev.psi.mi.jami.json.nary.AbstractMIJsonWriter: Setter for the field interactionWriter.
setInteractionWriter(PsiXmlInteractionWriter<T>) - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Setter for the field interactionWriter.
setInteractionXrefContainer(InteractionXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlBasicInteraction: Sets the value of the interactionXrefContainer property.
setInteractionXrefContainer(InteractionXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: Sets the value of the interactionXrefContainer property.
setInteractionXrefContainer(InteractionXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: Sets the value of the interactionXrefContainer property.
setInteractionXrefContainer(InteractionXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: Sets the value of the interactionXrefContainer property.
setInteractionXrefContainer(InteractionXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction: Sets the value of the interactionXrefContainer property.
setInteractionXrefContainer(InteractionXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlBasicInteraction: Sets the value of the interactionXrefContainer property.
setInteractionXrefContainer(InteractionXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: Sets the value of the interactionXrefContainer property.
setInteractionXrefContainer(InteractionXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: Sets the value of the interactionXrefContainer property.
setInteractionXrefContainer(InteractionXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: Sets the value of the interactionXrefContainer property.
setInteractionXrefContainer(InteractionXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction: Sets the value of the interactionXrefContainer property.
setInteractionXrefContainer(InteractionXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlBasicInteraction: Sets the value of the interactionXrefContainer property.
setInteractionXrefContainer(InteractionXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: Sets the value of the interactionXrefContainer property.
setInteractionXrefContainer(InteractionXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: Sets the value of the interactionXrefContainer property.
setInteractionXrefContainer(InteractionXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: Sets the value of the interactionXrefContainer property.
setInteractionXrefContainer(InteractionXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction: Sets the value of the interactionXrefContainer property.
setInteractionXrefContainer(InteractionXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: Sets the value of the interactionXrefContainer property.
setInteractor(Interactor) - Method in interface psidev.psi.mi.jami.model.Entity: Sets the interactor
setInteractor(Interactor) - Method in class psidev.psi.mi.jami.model.impl.AbstractEntity: Sets the interactor
setInteractor(Interactor) - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipantPool: Sets the interactor
setInteractor(Interactor) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractExperimentalInteractor: Setter for the field interactor.
setInteractor(Interactor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity: Sets the interactor
setInteractor(Interactor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: Sets the interactor
setInteractor(Interactor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidateWrapper: Sets the interactor
setInteractor(Interactor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantCandidateWrapper: Sets the interactor
setInteractor(Interactor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: Sets the interactor
setInteractor(Interactor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: Sets the interactor
setInteractor(Interactor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity: Sets the interactor
setInteractor(Interactor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: Sets the interactor
setInteractor(Interactor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidateWrapper: Sets the interactor
setInteractor(Interactor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantCandidateWrapper: Sets the interactor
setInteractor(Interactor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: Sets the interactor
setInteractor(Interactor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: Sets the interactor
setInteractor(Interactor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity: Sets the interactor
setInteractor(Interactor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: Sets the interactor
setInteractor(Interactor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidateWrapper: Sets the interactor
setInteractor(Interactor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantCandidateWrapper: Sets the interactor
setInteractor(Interactor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: Sets the interactor
setInteractor(Interactor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: Sets the interactor
setInteractor(Interactor) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractEntityRef: Sets the interactor
setInteractor(Interactor) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractEntityRef: Sets the interactor
setInteractor(Interactor) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractEntityRef: Sets the interactor
setInteractorComparator(Comparator<Interactor>) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractorPoolEnricher: setInteractorComparator.
setInteractorComparator(Comparator<Interactor>) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractorPoolUpdater: Setter for the field interactorComparator.
setInteractorComparator(Comparator<Interactor>) - Method in interface psidev.psi.mi.jami.enricher.InteractorPoolEnricher: setInteractorComparator.
setInteractorComparator(InteractorComparator) - Method in class psidev.psi.mi.jami.utils.comparator.participant.ParticipantInteractorComparator: Setter for the field interactorComparator.
setInteractorEnricher(CompositeInteractorEnricher) - Method in interface psidev.psi.mi.jami.enricher.EntityEnricher: setInteractorEnricher.
setInteractorEnricher(CompositeInteractorEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeEntityEnricher: setInteractorEnricher.
setInteractorEnricher(CompositeInteractorEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeModelledParticipantEnricher: setInteractorEnricher.
setInteractorEnricher(CompositeInteractorEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeParticipantEnricher: setInteractorEnricher.
setInteractorEnricher(CompositeInteractorEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeParticipantEvidenceEnricher: setInteractorEnricher.
setInteractorEnricher(CompositeInteractorEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractorPoolEnricher: setInteractorEnricher.
setInteractorEnricher(CompositeInteractorEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractorPoolUpdater: Setter for the field interactorEnricher.
setInteractorEnricher(CompositeInteractorEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEvidenceUpdater: setInteractorEnricher.
setInteractorEnricher(CompositeInteractorEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalEntityEnricher: setInteractorEnricher.
setInteractorEnricher(CompositeInteractorEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEvidenceUpdater: setInteractorEnricher.
setInteractorEnricher(CompositeInteractorEnricher) - Method in interface psidev.psi.mi.jami.enricher.InteractorPoolEnricher: setInteractorEnricher.
setInteractorFactory(InteractorFactory) - Method in class psidev.psi.mi.jami.binary.expansion.AbstractBipartiteExpansion: Setter for the field interactorFactory.
setInteractorFactory(InteractorFactory) - Method in class psidev.psi.mi.jami.binary.expansion.BipartiteExpansion: Setter for the field interactorFactory.
setInteractorFactory(InteractorFactory) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Setter for the field interactorFactory.
setInteractorFactory(InteractorFactory) - Method in class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionLineParser: Setter for the field interactorFactory.
setInteractorFactory(XmlInteractorFactory) - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractFullPsiXmlParser: setInteractorFactory.
setInteractorFactory(XmlInteractorFactory) - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsixmlBinaryParser: setInteractorFactory.
setInteractorFactory(XmlInteractorFactory) - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: setInteractorFactory.
setInteractorFactory(XmlInteractorFactory) - Method in interface psidev.psi.mi.jami.xml.io.parser.PsiXmlParser: setInteractorFactory.
setInteractorFactory(XmlInteractorFactory) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Setter for the field interactorFactory.
setInteractorFactory(XmlInteractorFactory) - Method in class psidev.psi.mi.jami.xml.XmlEntryContext: Setter for the field interactorFactory.
setInteractorPoolEnricher(InteractorPoolEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeInteractorEnricher: Setter for the field interactorPoolEnricher.
setInteractorSet(Set<Interactor>) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlMixWriter: setInteractorSet.
setInteractorSet(Set<Interactor>) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: setInteractorSet.
setInteractorsWrapper(AbstractBaseEntry.AbstractJAXBInteractorsWrapper) - Method in class psidev.psi.mi.jami.xml.model.AbstractBaseEntry: Setter for the field interactorsWrapper.
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: Sets the interactor type of this bioactive entity.
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: Sets the molecule type for this interactor If the given type is null, this method automatically sets the interactor type to 'unknown participant' (MI:0329)
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.model.impl.DefaultGene
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractor: Sets the molecule type for this interactor If the given type is null, this method automatically sets the interactor type to 'unknown participant' (MI:0329)
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractorPool
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.model.impl.DefaultNucleicAcid: Sets the interactor type of this NucleicAcid.
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.model.impl.DefaultPolymer: Sets the molecule type for this interactor If the given type is null, this method automatically sets the interactor type to 'unknown participant' (MI:0329)
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.model.impl.DefaultProtein: Sets the molecule type for this interactor If the given type is null, this method automatically sets the interactor type to 'unknown participant' (MI:0329)
setInteractorType(CvTerm) - Method in interface psidev.psi.mi.jami.model.Interactor: Sets the molecule type for this interactor If the given type is null, this method automatically sets the interactor type to 'unknown participant' (MI:0329)
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: Sets the molecule type for this interactor If the given type is null, this method automatically sets the interactor type to 'unknown participant' (MI:0329)
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: Sets the molecule type for this interactor If the given type is null, this method automatically sets the interactor type to 'unknown participant' (MI:0329)
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: Sets the molecule type for this interactor If the given type is null, this method automatically sets the interactor type to 'unknown participant' (MI:0329)
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: Sets the molecule type for this interactor If the given type is null, this method automatically sets the interactor type to 'unknown participant' (MI:0329)
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: Sets the molecule type for this interactor If the given type is null, this method automatically sets the interactor type to 'unknown participant' (MI:0329)
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBioactiveEntity: Sets the interactor type of this bioactive entity.
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlGene: Sets the molecule type for this interactor If the given type is null, this method automatically sets the interactor type to 'unknown participant' (MI:0329)
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: Sets the molecule type for this interactor If the given type is null, this method automatically sets the interactor type to 'unknown participant' (MI:0329)
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: Sets the molecule type for this interactor If the given type is null, this method automatically sets the interactor type to 'unknown participant' (MI:0329)
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlNucleicAcid: Sets the interactor type of this NucleicAcid.
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlProtein: Sets the molecule type for this interactor If the given type is null, this method automatically sets the interactor type to 'unknown participant' (MI:0329)
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: Sets the molecule type for this interactor If the given type is null, this method automatically sets the interactor type to 'unknown participant' (MI:0329)
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: Sets the molecule type for this interactor If the given type is null, this method automatically sets the interactor type to 'unknown participant' (MI:0329)
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBioactiveEntity: Sets the interactor type of this bioactive entity.
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlGene: Sets the molecule type for this interactor If the given type is null, this method automatically sets the interactor type to 'unknown participant' (MI:0329)
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: Sets the molecule type for this interactor If the given type is null, this method automatically sets the interactor type to 'unknown participant' (MI:0329)
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: Sets the molecule type for this interactor If the given type is null, this method automatically sets the interactor type to 'unknown participant' (MI:0329)
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlNucleicAcid: Sets the interactor type of this NucleicAcid.
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlProtein: Sets the molecule type for this interactor If the given type is null, this method automatically sets the interactor type to 'unknown participant' (MI:0329)
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: Sets the molecule type for this interactor If the given type is null, this method automatically sets the interactor type to 'unknown participant' (MI:0329)
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: Sets the molecule type for this interactor If the given type is null, this method automatically sets the interactor type to 'unknown participant' (MI:0329)
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBioactiveEntity: Sets the interactor type of this bioactive entity.
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlGene: Sets the molecule type for this interactor If the given type is null, this method automatically sets the interactor type to 'unknown participant' (MI:0329)
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: Sets the molecule type for this interactor If the given type is null, this method automatically sets the interactor type to 'unknown participant' (MI:0329)
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: Sets the molecule type for this interactor If the given type is null, this method automatically sets the interactor type to 'unknown participant' (MI:0329)
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: Sets the molecule type for this interactor If the given type is null, this method automatically sets the interactor type to 'unknown participant' (MI:0329)
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlNucleicAcid: Sets the interactor type of this NucleicAcid.
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlProtein: Sets the molecule type for this interactor If the given type is null, this method automatically sets the interactor type to 'unknown participant' (MI:0329)
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractInteractorRef: Sets the molecule type for this interactor If the given type is null, this method automatically sets the interactor type to 'unknown participant' (MI:0329)
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractInteractorRef: Sets the molecule type for this interactor If the given type is null, this method automatically sets the interactor type to 'unknown participant' (MI:0329)
setInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractInteractorRef: Sets the molecule type for this interactor If the given type is null, this method automatically sets the interactor type to 'unknown participant' (MI:0329)
setInteractorTypeWriter(PsiXmlVariableNameWriter<CvTerm>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlInteractorWriter: Setter for the field interactorTypeWriter.
setInteractorWriter(PsiXmlElementWriter<Interactor>) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlMixWriter: Setter for the field interactorWriter.
setInteractorWriter(PsiXmlElementWriter<Interactor>) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: Setter for the field interactorWriter.
setInteractorWriter(PsiXmlElementWriter<Interactor>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: Setter for the field interactorWriter.
setInteractorWriter(PsiXmlElementWriter<Interactor>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlParticipantCandidateWriter: Setter for the field interactorWriter.
setInteractorWriter(PsiXmlElementWriter<Interactor>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.XmlExperimentalInteractorWriter: Setter for the field interactorWriter.
setInterpro(String) - Method in interface psidev.psi.mi.jami.model.Feature: Sets the interpro identifier.
setInterpro(String) - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature: Sets the interpro identifier.
setInterpro(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: Sets the interpro identifier.
setInterpro(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.FeatureXrefContainer: Setter for the field interpro.
setInterpro(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidenceWrapper: Sets the interpro identifier.
setInterpro(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureWrapper: Sets the interpro identifier.
setInterpro(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: Sets the interpro identifier.
setInterpro(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.FeatureXrefContainer: Setter for the field interpro.
setInterpro(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidenceWrapper: Sets the interpro identifier.
setInterpro(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureWrapper: Sets the interpro identifier.
setInterpro(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: Sets the interpro identifier.
setInterpro(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.FeatureXrefContainer: Setter for the field interpro.
setInterpro(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidenceWrapper: Sets the interpro identifier.
setInterpro(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureWrapper: Sets the interpro identifier.
setInterpro(String) - Method in class psidev.psi.mi.jami.xml.model.reference.AbstractFeatureRef: Sets the interpro identifier.
setIntraMolecular(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractExtendedXmlBinaryInteraction: setIntraMolecular.
setIntraMolecular(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteraction: setIntraMolecular.
setIntraMolecular(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: setIntraMolecular.
setIntraMolecular(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: setIntraMolecular.
setIntraMolecular(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: setIntraMolecular.
setIntraMolecular(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: setIntraMolecular.
setIntraMolecular(boolean) - Method in interface psidev.psi.mi.jami.xml.model.extension.PsiXmlInteraction: setIntraMolecular.
setIntraMolecular(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlBasicInteraction: Sets the value of the intraMolecular property.
setIntraMolecular(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: Sets the value of the intraMolecular property.
setIntraMolecular(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: setIntraMolecular.
setIntraMolecular(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: setIntraMolecular.
setIntraMolecular(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: setIntraMolecular.
setIntraMolecular(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlBasicInteraction: Sets the value of the intraMolecular property.
setIntraMolecular(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: Sets the value of the intraMolecular property.
setIntraMolecular(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: setIntraMolecular.
setIntraMolecular(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: setIntraMolecular.
setIntraMolecular(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: setIntraMolecular.
setIntraMolecular(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlBasicInteraction: Sets the value of the intraMolecular property.
setIntraMolecular(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: Sets the value of the intraMolecular property.
setIntraMolecular(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: setIntraMolecular.
setIntraMolecular(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: setIntraMolecular.
setIntraMolecular(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: setIntraMolecular.
setIntraMolecular(boolean) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: setIntraMolecular.
setIntraMolecular(boolean) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: setIntraMolecular.
setIntraMolecular(boolean) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: setIntraMolecular.
setIpr(SeqFeatureGroupType) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.SeqFeatureType: Sets the value of the ipr property.
setJAXBAffectedInteractionWrapper(AbstractXmlCooperativeEffect.JAXBAffectedInteractionRefWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect: setJAXBAffectedInteractionWrapper.
setJAXBAllostericMechanism(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAllostery: setJAXBAllostericMechanism.
setJAXBAllostericMoleculeRef(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAllostery: setJAXBAllostericMoleculeRef.
setJAXBAllosteryType(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAllostery: setJAXBAllosteryType.
setJAXBAnnotationWrapper(AbstractEntry.JAXBAnnotationsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml253.BasicEntry: setJAXBAnnotationWrapper.
setJAXBAnnotationWrapper(AbstractEntry.JAXBAnnotationsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml253.ComplexEntry: setJAXBAnnotationWrapper.
setJAXBAnnotationWrapper(AbstractEntry.JAXBAnnotationsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml253.ExperimentalEntry: setJAXBAnnotationWrapper.
setJAXBAnnotationWrapper(AbstractEntry.JAXBAnnotationsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml253.ModelledEntry: setJAXBAnnotationWrapper.
setJAXBAnnotationWrapper(AbstractEntry.JAXBAnnotationsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml254.BasicEntry: setJAXBAnnotationWrapper.
setJAXBAnnotationWrapper(AbstractEntry.JAXBAnnotationsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml254.ComplexEntry: setJAXBAnnotationWrapper.
setJAXBAnnotationWrapper(AbstractEntry.JAXBAnnotationsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml254.ExperimentalEntry: setJAXBAnnotationWrapper.
setJAXBAnnotationWrapper(AbstractEntry.JAXBAnnotationsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml254.ModelledEntry: setJAXBAnnotationWrapper.
setJAXBAnnotationWrapper(AbstractEntry.JAXBAnnotationsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml30.BasicEntry: setJAXBAnnotationWrapper.
setJAXBAnnotationWrapper(AbstractEntry.JAXBAnnotationsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml30.ComplexEntry: setJAXBAnnotationWrapper.
setJAXBAnnotationWrapper(AbstractEntry.JAXBAnnotationsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml30.Entry: setJAXBAnnotationWrapper.
setJAXBAnnotationWrapper(AbstractEntry.JAXBAnnotationsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml30.ExperimentalEntry: setJAXBAnnotationWrapper.
setJAXBAnnotationWrapper(AbstractEntry.JAXBAnnotationsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml30.ModelledEntry: setJAXBAnnotationWrapper.
setJAXBAttributeWrapper(AbstractBaseXmlInteractor.AbstractJAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: Gets the value of the attributeList property.
setJAXBAttributeWrapper(AbstractXmlCvTerm.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOpenCvTerm: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlExperiment.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlFeature.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlFeature.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeature: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlFeature.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlFeature.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledFeature: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlInteraction.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlBasicInteraction: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlInteraction.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlInteraction.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlInteraction.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlInteractor.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractor: Gets the value of the attributeList property.
setJAXBAttributeWrapper(AbstractXmlParticipant.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlParticipant.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipant: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlParticipant.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipant: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlParticipant.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlSource.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(BibRef.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(XmlXref.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlXref: Gets the value of the attributeList property.
setJAXBAttributeWrapper(AbstractXmlCvTerm.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOpenCvTerm: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlExperiment.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlFeature.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlFeature.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeature: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlFeature.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlFeature.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledFeature: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlInteraction.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlBasicInteraction: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlInteraction.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlInteraction.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlInteraction.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlInteractor.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractor: Gets the value of the attributeList property.
setJAXBAttributeWrapper(AbstractXmlParticipant.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlParticipant.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipant: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlParticipant.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipant: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlParticipant.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlSource.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(BibRef.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(XmlXref.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlXref: Gets the value of the attributeList property.
setJAXBAttributeWrapper(AbstractXmlCooperativeEffect.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlCvTerm.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOpenCvTerm: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlExperiment.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlFeature.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlFeature.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeature: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlFeature.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlFeature.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledFeature: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlInteraction.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlBasicInteraction: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlInteraction.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlInteraction.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlInteraction.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlInteractor.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractor: Gets the value of the attributeList property.
setJAXBAttributeWrapper(AbstractXmlParticipant.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlParticipant.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipant: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlParticipant.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipant: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlParticipant.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(AbstractXmlSource.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(BibRef.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(XmlModelledInteraction.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: setJAXBAttributeWrapper.
setJAXBAttributeWrapper(XmlXref.JAXBAttributeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlXref: Gets the value of the attributeList property.
setJAXBAvailability(DefaultAvailability) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: Sets the value of the availability property.
setJAXBAvailability(DefaultAvailability) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: Sets the value of the availability property.
setJAXBAvailability(DefaultAvailability) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: Sets the value of the availability property.
setJAXBAvailabilityRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: Sets the value of the availabilityRef property.
setJAXBAvailabilityRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: Sets the value of the availabilityRef property.
setJAXBAvailabilityRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: Sets the value of the availabilityRef property.
setJAXBAvailabilityWrapper(ExperimentalEntry.JAXBAvailabilitiesWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml253.ExperimentalEntry: setJAXBAvailabilityWrapper.
setJAXBAvailabilityWrapper(ExperimentalEntry.JAXBAvailabilitiesWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml254.ExperimentalEntry: setJAXBAvailabilityWrapper.
setJAXBAvailabilityWrapper(Entry.JAXBAvailabilitiesWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml30.Entry: setJAXBAvailabilityWrapper.
setJAXBAvailabilityWrapper(ExperimentalEntry.JAXBAvailabilitiesWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml30.ExperimentalEntry: setJAXBAvailabilityWrapper.
setJAXBBase(Short) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParameter: Sets the value of the base property.
setJAXBBase(Short) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParameter: Sets the value of the base property.
setJAXBBase(Short) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParameter: Sets the value of the base property.
setJAXBBeginInterval(XmlInterval) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlRange: Sets the value of the beginInterval property.
setJAXBBeginInterval(XmlInterval) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlRange: Sets the value of the beginInterval property.
setJAXBBeginInterval(XmlInterval) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlRange: Sets the value of the beginInterval property.
setJAXBBeginPosition(long) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInterval: Sets the value of the begin property.
setJAXBBeginPosition(long) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInterval: Sets the value of the begin property.
setJAXBBeginPosition(long) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInterval: Sets the value of the begin property.
setJAXBBeginPosition(XmlPosition) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlRange: Sets the value of the begin property.
setJAXBBeginPosition(XmlPosition) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlRange: Sets the value of the begin property.
setJAXBBeginPosition(XmlPosition) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlRange: Sets the value of the begin property.
setJAXBBibRef(BibRef) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource: setJAXBBibRef.
setJAXBBibRef(BibRef) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource: setJAXBBibRef.
setJAXBBibRef(BibRef) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource: setJAXBBibRef.
setJAXBBindingFeaturesWrapper(XmlModelledInteraction.JAXBBindingFeaturesWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: setJAXBBindingFeaturesWrapper.
setJAXBBiologicalRole(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant: Sets the value of the biologicalRole property.
setJAXBBiologicalRole(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipant: Sets the value of the biologicalRole property.
setJAXBBiologicalRole(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipant: Sets the value of the biologicalRole property.
setJAXBBiologicalRole(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: Sets the value of the biologicalRole property.
setJAXBBiologicalRole(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant: Sets the value of the biologicalRole property.
setJAXBBiologicalRole(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipant: Sets the value of the biologicalRole property.
setJAXBBiologicalRole(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipant: Sets the value of the biologicalRole property.
setJAXBBiologicalRole(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: Sets the value of the biologicalRole property.
setJAXBBiologicalRole(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant: Sets the value of the biologicalRole property.
setJAXBBiologicalRole(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipant: Sets the value of the biologicalRole property.
setJAXBBiologicalRole(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipant: Sets the value of the biologicalRole property.
setJAXBBiologicalRole(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: Sets the value of the biologicalRole property.
setJAXBCausalRelationshipWrapper(XmlInteractionEvidence.JAXBCausalRelationshipWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidence: setJAXBCausalRelationshipWrapper.
setJAXBCausalRelationshipWrapper(XmlModelledInteraction.JAXBCausalRelationshipWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: setJAXBCausalRelationshipWrapper.
setJAXBCellType(XmlOpenCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOrganism: setJAXBCellType.
setJAXBCellType(XmlOpenCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOrganism: setJAXBCellType.
setJAXBCellType(XmlOpenCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOrganism: setJAXBCellType.
setJAXBCompartment(XmlOpenCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOrganism: setJAXBCompartment.
setJAXBCompartment(XmlOpenCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOrganism: setJAXBCompartment.
setJAXBCompartment(XmlOpenCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOrganism: setJAXBCompartment.
setJAXBConfidenceWrapper(AbstractXmlExperiment.JAXBConfidenceWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: setJAXBConfidenceWrapper.
setJAXBConfidenceWrapper(AbstractXmlInteractionEvidence.JAXBConfidenceWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: Gets the value of the confidenceList property.
setJAXBConfidenceWrapper(AbstractXmlModelledInteraction.JAXBConfidenceWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction: setJAXBConfidenceWrapper.
setJAXBConfidenceWrapper(XmlParticipantEvidence.JAXBConfidenceWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: setJAXBConfidenceWrapper.
setJAXBConfidenceWrapper(AbstractXmlExperiment.JAXBConfidenceWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: setJAXBConfidenceWrapper.
setJAXBConfidenceWrapper(AbstractXmlInteractionEvidence.JAXBConfidenceWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: Gets the value of the confidenceList property.
setJAXBConfidenceWrapper(AbstractXmlModelledInteraction.JAXBConfidenceWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction: setJAXBConfidenceWrapper.
setJAXBConfidenceWrapper(XmlParticipantEvidence.JAXBConfidenceWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: setJAXBConfidenceWrapper.
setJAXBConfidenceWrapper(AbstractXmlExperiment.JAXBConfidenceWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: setJAXBConfidenceWrapper.
setJAXBConfidenceWrapper(AbstractXmlInteractionEvidence.JAXBConfidenceWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: Gets the value of the confidenceList property.
setJAXBConfidenceWrapper(AbstractXmlModelledInteraction.JAXBConfidenceWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction: setJAXBConfidenceWrapper.
setJAXBConfidenceWrapper(XmlModelledInteraction.JAXBConfidenceWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: setJAXBConfidenceWrapper.
setJAXBConfidenceWrapper(XmlParticipantEvidence.JAXBConfidenceWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: setJAXBConfidenceWrapper.
setJAXBCooperativeEffectWrapper(XmlModelledInteraction.JAXBCooperativeEffectWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: setJAXBCooperativeEffectWrapper.
setJAXBCooperativityEvidenceWrapper(AbstractXmlCooperativeEffect.JAXBCooperativityEvidenceWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect: setJAXBCooperativityEvidenceWrapper.
setJAXBDb(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlXref: Sets the value of the db property.
setJAXBDb(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlXref: Sets the value of the db property.
setJAXBDb(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlXref: Sets the value of the db property.
setJAXBDbAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlXref: Sets the value of the dbAc property.
setJAXBDbAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlXref: Sets the value of the dbAc property.
setJAXBDbAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlXref: Sets the value of the dbAc property.
setJAXBDescription(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameter: setJAXBDescription.
setJAXBDescription(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameter: setJAXBDescription.
setJAXBDescription(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameter: setJAXBDescription.
setJAXBEndInterval(XmlInterval) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlRange: Sets the value of the endInterval property.
setJAXBEndInterval(XmlInterval) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlRange: Sets the value of the endInterval property.
setJAXBEndInterval(XmlInterval) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlRange: Sets the value of the endInterval property.
setJAXBEndPosition(long) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInterval: Sets the value of the end property.
setJAXBEndPosition(long) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInterval: Sets the value of the end property.
setJAXBEndPosition(long) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInterval: Sets the value of the end property.
setJAXBEndPosition(XmlPosition) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlRange: Sets the value of the end property.
setJAXBEndPosition(XmlPosition) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlRange: Sets the value of the end property.
setJAXBEndPosition(XmlPosition) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlRange: Sets the value of the end property.
setJAXBEndStatus(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlRange: Sets the value of the endStatus property.
setJAXBEndStatus(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlRange: Sets the value of the endStatus property.
setJAXBEndStatus(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlRange: Sets the value of the endStatus property.
setJAXBEvidenceMethodWrapper(XmlCooperativityEvidence.JAXBEvidenceMethodWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCooperativityEvidence: setJAXBEvidenceMethodWrapper.
setJAXBEvidenceType(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: setJAXBEvidenceType.
setJAXBExperimentalPreparationWrapper(XmlParticipantEvidence.JAXBExperimentalPreparationWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: setJAXBExperimentalPreparationWrapper.
setJAXBExperimentalPreparationWrapper(XmlParticipantEvidence.JAXBExperimentalPreparationWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: setJAXBExperimentalPreparationWrapper.
setJAXBExperimentalPreparationWrapper(XmlParticipantEvidence.JAXBExperimentalPreparationWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: setJAXBExperimentalPreparationWrapper.
setJAXBExperimentalRoleWrapper(XmlParticipantEvidence.JAXBExperimentalRoleWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: setJAXBExperimentalRoleWrapper.
setJAXBExperimentalRoleWrapper(XmlParticipantEvidence.JAXBExperimentalRoleWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: setJAXBExperimentalRoleWrapper.
setJAXBExperimentalRoleWrapper(XmlParticipantEvidence.JAXBExperimentalRoleWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: setJAXBExperimentalRoleWrapper.
setJAXBExperimentRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParameter: Sets the value of the experimentRefList property.
setJAXBExperimentRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParameter: Sets the value of the experimentRefList property.
setJAXBExperimentRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParameter: Sets the value of the experimentRefList property.
setJaxbExperimentRefs(ArrayList<Integer>) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractExperimentalInteractor.AbstractJAXBExperimentRefWrapper
setJaxbExperimentRefs(List<Integer>) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractInferredInteraction.AbstractJAXBExperimentRefWrapper
setJAXBExperimentRefWrapper(AbstractExperimentalInteractor.AbstractJAXBExperimentRefWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractExperimentalInteractor: Gets the value of the experimentRefList property.
setJAXBExperimentRefWrapper(AbstractInferredInteraction.AbstractJAXBExperimentRefWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractInferredInteraction: Gets the value of the experimentRefList property.
setJAXBExperimentRefWrapper(ExperimentalCvTerm.JAXBExperimentRefWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.ExperimentalCvTerm: Gets the value of the experimentRefList property.
setJAXBExperimentRefWrapper(ExperimentalInteractor.JAXBExperimentRefWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.ExperimentalInteractor: Gets the value of the experimentRefList property.
setJAXBExperimentRefWrapper(HostOrganism.JAXBExperimentRefWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.HostOrganism: Gets the value of the experimentRefList property.
setJAXBExperimentRefWrapper(InferredInteraction.JAXBExperimentRefWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.InferredInteraction: Gets the value of the experimentRefList property.
setJAXBExperimentRefWrapper(XmlConfidence.JAXBExperimentRefWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlConfidence: Gets the value of the experimentRefList property.
setJAXBExperimentRefWrapper(XmlFeatureEvidence.JAXBExperimentRefWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence: setJAXBExperimentRefWrapper.
setJAXBExperimentRefWrapper(ExperimentalCvTerm.JAXBExperimentRefWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.ExperimentalCvTerm: Gets the value of the experimentRefList property.
setJAXBExperimentRefWrapper(ExperimentalInteractor.JAXBExperimentRefWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.ExperimentalInteractor: Gets the value of the experimentRefList property.
setJAXBExperimentRefWrapper(HostOrganism.JAXBExperimentRefWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.HostOrganism: Gets the value of the experimentRefList property.
setJAXBExperimentRefWrapper(InferredInteraction.JAXBExperimentRefWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.InferredInteraction: Gets the value of the experimentRefList property.
setJAXBExperimentRefWrapper(XmlConfidence.JAXBExperimentRefWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlConfidence: Gets the value of the experimentRefList property.
setJAXBExperimentRefWrapper(XmlFeatureEvidence.JAXBExperimentRefWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence: setJAXBExperimentRefWrapper.
setJAXBExperimentRefWrapper(ExperimentalCvTerm.JAXBExperimentRefWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.ExperimentalCvTerm: Gets the value of the experimentRefList property.
setJAXBExperimentRefWrapper(ExperimentalInteractor.JAXBExperimentRefWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.ExperimentalInteractor: Gets the value of the experimentRefList property.
setJAXBExperimentRefWrapper(HostOrganism.JAXBExperimentRefWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.HostOrganism: Gets the value of the experimentRefList property.
setJAXBExperimentRefWrapper(InferredInteraction.JAXBExperimentRefWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.InferredInteraction: Gets the value of the experimentRefList property.
setJAXBExperimentRefWrapper(XmlConfidence.JAXBExperimentRefWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlConfidence: Gets the value of the experimentRefList property.
setJAXBExperimentRefWrapper(XmlFeatureEvidence.JAXBExperimentRefWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence: setJAXBExperimentRefWrapper.
setJAXBExperimentWrapper(AbstractXmlInteractionEvidence.JAXBExperimentWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: Sets the value of the experimentList property.
setJAXBExperimentWrapper(AbstractXmlModelledInteraction.JAXBExperimentWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction: setJAXBExperimentWrapper.
setJAXBExperimentWrapper(AbstractXmlInteractionEvidence.JAXBExperimentWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: Sets the value of the experimentList property.
setJAXBExperimentWrapper(AbstractXmlModelledInteraction.JAXBExperimentWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction: setJAXBExperimentWrapper.
setJAXBExperimentWrapper(AbstractXmlInteractionEvidence.JAXBExperimentWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: Sets the value of the experimentList property.
setJAXBExperimentWrapper(AbstractXmlModelledInteraction.JAXBExperimentWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction: setJAXBExperimentWrapper.
setJAXBExperimentWrapper(ComplexEntry.JAXBExperimentsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml253.ComplexEntry: setJAXBExperimentWrapper.
setJAXBExperimentWrapper(ExperimentalEntry.JAXBExperimentsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml253.ExperimentalEntry: setJAXBExperimentWrapper.
setJAXBExperimentWrapper(ModelledEntry.JAXBExperimentsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml253.ModelledEntry: setJAXBExperimentWrapper.
setJAXBExperimentWrapper(ComplexEntry.JAXBExperimentsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml254.ComplexEntry: setJAXBExperimentWrapper.
setJAXBExperimentWrapper(ExperimentalEntry.JAXBExperimentsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml254.ExperimentalEntry: setJAXBExperimentWrapper.
setJAXBExperimentWrapper(ModelledEntry.JAXBExperimentsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml254.ModelledEntry: setJAXBExperimentWrapper.
setJAXBExperimentWrapper(ComplexEntry.JAXBExperimentsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml30.ComplexEntry: setJAXBExperimentWrapper.
setJAXBExperimentWrapper(Entry.JAXBExperimentsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml30.Entry: setJAXBExperimentWrapper.
setJAXBExperimentWrapper(ExperimentalEntry.JAXBExperimentsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml30.ExperimentalEntry: setJAXBExperimentWrapper.
setJAXBExperimentWrapper(ModelledEntry.JAXBExperimentsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml30.ModelledEntry: setJAXBExperimentWrapper.
setJAXBExponent(Short) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParameter: Sets the value of the exponent property.
setJAXBExponent(Short) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParameter: Sets the value of the exponent property.
setJAXBExponent(Short) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParameter: Sets the value of the exponent property.
setJAXBFactor(BigDecimal) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParameter: Sets the value of the factor property.
setJAXBFactor(BigDecimal) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParameter: Sets the value of the factor property.
setJAXBFactor(BigDecimal) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParameter: Sets the value of the factor property.
setJAXBFeatureEffectorRef(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAllostery: setJAXBFeatureEffectorRef.
setJAXBFeatureRole(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: setJAXBFeatureRole.
setJAXBFeatureRole(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeature: setJAXBFeatureRole.
setJAXBFeatureRole(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence: setJAXBFeatureRole.
setJAXBFeatureRole(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledFeature: setJAXBFeatureRole.
setJAXBFeatureRole(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: setJAXBFeatureRole.
setJAXBFeatureRole(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeature: setJAXBFeatureRole.
setJAXBFeatureRole(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence: setJAXBFeatureRole.
setJAXBFeatureRole(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledFeature: setJAXBFeatureRole.
setJAXBFeatureRole(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: setJAXBFeatureRole.
setJAXBFeatureRole(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeature: setJAXBFeatureRole.
setJAXBFeatureRole(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence: setJAXBFeatureRole.
setJAXBFeatureRole(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledFeature: setJAXBFeatureRole.
setJAXBFeatureWrapper(XmlExperimentalParticipantCandidate.JAXBFeatureWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidate: setJAXBFeatureWrapper.
setJAXBFeatureWrapper(XmlModelledParticipant.JAXBFeatureWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipant: setJAXBFeatureWrapper.
setJAXBFeatureWrapper(XmlModelledParticipantCandidate.JAXBFeatureWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipantCandidate: setJAXBFeatureWrapper.
setJAXBFeatureWrapper(XmlParticipant.JAXBFeatureWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipant: setJAXBFeatureWrapper.
setJAXBFeatureWrapper(XmlExperimentalParticipantCandidate.JAXBFeatureWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidate: setJAXBFeatureWrapper.
setJAXBFeatureWrapper(XmlModelledParticipant.JAXBFeatureWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipant: setJAXBFeatureWrapper.
setJAXBFeatureWrapper(XmlModelledParticipantCandidate.JAXBFeatureWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipantCandidate: setJAXBFeatureWrapper.
setJAXBFeatureWrapper(XmlParticipant.JAXBFeatureWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipant: setJAXBFeatureWrapper.
setJAXBFeatureWrapper(XmlExperimentalParticipantCandidate.JAXBFeatureWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidate: setJAXBFeatureWrapper.
setJAXBFeatureWrapper(XmlModelledParticipant.JAXBFeatureWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipant: setJAXBFeatureWrapper.
setJAXBFeatureWrapper(XmlModelledParticipantCandidate.JAXBFeatureWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipantCandidate: setJAXBFeatureWrapper.
setJAXBFeatureWrapper(XmlParticipant.JAXBFeatureWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipant: setJAXBFeatureWrapper.
setJAXBHostOrganismWrapper(AbstractXmlExperiment.JAXBHostOrganismWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: setJAXBHostOrganismWrapper.
setJAXBHostOrganismWrapper(XmlParticipantEvidence.JAXBHostOrganismWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: setJAXBHostOrganismWrapper.
setJAXBHostOrganismWrapper(AbstractXmlExperiment.JAXBHostOrganismWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: setJAXBHostOrganismWrapper.
setJAXBHostOrganismWrapper(XmlParticipantEvidence.JAXBHostOrganismWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: setJAXBHostOrganismWrapper.
setJAXBHostOrganismWrapper(AbstractXmlExperiment.JAXBHostOrganismWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: setJAXBHostOrganismWrapper.
setJAXBHostOrganismWrapper(XmlParticipantEvidence.JAXBHostOrganismWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: setJAXBHostOrganismWrapper.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractXmlVariableParameterValue: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlBasicInteraction: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractor: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidate: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeature: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledFeature: Gets the value of the id property.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipant: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipantCandidate: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipant: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameterValue: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlBasicInteraction: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractor: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidate: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeature: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledFeature: Gets the value of the id property.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipant: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipantCandidate: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipant: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameterValue: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlBasicInteraction: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractor: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidate: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeature: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledFeature: Gets the value of the id property.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipant: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipantCandidate: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipant: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: setJAXBId.
setJAXBId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameterValue: setJAXBId.
setJAXBId(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlXref: Sets the value of the id property.
setJAXBId(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlXref: Sets the value of the id property.
setJAXBId(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlXref: Sets the value of the id property.
setJAXBImexId(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlBasicInteraction: setJAXBImexId.
setJAXBImexId(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: setJAXBImexId.
setJAXBImexId(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlBasicInteraction: setJAXBImexId.
setJAXBImexId(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: setJAXBImexId.
setJAXBImexId(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlBasicInteraction: setJAXBImexId.
setJAXBImexId(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: setJAXBImexId.
setJAXBInferredInteractionWrapper(AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractPsiXmlInteraction: setJAXBInferredInteractionWrapper.
setJAXBInferredInteractionWrapper(AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlBasicInteraction: setJAXBInferredInteractionWrapper.
setJAXBInferredInteractionWrapper(AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: setJAXBInferredInteractionWrapper.
setJAXBInferredInteractionWrapper(AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction: setJAXBInferredInteractionWrapper.
setJAXBInferredInteractionWrapper(AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractPsiXmlInteraction: setJAXBInferredInteractionWrapper.
setJAXBInferredInteractionWrapper(AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlBasicInteraction: setJAXBInferredInteractionWrapper.
setJAXBInferredInteractionWrapper(AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: setJAXBInferredInteractionWrapper.
setJAXBInferredInteractionWrapper(AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction: setJAXBInferredInteractionWrapper.
setJAXBInferredInteractionWrapper(AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractPsiXmlInteraction: setJAXBInferredInteractionWrapper.
setJAXBInferredInteractionWrapper(AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlBasicInteraction: setJAXBInferredInteractionWrapper.
setJAXBInferredInteractionWrapper(AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: setJAXBInferredInteractionWrapper.
setJAXBInferredInteractionWrapper(AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction: setJAXBInferredInteractionWrapper.
setJAXBInteractionDetectionMethod(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: Sets the value of the interactionDetectionMethod property.
setJAXBInteractionDetectionMethod(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: Sets the value of the interactionDetectionMethod property.
setJAXBInteractionDetectionMethod(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: Sets the value of the interactionDetectionMethod property.
setJAXBInteractionRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant: Sets the value of the interactionRef property.
setJAXBInteractionRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipant: Sets the value of the interactionRef property.
setJAXBInteractionRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipant: Sets the value of the interactionRef property.
setJAXBInteractionRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: Sets the value of the interactionRef property.
setJAXBInteractionRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant: Sets the value of the interactionRef property.
setJAXBInteractionRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipant: Sets the value of the interactionRef property.
setJAXBInteractionRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipant: Sets the value of the interactionRef property.
setJAXBInteractionRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: Sets the value of the interactionRef property.
setJAXBInteractionRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant: Sets the value of the interactionRef property.
setJAXBInteractionRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipant: Sets the value of the interactionRef property.
setJAXBInteractionRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipant: Sets the value of the interactionRef property.
setJAXBInteractionRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: Sets the value of the interactionRef property.
setJAXBInteractionsWrapper(BasicEntry.JAXBInteractionsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml253.BasicEntry: setJAXBInteractionsWrapper.
setJAXBInteractionsWrapper(ComplexEntry.JAXBInteractionsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml253.ComplexEntry: setJAXBInteractionsWrapper.
setJAXBInteractionsWrapper(ExperimentalEntry.JAXBInteractionsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml253.ExperimentalEntry: setJAXBInteractionsWrapper.
setJAXBInteractionsWrapper(ModelledEntry.JAXBInteractionsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml253.ModelledEntry: setJAXBInteractionsWrapper.
setJAXBInteractionsWrapper(BasicEntry.JAXBInteractionsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml254.BasicEntry: setJAXBInteractionsWrapper.
setJAXBInteractionsWrapper(ComplexEntry.JAXBInteractionsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml254.ComplexEntry: setJAXBInteractionsWrapper.
setJAXBInteractionsWrapper(ExperimentalEntry.JAXBInteractionsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml254.ExperimentalEntry: setJAXBInteractionsWrapper.
setJAXBInteractionsWrapper(ModelledEntry.JAXBInteractionsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml254.ModelledEntry: setJAXBInteractionsWrapper.
setJAXBInteractionsWrapper(BasicEntry.JAXBInteractionsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml30.BasicEntry: setJAXBInteractionsWrapper.
setJAXBInteractionsWrapper(ComplexEntry.JAXBInteractionsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml30.ComplexEntry: setJAXBInteractionsWrapper.
setJAXBInteractionsWrapper(Entry.JAXBInteractionsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml30.Entry: setJAXBInteractionsWrapper.
setJAXBInteractionsWrapper(ExperimentalEntry.JAXBInteractionsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml30.ExperimentalEntry: setJAXBInteractionsWrapper.
setJAXBInteractionsWrapper(ModelledEntry.JAXBInteractionsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml30.ModelledEntry: setJAXBInteractionsWrapper.
setJAXBInteractionType(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: setJAXBInteractionType.
setJAXBInteractor(AbstractBaseXmlInteractor) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractExperimentalInteractor: Sets the value of the interactor property.
setJAXBInteractor(DefaultXmlInteractor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity: setJAXBInteractor.
setJAXBInteractor(DefaultXmlInteractor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.ExperimentalInteractor: Sets the value of the interactor property.
setJAXBInteractor(DefaultXmlInteractor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidate: setJAXBInteractor.
setJAXBInteractor(DefaultXmlInteractor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipant: setJAXBInteractor.
setJAXBInteractor(DefaultXmlInteractor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipantCandidate: setJAXBInteractor.
setJAXBInteractor(DefaultXmlInteractor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipant: setJAXBInteractor.
setJAXBInteractor(DefaultXmlInteractor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: setJAXBInteractor.
setJAXBInteractor(DefaultXmlInteractor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity: setJAXBInteractor.
setJAXBInteractor(DefaultXmlInteractor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.ExperimentalInteractor: Sets the value of the interactor property.
setJAXBInteractor(DefaultXmlInteractor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidate: setJAXBInteractor.
setJAXBInteractor(DefaultXmlInteractor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipant: setJAXBInteractor.
setJAXBInteractor(DefaultXmlInteractor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipantCandidate: setJAXBInteractor.
setJAXBInteractor(DefaultXmlInteractor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipant: setJAXBInteractor.
setJAXBInteractor(DefaultXmlInteractor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: setJAXBInteractor.
setJAXBInteractor(DefaultXmlInteractor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity: setJAXBInteractor.
setJAXBInteractor(DefaultXmlInteractor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.ExperimentalInteractor: Sets the value of the interactor property.
setJAXBInteractor(DefaultXmlInteractor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidate: setJAXBInteractor.
setJAXBInteractor(DefaultXmlInteractor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipant: setJAXBInteractor.
setJAXBInteractor(DefaultXmlInteractor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipantCandidate: setJAXBInteractor.
setJAXBInteractor(DefaultXmlInteractor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipant: setJAXBInteractor.
setJAXBInteractor(DefaultXmlInteractor) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: setJAXBInteractor.
setJAXBInteractorCandidates(AbstractXmlParticipant.JAXBInteractorCandidateWrapper<I, F, ? extends ParticipantCandidate>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant: Sets the value of the interactor candidates property.
setJAXBInteractorCandidates(XmlModelledParticipant.JAXBInteractorCandidatesWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipant: setJAXBInteractorCandidates.
setJAXBInteractorCandidates(XmlParticipantEvidence.JAXBInteractorCandidatesWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: setJAXBInteractorCandidates.
setJAXBInteractorCandidates(AbstractXmlParticipant.JAXBInteractorCandidateWrapper<I, F, ? extends ParticipantCandidate>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant: Sets the value of the interactor candidates property.
setJAXBInteractorCandidates(XmlModelledParticipant.JAXBInteractorCandidatesWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipant: setJAXBInteractorCandidates.
setJAXBInteractorCandidates(XmlParticipantEvidence.JAXBInteractorCandidatesWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: setJAXBInteractorCandidates.
setJAXBInteractorCandidates(AbstractXmlParticipant.JAXBInteractorCandidateWrapper<I, F, ? extends ParticipantCandidate>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant: Sets the value of the interactor candidates property.
setJAXBInteractorCandidates(XmlModelledParticipant.JAXBInteractorCandidatesWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipant: setJAXBInteractorCandidates.
setJAXBInteractorCandidates(XmlParticipantEvidence.JAXBInteractorCandidatesWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: setJAXBInteractorCandidates.
setJAXBInteractorRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity: Sets the value of the interactorRef property.
setJAXBInteractorRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.ExperimentalInteractor: Sets the value of the interactorRef property.
setJAXBInteractorRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidate: Sets the value of the interactorRef property.
setJAXBInteractorRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipant: Sets the value of the interactorRef property.
setJAXBInteractorRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipantCandidate: Sets the value of the interactorRef property.
setJAXBInteractorRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipant: Sets the value of the interactorRef property.
setJAXBInteractorRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: Sets the value of the interactorRef property.
setJAXBInteractorRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity: Sets the value of the interactorRef property.
setJAXBInteractorRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.ExperimentalInteractor: Sets the value of the interactorRef property.
setJAXBInteractorRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidate: Sets the value of the interactorRef property.
setJAXBInteractorRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipant: Sets the value of the interactorRef property.
setJAXBInteractorRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipantCandidate: Sets the value of the interactorRef property.
setJAXBInteractorRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipant: Sets the value of the interactorRef property.
setJAXBInteractorRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: Sets the value of the interactorRef property.
setJAXBInteractorRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity: Sets the value of the interactorRef property.
setJAXBInteractorRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.ExperimentalInteractor: Sets the value of the interactorRef property.
setJAXBInteractorRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidate: Sets the value of the interactorRef property.
setJAXBInteractorRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipant: Sets the value of the interactorRef property.
setJAXBInteractorRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipantCandidate: Sets the value of the interactorRef property.
setJAXBInteractorRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipant: Sets the value of the interactorRef property.
setJAXBInteractorRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: Sets the value of the interactorRef property.
setJAXBInteractorsWrapper(AbstractEntry.JAXBInteractorsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml253.BasicEntry: setJAXBInteractorsWrapper.
setJAXBInteractorsWrapper(AbstractEntry.JAXBInteractorsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml253.ComplexEntry: setJAXBInteractorsWrapper.
setJAXBInteractorsWrapper(AbstractEntry.JAXBInteractorsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml253.ExperimentalEntry: setJAXBInteractorsWrapper.
setJAXBInteractorsWrapper(AbstractEntry.JAXBInteractorsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml253.ModelledEntry: setJAXBInteractorsWrapper.
setJAXBInteractorsWrapper(AbstractEntry.JAXBInteractorsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml254.BasicEntry: setJAXBInteractorsWrapper.
setJAXBInteractorsWrapper(AbstractEntry.JAXBInteractorsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml254.ComplexEntry: setJAXBInteractorsWrapper.
setJAXBInteractorsWrapper(AbstractEntry.JAXBInteractorsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml254.ExperimentalEntry: setJAXBInteractorsWrapper.
setJAXBInteractorsWrapper(AbstractEntry.JAXBInteractorsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml254.ModelledEntry: setJAXBInteractorsWrapper.
setJAXBInteractorsWrapper(AbstractEntry.JAXBInteractorsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml30.BasicEntry: setJAXBInteractorsWrapper.
setJAXBInteractorsWrapper(AbstractEntry.JAXBInteractorsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml30.ComplexEntry: setJAXBInteractorsWrapper.
setJAXBInteractorsWrapper(AbstractEntry.JAXBInteractorsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml30.Entry: setJAXBInteractorsWrapper.
setJAXBInteractorsWrapper(AbstractEntry.JAXBInteractorsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml30.ExperimentalEntry: setJAXBInteractorsWrapper.
setJAXBInteractorsWrapper(AbstractEntry.JAXBInteractorsWrapper) - Method in class psidev.psi.mi.jami.xml.model.xml30.ModelledEntry: setJAXBInteractorsWrapper.
setJAXBInteractorType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: setJAXBInteractorType.
setJAXBInteractorType(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractor: setJAXBInteractorType.
setJAXBInteractorType(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractor: setJAXBInteractorType.
setJAXBInteractorType(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractor: setJAXBInteractorType.
setJAXBInteractorType(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: setJAXBInteractorType.
setJAXBIntraMolecular(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction: setJAXBIntraMolecular.
setJAXBIntraMolecular(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction: setJAXBIntraMolecular.
setJAXBIntraMolecular(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction: setJAXBIntraMolecular.
setJAXBIntraMolecular(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: setJAXBIntraMolecular.
setJAXBIntraMolecular(Boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlBasicInteraction: setJAXBIntraMolecular.
setJAXBIntraMolecular(Boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: setJAXBIntraMolecular.
setJAXBIntraMolecular(Boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlBasicInteraction: setJAXBIntraMolecular.
setJAXBIntraMolecular(Boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: setJAXBIntraMolecular.
setJAXBIntraMolecular(Boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlBasicInteraction: setJAXBIntraMolecular.
setJAXBIntraMolecular(Boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: setJAXBIntraMolecular.
setJAXBLink(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlRange: setJAXBLink.
setJAXBLink(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlRange: setJAXBLink.
setJAXBLink(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlRange: setJAXBLink.
setJAXBMaxValue(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlStoichiometryRange: setJAXBMaxValue.
setJAXBMaxValue(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlStoichiometryRange: setJAXBMaxValue.
setJAXBMaxValue(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlStoichiometryRange: setJAXBMaxValue.
setJAXBMinValue(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlStoichiometryRange: setJAXBMinValue.
setJAXBMinValue(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlStoichiometryRange: setJAXBMinValue.
setJAXBMinValue(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlStoichiometryRange: setJAXBMinValue.
setJAXBModelled(Boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: setJAXBModelled.
setJAXBModelled(Boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: setJAXBModelled.
setJAXBModelled(Boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: setJAXBModelled.
setJAXBMoleculeEffectorRef(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAllostery: setJAXBMoleculeEffectorRef.
setJAXBName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlAnnotation: Sets the value of the name property.
setJAXBName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAlias: setJAXBName.
setJAXBName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlAnnotation: Sets the value of the name property.
setJAXBName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAlias: setJAXBName.
setJAXBName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlAnnotation: Sets the value of the name property.
setJAXBName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAlias: setJAXBName.
setJAXBNameAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlAnnotation: Sets the value of the nameAc property.
setJAXBNameAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlAnnotation: Sets the value of the nameAc property.
setJAXBNameAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlAnnotation: Sets the value of the nameAc property.
setJAXBNames(AbstractNamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: Sets the value of the names property.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm: setJAXBNames.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: Sets the value of the names property.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractor: Sets the value of the names property.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant: Sets the value of the namesContainer property.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource: setJAXBNames.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlCvTerm: setJAXBNames.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeature: Sets the value of the names property.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence: Sets the value of the names property.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledFeature: Sets the value of the names property.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipant: Sets the value of the namesContainer property.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOpenCvTerm: setJAXBNames.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOrganism: Sets the value of the names property.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipant: Sets the value of the namesContainer property.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: Sets the value of the namesContainer property.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm: setJAXBNames.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: Sets the value of the names property.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractor: Sets the value of the names property.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant: Sets the value of the namesContainer property.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource: setJAXBNames.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlCvTerm: setJAXBNames.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeature: Sets the value of the names property.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence: Sets the value of the names property.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledFeature: Sets the value of the names property.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipant: Sets the value of the namesContainer property.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOpenCvTerm: setJAXBNames.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOrganism: Sets the value of the names property.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipant: Sets the value of the namesContainer property.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: Sets the value of the namesContainer property.
setJAXBNames(ComplexNamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: setJAXBNames.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm: setJAXBNames.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: Sets the value of the names property.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractor: Sets the value of the names property.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant: Sets the value of the namesContainer property.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource: setJAXBNames.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCvTerm: setJAXBNames.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeature: Sets the value of the names property.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence: Sets the value of the names property.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledFeature: Sets the value of the names property.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipant: Sets the value of the namesContainer property.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOpenCvTerm: setJAXBNames.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOrganism: Sets the value of the names property.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipant: Sets the value of the namesContainer property.
setJAXBNames(NamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: Sets the value of the namesContainer property.
setJAXBNegative(Boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: Sets the value of the negative property.
setJAXBNegative(Boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: Sets the value of the negative property.
setJAXBNegative(Boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: Sets the value of the negative property.
setJAXBNewSequence(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlResultingSequence: setJAXBNewSequence.
setJAXBNewSequence(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlResultingSequence: setJAXBNewSequence.
setJAXBNewSequence(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlResultingSequence: setJAXBNewSequence.
setJAXBOrder(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractXmlVariableParameterValue: setJAXBOrder.
setJAXBOrder(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameterValue: setJAXBOrder.
setJAXBOrder(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameterValue: setJAXBOrder.
setJAXBOrder(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameterValue: setJAXBOrder.
setJAXBOrganism(Organism) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: setJAXBOrganism.
setJAXBOrganism(XmlOrganism) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractor: setJAXBOrganism.
setJAXBOrganism(XmlOrganism) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractor: setJAXBOrganism.
setJAXBOrganism(XmlOrganism) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractor: setJAXBOrganism.
setJAXBOrganism(XmlOrganism) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: setJAXBOrganism.
setJAXBOriginalSequence(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlResultingSequence: setJAXBOriginalSequence.
setJAXBOriginalSequence(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlResultingSequence: setJAXBOriginalSequence.
setJAXBOriginalSequence(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlResultingSequence: setJAXBOriginalSequence.
setJAXBOutCome(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect: setJAXBOutCome.
setJAXBParameterWrapper(AbstractXmlInteractionEvidence.JAXBParameterWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: Gets the value of the parameterList property.
setJAXBParameterWrapper(AbstractXmlModelledInteraction.JAXBParameterWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction: setJAXBParameterWrapper.
setJAXBParameterWrapper(XmlFeatureEvidence.JAXBParameterWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence: setJAXBParameterWrapper.
setJAXBParameterWrapper(XmlParticipantEvidence.JAXBParameterWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: setJAXBParameterWrapper.
setJAXBParameterWrapper(AbstractXmlInteractionEvidence.JAXBParameterWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: Gets the value of the parameterList property.
setJAXBParameterWrapper(AbstractXmlModelledInteraction.JAXBParameterWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction: setJAXBParameterWrapper.
setJAXBParameterWrapper(XmlFeatureEvidence.JAXBParameterWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence: setJAXBParameterWrapper.
setJAXBParameterWrapper(XmlParticipantEvidence.JAXBParameterWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: setJAXBParameterWrapper.
setJAXBParameterWrapper(AbstractXmlInteractionEvidence.JAXBParameterWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: Gets the value of the parameterList property.
setJAXBParameterWrapper(AbstractXmlModelledInteraction.JAXBParameterWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction: setJAXBParameterWrapper.
setJAXBParameterWrapper(XmlFeatureEvidence.JAXBParameterWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence: setJAXBParameterWrapper.
setJAXBParameterWrapper(XmlModelledInteraction.JAXBParameterWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: setJAXBParameterWrapper.
setJAXBParameterWrapper(XmlParticipantEvidence.JAXBParameterWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: setJAXBParameterWrapper.
setJAXBParticipantFeatureRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.InferredInteractionParticipant: Sets the value of the participantFeatureRef property.
setJAXBParticipantFeatureRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.InferredInteractionParticipant: Sets the value of the participantFeatureRef property.
setJAXBParticipantFeatureRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.InferredInteractionParticipant: Sets the value of the participantFeatureRef property.
setJAXBParticipantFeatureRef(Feature) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractInferredInteractionParticipant: Sets the value of the participantFeatureRef property.
setJAXBParticipantIdentificationMethodWrapper(XmlParticipantEvidence.JAXBParticipantIdentificationWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: setJAXBParticipantIdentificationMethodWrapper.
setJAXBParticipantIdentificationMethodWrapper(XmlParticipantEvidence.JAXBParticipantIdentificationWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: setJAXBParticipantIdentificationMethodWrapper.
setJAXBParticipantIdentificationMethodWrapper(XmlParticipantEvidence.JAXBParticipantIdentificationWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: setJAXBParticipantIdentificationMethodWrapper.
setJAXBParticipantRef(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlRange: setJAXBParticipantRef.
setJAXBParticipantRef(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlRange: setJAXBParticipantRef.
setJAXBParticipantRef(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlRange: setJAXBParticipantRef.
setJAXBParticipantRef(int, PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlRange: setJAXBParticipantRef.
setJAXBParticipantRef(int, PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlRange: setJAXBParticipantRef.
setJAXBParticipantRef(int, PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlRange: setJAXBParticipantRef.
setJAXBParticipantRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.InferredInteractionParticipant: Sets the value of the participantRef property.
setJAXBParticipantRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.InferredInteractionParticipant: Sets the value of the participantRef property.
setJAXBParticipantRef(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.InferredInteractionParticipant: Sets the value of the participantRef property.
setJAXBParticipantRef(Entity) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractInferredInteractionParticipant: Sets the value of the participantRef property.
setJAXBParticipantWrapper(AbstractXmlBasicInteraction.JAXBParticipantWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlBasicInteraction: setJAXBParticipantWrapper.
setJAXBParticipantWrapper(AbstractXmlInteractionEvidence.JAXBParticipantWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: setJAXBParticipantWrapper.
setJAXBParticipantWrapper(AbstractXmlModelledInteraction.JAXBParticipantWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction: setJAXBParticipantWrapper.
setJAXBParticipantWrapper(AbstractXmlBasicInteraction.JAXBParticipantWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlBasicInteraction: setJAXBParticipantWrapper.
setJAXBParticipantWrapper(AbstractXmlInteractionEvidence.JAXBParticipantWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: setJAXBParticipantWrapper.
setJAXBParticipantWrapper(AbstractXmlModelledInteraction.JAXBParticipantWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction: setJAXBParticipantWrapper.
setJAXBParticipantWrapper(AbstractXmlBasicInteraction.JAXBParticipantWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlBasicInteraction: setJAXBParticipantWrapper.
setJAXBParticipantWrapper(AbstractXmlInteractionEvidence.JAXBParticipantWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: setJAXBParticipantWrapper.
setJAXBParticipantWrapper(AbstractXmlModelledInteraction.JAXBParticipantWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction: setJAXBParticipantWrapper.
setJAXBParticipantWrapper(XmlModelledInteraction.JAXBParticipantWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: setJAXBParticipantWrapper.
setJAXBPosition(long) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPosition: Sets the value of the position property.
setJAXBPosition(long) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPosition: Sets the value of the position property.
setJAXBPosition(long) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPosition: Sets the value of the position property.
setJAXBPrimaryRef(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XrefContainer: Sets the value of the primaryRef property.
setJAXBPrimaryRef(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XrefContainer: Sets the value of the primaryRef property.
setJAXBPrimaryRef(Xref) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XrefContainer: Sets the value of the primaryRef property.
setJAXBPublication(BibRef) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: setJAXBPublication.
setJAXBPublication(BibRef) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: setJAXBPublication.
setJAXBPublication(BibRef) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: setJAXBPublication.
setJAXBPublication(BibRef) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCooperativityEvidence: setJAXBPublication.
setJAXBPublication(BibRef) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledConfidence: setJAXBPublication.
setJAXBPublication(BibRef) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParameter: setJAXBPublication.
setJAXBRangeWrapper(AbstractXmlFeature.JAXBRangeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: setJAXBRangeWrapper.
setJAXBRangeWrapper(AbstractXmlFeature.JAXBRangeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeature: setJAXBRangeWrapper.
setJAXBRangeWrapper(AbstractXmlFeature.JAXBRangeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence: setJAXBRangeWrapper.
setJAXBRangeWrapper(AbstractXmlFeature.JAXBRangeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledFeature: setJAXBRangeWrapper.
setJAXBRangeWrapper(AbstractXmlFeature.JAXBRangeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: setJAXBRangeWrapper.
setJAXBRangeWrapper(AbstractXmlFeature.JAXBRangeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeature: setJAXBRangeWrapper.
setJAXBRangeWrapper(AbstractXmlFeature.JAXBRangeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence: setJAXBRangeWrapper.
setJAXBRangeWrapper(AbstractXmlFeature.JAXBRangeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledFeature: setJAXBRangeWrapper.
setJAXBRangeWrapper(AbstractXmlFeature.JAXBRangeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: setJAXBRangeWrapper.
setJAXBRangeWrapper(AbstractXmlFeature.JAXBRangeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeature: setJAXBRangeWrapper.
setJAXBRangeWrapper(AbstractXmlFeature.JAXBRangeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence: setJAXBRangeWrapper.
setJAXBRangeWrapper(AbstractXmlFeature.JAXBRangeWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledFeature: setJAXBRangeWrapper.
setJAXBRefType(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlXref: Sets the value of the refType property.
setJAXBRefType(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlXref: Sets the value of the refType property.
setJAXBRefType(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlXref: Sets the value of the refType property.
setJAXBRefTypeAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlXref: Sets the value of the refTypeAc property.
setJAXBRefTypeAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlXref: Sets the value of the refTypeAc property.
setJAXBRefTypeAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlXref: Sets the value of the refTypeAc property.
setJAXBRelationType(XmlOpenCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCausalRelationship: setJAXBRelationType.
setJAXBRelease(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource: setJAXBRelease.
setJAXBRelease(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource: setJAXBRelease.
setJAXBRelease(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource: setJAXBRelease.
setJAXBReleaseDate(XMLGregorianCalendar) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource: setJAXBReleaseDate.
setJAXBReleaseDate(XMLGregorianCalendar) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource: setJAXBReleaseDate.
setJAXBReleaseDate(XMLGregorianCalendar) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource: setJAXBReleaseDate.
setJAXBResponse(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect: setJAXBResponse.
setJAXBResultingSequence(XmlResultingSequence) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlRange: setJAXBResultingSequence.
setJAXBResultingSequence(XmlResultingSequence) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlRange: setJAXBResultingSequence.
setJAXBResultingSequence(XmlResultingSequence) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlRange: setJAXBResultingSequence.
setJAXBSource(ExtendedPsiXmlSource) - Method in class psidev.psi.mi.jami.xml.model.xml253.BasicEntry: setJAXBSource.
setJAXBSource(ExtendedPsiXmlSource) - Method in class psidev.psi.mi.jami.xml.model.xml253.ComplexEntry: setJAXBSource.
setJAXBSource(ExtendedPsiXmlSource) - Method in class psidev.psi.mi.jami.xml.model.xml253.ExperimentalEntry: setJAXBSource.
setJAXBSource(ExtendedPsiXmlSource) - Method in class psidev.psi.mi.jami.xml.model.xml253.ModelledEntry: setJAXBSource.
setJAXBSource(ExtendedPsiXmlSource) - Method in class psidev.psi.mi.jami.xml.model.xml254.BasicEntry: setJAXBSource.
setJAXBSource(ExtendedPsiXmlSource) - Method in class psidev.psi.mi.jami.xml.model.xml254.ComplexEntry: setJAXBSource.
setJAXBSource(ExtendedPsiXmlSource) - Method in class psidev.psi.mi.jami.xml.model.xml254.ExperimentalEntry: setJAXBSource.
setJAXBSource(ExtendedPsiXmlSource) - Method in class psidev.psi.mi.jami.xml.model.xml254.ModelledEntry: setJAXBSource.
setJAXBSource(ExtendedPsiXmlSource) - Method in class psidev.psi.mi.jami.xml.model.xml30.BasicEntry: setJAXBSource.
setJAXBSource(ExtendedPsiXmlSource) - Method in class psidev.psi.mi.jami.xml.model.xml30.ComplexEntry: setJAXBSource.
setJAXBSource(ExtendedPsiXmlSource) - Method in class psidev.psi.mi.jami.xml.model.xml30.Entry: setJAXBSource.
setJAXBSource(ExtendedPsiXmlSource) - Method in class psidev.psi.mi.jami.xml.model.xml30.ExperimentalEntry: setJAXBSource.
setJAXBSource(ExtendedPsiXmlSource) - Method in class psidev.psi.mi.jami.xml.model.xml30.ModelledEntry: setJAXBSource.
setJAXBSourceParticipant(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCausalRelationship: setJAXBSourceParticipant.
setJAXBStartStatus(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlRange: Sets the value of the startStatus property.
setJAXBStartStatus(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlRange: Sets the value of the startStatus property.
setJAXBStartStatus(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlRange: Sets the value of the startStatus property.
setJAXBStatus(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlPosition: setJAXBStatus.
setJAXBStatus(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlPosition: setJAXBStatus.
setJAXBStatus(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlPosition: setJAXBStatus.
setJAXBStoichiometry(XmlStoichiometry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant: setJAXBStoichiometry.
setJAXBStoichiometry(XmlStoichiometry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipant: setJAXBStoichiometry.
setJAXBStoichiometry(XmlStoichiometry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipant: setJAXBStoichiometry.
setJAXBStoichiometry(XmlStoichiometry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: setJAXBStoichiometry.
setJAXBStoichiometry(XmlStoichiometry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant: setJAXBStoichiometry.
setJAXBStoichiometry(XmlStoichiometry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipant: setJAXBStoichiometry.
setJAXBStoichiometry(XmlStoichiometry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipant: setJAXBStoichiometry.
setJAXBStoichiometry(XmlStoichiometry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: setJAXBStoichiometry.
setJAXBStoichiometry(XmlStoichiometry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant: setJAXBStoichiometry.
setJAXBStoichiometry(XmlStoichiometry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipant: setJAXBStoichiometry.
setJAXBStoichiometry(XmlStoichiometry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipant: setJAXBStoichiometry.
setJAXBStoichiometry(XmlStoichiometry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: setJAXBStoichiometry.
setJAXBStoichiometryRange(XmlStoichiometryRange) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant: setJAXBStoichiometryRange.
setJAXBStoichiometryRange(XmlStoichiometryRange) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipant: setJAXBStoichiometryRange.
setJAXBStoichiometryRange(XmlStoichiometryRange) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipant: setJAXBStoichiometryRange.
setJAXBStoichiometryRange(XmlStoichiometryRange) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: setJAXBStoichiometryRange.
setJAXBStoichiometryRange(XmlStoichiometryRange) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant: setJAXBStoichiometryRange.
setJAXBStoichiometryRange(XmlStoichiometryRange) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipant: setJAXBStoichiometryRange.
setJAXBStoichiometryRange(XmlStoichiometryRange) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipant: setJAXBStoichiometryRange.
setJAXBStoichiometryRange(XmlStoichiometryRange) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: setJAXBStoichiometryRange.
setJAXBStoichiometryRange(XmlStoichiometryRange) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant: setJAXBStoichiometryRange.
setJAXBStoichiometryRange(XmlStoichiometryRange) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipant: setJAXBStoichiometryRange.
setJAXBStoichiometryRange(XmlStoichiometryRange) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipant: setJAXBStoichiometryRange.
setJAXBStoichiometryRange(XmlStoichiometryRange) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: setJAXBStoichiometryRange.
setJAXBTargetParticipant(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCausalRelationship: setJAXBTargetParticipant.
setJAXBTaxId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOrganism: setJAXBTaxId.
setJAXBTaxId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOrganism: setJAXBTaxId.
setJAXBTaxId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOrganism: setJAXBTaxId.
setJAXBTerm(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParameter: Sets the value of the term property.
setJAXBTerm(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParameter: Sets the value of the term property.
setJAXBTerm(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParameter: Sets the value of the term property.
setJAXBTermAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParameter: Sets the value of the termAc property.
setJAXBTermAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParameter: Sets the value of the termAc property.
setJAXBTermAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParameter: Sets the value of the termAc property.
setJAXBTissue(XmlOpenCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOrganism: setJAXBTissue.
setJAXBTissue(XmlOpenCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOrganism: setJAXBTissue.
setJAXBTissue(XmlOpenCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOrganism: setJAXBTissue.
setJAXBType(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: setJAXBType.
setJAXBType(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant.JAXBInteractorCandidateWrapper
setJAXBType(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: Sets the value of the molecule set type property.
setJAXBType(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeature: setJAXBType.
setJAXBType(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence: setJAXBType.
setJAXBType(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledFeature: setJAXBType.
setJAXBType(XmlOpenCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlConfidence: Sets the value of the type property.
setJAXBType(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: setJAXBType.
setJAXBType(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant.JAXBInteractorCandidateWrapper
setJAXBType(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: Sets the value of the molecule set type property.
setJAXBType(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeature: setJAXBType.
setJAXBType(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence: setJAXBType.
setJAXBType(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledFeature: setJAXBType.
setJAXBType(XmlOpenCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlConfidence: Sets the value of the type property.
setJAXBType(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: setJAXBType.
setJAXBType(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant.JAXBInteractorCandidateWrapper
setJAXBType(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: Sets the value of the molecule set type property.
setJAXBType(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeature: setJAXBType.
setJAXBType(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence: setJAXBType.
setJAXBType(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledFeature: setJAXBType.
setJAXBType(XmlOpenCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlConfidence: Sets the value of the type property.
setJAXBTypeAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAlias: Sets the value of the typeAc property.
setJAXBTypeAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAlias: Sets the value of the typeAc property.
setJAXBTypeAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAlias: Sets the value of the typeAc property.
setJAXBTypeName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAlias: Sets the value of the type property.
setJAXBTypeName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAlias: Sets the value of the type property.
setJAXBTypeName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAlias: Sets the value of the type property.
setJAXBUncertainty(BigDecimal) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParameter: Sets the value of the uncertainty property.
setJAXBUncertainty(BigDecimal) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParameter: Sets the value of the uncertainty property.
setJAXBUncertainty(BigDecimal) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParameter: Sets the value of the uncertainty property.
setJAXBUnit(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParameter: Sets the value of the unit property.
setJAXBUnit(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParameter: Sets the value of the unit property.
setJAXBUnit(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParameter: Sets the value of the unit property.
setJAXBUnit(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameter: setJAXBUnit.
setJAXBUnit(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameter: setJAXBUnit.
setJAXBUnit(XmlCvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameter: setJAXBUnit.
setJAXBValue(String) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractXmlVariableParameterValue: setJAXBValue.
setJAXBValue(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlConfidence: Sets the value of the value property.
setJAXBValue(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameterValue: setJAXBValue.
setJAXBValue(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlConfidence: Sets the value of the value property.
setJAXBValue(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameterValue: setJAXBValue.
setJAXBValue(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlConfidence: Sets the value of the value property.
setJAXBValue(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameterValue: setJAXBValue.
setJAXBVariableParameterValueSetWrapper(XmlInteractionEvidence.JAXBVariableParameterValueSetWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidence: setJAXBVariableParameterValueSetWrapper.
setJAXBVariableParameterValuesWrapper(AbstractXmlExperiment.JAXBVariableParameterWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: setJAXBVariableParameterValuesWrapper.
setJAXBVariableParameterValuesWrapper(XmlVariableParameter.JAXBVariableValueWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameter: setJAXBVariableParameterValuesWrapper.
setJAXBVariableParameterValuesWrapper(AbstractXmlExperiment.JAXBVariableParameterWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: setJAXBVariableParameterValuesWrapper.
setJAXBVariableParameterValuesWrapper(XmlVariableParameter.JAXBVariableValueWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameter: setJAXBVariableParameterValuesWrapper.
setJAXBVariableParameterValuesWrapper(AbstractXmlExperiment.JAXBVariableParameterWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: setJAXBVariableParameterValuesWrapper.
setJAXBVariableParameterValuesWrapper(XmlVariableParameter.JAXBVariableValueWrapper) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameter: setJAXBVariableParameterValuesWrapper.
setJAXBVersion(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlXref: Sets the value of the version property.
setJAXBVersion(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlXref: Sets the value of the version property.
setJAXBVersion(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlXref: Sets the value of the version property.
setJAXBXref(CvTermXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm: setJAXBXref.
setJAXBXref(CvTermXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource: setJAXBXref.
setJAXBXref(CvTermXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlCvTerm: setJAXBXref.
setJAXBXref(CvTermXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOpenCvTerm: setJAXBXref.
setJAXBXref(FeatureXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: Sets the value of the xref property.
setJAXBXref(FeatureXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeature: Sets the value of the xref property.
setJAXBXref(FeatureXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence: Sets the value of the xref property.
setJAXBXref(FeatureXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledFeature: Sets the value of the xref property.
setJAXBXref(InteractorXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractor: Sets the value of the xrefContainer property.
setJAXBXref(PublicationXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: setJAXBXref.
setJAXBXref(XrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant: Sets the value of the xrefContainer property.
setJAXBXref(XrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipant: Sets the value of the xrefContainer property.
setJAXBXref(XrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipant: Sets the value of the xrefContainer property.
setJAXBXref(XrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: Sets the value of the xrefContainer property.
setJAXBXref(XrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlResultingSequence: setJAXBXref.
setJAXBXref(CvTermXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm: setJAXBXref.
setJAXBXref(CvTermXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource: setJAXBXref.
setJAXBXref(CvTermXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlCvTerm: setJAXBXref.
setJAXBXref(CvTermXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOpenCvTerm: setJAXBXref.
setJAXBXref(FeatureXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: Sets the value of the xref property.
setJAXBXref(FeatureXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeature: Sets the value of the xref property.
setJAXBXref(FeatureXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence: Sets the value of the xref property.
setJAXBXref(FeatureXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledFeature: Sets the value of the xref property.
setJAXBXref(InteractorXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractor: Sets the value of the xrefContainer property.
setJAXBXref(PublicationXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: setJAXBXref.
setJAXBXref(XrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant: Sets the value of the xrefContainer property.
setJAXBXref(XrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipant: Sets the value of the xrefContainer property.
setJAXBXref(XrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipant: Sets the value of the xrefContainer property.
setJAXBXref(XrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: Sets the value of the xrefContainer property.
setJAXBXref(XrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlResultingSequence: setJAXBXref.
setJAXBXref(CvTermXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm: setJAXBXref.
setJAXBXref(CvTermXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource: setJAXBXref.
setJAXBXref(CvTermXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCvTerm: setJAXBXref.
setJAXBXref(CvTermXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOpenCvTerm: setJAXBXref.
setJAXBXref(FeatureXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: Sets the value of the xref property.
setJAXBXref(FeatureXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeature: Sets the value of the xref property.
setJAXBXref(FeatureXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence: Sets the value of the xref property.
setJAXBXref(FeatureXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledFeature: Sets the value of the xref property.
setJAXBXref(InteractorXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractor: Sets the value of the xrefContainer property.
setJAXBXref(PublicationXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: setJAXBXref.
setJAXBXref(XrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant: Sets the value of the xrefContainer property.
setJAXBXref(XrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipant: Sets the value of the xrefContainer property.
setJAXBXref(XrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipant: Sets the value of the xrefContainer property.
setJAXBXref(XrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: Sets the value of the xrefContainer property.
setJAXBXref(XrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlResultingSequence: setJAXBXref.
setJobOperator(JobOperator) - Method in class psidev.psi.mi.jami.batch.MIBatchJobManager: Setter for the field jobOperator.
setJobRepository(JobRepository) - Method in class psidev.psi.mi.jami.batch.MIBatchJobManager: Setter for the field jobRepository.
setJournal(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: Set the journal where the publication has been published
setJournal(String) - Method in interface psidev.psi.mi.jami.model.Publication: Set the journal where the publication has been published
setJournal(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: Set the journal where the publication has been published
setJournal(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: Set the journal where the publication has been published
setJournal(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: Set the journal where the publication has been published
setLast(XMLGregorianCalendar) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.DbReferenceType: Sets the value of the last property.
setLength(int) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Sequence: Sets the value of the length property.
setLightWriter(AbstractCompactXmlWriter) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlMixWriter: Setter for the field lightWriter.
setLightWriter(AbstractExpandedXmlWriter) - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlMixWriter: Setter for the field lightWriter.
setLineParser(AbstractCsvInteractionEvidenceParser<T>) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Setter for the field lineParser.
setLineParser(AbstractCsvInteractionEvidenceParser<T>) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Setter for the field lineParser.
setLineParser(AbstractInteractionLineParser<T, P, F>) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Setter for the field lineParser.
setLink(boolean) - Method in class psidev.psi.mi.jami.model.impl.DefaultRange: Sets the link boolean for this Range
setLink(boolean) - Method in interface psidev.psi.mi.jami.model.Range: Sets the link boolean for this Range
setLink(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlRange: Sets the link boolean for this Range
setLink(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlRange: Sets the link boolean for this Range
setLink(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlRange: Sets the link boolean for this Range
setListener(ProteinMapperListener) - Method in class psidev.psi.mi.jami.bridges.mapper.mock.MockProteinMapper: setListener.
setListener(ProteinMapperListener) - Method in interface psidev.psi.mi.jami.bridges.mapper.ProteinMapper: setListener.
setListener(InteractorEnricherListener<Complex>) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullComplexEnricher: setListener.
setListener(InteractorEnricherListener<Complex>) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullComplexUpdater: setListener.
setListener(InteractorEnricherListener<Complex>) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalComplexEnricher: setListener.
setListener(InteractorEnricherListener<Complex>) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalComplexUpdater: setListener.
setListener(InteractorEnricherListener<Interactor>) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeInteractorEnricher: setListener.
setListener(InteractorEnricherListener<T>) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorEnricher: setListener.
setListener(InteractorEnricherListener<T>) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorUpdater: setListener.
setListener(InteractorEnricherListener<T>) - Method in interface psidev.psi.mi.jami.enricher.InteractorEnricher: setListener.
setListener(PsiXmlParserListener) - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractFullPsiXmlParser: setListener.
setListener(PsiXmlParserListener) - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsixmlBinaryParser: setListener.
setListener(PsiXmlParserListener) - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: setListener.
setListener(PsiXmlParserListener) - Method in interface psidev.psi.mi.jami.xml.io.parser.FullPsiXmlParser: setListener.
setListener(PsiXmlParserListener) - Method in interface psidev.psi.mi.jami.xml.io.parser.PsiXmlParser: setListener.
setListener(PsiXmlParserListener) - Method in class psidev.psi.mi.jami.xml.XmlEntryContext: Setter for the field listener.
setMaxValue(int) - Method in class psidev.psi.mi.jami.model.impl.DefaultStoichiometry
setMaxValue(int) - Method in class psidev.psi.mi.jami.xml.model.extension.XmlStoichiometry
setMIFileParserListener(MIFileParserListener) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: setMIFileParserListener.
setMIFileParserListener(MIFileParserListener) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: setMIFileParserListener.
setMIFileParserListener(MIFileParserListener) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: setMIFileParserListener.
setMIFileParserListener(MIFileParserListener) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: setMIFileParserListener.
setMIIdentifier(String) - Method in interface psidev.psi.mi.jami.model.CvTerm: Sets the PSI-MI identifier.
setMIIdentifier(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultCvTerm: Sets the PSI-MI identifier.
setMIIdentifier(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm: Sets the PSI-MI identifier.
setMIIdentifier(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.CvTermXrefContainer: setMIIdentifier.
setMIIdentifier(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm: Sets the PSI-MI identifier.
setMIIdentifier(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.CvTermXrefContainer: setMIIdentifier.
setMIIdentifier(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm: Sets the PSI-MI identifier.
setMIIdentifier(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.CvTermXrefContainer: setMIIdentifier.
setMinValue(int) - Method in class psidev.psi.mi.jami.model.impl.DefaultStoichiometry
setMinValue(int) - Method in class psidev.psi.mi.jami.xml.model.extension.XmlStoichiometry
setMitabFileParserListener(MitabParserListener) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: setMitabFileParserListener.
setModelled(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: setModelled.
setModelled(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: setModelled.
setModelled(boolean) - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlInteractionEvidence: setModelled.
setModelled(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: setModelled.
setModelled(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: setModelled.
setModelled(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: setModelled.
setModelledBinaryWriter(AbstractMitab25BinaryWriter<ModelledBinaryInteraction, ModelledParticipant>) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25BinaryWriter: Setter for the field modelledBinaryWriter.
setModelledBinaryWriter(AbstractMitab26BinaryWriter<ModelledBinaryInteraction, ModelledParticipant>) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab26BinaryWriter: Setter for the field modelledBinaryWriter.
setModelledBinaryWriter(AbstractMitab27BinaryWriter<ModelledBinaryInteraction, ModelledParticipant>) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab27BinaryWriter: Setter for the field modelledBinaryWriter.
setModelledBinaryWriter(AbstractMitab28BinaryWriter<ModelledBinaryInteraction, ModelledParticipant>) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab28BinaryWriter: Setter for the field modelledBinaryWriter.
setModelledEntityEnricher(EntityEnricher<ModelledEntity, ModelledFeature>) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeEntityEnricher: Setter for the field modelledEntityEnricher.
setModelledEntityEnricher(CompositeModelledParticipantEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeParticipantEnricher: Setter for the field modelledEntityEnricher.
setModelledInteractionWriter(Mitab25ModelledWriter) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25Writer: Setter for the field modelledInteractionWriter.
setModelledInteractionWriter(Mitab25ModelledWriter) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25Writer: Setter for the field modelledInteractionWriter.
setModelledWriter(AbstractCompactXmlWriter<M>) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlMixWriter: Setter for the field modelledWriter.
setModelledWriter(AbstractExpandedXmlWriter<M>) - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlMixWriter: Setter for the field modelledWriter.
setMODIdentifier(String) - Method in interface psidev.psi.mi.jami.model.CvTerm: Sets the PSI-MOD identifier.
setMODIdentifier(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultCvTerm: Sets the PSI-MOD identifier.
setMODIdentifier(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm: Sets the PSI-MOD identifier.
setMODIdentifier(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.CvTermXrefContainer: setMODIdentifier.
setMODIdentifier(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm: Sets the PSI-MOD identifier.
setMODIdentifier(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.CvTermXrefContainer: setMODIdentifier.
setMODIdentifier(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm: Sets the PSI-MOD identifier.
setMODIdentifier(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.CvTermXrefContainer: setMODIdentifier.
setName(String) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.SeqFeatureGroupType: Sets the value of the name property.
setNamesContainer(AbstractNamesContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor
setNameSynonyms(Collection<String>) - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.OntologyTermWrapper
setNaryGroup(String) - Method in interface psidev.psi.mi.jami.crosslink.extension.CrosslinkCsvInteraction: setNaryGroup.
setNaryGroup(String) - Method in class psidev.psi.mi.jami.crosslink.extension.CsvBinaryInteractionEvidence: setNaryGroup.
setNaryGroup(String) - Method in class psidev.psi.mi.jami.crosslink.extension.CsvInteractionEvidence: setNaryGroup.
setNegative(boolean) - Method in class psidev.psi.mi.jami.binary.impl.BinaryInteractionEvidenceWrapper: Sets the negative boolean value.
setNegative(boolean) - Method in class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence: Sets the negative boolean value.
setNegative(boolean) - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence: Sets the negative boolean value.
setNegative(boolean) - Method in interface psidev.psi.mi.jami.model.InteractionEvidence: Sets the negative boolean value.
setNegative(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: Sets the negative boolean value.
setNegative(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: Sets the negative boolean value.
setNegative(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: Sets the negative boolean value.
setNegative(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: Sets the negative boolean value.
setNegative(boolean) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: Sets the negative boolean value.
setNewSequence(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultResultingSequence: Sets the new sequence of this object
setNewSequence(String) - Method in interface psidev.psi.mi.jami.model.ResultingSequence: Sets the new sequence of this object
setNewSequence(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlResultingSequence: Sets the new sequence of this object
setNewSequence(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlResultingSequence: Sets the new sequence of this object
setNewSequence(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlResultingSequence: Sets the new sequence of this object
setObjectId(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.PsiXmlLocator: Setter for the field objectId.
setObsoleteMessage(String) - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.OntologyTermWrapper: Setter for the field obsoleteMessage.
setOnly(int, T) - Method in class psidev.psi.mi.jami.utils.collection.AbstractListHavingProperties: setOnly
setOntologyDirectory(File) - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.AbstractMIOntologyAccess
setOntologyID(String) - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.AbstractMIOntologyAccess: Setter for the field ontologyID.
setOntologyTermFetcher(OntologyTermFetcher) - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.AbstractMIOntologyAccess: setOntologyTermFetcher.
setOrganism(Organism) - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractor: Sets the source organism of this interactor
setOrganism(Organism) - Method in interface psidev.psi.mi.jami.model.Interactor: Sets the source organism of this interactor
setOrganism(Organism) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: Sets the source organism of this interactor
setOrganism(Organism) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: Sets the source organism of this interactor
setOrganism(Organism) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: Sets the source organism of this interactor
setOrganism(Organism) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: Sets the source organism of this interactor
setOrganism(Organism) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: Sets the source organism of this interactor
setOrganism(Organism) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: Sets the source organism of this interactor
setOrganism(Organism) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: Sets the source organism of this interactor
setOrganism(Organism) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: Sets the source organism of this interactor
setOrganism(Organism) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: Sets the source organism of this interactor
setOrganism(Organism) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: Sets the source organism of this interactor
setOrganism(Organism) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: Sets the source organism of this interactor
setOrganism(Organism) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: Sets the source organism of this interactor
setOrganism(Organism) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: Sets the source organism of this interactor
setOrganism(Organism) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: Sets the source organism of this interactor
setOrganism(Organism) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: Sets the source organism of this interactor
setOrganism(Organism) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: Sets the source organism of this interactor
setOrganism(Organism) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractInteractorRef: Sets the source organism of this interactor
setOrganism(Organism) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractInteractorRef: Sets the source organism of this interactor
setOrganism(Organism) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractInteractorRef: Sets the source organism of this interactor
setOrganismEnricher(OrganismEnricher) - Method in interface psidev.psi.mi.jami.enricher.ExperimentEnricher: setOrganismEnricher.
setOrganismEnricher(OrganismEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorEnricher: setOrganismEnricher.
setOrganismEnricher(OrganismEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeInteractorEnricher: setOrganismEnricher.
setOrganismEnricher(OrganismEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullComplexEnricher: setOrganismEnricher.
setOrganismEnricher(OrganismEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullComplexUpdater: setOrganismEnricher.
setOrganismEnricher(OrganismEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalComplexEnricher: setOrganismEnricher.
setOrganismEnricher(OrganismEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalComplexUpdater: setOrganismEnricher.
setOrganismEnricher(OrganismEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentEnricher: setOrganismEnricher.
setOrganismEnricher(OrganismEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEvidenceEnricher: setOrganismEnricher.
setOrganismEnricher(OrganismEnricher) - Method in interface psidev.psi.mi.jami.enricher.InteractorEnricher: setOrganismEnricher.
setOrganismEnricher(OrganismEnricher) - Method in interface psidev.psi.mi.jami.enricher.ParticipantEvidenceEnricher: setOrganismEnricher.
setOrganismEnricherListener(OrganismEnricherListener) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOrganismEnricher: setOrganismEnricherListener.
setOrganismEnricherListener(OrganismEnricherListener) - Method in interface psidev.psi.mi.jami.enricher.OrganismEnricher: setOrganismEnricherListener.
setOrganismWriter(JsonElementWriter<Organism>) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractorWriter: Setter for the field organismWriter.
setOrganismWriter(JsonElementWriter<Organism>) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonModelledInteractionWriter: Setter for the field organismWriter.
setOrganismWriter(PsiXmlElementWriter<Organism>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledInteractionWriter: Setter for the field organismWriter.
setOrganismWriter(PsiXmlElementWriter<Organism>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlModelledInteractionWriter: Setter for the field organismWriter.
setOrganismWriter(PsiXmlElementWriter<Organism>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlInteractorWriter: Setter for the field organismWriter.
setOriginalFile(File) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Setter for the field originalFile.
setOriginalFile(File) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Setter for the field originalFile.
setOriginalFile(File) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Setter for the field originalFile.
setOriginalParticipant(XmlParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence: Setter for the field originalParticipant.
setOriginalParticipant(XmlParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence: Setter for the field originalParticipant.
setOriginalParticipant(XmlParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence: Setter for the field originalParticipant.
setOriginalReader(Reader) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Setter for the field originalReader.
setOriginalReader(Reader) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Setter for the field originalReader.
setOriginalReader(Reader) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Setter for the field originalReader.
setOriginalSequence(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultResultingSequence: Sets the original sequence of this object
setOriginalSequence(String) - Method in interface psidev.psi.mi.jami.model.ResultingSequence: Sets the original sequence of this object
setOriginalSequence(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlResultingSequence: Sets the original sequence of this object
setOriginalSequence(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlResultingSequence: Sets the original sequence of this object
setOriginalSequence(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlResultingSequence: Sets the original sequence of this object
setOriginalStream(InputStream) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Setter for the field originalStream.
setOriginalStream(InputStream) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Setter for the field originalStream.
setOriginalStream(InputStream) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Setter for the field originalStream.
setOriginalURL(URL) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Setter for the field originalURL.
setOriginalURL(URL) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Setter for the field originalURL.
setOriginalURL(URL) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Setter for the field originalURL.
setOriginalXmlInteraction(ExtendedPsiXmlInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: setOriginalXmlInteraction.
setOriginalXmlInteraction(ExtendedPsiXmlInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: setOriginalXmlInteraction.
setOriginalXmlInteraction(ExtendedPsiXmlInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: setOriginalXmlInteraction.
setOutCome(CvTerm) - Method in interface psidev.psi.mi.jami.model.CooperativeEffect: Sets the cooperative effect outcome
setOutCome(CvTerm) - Method in class psidev.psi.mi.jami.model.impl.DefaultCooperativeEffect: Sets the cooperative effect outcome
setOutCome(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect: Sets the cooperative effect outcome
setParameterWriter(JsonElementWriter<Parameter>) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonFeatureEvidenceWriter: Setter for the field parameterWriter.
setParameterWriter(JsonElementWriter<Parameter>) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionEvidenceWriter: Setter for the field parameterWriter.
setParameterWriter(JsonElementWriter<Parameter>) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonModelledInteractionWriter: Setter for the field parameterWriter.
setParameterWriter(JsonElementWriter<Parameter>) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonParticipantEvidenceWriter: Setter for the field parameterWriter.
setParameterWriter(PsiXmlElementWriter<Parameter>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantEvidenceWriter: Setter for the field parameterWriter.
setParameterWriter(PsiXmlParameterWriter) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionEvidenceWriter: Setter for the field parameterWriter.
setParameterWriter(PsiXmlParameterWriter) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlModelledInteractionWriter: Setter for the field parameterWriter.
setParameterWriter(PsiXmlParameterWriter) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlFeatureEvidenceWriter: Setter for the field parameterWriter.
setParentPool(P) - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipantCandidate: Setter for the field parentPool.
setParentPool(P) - Method in interface psidev.psi.mi.jami.model.ParticipantCandidate: Sets the participant pool parent.
setParentPool(ExperimentalParticipantPool) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidate: Sets the participant pool parent.
setParentPool(ExperimentalParticipantPool) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidate: Sets the participant pool parent.
setParentPool(ExperimentalParticipantPool) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidate: Sets the participant pool parent.
setParentPool(ModelledParticipantPool) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidateWrapper: Sets the participant pool parent.
setParentPool(ModelledParticipantPool) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipantCandidate: Sets the participant pool parent.
setParentPool(ModelledParticipantPool) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantCandidateWrapper: Sets the participant pool parent.
setParentPool(ModelledParticipantPool) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidateWrapper: Sets the participant pool parent.
setParentPool(ModelledParticipantPool) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipantCandidate: Sets the participant pool parent.
setParentPool(ModelledParticipantPool) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantCandidateWrapper: Sets the participant pool parent.
setParentPool(ModelledParticipantPool) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidateWrapper: Sets the participant pool parent.
setParentPool(ModelledParticipantPool) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipantCandidate: Sets the participant pool parent.
setParentPool(ModelledParticipantPool) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantCandidateWrapper: Sets the participant pool parent.
setPARIdentifier(String) - Method in interface psidev.psi.mi.jami.model.CvTerm: Sets the PSI-PAR identifier.
setPARIdentifier(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultCvTerm: Sets the PSI-PAR identifier.
setPARIdentifier(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm: Sets the PSI-PAR identifier.
setPARIdentifier(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.CvTermXrefContainer: setPARIdentifier.
setPARIdentifier(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm: Sets the PSI-PAR identifier.
setPARIdentifier(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.CvTermXrefContainer: setPARIdentifier.
setPARIdentifier(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm: Sets the PSI-PAR identifier.
setPARIdentifier(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.CvTermXrefContainer: setPARIdentifier.
setParser(PsiXmlParser<T>) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Setter for the field parser.
setParserListener(CsvParserListener) - Method in class psidev.psi.mi.jami.crosslink.io.parser.AbstractCsvInteractionEvidenceParser: Setter for the field parserListener.
setParserListener(MIFileParserListener) - Method in class psidev.psi.mi.jami.xml.io.iterator.AbstractXmlIterator: Setter for the field parserListener.
setParserListener(MitabParserListener) - Method in class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionLineParser
setParserListener(MitabParserListener) - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
setParticipant(E) - Method in class psidev.psi.mi.jami.xml.model.reference.AbstractFeatureRef: setParticipant.
setParticipant(P) - Method in interface psidev.psi.mi.jami.model.Feature: Sets the participant.
setParticipant(P) - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature: Setter for the field participant.
setParticipant(P) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: Setter for the field participant.
setParticipant(P) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: Setter for the field participant.
setParticipant(P) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: Setter for the field participant.
setParticipant(Entity) - Method in class psidev.psi.mi.jami.model.impl.DefaultRange: Sets the participating molecule that the range refers to
setParticipant(Entity) - Method in interface psidev.psi.mi.jami.model.Range: Sets the participating molecule that the range refers to
setParticipant(Entity) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractInferredInteractionParticipant: Setter for the field participant.
setParticipant(Entity) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlRange: Sets the participating molecule that the range refers to
setParticipant(Entity) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlRange: Sets the participating molecule that the range refers to
setParticipant(Entity) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlRange: Sets the participating molecule that the range refers to
setParticipant(ModelledEntity) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidenceWrapper: Sets the participant.
setParticipant(ModelledEntity) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureWrapper: Sets the participant.
setParticipant(ModelledEntity) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidenceWrapper: Sets the participant.
setParticipant(ModelledEntity) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureWrapper: Sets the participant.
setParticipant(ModelledEntity) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidenceWrapper: Sets the participant.
setParticipant(ModelledEntity) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureWrapper: Sets the participant.
setParticipantA(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: setParticipantA.
setParticipantA(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: setParticipantA.
setParticipantA(Participant) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: Sets the first participant of this interaction
setParticipantA(ParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: setParticipantA.
setParticipantA(T) - Method in interface psidev.psi.mi.jami.binary.BinaryInteraction: Sets the first participant of this interaction
setParticipantA(T) - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteraction: Setter for the field participantA.
setParticipantA(T) - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteractionWrapper: Setter for the field participantA.
setParticipantAndAddFeature(E) - Method in class psidev.psi.mi.jami.xml.model.reference.AbstractFeatureRef: setParticipantAndAddFeature.
setParticipantAndAddFeature(P) - Method in interface psidev.psi.mi.jami.model.Feature: Sets the participant and add this feature to its list of features.
setParticipantAndAddFeature(P) - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature: setParticipantAndAddFeature
setParticipantAndAddFeature(P) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: setParticipantAndAddFeature.
setParticipantAndAddFeature(P) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: setParticipantAndAddFeature.
setParticipantAndAddFeature(P) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: setParticipantAndAddFeature.
setParticipantAndAddFeature(ModelledEntity) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidenceWrapper: Sets the participant and add this feature to its list of features.
setParticipantAndAddFeature(ModelledEntity) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureWrapper: Sets the participant and add this feature to its list of features.
setParticipantAndAddFeature(ModelledEntity) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidenceWrapper: Sets the participant and add this feature to its list of features.
setParticipantAndAddFeature(ModelledEntity) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureWrapper: Sets the participant and add this feature to its list of features.
setParticipantAndAddFeature(ModelledEntity) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidenceWrapper: Sets the participant and add this feature to its list of features.
setParticipantAndAddFeature(ModelledEntity) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureWrapper: Sets the participant and add this feature to its list of features.
setParticipantB(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: setParticipantB.
setParticipantB(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: setParticipantB.
setParticipantB(Participant) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: Sets the second participant of this interaction
setParticipantB(ParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: setParticipantB.
setParticipantB(T) - Method in interface psidev.psi.mi.jami.binary.BinaryInteraction: Sets the second participant of this interaction
setParticipantB(T) - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteraction: Setter for the field participantB.
setParticipantB(T) - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteractionWrapper: Setter for the field participantB.
setParticipantCandidateEnricher(CompositeEntityEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullExperimentalParticipantPoolEnricher: setParticipantCandidateEnricher.
setParticipantCandidateEnricher(CompositeEntityEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullExperimentalParticipantPoolUpdater: setParticipantCandidateEnricher.
setParticipantCandidateEnricher(CompositeEntityEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantPoolEnricher: setParticipantCandidateEnricher.
setParticipantCandidateEnricher(CompositeEntityEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantPoolUpdater: setParticipantCandidateEnricher.
setParticipantCandidateEnricher(CompositeEntityEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentalParticipantPoolEnricher: setParticipantCandidateEnricher.
setParticipantCandidateEnricher(CompositeEntityEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentalParticipantPoolUpdater: setParticipantCandidateEnricher.
setParticipantCandidateEnricher(CompositeEntityEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantPoolEnricher: setParticipantCandidateEnricher.
setParticipantCandidateEnricher(CompositeEntityEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantPoolUpdater: setParticipantCandidateEnricher.
setParticipantCandidateEnricher(CompositeEntityEnricher) - Method in interface psidev.psi.mi.jami.enricher.ParticipantPoolEnricher: setParticipantCandidateEnricher.
setParticipantCandidateWriter(PsiXmlElementWriter<ExperimentalParticipantCandidate>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlParticipantEvidenceWriter: Setter for the field participantCandidateWriter.
setParticipantCandidateWriter(PsiXmlElementWriter<ModelledParticipantCandidate>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledParticipantWriter: Setter for the field participantCandidateWriter.
setParticipantEnricher(ParticipantEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionEvidenceEnricher: setParticipantEnricher.
setParticipantEnricher(ParticipantEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullInteractionUpdater: setParticipantEnricher.
setParticipantEnricher(ParticipantEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullModelledInteractionEnricher: setParticipantEnricher.
setParticipantEnricher(ParticipantEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEnricher: setParticipantEnricher.
setParticipantEnricher(ParticipantEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalInteractionEvidenceUpdater: setParticipantEnricher.
setParticipantEnricher(ParticipantEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalModelledInteractionUpdater: setParticipantEnricher.
setParticipantEnricher(ParticipantEnricher) - Method in interface psidev.psi.mi.jami.enricher.InteractionEnricher: setParticipantEnricher.
setParticipantEnricherListener(EntityEnricherListener) - Method in interface psidev.psi.mi.jami.enricher.EntityEnricher: setParticipantEnricherListener.
setParticipantEnricherListener(EntityEnricherListener) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeEntityEnricher: setParticipantEnricherListener.
setParticipantEnricherListener(EntityEnricherListener) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeModelledParticipantEnricher: setParticipantEnricherListener.
setParticipantEnricherListener(EntityEnricherListener) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeParticipantEnricher: setParticipantEnricherListener.
setParticipantEnricherListener(EntityEnricherListener) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeParticipantEvidenceEnricher: setParticipantEnricherListener.
setParticipantEnricherListener(EntityEnricherListener) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullParticipantEvidenceUpdater: setParticipantEnricherListener.
setParticipantEnricherListener(EntityEnricherListener) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalEntityEnricher: setParticipantEnricherListener.
setParticipantEnricherListener(EntityEnricherListener) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEvidenceUpdater: setParticipantEnricherListener.
setParticipantIdentificationMethod(CvTerm) - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlExperiment: setParticipantIdentificationMethod.
setParticipantIdentificationMethod(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: setParticipantIdentificationMethod.
setParticipantIdentificationMethod(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: setParticipantIdentificationMethod.
setParticipantIdentificationMethod(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: setParticipantIdentificationMethod.
setParticipantIdentificationMethod(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: setParticipantIdentificationMethod.
setParticipantIdentificationMethod(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: setParticipantIdentificationMethod.
setParticipantIdentificationMethod(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: setParticipantIdentificationMethod.
setParticipants(List<AbstractInferredInteractionParticipant>) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractInferredInteraction
setParticipantWrapper(AbstractXmlInteraction.JAXBParticipantWrapper<T>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: setParticipantWrapper.
setParticipantWrapper(AbstractXmlInteraction.JAXBParticipantWrapper<T>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: setParticipantWrapper.
setParticipantWrapper(AbstractXmlInteraction.JAXBParticipantWrapper<T>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: setParticipantWrapper.
setParticipantWriter(JsonElementWriter) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionWriter: Setter for the field participantWriter.
setParticipantWriter(PsiXmlParticipantWriter) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: Setter for the field participantWriter.
setPhysicalProperties(String) - Method in interface psidev.psi.mi.jami.model.Complex: Sets the physical properties of this complex.
setPhysicalProperties(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: Sets the physical properties of this complex.
setPhysicalProperties(String) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: Sets the physical properties of this complex.
setPhysicalProperties(String) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: Sets the physical properties of this complex.
setPhysicalProperties(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: Sets the physical properties of this complex.
setPhysicalProperties(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: Sets the physical properties of this complex.
setPhysicalProperties(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: Sets the physical properties of this complex.
setPhysicalProperties(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: Sets the physical properties of this complex.
setPhysicalProperties(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: Sets the physical properties of this complex.
setPhysicalProperties(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: Sets the physical properties of this complex.
setPhysicalProperties(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: Sets the physical properties of this complex.
setPhysicalProperties(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: Sets the physical properties of this complex.
setPhysicalProperties(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: Sets the physical properties of this complex.
setPhysicalProperties(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: Sets the physical properties of this complex.
setPhysicalProperties(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: Sets the physical properties of this complex.
setPhysicalProperties(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: Sets the physical properties of this complex.
setPhysicalProperties(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: Sets the physical properties of this complex.
setPhysicalProperties(String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: Sets the physical properties of this complex.
setPhysicalProperties(String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: Sets the physical properties of this complex.
setPhysicalProperties(String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: Sets the physical properties of this complex.
setPolymerBaseEnricher(InteractorEnricher<Polymer>) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeInteractorEnricher: Setter for the field polymerBaseEnricher.
setPool(AbstractXmlParticipantPool<I, F, P>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant.JAXBInteractorCandidateWrapper
setPool(AbstractXmlParticipantPool<I, F, P>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant.JAXBInteractorCandidateWrapper
setPool(AbstractXmlParticipantPool<I, F, P>) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant.JAXBInteractorCandidateWrapper
setPoolComparator(ModelledParticipantPoolComparator) - Method in class psidev.psi.mi.jami.utils.comparator.participant.ModelledParticipantComparator: Setter for the field poolComparator.
setPoolEnricher(ParticipantPoolEnricher<ParticipantPool, Feature>) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeParticipantEnricher: Setter for the field poolEnricher.
setPoolEntityEnricher(ExperimentalParticipantPoolEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeParticipantEvidenceEnricher: Setter for the field poolEntityEnricher.
setPoolEntityEnricher(ParticipantPoolEnricher<ModelledParticipantPool, ModelledFeature>) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeModelledParticipantEnricher: Setter for the field poolEntityEnricher.
setPositions(Position, Position) - Method in class psidev.psi.mi.jami.model.impl.DefaultRange: Set the positions of the feature range in the interactor sequence
setPositions(Position, Position) - Method in interface psidev.psi.mi.jami.model.Range: Set the positions of the feature range in the interactor sequence
setPositions(Position, Position) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlRange: Set the positions of the feature range in the interactor sequence
setPositions(Position, Position) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlRange: Set the positions of the feature range in the interactor sequence
setPositions(Position, Position) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlRange: Set the positions of the feature range in the interactor sequence
setPostalAddress(String) - Method in class psidev.psi.mi.jami.bridges.ols.LazySource: Set the postal address
setPostalAddress(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultSource: Set the postal address
setPostalAddress(String) - Method in interface psidev.psi.mi.jami.model.Source: Set the postal address
setPostalAddress(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource: Set the postal address
setPostalAddress(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource: Set the postal address
setPostalAddress(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource: Set the postal address
setPreAssemblyWriter(PsiXmlElementWriter<Preassembly>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledInteractionWriter: Setter for the field preAssemblyWriter.
setPreAssemblyWriter(PsiXmlElementWriter<Preassembly>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlModelledInteractionWriter: Setter for the field preAssemblyWriter.
setPreferredName(String) - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.OntologyTermWrapper
setPriorityIdentifiers(boolean) - Method in class psidev.psi.mi.jami.bridges.mapper.mock.MockProteinMapper: Setter for the field priorityIdentifiers.
setPrioritySequence(boolean) - Method in class psidev.psi.mi.jami.bridges.mapper.mock.MockProteinMapper: Setter for the field prioritySequence.
setProteinEnricher(ProteinEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.CompositeInteractorEnricher: Setter for the field proteinEnricher.
setProteinId(String) - Method in class psidev.psi.mi.jami.model.ModelledComparableParticipant
setProteinMapper(ProteinMapper) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalProteinEnricher: setProteinMapper.
setProteinMapper(ProteinMapper) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalProteinUpdater: setProteinMapper.
setProteinMapper(ProteinMapper) - Method in interface psidev.psi.mi.jami.enricher.ProteinEnricher: setProteinMapper.
setPublication(Publication) - Method in class psidev.psi.mi.jami.bridges.ols.LazySource: Set the bibliographical reference
setPublication(Publication) - Method in interface psidev.psi.mi.jami.model.CooperativityEvidence: Set the publication where the cooperativityEvidence has been described.
setPublication(Publication) - Method in interface psidev.psi.mi.jami.model.Experiment: Set the publication where the experiment has been described.
setPublication(Publication) - Method in class psidev.psi.mi.jami.model.impl.DefaultCooperativityEvidence: Set the publication where the cooperativityEvidence has been described.
setPublication(Publication) - Method in class psidev.psi.mi.jami.model.impl.DefaultExperiment: Set the publication where the experiment has been described.
setPublication(Publication) - Method in class psidev.psi.mi.jami.model.impl.DefaultModelledConfidence: Sets the publication of this confidence
setPublication(Publication) - Method in class psidev.psi.mi.jami.model.impl.DefaultModelledParameter: Sets the publication of this parameter
setPublication(Publication) - Method in class psidev.psi.mi.jami.model.impl.DefaultSource: Set the bibliographical reference
setPublication(Publication) - Method in interface psidev.psi.mi.jami.model.ModelledConfidence: Sets the publication of this confidence
setPublication(Publication) - Method in interface psidev.psi.mi.jami.model.ModelledParameter: Sets the publication of this parameter
setPublication(Publication) - Method in interface psidev.psi.mi.jami.model.Source: Set the bibliographical reference
setPublication(Publication) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: Set the publication where the experiment has been described.
setPublication(Publication) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource: Set the bibliographical reference
setPublication(Publication) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.ExperimentXrefContainer: Setter for the field publication.
setPublication(Publication) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlConfidenceWrapper: Sets the publication of this confidence
setPublication(Publication) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlCooperativityEvidence: Set the publication where the cooperativityEvidence has been described.
setPublication(Publication) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledConfidence: Sets the publication of this confidence
setPublication(Publication) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParameter: Sets the publication of this parameter
setPublication(Publication) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParameterWrapper: Sets the publication of this parameter
setPublication(Publication) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: Set the publication where the experiment has been described.
setPublication(Publication) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource: Set the bibliographical reference
setPublication(Publication) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.ExperimentXrefContainer: Setter for the field publication.
setPublication(Publication) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlConfidenceWrapper: Sets the publication of this confidence
setPublication(Publication) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlCooperativityEvidence: Set the publication where the cooperativityEvidence has been described.
setPublication(Publication) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledConfidence: Sets the publication of this confidence
setPublication(Publication) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParameter: Sets the publication of this parameter
setPublication(Publication) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParameterWrapper: Sets the publication of this parameter
setPublication(Publication) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: Set the publication where the experiment has been described.
setPublication(Publication) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource: Set the bibliographical reference
setPublication(Publication) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.ExperimentXrefContainer: Setter for the field publication.
setPublication(Publication) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlConfidenceWrapper: Sets the publication of this confidence
setPublication(Publication) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCooperativityEvidence: Set the publication where the cooperativityEvidence has been described.
setPublication(Publication) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledConfidence: Sets the publication of this confidence
setPublication(Publication) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParameter: Sets the publication of this parameter
setPublication(Publication) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParameterWrapper: Sets the publication of this parameter
setPublication(Publication) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: Set the publication where the experiment has been described.
setPublication(Publication) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: Set the publication where the experiment has been described.
setPublication(Publication) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: Set the publication where the experiment has been described.
setPublicationAndAddExperiment(Publication) - Method in interface psidev.psi.mi.jami.model.Experiment: Set the publication where the experiment has been described and add the experiment to the list of experiments for this publication If publication is null, it will remove this experiment from the previous publication attached to this experiment
setPublicationAndAddExperiment(Publication) - Method in class psidev.psi.mi.jami.model.impl.DefaultExperiment: Set the publication where the experiment has been described and add the experiment to the list of experiments for this publication If publication is null, it will remove this experiment from the previous publication attached to this experiment
setPublicationAndAddExperiment(Publication) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: Set the publication where the experiment has been described and add the experiment to the list of experiments for this publication If publication is null, it will remove this experiment from the previous publication attached to this experiment
setPublicationAndAddExperiment(Publication) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: Set the publication where the experiment has been described and add the experiment to the list of experiments for this publication If publication is null, it will remove this experiment from the previous publication attached to this experiment
setPublicationAndAddExperiment(Publication) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: Set the publication where the experiment has been described and add the experiment to the list of experiments for this publication If publication is null, it will remove this experiment from the previous publication attached to this experiment
setPublicationAndAddExperiment(Publication) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: Set the publication where the experiment has been described and add the experiment to the list of experiments for this publication If publication is null, it will remove this experiment from the previous publication attached to this experiment
setPublicationAndAddExperiment(Publication) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: Set the publication where the experiment has been described and add the experiment to the list of experiments for this publication If publication is null, it will remove this experiment from the previous publication attached to this experiment
setPublicationAndAddExperiment(Publication) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: Set the publication where the experiment has been described and add the experiment to the list of experiments for this publication If publication is null, it will remove this experiment from the previous publication attached to this experiment
setPublicationDate(Date) - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: Set the date of publication.
setPublicationDate(Date) - Method in interface psidev.psi.mi.jami.model.Publication: Set the date of publication.
setPublicationDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: Set the date of publication.
setPublicationDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: Set the date of publication.
setPublicationDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: Set the date of publication.
setPublicationEnricher(PublicationEnricher) - Method in interface psidev.psi.mi.jami.enricher.ExperimentEnricher: setPublicationEnricher.
setPublicationEnricher(PublicationEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalExperimentEnricher: setPublicationEnricher.
setPublicationEnricher(PublicationEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalSourceEnricher: setPublicationEnricher.
setPublicationEnricher(PublicationEnricher) - Method in interface psidev.psi.mi.jami.enricher.SourceEnricher: setPublicationEnricher.
setPublicationEnricherListener(PublicationEnricherListener) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullCuratedPublicationUpdater: setPublicationEnricherListener.
setPublicationEnricherListener(PublicationEnricherListener) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullPublicationUpdater: setPublicationEnricherListener.
setPublicationEnricherListener(PublicationEnricherListener) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalCuratedPublicationEnricher: setPublicationEnricherListener.
setPublicationEnricherListener(PublicationEnricherListener) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalPublicationEnricher: setPublicationEnricherListener.
setPublicationEnricherListener(PublicationEnricherListener) - Method in interface psidev.psi.mi.jami.enricher.PublicationEnricher: setPublicationEnricherListener.
setPublicationRegister(ImexCentralPublicationRegister) - Method in class psidev.psi.mi.jami.imex.ImexPublicationAssigner: Setter for the field publicationRegister.
setPublicationRegister(ImexCentralPublicationRegister) - Method in class psidev.psi.mi.jami.imex.ImexPublicationRegister: Setter for the field publicationRegister.
setPublicationUpdater(ImexPublicationUpdater) - Method in class psidev.psi.mi.jami.imex.ImexPublicationAssigner: Setter for the field publicationUpdater.
setPublicationWriter(JsonElementWriter<Publication>) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonExperimentWriter: Setter for the field publicationWriter.
setPublicationWriter(PsiXmlElementWriter<Publication>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.AbstractXmlSourceWriter: Setter for the field publicationWriter.
setPublicationWriter(PsiXmlElementWriter<Publication>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlCooperativityEvidenceWriter: Setter for the field publicationWriter.
setPublicationWriter(PsiXmlPublicationWriter) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: Setter for the field publicationWriter.
setPublicationWriter(PsiXmlPublicationWriter) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlModelledConfidenceWriter: Setter for the field publicationWriter.
setPublicationWriter(PsiXmlPublicationWriter) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlModelledParameterWriter: Setter for the field publicationWriter.
setPubmedId(String) - Method in class psidev.psi.mi.jami.bridges.imex.extension.ImexPublication: Sets the pubmed identifier.
setPubmedId(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: Sets the pubmed identifier.
setPubmedId(String) - Method in interface psidev.psi.mi.jami.model.Publication: Sets the pubmed identifier.
setPubmedId(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: Sets the pubmed identifier.
setPubmedId(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.PublicationXrefContainer: Setter for the field pubmedId.
setPubmedId(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: Sets the pubmed identifier.
setPubmedId(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.PublicationXrefContainer: Setter for the field pubmedId.
setPubmedId(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: Sets the pubmed identifier.
setPubmedId(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.PublicationXrefContainer: Setter for the field pubmedId.
setQualifier(CvTerm) - Method in class psidev.psi.mi.jami.tab.extension.MitabXref: Setter for the field qualifier.
setRangeWriter(JsonRangeWriter) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonFeatureWriter: Setter for the field rangeWriter.
setRangeWriter(PsiXmlElementWriter<Range>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlFeatureWriter: Setter for the field rangeWriter.
setRecommendedName(String) - Method in interface psidev.psi.mi.jami.model.Complex: Sets the recommended name of this complex.
setRecommendedName(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: Sets the recommended name of this complex.
setRecommendedName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: Sets the recommended name of this complex.
setRecommendedName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: Sets the recommended name of this complex.
setRecommendedName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: Sets the recommended name of this complex.
setRecommendedName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.ComplexNamesContainer: Setter for the field recommendedName.
setRecommendedName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: Sets the recommended name of this complex.
setRecommendedName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: Sets the recommended name of this complex.
setRecommendedName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: Sets the recommended name of this complex.
setRecommendedName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: Sets the recommended name of this complex.
setRecommendedName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.ComplexNamesContainer: Setter for the field recommendedName.
setRecommendedName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: Sets the recommended name of this complex.
setRecommendedName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: Sets the recommended name of this complex.
setRecommendedName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: Sets the recommended name of this complex.
setRecommendedName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: Sets the recommended name of this complex.
setRecommendedName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.ComplexNamesContainer: Setter for the field recommendedName.
setRecommendedName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: Sets the recommended name of this complex.
setRecommendedName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: Sets the recommended name of this complex.
setRecommendedName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: Sets the recommended name of this complex.
setRecommendedName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: Sets the recommended name of this complex.
setRecommendedName(String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: Sets the recommended name of this complex.
setRecommendedName(String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: Sets the recommended name of this complex.
setRecommendedName(String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: Sets the recommended name of this complex.
setRefseq(String) - Method in interface psidev.psi.mi.jami.model.Gene: Sets the refseq accession.
setRefseq(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultGene: Sets the refseq accession.
setRefseq(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultNucleicAcid: Sets the Refseq identifier.
setRefseq(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultProtein: Sets the unique refseq identifier for this protein.
setRefseq(String) - Method in interface psidev.psi.mi.jami.model.NucleicAcid: Sets the Refseq identifier.
setRefseq(String) - Method in interface psidev.psi.mi.jami.model.Protein: Sets the unique refseq identifier for this protein.
setRelease(String) - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlSource: Sets the value of the release property.
setRelease(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource: Sets the value of the release property.
setRelease(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource: Sets the value of the release property.
setRelease(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource: Sets the value of the release property.
setReleaseDate(XMLGregorianCalendar) - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlSource: Sets the value of the releaseDate property.
setReleaseDate(XMLGregorianCalendar) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource: Sets the value of the releaseDate property.
setReleaseDate(XMLGregorianCalendar) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource: Sets the value of the releaseDate property.
setReleaseDate(XMLGregorianCalendar) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource: Sets the value of the releaseDate property.
setReleasedDate(Date) - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: Set the released date of the curated publication
setReleasedDate(Date) - Method in interface psidev.psi.mi.jami.model.Publication: Set the released date of the curated publication
setReleasedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: Set the released date of the curated publication
setReleasedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: Set the released date of the curated publication
setReleasedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: Set the released date of the curated publication
setRemappedTerm(String) - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.OntologyTermWrapper: Setter for the field remappedTerm.
setResponse(CvTerm) - Method in interface psidev.psi.mi.jami.model.CooperativeEffect: Sets the response.
setResponse(CvTerm) - Method in class psidev.psi.mi.jami.model.impl.DefaultCooperativeEffect: Sets the response.
setResponse(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect: Sets the response.
setResultingSequence(ResultingSequence) - Method in class psidev.psi.mi.jami.model.impl.DefaultRange: Sets the resultingSequence of this range object
setResultingSequence(ResultingSequence) - Method in interface psidev.psi.mi.jami.model.Range: Sets the resultingSequence of this range object
setResultingSequence(ResultingSequence) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlRange: Sets the resultingSequence of this range object
setResultingSequence(ResultingSequence) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlRange: Sets the resultingSequence of this range object
setResultingSequence(ResultingSequence) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlRange: Sets the resultingSequence of this range object
setResultingSequenceWriter(PsiXmlElementWriter<ResultingSequence>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlRangeWriter: Setter for the field resultingSequenceWriter.
setRetryCount(int) - Method in class psidev.psi.mi.jami.enricher.impl.AbstractInteractorEnricher: Setter for the field retryCount.
setRetryCount(int) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullCvTermUpdater: Setter for the field retryCount.
setRetryCount(int) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalCvTermEnricher: Setter for the field retryCount.
setRetryCount(int) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalOrganismEnricher: Setter for the field retryCount.
setRetryCount(int) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalPublicationEnricher: Setter for the field retryCount.
setRigid(String) - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteractionWrapper: Sets the rigid of this interaction.
setRigid(String) - Method in class psidev.psi.mi.jami.model.impl.AbstractInteraction: Sets the rigid of this interaction.
setRigid(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: Sets the rigid of this interaction.
setRigid(String) - Method in interface psidev.psi.mi.jami.model.Interaction: Sets the rigid of this interaction.
setRigid(String) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: Sets the rigid of this interaction.
setRigid(String) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: Sets the rigid of this interaction.
setRigid(String) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: Sets the rigid of this interaction.
setRigid(String) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: Sets the rigid of this interaction.
setRigid(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: Sets the rigid of this interaction.
setRigid(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: Sets the rigid of this interaction.
setRigid(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: Sets the rigid of this interaction.
setRigid(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: Sets the rigid of this interaction.
setRigid(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: Sets the rigid of this interaction.
setRigid(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: Sets the rigid of this interaction.
setRigid(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: Sets the rigid of this interaction.
setRigid(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: Sets the rigid of this interaction.
setRigid(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: Sets the rigid of this interaction.
setRigid(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: Sets the rigid of this interaction.
setRigid(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: Sets the rigid of this interaction.
setRigid(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: Sets the rigid of this interaction.
setRigid(String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: Sets the rigid of this interaction.
setRigid(String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: Sets the rigid of this interaction.
setRigid(String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: Sets the rigid of this interaction.
setRogid(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultProtein: Sets the rogid.
setRogid(String) - Method in interface psidev.psi.mi.jami.model.Protein: Sets the rogid.
setRole(CvTerm) - Method in interface psidev.psi.mi.jami.model.Feature: Sets the interaction effect/role for this feature.
setRole(CvTerm) - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature: Sets the interaction effect/role for this feature.
setRole(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: Sets the interaction effect/role for this feature.
setRole(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidenceWrapper: Sets the interaction effect/role for this feature.
setRole(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureWrapper: Sets the interaction effect/role for this feature.
setRole(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: Sets the interaction effect/role for this feature.
setRole(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidenceWrapper: Sets the interaction effect/role for this feature.
setRole(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureWrapper: Sets the interaction effect/role for this feature.
setRole(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: Sets the interaction effect/role for this feature.
setRole(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidenceWrapper: Sets the interaction effect/role for this feature.
setRole(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureWrapper: Sets the interaction effect/role for this feature.
setRole(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.reference.AbstractFeatureRef: Sets the interaction effect/role for this feature.
setSameObservations(Collection<ComplexComparisonEvent>) - Method in class psidev.psi.mi.jami.listener.comparator.observer.ComplexComparatorObserver
setScientificName(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultOrganism: Set the scientific name
setScientificName(String) - Method in interface psidev.psi.mi.jami.model.Organism: Set the scientific name
setScientificName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOrganism: Set the scientific name
setScientificName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOrganism: Set the scientific name
setScientificName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOrganism: Set the scientific name
setSecondary(String) - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlXref: setSecondary.
setSecondary(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlXref: setSecondary.
setSecondary(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlXref: setSecondary.
setSecondary(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlXref: setSecondary.
setSelectedDatabases(Map<DatabaseType, CvTerm>) - Method in class psidev.psi.mi.jami.bridges.uniprot.UniprotProteinFetcher: Setter for the field selectedDatabases.
setSequence(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultPolymer: Sets the sequence of the polymer.
setSequence(String) - Method in interface psidev.psi.mi.jami.model.Polymer: Sets the sequence of the polymer.
setSequence(String) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: Sets the value of the sequence property.
setSequence(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractor: Sets the value of the sequence property.
setSequence(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPolymer: Sets the value of the sequence property.
setSequence(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractor: Sets the value of the sequence property.
setSequence(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPolymer: Sets the value of the sequence property.
setSequence(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractor: Sets the value of the sequence property.
setSequence(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPolymer: Sets the value of the sequence property.
setSequence(Sequence) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Entry: Sets the value of the sequence property.
setShortLabel(String) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractNamesContainer: Sets the value of the shortLabel property.
setShortLabel(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.NamesContainer: Sets the value of the shortLabel property.
setShortLabel(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.NamesContainer: Sets the value of the shortLabel property.
setShortLabel(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.NamesContainer: Sets the value of the shortLabel property.
setShortName(String) - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteractionWrapper: Sets the short name of the interaction
setShortName(String) - Method in class psidev.psi.mi.jami.bridges.ols.LazyCvTerm: Set the short name
setShortName(String) - Method in interface psidev.psi.mi.jami.model.CvTerm: Set the short name
setShortName(String) - Method in interface psidev.psi.mi.jami.model.Feature: Sets the short name of the feature
setShortName(String) - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature: Sets the short name of the feature
setShortName(String) - Method in class psidev.psi.mi.jami.model.impl.AbstractInteraction: Sets the short name of the interaction
setShortName(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultCvTerm: Set the short name
setShortName(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractor: Sets the short name of an interactor
setShortName(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultNamedExperiment: Sets the short name of an experiment
setShortName(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultNamedModelledParticipant: Sets the short name of an entity
setShortName(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultNamedParticipant: Sets the short name of an entity
setShortName(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultNamedParticipantEvidence: Sets the short name of an entity
setShortName(String) - Method in interface psidev.psi.mi.jami.model.Interaction: Sets the short name of the interaction
setShortName(String) - Method in interface psidev.psi.mi.jami.model.Interactor: Sets the short name of an interactor
setShortName(String) - Method in interface psidev.psi.mi.jami.model.NamedExperiment: Sets the short name of an experiment
setShortName(String) - Method in interface psidev.psi.mi.jami.model.NamedParticipant: Sets the short name of an entity
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: Sets the short name of an interactor
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: Sets the short name of the interaction
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: Sets the short name of the interaction
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: Sets the short name of the interaction
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: Sets the short name of the interaction
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm: Set the short name
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: Sets the short name of an experiment
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: Sets the short name of the feature
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: Sets the short name of the interaction
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant: Sets the short name of an entity
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: Sets the short name of an entity
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: Sets the short name of an interactor
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidenceWrapper: Sets the short name of the feature
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureWrapper: Sets the short name of the feature
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: Sets the short name of an interactor
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: Sets the short name of an interactor
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: Sets the short name of an entity
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: Sets the short name of an entity
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm: Set the short name
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: Sets the short name of an experiment
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: Sets the short name of the feature
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: Sets the short name of the interaction
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant: Sets the short name of an entity
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: Sets the short name of an entity
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: Sets the short name of an interactor
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidenceWrapper: Sets the short name of the feature
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureWrapper: Sets the short name of the feature
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: Sets the short name of an interactor
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: Sets the short name of an interactor
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: Sets the short name of an entity
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: Sets the short name of an entity
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm: Set the short name
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: Sets the short name of an experiment
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: Sets the short name of the feature
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: Sets the short name of the interaction
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant: Sets the short name of an entity
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: Sets the short name of an entity
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: Sets the short name of an interactor
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidenceWrapper: Sets the short name of the feature
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureWrapper: Sets the short name of the feature
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: Sets the short name of an interactor
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: Sets the short name of an interactor
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: Sets the short name of an entity
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: Sets the short name of an entity
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.reference.AbstractFeatureRef: Sets the short name of the feature
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: Sets the short name of an experiment
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractInteractorRef: Sets the short name of an interactor
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractParticipantRef: Sets the short name of an entity
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: Sets the short name of an experiment
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractInteractorRef: Sets the short name of an interactor
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractParticipantRef: Sets the short name of an entity
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: Sets the short name of an experiment
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractInteractorRef: Sets the short name of an interactor
setShortName(String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractParticipantRef: Sets the short name of an entity
setSmile(String) - Method in interface psidev.psi.mi.jami.model.BioactiveEntity: Sets the smile of this small molecule.
setSmile(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: Sets the smile of this small molecule.
setSocketTimeout(int) - Method in class psidev.psi.mi.jami.bridges.unisave.UnisaveClient: Setter for the field socketTimeout.
setSource(Source) - Method in class psidev.psi.mi.jami.binary.impl.DefaultModelledBinaryInteraction: Sets the source reporting the interaction.
setSource(Source) - Method in class psidev.psi.mi.jami.binary.impl.ModelledBinaryInteractionWrapper: Sets the source reporting the interaction.
setSource(Source) - Method in class psidev.psi.mi.jami.bridges.imex.extension.ImexPublication: Sets the source who curated the publication.
setSource(Source) - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: Sets the source reporting the interaction.
setSource(Source) - Method in class psidev.psi.mi.jami.model.impl.DefaultModelledInteraction: Sets the source reporting the interaction.
setSource(Source) - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: Sets the source who curated the publication.
setSource(Source) - Method in interface psidev.psi.mi.jami.model.ModelledInteraction: Sets the source reporting the interaction.
setSource(Source) - Method in interface psidev.psi.mi.jami.model.Publication: Sets the source who curated the publication.
setSource(Source) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: Sets the source reporting the interaction.
setSource(Source) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: Sets the source reporting the interaction.
setSource(Source) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteraction: Sets the source reporting the interaction.
setSource(Source) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: Sets the source reporting the interaction.
setSource(Source) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction: Sets the source reporting the interaction.
setSource(Source) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: Sets the source who curated the publication.
setSource(Source) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: Sets the source reporting the interaction.
setSource(Source) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: Sets the source reporting the interaction.
setSource(Source) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: Sets the source reporting the interaction.
setSource(Source) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction: Sets the source reporting the interaction.
setSource(Source) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: Sets the source who curated the publication.
setSource(Source) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: Sets the source reporting the interaction.
setSource(Source) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: Sets the source reporting the interaction.
setSource(Source) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: Sets the source reporting the interaction.
setSource(Source) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction: Sets the source reporting the interaction.
setSource(Source) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: Sets the source who curated the publication.
setSource(Source) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: Sets the source reporting the interaction.
setSource(Source) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: Sets the source reporting the interaction.
setSource(Source) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: Sets the source reporting the interaction.
setSource(Source) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: Sets the source reporting the interaction.
setSource(Source) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: Sets the source reporting the interaction.
setSource(Source) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: Sets the source reporting the interaction.
setSource(Source) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: Sets the source reporting the interaction.
setSource(ExtendedPsiXmlSource) - Method in class psidev.psi.mi.jami.xml.model.Entry: Setter for the field source.
setSourceEnricher(SourceEnricher) - Method in interface psidev.psi.mi.jami.enricher.CuratedPublicationEnricher: setSourceEnricher.
setSourceEnricher(SourceEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.full.FullCuratedPublicationUpdater: setSourceEnricher.
setSourceEnricher(SourceEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalCuratedPublicationEnricher: setSourceEnricher.
setSourceEnricher(SourceEnricher) - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalModelledInteractionEnricher: setSourceEnricher.
setSourceEnricher(SourceEnricher) - Method in interface psidev.psi.mi.jami.enricher.ModelledInteractionEnricher: setSourceEnricher.
setSourceLocation(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: setSourceLocation.
setSourceLocation(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractXmlVariableParameterValue: setSourceLocation.
setSourceLocation(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlResultingSequence: setSourceLocation.
setSourceLocation(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlStoichiometryRange: setSourceLocation.
setSourceLocation(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameter: setSourceLocation.
setSourceLocation(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlResultingSequence: setSourceLocation.
setSourceLocation(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlStoichiometryRange: setSourceLocation.
setSourceLocation(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameter: setSourceLocation.
setSourceLocation(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect: setSourceLocation.
setSourceLocation(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCausalRelationship: setSourceLocation.
setSourceLocation(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCooperativityEvidence: setSourceLocation.
setSourceLocation(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlResultingSequence: setSourceLocation.
setSourceLocation(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlStoichiometryRange: setSourceLocation.
setSourceLocation(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameter: setSourceLocation.
setSourceLocation(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameterValueSet: setSourceLocation.
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.crosslink.extension.CsvBinaryInteractionEvidence: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.crosslink.extension.CsvExperimentalParticipantCandidate: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.crosslink.extension.CsvExperimentalParticipantPool: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.crosslink.extension.CsvFeatureEvidence: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.crosslink.extension.CsvInteractionEvidence: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.crosslink.extension.CsvParticipantEvidence: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.crosslink.extension.CsvProtein: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.crosslink.extension.CsvRange: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.crosslink.extension.CsvXref: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.datasource.DefaultFileSourceContext: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in interface psidev.psi.mi.jami.datasource.FileSourceContext: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.DefaultMitabFeature: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabAlias: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabAnnotation: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabAuthor: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabBinaryInteraction: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabBinaryInteractionEvidence: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabBioactiveEntity: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabCausalRelationship: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabChecksum: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabComplex: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabConfidence: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabCvTerm: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabDate: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabExperiment: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabFeatureEvidence: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabGene: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabInteraction: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabInteractionEvidence: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabInteractor: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabInteractorPool: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabModelledBinaryInteraction: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabModelledFeature: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabModelledInteraction: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabModelledParticipant: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabMolecule: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabNucleicAcid: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabOrganism: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabParameter: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabParticipant: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabParticipantEvidence: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabPolymer: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabProtein: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabPublication: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabRange: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabSource: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabStoichiometry: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.tab.extension.MitabXref: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.AbstractBaseEntry.AbstractJAXBAnnotationsWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.AbstractBaseEntry.AbstractJAXBInteractionsWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.AbstractBaseEntry.AbstractJAXBInteractorsWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.AbstractBaseEntry: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.AbstractEntrySet: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractAvailability: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor.AbstractJAXBAttributeWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractExperimentalInteractor.AbstractJAXBExperimentRefWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractExperimentalInteractor: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractInferredInteraction.AbstractJAXBExperimentRefWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractInferredInteraction: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractInferredInteractionParticipant: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractNamesContainer: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractXmlVariableParameterValue: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractExtendedXmlBinaryInteraction: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteraction: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlAnnotation: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlConfidence: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm.JAXBAttributeWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity.JAXBFeatureWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment.JAXBAttributeWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment.JAXBConfidenceWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment.JAXBHostOrganismWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment.JAXBVariableParameterWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature.JAXBAttributeWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature.JAXBRangeWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction.JAXBAttributeWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction.JAXBParticipantWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence.JAXBConfidenceWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence.JAXBExperimentWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence.JAXBParameterWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction.JAXBConfidenceWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction.JAXBExperimentWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction.JAXBParameterWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParameter: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant.JAXBAttributeWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant.JAXBInteractorCandidateWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlPosition: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef.JAXBAttributeWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.ExperimentalCvTerm.JAXBExperimentRefWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.HostOrganism.JAXBExperimentRefWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAlias: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAllostery: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBioactiveEntity: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlConfidence.JAXBExperimentRefWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlCooperativityEvidence: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidateWrapper: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence.JAXBExperimentRefWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence.JAXBParameterWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidenceWrapper: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureModificationEffector: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureWrapper: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlGene: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlMoleculeEffector: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlNucleicAcid: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOrganism: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantCandidateWrapper: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBConfidenceWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBExperimentalInteractorWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBExperimentalPreparationWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBExperimentalRoleWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBHostOrganismWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBParameterWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBParticipantIdentificationWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPreAssembly: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlProtein: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlRange: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlResultingSequence: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlStoichiometryRange: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameter.JAXBVariableValueWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameter: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlXref.JAXBAttributeWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlXref: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XrefContainer: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlAnnotation: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlConfidence: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm.JAXBAttributeWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity.JAXBFeatureWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment.JAXBAttributeWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment.JAXBConfidenceWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment.JAXBHostOrganismWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment.JAXBVariableParameterWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature.JAXBAttributeWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature.JAXBRangeWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction.JAXBAttributeWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction.JAXBParticipantWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence.JAXBConfidenceWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence.JAXBExperimentWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence.JAXBParameterWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction.JAXBConfidenceWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction.JAXBExperimentWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction.JAXBParameterWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParameter: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant.JAXBAttributeWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant.JAXBInteractorCandidateWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlPosition: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef.JAXBAttributeWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.ExperimentalCvTerm.JAXBExperimentRefWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.HostOrganism.JAXBExperimentRefWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAlias: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAllostery: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBioactiveEntity: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlConfidence.JAXBExperimentRefWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlCooperativityEvidence: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidateWrapper: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence.JAXBExperimentRefWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence.JAXBParameterWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidenceWrapper: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureModificationEffector: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureWrapper: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlGene: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlMoleculeEffector: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlNucleicAcid: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOrganism: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantCandidateWrapper: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBConfidenceWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBExperimentalInteractorWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBExperimentalPreparationWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBExperimentalRoleWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBHostOrganismWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBParameterWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBParticipantIdentificationWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPreAssembly: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlProtein: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlRange: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlResultingSequence: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlStoichiometryRange: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameter.JAXBVariableValueWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameter: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlXref.JAXBAttributeWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlXref: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XrefContainer: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlAnnotation: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlConfidence: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect.JAXBAffectedInteractionRefWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect.JAXBAttributeWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect.JAXBCooperativityEvidenceWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm.JAXBAttributeWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity.JAXBFeatureWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment.JAXBAttributeWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment.JAXBConfidenceWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment.JAXBHostOrganismWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment.JAXBVariableParameterWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature.JAXBAttributeWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature.JAXBRangeWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction.JAXBAttributeWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction.JAXBParticipantWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence.JAXBConfidenceWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence.JAXBExperimentWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence.JAXBParameterWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction.JAXBConfidenceWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction.JAXBExperimentWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction.JAXBParameterWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParameter: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant.JAXBAttributeWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant.JAXBInteractorCandidateWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlPosition: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef.JAXBAttributeWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BindingFeatures: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.ExperimentalCvTerm.JAXBExperimentRefWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.HostOrganism.JAXBExperimentRefWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAlias: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBioactiveEntity: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCausalRelationship: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlConfidence.JAXBExperimentRefWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCooperativityEvidence.JAXBEvidenceMethodWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCooperativityEvidence: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidateWrapper: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence.JAXBExperimentRefWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence.JAXBParameterWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidenceWrapper: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureModificationEffector: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureWrapper: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlGene: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidence.JAXBCausalRelationshipWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidence.JAXBExperimentWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidence.JAXBVariableParameterValueSetWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBBindingFeaturesWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBCausalRelationshipWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBConfidenceWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBCooperativeEffectWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBParameterWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlMoleculeEffector: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlNucleicAcid: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOrganism: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantCandidateWrapper: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBConfidenceWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBExperimentalInteractorWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBExperimentalPreparationWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBExperimentalRoleWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBHostOrganismWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBParameterWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBParticipantIdentificationWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlProtein: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlRange: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlResultingSequence: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlStoichiometryRange: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameter.JAXBVariableValueWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameter: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameterValueSet: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlXref.JAXBAttributeWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlXref: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XrefContainer: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.XmlChecksum: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.XmlStoichiometry: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.xml253.BasicEntry: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.xml253.ComplexEntry.JAXBExperimentsWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.xml253.ComplexEntry: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.xml253.ExperimentalEntry.JAXBAvailabilitiesWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.xml253.ExperimentalEntry.JAXBExperimentsWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.xml253.ExperimentalEntry: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.xml253.ModelledEntry.JAXBExperimentsWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.xml253.ModelledEntry: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.xml254.BasicEntry: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.xml254.ComplexEntry.JAXBExperimentsWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.xml254.ComplexEntry: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.xml254.ExperimentalEntry.JAXBAvailabilitiesWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.xml254.ExperimentalEntry.JAXBExperimentsWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.xml254.ExperimentalEntry: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.xml254.ModelledEntry.JAXBExperimentsWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.xml254.ModelledEntry: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.xml30.BasicEntry: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.xml30.ComplexEntry.JAXBExperimentsWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.xml30.ComplexEntry: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.xml30.Entry.JAXBAvailabilitiesWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.xml30.Entry.JAXBExperimentsWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.xml30.Entry: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.xml30.ExperimentalEntry.JAXBAvailabilitiesWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.xml30.ExperimentalEntry.JAXBExperimentsWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.xml30.ExperimentalEntry: Sets the source locator
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.xml30.ModelledEntry.JAXBExperimentsWrapper
setSourceLocator(FileSourceLocator) - Method in class psidev.psi.mi.jami.xml.model.xml30.ModelledEntry: Sets the source locator
setSourceLocator(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAllostery: Setter for the field sourceLocator.
setSourceLocator(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBioactiveEntity: Setter for the field sourceLocator.
setSourceLocator(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlCooperativityEvidence: Setter for the field sourceLocator.
setSourceLocator(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureModificationEffector: Setter for the field sourceLocator.
setSourceLocator(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlGene: Setter for the field sourceLocator.
setSourceLocator(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlMoleculeEffector: Setter for the field sourceLocator.
setSourceLocator(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlNucleicAcid: Setter for the field sourceLocator.
setSourceLocator(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPreAssembly: Setter for the field sourceLocator.
setSourceLocator(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlProtein: Setter for the field sourceLocator.
setSourceLocator(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAllostery: Setter for the field sourceLocator.
setSourceLocator(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBioactiveEntity: Setter for the field sourceLocator.
setSourceLocator(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlCooperativityEvidence: Setter for the field sourceLocator.
setSourceLocator(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureModificationEffector: Setter for the field sourceLocator.
setSourceLocator(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlGene: Setter for the field sourceLocator.
setSourceLocator(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlMoleculeEffector: Setter for the field sourceLocator.
setSourceLocator(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlNucleicAcid: Setter for the field sourceLocator.
setSourceLocator(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPreAssembly: Setter for the field sourceLocator.
setSourceLocator(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlProtein: Setter for the field sourceLocator.
setSourceLocator(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBioactiveEntity: Setter for the field sourceLocator.
setSourceLocator(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureModificationEffector: Setter for the field sourceLocator.
setSourceLocator(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlGene: Setter for the field sourceLocator.
setSourceLocator(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlMoleculeEffector: Setter for the field sourceLocator.
setSourceLocator(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlNucleicAcid: Setter for the field sourceLocator.
setSourceLocator(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlProtein: Setter for the field sourceLocator.
setSourceLocator(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.XmlChecksum: Setter for the field sourceLocator.
setSourceLocator(PsiXmlLocator) - Method in class psidev.psi.mi.jami.xml.model.extension.XmlStoichiometry: Setter for the field sourceLocator.
setSourceWriter(PsiXmlSourceWriter) - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Setter for the field sourceWriter.
setSourceWriter(PsiXmlSourceWriter) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlMixWriter: Setter for the field sourceWriter.
setSourceWriter(PsiXmlSourceWriter) - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlMixWriter: Setter for the field sourceWriter.
setStandardInchi(String) - Method in interface psidev.psi.mi.jami.model.BioactiveEntity: Sets the standard InChI.
setStandardInchi(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: Sets the standard InChI.
setStandardInchiKey(String) - Method in interface psidev.psi.mi.jami.model.BioactiveEntity: Sets the standard InChI key .
setStandardInchiKey(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity: Sets the standard InChI key .
setStart(int) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.LocationType: Sets the value of the start property.
setStarted(boolean) - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitab25BinaryWriter: setStarted.
setStarted(boolean) - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitabWriter: setStarted.
setStarted(boolean) - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Setter for the field started.
setStartPositionWriter(PsiXmlElementWriter<Position>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlRangeWriter: Setter for the field startPositionWriter.
setStatus(PublicationStatus) - Method in class psidev.psi.mi.jami.bridges.imex.extension.ImexPublication: Setter for the field status.
setStatusSynchronizer(PublicationStatusSynchronizer) - Method in class psidev.psi.mi.jami.imex.ImexPublicationRegister: Setter for the field statusSynchronizer.
setStatusSynchronizer(PublicationStatusSynchronizer) - Method in class psidev.psi.mi.jami.imex.ImexPublicationUpdater: Setter for the field statusSynchronizer.
setStatusWriter(PsiXmlVariableNameWriter<CvTerm>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlPositionWriter: Setter for the field statusWriter.
setStoichiometry(int) - Method in class psidev.psi.mi.jami.model.ModelledComparableParticipant
setStoichiometry(Integer) - Method in interface psidev.psi.mi.jami.model.Entity: Sets the mean stoichiometry for this participant.
setStoichiometry(Integer) - Method in class psidev.psi.mi.jami.model.impl.AbstractEntity: Sets the mean stoichiometry for this participant.
setStoichiometry(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity: Sets the mean stoichiometry for this participant.
setStoichiometry(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant: Sets the mean stoichiometry for this participant.
setStoichiometry(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: Sets the mean stoichiometry for this participant.
setStoichiometry(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidateWrapper: Sets the mean stoichiometry for this participant.
setStoichiometry(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantCandidateWrapper: Sets the mean stoichiometry for this participant.
setStoichiometry(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: Sets the mean stoichiometry for this participant.
setStoichiometry(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: Sets the mean stoichiometry for this participant.
setStoichiometry(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity: Sets the mean stoichiometry for this participant.
setStoichiometry(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant: Sets the mean stoichiometry for this participant.
setStoichiometry(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: Sets the mean stoichiometry for this participant.
setStoichiometry(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidateWrapper: Sets the mean stoichiometry for this participant.
setStoichiometry(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantCandidateWrapper: Sets the mean stoichiometry for this participant.
setStoichiometry(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: Sets the mean stoichiometry for this participant.
setStoichiometry(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: Sets the mean stoichiometry for this participant.
setStoichiometry(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity: Sets the mean stoichiometry for this participant.
setStoichiometry(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant: Sets the mean stoichiometry for this participant.
setStoichiometry(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: Sets the mean stoichiometry for this participant.
setStoichiometry(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidateWrapper: Sets the mean stoichiometry for this participant.
setStoichiometry(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantCandidateWrapper: Sets the mean stoichiometry for this participant.
setStoichiometry(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: Sets the mean stoichiometry for this participant.
setStoichiometry(Integer) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: Sets the mean stoichiometry for this participant.
setStoichiometry(Integer) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractEntityRef: Sets the mean stoichiometry for this participant.
setStoichiometry(Integer) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractParticipantRef: Sets the mean stoichiometry for this participant.
setStoichiometry(Integer) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractEntityRef: Sets the mean stoichiometry for this participant.
setStoichiometry(Integer) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractParticipantRef: Sets the mean stoichiometry for this participant.
setStoichiometry(Integer) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractEntityRef: Sets the mean stoichiometry for this participant.
setStoichiometry(Integer) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractParticipantRef: Sets the mean stoichiometry for this participant.
setStoichiometry(Stoichiometry) - Method in interface psidev.psi.mi.jami.model.Entity: Sets the stoichiometry for this participant.
setStoichiometry(Stoichiometry) - Method in class psidev.psi.mi.jami.model.impl.AbstractEntity: Setter for the field stoichiometry.
setStoichiometry(Stoichiometry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity: Setter for the field stoichiometry.
setStoichiometry(Stoichiometry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant: Setter for the field stoichiometry.
setStoichiometry(Stoichiometry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: Sets the stoichiometry for this participant.
setStoichiometry(Stoichiometry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidateWrapper: Sets the stoichiometry for this participant.
setStoichiometry(Stoichiometry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantCandidateWrapper: Sets the stoichiometry for this participant.
setStoichiometry(Stoichiometry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: Sets the stoichiometry for this participant.
setStoichiometry(Stoichiometry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: Sets the stoichiometry for this participant.
setStoichiometry(Stoichiometry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity: Setter for the field stoichiometry.
setStoichiometry(Stoichiometry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant: Setter for the field stoichiometry.
setStoichiometry(Stoichiometry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: Sets the stoichiometry for this participant.
setStoichiometry(Stoichiometry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidateWrapper: Sets the stoichiometry for this participant.
setStoichiometry(Stoichiometry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantCandidateWrapper: Sets the stoichiometry for this participant.
setStoichiometry(Stoichiometry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: Sets the stoichiometry for this participant.
setStoichiometry(Stoichiometry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: Sets the stoichiometry for this participant.
setStoichiometry(Stoichiometry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity: Setter for the field stoichiometry.
setStoichiometry(Stoichiometry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant: Setter for the field stoichiometry.
setStoichiometry(Stoichiometry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: Sets the stoichiometry for this participant.
setStoichiometry(Stoichiometry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidateWrapper: Sets the stoichiometry for this participant.
setStoichiometry(Stoichiometry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantCandidateWrapper: Sets the stoichiometry for this participant.
setStoichiometry(Stoichiometry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: Sets the stoichiometry for this participant.
setStoichiometry(Stoichiometry) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: Sets the stoichiometry for this participant.
setStoichiometry(Stoichiometry) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractEntityRef: setStoichiometry.
setStoichiometry(Stoichiometry) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractParticipantRef: setStoichiometry.
setStoichiometry(Stoichiometry) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractEntityRef: setStoichiometry.
setStoichiometry(Stoichiometry) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractParticipantRef: setStoichiometry.
setStoichiometry(Stoichiometry) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractEntityRef: setStoichiometry.
setStoichiometry(Stoichiometry) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractParticipantRef: setStoichiometry.
setStoichiometryWriter(JsonElementWriter<Stoichiometry>) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonParticipantWriter: Setter for the field stoichiometryWriter.
setStoichiometryWriter(PsiXmlElementWriter<Stoichiometry>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledParticipantWriter: Setter for the field stoichiometryWriter.
setStoichiometryWriter(PsiXmlElementWriter<Stoichiometry>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlParticipantEvidenceWriter: Setter for the field stoichiometryWriter.
setSubWritersFactory(PsiXmlElementWriterFactory) - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Setter for the field subWritersFactory.
setSystematicName(String) - Method in interface psidev.psi.mi.jami.model.Complex: Sets the systematic name of this complex.
setSystematicName(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: Sets the systematic name of this complex.
setSystematicName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: Sets the systematic name of this complex.
setSystematicName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: Sets the systematic name of this complex.
setSystematicName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: Sets the systematic name of this complex.
setSystematicName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.ComplexNamesContainer: Setter for the field systematicName.
setSystematicName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: Sets the systematic name of this complex.
setSystematicName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: Sets the systematic name of this complex.
setSystematicName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: Sets the systematic name of this complex.
setSystematicName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: Sets the systematic name of this complex.
setSystematicName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.ComplexNamesContainer: Setter for the field systematicName.
setSystematicName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: Sets the systematic name of this complex.
setSystematicName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: Sets the systematic name of this complex.
setSystematicName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: Sets the systematic name of this complex.
setSystematicName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: Sets the systematic name of this complex.
setSystematicName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.ComplexNamesContainer: Setter for the field systematicName.
setSystematicName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: Sets the systematic name of this complex.
setSystematicName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: Sets the systematic name of this complex.
setSystematicName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: Sets the systematic name of this complex.
setSystematicName(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: Sets the systematic name of this complex.
setSystematicName(String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: Sets the systematic name of this complex.
setSystematicName(String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: Sets the systematic name of this complex.
setSystematicName(String) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: Sets the systematic name of this complex.
setTabSize(int) - Method in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream
setTabSize(int) - Method in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Setter for the field tabSize.
setTaxId(int) - Method in class psidev.psi.mi.jami.model.impl.DefaultOrganism: Sets the taxonomy identifier of the organism.
setTaxId(int) - Method in interface psidev.psi.mi.jami.model.Organism: Sets the taxonomy identifier of the organism.
setTaxId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOrganism: Sets the taxonomy identifier of the organism.
setTaxId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOrganism: Sets the taxonomy identifier of the organism.
setTaxId(int) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOrganism: Sets the taxonomy identifier of the organism.
setTermAccession(String) - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.OntologyTermWrapper
setText(String) - Method in class psidev.psi.mi.jami.tab.extension.DefaultMitabFeature: setText.
setText(String) - Method in interface psidev.psi.mi.jami.tab.extension.MitabFeature: setText.
setText(String) - Method in class psidev.psi.mi.jami.tab.extension.MitabFeatureEvidence: setText.
setText(String) - Method in class psidev.psi.mi.jami.tab.extension.MitabModelledFeature: setText.
setTimeOut(float) - Method in class psidev.psi.mi.jami.enricher.util.diff.DiffCalculator: setTimeOut.
setTissue(CvTerm) - Method in class psidev.psi.mi.jami.model.impl.DefaultOrganism: Sets the tissue
setTissue(CvTerm) - Method in interface psidev.psi.mi.jami.model.Organism: Sets the tissue
setTissue(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOrganism: Sets the tissue
setTissue(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOrganism: Sets the tissue
setTissue(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOrganism: Sets the tissue
setTitle(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication: Set the publication title
setTitle(String) - Method in interface psidev.psi.mi.jami.model.Publication: Set the publication title
setTitle(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: Set the publication title
setTitle(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: Set the publication title
setTitle(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: Set the publication title
setType(String) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.DbReferenceType: Sets the value of the type property.
setType(String) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.PropertyType: Sets the value of the type property.
setType(CvTerm) - Method in interface psidev.psi.mi.jami.model.Feature: Sets the feature type.
setType(CvTerm) - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature: Sets the feature type.
setType(CvTerm) - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipantPool: Sets the pool type for this participant pool If the given type is null, this method automatically sets the interactor type to 'molecule set' (MI:1304)
setType(CvTerm) - Method in interface psidev.psi.mi.jami.model.ParticipantPool: Sets the pool type for this participant pool If the given type is null, this method automatically sets the interactor type to 'molecule set' (MI:1304)
setType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: Sets the feature type.
setType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: Sets the pool type for this participant pool If the given type is null, this method automatically sets the interactor type to 'molecule set' (MI:1304)
setType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantPoolWrapper: Sets the pool type for this participant pool If the given type is null, this method automatically sets the interactor type to 'molecule set' (MI:1304)
setType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidenceWrapper: Sets the feature type.
setType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureWrapper: Sets the feature type.
setType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantPoolWrapper: Sets the pool type for this participant pool If the given type is null, this method automatically sets the interactor type to 'molecule set' (MI:1304)
setType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: Sets the feature type.
setType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: Sets the pool type for this participant pool If the given type is null, this method automatically sets the interactor type to 'molecule set' (MI:1304)
setType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantPoolWrapper: Sets the pool type for this participant pool If the given type is null, this method automatically sets the interactor type to 'molecule set' (MI:1304)
setType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidenceWrapper: Sets the feature type.
setType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureWrapper: Sets the feature type.
setType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantPoolWrapper: Sets the pool type for this participant pool If the given type is null, this method automatically sets the interactor type to 'molecule set' (MI:1304)
setType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: Sets the feature type.
setType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: Sets the pool type for this participant pool If the given type is null, this method automatically sets the interactor type to 'molecule set' (MI:1304)
setType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantPoolWrapper: Sets the pool type for this participant pool If the given type is null, this method automatically sets the interactor type to 'molecule set' (MI:1304)
setType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidenceWrapper: Sets the feature type.
setType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureWrapper: Sets the feature type.
setType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantPoolWrapper: Sets the pool type for this participant pool If the given type is null, this method automatically sets the interactor type to 'molecule set' (MI:1304)
setType(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.reference.AbstractFeatureRef: Sets the feature type.
setTypeWriter(PsiXmlVariableNameWriter<CvTerm>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml253.XmlConfidenceWriter: Setter for the field typeWriter.
setTypeWriter(PsiXmlVariableNameWriter<CvTerm>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml254.XmlConfidenceWriter: Setter for the field typeWriter.
setTypeWriter(PsiXmlVariableNameWriter<CvTerm>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlConfidenceWriter: Setter for the field typeWriter.
setTypeWriter(PsiXmlVariableNameWriter<CvTerm>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlConfidenceWriter: Setter for the field typeWriter.
setUniprotkb(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultProtein: Sets the uniprot accession for this protein.
setUniprotkb(String) - Method in interface psidev.psi.mi.jami.model.Protein: Sets the uniprot accession for this protein.
setUniProtKBExclusion(String) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Entry: Sets the value of the uniProtKBExclusion property.
setUnit(CvTerm) - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameter: Sets the unit of this variableParameter.
setUnit(CvTerm) - Method in interface psidev.psi.mi.jami.model.VariableParameter: Sets the unit of this variableParameter.
setUnit(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameter: Sets the unit of this variableParameter.
setUnit(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameter: Sets the unit of this variableParameter.
setUnit(CvTerm) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameter: Sets the unit of this variableParameter.
setUnitAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParameter: Sets the value of the unitAc property.
setUnitAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParameter: Sets the value of the unitAc property.
setUnitAc(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParameter: Sets the value of the unitAc property.
setUnitWriter(PsiXmlVariableNameWriter<CvTerm>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlVariableParameterWriter: Setter for the field unitWriter.
setUpdatedDate(Date) - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteractionWrapper: Sets the last update date
setUpdatedDate(Date) - Method in class psidev.psi.mi.jami.model.impl.AbstractInteraction: Sets the last update date
setUpdatedDate(Date) - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex: Sets the last update date
setUpdatedDate(Date) - Method in interface psidev.psi.mi.jami.model.Interaction: Sets the last update date
setUpdatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: Sets the last update date
setUpdatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: Sets the last update date
setUpdatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: Sets the last update date
setUpdatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: Sets the last update date
setUpdatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: Sets the last update date
setUpdatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: Sets the last update date
setUpdatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: Sets the last update date
setUpdatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: Sets the last update date
setUpdatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: Sets the last update date
setUpdatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: Sets the last update date
setUpdatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: Sets the last update date
setUpdatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: Sets the last update date
setUpdatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: Sets the last update date
setUpdatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: Sets the last update date
setUpdatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: Sets the last update date
setUpdatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: Sets the last update date
setUpdatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: Sets the last update date
setUpdatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: Sets the last update date
setUpdatedDate(Date) - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: Sets the last update date
setUrl(String) - Method in class psidev.psi.mi.jami.bridges.ols.LazySource: Set the URL
setUrl(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultSource: Set the URL
setUrl(String) - Method in interface psidev.psi.mi.jami.model.Source: Set the URL
setUrl(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource: Set the URL
setUrl(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource: Set the URL
setUrl(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource: Set the URL
setUseTermSynonyms(boolean) - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.AbstractMIOntologyAccess
setUseTermSynonyms(boolean) - Method in class psidev.psi.mi.jami.bridges.ontologymanager.impl.local.MILocalOntology
setValue(int) - Method in class psidev.psi.mi.jami.xml.model.extension.XmlStoichiometry
setValue(String) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.PropertyType: Sets the value of the value property.
setValue(String) - Method in interface psidev.psi.mi.jami.model.Annotation: Set the value of this annotation.
setValue(String) - Method in class psidev.psi.mi.jami.model.impl.DefaultAnnotation: Set the value of this annotation.
setValue(String) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractAvailability: Sets the value of the value property.
setValue(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlAnnotation: Set the value of this annotation.
setValue(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlAnnotation: Set the value of this annotation.
setValue(String) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlAnnotation: Set the value of this annotation.
setVariableParameter(VariableParameter) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractXmlVariableParameterValue: Setter for the field variableParameter.
setVariableParameterValueSetWriter(PsiXmlElementWriter<VariableParameterValueSet>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlInteractionEvidenceWriter: Setter for the field variableParameterValueSetWriter.
setVariableParameterValueSetWriter(PsiXmlElementWriter<VariableParameterValueSet>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlInteractionEvidenceWriter: Setter for the field variableParameterValueSetWriter.
setVariableParameterValueWriter(PsiXmlElementWriter<VariableParameterValue>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlVariableParameterWriter: Setter for the field variableParameterValueWriter.
setVariableParameterWriter(PsiXmlElementWriter<VariableParameter>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlExperimentWriter: Setter for the field variableParameterWriter.
setVersion(Integer) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.DbReferenceType: Sets the value of the version property.
setVersion(String) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Uniparc: Sets the value of the version property.
setVersion(MitabVersion) - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitab25BinaryWriter: Setter for the field version.
setVersion(PsiXmlVersion) - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Setter for the field version.
setVersion(PsiXmlVersion) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlMixWriter: Setter for the field version.
setVersion(PsiXmlVersion) - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlMixWriter: Setter for the field version.
setVersionI(int) - Method in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.DbReferenceType: Sets the value of the versionI property.
setWriteComplexesAsInteractors(boolean) - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Setter for the field writeComplexesAsInteractors.
setWriteComplexesAsInteractors(boolean) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlMixWriter: Setter for the field writeComplexesAsInteractors.
setWriteComplexesAsInteractors(boolean) - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlMixWriter: Setter for the field writeComplexesAsInteractors.
setWriteHeader(boolean) - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: Setter for the field writeHeader.
setWriteHeader(boolean) - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitab25BinaryWriter: Setter for the field writeHeader.
setWriteHeader(boolean) - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitabWriter: setWriteHeader.
setWriteHeader(boolean) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25BinaryWriter: Setter for the field writeHeader.
setWriteHeader(boolean) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab26BinaryWriter: Setter for the field writeHeader.
setWriteHeader(boolean) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab27BinaryWriter: Setter for the field writeHeader.
setWriteHeader(boolean) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab28BinaryWriter: Setter for the field writeHeader.
setXmlAvailability(AbstractAvailability) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence: setXmlAvailability.
setXmlAvailability(AbstractAvailability) - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: setXmlAvailability.
setXmlAvailability(AbstractAvailability) - Method in interface psidev.psi.mi.jami.xml.model.extension.ExtendedPsiXmlInteractionEvidence: setXmlAvailability.
setXmlAvailability(AbstractAvailability) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence: setXmlAvailability.
setXmlAvailability(AbstractAvailability) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence: setXmlAvailability.
setXmlAvailability(AbstractAvailability) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence: setXmlAvailability.
setXmlFileParserListener(PsiXmlParserListener) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: setXmlFileParserListener.
setXmlInferredInteractionWriter(PsiXmlElementWriter<AbstractInferredInteraction>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.AbstractXmlInteractionEvidenceWriter: setXmlInferredInteractionWriter.
setXmlInferredInteractionWriter(PsiXmlElementWriter<AbstractInferredInteraction>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlInteractionWriter: setXmlInferredInteractionWriter.
setXmlInferredInteractionWriter(PsiXmlElementWriter<AbstractInferredInteraction>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlModelledInteractionWriter: setXmlInferredInteractionWriter.
setXrefContainer(IInteractorXrefContainer) - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor
setXrefWriter(PsiXmlXrefWriter) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: Setter for the field xrefWriter.
setXrefWriter(PsiXmlXrefWriter) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlFeatureWriter: Setter for the field xrefWriter.
setXrefWriter(PsiXmlXrefWriter) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: Setter for the field xrefWriter.
setXrefWriter(PsiXmlXrefWriter) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: Setter for the field xrefWriter.
setXrefWriter(PsiXmlXrefWriter) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlPublicationWriter: Setter for the field xrefWriter.
setXrefWriter(PsiXmlXrefWriter) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.AbstractXmlSourceWriter: Setter for the field xrefWriter.
setXrefWriter(PsiXmlXrefWriter) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlResultingSequenceWriter: Setter for the field xrefWriter.
setXrefWriter(PsiXmlXrefWriter) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlCvTermWriter: Setter for the field xrefWriter.
setXrefWriter(PsiXmlXrefWriter) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlInteractorWriter: Setter for the field xrefWriter.
SGD - psidev.psi.mi.jami.bridges.uniprot.rest.SearchDatabase
SHORTLABEL - Static variable in class psidev.psi.mi.jami.tab.utils.MitabUtils: Constant SHORTLABEL="shortlabel"
SHORTLABEL_IDENTIFIER - Static variable in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Constant SHORTLABEL_IDENTIFIER="Unique short label curated by PSI-MI"
shutDownCache() - Method in class psidev.psi.mi.jami.bridges.fetcher.AbstractCachedFetcher: shutDownCache.
shutDownCache() - Method in interface psidev.psi.mi.jami.bridges.fetcher.CachedFetcher: Shuts the cache down.
shutDownCache() - Method in class psidev.psi.mi.jami.bridges.uniprot.CachedUniprotGeneFetcher: shutDownCache.
signatureSequenceMatch - Variable in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Entry
SimpleCharStream - Class in psidev.psi.mi.jami.tab.io.parser: An implementation of interface CharStream, where the stream is assumed to contain only ASCII characters (without unicode processing).
SimpleCharStream(InputStream) - Constructor for class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Constructor.
SimpleCharStream(InputStream, int, int) - Constructor for class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Constructor.
SimpleCharStream(InputStream, int, int, int) - Constructor for class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Constructor.
SimpleCharStream(InputStream, String) - Constructor for class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Constructor.
SimpleCharStream(InputStream, String, int, int) - Constructor for class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Constructor.
SimpleCharStream(InputStream, String, int, int, int) - Constructor for class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Constructor.
SimpleCharStream(Reader) - Constructor for class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Constructor.
SimpleCharStream(Reader, int, int) - Constructor for class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Constructor.
SimpleCharStream(Reader, int, int, int) - Constructor for class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Constructor.
SimpleJobListener - Class in psidev.psi.mi.jami.batch: Enricher job listener
SimpleJobListener() - Constructor for class psidev.psi.mi.jami.batch.SimpleJobListener
SimpleJobRegistry - Class in psidev.psi.mi.jami.batch: Job registry for MIBatchJobManager
SimpleJobRegistry() - Constructor for class psidev.psi.mi.jami.batch.SimpleJobRegistry
SimpleJsonAnnotationWriter - Class in psidev.psi.mi.jami.json.elements: Json writer for annotations
SimpleJsonAnnotationWriter(Writer) - Constructor for class psidev.psi.mi.jami.json.elements.SimpleJsonAnnotationWriter: Constructor for SimpleJsonAnnotationWriter.
SimpleJsonBinaryInteractionEvidenceWriter - Class in psidev.psi.mi.jami.json.binary.elements: Json writer for interaction evidences
SimpleJsonBinaryInteractionEvidenceWriter(Writer, Map<Feature, Integer>, Map<String, String>, Map<Entity, Integer>) - Constructor for class psidev.psi.mi.jami.json.binary.elements.SimpleJsonBinaryInteractionEvidenceWriter: Constructor for SimpleJsonBinaryInteractionEvidenceWriter.
SimpleJsonBinaryInteractionEvidenceWriter(Writer, Map<Feature, Integer>, Map<String, String>, Map<Entity, Integer>, IncrementalIdGenerator) - Constructor for class psidev.psi.mi.jami.json.binary.elements.SimpleJsonBinaryInteractionEvidenceWriter: Constructor for SimpleJsonBinaryInteractionEvidenceWriter.
SimpleJsonBinaryInteractionWriter - Class in psidev.psi.mi.jami.json.binary.elements: Json writer for interactions
SimpleJsonBinaryInteractionWriter(Writer, Map<Feature, Integer>, Map<String, String>, Map<Entity, Integer>) - Constructor for class psidev.psi.mi.jami.json.binary.elements.SimpleJsonBinaryInteractionWriter: Constructor for SimpleJsonBinaryInteractionWriter.
SimpleJsonBinaryInteractionWriter(Writer, Map<Feature, Integer>, Map<String, String>, Map<Entity, Integer>, IncrementalIdGenerator) - Constructor for class psidev.psi.mi.jami.json.binary.elements.SimpleJsonBinaryInteractionWriter: Constructor for SimpleJsonBinaryInteractionWriter.
SimpleJsonConfidenceWriter - Class in psidev.psi.mi.jami.json.elements: Json writer for confidences
SimpleJsonConfidenceWriter(Writer) - Constructor for class psidev.psi.mi.jami.json.elements.SimpleJsonConfidenceWriter: Constructor for SimpleJsonConfidenceWriter.
SimpleJsonCvTermWriter - Class in psidev.psi.mi.jami.json.elements: Json writer for cv terms
SimpleJsonCvTermWriter(Writer) - Constructor for class psidev.psi.mi.jami.json.elements.SimpleJsonCvTermWriter: Constructor for SimpleJsonCvTermWriter.
SimpleJsonExperimentWriter - Class in psidev.psi.mi.jami.json.elements: Json writer which will only write experimental details of an interaction evidence
SimpleJsonExperimentWriter(Writer) - Constructor for class psidev.psi.mi.jami.json.elements.SimpleJsonExperimentWriter: Constructor for SimpleJsonExperimentWriter.
SimpleJsonFeatureEvidenceWriter - Class in psidev.psi.mi.jami.json.elements: Json writer for modelled features
SimpleJsonFeatureEvidenceWriter(Writer, Map<Feature, Integer>, Map<String, String>, Map<Entity, Integer>) - Constructor for class psidev.psi.mi.jami.json.elements.SimpleJsonFeatureEvidenceWriter: Constructor for SimpleJsonFeatureEvidenceWriter.
SimpleJsonFeatureEvidenceWriter(Writer, Map<Feature, Integer>, Map<String, String>, Map<Entity, Integer>, IncrementalIdGenerator, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.elements.SimpleJsonFeatureEvidenceWriter: Constructor for SimpleJsonFeatureEvidenceWriter.
SimpleJsonFeatureWriter<F extends Feature> - Class in psidev.psi.mi.jami.json.elements: Json writer for features
SimpleJsonFeatureWriter(Writer, Map<Feature, Integer>, Map<String, String>, Map<Entity, Integer>) - Constructor for class psidev.psi.mi.jami.json.elements.SimpleJsonFeatureWriter: Constructor for SimpleJsonFeatureWriter.
SimpleJsonFeatureWriter(Writer, Map<Feature, Integer>, Map<String, String>, Map<Entity, Integer>, IncrementalIdGenerator, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.elements.SimpleJsonFeatureWriter: Constructor for SimpleJsonFeatureWriter.
SimpleJsonHostOrganismWriter - Class in psidev.psi.mi.jami.json.elements: Json writer for Host organisms.
SimpleJsonHostOrganismWriter(Writer) - Constructor for class psidev.psi.mi.jami.json.elements.SimpleJsonHostOrganismWriter: Constructor for SimpleJsonHostOrganismWriter.
SimpleJsonIdentifierWriter - Class in psidev.psi.mi.jami.json.elements: Json writer for identifiers
SimpleJsonIdentifierWriter(Writer) - Constructor for class psidev.psi.mi.jami.json.elements.SimpleJsonIdentifierWriter: Constructor for SimpleJsonIdentifierWriter.
SimpleJsonInteractionEvidenceWriter - Class in psidev.psi.mi.jami.json.elements: Json writer for interaction evidences
SimpleJsonInteractionEvidenceWriter(Writer, Map<Feature, Integer>, Map<String, String>, Map<Entity, Integer>) - Constructor for class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionEvidenceWriter: Constructor for SimpleJsonInteractionEvidenceWriter.
SimpleJsonInteractionEvidenceWriter(Writer, Map<Feature, Integer>, Map<String, String>, Map<Entity, Integer>, IncrementalIdGenerator) - Constructor for class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionEvidenceWriter: Constructor for SimpleJsonInteractionEvidenceWriter.
SimpleJsonInteractionWriter - Class in psidev.psi.mi.jami.json.elements: Json writer for interactions
SimpleJsonInteractionWriter(Writer, Map<Feature, Integer>, Map<String, String>, Map<Entity, Integer>) - Constructor for class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionWriter: Constructor for SimpleJsonInteractionWriter.
SimpleJsonInteractionWriter(Writer, Map<Feature, Integer>, Map<String, String>, Map<Entity, Integer>, IncrementalIdGenerator) - Constructor for class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionWriter: Constructor for SimpleJsonInteractionWriter.
SimpleJsonInteractorWriter - Class in psidev.psi.mi.jami.json.elements: Json writer for participants
SimpleJsonInteractorWriter(Writer, Map<String, String>) - Constructor for class psidev.psi.mi.jami.json.elements.SimpleJsonInteractorWriter: Constructor for SimpleJsonInteractorWriter.
SimpleJsonInteractorWriter(Writer, Map<String, String>, IncrementalIdGenerator) - Constructor for class psidev.psi.mi.jami.json.elements.SimpleJsonInteractorWriter: Constructor for SimpleJsonInteractorWriter.
SimpleJsonModelledBinaryInteractionWriter - Class in psidev.psi.mi.jami.json.binary.elements: Json writer for modelled interactions
SimpleJsonModelledBinaryInteractionWriter(Writer, Map<Feature, Integer>, Map<String, String>, Map<Entity, Integer>) - Constructor for class psidev.psi.mi.jami.json.binary.elements.SimpleJsonModelledBinaryInteractionWriter: Constructor for SimpleJsonModelledBinaryInteractionWriter.
SimpleJsonModelledBinaryInteractionWriter(Writer, Map<Feature, Integer>, Map<String, String>, Map<Entity, Integer>, IncrementalIdGenerator) - Constructor for class psidev.psi.mi.jami.json.binary.elements.SimpleJsonModelledBinaryInteractionWriter: Constructor for SimpleJsonModelledBinaryInteractionWriter.
SimpleJsonModelledFeatureWriter - Class in psidev.psi.mi.jami.json.elements: Json writer for modelled features
SimpleJsonModelledFeatureWriter(Writer, Map<Feature, Integer>, Map<String, String>, Map<Entity, Integer>) - Constructor for class psidev.psi.mi.jami.json.elements.SimpleJsonModelledFeatureWriter: Constructor for SimpleJsonModelledFeatureWriter.
SimpleJsonModelledFeatureWriter(Writer, Map<Feature, Integer>, Map<String, String>, Map<Entity, Integer>, IncrementalIdGenerator, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.elements.SimpleJsonModelledFeatureWriter: Constructor for SimpleJsonModelledFeatureWriter.
SimpleJsonModelledInteractionWriter - Class in psidev.psi.mi.jami.json.elements: Json writer for modelled interactions
SimpleJsonModelledInteractionWriter(Writer, Map<Feature, Integer>, Map<String, String>, Map<Entity, Integer>) - Constructor for class psidev.psi.mi.jami.json.elements.SimpleJsonModelledInteractionWriter: Constructor for SimpleJsonModelledInteractionWriter.
SimpleJsonModelledInteractionWriter(Writer, Map<Feature, Integer>, Map<String, String>, Map<Entity, Integer>, IncrementalIdGenerator) - Constructor for class psidev.psi.mi.jami.json.elements.SimpleJsonModelledInteractionWriter: Constructor for SimpleJsonModelledInteractionWriter.
SimpleJsonModelledParticipantWriter - Class in psidev.psi.mi.jami.json.elements: Json writer for modelled participants
SimpleJsonModelledParticipantWriter(Writer, Map<Feature, Integer>, Map<String, String>, Map<Entity, Integer>) - Constructor for class psidev.psi.mi.jami.json.elements.SimpleJsonModelledParticipantWriter: Constructor for SimpleJsonModelledParticipantWriter.
SimpleJsonModelledParticipantWriter(Writer, Map<Feature, Integer>, Map<String, String>, Map<Entity, Integer>, IncrementalIdGenerator, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.elements.SimpleJsonModelledParticipantWriter: Constructor for SimpleJsonModelledParticipantWriter.
SimpleJsonOrganismWriter - Class in psidev.psi.mi.jami.json.elements: Json writer for organisms.
SimpleJsonOrganismWriter(Writer) - Constructor for class psidev.psi.mi.jami.json.elements.SimpleJsonOrganismWriter: Constructor for SimpleJsonOrganismWriter.
SimpleJsonParameterWriter - Class in psidev.psi.mi.jami.json.elements: Json writer for parameters
SimpleJsonParameterWriter(Writer) - Constructor for class psidev.psi.mi.jami.json.elements.SimpleJsonParameterWriter: Constructor for SimpleJsonParameterWriter.
SimpleJsonParticipantEvidenceWriter - Class in psidev.psi.mi.jami.json.elements: Json writer for participant evidences
SimpleJsonParticipantEvidenceWriter(Writer, Map<Feature, Integer>, Map<String, String>, Map<Entity, Integer>) - Constructor for class psidev.psi.mi.jami.json.elements.SimpleJsonParticipantEvidenceWriter: Constructor for SimpleJsonParticipantEvidenceWriter.
SimpleJsonParticipantEvidenceWriter(Writer, Map<Feature, Integer>, Map<String, String>, Map<Entity, Integer>, IncrementalIdGenerator, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.elements.SimpleJsonParticipantEvidenceWriter: Constructor for SimpleJsonParticipantEvidenceWriter.
SimpleJsonParticipantWriter - Class in psidev.psi.mi.jami.json.elements: Json writer for participants
SimpleJsonParticipantWriter(Writer, Map<Feature, Integer>, Map<String, String>, Map<Entity, Integer>) - Constructor for class psidev.psi.mi.jami.json.elements.SimpleJsonParticipantWriter: Constructor for SimpleJsonParticipantWriter.
SimpleJsonParticipantWriter(Writer, Map<Feature, Integer>, Map<String, String>, Map<Entity, Integer>, IncrementalIdGenerator, OntologyTermFetcher) - Constructor for class psidev.psi.mi.jami.json.elements.SimpleJsonParticipantWriter: Constructor for SimpleJsonParticipantWriter.
SimpleJsonPublicationWriter - Class in psidev.psi.mi.jami.json.elements: Json writer for publications
SimpleJsonPublicationWriter(Writer) - Constructor for class psidev.psi.mi.jami.json.elements.SimpleJsonPublicationWriter: Constructor for SimpleJsonPublicationWriter.
SimpleJsonRangeWriter - Class in psidev.psi.mi.jami.json.elements: Json writer for ranges
SimpleJsonRangeWriter(Writer, Map<String, String>, Map<Entity, Integer>) - Constructor for class psidev.psi.mi.jami.json.elements.SimpleJsonRangeWriter: Constructor for SimpleJsonRangeWriter.
SimpleJsonRangeWriter(Writer, Map<String, String>, Map<Entity, Integer>, IncrementalIdGenerator) - Constructor for class psidev.psi.mi.jami.json.elements.SimpleJsonRangeWriter: Constructor for SimpleJsonRangeWriter.
SimpleJsonStoichiometryWriter - Class in psidev.psi.mi.jami.json.elements: Json writer for stoichiometry
SimpleJsonStoichiometryWriter(Writer) - Constructor for class psidev.psi.mi.jami.json.elements.SimpleJsonStoichiometryWriter: Constructor for SimpleJsonStoichiometryWriter.
single_nary - psidev.psi.mi.jami.crosslink.CsvType
size() - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipantPool: size
size() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractorPool: size
size() - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameterValueSet: size
size() - Method in class psidev.psi.mi.jami.utils.collection.AbstractCollectionWrapper: size
size() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: size.
size() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantPoolWrapper
size() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractorPool: size.
size() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantPoolWrapper
size() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: size.
size() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantPoolWrapper
size() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractorPool: size.
size() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantPoolWrapper
size() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: size.
size() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantPoolWrapper
size() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractorPool: size.
size() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantPoolWrapper
size() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameterValueSet: size.
skip(long) - Method in class psidev.psi.mi.jami.xml.io.parser.NonCloseableInputStreamWrapper
skipNextElement() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: skipNextElement.
SMALL_MOLECULE - Static variable in interface psidev.psi.mi.jami.model.BioactiveEntity: Constant SMALL_MOLECULE="small molecule"
SMALL_MOLECULE_MI - Static variable in interface psidev.psi.mi.jami.model.BioactiveEntity: Constant SMALL_MOLECULE_MI="MI:0328"
SMALL_MOLECULE_PROTEIN - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant SMALL_MOLECULE_PROTEIN="smallmolecule-protein"
SMALL_MOLECULE_PROTEIN_MI - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant SMALL_MOLECULE_PROTEIN_MI="MI:1048"
SMILE - Static variable in interface psidev.psi.mi.jami.model.Checksum: Constant SMILE="smiles string"
SMILE_MI - Static variable in interface psidev.psi.mi.jami.model.Checksum: Constant SMILE_MI="MI:2039"
SMILE_SHORT - Static variable in interface psidev.psi.mi.jami.model.Checksum: Constant SMILE_SHORT="smile"
SO - Static variable in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Constant SO="so"
SO - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant SO="so"
SO_MI - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant SO_MI="MI:0601"
SO_MI_REF - Static variable in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Constant SO_MI_REF="MI:0601"
source() - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
Source - Interface in psidev.psi.mi.jami.model: Source of the data.
SOURCE - psidev.psi.mi.jami.tab.MitabColumnName
SOURCE_TAG - Static variable in class psidev.psi.mi.jami.xml.utils.PsiXmlUtils: Constant SOURCE_TAG="source"
SourceCategory - Enum in psidev.psi.mi.jami.datasource: Enum to used to label a given String as URL, file_URI or file
SourceChangeListener - Interface in psidev.psi.mi.jami.listener: Source change listener
SourceChangeLogger - Class in psidev.psi.mi.jami.listener.impl: This listener will just log Source change events
SourceChangeLogger() - Constructor for class psidev.psi.mi.jami.listener.impl.SourceChangeLogger
SourceCompositeFetcher - Class in psidev.psi.mi.jami.bridges.fetcher.mock: Source fetcher that delegates to different sourceFetchers
SourceCompositeFetcher() - Constructor for class psidev.psi.mi.jami.bridges.fetcher.mock.SourceCompositeFetcher
sourceDbs() - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
SourceEnricher - Interface in psidev.psi.mi.jami.enricher: The source enricher is an enricher which can enrich either single source or a collection.
SourceEnricherListener - Interface in psidev.psi.mi.jami.enricher.listener: An extension of the SourceChangeListener with specific methods related to the process of enriching.
SourceEnricherListenerManager - Class in psidev.psi.mi.jami.enricher.listener.impl: A manager for listeners which holds a list of listeners.
SourceEnricherListenerManager() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.SourceEnricherListenerManager: A constructor to create a listener manager with no listeners.
SourceEnricherListenerManager(SourceEnricherListener...) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.SourceEnricherListenerManager: A constructor to initiate a listener manager with as many listeners as required.
SourceEnricherLogger - Class in psidev.psi.mi.jami.enricher.listener.impl.log: A logging listener.
SourceEnricherLogger() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.log.SourceEnricherLogger
SourceEnricherStatisticsWriter - Class in psidev.psi.mi.jami.enricher.listener.impl.writer: A statistics logger which records changes made by the enricher.
SourceEnricherStatisticsWriter() - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.SourceEnricherStatisticsWriter: Uses the known name of the JamiObject type as the seed to generate names for the success an failure log files.
SourceEnricherStatisticsWriter(File, File) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.SourceEnricherStatisticsWriter: Uses the exact files provided to log successful and failed enrichments.
SourceEnricherStatisticsWriter(String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.SourceEnricherStatisticsWriter: Creates the files from the provided seed file name with 'success' and 'failure' appended.
SourceEnricherStatisticsWriter(String, String) - Constructor for class psidev.psi.mi.jami.enricher.listener.impl.writer.SourceEnricherStatisticsWriter: Uses the provided names to create the files for successful and failed enrichment logging.
SourceFetcher - Interface in psidev.psi.mi.jami.bridges.fetcher: Finds source Extends CvTermFetcher with source objects.
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.AbstractBaseEntry.AbstractJAXBAnnotationsWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.AbstractBaseEntry.AbstractJAXBInteractionsWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.AbstractBaseEntry.AbstractJAXBInteractorsWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.AbstractBaseEntry
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.AbstractEntrySet
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractAvailability
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor.AbstractJAXBAttributeWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractExperimentalInteractor.AbstractJAXBExperimentRefWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractExperimentalInteractor
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractInferredInteraction.AbstractJAXBExperimentRefWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractInferredInteraction
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractInferredInteractionParticipant
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractNamesContainer
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractXmlVariableParameterValue
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlAnnotation
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlConfidence
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm.JAXBAttributeWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity.JAXBFeatureWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment.JAXBAttributeWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment.JAXBConfidenceWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment.JAXBHostOrganismWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment.JAXBVariableParameterWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature.JAXBAttributeWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature.JAXBRangeWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction.JAXBAttributeWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction.JAXBParticipantWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence.JAXBConfidenceWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence.JAXBExperimentWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence.JAXBParameterWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction.JAXBConfidenceWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction.JAXBExperimentWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction.JAXBParameterWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParameter
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant.JAXBAttributeWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant.JAXBInteractorCandidateWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlPosition
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource.JAXBAttributeWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef.JAXBAttributeWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.ExperimentalCvTerm.JAXBExperimentRefWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.HostOrganism.JAXBExperimentRefWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAlias
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlConfidence.JAXBExperimentRefWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence.JAXBExperimentRefWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence.JAXBParameterWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOrganism
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBConfidenceWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBExperimentalInteractorWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBExperimentalPreparationWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBExperimentalRoleWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBHostOrganismWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBParameterWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBParticipantIdentificationWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlRange
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlResultingSequence
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlStoichiometryRange
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameter.JAXBVariableValueWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameter
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlXref.JAXBAttributeWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlXref
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XrefContainer
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlAnnotation
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlConfidence
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm.JAXBAttributeWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity.JAXBFeatureWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment.JAXBAttributeWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment.JAXBConfidenceWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment.JAXBHostOrganismWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment.JAXBVariableParameterWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature.JAXBAttributeWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature.JAXBRangeWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction.JAXBAttributeWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction.JAXBParticipantWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence.JAXBConfidenceWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence.JAXBExperimentWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence.JAXBParameterWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction.JAXBConfidenceWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction.JAXBExperimentWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction.JAXBParameterWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParameter
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant.JAXBAttributeWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant.JAXBInteractorCandidateWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlPosition
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource.JAXBAttributeWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef.JAXBAttributeWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.ExperimentalCvTerm.JAXBExperimentRefWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.HostOrganism.JAXBExperimentRefWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAlias
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlConfidence.JAXBExperimentRefWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence.JAXBExperimentRefWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence.JAXBParameterWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOrganism
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBConfidenceWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBExperimentalInteractorWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBExperimentalPreparationWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBExperimentalRoleWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBHostOrganismWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBParameterWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBParticipantIdentificationWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlRange
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlResultingSequence
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlStoichiometryRange
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameter.JAXBVariableValueWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameter
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlXref.JAXBAttributeWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlXref
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XrefContainer
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlAnnotation
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlConfidence
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect.JAXBAffectedInteractionRefWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect.JAXBAttributeWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect.JAXBCooperativityEvidenceWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm.JAXBAttributeWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity.JAXBFeatureWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment.JAXBAttributeWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment.JAXBConfidenceWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment.JAXBHostOrganismWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment.JAXBVariableParameterWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature.JAXBAttributeWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature.JAXBRangeWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction.JAXBAttributeWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction.JAXBParticipantWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence.JAXBConfidenceWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence.JAXBExperimentWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence.JAXBParameterWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction.JAXBConfidenceWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction.JAXBExperimentWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction.JAXBParameterWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParameter
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant.JAXBAttributeWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant.JAXBInteractorCandidateWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlPosition
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource.JAXBAttributeWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef.JAXBAttributeWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BindingFeatures
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.ExperimentalCvTerm.JAXBExperimentRefWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.HostOrganism.JAXBExperimentRefWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAlias
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCausalRelationship
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlConfidence.JAXBExperimentRefWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCooperativityEvidence.JAXBEvidenceMethodWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCooperativityEvidence
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence.JAXBExperimentRefWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence.JAXBParameterWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidence.JAXBCausalRelationshipWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidence.JAXBExperimentWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidence.JAXBVariableParameterValueSetWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBBindingFeaturesWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBCausalRelationshipWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBConfidenceWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBCooperativeEffectWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBParameterWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOrganism
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBConfidenceWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBExperimentalInteractorWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBExperimentalPreparationWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBExperimentalRoleWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBHostOrganismWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBParameterWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBParticipantIdentificationWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlRange
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlResultingSequence
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlStoichiometryRange
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameter.JAXBVariableValueWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameter
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameterValueSet
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlXref.JAXBAttributeWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlXref
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XrefContainer
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.xml253.ComplexEntry.JAXBExperimentsWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.xml253.ExperimentalEntry.JAXBAvailabilitiesWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.xml253.ExperimentalEntry.JAXBExperimentsWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.xml253.ModelledEntry.JAXBExperimentsWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.xml254.ComplexEntry.JAXBExperimentsWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.xml254.ExperimentalEntry.JAXBAvailabilitiesWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.xml254.ExperimentalEntry.JAXBExperimentsWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.xml254.ModelledEntry.JAXBExperimentsWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.xml30.ComplexEntry.JAXBExperimentsWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.xml30.Entry.JAXBAvailabilitiesWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.xml30.Entry.JAXBExperimentsWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.xml30.ExperimentalEntry.JAXBAvailabilitiesWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.xml30.ExperimentalEntry.JAXBExperimentsWrapper
sourceLocation() - Method in class psidev.psi.mi.jami.xml.model.xml30.ModelledEntry.JAXBExperimentsWrapper
SourceOboLoader - Class in psidev.psi.mi.jami.bridges.obo: Implementation of Obo loader for sources
SourceOboLoader(String) - Constructor for class psidev.psi.mi.jami.bridges.obo.SourceOboLoader: Constructor for SourceOboLoader.
SourceOboLoader(CvTerm) - Constructor for class psidev.psi.mi.jami.bridges.obo.SourceOboLoader: Constructor for SourceOboLoader.
SPECIAL_CHARACTERS - Static variable in class psidev.psi.mi.jami.tab.utils.MitabUtils: Constant SPECIAL_CHARACTERS="new String[]{FIELD_SEPARATOR,XREF_SEPAR"{trunked}
specialToken - Variable in class psidev.psi.mi.jami.tab.io.parser.Token: This field is used to access special tokens that occur prior to this token, but after the immediately preceding regular (non-special) token.
splitter(List<T>, int) - Static method in class psidev.psi.mi.jami.utils.collection.ListUtils: splitter
spoke - psidev.psi.mi.jami.factory.ComplexExpansionType
SPOKE - Static variable in interface psidev.psi.mi.jami.binary.expansion.ComplexExpansionMethod: Constant SPOKE="spoke"
SPOKE_EXPANSION - Static variable in interface psidev.psi.mi.jami.binary.expansion.ComplexExpansionMethod: Constant SPOKE_EXPANSION="spoke expansion"
SPOKE_EXPANSION - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant SPOKE_EXPANSION="spoke expansion"
SPOKE_EXPANSION_MI - Static variable in interface psidev.psi.mi.jami.binary.expansion.ComplexExpansionMethod: Constant SPOKE_EXPANSION_MI="MI:1060"
SPOKE_EXPANSION_MI - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant SPOKE_EXPANSION_MI="MI:1060"
SpokeExpansion - Class in psidev.psi.mi.jami.binary.expansion: The spoke expansion Complex n-ary data has been expanded to binary using the spoke model.
SpokeExpansion() - Constructor for class psidev.psi.mi.jami.binary.expansion.SpokeExpansion: Constructor for SpokeExpansion.
STANDARD_INCHI_KEY - Static variable in interface psidev.psi.mi.jami.model.Checksum: Constant STANDARD_INCHI_KEY="standard inchi key"
STANDARD_INCHI_KEY_MI - Static variable in interface psidev.psi.mi.jami.model.Checksum: Constant STANDARD_INCHI_KEY_MI="MI:1101"
start - Variable in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.LocationType
start() - Method in interface psidev.psi.mi.jami.datasource.InteractionWriter: Method to call before starting to write but after initialising the context
start() - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: start
start() - Method in class psidev.psi.mi.jami.json.binary.AbstractMIJsonWriter: start.
start() - Method in class psidev.psi.mi.jami.json.nary.AbstractMIJsonWriter: start.
start() - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitab25BinaryWriter: start.
start() - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitabWriter: start.
start() - Method in class psidev.psi.mi.jami.tab.io.writer.DefaultMitabWriter: start.
start() - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25Writer: start.
start() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25BinaryWriter: start.
start() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25Writer: start.
start() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab26BinaryWriter: start.
start() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab27BinaryWriter: start.
start() - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab28BinaryWriter: start.
start() - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Method to call before starting to write but after initialising the context
start() - Method in class psidev.psi.mi.jami.xml.io.writer.DefaultXmlWriter: start.
start1 - Variable in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch.Patch
start2 - Variable in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch.Patch
startJob(String) - Method in class psidev.psi.mi.jami.batch.MIBatchJobManager: This method will start a job having a specific name and no job parameters.
startJobWithParameters(String, String) - Method in class psidev.psi.mi.jami.batch.MIBatchJobManager: startJobWithParameters.
staticFlag - Static variable in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream: Whether parser is static.
staticFlag - Static variable in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: Whether parser is static.
STATUS_UNKNOWN - Static variable in interface psidev.psi.mi.jami.bridges.imex.ImexCentralClient: Constant STATUS_UNKNOWN=8
stoichiometry(int) - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
Stoichiometry - Interface in psidev.psi.mi.jami.model: The stoichiometry of a participant
STOICHIOMETRY_A - psidev.psi.mi.jami.tab.MitabColumnName
STOICHIOMETRY_B - psidev.psi.mi.jami.tab.MitabColumnName
STOICHIOMETRY_PREFIX - Static variable in class psidev.psi.mi.jami.xml.utils.PsiXmlUtils: Constant STOICHIOMETRY_PREFIX="stoichiometry: "
StoichiometryComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Simple stoichiometry comparator.
StoichiometryComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.StoichiometryComparator
stoichiometryList(int) - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
stopJob(String, String) - Method in class psidev.psi.mi.jami.batch.MIBatchJobManager: Stop a give job name and id.
storeAsTemporaryFile(InputStream, String, String) - Static method in class psidev.psi.mi.jami.commons.MIFileUtils: Store the content of the given input stream into a temporary file and return its descriptor.
storeAsTemporaryFile(Reader, String, String) - Static method in class psidev.psi.mi.jami.commons.MIFileUtils: Store the content of the given reader into a temporary file and return its descriptor.
storeInCache(String, Object) - Method in class psidev.psi.mi.jami.bridges.fetcher.AbstractCachedFetcher: Stores a given object in the cache with a key
storeInCache(String, Object) - Method in interface psidev.psi.mi.jami.bridges.fetcher.CachedFetcher: Stores a given object in the cache with a key
storeInCache(String, Object) - Method in class psidev.psi.mi.jami.bridges.uniprot.CachedUniprotGeneFetcher: Stores a given object in the cache with a key
STREAMING_OPTION_KEY - Static variable in class psidev.psi.mi.jami.factory.options.MIDataSourceOptions: The option to indicates if we want a datasource only providing an Iterator of interactions (streaming) or if we want a datasource that can return the all collection of interactions (not streaming).
SUCCESS - psidev.psi.mi.jami.enricher.listener.EnrichmentStatus
SUCCESS_SUFFIX - Static variable in class psidev.psi.mi.jami.enricher.listener.impl.writer.EnricherStatisticsWriter: Constant SUCCESS_SUFFIX="_success.csv"
SUFFICIENT_BINDING - Static variable in interface psidev.psi.mi.jami.model.Feature: Constant SUFFICIENT_BINDING="sufficient binding region"
SUFFICIENT_BINDING_MI - Static variable in interface psidev.psi.mi.jami.model.Feature: Constant SUFFICIENT_BINDING_MI="MI:0442"
SUPPRESSED_GENE_ROLE - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant SUPPRESSED_GENE_ROLE="suppressed gene"
SUPPRESSED_GENE_ROLE_MI - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant SUPPRESSED_GENE_ROLE_MI="MI:0582"
SUPPRESSOR_GENE_ROLE - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant SUPPRESSOR_GENE_ROLE="suppressor gene"
SUPPRESSOR_GENE_ROLE_MI - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant SUPPRESSOR_GENE_ROLE_MI="MI:0581"
suspendEncoding() - Method in class psidev.psi.mi.jami.utils.checksum.Base64.OutputStream: Suspends encoding of the stream.
SWISSPROT - psidev.psi.mi.jami.bridges.uniprot.rest.SearchDatabase
SWISSPROT_VARSPLIC - psidev.psi.mi.jami.bridges.uniprot.rest.SearchDatabase
SwitchTo(int) - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParserTokenManager: Switch to specified lex state.
synchronizePublicationAdminGroup(Publication, ImexPublication) - Method in class psidev.psi.mi.jami.imex.actions.impl.PublicationAdminGroupSynchronizerImpl: Update IMEx central and synchronize the publication ADMIN group.
synchronizePublicationAdminGroup(Publication, ImexPublication) - Method in interface psidev.psi.mi.jami.imex.actions.PublicationAdminGroupSynchronizer: Update IMEx central and synchronize the publication ADMIN group.
synchronizePublicationIdentifier(Publication, Publication) - Method in class psidev.psi.mi.jami.imex.actions.impl.PublicationIdentifierSynchronizerImpl: Update the IMEx record in case intact publication has a valid pubmed, unassigned or doi identifier that is not in IMEx central.
synchronizePublicationIdentifier(Publication, Publication) - Method in interface psidev.psi.mi.jami.imex.actions.PublicationIdentifierSynchronizer: Update the IMEx record in case intact publication has a valid pubmed, unassigned or doi identifier that is not in IMEx central.
synchronizePublicationStatusWithImexCentral(Publication, ImexPublication) - Method in class psidev.psi.mi.jami.imex.actions.impl.PublicationStatusSynchronizerImpl: Synchronize publication status with IMEx central and update the IMEx central record if necessary.
synchronizePublicationStatusWithImexCentral(Publication, ImexPublication) - Method in interface psidev.psi.mi.jami.imex.actions.PublicationStatusSynchronizer: Synchronize publication status with IMEx central and update the IMEx central record if necessary.
SYNONYM - Static variable in interface psidev.psi.mi.jami.model.Alias: Constant SYNONYM="synonym"
SYNONYM_MI - Static variable in interface psidev.psi.mi.jami.model.Alias: Constant SYNONYM_MI="MI:1041"

T

tabSize - Variable in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream
tabSize - Variable in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream
TAIR_ARABIDOPSIS - psidev.psi.mi.jami.bridges.uniprot.rest.SearchDatabase
taxId(int) - Method in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser
TAXID - Static variable in class psidev.psi.mi.jami.tab.utils.MitabUtils: Constant TAXID="taxid"
TAXID_A - psidev.psi.mi.jami.tab.MitabColumnName
TAXID_B - psidev.psi.mi.jami.tab.MitabColumnName
text - Variable in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch.Diff
TEXT_MINING - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant TEXT_MINING="text-mining"
TEXT_MINING_MI - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant TEXT_MINING_MI="MI:1056"
toArray() - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipantPool: toArray
toArray() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractorPool: toArray
toArray() - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameterValueSet: toArray
toArray() - Method in class psidev.psi.mi.jami.utils.collection.AbstractCollectionWrapper: toArray
toArray() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: toArray.
toArray() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantPoolWrapper
toArray() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractorPool: toArray.
toArray() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantPoolWrapper
toArray() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: toArray.
toArray() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantPoolWrapper
toArray() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractorPool: toArray.
toArray() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantPoolWrapper
toArray() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: toArray.
toArray() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantPoolWrapper
toArray() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractorPool: toArray.
toArray() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantPoolWrapper
toArray() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameterValueSet: toArray.
toArray(T[]) - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipantPool: toArray
toArray(T[]) - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractorPool: toArray
toArray(T[]) - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameterValueSet: toArray
toArray(T[]) - Method in class psidev.psi.mi.jami.utils.collection.AbstractCollectionWrapper: toArray
toArray(T[]) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipantPool: toArray.
toArray(T[]) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantPoolWrapper
toArray(T[]) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractorPool: toArray.
toArray(T[]) - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantPoolWrapper
toArray(T[]) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipantPool: toArray.
toArray(T[]) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantPoolWrapper
toArray(T[]) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractorPool: toArray.
toArray(T[]) - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantPoolWrapper
toArray(T[]) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipantPool: toArray.
toArray(T[]) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantPoolWrapper
toArray(T[]) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractorPool: toArray.
toArray(T[]) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantPoolWrapper
toArray(T[]) - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameterValueSet: toArray.
toEnumString(String) - Static method in enum psidev.psi.mi.jami.bridges.uniprot.rest.SearchDatabase
token - Variable in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser: Current token.
Token - Class in psidev.psi.mi.jami.tab.io.parser: Describes the input token stream.
Token() - Constructor for class psidev.psi.mi.jami.tab.io.parser.Token: No-argument constructor
Token(int) - Constructor for class psidev.psi.mi.jami.tab.io.parser.Token: Constructs a new token for the specified Image.
Token(int, String) - Constructor for class psidev.psi.mi.jami.tab.io.parser.Token: Constructs a new token for the specified Image and Kind.
token_source - Variable in class psidev.psi.mi.jami.tab.io.parser.MitabLineParser: Generated Token Manager.
tokenImage - Static variable in interface psidev.psi.mi.jami.tab.io.parser.MitabLineParserConstants: Literal token values.
tokenImage - Variable in exception psidev.psi.mi.jami.tab.io.parser.ParseException: This is a reference to the "tokenImage" array of the generated parser within which the parse error occurred.
TokenKind - Enum in psidev.psi.mi.jami.tab.io.parser: Enum which lists all possible enums
TokenMgrError - Error in psidev.psi.mi.jami.tab.io.parser: Token Manager Error.
TokenMgrError() - Constructor for error psidev.psi.mi.jami.tab.io.parser.TokenMgrError: No arg constructor.
TokenMgrError(boolean, int, int, int, String, char, int) - Constructor for error psidev.psi.mi.jami.tab.io.parser.TokenMgrError: Full Constructor.
TokenMgrError(String, int) - Constructor for error psidev.psi.mi.jami.tab.io.parser.TokenMgrError: Constructor with message and reason.
toString() - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteraction
toString() - Method in class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteractionWrapper
toString() - Method in class psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence
toString() - Method in class psidev.psi.mi.jami.bridges.ols.LazyCvTerm
toString() - Method in class psidev.psi.mi.jami.bridges.ols.LazyOntologyTerm
toString() - Method in class psidev.psi.mi.jami.bridges.unisave.FastaSequence
toString() - Method in class psidev.psi.mi.jami.crosslink.extension.CsvBinaryInteractionEvidence
toString() - Method in class psidev.psi.mi.jami.crosslink.extension.CsvExperimentalParticipantCandidate
toString() - Method in class psidev.psi.mi.jami.crosslink.extension.CsvExperimentalParticipantPool
toString() - Method in class psidev.psi.mi.jami.crosslink.extension.CsvFeatureEvidence
toString() - Method in class psidev.psi.mi.jami.crosslink.extension.CsvInteractionEvidence
toString() - Method in class psidev.psi.mi.jami.crosslink.extension.CsvParticipantEvidence
toString() - Method in class psidev.psi.mi.jami.crosslink.extension.CsvProtein
toString() - Method in class psidev.psi.mi.jami.crosslink.extension.CsvRange
toString() - Method in class psidev.psi.mi.jami.crosslink.extension.CsvSourceLocator: toString
toString() - Method in class psidev.psi.mi.jami.crosslink.extension.CsvXref
toString() - Method in class psidev.psi.mi.jami.datasource.DefaultFileSourceContext: toString
toString() - Method in interface psidev.psi.mi.jami.datasource.FileSourceContext: toString
toString() - Method in class psidev.psi.mi.jami.datasource.FileSourceLocator: toString
toString() - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch.Diff: Display a human-readable version of this Diff.
toString() - Method in class psidev.psi.mi.jami.enricher.util.diff.diff_match_patch.Patch: Emmulate GNU diff's format.
toString() - Method in class psidev.psi.mi.jami.enricher.util.diff.Diff: Display a human-readable version of this Diff.
toString() - Method in class psidev.psi.mi.jami.model.impl.AbstractEntity
toString() - Method in class psidev.psi.mi.jami.model.impl.AbstractFeature
toString() - Method in class psidev.psi.mi.jami.model.impl.AbstractInteraction
toString() - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipant
toString() - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipantCandidate
toString() - Method in class psidev.psi.mi.jami.model.impl.AbstractParticipantPool
toString() - Method in class psidev.psi.mi.jami.model.impl.DefaultAlias
toString() - Method in class psidev.psi.mi.jami.model.impl.DefaultAllostery
toString() - Method in class psidev.psi.mi.jami.model.impl.DefaultAnnotation
toString() - Method in class psidev.psi.mi.jami.model.impl.DefaultBioactiveEntity
toString() - Method in class psidev.psi.mi.jami.model.impl.DefaultCausalRelationship
toString() - Method in class psidev.psi.mi.jami.model.impl.DefaultChecksum
toString() - Method in class psidev.psi.mi.jami.model.impl.DefaultComplex
toString() - Method in class psidev.psi.mi.jami.model.impl.DefaultConfidence
toString() - Method in class psidev.psi.mi.jami.model.impl.DefaultCooperativeEffect
toString() - Method in class psidev.psi.mi.jami.model.impl.DefaultCooperativityEvidence
toString() - Method in class psidev.psi.mi.jami.model.impl.DefaultCvTerm
toString() - Method in class psidev.psi.mi.jami.model.impl.DefaultExperiment
toString() - Method in class psidev.psi.mi.jami.model.impl.DefaultExperimentalParticipantPool
toString() - Method in class psidev.psi.mi.jami.model.impl.DefaultFeatureModificationEffector
toString() - Method in class psidev.psi.mi.jami.model.impl.DefaultGene
toString() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractionEvidence
toString() - Method in class psidev.psi.mi.jami.model.impl.DefaultInteractor
toString() - Method in class psidev.psi.mi.jami.model.impl.DefaultMoleculeEffector
toString() - Method in class psidev.psi.mi.jami.model.impl.DefaultNucleicAcid
toString() - Method in class psidev.psi.mi.jami.model.impl.DefaultOrganism
toString() - Method in class psidev.psi.mi.jami.model.impl.DefaultParameter
toString() - Method in class psidev.psi.mi.jami.model.impl.DefaultParticipantEvidence
toString() - Method in class psidev.psi.mi.jami.model.impl.DefaultPosition
toString() - Method in class psidev.psi.mi.jami.model.impl.DefaultProtein
toString() - Method in class psidev.psi.mi.jami.model.impl.DefaultPublication
toString() - Method in class psidev.psi.mi.jami.model.impl.DefaultRange
toString() - Method in class psidev.psi.mi.jami.model.impl.DefaultResultingSequence
toString() - Method in class psidev.psi.mi.jami.model.impl.DefaultStoichiometry
toString() - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameter
toString() - Method in class psidev.psi.mi.jami.model.impl.DefaultVariableParameterValue
toString() - Method in class psidev.psi.mi.jami.model.impl.DefaultXref
toString() - Method in class psidev.psi.mi.jami.model.ParameterValue: toString
toString() - Method in class psidev.psi.mi.jami.tab.extension.DefaultMitabFeature
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabAlias
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabAnnotation
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabAuthor: toString
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabBinaryInteraction
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabBinaryInteractionEvidence
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabBioactiveEntity
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabCausalRelationship
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabChecksum
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabComplex
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabConfidence
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabCvTerm
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabDate: toString
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabExperiment
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabFeatureEvidence
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabGene
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabInteraction
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabInteractionEvidence
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabInteractor
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabInteractorPool
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabModelledBinaryInteraction
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabModelledFeature
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabModelledInteraction
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabModelledParticipant
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabMolecule
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabNucleicAcid
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabOrganism
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabParameter
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabParticipant
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabParticipantEvidence
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabPolymer
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabProtein
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabPublication
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabRange
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabSource
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabSourceLocator: toString
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabStoichiometry
toString() - Method in class psidev.psi.mi.jami.tab.extension.MitabXref: toString
toString() - Method in class psidev.psi.mi.jami.tab.io.parser.Token: Returns the image.
toString() - Method in enum psidev.psi.mi.jami.tab.MitabColumnName
toString() - Method in class psidev.psi.mi.jami.xml.io.parser.NonCloseableInputStreamWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.AbstractBaseEntry.AbstractJAXBAnnotationsWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.AbstractBaseEntry.AbstractJAXBInteractionsWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.AbstractBaseEntry.AbstractJAXBInteractorsWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.AbstractBaseEntry: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.AbstractEntrySet: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractAvailability: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractBaseXmlInteractor: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractExperimentalInteractor.AbstractJAXBExperimentRefWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractInferredInteraction.AbstractJAXBExperimentRefWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractInferredInteractionParticipant: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractNamesContainer: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.AbstractXmlVariableParameterValue: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractExtendedXmlBinaryInteraction
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteraction
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.AbstractXmlBinaryInteractionEvidence
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.PsiXmlLocator: toString.
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlAnnotation: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlComplex: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlConfidence: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm.JAXBAttributeWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlCvTerm: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity.JAXBFeatureWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlEntity: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment.JAXBAttributeWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment.JAXBConfidenceWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment.JAXBHostOrganismWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment.JAXBVariableParameterWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlExperiment: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature.JAXBAttributeWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature.JAXBRangeWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlFeature: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction.JAXBAttributeWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction.JAXBParticipantWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteraction: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence.JAXBConfidenceWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence.JAXBExperimentWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlInteractionEvidence.JAXBParameterWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction.JAXBConfidenceWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction.JAXBExperimentWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlModelledInteraction.JAXBParameterWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParameter: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant.JAXBAttributeWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlParticipant.JAXBInteractorCandidateWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlPosition: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource.JAXBAttributeWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.AbstractXmlSource: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef.JAXBAttributeWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.BibRef: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.ComplexNamesContainer: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.ExperimentalCvTerm: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.HostOrganism.JAXBExperimentRefWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAlias: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAllostery
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBioactiveEntity
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlConfidenceWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlCooperativityEvidence: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlCvTerm: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidateWrapper: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence.JAXBParameterWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidenceWrapper: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureModificationEffector: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureWrapper: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlGene
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractorPool: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInterval: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlMolecule: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlMoleculeEffector: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlNucleicAcid
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOpenCvTerm: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOrganism: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParameterWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantCandidateWrapper: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBConfidenceWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBExperimentalInteractorWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBExperimentalPreparationWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBExperimentalRoleWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBHostOrganismWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBParameterWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence.JAXBParticipantIdentificationWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPolymer: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPosition: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPreAssembly
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlProtein
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlRange: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlResultingSequence: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlStoichiometryRange: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameter.JAXBVariableValueWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameter: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlXref.JAXBAttributeWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XmlXref: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml253.XrefContainer: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlAnnotation: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlComplex: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlConfidence: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm.JAXBAttributeWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlCvTerm: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity.JAXBFeatureWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlEntity: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment.JAXBAttributeWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment.JAXBConfidenceWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment.JAXBHostOrganismWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment.JAXBVariableParameterWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlExperiment: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature.JAXBAttributeWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature.JAXBRangeWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlFeature: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction.JAXBAttributeWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction.JAXBParticipantWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteraction: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence.JAXBConfidenceWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence.JAXBExperimentWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlInteractionEvidence.JAXBParameterWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction.JAXBConfidenceWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction.JAXBExperimentWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlModelledInteraction.JAXBParameterWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParameter: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant.JAXBAttributeWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlParticipant.JAXBInteractorCandidateWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlPosition: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource.JAXBAttributeWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.AbstractXmlSource: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef.JAXBAttributeWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.BibRef: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.ComplexNamesContainer: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.ExperimentalCvTerm: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.HostOrganism.JAXBExperimentRefWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAlias: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAllostery
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBioactiveEntity
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlConfidenceWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlCooperativityEvidence: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlCvTerm: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidateWrapper: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence.JAXBParameterWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidenceWrapper: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureModificationEffector: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureWrapper: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlGene
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractorPool: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInterval: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlMolecule: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlMoleculeEffector: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlNucleicAcid
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOpenCvTerm: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOrganism: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParameterWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantCandidateWrapper: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBConfidenceWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBExperimentalInteractorWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBExperimentalPreparationWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBExperimentalRoleWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBHostOrganismWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBParameterWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence.JAXBParticipantIdentificationWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPolymer: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPosition: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPreAssembly
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlProtein
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlRange: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlResultingSequence: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlStoichiometryRange: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameter.JAXBVariableValueWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameter: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlXref.JAXBAttributeWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XmlXref: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml254.XrefContainer: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlAnnotation: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlComplex: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlConfidence: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect.JAXBAffectedInteractionRefWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect.JAXBAttributeWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect.JAXBCooperativityEvidenceWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCooperativeEffect: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm.JAXBAttributeWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlCvTerm: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity.JAXBFeatureWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlEntity: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment.JAXBAttributeWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment.JAXBConfidenceWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment.JAXBHostOrganismWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment.JAXBVariableParameterWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlExperiment: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature.JAXBAttributeWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature.JAXBRangeWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlFeature: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction.JAXBAttributeWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction.JAXBParticipantWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence.JAXBConfidenceWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence.JAXBExperimentWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteractionEvidence.JAXBParameterWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction.JAXBConfidenceWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction.JAXBExperimentWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlModelledInteraction.JAXBParameterWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParameter: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant.JAXBAttributeWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlParticipant.JAXBInteractorCandidateWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlPosition: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource.JAXBAttributeWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlSource: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef.JAXBAttributeWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.BibRef: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.ComplexNamesContainer: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.ExperimentalCvTerm: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.HostOrganism.JAXBExperimentRefWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAlias: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAllostery: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBioactiveEntity
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCausalRelationship: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlConfidenceWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCooperativityEvidence.JAXBEvidenceMethodWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCooperativityEvidence: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCvTerm: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidateWrapper: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence.JAXBParameterWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidenceWrapper: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureModificationEffector: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureWrapper: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlGene
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidence.JAXBCausalRelationshipWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidence.JAXBExperimentWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidence.JAXBVariableParameterValueSetWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractorPool: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInterval: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBAttributeWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBBindingFeaturesWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBCausalRelationshipWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBConfidenceWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBCooperativeEffectWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction.JAXBParameterWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlMolecule: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlMoleculeEffector: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlNucleicAcid
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOpenCvTerm: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOrganism: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParameterWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantCandidateWrapper: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBConfidenceWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBExperimentalInteractorWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBExperimentalPreparationWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBExperimentalRoleWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBHostOrganismWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBParameterWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence.JAXBParticipantIdentificationWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPolymer: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPosition: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPreAssembly: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlProtein
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlRange: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlResultingSequence: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlStoichiometryRange: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameter.JAXBVariableValueWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameter: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlXref.JAXBAttributeWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XmlXref: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.xml300.XrefContainer: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.XmlChecksum
toString() - Method in class psidev.psi.mi.jami.xml.model.extension.XmlStoichiometry
toString() - Method in class psidev.psi.mi.jami.xml.model.reference.AbstractFeatureRef: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.reference.AbstractXmlIdReference: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractAvailabilityRef: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractComplexRef: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractEntityRef: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractExperimentRef: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractInteractorRef: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.reference.xml253.AbstractParticipantRef: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractAvailabilityRef: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractComplexRef: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractEntityRef: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractExperimentRef: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractInteractorRef: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.reference.xml254.AbstractParticipantRef: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractAvailabilityRef: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractComplexRef: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractEntityRef: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractExperimentRef: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractInteractorRef: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.reference.xml300.AbstractParticipantRef: toString
toString() - Method in class psidev.psi.mi.jami.xml.model.xml253.ComplexEntry.JAXBExperimentsWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.xml253.ExperimentalEntry.JAXBAvailabilitiesWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.xml253.ExperimentalEntry.JAXBExperimentsWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.xml253.ModelledEntry.JAXBExperimentsWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.xml254.ComplexEntry.JAXBExperimentsWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.xml254.ExperimentalEntry.JAXBAvailabilitiesWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.xml254.ExperimentalEntry.JAXBExperimentsWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.xml254.ModelledEntry.JAXBExperimentsWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.xml30.ComplexEntry.JAXBExperimentsWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.xml30.Entry.JAXBAvailabilitiesWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.xml30.Entry.JAXBExperimentsWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.xml30.ExperimentalEntry.JAXBAvailabilitiesWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.xml30.ExperimentalEntry.JAXBExperimentsWrapper
toString() - Method in class psidev.psi.mi.jami.xml.model.xml30.ModelledEntry.JAXBExperimentsWrapper
TREMBL - psidev.psi.mi.jami.bridges.uniprot.rest.SearchDatabase
TSV_EXTENSION - Static variable in class psidev.psi.mi.jami.commons.MIFileAnalyzer: Constant TSV_EXTENSION=".tsv"
TXT_EXTENSION - Static variable in class psidev.psi.mi.jami.commons.MIFileAnalyzer: Constant TXT_EXTENSION=".txt"
type - Variable in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.DbReferenceType
type - Variable in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.PropertyType

U

UnambiguousAliasComparator - Class in psidev.psi.mi.jami.utils.comparator.alias: Unambiguous alias comparator.
UnambiguousAliasComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.alias.UnambiguousAliasComparator: Creates a new AliasComparator with DefaultCvTermComparator
UnambiguousAllosteryComparator - Class in psidev.psi.mi.jami.utils.comparator.cooperativity: Unambiguous comparator for Allostery It will first compare basic cooperative effect properties using UnambiguousCooperativeEffectBaseComparator.
UnambiguousAllosteryComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousAllosteryComparator: Constructor for UnambiguousAllosteryComparator.
UnambiguousAnnotationComparator - Class in psidev.psi.mi.jami.utils.comparator.annotation: Strict annotation comparator It compares first the topics and then the value (case insensitive) - Two annotations which are null are equals - The annotation which is not null is before null.
UnambiguousAnnotationComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.annotation.UnambiguousAnnotationComparator: Creates a new AnnotationComparator with UnambiguousCvTermComparator
UnambiguousBioactiveEntityComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Unambiguous bioactive entity comparator.
UnambiguousBioactiveEntityComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousBioactiveEntityComparator: Creates a new UnambiguousBioactiveEntityComparator.
UnambiguousCausalRelationshipComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Unambiguous comparator for CausalRelationship It will first compare the relationType using UnambiguousCvTermComparator.
UnambiguousCausalRelationshipComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousCausalRelationshipComparator: Creates a new UnambiguousCausalRelationshipComparator with DefaultCvTermComparator and DefaultExactParticipantBaseComparator
UnambiguousChecksumComparator - Class in psidev.psi.mi.jami.utils.comparator.checksum: Unambiguous checksum comparator.
UnambiguousChecksumComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.checksum.UnambiguousChecksumComparator: Constructor for UnambiguousChecksumComparator.
UnambiguousComplexComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Unambiguous Complex comparator
UnambiguousComplexComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousComplexComparator
UnambiguousComplexComparator(UnambiguousModelledParticipantComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousComplexComparator: Constructor for UnambiguousComplexComparator.
UnambiguousComplexComparator(UnambiguousModelledParticipantInteractorComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousComplexComparator: Constructor for UnambiguousComplexComparator.
UnambiguousConfidenceComparator - Class in psidev.psi.mi.jami.utils.comparator.confidence: Unambiguous confidence comparator.
UnambiguousConfidenceComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.confidence.UnambiguousConfidenceComparator: Constructor for UnambiguousConfidenceComparator.
UnambiguousCooperativeEffectBaseComparator - Class in psidev.psi.mi.jami.utils.comparator.cooperativity: Unambiguous comparator for CooperativeEffect It will first compare the outcome using UnambiguousCvTermComparator.
UnambiguousCooperativeEffectBaseComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousCooperativeEffectBaseComparator: Constructor for UnambiguousCooperativeEffectBaseComparator.
UnambiguousCooperativeEffectComparator - Class in psidev.psi.mi.jami.utils.comparator.cooperativity: Unambiguous cooperative effect comparator Allostery effects will always come before basic cooperative effects (preassembly) - It will use UnambiguousAllosteryComparator to compare allostery - It will use UnambiguousCooperativeEffectBaseComparator to compare basic cooperative effects
UnambiguousCooperativeEffectComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousCooperativeEffectComparator: Constructor for UnambiguousCooperativeEffectComparator.
UnambiguousCooperativityEvidenceComparator - Class in psidev.psi.mi.jami.utils.comparator.cooperativity: Unambiguous comparator for cooperativityEvidence It will first compare the publications using UnambiguousPublicationComparator and then the evidenceMethods using UnambiguousCvTermComparator
UnambiguousCooperativityEvidenceComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousCooperativityEvidenceComparator: Constructor for UnambiguousCooperativityEvidenceComparator.
UnambiguousCuratedExperimentComparator - Class in psidev.psi.mi.jami.utils.comparator.experiment: Unambiguous curated experiments comparator It will look first at the publications using a UnambiguousCuratedPublicationComparator.
UnambiguousCuratedExperimentComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.experiment.UnambiguousCuratedExperimentComparator: Creates a new UnambiguousCuratedExperimentComparator.
UnambiguousCuratedInteractionBaseComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Unambiguous comparator for curated interactions.
UnambiguousCuratedInteractionBaseComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousCuratedInteractionBaseComparator: Constructor for UnambiguousCuratedInteractionBaseComparator.
UnambiguousCuratedInteractionComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Unambiguous curated Generic interaction comparator.
UnambiguousCuratedInteractionComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousCuratedInteractionComparator: Creates a new UnambiguousCuratedInteractionComparator.
UnambiguousCuratedInteractionEvidenceComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Unambiguous curated InteractionEvidenceComparator.
UnambiguousCuratedInteractionEvidenceComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousCuratedInteractionEvidenceComparator: Creates a new UnambiguousCuratedInteractionEvidenceComparator.
UnambiguousCuratedModelledInteractionComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Unambiguous curated ModelledInteraction comparator.
UnambiguousCuratedModelledInteractionComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousCuratedModelledInteractionComparator: Creates a new UnambiguousCuratedModelledInteractionComparator.
UnambiguousCuratedPublicationComparator - Class in psidev.psi.mi.jami.utils.comparator.publication: Unambiguous curated publication comparator.
UnambiguousCuratedPublicationComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.publication.UnambiguousCuratedPublicationComparator
UnambiguousCvTermComparator - Class in psidev.psi.mi.jami.utils.comparator.cv: Unambiguous comparator for CvTerms : If one CvTerm does not have any identifiers, it will only compare the short names (case insensitive).
UnambiguousCvTermComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.cv.UnambiguousCvTermComparator: Creates a new CvTermComparator with UnambiguousExternalIdentifierComparator
UnambiguousEntityBaseComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Unambiguous entity comparator It will first compare the interactors using UnambiguousInteractorComparator.
UnambiguousEntityBaseComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousEntityBaseComparator
UnambiguousEntityBaseComparator(UnambiguousInteractorComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousEntityBaseComparator: Constructor for UnambiguousEntityBaseComparator.
UnambiguousEntityComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Unambiguous generic entity comparator Modelled participants come first and then experimental participants.
UnambiguousEntityComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousEntityComparator: Creates a UnambiguousParticipantComparator.
UnambiguousExactAllosteryComparator - Class in psidev.psi.mi.jami.utils.comparator.cooperativity: Unambiguous exact comparator for Allostery It will first compare basic cooperative effect properties using UnambiguousExactCooperativeEffectBaseComparator.
UnambiguousExactAllosteryComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousExactAllosteryComparator: Constructor for UnambiguousExactAllosteryComparator.
UnambiguousExactBioactiveEntityComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: unambiguous Exact bioactive entity comparator.
UnambiguousExactBioactiveEntityComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactBioactiveEntityComparator: Creates a new UnambiguousExactBioactiveEntityComparator.
UnambiguousExactCausalRelationshipComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Unambiguous exact comparator for CausalRelationship It will first compare the relationType using UnambiguousCvTermComparator.
UnambiguousExactCausalRelationshipComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactCausalRelationshipComparator: Creates a new UnambiguousExactCausalRelationshipComparator with DefaultCvTermComparator and DefaultExactParticipantBaseComparator
UnambiguousExactComplexComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Unambiguous exact Complex comparator
UnambiguousExactComplexComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactComplexComparator
UnambiguousExactComplexComparator(UnambiguousExactModelledParticipantComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactComplexComparator: Constructor for UnambiguousExactComplexComparator.
UnambiguousExactComplexComparator(UnambiguousExactModelledParticipantInteractorComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactComplexComparator: Constructor for UnambiguousExactComplexComparator.
UnambiguousExactCooperativeEffectBaseComparator - Class in psidev.psi.mi.jami.utils.comparator.cooperativity: Unambiguous exact comparator for CooperativeEffect It will first compare the outcome using UnambiguousCvTermComparator.
UnambiguousExactCooperativeEffectBaseComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousExactCooperativeEffectBaseComparator: Constructor for UnambiguousExactCooperativeEffectBaseComparator.
UnambiguousExactCooperativeEffectComparator - Class in psidev.psi.mi.jami.utils.comparator.cooperativity: Unambiguous exact cooperative effect comparator Allostery effects will always come before basic cooperative effects (preassembly) - It will use UnambiguousExactAllosteryComparator to compare allostery - It will use UnambiguousExactCooperativeEffectBaseComparator to compare basic cooperative effects
UnambiguousExactCooperativeEffectComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousExactCooperativeEffectComparator: Constructor for UnambiguousExactCooperativeEffectComparator.
UnambiguousExactCuratedInteractionComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Unambiguous exact curated Generic interaction comparator.
UnambiguousExactCuratedInteractionComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactCuratedInteractionComparator: Creates a new UnambiguousExactCuratedInteractionComparator.
UnambiguousExactCuratedInteractionEvidenceComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Unambiguous exact curated InteractionEvidenceComparator.
UnambiguousExactCuratedInteractionEvidenceComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactCuratedInteractionEvidenceComparator: Creates a new UnambiguousExactCuratedInteractionEvidenceComparator.
UnambiguousExactCuratedModelledInteractionComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Unambiguous exact curated ModelledInteraction comparator.
UnambiguousExactCuratedModelledInteractionComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactCuratedModelledInteractionComparator: Creates a new UnambiguousExactCuratedModelledInteractionComparator.
UnambiguousExactEntityBaseComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Unambiguous exact entity comparator It will first compare the interactors using UnambiguousExactInteractorComparator.
UnambiguousExactEntityBaseComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactEntityBaseComparator
UnambiguousExactEntityBaseComparator(UnambiguousExactInteractorComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactEntityBaseComparator: Constructor for UnambiguousExactEntityBaseComparator.
UnambiguousExactEntityComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Unambiguous exact generic entity comparator Modelled participants come first and then experimental participants.
UnambiguousExactEntityComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactEntityComparator: Creates a UnambiguousExactParticipantComparator.
UnambiguousExactExperimentalEntityComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Unambiguous exact Experimental entity comparator.
UnambiguousExactExperimentalEntityComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactExperimentalEntityComparator: Creates a new UnambiguousExactExperimentalEntityComparator.
UnambiguousExactExperimentalParticipantPoolComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Unambiguous exact Experimental participant pool comparator.
UnambiguousExactExperimentalParticipantPoolComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactExperimentalParticipantPoolComparator: Creates a new UnambiguousExactExperimentalParticipantPoolComparator.
UnambiguousExactGeneComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Unambiguous exact gene comparator.
UnambiguousExactGeneComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactGeneComparator: Creates a new UnambiguousExactGeneComparator.
UnambiguousExactInteractionComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Unambiguous exact Generic interaction comparator.
UnambiguousExactInteractionComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactInteractionComparator: Creates a new UnambiguousExactInteractionComparator.
UnambiguousExactInteractionEvidenceComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Unambiguous exact InteractionEvidenceComparator.
UnambiguousExactInteractionEvidenceComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactInteractionEvidenceComparator: Creates a new UnambiguousExactInteractionEvidenceComparator.
UnambiguousExactInteractionInteractorComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Unambiguous exact interaction comparator only based on the interactors of an interaction.
UnambiguousExactInteractionInteractorComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactInteractionInteractorComparator: Creates a new UnambiguousExactInteractionInteractorComparator.
UnambiguousExactInteractorBaseComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Unambiguous Interactor base comparator.
UnambiguousExactInteractorBaseComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactInteractorBaseComparator: Creates a new UnambiguousExactInteractorBaseComparator.
UnambiguousExactInteractorComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Unambiguous exact Interactor Comparator.
UnambiguousExactInteractorComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactInteractorComparator
UnambiguousExactInteractorComparator(UnambiguousExactComplexComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactInteractorComparator: Constructor for UnambiguousExactInteractorComparator.
UnambiguousExactInteractorPoolComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Unambiguous exact InteractorPoolComparator.
UnambiguousExactInteractorPoolComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactInteractorPoolComparator: Creates a new UnambiguousExactInteractorPoolComparator.
UnambiguousExactModelledEntityComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: unambiguous exact biological entity comparator.
UnambiguousExactModelledEntityComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactModelledEntityComparator: Creates a new UnambiguousExactModelledParticipantComparator.
UnambiguousExactModelledEntityComparator(UnambiguousExactEntityBaseComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactModelledEntityComparator: Constructor for UnambiguousExactModelledEntityComparator.
UnambiguousExactModelledInteractionComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Unambiguous exact ModelledInteraction comparator.
UnambiguousExactModelledInteractionComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousExactModelledInteractionComparator: Creates a new UnambiguousExactModelledInteractionComparator.
UnambiguousExactModelledParticipantComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: unambiguous exact biological participant comparator.
UnambiguousExactModelledParticipantComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactModelledParticipantComparator
UnambiguousExactModelledParticipantInteractorComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Unambiguous exact biological participant comparator based on the interactor only.
UnambiguousExactModelledParticipantInteractorComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactModelledParticipantInteractorComparator: Creates a new UnambiguousExactModelledParticipantInteractorComparator.
UnambiguousExactModelledParticipantPoolComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: unambiguous exact biological participant pool comparator.
UnambiguousExactModelledParticipantPoolComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactModelledParticipantPoolComparator
UnambiguousExactModelledParticipantPoolComparator(UnambiguousExactEntityBaseComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactModelledParticipantPoolComparator: Constructor for UnambiguousExactModelledParticipantPoolComparator.
UnambiguousExactMoleculeEffectorComparator - Class in psidev.psi.mi.jami.utils.comparator.cooperativity: Unambiguous exact Comparator for MoleculeEffector.
UnambiguousExactMoleculeEffectorComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousExactMoleculeEffectorComparator: Constructor for UnambiguousExactMoleculeEffectorComparator.
UnambiguousExactNucleicAcidComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Unambiguous exact nucleic acids comparator.
UnambiguousExactNucleicAcidComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactNucleicAcidComparator: Creates a new DefaultExactNucleicAcidComparator.
UnambiguousExactParticipantBaseComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Unambiguous exact participant comparator It will first compare the interactors using UnambiguousExactEntityBaseComparator.
UnambiguousExactParticipantBaseComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantBaseComparator
UnambiguousExactParticipantBaseComparator(UnambiguousExactEntityBaseComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantBaseComparator: Constructor for UnambiguousExactParticipantBaseComparator.
UnambiguousExactParticipantComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Unambiguous exact generic Participant comparator Modelled participants come first and then experimental participants.
UnambiguousExactParticipantComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantComparator: Creates a UnambiguousExactParticipantComparator.
UnambiguousExactParticipantEvidenceComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Unambiguous exact Experimental participant comparator.
UnambiguousExactParticipantEvidenceComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantEvidenceComparator: Creates a new UnambiguousExactParticipantEvidenceComparator.
UnambiguousExactParticipantEvidenceInteractorComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Unambiguous exact experimental participant comparator based on the interactor only.
UnambiguousExactParticipantEvidenceInteractorComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantEvidenceInteractorComparator: Creates a new UnambiguousExactParticipantEvidenceInteractorComparator.
UnambiguousExactParticipantInteractorComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: It will compare the interactors using UnambiguousExactInteractorComparator.
UnambiguousExactParticipantInteractorComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantInteractorComparator: Creates a new UnambiguousExactParticipantInteractorComparator.
UnambiguousExactParticipantPoolComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Unambiguous exact participant pool comparator It will first compares basic participant properties using UnambiguousExactParticipantBaseComparator, then it will compare participant pool type using cv term comparator and then it will compare each participant candidate using UnambiguousExactEntityBaseComparator
UnambiguousExactParticipantPoolComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExactParticipantPoolComparator: Creates a new UnambiguousParticipantBaseComparator.
UnambiguousExactPolymerComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Unambiguous exact polymer comparator.
UnambiguousExactPolymerComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactPolymerComparator: Creates a new UnambiguousExactPolymerComparator.
UnambiguousExactProteinComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Unambiguous exact proteins comparator.
UnambiguousExactProteinComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactProteinComparator: Creates a new DefaultExactProteinComparator.
UnambiguousExperimentalEntityComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Unambiguous Experimental entity comparator.
UnambiguousExperimentalEntityComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExperimentalEntityComparator: Creates a new UnambiguousExperimentalEntityComparator.
UnambiguousExperimentalParticipantPoolComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Unambiguous Experimental participant pool comparator.
UnambiguousExperimentalParticipantPoolComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousExperimentalParticipantPoolComparator: Creates a new UnambiguousExperimentalParticipantPoolComparator.
UnambiguousExperimentComparator - Class in psidev.psi.mi.jami.utils.comparator.experiment: Unambiguous experiments comparator It will look first at the publications using a UnambiguousPublicationComparator.
UnambiguousExperimentComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.experiment.UnambiguousExperimentComparator: Creates a new UnambiguousExperimentComparator.
UnambiguousExternalIdentifierComparator - Class in psidev.psi.mi.jami.utils.comparator.xref: Unambiguous comparator for external identifiers (Xref database and id).
UnambiguousExternalIdentifierComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.xref.UnambiguousExternalIdentifierComparator: Constructor for UnambiguousExternalIdentifierComparator.
UnambiguousFeatureBaseComparator - Class in psidev.psi.mi.jami.utils.comparator.feature: Unambiguous feature comparator.
UnambiguousFeatureBaseComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.feature.UnambiguousFeatureBaseComparator: Creates a new UnambiguousFeatureBaseComparator.
UnambiguousFeatureComparator - Class in psidev.psi.mi.jami.utils.comparator.feature: Generic unambiguous feature comparator.
UnambiguousFeatureComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.feature.UnambiguousFeatureComparator: Creates a UnambiguousFeatureComparator.
UnambiguousFeatureEvidenceComparator - Class in psidev.psi.mi.jami.utils.comparator.feature: Unambiguous FeatureEvidence comparator.
UnambiguousFeatureEvidenceComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.feature.UnambiguousFeatureEvidenceComparator: Creates a new UnambiguousFeatureEvidenceComparator.
UnambiguousFeatureModificationEffectorComparator - Class in psidev.psi.mi.jami.utils.comparator.cooperativity: Unambiguous comparator for FeatureModificationEffector.
UnambiguousFeatureModificationEffectorComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousFeatureModificationEffectorComparator: Constructor for UnambiguousFeatureModificationEffectorComparator.
UnambiguousGeneComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Unambiguous gene comparator.
UnambiguousGeneComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousGeneComparator: Creates a new UnambiguousGeneComparator.
UnambiguousInteractionBaseComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Unambiguous Interaction comparator.
UnambiguousInteractionBaseComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousInteractionBaseComparator: Creates a new UnambiguousInteractionBaseComparator.
UnambiguousInteractionComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Unambiguous Generic interaction comparator.
UnambiguousInteractionComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousInteractionComparator: Creates a new UnambiguousInteractionComparator.
UnambiguousInteractionEvidenceComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Unambiguous InteractionEvidenceComparator.
UnambiguousInteractionEvidenceComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousInteractionEvidenceComparator: Creates a new UnambiguousInteractionEvidenceComparator.
UnambiguousInteractionInteractorComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Unambiguous interaction comparator only based on the interactors of an interaction.
UnambiguousInteractionInteractorComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousInteractionInteractorComparator: Creates a new UnambiguousInteractionInteractorComparator.
UnambiguousInteractorBaseComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Unambiguous interactor comparator It will only compare identifiers if one interactor does have identifiers using UnambiguousIdentifierComparator.
UnambiguousInteractorBaseComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousInteractorBaseComparator: Constructor for UnambiguousInteractorBaseComparator.
UnambiguousInteractorComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Unambiguous generic Interactor Comparator.
UnambiguousInteractorComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousInteractorComparator: Creates a new UnambiguousInteractorComparator.
UnambiguousInteractorComparator(UnambiguousComplexComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousInteractorComparator: Constructor for UnambiguousInteractorComparator.
UnambiguousInteractorPoolComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Unambiguous InteractorPoolComparator.
UnambiguousInteractorPoolComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousInteractorPoolComparator: Creates a new UnambiguousInteractorPoolComparator.
UnambiguousModelledEntityComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: unambiguous biological entity comparator.
UnambiguousModelledEntityComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousModelledEntityComparator: Creates a new UnambiguousModelledParticipantComparator.
UnambiguousModelledEntityComparator(UnambiguousEntityBaseComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousModelledEntityComparator: Constructor for UnambiguousModelledEntityComparator.
UnambiguousModelledFeaturecomparator - Class in psidev.psi.mi.jami.utils.comparator.feature: Unambiguous ModelledFeature comparator.
UnambiguousModelledFeaturecomparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.feature.UnambiguousModelledFeaturecomparator
UnambiguousModelledInteractionComparator - Class in psidev.psi.mi.jami.utils.comparator.interaction: Unambiguous ModelledInteraction comparator.
UnambiguousModelledInteractionComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interaction.UnambiguousModelledInteractionComparator: Creates a new UnambiguousModelledInteractionComparator.
UnambiguousModelledParticipantComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Unambiguous biological participant comparator.
UnambiguousModelledParticipantComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousModelledParticipantComparator: Creates a new UnambiguousModelledParticipantComparator.
UnambiguousModelledParticipantInteractorComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Unambiguous biological participant comparator based on the interactor only.
UnambiguousModelledParticipantInteractorComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousModelledParticipantInteractorComparator
UnambiguousModelledParticipantPoolComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: unambiguous biological participant pool comparator.
UnambiguousModelledParticipantPoolComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousModelledParticipantPoolComparator
UnambiguousModelledParticipantPoolComparator(UnambiguousEntityBaseComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousModelledParticipantPoolComparator: Constructor for UnambiguousModelledParticipantPoolComparator.
UnambiguousMoleculeEffectorComparator - Class in psidev.psi.mi.jami.utils.comparator.cooperativity: Unambiguous Comparator for MoleculeEffector.
UnambiguousMoleculeEffectorComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.cooperativity.UnambiguousMoleculeEffectorComparator: Constructor for UnambiguousMoleculeEffectorComparator.
UnambiguousNucleicAcidComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Unambiguous nucleic acids comparator.
UnambiguousNucleicAcidComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousNucleicAcidComparator: Creates a new UnambiguousNucleicAcidComparator.
UnambiguousOrganismComparator - Class in psidev.psi.mi.jami.utils.comparator.organism: Unambiguous organism comparator.
UnambiguousOrganismComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.organism.UnambiguousOrganismComparator: Creates a new UnambiguousOrganismComparator.
UnambiguousParameterComparator - Class in psidev.psi.mi.jami.utils.comparator.parameter: Unambiguous parameter comparator.
UnambiguousParameterComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.parameter.UnambiguousParameterComparator: Constructor for UnambiguousParameterComparator.
UnambiguousParameterComparator(ParameterValueComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.parameter.UnambiguousParameterComparator: Constructor for UnambiguousParameterComparator.
UnambiguousParticipantBaseComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Unambiguous participant comparator It will first compare the interactors and stoichiometry using UnambiguousEntityComparator.
UnambiguousParticipantBaseComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousParticipantBaseComparator
UnambiguousParticipantBaseComparator(UnambiguousEntityBaseComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousParticipantBaseComparator: Constructor for UnambiguousParticipantBaseComparator.
UnambiguousParticipantComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Unambiguous generic Participant comparator Modelled participants come first and then experimental participants.
UnambiguousParticipantComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousParticipantComparator: Creates a UnambiguousParticipantComparator.
UnambiguousParticipantEvidenceComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Unambiguous Experimental participant comparator.
UnambiguousParticipantEvidenceComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousParticipantEvidenceComparator: Creates a new UnambiguousParticipantEvidenceComparator.
UnambiguousParticipantEvidenceInteractorComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Unambiguous experimental participant comparator based on the interactor only.
UnambiguousParticipantEvidenceInteractorComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousParticipantEvidenceInteractorComparator: Creates a new UnambiguousParticipantEvidenceInteractorComparator.
UnambiguousParticipantInteractorComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: It will compare the interactors using UnambiguousInteractorComparator.
UnambiguousParticipantInteractorComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousParticipantInteractorComparator: Creates a new UnambiguousParticipantInteractorComparator.
UnambiguousParticipantPoolComparator - Class in psidev.psi.mi.jami.utils.comparator.participant: Unambiguous participant pool comparator It will first compares basic participant properties using UnambiguousParticipantBaseComparator, then it will compare participant pool type using cv term comparator and then it will compare each participant candidate using UnambiguousEntityBaseComparator
UnambiguousParticipantPoolComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.participant.UnambiguousParticipantPoolComparator: Creates a new UnambiguousParticipantBaseComparator.
UnambiguousPolymerComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Unambiguous polymer comparator.
UnambiguousPolymerComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousPolymerComparator: Creates a new UnambiguousPolymerComparator.
UnambiguousPositionComparator - Class in psidev.psi.mi.jami.utils.comparator.range: Strict PositionComparator.
UnambiguousPositionComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.range.UnambiguousPositionComparator: Creates a new positionComparator with UnambiguousCvTermComparator
UnambiguousProteinComparator - Class in psidev.psi.mi.jami.utils.comparator.interactor: Unambiguous proteins comparator.
UnambiguousProteinComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousProteinComparator: Creates a new UnambiguousProteinComparator.
UnambiguousPublicationComparator - Class in psidev.psi.mi.jami.utils.comparator.publication: Unambiguous publication comparator.
UnambiguousPublicationComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.publication.UnambiguousPublicationComparator: Creates a new UnambiguousPublicationComparator based on UnambiguousExternalIdentifierComparator
UnambiguousRangeAndResultingSequenceComparator - Class in psidev.psi.mi.jami.utils.comparator.range: Unambiguous RangeComparator.
UnambiguousRangeAndResultingSequenceComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.range.UnambiguousRangeAndResultingSequenceComparator: Creates a new UnambiguousRangeAndResultingSequenceComparator with UnambiguousPositionComparator
UnambiguousRangeComparator - Class in psidev.psi.mi.jami.utils.comparator.range: Unambiguous RangeComparator.
UnambiguousRangeComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.range.UnambiguousRangeComparator: Creates a new DefaultRangeComparator with DefaultPositionComparator
UnambiguousVariableParameterComparator - Class in psidev.psi.mi.jami.utils.comparator.experiment: Unambiguous VariableParameter comparator It will first compare the description (case insensitive).
UnambiguousVariableParameterComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.experiment.UnambiguousVariableParameterComparator: Constructor for UnambiguousVariableParameterComparator.
UnambiguousXrefComparator - Class in psidev.psi.mi.jami.utils.comparator.xref: Strict Xref comparator It compares first the databases and then the ids (case sensitive) but ignores the version.
UnambiguousXrefComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.xref.UnambiguousXrefComparator: Constructor for UnambiguousXrefComparator.
undefined - psidev.psi.mi.jami.model.CurationDepth
UNDETERMINED - Static variable in interface psidev.psi.mi.jami.model.Position: Constant UNDETERMINED="undetermined"
UNDETERMINED_FULL - Static variable in interface psidev.psi.mi.jami.model.Position: Constant UNDETERMINED_FULL="undetermined sequence position"
UNDETERMINED_MI - Static variable in interface psidev.psi.mi.jami.model.Position: Constant UNDETERMINED_MI="MI:0339"
UNDETERMINED_POSITION_SYMBOL - Static variable in interface psidev.psi.mi.jami.model.Range: Constant UNDETERMINED_POSITION_SYMBOL="?"
unescapeDoubleQuote(String) - Static method in class psidev.psi.mi.jami.tab.utils.MitabUtils: unescapeDoubleQuote.
UNIMES - psidev.psi.mi.jami.bridges.uniprot.rest.SearchDatabase
Uniparc - Class in psidev.psi.mi.jami.bridges.uniprot.rest.response.model: Java class for anonymous complex type.
Uniparc() - Constructor for class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Uniparc
UNIPROT_FEATURE_IDENTIFIER - Static variable in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Constant UNIPROT_FEATURE_IDENTIFIER="Protein feature description from UniPro"{trunked}
UNIPROT_FEATURE_IDENTIFIER - Static variable in class psidev.psi.mi.jami.bridges.ols.utils.OlsUtils: Constant UNIPROT_FEATURE_IDENTIFIER="Protein feature description from UniPro"{trunked}
UNIPROT_ISOFORM_REGEX - Static variable in class psidev.psi.mi.jami.bridges.uniprot.util.UniprotUtils: Constant UNIPROT_ISOFORM_REGEX
UNIPROT_PRO_REGEX - Static variable in class psidev.psi.mi.jami.bridges.uniprot.util.UniprotUtils: Constant UNIPROT_PRO_REGEX
UNIPROT_REMOVED_QUALIFIER - Static variable in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalProteinUpdater: Constant UNIPROT_REMOVED_QUALIFIER="uniprot-removed-ac"
UniprotGeneFetcher - Class in psidev.psi.mi.jami.bridges.uniprot: Created with IntelliJ IDEA.
UniprotGeneFetcher() - Constructor for class psidev.psi.mi.jami.bridges.uniprot.UniprotGeneFetcher: Constructor for UniprotGeneFetcher.
UNIPROTKB - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant UNIPROTKB="uniprotkb"
UNIPROTKB_MI - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant UNIPROTKB_MI="MI:0486"
UNIPROTKB_SWISSPROT - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant UNIPROTKB_SWISSPROT="swiss-prot"
UNIPROTKB_SWISSPROT_MI - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant UNIPROTKB_SWISSPROT_MI="MI:1098"
UNIPROTKB_TREMBL - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant UNIPROTKB_TREMBL="trembl"
UNIPROTKB_TREMBL_MI - Static variable in interface psidev.psi.mi.jami.model.Xref: Constant UNIPROTKB_TREMBL_MI="MI:1099"
uniProtKBExclusion - Variable in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Entry
UniprotProteinAPIClient - Class in psidev.psi.mi.jami.bridges.uniprot.rest: Client for the Uniprot Protein API
UniprotProteinAPIClient() - Constructor for class psidev.psi.mi.jami.bridges.uniprot.rest.UniprotProteinAPIClient
UniprotProteinAPIClientException - Exception in psidev.psi.mi.jami.bridges.uniprot.rest
UniprotProteinAPIClientException() - Constructor for exception psidev.psi.mi.jami.bridges.uniprot.rest.UniprotProteinAPIClientException
UniprotProteinAPIClientException(String) - Constructor for exception psidev.psi.mi.jami.bridges.uniprot.rest.UniprotProteinAPIClientException
UniprotProteinAPIClientException(String, Throwable) - Constructor for exception psidev.psi.mi.jami.bridges.uniprot.rest.UniprotProteinAPIClientException
UniprotProteinAPIClientException(Throwable) - Constructor for exception psidev.psi.mi.jami.bridges.uniprot.rest.UniprotProteinAPIClientException
UniprotProteinFetcher - Class in psidev.psi.mi.jami.bridges.uniprot: Created with IntelliJ IDEA.
UniprotProteinFetcher() - Constructor for class psidev.psi.mi.jami.bridges.uniprot.UniprotProteinFetcher: Constructor for UniprotProteinFetcher.
UniprotTaxonomyFetcher - Class in psidev.psi.mi.jami.bridges.uniprot.taxonomy: Created with IntelliJ IDEA.
UniprotTaxonomyFetcher() - Constructor for class psidev.psi.mi.jami.bridges.uniprot.taxonomy.UniprotTaxonomyFetcher
UniprotUtils - Class in psidev.psi.mi.jami.bridges.uniprot.util: Uniprot utils
UniprotUtils() - Constructor for class psidev.psi.mi.jami.bridges.uniprot.util.UniprotUtils
UnisaveClient - Class in psidev.psi.mi.jami.bridges.unisave: Client to query unisave and collect sequence versions or sequence from a particular version
UnisaveClient() - Constructor for class psidev.psi.mi.jami.bridges.unisave.UnisaveClient: Constructor for UnisaveClient.
UNKNOWN_DATABASE - Static variable in class psidev.psi.mi.jami.tab.utils.MitabUtils: Constant UNKNOWN_DATABASE="unknown"
UNKNOWN_GROUP - Static variable in interface psidev.psi.mi.jami.bridges.imex.ImexCentralClient: Constant UNKNOWN_GROUP=11
UNKNOWN_ID - Static variable in class psidev.psi.mi.jami.tab.utils.MitabUtils: Constant UNKNOWN_ID="unknown"
UNKNOWN_INTERACTOR - Static variable in interface psidev.psi.mi.jami.model.Interactor: Constant UNKNOWN_INTERACTOR="unknown participant"
UNKNOWN_INTERACTOR_MI - Static variable in interface psidev.psi.mi.jami.model.Interactor: Constant UNKNOWN_INTERACTOR_MI="MI:0329"
UNKNOWN_NAME - Static variable in class psidev.psi.mi.jami.tab.utils.MitabUtils: Constant UNKNOWN_NAME="unspecified name"
UNKNOWN_TYPE - Static variable in class psidev.psi.mi.jami.tab.utils.MitabUtils: Constant UNKNOWN_TYPE="unknown"
UNKNOWN_USER - Static variable in interface psidev.psi.mi.jami.bridges.imex.ImexCentralClient: Constant UNKNOWN_USER=10
unmarshallInteraction() - Method in class psidev.psi.mi.jami.xml.io.parser.AbstractPsiXmlParser: unmarshallInteraction.
UNRESERVED_STRING - Static variable in interface psidev.psi.mi.jami.tab.io.parser.MitabLineParserConstants: RegularExpression Id.
UNSPECIFIED - Static variable in class psidev.psi.mi.jami.xml.utils.PsiXmlUtils: Constant UNSPECIFIED="unspecified"
UNSPECIFIED_METHOD - Static variable in interface psidev.psi.mi.jami.model.Experiment: Constant UNSPECIFIED_METHOD="unspecified method"
UNSPECIFIED_METHOD_MI - Static variable in interface psidev.psi.mi.jami.model.Experiment: Constant UNSPECIFIED_METHOD_MI="MI:0686"
UNSPECIFIED_ROLE - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant UNSPECIFIED_ROLE="unspecified role"
UNSPECIFIED_ROLE_MI - Static variable in interface psidev.psi.mi.jami.model.Participant: Constant UNSPECIFIED_ROLE_MI="MI:0499"
UPDATE_DATE - psidev.psi.mi.jami.tab.MitabColumnName
updateImexIdentifierForExperiment(Experiment, String) - Method in interface psidev.psi.mi.jami.imex.actions.ImexAssigner: Add a IMEx primary reference to the experiment
updateImexIdentifierForExperiment(Experiment, String) - Method in class psidev.psi.mi.jami.imex.actions.impl.ImexAssignerImpl: Add a IMEx primary reference to the experiment
updateImexIdentifierForInteraction(InteractionEvidence, String) - Method in interface psidev.psi.mi.jami.imex.actions.ImexAssigner: Add a IMEx primary reference to the interaction
updateImexIdentifierForInteraction(InteractionEvidence, String) - Method in class psidev.psi.mi.jami.imex.actions.impl.ImexAssignerImpl: Add a IMEx primary reference to the interaction
UpdateLineColumn(char) - Method in class psidev.psi.mi.jami.tab.io.parser.JavaCharStream
UpdateLineColumn(char) - Method in class psidev.psi.mi.jami.tab.io.parser.SimpleCharStream: UpdateLineColumn.
updatePublicationAdminGroup(String, String, Operation, String) - Method in class psidev.psi.mi.jami.bridges.imex.DefaultImexCentralClient: Update the publication admin group given a valid pubmed identifier and a valid operator.
updatePublicationAdminGroup(String, String, Operation, String) - Method in interface psidev.psi.mi.jami.bridges.imex.ImexCentralClient: Update the publication admin group given a valid pubmed identifier and a valid operator.
updatePublicationAdminGroup(String, String, Operation, String) - Method in class psidev.psi.mi.jami.bridges.imex.mock.MockImexCentralClient: Update the publication admin group given a valid pubmed identifier and a valid operator.
updatePublicationAdminUser(String, String, Operation, String) - Method in class psidev.psi.mi.jami.bridges.imex.DefaultImexCentralClient: Update the publication admin user given a valid pubmed identifier and a valid operator.
updatePublicationAdminUser(String, String, Operation, String) - Method in interface psidev.psi.mi.jami.bridges.imex.ImexCentralClient: Update the publication admin user given a valid pubmed identifier and a valid operator.
updatePublicationAdminUser(String, String, Operation, String) - Method in class psidev.psi.mi.jami.bridges.imex.mock.MockImexCentralClient: Update the publication admin user given a valid pubmed identifier and a valid operator.
updatePublicationIdentifier(String, String, String, String) - Method in class psidev.psi.mi.jami.bridges.imex.DefaultImexCentralClient: Update publication pubmed identifier, DOI number or internal identifier of an existing record in IMEx central.
updatePublicationIdentifier(String, String, String, String) - Method in interface psidev.psi.mi.jami.bridges.imex.ImexCentralClient: Update publication pubmed identifier, DOI number or internal identifier of an existing record in IMEx central.
updatePublicationIdentifier(String, String, String, String) - Method in class psidev.psi.mi.jami.bridges.imex.mock.MockImexCentralClient: Update publication pubmed identifier, DOI number or internal identifier of an existing record in IMEx central.
updatePublicationStatus(String, String, PublicationStatus) - Method in class psidev.psi.mi.jami.bridges.imex.DefaultImexCentralClient: Update the status of a publication associated with a valid pubmed identifier already registered in IMEx central
updatePublicationStatus(String, String, PublicationStatus) - Method in interface psidev.psi.mi.jami.bridges.imex.ImexCentralClient: Update the status of a publication associated with a valid pubmed identifier already registered in IMEx central
updatePublicationStatus(String, String, PublicationStatus) - Method in class psidev.psi.mi.jami.bridges.imex.mock.MockImexCentralClient: Update the status of a publication associated with a valid pubmed identifier already registered in IMEx central
updateRangePositions() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEnricher: updateRangePositions.
updateRangePositions() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureEvidenceUpdater: updateRangePositions.
updateRangePositions() - Method in class psidev.psi.mi.jami.enricher.impl.minimal.MinimalFeatureUpdater: updateRangePositions.
URL - psidev.psi.mi.jami.datasource.SourceCategory
URL - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant URL="url"
URL_MI - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant URL_MI="MI:0614"
URL_PREFIX_REGEXP - Static variable in interface psidev.psi.mi.jami.datasource.MIFileDataSource: Constant URL_PREFIX_REGEXP
URL_SAFE - Static variable in class psidev.psi.mi.jami.utils.checksum.Base64: Encode using Base64-like encoding that is URL- and Filename-safe as described in Section 4 of RFC3548: http://www.faqs.org/rfcs/rfc3548.html.
USER_NOT_AUTHORIZED - Static variable in interface psidev.psi.mi.jami.bridges.imex.ImexCentralClient: Constant USER_NOT_AUTHORIZED=2
USPTO - psidev.psi.mi.jami.bridges.uniprot.rest.SearchDatabase

V

v2_5 - psidev.psi.mi.jami.tab.MitabVersion
v2_5_3 - psidev.psi.mi.jami.xml.PsiXmlVersion
v2_5_4 - psidev.psi.mi.jami.xml.PsiXmlVersion
v2_6 - psidev.psi.mi.jami.tab.MitabVersion
v2_7 - psidev.psi.mi.jami.tab.MitabVersion
v2_8 - psidev.psi.mi.jami.tab.MitabVersion
v3_0_0 - psidev.psi.mi.jami.xml.PsiXmlVersion
validateRange(Range, String) - Static method in class psidev.psi.mi.jami.utils.RangeUtils: Method to check if the range is valid or not.
validateRangePosition(Position, String) - Static method in class psidev.psi.mi.jami.utils.PositionUtils: Check if the positions and the position status are consistent.
validateSyntax() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: validateSyntax.
validateSyntax() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: validateSyntax.
validateSyntax() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: validateSyntax.
validateSyntax() - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: validateSyntax.
validateSyntax() - Method in interface psidev.psi.mi.jami.datasource.MIFileDataSource: Validate the syntax of this MIFileDataSource.
validateSyntax() - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: validateSyntax.
validateSyntax() - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: validateSyntax.
validateSyntax() - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: validateSyntax.
validateSyntax() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Validate the syntax of this MIFileDataSource.
validateSyntax() - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: validateSyntax.
validateSyntax(MIFileParserListener) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvSource: Validate the syntax of this MIFileDataSource and uses the provided MIFileParserListener to listen to the events.
validateSyntax(MIFileParserListener) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.AbstractCsvStreamSource: Validate the syntax of this MIFileDataSource and uses the provided MIFileParserListener to listen to the events.
validateSyntax(MIFileParserListener) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvMixedEvidenceSource: Validate the syntax of this MIFileDataSource and uses the provided MIFileParserListener to listen to the events.
validateSyntax(MIFileParserListener) - Method in class psidev.psi.mi.jami.crosslink.extension.datasource.CsvNaryEvidenceSource: Validate the syntax of this MIFileDataSource and uses the provided MIFileParserListener to listen to the events.
validateSyntax(MIFileParserListener) - Method in interface psidev.psi.mi.jami.datasource.MIFileDataSource: Validate the syntax of this MIFileDataSource and uses the provided MIFileParserListener to listen to the events.
validateSyntax(MIFileParserListener) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource: Validate the syntax of this MIFileDataSource and uses the provided MIFileParserListener to listen to the events.
validateSyntax(MIFileParserListener) - Method in class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabStreamSource: Validate the syntax of this MIFileDataSource and uses the provided MIFileParserListener to listen to the events.
validateSyntax(MIFileParserListener) - Method in class psidev.psi.mi.jami.tab.extension.datasource.DefaultMitabStreamSource: Validate the syntax of this MIFileDataSource and uses the provided MIFileParserListener to listen to the events.
validateSyntax(MIFileParserListener) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Validate the syntax of this MIFileDataSource and uses the provided MIFileParserListener to listen to the events.
validateSyntax(MIFileParserListener) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource: Validate the syntax of this MIFileDataSource and uses the provided MIFileParserListener to listen to the events.
VALIDATION_FEATURE - Static variable in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream: Constant VALIDATION_FEATURE="http://xml.org/sax/features/validation"
VALIDATION_REGEXP - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant VALIDATION_REGEXP="id-validation-regexp"
VALIDATION_REGEXP_MI - Static variable in interface psidev.psi.mi.jami.model.Annotation: Constant VALIDATION_REGEXP_MI="MI:0628"
value - Variable in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.PropertyType
valueOf(String) - Static method in enum psidev.psi.mi.jami.bridges.imex.Operation: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum psidev.psi.mi.jami.bridges.imex.PublicationStatus: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum psidev.psi.mi.jami.bridges.uniprot.rest.SearchDatabase: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum psidev.psi.mi.jami.commons.MIFileType: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum psidev.psi.mi.jami.crosslink.CsvType: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum psidev.psi.mi.jami.crosslink.io.parser.CrossLinkCSVColumns: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum psidev.psi.mi.jami.datasource.SourceCategory: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum psidev.psi.mi.jami.enricher.listener.EnrichmentStatus: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum psidev.psi.mi.jami.enricher.util.diff.diff_match_patch.Operation: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum psidev.psi.mi.jami.enricher.util.diff.Operation: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum psidev.psi.mi.jami.factory.ComplexExpansionType: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum psidev.psi.mi.jami.factory.InteractorCategory: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum psidev.psi.mi.jami.json.MIJsonType: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum psidev.psi.mi.jami.listener.comparator.event.ComplexComparisonEvent.EventType: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum psidev.psi.mi.jami.model.AllostericEffectorType: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum psidev.psi.mi.jami.model.ComplexType: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum psidev.psi.mi.jami.model.CurationDepth: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum psidev.psi.mi.jami.model.InteractionCategory: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum psidev.psi.mi.jami.tab.io.parser.TokenKind: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum psidev.psi.mi.jami.tab.MitabColumnName: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum psidev.psi.mi.jami.tab.MitabVersion: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum psidev.psi.mi.jami.xml.PsiXmlType: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum psidev.psi.mi.jami.xml.PsiXmlVersion: Returns the enum constant of this type with the specified name.
values() - Static method in enum psidev.psi.mi.jami.bridges.imex.Operation: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum psidev.psi.mi.jami.bridges.imex.PublicationStatus: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum psidev.psi.mi.jami.bridges.uniprot.rest.SearchDatabase: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum psidev.psi.mi.jami.commons.MIFileType: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum psidev.psi.mi.jami.crosslink.CsvType: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum psidev.psi.mi.jami.crosslink.io.parser.CrossLinkCSVColumns: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum psidev.psi.mi.jami.datasource.SourceCategory: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum psidev.psi.mi.jami.enricher.listener.EnrichmentStatus: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum psidev.psi.mi.jami.enricher.util.diff.diff_match_patch.Operation: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum psidev.psi.mi.jami.enricher.util.diff.Operation: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum psidev.psi.mi.jami.factory.ComplexExpansionType: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum psidev.psi.mi.jami.factory.InteractorCategory: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum psidev.psi.mi.jami.json.MIJsonType: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum psidev.psi.mi.jami.listener.comparator.event.ComplexComparisonEvent.EventType: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum psidev.psi.mi.jami.model.AllostericEffectorType: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum psidev.psi.mi.jami.model.ComplexType: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum psidev.psi.mi.jami.model.CurationDepth: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum psidev.psi.mi.jami.model.InteractionCategory: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum psidev.psi.mi.jami.tab.io.parser.TokenKind: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum psidev.psi.mi.jami.tab.MitabColumnName: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum psidev.psi.mi.jami.tab.MitabVersion: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum psidev.psi.mi.jami.xml.PsiXmlType: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum psidev.psi.mi.jami.xml.PsiXmlVersion: Returns an array containing the constants of this enum type, in the order they are declared.
VariableParameter - Interface in psidev.psi.mi.jami.model: A VariableParameter is a variable experimental parameter such as a drug treatment where several drug concentration were used and that affects some interactions (dynamic interactions).
VariableParameterCloner - Class in psidev.psi.mi.jami.utils.clone: Utility class for cloning VariableParameters
VariableParameterCloner() - Constructor for class psidev.psi.mi.jami.utils.clone.VariableParameterCloner
VariableParameterCollectionComparator - Class in psidev.psi.mi.jami.utils.comparator.experiment: Comparator for a collection of variableParameters
VariableParameterCollectionComparator(VariableParameterComparator) - Constructor for class psidev.psi.mi.jami.utils.comparator.experiment.VariableParameterCollectionComparator: Creates a new CollectionComparator.
VariableParameterComparator - Class in psidev.psi.mi.jami.utils.comparator.experiment: Basic comparator for VariableParameterComparator It will first compare the description (case insensitive).
VariableParameterComparator(Comparator<CvTerm>) - Constructor for class psidev.psi.mi.jami.utils.comparator.experiment.VariableParameterComparator: Constructor for VariableParameterComparator.
VariableParameterComparator(Comparator<CvTerm>, CollectionComparator<VariableParameterValue>) - Constructor for class psidev.psi.mi.jami.utils.comparator.experiment.VariableParameterComparator: Constructor for VariableParameterComparator.
VariableParameterValue - Interface in psidev.psi.mi.jami.model: A value for a specific variableParameter in a specific experiment - eg - the concentration of a specific drug.
VariableParameterValueCollectionComparator - Class in psidev.psi.mi.jami.utils.comparator.experiment: Comparator for a collection of variableParameterValues
VariableParameterValueCollectionComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.experiment.VariableParameterValueCollectionComparator: Creates a new CollectionComparator.
VariableParameterValueComparator - Class in psidev.psi.mi.jami.utils.comparator.experiment: Simple Comparator for VariableParameterValue It will first compare the value (case insensitive) and then the order.
VariableParameterValueComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.experiment.VariableParameterValueComparator
VariableParameterValueSet - Interface in psidev.psi.mi.jami.model: Set of variable parameter values applied together in a same experiment
VariableParameterValueSetCollectionComparator - Class in psidev.psi.mi.jami.utils.comparator.experiment: Comparator for a collection of variableParameterValueSet
VariableParameterValueSetCollectionComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.experiment.VariableParameterValueSetCollectionComparator: Creates a new CollectionComparator.
VariableParameterValueSetComparator - Class in psidev.psi.mi.jami.utils.comparator.experiment: Simple comparator for VariableParameterValueSet It will use VariableParameterValueComparator to compare each variableParameterValue independently from the order.
VariableParameterValueSetComparator() - Constructor for class psidev.psi.mi.jami.utils.comparator.experiment.VariableParameterValueSetComparator: Creates a new variableParameterValue CollectionComparator.
VARIANT - Static variable in interface psidev.psi.mi.jami.model.Feature: Constant VARIANT="variant"
VARIANT_MI - Static variable in interface psidev.psi.mi.jami.model.Feature: Constant VARIANT_MI="MI:1241"
version - Variable in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.DbReferenceType
version - Variable in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.Uniparc
VERSION_ATTRIBUTE - Static variable in class psidev.psi.mi.jami.xml.utils.PsiXmlUtils: Constant VERSION_ATTRIBUTE="version"
versionI - Variable in class psidev.psi.mi.jami.bridges.uniprot.rest.response.model.DbReferenceType

W

warning(SAXParseException) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream
warning(SAXParseException) - Method in class psidev.psi.mi.jami.xml.model.extension.datasource.DefaultPsiXmlStreamSource
write(byte[], int, int) - Method in class psidev.psi.mi.jami.utils.checksum.Base64.OutputStream: Calls Base64.OutputStream.write(int) repeatedly until len bytes are written.
write(int) - Method in class psidev.psi.mi.jami.utils.checksum.Base64.OutputStream: Writes the byte to the output stream after converting to/from Base64 notation.
write(C) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlCooperativeEffectWriter: write.
write(F) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonFeatureWriter: write.
write(F) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlFeatureWriter: write.
write(I) - Method in class psidev.psi.mi.jami.json.binary.AbstractMIJsonWriter: write.
write(I) - Method in class psidev.psi.mi.jami.json.binary.elements.SimpleJsonBinaryInteractionWriter: write.
write(I) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionWriter: write.
write(I) - Method in class psidev.psi.mi.jami.json.nary.AbstractMIJsonWriter: write.
write(I) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlMixWriter: Writes an interaction
write(I) - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlMixWriter: Writes an interaction
write(String) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlAvailabilityWriter: write.
write(Collection) - Method in class psidev.psi.mi.jami.tab.io.writer.DefaultMitabWriter: write.
write(Collection) - Method in class psidev.psi.mi.jami.xml.io.writer.DefaultXmlWriter: write.
write(Collection<? extends I>) - Method in class psidev.psi.mi.jami.json.binary.AbstractMIJsonWriter: write.
write(Collection<? extends I>) - Method in class psidev.psi.mi.jami.json.nary.AbstractMIJsonWriter: write.
write(Collection<? extends I>) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlMixWriter: Writes a collection of Interaction objects
write(Collection<? extends I>) - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlMixWriter: Writes a collection of Interaction objects
write(Collection<? extends Interaction>) - Method in class psidev.psi.mi.jami.html.MIHtmlWriter: write
write(Collection<? extends T>) - Method in interface psidev.psi.mi.jami.datasource.InteractionWriter: Writes a collection of Interaction objects
write(Collection<? extends T>) - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: write
write(Collection<? extends T>) - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitab25BinaryWriter: Writes a collection of binary interactions.
write(Collection<? extends T>) - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitabWriter: write.
write(Collection<? extends T>) - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Writes a collection of Interaction objects
write(Iterator) - Method in class psidev.psi.mi.jami.tab.io.writer.DefaultMitabWriter: Writes Interaction objects using iterator
write(Iterator) - Method in class psidev.psi.mi.jami.xml.io.writer.DefaultXmlWriter: Writes Interaction objects using iterator
write(Iterator<? extends I>) - Method in class psidev.psi.mi.jami.json.binary.AbstractMIJsonWriter: Writes Interaction objects using iterator
write(Iterator<? extends I>) - Method in class psidev.psi.mi.jami.json.nary.AbstractMIJsonWriter: Writes Interaction objects using iterator
write(Iterator<? extends I>) - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlMixWriter: Writes Interaction objects using iterator
write(Iterator<? extends I>) - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlMixWriter: Writes Interaction objects using iterator
write(Iterator<? extends Interaction>) - Method in class psidev.psi.mi.jami.html.MIHtmlWriter: Writes Interaction objects using iterator
write(Iterator<? extends T>) - Method in interface psidev.psi.mi.jami.datasource.InteractionWriter: Writes Interaction objects using iterator
write(Iterator<? extends T>) - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: Writes Interaction objects using iterator
write(Iterator<? extends T>) - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitab25BinaryWriter: Writes Interaction objects using iterator
write(Iterator<? extends T>) - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitabWriter: Writes Interaction objects using iterator
write(Iterator<? extends T>) - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Writes Interaction objects using iterator
write(Set<Feature>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlBindingFeaturesWriter: write.
write(Set<Feature>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlInferredInteractionWriter: write.
write(P) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonParticipantWriter: write.
write(P) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: write.
write(P) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlParticipantCandidateWriter: write.
write(BinaryInteraction) - Method in class psidev.psi.mi.jami.json.binary.MIJsonBinaryWriter: write.
write(BinaryInteraction) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25BinaryWriter: Writes a binary interaction.
write(BinaryInteraction) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab26BinaryWriter: Writes a binary interaction.
write(BinaryInteraction) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab27BinaryWriter: Writes a binary interaction.
write(BinaryInteraction) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab28BinaryWriter: Writes a binary interaction.
write(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.json.binary.elements.SimpleJsonBinaryInteractionEvidenceWriter: write.
write(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.json.binary.elements.SimpleJsonModelledBinaryInteractionWriter: write.
write(Alias) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlAliasWriter: write.
write(Annotation) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonAnnotationWriter: write.
write(Annotation) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlAnnotationWriter: write.
write(CausalRelationship, Participant) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlCausalRelationshipWriter: write.
write(CausalRelationship, Participant) - Method in interface psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlCausalRelationshipWriter: write.
write(Checksum) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlChecksumWriter: write.
write(Confidence) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonConfidenceWriter: write.
write(Confidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml253.XmlConfidenceWriter: write.
write(Confidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml254.XmlConfidenceWriter: write.
write(Confidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlConfidenceWriter: write.
write(Confidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlModelledConfidenceWriter: write.
write(Confidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlConfidenceWriter: write.
write(CooperativityEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlCooperativityEvidenceWriter: write.
write(CvTerm) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonCvTermWriter: write.
write(CvTerm, String) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlCvTermWriter: write.
write(Experiment) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: write.
write(Interaction) - Method in class psidev.psi.mi.jami.html.MIHtmlWriter: write
write(Interaction) - Method in class psidev.psi.mi.jami.json.nary.MIJsonWriter: write.
write(Interaction) - Method in class psidev.psi.mi.jami.tab.io.writer.DefaultMitabWriter: write.
write(Interaction) - Method in class psidev.psi.mi.jami.tab.io.writer.extended.Mitab25Writer: write.
write(Interaction) - Method in class psidev.psi.mi.jami.tab.io.writer.Mitab25Writer: write.
write(Interaction) - Method in class psidev.psi.mi.jami.xml.io.writer.DefaultXmlWriter: write.
write(InteractionEvidence) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonExperimentWriter: write.
write(Interactor) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractorWriter: write.
write(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlInteractorWriter: write.
write(Organism) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonOrganismWriter: write.
write(Organism) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlOrganismWriter: write.
write(Parameter) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonParameterWriter: write.
write(Parameter) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParameterWriter: write.
write(Position) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlPositionWriter: write.
write(Publication) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonPublicationWriter: write.
write(Publication) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlPublicationWriter: write.
write(Range) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonRangeWriter: write.
write(Range) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlRangeWriter: write.
write(Range, Feature) - Method in interface psidev.psi.mi.jami.json.elements.JsonRangeWriter: write.
write(Range, Feature) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonRangeWriter: write.
write(ResultingSequence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlResultingSequenceWriter: write.
write(Source) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.AbstractXmlSourceWriter: write.
write(Stoichiometry) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonStoichiometryWriter: write.
write(Stoichiometry) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlStoichiometryWriter: write.
write(VariableParameter) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlVariableParameterWriter: write.
write(VariableParameterValue) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlVariableParameterValueWriter: write.
write(VariableParameterValueSet) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlVariableParameterValueSetWriter: write.
write(Xref) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonIdentifierWriter: write.
write(Xref, String) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlDbXrefWriter: write.
write(AbstractExperimentalInteractor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentalInteractorWriter: write.
write(AbstractInferredInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.XmlInferredInteractionWriter: write.
write(T) - Method in interface psidev.psi.mi.jami.datasource.InteractionWriter: Writes an interaction
write(T) - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: write
write(T) - Method in interface psidev.psi.mi.jami.json.elements.JsonElementWriter: write.
write(T) - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitab25BinaryWriter: Writes a binary interaction.
write(T) - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitabWriter: write.
write(T) - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: Writes an interaction
write(T) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: write.
write(T) - Method in interface psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlElementWriter: write.
write(T, String) - Method in interface psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlVariableNameWriter: write.
WRITE_COMPLEX_AS_INTERACTOR_OPTION - Static variable in class psidev.psi.mi.jami.xml.model.extension.factory.options.PsiXmlWriterOptions: The option to write complexes as interactions (false) or as interactors (true) when a participant is in fact a sub-complex.
WRITE_HTML_HEADER_BODY_OPTION - Static variable in class psidev.psi.mi.jami.html.utils.HtmlWriterOptions: This option is for writing a header and body.
writeAffectedInteractionList(C) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlCooperativeEffectWriter: writeAffectedInteractionList.
writeAlias(P, Alias) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: This methods write the dbsource, alias name and alias type of an alias.
writeAlias(Alias) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.AbstractMitabColumnFeeder: This methods write the dbsource, alias name and alias type of an alias
writeAlias(Alias) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.extended.DefaultExtendedMitabColumnFeeder: This methods write the dbsource, alias name and alias type of an alias
writeAlias(Alias) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.extended.ExtendedMitabInteractionEvidenceFeeder: This methods write the dbsource, alias name and alias type of an alias
writeAlias(Alias) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.extended.ExtendedMitabModelledInteractionFeeder: This methods write the dbsource, alias name and alias type of an alias
writeAlias(Alias) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: This methods write the dbsource, alias name and alias type of an alias
writeAlias(ModelledParticipant, Alias) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.extended.ExtendedMitabModelledInteractionFeeder: This methods write the dbsource, alias name and alias type of an alias.
writeAlias(ModelledParticipant, Alias) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.MitabModelledInteractionFeeder: This methods write the dbsource, alias name and alias type of an alias.
writeAlias(ParticipantEvidence, Alias) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.extended.ExtendedMitabInteractionEvidenceFeeder: This methods write the dbsource, alias name and alias type of an alias.
writeAlias(ParticipantEvidence, Alias) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.MitabInteractionEvidenceFeeder: This methods write the dbsource, alias name and alias type of an alias.
writeAlias(Participant, Alias) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.DefaultMitabColumnFeeder: This methods write the dbsource, alias name and alias type of an alias.
writeAlias(Participant, Alias) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.extended.DefaultExtendedMitabColumnFeeder: This methods write the dbsource, alias name and alias type of an alias.
writeAliases(P) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.AbstractMitabColumnFeeder: writeAliases.
writeAliases(P) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: This method writes all the aliases of the participant
writeAllFeatures(Collection<F>) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonParticipantWriter: writeAllFeatures.
writeAllIdentifiers(I) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionEvidenceWriter: writeAllIdentifiers.
writeAllIdentifiers(I) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionWriter: writeAllIdentifiers.
writeAllostericEffector(Allostery) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlAllosteryWriter: writeAllostericEffector.
writeAllostericMechanism(Allostery) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlAllosteryWriter: writeAllostericMechanism.
writeAllostericMolecule(Allostery) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlAllosteryWriter: writeAllostericMolecule.
writeAllosteryType(Allostery) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlAllosteryWriter: writeAllosteryType.
writeAllPublicationAttributes(Publication) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlPublicationWriter: writeAllPublicationAttributes.
writeAllPublicationAttributes(Publication) - Method in interface psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlPublicationWriter: writeAllPublicationAttributes.
writeAllPublicationAttributes(Publication, Collection<Annotation>) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlPublicationWriter: writeAllPublicationAttributes.
writeAllPublicationAttributes(Publication, Collection<Annotation>) - Method in interface psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlPublicationWriter: writeAllPublicationAttributes.
writeAlternativeIdentifiers(P) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.AbstractMitabColumnFeeder: writeAlternativeIdentifiers.
writeAlternativeIdentifiers(P) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: This method writes all the remaining identifiers (ignore the first identifier) of the participant
writeAnnotation(String, String, String) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlPublicationWriter: writeAnnotation.
writeAnnotation(Annotation) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.AbstractMitabColumnFeeder: Writes an annotation
writeAnnotation(Annotation) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: Writes an annotation
writeAnnotations(Collection<Annotation>) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonExperimentWriter: writeAnnotations.
writeAttribute(String, String) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: writeAttribute.
writeAttribute(String, String, String) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlFeatureWriter: writeAttribute.
writeAttributes(C) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlCooperativeEffectWriter: writeAttributes.
writeAttributes(F) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlFeatureWriter: writeAttributes.
writeAttributes(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlModelledInteractionWriter: writeAttributes.
writeAttributes(P) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: writeAttributes.
writeAttributes(BinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlBasicBinaryInteractionWriter: writeAttributes.
writeAttributes(BinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlBasicBinaryInteractionWriter: writeAttributes.
writeAttributes(BinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlBasicBinaryInteractionWriter: writeAttributes.
writeAttributes(BinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlBasicBinaryInteractionWriter: writeAttributes.
writeAttributes(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlBinaryInteractionEvidenceWriter: writeAttributes.
writeAttributes(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlBinaryInteractionEvidenceWriter: writeAttributes.
writeAttributes(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlBinaryInteractionEvidenceWriter: writeAttributes.
writeAttributes(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlBinaryInteractionEvidenceWriter: writeAttributes.
writeAttributes(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlBinaryInteractionEvidenceWriter: writeAttributes.
writeAttributes(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlBinaryInteractionEvidenceWriter: writeAttributes.
writeAttributes(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlBinaryInteractionEvidenceWriter: writeAttributes.
writeAttributes(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlBinaryInteractionEvidenceWriter: writeAttributes.
writeAttributes(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlModelledBinaryInteractionWriter: writeAttributes.
writeAttributes(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlModelledBinaryInteractionWriter: writeAttributes.
writeAttributes(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlModelledBinaryInteractionWriter: writeAttributes.
writeAttributes(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlModelledBinaryInteractionWriter: writeAttributes.
writeAttributes(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlModelledBinaryInteractionWriter: writeAttributes.
writeAttributes(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlModelledBinaryInteractionWriter: writeAttributes.
writeAttributes(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlModelledBinaryInteractionWriter: writeAttributes.
writeAttributes(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlModelledBinaryInteractionWriter: writeAttributes.
writeAttributes(Experiment) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: writeAttributes.
writeAttributes(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlInteractorWriter: writeAttributes.
writeAttributes(Source) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.AbstractXmlSourceWriter: writeAttributes.
writeAttributes(T) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: writeAttributes.
writeAvailability(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlModelledInteractionWriter: writeAvailability.
writeAvailability(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlBinaryInteractionEvidenceWriter: writeAvailability.
writeAvailability(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlBinaryInteractionEvidenceWriter: writeAvailability.
writeAvailability(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlBinaryInteractionEvidenceWriter: writeAvailability.
writeAvailability(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlBinaryInteractionEvidenceWriter: writeAvailability.
writeAvailability(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlBinaryInteractionEvidenceWriter: writeAvailability.
writeAvailability(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlBinaryInteractionEvidenceWriter: writeAvailability.
writeAvailability(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlBinaryInteractionEvidenceWriter: writeAvailability.
writeAvailability(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlBinaryInteractionEvidenceWriter: writeAvailability.
writeAvailability(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlInteractionEvidenceWriter: writeAvailability.
writeAvailability(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlInteractionEvidenceWriter: writeAvailability.
writeAvailability(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlInteractionEvidenceWriter: writeAvailability.
writeAvailability(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlInteractionEvidenceWriter: writeAvailability.
writeAvailability(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlInteractionEvidenceWriter: writeAvailability.
writeAvailability(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlInteractionEvidenceWriter: writeAvailability.
writeAvailability(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlInteractionEvidenceWriter: writeAvailability.
writeAvailability(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlInteractionEvidenceWriter: writeAvailability.
writeAvailability(T) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: writeAvailability.
writeAvailability(T) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlInteractionWriter: writeAvailability.
writeAvailabilityDescription(String) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionEvidenceWriter: writeAvailabilityDescription.
writeAvailabilityRef(String) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionEvidenceWriter: writeAvailabilityRef.
writeBibRef(Source) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.AbstractXmlSourceWriter: writeBibRef.
writeBibrefContent(Publication) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlPublicationWriter: writeBibrefContent.
writeBibrefContent(Publication) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25.XmlPublicationWriter: writeBibrefContent.
writeBibrefContent(Publication) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlPublicationWriter: writeBibrefContent.
writeBinary(T, P, P) - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitab25BinaryWriter: Writes the binary interaction and its participants in MITAB 2.5
writeBinary(T, P, P) - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitab26BinaryWriter: Writes the binary interaction and its participants in MITAB 2.5
writeBinary(T, P, P) - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitab27BinaryWriter: Writes the binary interaction and its participants in MITAB 2.5
writeBinary(T, P, P) - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitab28BinaryWriter: Writes the binary interaction and its participants in MITAB 2.5
writeBiologicalRole(P) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.AbstractMitabColumnFeeder: writeBiologicalRole.
writeBiologicalRole(P) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: Writes the biological role of a participant
writeBiologicalRole(P) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: writeBiologicalRole.
writeCausalRelationships(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlInteractionEvidenceWriter: writeCausalRelationships.
writeCausalRelationships(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledInteractionWriter: writeCausalRelationships.
writeCausalRelationships(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlInteractionEvidenceWriter: writeCausalRelationships.
writeCausalRelationships(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlModelledInteractionWriter: writeCausalRelationships.
writeCausalStatement(CausalRelationship) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlCausalRelationshipWriter: writeCausalStatement.
writeChecksum(Checksum) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.AbstractMitabColumnFeeder: Writes the checksum
writeChecksum(Checksum) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: Writes the checksum
writeCompleteNamesElement(String, String, Collection<Alias>, XMLStreamWriter, PsiXmlElementWriter<Alias>) - Static method in class psidev.psi.mi.jami.xml.utils.PsiXmlUtils: writeCompleteNamesElement.
writeCompleteNamesForExperiment(NamedExperiment, XMLStreamWriter, PsiXmlElementWriter<Alias>) - Static method in class psidev.psi.mi.jami.xml.utils.PsiXmlUtils: writeCompleteNamesForExperiment.
writeComplex(Complex) - Method in class psidev.psi.mi.jami.json.binary.AbstractMIJsonBinaryWriter: writeComplex.
writeComplex(Complex) - Method in class psidev.psi.mi.jami.json.nary.AbstractMIJsonWriter: writeComplex.
writeComplex(Complex) - Method in class psidev.psi.mi.jami.json.nary.LightMIJsonWriter: writeComplex.
writeComplex(Complex) - Method in class psidev.psi.mi.jami.json.nary.MIJsonEvidenceWriter: writeComplex.
writeComplex(Complex) - Method in class psidev.psi.mi.jami.json.nary.MIJsonModelledWriter: writeComplex.
writeComplex(Complex) - Method in class psidev.psi.mi.jami.json.nary.MIJsonWriter: writeComplex.
writeComplex(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: writeComplex.
writeComplex(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlWriter: writeComplex.
writeComplex(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlBinaryEvidenceWriter: writeComplex.
writeComplex(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlBinaryWriter: writeComplex.
writeComplex(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlComplexWriter: writeComplex.
writeComplex(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlEvidenceWriter: writeComplex.
writeComplex(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlModelledBinaryWriter: writeComplex.
writeComplex(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlModelledWriter: writeComplex.
writeComplex(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlWriter: writeComplex.
writeComplex(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.LightExpandedXmlBinaryWriter: writeComplex.
writeComplex(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.LightExpandedXmlWriter: writeComplex.
writeComplexAsInteractor() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: writeComplexAsInteractor.
writeComplexAsInteractor() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: writeComplexAsInteractor.
writeComplexAsInteractor() - Method in interface psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlInteractionWriter: writeComplexAsInteractor.
writeComplexAsInteractor() - Method in interface psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlParticipantWriter: writeComplexAsInteractor.
writeComplexesAsInteractors() - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: writeComplexesAsInteractors.
writeComplexExpansion(T) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.AbstractMitabColumnFeeder: writeComplexExpansion.
writeComplexExpansion(T) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: Writes the complex expansion of a binary interaction
writeConfidence(Confidence) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.AbstractMitabColumnFeeder: This method will write a confidence with a text if text is not null
writeConfidence(Confidence) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.DefaultMitabColumnFeeder: This method will write a confidence with a text if text is not null
writeConfidence(Confidence) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.extended.ExtendedMitabInteractionEvidenceFeeder: This method will write a confidence with a text if text is not null
writeConfidence(Confidence) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.extended.ExtendedMitabModelledInteractionFeeder: This method will write a confidence with a text if text is not null
writeConfidence(Confidence) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: This method will write a confidence with a text if text is not null
writeConfidences(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionEvidenceWriter: writeConfidences.
writeConfidences(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlModelledInteractionWriter: writeConfidences.
writeConfidences(P) - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: writeConfidences
writeConfidences(P) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: writeConfidences.
writeConfidences(Experiment) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: writeConfidences.
writeConfidences(Interaction) - Method in class psidev.psi.mi.jami.html.LightMIHtmlWriter: writeConfidences
writeConfidences(Interaction) - Method in class psidev.psi.mi.jami.html.MIHtmlWriter: writeConfidences
writeConfidences(InteractionEvidence) - Method in class psidev.psi.mi.jami.html.MIEvidenceHtmlWriter: writeConfidences
writeConfidences(ModelledInteraction) - Method in class psidev.psi.mi.jami.html.MIModelledHtmlWriter: writeConfidences
writeConfidences(ModelledParticipant) - Method in class psidev.psi.mi.jami.html.MIModelledHtmlWriter: writeConfidences
writeConfidences(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlModelledParticipantWriter: writeConfidences.
writeConfidences(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledParticipantWriter: writeConfidences.
writeConfidences(Participant) - Method in class psidev.psi.mi.jami.html.LightMIHtmlWriter: writeConfidences
writeConfidences(Participant) - Method in class psidev.psi.mi.jami.html.MIHtmlWriter: writeConfidences
writeConfidences(Participant) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlParticipantWriter: writeConfidences.
writeConfidences(ParticipantEvidence) - Method in class psidev.psi.mi.jami.html.MIEvidenceHtmlWriter: writeConfidences
writeConfidences(ParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantEvidenceWriter: writeConfidences.
writeConfidences(T) - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: writeConfidences
writeConfidences(T) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: writeConfidences.
writeConfidences(T) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlInteractionWriter: writeConfidences.
writeCooperativeEffect(I, boolean) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlModelledInteractionWriter: writeCooperativeEffect.
writeCooperativeEffect(I, boolean) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlModelledInteractionWriter: writeCooperativeEffect.
writeCooperativeEffect(I, boolean) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledInteractionWriter: writeCooperativeEffect.
writeCooperativeEffect(I, boolean) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlModelledInteractionWriter: writeCooperativeEffect.
writeCooperativeEffect(I, boolean) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlModelledInteractionWriter: writeCooperativeEffect.
writeCooperativeEffectAttribute(String, String, String) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlModelledInteractionWriter: writeCooperativeEffectAttribute.
writeCooperativeEffectAttribute(String, String, String) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlModelledInteractionWriter: writeCooperativeEffectAttribute.
writeCooperativeEffects(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledInteractionWriter: writeCooperativeEffects.
writeCooperativeEffects(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlModelledInteractionWriter: writeCooperativeEffects.
writeCooperativeEffects(Interaction) - Method in class psidev.psi.mi.jami.html.LightMIHtmlWriter: writeCooperativeEffects
writeCooperativeEffects(Interaction) - Method in class psidev.psi.mi.jami.html.MIHtmlWriter: writeCooperativeEffects
writeCooperativeEffects(InteractionEvidence) - Method in class psidev.psi.mi.jami.html.MIEvidenceHtmlWriter: writeCooperativeEffects
writeCooperativeEffects(ModelledInteraction) - Method in class psidev.psi.mi.jami.html.MIModelledHtmlWriter: writeCooperativeEffects
writeCooperativeEffects(T) - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: writeCooperativeEffects
writeCooperativityEvidenceList(C) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlCooperativeEffectWriter: writeCooperativityEvidenceList.
writeCvTerm(String, CvTerm) - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: writeCvTerm
writeCvTerm(CvTerm) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.AbstractMitabColumnFeeder: Write the CvTerm.
writeCvTerm(CvTerm) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: Write the CvTerm.
writeCvTermName(CvTerm) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.AbstractMitabColumnFeeder: Write full name if not null, otherwise write shortname
writeDate(Date) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.AbstractMitabColumnFeeder: Writes created date of an interaction
writeDate(Date) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: Writes created date of an interaction
writeDescription(VariableParameter) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlVariableParameterWriter: writeDescription.
writeDetectionMethods(F) - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: writeDetectionMethods
writeDetectionMethods(Feature) - Method in class psidev.psi.mi.jami.html.LightMIHtmlWriter: writeDetectionMethods
writeDetectionMethods(Feature) - Method in class psidev.psi.mi.jami.html.MIHtmlWriter: writeDetectionMethods
writeDetectionMethods(FeatureEvidence) - Method in class psidev.psi.mi.jami.html.MIEvidenceHtmlWriter: writeDetectionMethods
writeDetectionMethods(ModelledFeature) - Method in class psidev.psi.mi.jami.html.MIModelledHtmlWriter: writeDetectionMethods
writeEnd() - Method in class psidev.psi.mi.jami.json.nary.AbstractMIJsonWriter: writeEnd.
writeEndArray(Writer) - Static method in class psidev.psi.mi.jami.json.MIJsonUtils: writeEndArray.
writeEndDocument() - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: writeEndDocument
writeEndEntry() - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: writeEndEntry.
writeEndEntryContent() - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: writeEndEntryContent.
writeEndInteractionList() - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: writeEndInteractionList.
writeEndObject(Writer) - Static method in class psidev.psi.mi.jami.json.MIJsonUtils: writeEndObject.
writeEntryAttributes() - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: writeEntryAttributes.
writeEntrySetAttributes(String, String, String, String, String) - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: writeEntrySetAttributes.
writeEvidenceType(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledInteractionWriter: writeEvidenceType.
writeEvidenceType(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlModelledInteractionWriter: writeEvidenceType.
writeExpansionMethod(CvTerm) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionWriter: writeExpansionMethod.
writeExperiment(Experiment) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: writeExperiment.
writeExperiment(Experiment) - Method in interface psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlExperimentWriter: writeExperiment.
writeExperiment(Interaction) - Method in class psidev.psi.mi.jami.html.LightMIHtmlWriter: writeExperiment
writeExperiment(Interaction) - Method in class psidev.psi.mi.jami.html.MIHtmlWriter: writeExperiment
writeExperiment(InteractionEvidence) - Method in class psidev.psi.mi.jami.html.MIEvidenceHtmlWriter: writeExperiment
writeExperiment(ModelledInteraction) - Method in class psidev.psi.mi.jami.html.MIModelledHtmlWriter: writeExperiment
writeExperiment(T) - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: writeExperiment
writeExperimentalInteractor(P) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: writeExperimentalInteractor.
writeExperimentalInteractor(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlModelledParticipantWriter: writeExperimentalInteractor.
writeExperimentalInteractor(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledParticipantWriter: writeExperimentalInteractor.
writeExperimentalInteractor(Participant) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlParticipantWriter: writeExperimentalInteractor.
writeExperimentalInteractor(ParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantEvidenceWriter: writeExperimentalInteractor.
writeExperimentalInteractor(ParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlParticipantEvidenceWriter: writeExperimentalInteractor.
writeExperimentalInteractor(ParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlParticipantEvidenceWriter: writeExperimentalInteractor.
writeExperimentalInteractor(ParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlParticipantEvidenceWriter: writeExperimentalInteractor.
writeExperimentalInteractor(ParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlParticipantEvidenceWriter: writeExperimentalInteractor.
writeExperimentalPreparations(P) - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: writeExperimentalPreparations
writeExperimentalPreparations(P) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: writeExperimentalPreparations.
writeExperimentalPreparations(ModelledParticipant) - Method in class psidev.psi.mi.jami.html.MIModelledHtmlWriter: writeExperimentalPreparations
writeExperimentalPreparations(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlModelledParticipantWriter: writeExperimentalPreparations.
writeExperimentalPreparations(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledParticipantWriter: writeExperimentalPreparations.
writeExperimentalPreparations(Participant) - Method in class psidev.psi.mi.jami.html.LightMIHtmlWriter: writeExperimentalPreparations
writeExperimentalPreparations(Participant) - Method in class psidev.psi.mi.jami.html.MIHtmlWriter: writeExperimentalPreparations
writeExperimentalPreparations(Participant) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlParticipantWriter: writeExperimentalPreparations.
writeExperimentalPreparations(ParticipantEvidence) - Method in class psidev.psi.mi.jami.html.MIEvidenceHtmlWriter: writeExperimentalPreparations
writeExperimentalPreparations(ParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantEvidenceWriter: writeExperimentalPreparations.
writeExperimentalRole(P) - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: writeExperimentalRole
writeExperimentalRole(P) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: Writes the experimentsl role of a participant evidence
writeExperimentalRole(ModelledParticipant) - Method in class psidev.psi.mi.jami.html.MIModelledHtmlWriter: writeExperimentalRole
writeExperimentalRole(ModelledParticipant) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.MitabModelledInteractionFeeder: writeExperimentalRole.
writeExperimentalRole(Participant) - Method in class psidev.psi.mi.jami.html.LightMIHtmlWriter: writeExperimentalRole
writeExperimentalRole(Participant) - Method in class psidev.psi.mi.jami.html.MIHtmlWriter: writeExperimentalRole
writeExperimentalRole(Participant) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.DefaultMitabColumnFeeder: Writes the experimentsl role of a participant evidence
writeExperimentalRole(ParticipantEvidence) - Method in class psidev.psi.mi.jami.html.MIEvidenceHtmlWriter: writeExperimentalRole
writeExperimentalRole(ParticipantEvidence) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.MitabInteractionEvidenceFeeder: writeExperimentalRole.
writeExperimentalRoles(P) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: writeExperimentalRoles.
writeExperimentalRoles(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlModelledParticipantWriter: writeExperimentalRoles.
writeExperimentalRoles(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledParticipantWriter: writeExperimentalRoles.
writeExperimentalRoles(Participant) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlParticipantWriter: writeExperimentalRoles.
writeExperimentalRoles(ParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantEvidenceWriter: writeExperimentalRoles.
writeExperimentalRoles(ParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlParticipantEvidenceWriter: writeExperimentalRoles.
writeExperimentalRoles(ParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlParticipantEvidenceWriter: writeExperimentalRoles.
writeExperimentalRoles(ParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlParticipantEvidenceWriter: writeExperimentalRoles.
writeExperimentalRoles(ParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlParticipantEvidenceWriter: writeExperimentalRoles.
writeExperimentalVariableValues(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlInteractionEvidenceWriter: writeExperimentalVariableValues.
writeExperimentalVariableValues(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlInteractionEvidenceWriter: writeExperimentalVariableValues.
writeExperimentDescription() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: writeExperimentDescription.
writeExperimentDescription() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledInteractionWriter: writeExperimentDescription.
writeExperimentDescription() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.AbstractXmlInteractionEvidenceWriter: writeExperimentDescription.
writeExperimentDescription() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlInteractionWriter: writeExperimentDescription.
writeExperimentDescription() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlModelledInteractionWriter: writeExperimentDescription.
writeExperimentDescription() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlModelledInteractionWriter: writeExperimentDescription.
writeExperimentRef() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: writeExperimentRef.
writeExperimentRef() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledInteractionWriter: writeExperimentRef.
writeExperimentRef() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.AbstractXmlInteractionEvidenceWriter: writeExperimentRef.
writeExperimentRef() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlInteractionWriter: writeExperimentRef.
writeExperimentRef() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlModelledInteractionWriter: writeExperimentRef.
writeExperimentRef() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlModelledInteractionWriter: writeExperimentRef.
writeExperiments(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionEvidenceWriter: writeExperiments.
writeExperiments(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlModelledInteractionWriter: writeExperiments.
writeExperiments(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledInteractionWriter: writeExperiments.
writeExperiments(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.AbstractXmlInteractionEvidenceWriter: writeExperiments.
writeExperiments(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlModelledInteractionWriter: writeExperiments.
writeExperiments(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlModelledInteractionWriter: writeExperiments.
writeExperiments(BinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlBasicBinaryInteractionWriter: writeExperiments.
writeExperiments(BinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlBasicBinaryInteractionWriter: writeExperiments.
writeExperiments(BinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlBasicBinaryInteractionWriter: writeExperiments.
writeExperiments(BinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlBasicBinaryInteractionWriter: writeExperiments.
writeExperiments(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlBinaryInteractionEvidenceWriter: writeExperiments.
writeExperiments(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlBinaryInteractionEvidenceWriter: writeExperiments.
writeExperiments(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlBinaryInteractionEvidenceWriter: writeExperiments.
writeExperiments(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlBinaryInteractionEvidenceWriter: writeExperiments.
writeExperiments(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlBinaryInteractionEvidenceWriter: writeExperiments.
writeExperiments(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlBinaryInteractionEvidenceWriter: writeExperiments.
writeExperiments(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlBinaryInteractionEvidenceWriter: writeExperiments.
writeExperiments(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlBinaryInteractionEvidenceWriter: writeExperiments.
writeExperiments(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlModelledBinaryInteractionWriter: writeExperiments.
writeExperiments(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlModelledBinaryInteractionWriter: writeExperiments.
writeExperiments(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlModelledBinaryInteractionWriter: writeExperiments.
writeExperiments(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlModelledBinaryInteractionWriter: writeExperiments.
writeExperiments(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlModelledBinaryInteractionWriter: writeExperiments.
writeExperiments(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlModelledBinaryInteractionWriter: writeExperiments.
writeExperiments(Complex) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlComplexWriter: writeExperiments.
writeExperiments(Complex) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlComplexWriter: writeExperiments.
writeExperiments(Complex) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlComplexWriter: writeExperiments.
writeExperiments(Complex) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlComplexWriter: writeExperiments.
writeExperiments(Interaction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlBasicInteractionWriter: writeExperiments.
writeExperiments(Interaction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlBasicInteractionWriter: writeExperiments.
writeExperiments(Interaction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlBasicInteractionWriter: writeExperiments.
writeExperiments(Interaction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlBasicInteractionWriter: writeExperiments.
writeExperiments(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlInteractionEvidenceWriter: writeExperiments.
writeExperiments(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlInteractionEvidenceWriter: writeExperiments.
writeExperiments(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlInteractionEvidenceWriter: writeExperiments.
writeExperiments(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlInteractionEvidenceWriter: writeExperiments.
writeExperiments(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlInteractionEvidenceWriter: writeExperiments.
writeExperiments(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlInteractionEvidenceWriter: writeExperiments.
writeExperiments(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlInteractionEvidenceWriter: writeExperiments.
writeExperiments(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlInteractionEvidenceWriter: writeExperiments.
writeExperiments(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlModelledInteractionWriter: writeExperiments.
writeExperiments(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlModelledInteractionWriter: writeExperiments.
writeExperiments(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlModelledInteractionWriter: writeExperiments.
writeExperiments(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlModelledInteractionWriter: writeExperiments.
writeExperiments(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlModelledInteractionWriter: writeExperiments.
writeExperiments(ModelledInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlModelledInteractionWriter: writeExperiments.
writeExperiments(T) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: writeExperiments.
writeExperimentXrefs(Experiment, String) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: writeExperimentXrefs.
writeExperimentXrefs(Experiment, String) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25.XmlExperimentWriter: writeExperimentXrefs.
writeExperimentXrefs(Experiment, String) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlExperimentWriter: writeExperimentXrefs.
writeExpressedInOrganism(P) - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: writeExpressedInOrganism
writeExpressedInOrganism(ModelledParticipant) - Method in class psidev.psi.mi.jami.html.MIModelledHtmlWriter: writeExpressedInOrganism
writeExpressedInOrganism(Participant) - Method in class psidev.psi.mi.jami.html.LightMIHtmlWriter: writeExpressedInOrganism
writeExpressedInOrganism(Participant) - Method in class psidev.psi.mi.jami.html.MIHtmlWriter: writeExpressedInOrganism
writeExpressedInOrganism(ParticipantEvidence) - Method in class psidev.psi.mi.jami.html.MIEvidenceHtmlWriter: writeExpressedInOrganism
writeFeature(F) - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: writeFeature
writeFeature(Feature) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.AbstractMitabColumnFeeder: Writes a feature
writeFeature(Feature) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.extended.DefaultExtendedMitabColumnFeeder: Writes a feature
writeFeature(Feature) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.extended.ExtendedMitabInteractionEvidenceFeeder: Writes a feature
writeFeature(Feature) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.extended.ExtendedMitabModelledInteractionFeeder: Writes a feature
writeFeature(Feature) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: Writes a feature
writeFeatureDetectionMethod(FeatureEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlFeatureEvidenceWriter: writeFeatureDetectionMethod.
writeFeatureDetectionMethod(FeatureEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlFeatureEvidenceWriter: writeFeatureDetectionMethod.
writeFeatureRole(F) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlFeatureWriter: writeFeatureRole.
writeFeatureRole(F) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlFeatureWriter: writeFeatureRole.
writeFeatureRole(F) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlFeatureWriter: writeFeatureRole.
writeFeatures(String, Collection<F>) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonParticipantWriter: writeFeatures.
writeFeatures(P) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: writeFeatures.
writeFeatures(P) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlParticipantCandidateWriter: writeFeatures.
writeFeatureType(F) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlFeatureWriter: writeFeatureType.
writeFirstAuthor(BinaryInteraction) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.DefaultMitabColumnFeeder: Writes the first author of a publication in an experiment
writeFirstAuthor(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.MitabInteractionEvidenceFeeder: writeFirstAuthor.
writeFirstAuthor(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.MitabModelledInteractionFeeder: writeFirstAuthor.
writeFirstAuthor(T) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: Writes the first author of a publication in an experiment
writeGeneralProperties(Interaction) - Method in class psidev.psi.mi.jami.html.LightMIHtmlWriter: writeGeneralProperties
writeGeneralProperties(Interaction) - Method in class psidev.psi.mi.jami.html.MIHtmlWriter: writeGeneralProperties
writeGeneralProperties(InteractionEvidence) - Method in class psidev.psi.mi.jami.html.MIEvidenceHtmlWriter: writeGeneralProperties
writeGeneralProperties(ModelledInteraction) - Method in class psidev.psi.mi.jami.html.MIModelledHtmlWriter: writeGeneralProperties
writeGeneralProperties(T) - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: writeGeneralProperties
writeHeader() - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: writeHeader
writeHeader() - Method in class psidev.psi.mi.jami.tab.io.writer.AbstractMitab25BinaryWriter: Write the header
writeHostOrganism(BinaryInteraction) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.DefaultMitabColumnFeeder: Writes experiment host organism
writeHostOrganism(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.MitabInteractionEvidenceFeeder: writeHostOrganism.
writeHostOrganism(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.MitabModelledInteractionFeeder: writeHostOrganism.
writeHostOrganism(Experiment) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: writeHostOrganism.
writeHostOrganism(Experiment) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.XmlExperimentWriter: writeHostOrganism.
writeHostOrganism(Experiment) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlExperimentWriter: writeHostOrganism.
writeHostOrganism(T) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: Writes experiment host organism
writeHostOrganisms(P) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: writeHostOrganisms.
writeHostOrganisms(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlModelledParticipantWriter: writeHostOrganisms.
writeHostOrganisms(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledParticipantWriter: writeHostOrganisms.
writeHostOrganisms(Participant) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlParticipantWriter: writeHostOrganisms.
writeHostOrganisms(ParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantEvidenceWriter: writeHostOrganisms.
writeHostOrganisms(ParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlParticipantEvidenceWriter: writeHostOrganisms.
writeHostOrganisms(ParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlParticipantEvidenceWriter: writeHostOrganisms.
writeHostOrganisms(ParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlParticipantEvidenceWriter: writeHostOrganisms.
writeHostOrganisms(ParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlParticipantEvidenceWriter: writeHostOrganisms.
writeHtmlStyle() - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: writeHtmlStyle
writeIdentifier(Xref) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.AbstractMitabColumnFeeder: This methods write the database, id and version of an identifier
writeIdentifier(Xref) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: This methods write the database, id and version of an identifier
writeImexId(String, String) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25.XmlExperimentWriter: writeImexId.
writeInferredInteractions(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionEvidenceWriter: writeInferredInteractions.
writeInferredInteractions(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlModelledInteractionWriter: writeInferredInteractions.
writeInferredInteractions(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledInteractionWriter: writeInferredInteractions.
writeInferredInteractions(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.AbstractXmlInteractionEvidenceWriter: writeInferredInteractions.
writeInferredInteractions(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlInteractionWriter: writeInferredInteractions.
writeInferredInteractions(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlModelledInteractionWriter: writeInferredInteractions.
writeInferredInteractions(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlModelledInteractionWriter: writeInferredInteractions.
writeInferredInteractions(T) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: writeInferredInteractions.
writeInferredInteractions(T) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlInteractionWriter: writeInferredInteractions.
writeInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: writeInteraction.
writeInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlWriter: writeInteraction.
writeInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlBinaryEvidenceWriter: writeInteraction.
writeInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlBinaryWriter: writeInteraction.
writeInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlComplexWriter: writeInteraction.
writeInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlEvidenceWriter: writeInteraction.
writeInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlModelledBinaryWriter: writeInteraction.
writeInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlModelledWriter: writeInteraction.
writeInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlWriter: writeInteraction.
writeInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.LightExpandedXmlBinaryWriter: writeInteraction.
writeInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.extended.LightExpandedXmlWriter: writeInteraction.
writeInteractionAnchor(Interaction) - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: writeInteractionAnchor
writeInteractionAnnotations(BinaryInteraction) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.DefaultMitabColumnFeeder: Writes interaction annotations
writeInteractionAnnotations(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.MitabInteractionEvidenceFeeder: writeInteractionAnnotations.
writeInteractionAnnotations(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.MitabModelledInteractionFeeder: writeInteractionAnnotations.
writeInteractionAnnotations(T) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: Writes interaction annotations
writeInteractionAnnotationTagsFrom(Publication) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.MitabInteractionEvidenceFeeder: writeInteractionAnnotationTagsFrom.
writeInteractionCausalRegulatoryMechanism(T) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.AbstractMitabColumnFeeder: writeInteractionType.
writeInteractionCausalRegulatoryMechanism(T) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: Writes interaction checksum
writeInteractionCausalStatement(T) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.AbstractMitabColumnFeeder: writeInteractionType.
writeInteractionCausalStatement(T) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: Writes interaction checksum
writeInteractionChecksums(T) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.AbstractMitabColumnFeeder: writeInteractionChecksums.
writeInteractionChecksums(T) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: Writes interaction checksum
writeInteractionConfidences(BinaryInteraction) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.DefaultMitabColumnFeeder: Writes the confidences of an interaction evidence
writeInteractionConfidences(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.MitabInteractionEvidenceFeeder: writeInteractionConfidences.
writeInteractionConfidences(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.MitabModelledInteractionFeeder: writeInteractionConfidences.
writeInteractionConfidences(T) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: Writes the confidences of an interaction evidence
writeInteractiondetectionMethod(Experiment) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: writeInteractiondetectionMethod.
writeInteractionDetectionMethod(BinaryInteraction) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.DefaultMitabColumnFeeder: Writes the interaction detection method of the experiment.
writeInteractionDetectionMethod(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.MitabInteractionEvidenceFeeder: writeInteractionDetectionMethod.
writeInteractionDetectionMethod(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.MitabModelledInteractionFeeder: writeInteractionDetectionMethod.
writeInteractionDetectionMethod(T) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: Writes the interaction detection method of the experiment.
writeInteractionIdentifiers(BinaryInteraction) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.DefaultMitabColumnFeeder: Writes the interaction identifiers of an interaction.
writeInteractionIdentifiers(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.MitabInteractionEvidenceFeeder: writeInteractionIdentifiers.
writeInteractionIdentifiers(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.MitabModelledInteractionFeeder: writeInteractionIdentifiers.
writeInteractionIdentifiers(T) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: Writes the interaction identifiers of an interaction.
writeInteractionList() - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: writeInteractionList
writeInteractionListContent() - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: writeInteractionListContent.
writeInteractionParameters(BinaryInteraction) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.DefaultMitabColumnFeeder: Writes interaction parameters
writeInteractionParameters(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.MitabInteractionEvidenceFeeder: writeInteractionParameters.
writeInteractionParameters(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.MitabModelledInteractionFeeder: writeInteractionParameters.
writeInteractionParameters(T) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: Writes interaction parameters
writeInteractionType(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.AbstractXmlInteractionEvidenceWriter: writeInteractionType.
writeInteractionType(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlInteractionWriter: writeInteractionType.
writeInteractionType(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlModelledInteractionWriter: writeInteractionType.
writeInteractionType(T) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.AbstractMitabColumnFeeder: writeInteractionType.
writeInteractionType(T) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: Writes the interaction type of an interaction
writeInteractionType(T) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: writeInteractionType.
writeInteractionXrefs(BinaryInteraction) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.DefaultMitabColumnFeeder: Write interaction Xref r
writeInteractionXrefs(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.MitabInteractionEvidenceFeeder: writeInteractionXrefs.
writeInteractionXrefs(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.MitabModelledInteractionFeeder: writeInteractionXrefs.
writeInteractionXrefs(T) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: Write interaction Xref r
writeInteractor(P) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: writeInteractor.
writeInteractor(P) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlParticipantCandidateWriter: writeInteractor.
writeInteractor(Interactor) - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: writeInteractor
writeInteractor(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentalInteractorWriter: writeInteractor.
writeInteractor(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.XmlExperimentalInteractorWriter: writeInteractor.
writeInteractor(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.XmlExperimentalInteractorWriter: writeInteractor.
writeInteractorOrganism(P) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.AbstractMitabColumnFeeder: writeInteractorOrganism.
writeInteractorOrganism(P) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: Writes the organism of a participant.
writeInteractorType(P) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.AbstractMitabColumnFeeder: writeInteractorType.
writeInteractorType(P) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: Writes the interactor type of a participant
writeInteractorType(Complex) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledInteractionWriter: writeInteractorType.
writeInteractorType(Complex) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlModelledInteractionWriter: writeInteractorType.
writeInteractorType(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlInteractorWriter: writeInteractorType.
writeIntraMolecular(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.AbstractXmlInteractionEvidenceWriter: writeIntraMolecular.
writeIntraMolecular(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.AbstractXmlModelledInteractionWriter: writeIntraMolecular.
writeIntraMolecular(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlInteractionWriter: writeIntraMolecular.
writeIntraMolecular(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlModelledInteractionWriter: writeIntraMolecular.
writeIntraMolecular(T) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: writeIntraMolecular.
writeIntraMolecular(T) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlInteractionWriter: writeIntraMolecular.
writeModelled(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionEvidenceWriter: writeModelled.
writeModelled(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlModelledInteractionWriter: writeModelled.
writeModelled(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.AbstractXmlInteractionEvidenceWriter: writeModelled.
writeModelled(T) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: writeModelled.
writeModelled(T) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlInteractionWriter: writeModelled.
writeModelledInteraction(ModelledInteraction) - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: writeModelledInteraction
writeModelledInteraction(ModelledInteraction) - Method in class psidev.psi.mi.jami.html.MIModelledHtmlWriter: writeModelledInteraction
writeMolecule(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlModelledParticipantWriter: writeMolecule.
writeMolecule(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: writeMolecule.
writeMolecule(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlParticipantCandidateWriter: writeMolecule.
writeMolecule(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlModelledParticipantWriter: writeMolecule.
writeMolecule(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedParticipantWriter: writeMolecule.
writeMolecule(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlParticipantEvidenceWriter: writeMolecule.
writeMolecule(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlParticipantWriter: writeMolecule.
writeMolecule(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlExperimentalParticipantCandidateWriter: writeMolecule.
writeMolecule(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlModelledParticipantCandidateWriter: writeMolecule.
writeMolecule(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlModelledParticipantWriter: writeMolecule.
writeMolecule(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlParticipantEvidenceWriter: writeMolecule.
writeMolecule(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlModelledParticipantWriter: writeMolecule.
writeMolecule(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedParticipantWriter: writeMolecule.
writeMolecule(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlParticipantEvidenceWriter: writeMolecule.
writeMolecule(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlParticipantWriter: writeMolecule.
writeMolecule(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlExperimentalParticipantCandidateWriter: writeMolecule.
writeMolecule(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlModelledParticipantCandidateWriter: writeMolecule.
writeMolecule(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlModelledParticipantWriter: writeMolecule.
writeMolecule(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlNamedParticipantEvidenceWriter: writeMolecule.
writeMolecule(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlParticipantEvidenceWriter: writeMolecule.
writeMolecule(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlExperimentalParticipantCandidateWriter: writeMolecule.
writeMolecule(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlModelledParticipantCandidateWriter: writeMolecule.
writeMolecule(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlParticipantEvidenceWriter: writeMolecule.
writeMolecule(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlExperimentalParticipantCandidateWriter: writeMolecule.
writeMolecule(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlModelledParticipantCandidateWriter: writeMolecule.
writeMolecule(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlParticipantEvidenceWriter: writeMolecule.
writeMoleculeDescription(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: writeMoleculeDescription.
writeMoleculeDescription(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlParticipantCandidateWriter: writeMoleculeDescription.
writeMoleculeRef(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: writeMoleculeRef.
writeMoleculeRef(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlParticipantCandidateWriter: writeMoleculeRef.
writeNames(F) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlFeatureWriter: writeNames.
writeNames(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlModelledInteractionWriter: writeNames.
writeNames(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.AbstractXmlInteractionEvidenceWriter: writeNames.
writeNames(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlInteractionWriter: writeNames.
writeNames(P) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: writeNames.
writeNames(BinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedBinaryInteractionWriter: writeNames.
writeNames(BinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedBinaryInteractionWriter: writeNames.
writeNames(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedBinaryInteractionEvidenceWriter: writeNames.
writeNames(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlNamedBinaryInteractionEvidenceWriter: writeNames.
writeNames(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedBinaryInteractionEvidenceWriter: writeNames.
writeNames(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlNamedBinaryInteractionEvidenceWriter: writeNames.
writeNames(Experiment) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: writeNames.
writeNames(Experiment) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25.XmlNamedExperimentWriter: writeNames.
writeNames(Experiment) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlNamedExperimentWriter: writeNames.
writeNames(Interaction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedInteractionWriter: writeNames.
writeNames(Interaction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedInteractionWriter: writeNames.
writeNames(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedInteractionEvidenceWriter: writeNames.
writeNames(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlNamedInteractionEvidenceWriter: writeNames.
writeNames(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedInteractionEvidenceWriter: writeNames.
writeNames(InteractionEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlNamedInteractionEvidenceWriter: writeNames.
writeNames(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlInteractorWriter: writeNames.
writeNames(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedModelledParticipantWriter: writeNames.
writeNames(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlNamedModelledParticipantWriter: writeNames.
writeNames(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedModelledParticipantWriter: writeNames.
writeNames(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlNamedModelledParticipantWriter: writeNames.
writeNames(Participant) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlNamedParticipantWriter: writeNames.
writeNames(ParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedParticipantEvidenceWriter: writeNames.
writeNames(ParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlNamedParticipantEvidenceWriter: writeNames.
writeNames(ParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedParticipantEvidenceWriter: writeNames.
writeNames(ParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlNamedParticipantEvidenceWriter: writeNames.
writeNames(ParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlParticipantEvidenceWriter: writeNames.
writeNames(ParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlParticipantEvidenceWriter: writeNames.
writeNames(Source) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.AbstractXmlSourceWriter: writeNames.
writeNames(T) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: writeNames.
writeNegative(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionEvidenceWriter: writeNegative.
writeNegative(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlModelledInteractionWriter: writeNegative.
writeNegative(T) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: writeNegative.
writeNegative(T) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlInteractionWriter: writeNegative.
writeNegativeProperty(BinaryInteraction) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.DefaultMitabColumnFeeder: Writes interaction negative property if true
writeNegativeProperty(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.MitabInteractionEvidenceFeeder: writeNegativeProperty.
writeNegativeProperty(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.MitabModelledInteractionFeeder: writeNegativeProperty.
writeNegativeProperty(T) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: Writes interaction negative property if true
writeNewXref(Xref, String) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlInteractorWriter
writeOpenArray(Writer) - Static method in class psidev.psi.mi.jami.json.MIJsonUtils: writeOpenArray.
writeOrganism(String, Organism) - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: writeOrganism
writeOrganism(Complex) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledInteractionWriter: writeOrganism.
writeOrganism(Complex) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlModelledInteractionWriter: writeOrganism.
writeOrganism(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlInteractorWriter: writeOrganism.
writeOrganism(Organism) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.AbstractMitabColumnFeeder: Write an organism.
writeOrganism(Organism) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: Write an organism.
writeOtherAttributes(F, boolean) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlFeatureWriter: writeOtherAttributes.
writeOtherAttributes(F, boolean) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlFeatureWriter: writeOtherAttributes.
writeOtherAttributes(F, boolean) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlFeatureWriter: writeOtherAttributes.
writeOtherAttributes(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionEvidenceWriter: writeOtherAttributes.
writeOtherAttributes(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlModelledInteractionWriter: writeOtherAttributes.
writeOtherAttributes(P, boolean) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: writeOtherAttributes.
writeOtherAttributes(Experiment, boolean) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: writeOtherAttributes.
writeOtherAttributes(Experiment, boolean) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25.XmlExperimentWriter: writeOtherAttributes.
writeOtherAttributes(Experiment, boolean) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlExperimentWriter: writeOtherAttributes.
writeOtherAttributes(ModelledParticipant, boolean) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlModelledParticipantWriter: writeOtherAttributes.
writeOtherAttributes(ModelledParticipant, boolean) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledParticipantWriter: writeOtherAttributes.
writeOtherAttributes(ParticipantEvidence, boolean) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlParticipantEvidenceWriter: writeOtherAttributes.
writeOtherAttributes(ParticipantEvidence, boolean) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlParticipantEvidenceWriter: writeOtherAttributes.
writeOtherAttributes(Participant, boolean) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlParticipantWriter: writeOtherAttributes.
writeOtherAttributes(T) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: writeOtherAttributes.
writeOtherAttributes(T) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlInteractionWriter: writeOtherAttributes.
writeOtherExpansionMethodProperties() - Method in class psidev.psi.mi.jami.json.binary.elements.SimpleJsonBinaryInteractionEvidenceWriter: writeOtherExpansionMethodProperties.
writeOtherExpansionMethodProperties() - Method in class psidev.psi.mi.jami.json.binary.elements.SimpleJsonBinaryInteractionWriter: writeOtherExpansionMethodProperties.
writeOtherExpansionMethodProperties() - Method in class psidev.psi.mi.jami.json.binary.elements.SimpleJsonModelledBinaryInteractionWriter: writeOtherExpansionMethodProperties.
writeOtherExpansionMethodProperties() - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionWriter: writeOtherExpansionMethodProperties.
writeOtherIdentifiers(I) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionEvidenceWriter: writeOtherIdentifiers.
writeOtherIdentifiers(I) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionWriter: writeOtherIdentifiers.
writeOtherProperties(C) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlCooperativeEffectWriter: writeOtherProperties.
writeOtherProperties(F) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonFeatureWriter: writeOtherProperties.
writeOtherProperties(F) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlFeatureWriter: writeOtherProperties.
writeOtherProperties(I) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionEvidenceWriter: writeOtherProperties.
writeOtherProperties(I) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonInteractionWriter: writeOtherProperties.
writeOtherProperties(I) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonModelledInteractionWriter: writeOtherProperties.
writeOtherProperties(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlInteractionEvidenceWriter: writeOtherProperties.
writeOtherProperties(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlModelledInteractionWriter: writeOtherProperties.
writeOtherProperties(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlInteractionEvidenceWriter: writeOtherProperties.
writeOtherProperties(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledInteractionWriter: writeOtherProperties.
writeOtherProperties(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlInteractionEvidenceWriter: writeOtherProperties.
writeOtherProperties(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlModelledInteractionWriter: writeOtherProperties.
writeOtherProperties(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlInteractionEvidenceWriter: writeOtherProperties.
writeOtherProperties(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlModelledInteractionWriter: writeOtherProperties.
writeOtherProperties(P) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonParticipantWriter: writeOtherProperties.
writeOtherProperties(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlModelledBinaryInteractionWriter: writeOtherProperties.
writeOtherProperties(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlModelledBinaryInteractionWriter: writeOtherProperties.
writeOtherProperties(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlModelledBinaryInteractionWriter: writeOtherProperties.
writeOtherProperties(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlModelledBinaryInteractionWriter: writeOtherProperties.
writeOtherProperties(Allostery) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlAllosteryWriter: writeOtherProperties.
writeOtherProperties(Confidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlModelledConfidenceWriter: writeOtherProperties.
writeOtherProperties(Confidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlConfidenceWriter: writeOtherProperties.
writeOtherProperties(CvTerm) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml253.XmlExperimentalCvTermWriter: writeOtherProperties.
writeOtherProperties(CvTerm) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml254.XmlExperimentalCvTermWriter: writeOtherProperties.
writeOtherProperties(CvTerm) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlExperimentalCvTermWriter: writeOtherProperties.
writeOtherProperties(CvTerm) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlCvTermWriter: writeOtherProperties.
writeOtherProperties(CvTerm) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlOpenCvTermWriter: writeOtherProperties.
writeOtherProperties(Experiment) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: writeOtherProperties.
writeOtherProperties(Experiment) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.XmlExperimentWriter: writeOtherProperties.
writeOtherProperties(Experiment) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlExperimentWriter: writeOtherProperties.
writeOtherProperties(Feature) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25.XmlFeatureWriter: writeOtherProperties.
writeOtherProperties(FeatureEvidence) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonFeatureEvidenceWriter: writeOtherProperties.
writeOtherProperties(FeatureEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlFeatureEvidenceWriter: writeOtherProperties.
writeOtherProperties(FeatureEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlFeatureEvidenceWriter: writeOtherProperties.
writeOtherProperties(FeatureEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.XmlFeatureEvidenceWriter: writeOtherProperties.
writeOtherProperties(FeatureEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlFeatureEvidenceWriter: writeOtherProperties.
writeOtherProperties(ModelledFeature) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.XmlModelledFeatureWriter: writeOtherProperties.
writeOtherProperties(ModelledFeature) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlModelledFeatureWriter: writeOtherProperties.
writeOtherProperties(ModelledFeature) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25.XmlModelledFeatureWriter: writeOtherProperties.
writeOtherProperties(ModelledFeature) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlModelledFeatureWriter: writeOtherProperties.
writeOtherProperties(Organism) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonHostOrganismWriter: writeOtherProperties.
writeOtherProperties(Organism) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonOrganismWriter: writeOtherProperties.
writeOtherProperties(Organism) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlOrganismWriter: writeOtherProperties.
writeOtherProperties(Organism) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml253.XmlHostOrganismWriter: writeOtherProperties.
writeOtherProperties(Organism) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml254.XmlHostOrganismWriter: writeOtherProperties.
writeOtherProperties(Organism) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlHostOrganismWriter: writeOtherProperties.
writeOtherProperties(Organism) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlHostOrganismWriter: writeOtherProperties.
writeOtherProperties(Organism) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlOrganismWriter: writeOtherProperties.
writeOtherProperties(Parameter) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParameterWriter: writeOtherProperties.
writeOtherProperties(Parameter) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml253.XmlParameterWriter: writeOtherProperties.
writeOtherProperties(Parameter) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml254.XmlParameterWriter: writeOtherProperties.
writeOtherProperties(Parameter) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlParameterWriter: writeOtherProperties.
writeOtherProperties(Parameter) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25.XmlParameterWriter: writeOtherProperties.
writeOtherProperties(Parameter) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlModelledParameterWriter: writeOtherProperties.
writeOtherProperties(Parameter) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlParameterWriter: writeOtherProperties.
writeOtherProperties(ParticipantEvidence) - Method in class psidev.psi.mi.jami.json.elements.SimpleJsonParticipantEvidenceWriter: writeOtherProperties.
writeOtherProperties(Preassembly) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlPreAssemblyWriter: writeOtherProperties.
writeOtherProperties(Range) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlRangeWriter: writeOtherProperties.
writeOtherProperties(Range) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25.XmlRangeWriter: writeOtherProperties.
writeOtherProperties(Range) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlRangeWriter: writeOtherProperties.
writeOtherProperties(Range) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlRangeWriter: writeOtherProperties.
writeOtherProperties(Xref) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.XmlDbXrefWriter: writeOtherProperties.
writeOtherProperties(Xref) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlDbXrefWriter: writeOtherProperties.
writeOtherProperties(T) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: writeOtherProperties.
writeOtherProperties(T) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlInteractionWriter: writeOtherProperties.
writeOtherSetMembers(Interactor, boolean, boolean) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlInteractorWriter: writeOtherSetMembers.
writeOutcome(C) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlCooperativeEffectWriter: writeOutcome.
writeParameter(Parameter) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.AbstractMitabColumnFeeder: Writes the parameter
writeParameter(Parameter) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.DefaultMitabColumnFeeder: Writes the parameter
writeParameter(Parameter) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: Writes the parameter
writeParameters(F) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlFeatureWriter: writeParameters.
writeParameters(F) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlFeatureWriter: writeParameters.
writeParameters(F) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlFeatureWriter: writeParameters.
writeParameters(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionEvidenceWriter: writeParameters.
writeParameters(I) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlModelledInteractionWriter: writeParameters.
writeParameters(P) - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: writeParameters
writeParameters(P) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: writeParameters.
writeParameters(FeatureEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlFeatureEvidenceWriter: writeParameters.
writeParameters(FeatureEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlFeatureEvidenceWriter: writeParameters.
writeParameters(Interaction) - Method in class psidev.psi.mi.jami.html.LightMIHtmlWriter: writeParameters
writeParameters(Interaction) - Method in class psidev.psi.mi.jami.html.MIHtmlWriter: writeParameters
writeParameters(InteractionEvidence) - Method in class psidev.psi.mi.jami.html.MIEvidenceHtmlWriter: writeParameters
writeParameters(ModelledInteraction) - Method in class psidev.psi.mi.jami.html.MIModelledHtmlWriter: writeParameters
writeParameters(ModelledParticipant) - Method in class psidev.psi.mi.jami.html.MIModelledHtmlWriter: writeParameters
writeParameters(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlModelledParticipantWriter: writeParameters.
writeParameters(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledParticipantWriter: writeParameters.
writeParameters(Participant) - Method in class psidev.psi.mi.jami.html.LightMIHtmlWriter: writeParameters
writeParameters(Participant) - Method in class psidev.psi.mi.jami.html.MIHtmlWriter: writeParameters
writeParameters(Participant) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlParticipantWriter: writeParameters.
writeParameters(ParticipantEvidence) - Method in class psidev.psi.mi.jami.html.MIEvidenceHtmlWriter: writeParameters
writeParameters(ParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantEvidenceWriter: writeParameters.
writeParameters(T) - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: writeParameters
writeParameters(T) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: writeParameters.
writeParameters(T) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlInteractionWriter: writeParameters.
writeParticipant(P) - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: writeParticipant
writeParticipant(P, CvTerm) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: writeParticipant.
writeParticipant(T, CvTerm) - Method in interface psidev.psi.mi.jami.xml.io.writer.elements.PsiXmlParticipantWriter: writeParticipant.
writeParticipantAnnotations(P) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.AbstractMitabColumnFeeder: writeParticipantAnnotations.
writeParticipantAnnotations(P) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: Writes participant annotations
writeParticipantBiologicalEffect(P) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.AbstractMitabColumnFeeder: writeBiologicalRole.
writeParticipantBiologicalEffect(P) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: Writes participant biological effect
writeParticipantChecksums(P) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.AbstractMitabColumnFeeder: writeParticipantChecksums.
writeParticipantChecksums(P) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: Writes participant checksum
writeParticipantFeatures(P) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.AbstractMitabColumnFeeder: writeParticipantFeatures.
writeParticipantFeatures(P) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: Writes participant features
writeParticipantIdentificationMethod(P) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: Writes participant identification method(s)
writeParticipantIdentificationMethod(Experiment) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: writeParticipantIdentificationMethod.
writeParticipantIdentificationMethod(Experiment) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.XmlExperimentWriter: writeParticipantIdentificationMethod.
writeParticipantIdentificationMethod(Experiment) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlExperimentWriter: writeParticipantIdentificationMethod.
writeParticipantIdentificationMethod(ModelledParticipant) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.MitabModelledInteractionFeeder: writeParticipantIdentificationMethod.
writeParticipantIdentificationMethod(Participant) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.DefaultMitabColumnFeeder: Writes participant identification method(s)
writeParticipantIdentificationMethod(ParticipantEvidence) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.MitabInteractionEvidenceFeeder: writeParticipantIdentificationMethod.
writeParticipantIdentificationMethods(P) - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: writeParticipantIdentificationMethods
writeParticipantIdentificationMethods(P, CvTerm) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: writeParticipantIdentificationMethods.
writeParticipantIdentificationMethods(ModelledParticipant) - Method in class psidev.psi.mi.jami.html.MIModelledHtmlWriter: writeParticipantIdentificationMethods
writeParticipantIdentificationMethods(ModelledParticipant, CvTerm) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlModelledParticipantWriter: writeParticipantIdentificationMethods.
writeParticipantIdentificationMethods(ModelledParticipant, CvTerm) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledParticipantWriter: writeParticipantIdentificationMethods.
writeParticipantIdentificationMethods(Participant) - Method in class psidev.psi.mi.jami.html.LightMIHtmlWriter: writeParticipantIdentificationMethods
writeParticipantIdentificationMethods(Participant) - Method in class psidev.psi.mi.jami.html.MIHtmlWriter: writeParticipantIdentificationMethods
writeParticipantIdentificationMethods(ParticipantEvidence) - Method in class psidev.psi.mi.jami.html.MIEvidenceHtmlWriter: writeParticipantIdentificationMethods
writeParticipantIdentificationMethods(ParticipantEvidence, CvTerm) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantEvidenceWriter: writeParticipantIdentificationMethods.
writeParticipantIdentificationMethods(Participant, CvTerm) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlParticipantWriter: writeParticipantIdentificationMethods.
writeParticipantPool(ParticipantPool) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: writeParticipantPool.
writeParticipantPool(ParticipantPool) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlModelledParticipantWriter: writeParticipantPool.
writeParticipantPool(ParticipantPool) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlParticipantEvidenceWriter: writeParticipantPool.
writeParticipantPool(ParticipantPool) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlParticipantWriter: writeParticipantPool.
writeParticipantPool(ParticipantPool) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledParticipantWriter: writeParticipantPool.
writeParticipantPool(ParticipantPool) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlParticipantEvidenceWriter: writeParticipantPool.
writeParticipants(T, CvTerm) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: writeParticipants.
writeParticipantStoichiometry(P) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.AbstractMitabColumnFeeder: writeParticipantStoichiometry.
writeParticipantStoichiometry(P) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: Writes participant stoichiometry
writeParticipantXrefs(P) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.AbstractMitabColumnFeeder: writeParticipantXrefs.
writeParticipantXrefs(P) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: Write Xref of participant and interactor
writePolymerSequence(Polymer) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlInteractorWriter: writePolymerSequence.
writePrimaryRef(PsiXmlXrefWriter, Xref, String) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlPublicationWriter: writePrimaryRef.
writeProperty(String, String) - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: writeProperty
writeProperty(String, String, Writer) - Static method in class psidev.psi.mi.jami.json.MIJsonUtils: writeProperty.
writePropertyKey(String, Writer) - Static method in class psidev.psi.mi.jami.json.MIJsonUtils: writePropertyKey.
writePropertyValue(String, Writer) - Static method in class psidev.psi.mi.jami.json.MIJsonUtils: writePropertyValue.
writePropertyWithQualifier(String, String, String) - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: writePropertyWithQualifier
writePublication(CooperativityEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlCooperativityEvidenceWriter: writePublication.
writePublication(Publication) - Method in class psidev.psi.mi.jami.html.MIEvidenceHtmlWriter: writePublication
writePublication(Publication) - Method in class psidev.psi.mi.jami.html.MIModelledHtmlWriter: writePublication
writePublicationAndXrefs(Experiment) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: writePublicationAndXrefs.
writePublicationIdentifiers(BinaryInteraction) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.DefaultMitabColumnFeeder: Writes the publication identifiers of a publication in an experiment.
writePublicationIdentifiers(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.MitabInteractionEvidenceFeeder: writePublicationIdentifiers.
writePublicationIdentifiers(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.MitabModelledInteractionFeeder: writePublicationIdentifiers.
writePublicationIdentifiers(T) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: Writes the publication identifiers of a publication in an experiment.
writePublicationImexId(Publication, boolean) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.MitabInteractionEvidenceFeeder: writePublicationImexId.
writePublicationPropertiesAsAttributes(Publication, boolean, boolean, boolean, boolean, boolean) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlPublicationWriter: writePublicationPropertiesAsAttributes.
writeRanges(F) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlFeatureWriter: writeRanges.
writeReleaseAttributes(Source) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.AbstractXmlSourceWriter: writeReleaseAttributes.
writeReleaseAttributes(Source) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.XmlSourceWriter: writeReleaseAttributes.
writerEndBody() - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: writerEndBody
writeResponse(C) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlCooperativeEffectWriter: writeResponse.
writerStartBody() - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: writerStartBody
writeSeparator(Writer) - Static method in class psidev.psi.mi.jami.json.MIJsonUtils: writeSeparator.
writeSource() - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: writeSource.
writeSource(BinaryInteraction) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.DefaultMitabColumnFeeder: Writes the interaction source from the modelled interaction
writeSource(BinaryInteractionEvidence) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.MitabInteractionEvidenceFeeder: writeSource.
writeSource(ModelledBinaryInteraction) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.MitabModelledInteractionFeeder: writeSource.
writeSource(CausalRelationship, Participant) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlCausalRelationshipWriter: writeSource.
writeSource(T) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: Writes the interaction source from the modelled interaction
writeStart() - Method in class psidev.psi.mi.jami.json.nary.AbstractMIJsonWriter: writeStart.
writeStartCooperativeEffect() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlCooperativeEffectWriter: writeStartCooperativeEffect.
writeStartCooperativeEffect() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlAllosteryWriter: writeStartCooperativeEffect.
writeStartCooperativeEffect() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlPreAssemblyWriter: writeStartCooperativeEffect.
writeStartCvTerm(String) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlCvTermWriter: writeStartCvTerm.
writeStartDbRef(String) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlDbXrefWriter: writeStartDbRef.
writeStartDocument() - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: writeStartDocument
writeStartEntry() - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: writeStartEntry.
writeStartEntryContent() - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: writeStartEntryContent.
writeStartEntryContent() - Method in class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter: writeStartEntryContent.
writeStartEntryContent() - Method in class psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlWriter: writeStartEntryContent.
writeStartInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionEvidenceWriter: writeStartInteraction.
writeStartInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: writeStartInteraction.
writeStartInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlInteractionWriter: writeStartInteraction.
writeStartInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlModelledInteractionWriter: writeStartInteraction.
writeStartInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledInteractionWriter: writeStartInteraction.
writeStartInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.AbstractXmlModelledInteractionWriter: writeStartInteraction.
writeStartInteraction() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.AbstractXmlModelledInteractionWriter: writeStartInteraction.
writeStartInteractionList() - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: writeStartInteractionList.
writeStartIntervalNode() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlPositionWriter: writeStartIntervalNode.
writeStartIntervalNode() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.XmlBeginPositionWriter: writeStartIntervalNode.
writeStartIntervalNode() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.XmlEndPositionWriter: writeStartIntervalNode.
writeStartIntervalNode() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlBeginPositionWriter: writeStartIntervalNode.
writeStartIntervalNode() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlEndPositionWriter: writeStartIntervalNode.
writeStartObject(Writer) - Static method in class psidev.psi.mi.jami.json.MIJsonUtils: writeStartObject.
writeStartOrganism() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlOrganismWriter: writeStartOrganism.
writeStartOrganism() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlHostOrganismWriter: writeStartOrganism.
writeStartOrganism() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlOrganismWriter: writeStartOrganism.
writeStartPositionNode() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlPositionWriter: writeStartPositionNode.
writeStartPositionNode() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.XmlBeginPositionWriter: writeStartPositionNode.
writeStartPositionNode() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.XmlEndPositionWriter: writeStartPositionNode.
writeStartPositionNode() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlBeginPositionWriter: writeStartPositionNode.
writeStartPositionNode() - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlEndPositionWriter: writeStartPositionNode.
writeStatus(Position) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlPositionWriter: writeStatus.
writeStatus(Position) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.XmlBeginPositionWriter: writeStatus.
writeStatus(Position) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.XmlEndPositionWriter: writeStatus.
writeStatus(Position) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlBeginPositionWriter: writeStatus.
writeStatus(Position) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlEndPositionWriter: writeStatus.
writeStoichiometry(P) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: writeStoichiometry.
writeStoichiometry(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlModelledParticipantWriter: writeStoichiometry.
writeStoichiometry(ModelledParticipant) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledParticipantWriter: writeStoichiometry.
writeStoichiometry(Participant) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlParticipantWriter: writeStoichiometry.
writeStoichiometry(ParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlParticipantEvidenceWriter: writeStoichiometry.
writeStoichiometry(ParticipantEvidence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlParticipantEvidenceWriter: writeStoichiometry.
writeStoichiometryAttribute(Stoichiometry) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlModelledParticipantWriter: writeStoichiometryAttribute.
writeStoichiometryAttribute(Stoichiometry) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlParticipantEvidenceWriter: writeStoichiometryAttribute.
writeStoichiometryAttribute(Stoichiometry) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlParticipantWriter: writeStoichiometryAttribute.
writeSubComplexInEntry() - Method in class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter: writeSubComplexInEntry.
writeSubTitle(String) - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: writeSubTitle
writeTag(String) - Method in class psidev.psi.mi.jami.html.AbstractMIHtmlWriter: writeTag
writeTarget(CausalRelationship) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlCausalRelationshipWriter: writeTarget.
writeUniqueIdentifier(P) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.AbstractMitabColumnFeeder: writeUniqueIdentifier.
writeUniqueIdentifier(P) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: This method will write the unique identifier of a participant
writeUnit(VariableParameter) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlVariableParameterWriter: writeUnit.
writeVariableParameters(Experiment) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: writeVariableParameters.
writeVariableParameters(Experiment) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25.XmlExperimentWriter: writeVariableParameters.
writeVariableParameters(Experiment) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlExperimentWriter: writeVariableParameters.
writeVariableParameterValues(VariableParameter) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlVariableParameterWriter: writeVariableParameterValues.
writeXref(P) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: writeXref.
writeXref(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlInteractorWriter: writeXref.
writeXref(ResultingSequence) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlResultingSequenceWriter: writeXref.
writeXref(Source) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.AbstractXmlSourceWriter: writeXref.
writeXref(Xref) - Method in class psidev.psi.mi.jami.tab.io.writer.feeder.AbstractMitabColumnFeeder: This methods write the database, id, version and qualifier of an xref
writeXref(Xref) - Method in interface psidev.psi.mi.jami.tab.io.writer.feeder.MitabColumnFeeder: This methods write the database, id, version and qualifier of an xref
writeXref(T) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: writeXref.
writeXrefFromCvIdentifiers(CvTerm) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlCvTermWriter: writeXrefFromCvIdentifiers.
writeXrefFromCvXrefs(CvTerm) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlCvTermWriter: writeXrefFromCvXrefs.
writeXrefFromExperimentXrefs(Experiment, String) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlExperimentWriter: writeXrefFromExperimentXrefs.
writeXrefFromExperimentXrefs(Experiment, String) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25.XmlExperimentWriter: writeXrefFromExperimentXrefs.
writeXrefFromFeatureIdentifiers(F) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlFeatureWriter: writeXrefFromFeatureIdentifiers.
writeXrefFromFeatureXrefs(F) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlFeatureWriter: writeXrefFromFeatureXrefs.
writeXrefFromInteractionIdentifiers(T) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: writeXrefFromInteractionIdentifiers.
writeXrefFromInteractionXrefs(T) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter: writeXrefFromInteractionXrefs.
writeXrefFromInteractorIdentifiers(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlInteractorWriter: writeXrefFromInteractorIdentifiers.
writeXrefFromInteractorXrefs(Interactor) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlInteractorWriter: writeXrefFromInteractorXrefs.
writeXrefFromParticipantXrefs(P) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter: writeXrefFromParticipantXrefs.
writeXrefFromPublicationIdentifiers(Publication) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlPublicationWriter: writeXrefFromPublicationIdentifiers.
writeXrefFromPublicationXrefs(Publication) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlPublicationWriter: writeXrefFromPublicationXrefs.
writeXrefFromSourceIdentifiers(Source) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.AbstractXmlSourceWriter: writeXrefFromSourceIdentifiers.
writeXrefFromSourceXrefs(Source) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.AbstractXmlSourceWriter: writeXrefFromSourceXrefs.
writeXrefs(F) - Method in class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlFeatureWriter: writeXrefs.

X

XML_BUFFER_SIZE - Static variable in class psidev.psi.mi.jami.xml.utils.PsiXmlUtils: Constant XML_BUFFER_SIZE=2048
XML_ENTRY_ATTRIBUTES_OPTION - Static variable in class psidev.psi.mi.jami.xml.model.extension.factory.options.PsiXmlWriterOptions: The option to provide a collection of annotations to write in each entry.
XML_EXTENDED_OPTION - Static variable in class psidev.psi.mi.jami.xml.model.extension.factory.options.PsiXmlWriterOptions: The option to select specialised XML writers using specific object instances such as expanded interactions, participants, features, confidences, parameters, host organisms, xrefs.
XML_EXTENSION - Static variable in class psidev.psi.mi.jami.commons.MIFileAnalyzer: Constant XML_EXTENSION=".xml"
XML_INTERACTION_SET_OPTION - Static variable in class psidev.psi.mi.jami.xml.model.extension.factory.options.PsiXmlWriterOptions: The option to provide a set of interactions that will be used to list all unique interactions in a compact xml file..
XML_NAMES_OPTION - Static variable in class psidev.psi.mi.jami.xml.model.extension.factory.options.PsiXmlWriterOptions: The option to select XML writers that will write shortLabel, fullName and aliases for named experiments, named interactions, named participants and named features.
XML_SCHEMA - Static variable in class psidev.psi.mi.jami.xml.utils.PsiXmlUtils: Constant XML_SCHEMA="http://www.w3.org/2001/XMLSchema-instan"{trunked}
XML_SCHEMA_PREFIX - Static variable in class psidev.psi.mi.jami.xml.utils.PsiXmlUtils: Constant XML_SCHEMA_PREFIX="xsi"
XML_TYPE_OPTION - Static variable in class psidev.psi.mi.jami.xml.model.extension.factory.options.PsiXmlWriterOptions: The PSI-XML flavour which has to be an enum of type PsiXmlType (compact or expanded) If this option is not provided, it will write expanded XML files.
XML_VERSION_OPTION - Static variable in class psidev.psi.mi.jami.xml.model.extension.factory.options.PsiXmlWriterOptions: The option to choose the PSI-XML version.
Xml253_NAMESPACE_URI - Static variable in class psidev.psi.mi.jami.xml.utils.PsiXmlUtils: Constant Xml253_NAMESPACE_URI="net:sf:psidev:mi"
Xml253BasicEntrySet - Class in psidev.psi.mi.jami.xml.model.xml253: Basic EntrySet implementation for JAXB read only .
Xml253BasicEntrySet() - Constructor for class psidev.psi.mi.jami.xml.model.xml253.Xml253BasicEntrySet
Xml253ComplexEntrySet - Class in psidev.psi.mi.jami.xml.model.xml253: Modelled EntrySet implementation for JAXB read only Ignore all experimental details
Xml253ComplexEntrySet() - Constructor for class psidev.psi.mi.jami.xml.model.xml253.Xml253ComplexEntrySet
Xml253ExperimentalEntrySet - Class in psidev.psi.mi.jami.xml.model.xml253: Xml253ExperimentalEntrySet implementation for JAXB read only
Xml253ExperimentalEntrySet() - Constructor for class psidev.psi.mi.jami.xml.model.xml253.Xml253ExperimentalEntrySet
Xml253ModelledEntrySet - Class in psidev.psi.mi.jami.xml.model.xml253: Modelled EntrySet implementation for JAXB read only Ignore all experimental details
Xml253ModelledEntrySet() - Constructor for class psidev.psi.mi.jami.xml.model.xml253.Xml253ModelledEntrySet
Xml254_NAMESPACE_URI - Static variable in class psidev.psi.mi.jami.xml.utils.PsiXmlUtils: Constant Xml254_NAMESPACE_URI="http://psi.hupo.org/mi/mif"
Xml254BasicEntrySet - Class in psidev.psi.mi.jami.xml.model.xml254: Basic EntrySet implementation for JAXB read only .
Xml254BasicEntrySet() - Constructor for class psidev.psi.mi.jami.xml.model.xml254.Xml254BasicEntrySet
Xml254ComplexEntrySet - Class in psidev.psi.mi.jami.xml.model.xml254: Modelled EntrySet implementation for JAXB read only Ignore all experimental details
Xml254ComplexEntrySet() - Constructor for class psidev.psi.mi.jami.xml.model.xml254.Xml254ComplexEntrySet
Xml254ExperimentalEntrySet - Class in psidev.psi.mi.jami.xml.model.xml254: Xml254ExperimentalEntrySet implementation for JAXB read only
Xml254ExperimentalEntrySet() - Constructor for class psidev.psi.mi.jami.xml.model.xml254.Xml254ExperimentalEntrySet
Xml254ModelledEntrySet - Class in psidev.psi.mi.jami.xml.model.xml254: Modelled EntrySet implementation for JAXB read only Ignore all experimental details
Xml254ModelledEntrySet() - Constructor for class psidev.psi.mi.jami.xml.model.xml254.Xml254ModelledEntrySet
Xml300_NAMESPACE_URI - Static variable in class psidev.psi.mi.jami.xml.utils.PsiXmlUtils: Constant Xml300_NAMESPACE_URI="http://psi.hupo.org/mi/mif300"
Xml300EntrySet - Class in psidev.psi.mi.jami.xml.model.xml30: Xml300EntrySet implementation for JAXB read only
Xml300EntrySet() - Constructor for class psidev.psi.mi.jami.xml.model.xml30.Xml300EntrySet
XmlAlias - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of an Alias.
XmlAlias - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of an Alias.
XmlAlias - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of an Alias.
XmlAlias() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAlias: Constructor for XmlAlias.
XmlAlias() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAlias: Constructor for XmlAlias.
XmlAlias() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAlias: Constructor for XmlAlias.
XmlAlias(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAlias: Constructor for XmlAlias.
XmlAlias(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAlias: Constructor for XmlAlias.
XmlAlias(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAlias: Constructor for XmlAlias.
XmlAlias(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAlias: Constructor for XmlAlias.
XmlAlias(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAlias: Constructor for XmlAlias.
XmlAlias(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAlias: Constructor for XmlAlias.
XmlAliasWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl: XML25 writer for aliases
XmlAliasWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlAliasWriter: Constructor for XmlAliasWriter.
XmlAllostery<T extends AllostericEffector> - Class in psidev.psi.mi.jami.xml.model.extension.xml253: XML implementation of Allostery
XmlAllostery<T extends AllostericEffector> - Class in psidev.psi.mi.jami.xml.model.extension.xml254: XML implementation of Allostery
XmlAllostery - Class in psidev.psi.mi.jami.xml.model.extension.xml300: XML 3.0 implementation of Allostery
XmlAllostery() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAllostery: Constructor for XmlAllostery.
XmlAllostery(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAllostery: Constructor for XmlAllostery.
XmlAllostery(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAllostery: Constructor for XmlAllostery.
XmlAllostery(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAllostery: Constructor for XmlAllostery.
XmlAllostery(CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAllostery: Constructor for XmlAllostery.
XmlAllostery(CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAllostery: Constructor for XmlAllostery.
XmlAllostery(CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAllostery: Constructor for XmlAllostery.
XmlAllosteryWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30: Xml 3.0 writer for allostery
XmlAllosteryWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30: Xml 3.0 writer for allostery
XmlAllosteryWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlAllosteryWriter: Constructor for XmlAllosteryWriter.
XmlAllosteryWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlAllosteryWriter: Constructor for XmlAllosteryWriter.
XmlAnnotation - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of an Annotation The JAXB binding is designed to be read-only and is not designed for writing
XmlAnnotation - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of an Annotation The JAXB binding is designed to be read-only and is not designed for writing
XmlAnnotation - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of an Annotation The JAXB binding is designed to be read-only and is not designed for writing
XmlAnnotation() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAnnotation: Constructor for XmlAnnotation.
XmlAnnotation() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAnnotation: Constructor for XmlAnnotation.
XmlAnnotation() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAnnotation: Constructor for XmlAnnotation.
XmlAnnotation(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAnnotation: Constructor for XmlAnnotation.
XmlAnnotation(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAnnotation: Constructor for XmlAnnotation.
XmlAnnotation(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAnnotation: Constructor for XmlAnnotation.
XmlAnnotation(CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlAnnotation: Constructor for XmlAnnotation.
XmlAnnotation(CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlAnnotation: Constructor for XmlAnnotation.
XmlAnnotation(CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlAnnotation: Constructor for XmlAnnotation.
XmlAnnotationWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl: XML writer for attributes
XmlAnnotationWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlAnnotationWriter: Constructor for XmlAnnotationWriter.
XmlAvailabilityWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl: XML availability writer
XmlAvailabilityWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlAvailabilityWriter: Constructor for XmlAvailabilityWriter.
XmlBasicBinaryInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25: Compact XML 2.5 writer for a basic binary interaction (ignore experimental details)
XmlBasicBinaryInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25: Expanded XML 2.5 writer for a basic binary interaction (ignore experimental details)
XmlBasicBinaryInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25: Compact XML 2.5 writer for a basic binary interaction (ignore experimental details) which has a fullname and aliases in addition to a shortname
XmlBasicBinaryInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25: Expanded XML 2.5 writer for a basic binary interaction (ignore experimental details).
XmlBasicBinaryInteractionWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlBasicBinaryInteractionWriter: Constructor for XmlBasicBinaryInteractionWriter.
XmlBasicBinaryInteractionWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlBasicBinaryInteractionWriter: Constructor for XmlBasicBinaryInteractionWriter.
XmlBasicBinaryInteractionWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlBasicBinaryInteractionWriter: Constructor for XmlBasicBinaryInteractionWriter.
XmlBasicBinaryInteractionWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlBasicBinaryInteractionWriter: Constructor for XmlBasicBinaryInteractionWriter.
XmlBasicInteraction - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of interaction
XmlBasicInteraction - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of interaction
XmlBasicInteraction - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of interaction
XmlBasicInteraction() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteraction: Constructor for XmlBasicInteraction.
XmlBasicInteraction() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteraction: Constructor for XmlBasicInteraction.
XmlBasicInteraction() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteraction: Constructor for XmlBasicInteraction.
XmlBasicInteraction(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteraction: Constructor for XmlBasicInteraction.
XmlBasicInteraction(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteraction: Constructor for XmlBasicInteraction.
XmlBasicInteraction(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteraction: Constructor for XmlBasicInteraction.
XmlBasicInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteraction: Constructor for XmlBasicInteraction.
XmlBasicInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteraction: Constructor for XmlBasicInteraction.
XmlBasicInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteraction: Constructor for XmlBasicInteraction.
XmlBasicInteractionComplexWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Wrapper of basic interactions If we add new modelled participants/remove participants, they will be added/removed from the list of participants of the wrapped interaction.
XmlBasicInteractionComplexWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Wrapper of basic interactions If we add new modelled participants/remove participants, they will be added/removed from the list of participants of the wrapped interaction.
XmlBasicInteractionComplexWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Wrapper of basic interactions If we add new modelled participants/remove participants, they will be added/removed from the list of participants of the wrapped interaction.
XmlBasicInteractionComplexWrapper(ExtendedPsiXmlInteraction<? extends Participant>) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBasicInteractionComplexWrapper: Constructor for XmlBasicInteractionComplexWrapper.
XmlBasicInteractionComplexWrapper(ExtendedPsiXmlInteraction<? extends Participant>) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBasicInteractionComplexWrapper: Constructor for XmlBasicInteractionComplexWrapper.
XmlBasicInteractionComplexWrapper(ExtendedPsiXmlInteraction<? extends Participant>) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBasicInteractionComplexWrapper: Constructor for XmlBasicInteractionComplexWrapper.
XmlBasicInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25: Compact XML 2.5 writer for a basic interaction (ignore experimental details)
XmlBasicInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25: Expanded XML 2.5 writer for a basic interaction (ignore experimental details)
XmlBasicInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25: Compact XML 2.5 writer for a basic interaction (ignore experimental details) which has a fullname and aliases in addition to a shortname
XmlBasicInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25: Expanded XML 2.5 writer for a basic interaction (ignore experimental details).
XmlBasicInteractionWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlBasicInteractionWriter: Constructor for XmlBasicInteractionWriter.
XmlBasicInteractionWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlBasicInteractionWriter: Constructor for XmlBasicInteractionWriter.
XmlBasicInteractionWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlBasicInteractionWriter: Constructor for XmlBasicInteractionWriter.
XmlBasicInteractionWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlBasicInteractionWriter: Constructor for XmlBasicInteractionWriter.
XmlBeginPositionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended: XML writer for the begin position of a range
XmlBeginPositionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl: XML writer for the begin position of a range
XmlBeginPositionWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.XmlBeginPositionWriter: Constructor for XmlBeginPositionWriter.
XmlBeginPositionWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlBeginPositionWriter: Constructor for XmlBeginPositionWriter.
XmlBinaryEvidenceParser - Class in psidev.psi.mi.jami.xml.io.parser: Xml parser creating binary interaction evidences
XmlBinaryEvidenceParser(File) - Constructor for class psidev.psi.mi.jami.xml.io.parser.XmlBinaryEvidenceParser: Constructor for XmlBinaryEvidenceParser.
XmlBinaryEvidenceParser(InputStream) - Constructor for class psidev.psi.mi.jami.xml.io.parser.XmlBinaryEvidenceParser: Constructor for XmlBinaryEvidenceParser.
XmlBinaryEvidenceParser(Reader) - Constructor for class psidev.psi.mi.jami.xml.io.parser.XmlBinaryEvidenceParser: Constructor for XmlBinaryEvidenceParser.
XmlBinaryEvidenceParser(URL) - Constructor for class psidev.psi.mi.jami.xml.io.parser.XmlBinaryEvidenceParser: Constructor for XmlBinaryEvidenceParser.
XmlBinaryEvidenceSource - Class in psidev.psi.mi.jami.xml.model.extension.datasource: PSI-XML data source that provides binary interactions evidence (full experimental details).
XmlBinaryEvidenceSource() - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinaryEvidenceSource: Constructor for XmlBinaryEvidenceSource.
XmlBinaryEvidenceSource(File) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinaryEvidenceSource: Constructor for XmlBinaryEvidenceSource.
XmlBinaryEvidenceSource(InputStream) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinaryEvidenceSource: Constructor for XmlBinaryEvidenceSource.
XmlBinaryEvidenceSource(Reader) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinaryEvidenceSource: Constructor for XmlBinaryEvidenceSource.
XmlBinaryEvidenceSource(URL) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinaryEvidenceSource: Constructor for XmlBinaryEvidenceSource.
XmlBinaryEvidenceStreamSource - Class in psidev.psi.mi.jami.xml.model.extension.datasource: PsiXml datasource for binaryInteractionEvidence
XmlBinaryEvidenceStreamSource() - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinaryEvidenceStreamSource: Constructor for XmlBinaryEvidenceStreamSource.
XmlBinaryEvidenceStreamSource(File) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinaryEvidenceStreamSource: Constructor for XmlBinaryEvidenceStreamSource.
XmlBinaryEvidenceStreamSource(InputStream) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinaryEvidenceStreamSource: Constructor for XmlBinaryEvidenceStreamSource.
XmlBinaryEvidenceStreamSource(Reader) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinaryEvidenceStreamSource: Constructor for XmlBinaryEvidenceStreamSource.
XmlBinaryEvidenceStreamSource(URL) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinaryEvidenceStreamSource: Constructor for XmlBinaryEvidenceStreamSource.
XmlBinaryInteraction - Class in psidev.psi.mi.jami.xml.model.extension.binary: Xml implementation of binary interaction
XmlBinaryInteraction() - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteraction: Constructor for XmlBinaryInteraction.
XmlBinaryInteraction(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteraction: Constructor for XmlBinaryInteraction.
XmlBinaryInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteraction: Constructor for XmlBinaryInteraction.
XmlBinaryInteraction(String, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteraction: Constructor for XmlBinaryInteraction.
XmlBinaryInteraction(String, CvTerm, Participant, Participant) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteraction: Constructor for XmlBinaryInteraction.
XmlBinaryInteraction(String, CvTerm, Participant, Participant, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteraction: Constructor for XmlBinaryInteraction.
XmlBinaryInteraction(String, Participant, Participant) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteraction: Constructor for XmlBinaryInteraction.
XmlBinaryInteraction(String, Participant, Participant, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteraction: Constructor for XmlBinaryInteraction.
XmlBinaryInteraction(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteraction: Constructor for XmlBinaryInteraction.
XmlBinaryInteraction(Participant, Participant) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteraction: Constructor for XmlBinaryInteraction.
XmlBinaryInteraction(Participant, Participant, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteraction: Constructor for XmlBinaryInteraction.
XmlBinaryInteractionEvidence - Class in psidev.psi.mi.jami.xml.model.extension.binary.xml253: Xml implementation of BinaryInteractionEvidence
XmlBinaryInteractionEvidence - Class in psidev.psi.mi.jami.xml.model.extension.binary.xml254: Xml implementation of BinaryInteractionEvidence
XmlBinaryInteractionEvidence - Class in psidev.psi.mi.jami.xml.model.extension.binary.xml30: Xml implementation of BinaryInteractionEvidence
XmlBinaryInteractionEvidence() - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml253.XmlBinaryInteractionEvidence: Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence() - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml254.XmlBinaryInteractionEvidence: Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence() - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlBinaryInteractionEvidence: Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml253.XmlBinaryInteractionEvidence: Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml254.XmlBinaryInteractionEvidence: Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlBinaryInteractionEvidence: Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml253.XmlBinaryInteractionEvidence: Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml254.XmlBinaryInteractionEvidence: Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlBinaryInteractionEvidence: Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(String, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml253.XmlBinaryInteractionEvidence: Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(String, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml254.XmlBinaryInteractionEvidence: Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(String, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlBinaryInteractionEvidence: Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(String, CvTerm, ParticipantEvidence, ParticipantEvidence) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml253.XmlBinaryInteractionEvidence: Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(String, CvTerm, ParticipantEvidence, ParticipantEvidence) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml254.XmlBinaryInteractionEvidence: Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(String, CvTerm, ParticipantEvidence, ParticipantEvidence) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlBinaryInteractionEvidence: Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(String, CvTerm, ParticipantEvidence, ParticipantEvidence, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml253.XmlBinaryInteractionEvidence: Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(String, CvTerm, ParticipantEvidence, ParticipantEvidence, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml254.XmlBinaryInteractionEvidence: Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(String, CvTerm, ParticipantEvidence, ParticipantEvidence, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlBinaryInteractionEvidence: Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(String, ParticipantEvidence, ParticipantEvidence) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml253.XmlBinaryInteractionEvidence: Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(String, ParticipantEvidence, ParticipantEvidence) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml254.XmlBinaryInteractionEvidence: Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(String, ParticipantEvidence, ParticipantEvidence) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlBinaryInteractionEvidence: Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(String, ParticipantEvidence, ParticipantEvidence, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml253.XmlBinaryInteractionEvidence: Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(String, ParticipantEvidence, ParticipantEvidence, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml254.XmlBinaryInteractionEvidence: Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(String, ParticipantEvidence, ParticipantEvidence, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlBinaryInteractionEvidence: Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml253.XmlBinaryInteractionEvidence: Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml254.XmlBinaryInteractionEvidence: Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlBinaryInteractionEvidence: Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(ParticipantEvidence, ParticipantEvidence) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml253.XmlBinaryInteractionEvidence: Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(ParticipantEvidence, ParticipantEvidence) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml254.XmlBinaryInteractionEvidence: Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(ParticipantEvidence, ParticipantEvidence) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlBinaryInteractionEvidence: Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(ParticipantEvidence, ParticipantEvidence, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml253.XmlBinaryInteractionEvidence: Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(ParticipantEvidence, ParticipantEvidence, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml254.XmlBinaryInteractionEvidence: Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidence(ParticipantEvidence, ParticipantEvidence, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlBinaryInteractionEvidence: Constructor for XmlBinaryInteractionEvidence.
XmlBinaryInteractionEvidenceIterator - Class in psidev.psi.mi.jami.xml.io.iterator: Xml binary interaction evidence iterator
XmlBinaryInteractionEvidenceIterator(PsiXmlParser<BinaryInteractionEvidence>) - Constructor for class psidev.psi.mi.jami.xml.io.iterator.XmlBinaryInteractionEvidenceIterator: Constructor for XmlBinaryInteractionEvidenceIterator.
XmlBinaryInteractionEvidenceWrapper - Class in psidev.psi.mi.jami.xml.model.extension.binary.xml30: Xml implementation of BinaryInteractionWrapper with a source locator
XmlBinaryInteractionEvidenceWrapper - Class in psidev.psi.mi.jami.xml.model.extension.binary: Xml implementation of BinaryInteractionWrapper with a source locator
XmlBinaryInteractionEvidenceWrapper(ExtendedPsiXmlInteractionEvidence) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: Constructor for XmlBinaryInteractionEvidenceWrapper.
XmlBinaryInteractionEvidenceWrapper(ExtendedPsiXmlInteractionEvidence, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionEvidenceWrapper: Constructor for XmlBinaryInteractionEvidenceWrapper.
XmlBinaryInteractionEvidenceWrapper(ExtendedPsiXmlInteractionEvidence) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlBinaryInteractionEvidenceWrapper: Constructor for XmlBinaryInteractionEvidenceWrapper.
XmlBinaryInteractionEvidenceWrapper(ExtendedPsiXmlInteractionEvidence, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlBinaryInteractionEvidenceWrapper: Constructor for XmlBinaryInteractionEvidenceWrapper.
XmlBinaryInteractionEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25: Compact XML 2.5 writer for a binary interaction evidence (with full experimental details).
XmlBinaryInteractionEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30: Compact XML 3.0 writer for a binary interaction evidence (with full experimental details).
XmlBinaryInteractionEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25: Expanded XML 2.5 writer for a binary interaction evidence (with full experimental details).
XmlBinaryInteractionEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30: Expanded XML 3.0 writer for a binary interaction evidence (with full experimental details).
XmlBinaryInteractionEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25: Compact XML 2.5 writer for an expanded binary interaction evidence (having modelled, intramolecular properties, list of experiments, list of interaction types, etc.).
XmlBinaryInteractionEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30: Compact XML 3.0 writer for an expanded binary interaction evidence (having modelled, intramolecular properties, list of experiments, list of interaction types, etc.).
XmlBinaryInteractionEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25: Expanded XML 2.5 writer for an expanded binary interaction evidence (having modelled, intramolecular properties, list of experiments, list of interaction types, etc.).
XmlBinaryInteractionEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30: Expanded XML 3.0 writer for an expanded binary interaction evidence (having modelled, intramolecular properties, list of experiments, list of interaction types, etc.).
XmlBinaryInteractionEvidenceWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlBinaryInteractionEvidenceWriter: Constructor for XmlBinaryInteractionEvidenceWriter.
XmlBinaryInteractionEvidenceWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlBinaryInteractionEvidenceWriter: Constructor for XmlBinaryInteractionEvidenceWriter.
XmlBinaryInteractionEvidenceWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlBinaryInteractionEvidenceWriter: Constructor for XmlBinaryInteractionEvidenceWriter.
XmlBinaryInteractionEvidenceWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlBinaryInteractionEvidenceWriter: Constructor for XmlBinaryInteractionEvidenceWriter.
XmlBinaryInteractionEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlBinaryInteractionEvidenceWriter: Constructor for XmlBinaryInteractionEvidenceWriter.
XmlBinaryInteractionEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlBinaryInteractionEvidenceWriter: Constructor for XmlBinaryInteractionEvidenceWriter.
XmlBinaryInteractionEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlBinaryInteractionEvidenceWriter: Constructor for XmlBinaryInteractionEvidenceWriter.
XmlBinaryInteractionEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlBinaryInteractionEvidenceWriter: Constructor for XmlBinaryInteractionEvidenceWriter.
XmlBinaryInteractionFactory - Class in psidev.psi.mi.jami.xml.model.extension.factory.xml25: Xml extension of BinaryInteractionFactory for XML 2.5
XmlBinaryInteractionFactory - Class in psidev.psi.mi.jami.xml.model.extension.factory.xml30: Xml extension of BinaryInteractionFactory for XML 3.0
XmlBinaryInteractionFactory() - Constructor for class psidev.psi.mi.jami.xml.model.extension.factory.xml30.XmlBinaryInteractionFactory
XmlBinaryInteractionFactory(PsiXmlVersion) - Constructor for class psidev.psi.mi.jami.xml.model.extension.factory.xml25.XmlBinaryInteractionFactory
XmlBinaryInteractionIterator - Class in psidev.psi.mi.jami.xml.io.iterator: Xml basic binary interaction iterator
XmlBinaryInteractionIterator(PsiXmlParser<BinaryInteraction>) - Constructor for class psidev.psi.mi.jami.xml.io.iterator.XmlBinaryInteractionIterator: Constructor for XmlBinaryInteractionIterator.
XmlBinaryInteractionWrapper - Class in psidev.psi.mi.jami.xml.model.extension.binary: Wrapper for ModelledBinaryInteraction
XmlBinaryInteractionWrapper(ExtendedPsiXmlInteraction) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: Constructor for XmlBinaryInteractionWrapper.
XmlBinaryInteractionWrapper(ExtendedPsiXmlInteraction, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.XmlBinaryInteractionWrapper: Constructor for XmlBinaryInteractionWrapper.
XmlBinaryParser - Class in psidev.psi.mi.jami.xml.io.parser: Xml parser creating binary interactions that can be a mix of interaction evidences and abstract interactions
XmlBinaryParser(File) - Constructor for class psidev.psi.mi.jami.xml.io.parser.XmlBinaryParser: Constructor for XmlBinaryParser.
XmlBinaryParser(InputStream) - Constructor for class psidev.psi.mi.jami.xml.io.parser.XmlBinaryParser: Constructor for XmlBinaryParser.
XmlBinaryParser(Reader) - Constructor for class psidev.psi.mi.jami.xml.io.parser.XmlBinaryParser: Constructor for XmlBinaryParser.
XmlBinaryParser(URL) - Constructor for class psidev.psi.mi.jami.xml.io.parser.XmlBinaryParser: Constructor for XmlBinaryParser.
XmlBinarySource - Class in psidev.psi.mi.jami.xml.model.extension.datasource: PSI-XML data source that provides binary interactions (mixed of abstract interactions and interaction evidences).
XmlBinarySource() - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinarySource: Constructor for XmlBinarySource.
XmlBinarySource(File) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinarySource: Constructor for XmlBinarySource.
XmlBinarySource(InputStream) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinarySource: Constructor for XmlBinarySource.
XmlBinarySource(Reader) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinarySource: Constructor for XmlBinarySource.
XmlBinarySource(URL) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinarySource: Constructor for XmlBinarySource.
XmlBinaryStreamSource - Class in psidev.psi.mi.jami.xml.model.extension.datasource: Psi-XML mixed binary interaction datasource
XmlBinaryStreamSource() - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinaryStreamSource: Constructor for XmlBinaryStreamSource.
XmlBinaryStreamSource(File) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinaryStreamSource: Constructor for XmlBinaryStreamSource.
XmlBinaryStreamSource(InputStream) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinaryStreamSource: Constructor for XmlBinaryStreamSource.
XmlBinaryStreamSource(Reader) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinaryStreamSource: Constructor for XmlBinaryStreamSource.
XmlBinaryStreamSource(URL) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlBinaryStreamSource: Constructor for XmlBinaryStreamSource.
XmlBindingFeaturesWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30: XML 3.0 writer for binding features
XmlBindingFeaturesWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlBindingFeaturesWriter: Constructor for XmlBindingFeaturesWriter.
XmlBioactiveEntity - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of BioactiveEntity
XmlBioactiveEntity - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of BioactiveEntity
XmlBioactiveEntity - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of BioactiveEntity
XmlBioactiveEntity(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String, CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String, CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String, CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String, CvTerm, Organism, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String, CvTerm, Organism, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String, CvTerm, Organism, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String, Organism, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String, Organism, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String, Organism, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, CvTerm, Organism, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, CvTerm, Organism, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, CvTerm, Organism, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, Organism, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, Organism, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, Organism, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlBioactiveEntity(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlBioactiveEntity: Constructor for XmlBioactiveEntity.
XmlCausalRelationship - Class in psidev.psi.mi.jami.xml.model.extension.xml300: XML 3.0 implementation of causal relationship
XmlCausalRelationship() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCausalRelationship: Constructor for XmlCausalRelationship.
XmlCausalRelationship(CvTerm, Participant) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCausalRelationship: Constructor for XmlCausalRelationship.
XmlCausalRelationshipWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30: XML 3.0 writer for causal relationship
XmlCausalRelationshipWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30: XML 3.0 writer for causalRelationship
XmlCausalRelationshipWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlCausalRelationshipWriter: Constructor for XmlCausalRelationshipWriter.
XmlCausalRelationshipWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlCausalRelationshipWriter: Constructor for XmlCausalRelationshipWriter.
XmlChecksum - Class in psidev.psi.mi.jami.xml.model.extension: Xml implementation of a checksum
XmlChecksum(CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.XmlChecksum: Constructor for XmlChecksum.
XmlChecksumWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl: Xml writer of checksums
XmlChecksumWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlChecksumWriter: Constructor for XmlChecksumWriter.
XmlComplex - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of ModelledInteraction
XmlComplex - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of ModelledInteraction
XmlComplex - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of ModelledInteraction
XmlComplex() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlComplex: Constructor for XmlComplex.
XmlComplex() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlComplex: Constructor for XmlComplex.
XmlComplex() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlComplex: Constructor for XmlComplex.
XmlComplex(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlComplex: Constructor for XmlComplex.
XmlComplex(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlComplex: Constructor for XmlComplex.
XmlComplex(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlComplex: Constructor for XmlComplex.
XmlComplex(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlComplex: Constructor for XmlComplex.
XmlComplexIterator - Class in psidev.psi.mi.jami.xml.io.iterator: Xml complex iterator
XmlComplexIterator(PsiXmlParser<Complex>) - Constructor for class psidev.psi.mi.jami.xml.io.iterator.XmlComplexIterator: Constructor for XmlComplexIterator.
XmlComplexParser - Class in psidev.psi.mi.jami.xml.io.parser: Parser generating biological complex objects and ignore experimental details
XmlComplexParser(File) - Constructor for class psidev.psi.mi.jami.xml.io.parser.XmlComplexParser: Constructor for XmlComplexParser.
XmlComplexParser(InputStream) - Constructor for class psidev.psi.mi.jami.xml.io.parser.XmlComplexParser: Constructor for XmlComplexParser.
XmlComplexParser(Reader) - Constructor for class psidev.psi.mi.jami.xml.io.parser.XmlComplexParser: Constructor for XmlComplexParser.
XmlComplexParser(URL) - Constructor for class psidev.psi.mi.jami.xml.io.parser.XmlComplexParser: Constructor for XmlComplexParser.
XmlComplexSource - Class in psidev.psi.mi.jami.xml.model.extension.datasource: PSI-XML data source that provides abstract interactions (ignore full experimental details).
XmlComplexSource() - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlComplexSource: Constructor for XmlComplexSource.
XmlComplexSource(File) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlComplexSource: Constructor for XmlComplexSource.
XmlComplexSource(InputStream) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlComplexSource: Constructor for XmlComplexSource.
XmlComplexSource(Reader) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlComplexSource: Constructor for XmlComplexSource.
XmlComplexSource(URL) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlComplexSource: Constructor for XmlComplexSource.
XmlComplexStreamSource - Class in psidev.psi.mi.jami.xml.model.extension.datasource: Datasource for Psi-XML abstract interactions
XmlComplexStreamSource() - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlComplexStreamSource: Constructor for XmlComplexStreamSource.
XmlComplexStreamSource(File) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlComplexStreamSource: Constructor for XmlComplexStreamSource.
XmlComplexStreamSource(InputStream) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlComplexStreamSource: Constructor for XmlComplexStreamSource.
XmlComplexStreamSource(Reader) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlComplexStreamSource: Constructor for XmlComplexStreamSource.
XmlComplexStreamSource(URL) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlComplexStreamSource: Constructor for XmlComplexStreamSource.
XmlComplexWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25: Compact XML 2.5 writer for a biological complex (ignore experimental details).
XmlComplexWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25: Expanded XML 2.5 writer for a biological complex (ignore experimental details).
XmlComplexWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25: Compact XML 2.5 writer for an expanded biological complex (ignore experimental details).
XmlComplexWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25: Expanded XML 2.5 writer for an expanded biological complexes (ignore experimental details).
XmlComplexWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlComplexWriter: Constructor for XmlComplexWriter.
XmlComplexWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlComplexWriter: Constructor for XmlComplexWriter.
XmlComplexWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlComplexWriter: Constructor for XmlComplexWriter.
XmlComplexWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlComplexWriter: Constructor for XmlComplexWriter.
XmlConfidence - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of confidence
XmlConfidence - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of confidence
XmlConfidence - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of confidence
XmlConfidence() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlConfidence: Constructor for XmlConfidence.
XmlConfidence() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlConfidence: Constructor for XmlConfidence.
XmlConfidence() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlConfidence: Constructor for XmlConfidence.
XmlConfidence(CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlConfidence: Constructor for XmlConfidence.
XmlConfidence(CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlConfidence: Constructor for XmlConfidence.
XmlConfidence(CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlConfidence: Constructor for XmlConfidence.
XmlConfidence.JAXBExperimentRefWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
XmlConfidence.JAXBExperimentRefWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
XmlConfidence.JAXBExperimentRefWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
XmlConfidenceWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253: A wrapper for confidences
XmlConfidenceWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254: A wrapper for confidences
XmlConfidenceWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300: A wrapper for confidences
XmlConfidenceWrapper(Confidence) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlConfidenceWrapper: Constructor for XmlConfidenceWrapper.
XmlConfidenceWrapper(Confidence) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlConfidenceWrapper: Constructor for XmlConfidenceWrapper.
XmlConfidenceWrapper(Confidence) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlConfidenceWrapper: Constructor for XmlConfidenceWrapper.
XmlConfidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml253: Extended Xml25 writer for confidences.
XmlConfidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml254: Extended Xml25 writer for confidences.
XmlConfidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30: Extended Xml30 writer for confidences.
XmlConfidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl: Xml25 writer for confidences
XmlConfidenceWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlConfidenceWriter: Constructor for XmlConfidenceWriter.
XmlConfidenceWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml253.XmlConfidenceWriter: Constructor for XmlConfidenceWriter.
XmlConfidenceWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml254.XmlConfidenceWriter: Constructor for XmlConfidenceWriter.
XmlConfidenceWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlConfidenceWriter: Constructor for XmlConfidenceWriter.
XmlCooperativityEvidence - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation for cooperativity evidence
XmlCooperativityEvidence - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation for cooperativity evidence
XmlCooperativityEvidence - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml 3.0 implementation for cooperativity evidence
XmlCooperativityEvidence() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCooperativityEvidence: Constructor for XmlCooperativityEvidence.
XmlCooperativityEvidence(Experiment) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlCooperativityEvidence: Constructor for XmlCooperativityEvidence.
XmlCooperativityEvidence(Experiment) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlCooperativityEvidence: Constructor for XmlCooperativityEvidence.
XmlCooperativityEvidence(Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCooperativityEvidence: Constructor for XmlCooperativityEvidence.
XmlCooperativityEvidence.JAXBEvidenceMethodWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
XmlCooperativityEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30: Xml 3.0 writer for cooperativity evidence
XmlCooperativityEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30: Xml 3.0 writer for cooperativity evidence
XmlCooperativityEvidenceWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlCooperativityEvidenceWriter: Constructor for XmlCooperativityEvidenceWriter.
XmlCooperativityEvidenceWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlCooperativityEvidenceWriter: Constructor for XmlCooperativityEvidenceWriter.
XmlCvTerm - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of CvTerm.
XmlCvTerm - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of CvTerm.
XmlCvTerm - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of CvTerm.
XmlCvTerm() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlCvTerm: Constructor for XmlCvTerm.
XmlCvTerm() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlCvTerm: Constructor for XmlCvTerm.
XmlCvTerm() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCvTerm: Constructor for XmlCvTerm.
XmlCvTerm(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlCvTerm: Constructor for XmlCvTerm.
XmlCvTerm(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlCvTerm: Constructor for XmlCvTerm.
XmlCvTerm(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCvTerm: Constructor for XmlCvTerm.
XmlCvTerm(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlCvTerm: Constructor for XmlCvTerm.
XmlCvTerm(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlCvTerm: Constructor for XmlCvTerm.
XmlCvTerm(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCvTerm: Constructor for XmlCvTerm.
XmlCvTerm(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlCvTerm: Constructor for XmlCvTerm.
XmlCvTerm(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlCvTerm: Constructor for XmlCvTerm.
XmlCvTerm(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCvTerm: Constructor for XmlCvTerm.
XmlCvTerm(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlCvTerm: Constructor for XmlCvTerm.
XmlCvTerm(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlCvTerm: Constructor for XmlCvTerm.
XmlCvTerm(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCvTerm: Constructor for XmlCvTerm.
XmlCvTerm(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlCvTerm: Constructor for XmlCvTerm.
XmlCvTerm(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlCvTerm: Constructor for XmlCvTerm.
XmlCvTerm(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlCvTerm: Constructor for XmlCvTerm.
XmlCvTermWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended: CvTerm writers for cvs without attributes
XmlCvTermWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl: CvTerm writers for cvs without attributes
XmlCvTermWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.XmlCvTermWriter: Constructor for XmlCvTermWriter.
XmlCvTermWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlCvTermWriter: Constructor for XmlCvTermWriter.
XmlDbXrefWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended: XML writer for an expanded PSI25Xref having secondary and annotations
XmlDbXrefWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl: Xml Writer for Xref object
XmlDbXrefWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.XmlDbXrefWriter: Constructor for XmlDbXrefWriter.
XmlDbXrefWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlDbXrefWriter: Constructor for XmlDbXrefWriter.
XmlEndPositionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended: XML writer for the end position of a range
XmlEndPositionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl: XML writer for the end position of a range
XmlEndPositionWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.XmlEndPositionWriter: Constructor for XmlEndPositionWriter.
XmlEndPositionWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlEndPositionWriter: Constructor for XmlEndPositionWriter.
XmlEntryContext - Class in psidev.psi.mi.jami.xml: The xml entry context is a context threadlocal that will be valid for the whole xml entry but will be cleared after each entry in the entrySet
XmlEvidenceParser - Class in psidev.psi.mi.jami.xml.io.parser: Parser generating interaction evidence objects with all experimental details
XmlEvidenceParser(File) - Constructor for class psidev.psi.mi.jami.xml.io.parser.XmlEvidenceParser: Constructor for XmlEvidenceParser.
XmlEvidenceParser(InputStream) - Constructor for class psidev.psi.mi.jami.xml.io.parser.XmlEvidenceParser: Constructor for XmlEvidenceParser.
XmlEvidenceParser(Reader) - Constructor for class psidev.psi.mi.jami.xml.io.parser.XmlEvidenceParser: Constructor for XmlEvidenceParser.
XmlEvidenceParser(URL) - Constructor for class psidev.psi.mi.jami.xml.io.parser.XmlEvidenceParser: Constructor for XmlEvidenceParser.
XmlEvidenceSource - Class in psidev.psi.mi.jami.xml.model.extension.datasource: PSI-XML data source that provides interaction evidences (with full experimental details).
XmlEvidenceSource() - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlEvidenceSource: Constructor for XmlEvidenceSource.
XmlEvidenceSource(File) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlEvidenceSource: Constructor for XmlEvidenceSource.
XmlEvidenceSource(InputStream) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlEvidenceSource: Constructor for XmlEvidenceSource.
XmlEvidenceSource(Reader) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlEvidenceSource: Constructor for XmlEvidenceSource.
XmlEvidenceSource(URL) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlEvidenceSource: Constructor for XmlEvidenceSource.
XmlEvidenceStreamSource - Class in psidev.psi.mi.jami.xml.model.extension.datasource: Datasource for Psi-xml interaction evidence
XmlEvidenceStreamSource() - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlEvidenceStreamSource: Constructor for XmlEvidenceStreamSource.
XmlEvidenceStreamSource(File) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlEvidenceStreamSource: Constructor for XmlEvidenceStreamSource.
XmlEvidenceStreamSource(InputStream) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlEvidenceStreamSource: Constructor for XmlEvidenceStreamSource.
XmlEvidenceStreamSource(Reader) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlEvidenceStreamSource: Constructor for XmlEvidenceStreamSource.
XmlEvidenceStreamSource(URL) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlEvidenceStreamSource: Constructor for XmlEvidenceStreamSource.
XmlExperiment - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml im
XmlExperiment - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml im
XmlExperiment - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml 3.0 implementation of experiment
XmlExperiment() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperiment: Constructor for XmlExperiment.
XmlExperiment() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperiment: Constructor for XmlExperiment.
XmlExperiment() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperiment: Constructor for XmlExperiment.
XmlExperiment(Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperiment: Constructor for XmlExperiment.
XmlExperiment(Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperiment: Constructor for XmlExperiment.
XmlExperiment(Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperiment: Constructor for XmlExperiment.
XmlExperiment(Publication, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperiment: Constructor for XmlExperiment.
XmlExperiment(Publication, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperiment: Constructor for XmlExperiment.
XmlExperiment(Publication, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperiment: Constructor for XmlExperiment.
XmlExperiment(Publication, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperiment: Constructor for XmlExperiment.
XmlExperiment(Publication, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperiment: Constructor for XmlExperiment.
XmlExperiment(Publication, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperiment: Constructor for XmlExperiment.
XmlExperimentalCvTermWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml253: XML writer for experimental cv terms
XmlExperimentalCvTermWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml254: XML writer for experimental cv terms
XmlExperimentalCvTermWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30: XML writer for experimental cv terms
XmlExperimentalCvTermWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml253.XmlExperimentalCvTermWriter: Constructor for XmlExperimentalCvTermWriter.
XmlExperimentalCvTermWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml254.XmlExperimentalCvTermWriter: Constructor for XmlExperimentalCvTermWriter.
XmlExperimentalCvTermWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlExperimentalCvTermWriter: Constructor for XmlExperimentalCvTermWriter.
XmlExperimentalInteractorWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact: Compact XML writer of experimental interactors
XmlExperimentalInteractorWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded: Expanded XML writer of experimental interactors
XmlExperimentalInteractorWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.XmlExperimentalInteractorWriter: Constructor for XmlExperimentalInteractorWriter.
XmlExperimentalInteractorWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.XmlExperimentalInteractorWriter: Constructor for XmlExperimentalInteractorWriter.
XmlExperimentalParticipantCandidate - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of ParticipantEvidence
XmlExperimentalParticipantCandidate - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of ParticipantEvidence
XmlExperimentalParticipantCandidate - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of ParticipantEvidence
XmlExperimentalParticipantCandidate() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidate: Constructor for XmlExperimentalParticipantCandidate.
XmlExperimentalParticipantCandidate() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidate: Constructor for XmlExperimentalParticipantCandidate.
XmlExperimentalParticipantCandidate() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidate: Constructor for XmlExperimentalParticipantCandidate.
XmlExperimentalParticipantCandidate(Interactor) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidate: Constructor for XmlExperimentalParticipantCandidate.
XmlExperimentalParticipantCandidate(Interactor) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidate: Constructor for XmlExperimentalParticipantCandidate.
XmlExperimentalParticipantCandidate(Interactor) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidate: Constructor for XmlExperimentalParticipantCandidate.
XmlExperimentalParticipantCandidate(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidate: Constructor for XmlExperimentalParticipantCandidate.
XmlExperimentalParticipantCandidate(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidate: Constructor for XmlExperimentalParticipantCandidate.
XmlExperimentalParticipantCandidate(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidate: Constructor for XmlExperimentalParticipantCandidate.
XmlExperimentalParticipantCandidate.JAXBFeatureWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
XmlExperimentalParticipantCandidate.JAXBFeatureWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
XmlExperimentalParticipantCandidate.JAXBFeatureWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
XmlExperimentalParticipantCandidateWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Wrapper for Xml participants candidates Addeding new modelled feature to this participant will not add new feature evidences to the wrapped participant evidence as they are incompatibles.
XmlExperimentalParticipantCandidateWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Wrapper for Xml participants candidates Addeding new modelled feature to this participant will not add new feature evidences to the wrapped participant evidence as they are incompatibles.
XmlExperimentalParticipantCandidateWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Wrapper for Xml participants candidates Addeding new modelled feature to this participant will not add new feature evidences to the wrapped participant evidence as they are incompatibles.
XmlExperimentalParticipantCandidateWrapper(ExperimentalParticipantCandidate, ModelledParticipantPool) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantCandidateWrapper: Constructor for XmlExperimentalParticipantCandidateWrapper.
XmlExperimentalParticipantCandidateWrapper(ExperimentalParticipantCandidate, ModelledParticipantPool) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantCandidateWrapper: Constructor for XmlExperimentalParticipantCandidateWrapper.
XmlExperimentalParticipantCandidateWrapper(ExperimentalParticipantCandidate, ModelledParticipantPool) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantCandidateWrapper: Constructor for XmlExperimentalParticipantCandidateWrapper.
XmlExperimentalParticipantCandidateWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30: Compact XML 3.0 writer for a participant evidence with full experimental details
XmlExperimentalParticipantCandidateWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30: Expanded XML 3.0 writer for a participant evidence with full experimental details
XmlExperimentalParticipantCandidateWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30: Compact XML 3.0 writer for a participant evidence with full experimental details
XmlExperimentalParticipantCandidateWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30: Expanded XML 3.0 writer for a participant evidence with full experimental details
XmlExperimentalParticipantCandidateWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlExperimentalParticipantCandidateWriter: Constructor for XmlExperimentalParticipantCandidateWriter.
XmlExperimentalParticipantCandidateWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlExperimentalParticipantCandidateWriter: Constructor for XmlExperimentalParticipantCandidateWriter.
XmlExperimentalParticipantCandidateWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlExperimentalParticipantCandidateWriter: Constructor for XmlExperimentalParticipantCandidateWriter.
XmlExperimentalParticipantCandidateWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlExperimentalParticipantCandidateWriter: Constructor for XmlExperimentalParticipantCandidateWriter.
XmlExperimentalParticipantPool - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of participant pool
XmlExperimentalParticipantPool - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of participant pool
XmlExperimentalParticipantPool - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of participant pool
XmlExperimentalParticipantPool() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantPool: Constructor for XmlExperimentalParticipantPool.
XmlExperimentalParticipantPool() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantPool: Constructor for XmlExperimentalParticipantPool.
XmlExperimentalParticipantPool() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantPool: Constructor for XmlExperimentalParticipantPool.
XmlExperimentalParticipantPool(AbstractXmlParticipant<InteractionEvidence, FeatureEvidence>) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantPool: Constructor for XmlExperimentalParticipantPool.
XmlExperimentalParticipantPool(AbstractXmlParticipant<InteractionEvidence, FeatureEvidence>) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantPool: Constructor for XmlExperimentalParticipantPool.
XmlExperimentalParticipantPool(AbstractXmlParticipant<InteractionEvidence, FeatureEvidence>) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantPool: Constructor for XmlExperimentalParticipantPool.
XmlExperimentalParticipantPoolWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Wrapper for Xml participants pools Addeding new modelled feature to this participant will not add new feature evidences to the wrapped participant evidence as they are incompatibles.
XmlExperimentalParticipantPoolWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Wrapper for Xml participants pools Addeding new modelled feature to this participant will not add new feature evidences to the wrapped participant evidence as they are incompatibles.
XmlExperimentalParticipantPoolWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Wrapper for Xml participants pools Addeding new modelled feature to this participant will not add new feature evidences to the wrapped participant evidence as they are incompatibles.
XmlExperimentalParticipantPoolWrapper(ExperimentalParticipantPool, XmlInteractionEvidenceComplexWrapper) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlExperimentalParticipantPoolWrapper: Constructor for XmlExperimentalParticipantPoolWrapper.
XmlExperimentalParticipantPoolWrapper(ExperimentalParticipantPool, XmlInteractionEvidenceComplexWrapper) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlExperimentalParticipantPoolWrapper: Constructor for XmlExperimentalParticipantPoolWrapper.
XmlExperimentalParticipantPoolWrapper(ExperimentalParticipantPool, XmlInteractionEvidenceComplexWrapper) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlExperimentalParticipantPoolWrapper: Constructor for XmlExperimentalParticipantPoolWrapper.
XmlExperimentWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25: XML 2.5 writer for expanded experiments having participant identification method, feature detection method and a list of host organisms
XmlExperimentWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30: XML 3.0 writer for expanded experiments having participant identification method, feature detection method and a list of host organisms
XmlExperimentWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25: PSI-XML 2.5 experiment writer
XmlExperimentWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30: PSI-XML 3.0.0 experiment writer
XmlExperimentWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlExperimentWriter: Constructor for XmlExperimentWriter.
XmlExperimentWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlExperimentWriter: Constructor for XmlExperimentWriter.
XmlExperimentWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.XmlExperimentWriter: Constructor for XmlExperimentWriter.
XmlExperimentWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25.XmlExperimentWriter: Constructor for XmlExperimentWriter.
XmlFeature - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Simple Xml implementation of a Feature
XmlFeature - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Simple Xml implementation of a Feature
XmlFeature - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Simple Xml implementation of a Feature
XmlFeature() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeature: Constructor for XmlFeature.
XmlFeature() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeature: Constructor for XmlFeature.
XmlFeature() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeature: Constructor for XmlFeature.
XmlFeature(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeature: Constructor for XmlFeature.
XmlFeature(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeature: Constructor for XmlFeature.
XmlFeature(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeature: Constructor for XmlFeature.
XmlFeature(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeature: Constructor for XmlFeature.
XmlFeature(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeature: Constructor for XmlFeature.
XmlFeature(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeature: Constructor for XmlFeature.
XmlFeature(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeature: Constructor for XmlFeature.
XmlFeature(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeature: Constructor for XmlFeature.
XmlFeature(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeature: Constructor for XmlFeature.
XmlFeature(String, String, CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeature: Constructor for XmlFeature.
XmlFeature(String, String, CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeature: Constructor for XmlFeature.
XmlFeature(String, String, CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeature: Constructor for XmlFeature.
XmlFeature(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeature: Constructor for XmlFeature.
XmlFeature(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeature: Constructor for XmlFeature.
XmlFeature(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeature: Constructor for XmlFeature.
XmlFeature(CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeature: Constructor for XmlFeature.
XmlFeature(CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeature: Constructor for XmlFeature.
XmlFeature(CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeature: Constructor for XmlFeature.
XmlFeatureEvidence - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of a Feature
XmlFeatureEvidence - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of a Feature
XmlFeatureEvidence - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of a Feature
XmlFeatureEvidence() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence: Constructor for XmlFeatureEvidence.
XmlFeatureEvidence() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence: Constructor for XmlFeatureEvidence.
XmlFeatureEvidence() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence: Constructor for XmlFeatureEvidence.
XmlFeatureEvidence(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence: Constructor for XmlFeatureEvidence.
XmlFeatureEvidence(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence: Constructor for XmlFeatureEvidence.
XmlFeatureEvidence(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence: Constructor for XmlFeatureEvidence.
XmlFeatureEvidence(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence: Constructor for XmlFeatureEvidence.
XmlFeatureEvidence(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence: Constructor for XmlFeatureEvidence.
XmlFeatureEvidence(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence: Constructor for XmlFeatureEvidence.
XmlFeatureEvidence(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence: Constructor for XmlFeatureEvidence.
XmlFeatureEvidence(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence: Constructor for XmlFeatureEvidence.
XmlFeatureEvidence(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence: Constructor for XmlFeatureEvidence.
XmlFeatureEvidence(String, String, CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence: Constructor for XmlFeatureEvidence.
XmlFeatureEvidence(String, String, CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence: Constructor for XmlFeatureEvidence.
XmlFeatureEvidence(String, String, CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence: Constructor for XmlFeatureEvidence.
XmlFeatureEvidence(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence: Constructor for XmlFeatureEvidence.
XmlFeatureEvidence(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence: Constructor for XmlFeatureEvidence.
XmlFeatureEvidence(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence: Constructor for XmlFeatureEvidence.
XmlFeatureEvidence(CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidence: Constructor for XmlFeatureEvidence.
XmlFeatureEvidence(CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidence: Constructor for XmlFeatureEvidence.
XmlFeatureEvidence(CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidence: Constructor for XmlFeatureEvidence.
XmlFeatureEvidence.JAXBExperimentRefWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
XmlFeatureEvidence.JAXBExperimentRefWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
XmlFeatureEvidence.JAXBExperimentRefWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
XmlFeatureEvidence.JAXBParameterWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
XmlFeatureEvidence.JAXBParameterWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
XmlFeatureEvidence.JAXBParameterWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
XmlFeatureEvidenceWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml wrapper for feature evidences.
XmlFeatureEvidenceWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml wrapper for feature evidences.
XmlFeatureEvidenceWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml wrapper for feature evidences.
XmlFeatureEvidenceWrapper(ExtendedPsiXmlFeatureEvidence, ModelledEntity) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureEvidenceWrapper: Constructor for XmlFeatureEvidenceWrapper.
XmlFeatureEvidenceWrapper(ExtendedPsiXmlFeatureEvidence, ModelledEntity) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureEvidenceWrapper: Constructor for XmlFeatureEvidenceWrapper.
XmlFeatureEvidenceWrapper(ExtendedPsiXmlFeatureEvidence, ModelledEntity) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureEvidenceWrapper: Constructor for XmlFeatureEvidenceWrapper.
XmlFeatureEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25: Writer for expanded feature evidence having experiment references
XmlFeatureEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30: Writer for expanded feature evidence having experiment references
XmlFeatureEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25: XML 2.5 writer for a feature evidence (with feature detection method)
XmlFeatureEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30: XML 3.0 writer for a feature evidence (with feature detection method)
XmlFeatureEvidenceWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.XmlFeatureEvidenceWriter: Constructor for XmlFeatureEvidenceWriter.
XmlFeatureEvidenceWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlFeatureEvidenceWriter: Constructor for XmlFeatureEvidenceWriter.
XmlFeatureEvidenceWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25.XmlFeatureEvidenceWriter: Constructor for XmlFeatureEvidenceWriter.
XmlFeatureEvidenceWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlFeatureEvidenceWriter: Constructor for XmlFeatureEvidenceWriter.
XmlFeatureModificationEffector - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of feature modification effector
XmlFeatureModificationEffector - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of feature modification effector
XmlFeatureModificationEffector - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of feature modification effector
XmlFeatureModificationEffector(int, PsiXmlLocator) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureModificationEffector: Constructor for XmlFeatureModificationEffector.
XmlFeatureModificationEffector(int, PsiXmlLocator) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureModificationEffector: Constructor for XmlFeatureModificationEffector.
XmlFeatureModificationEffector(int, PsiXmlLocator) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureModificationEffector: Constructor for XmlFeatureModificationEffector.
XmlFeatureWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml wrapper for basic features
XmlFeatureWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml wrapper for basic features
XmlFeatureWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml wrapper for basic features
XmlFeatureWrapper(ExtendedPsiXmlFeature, ModelledEntity) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlFeatureWrapper: Constructor for XmlFeatureWrapper.
XmlFeatureWrapper(ExtendedPsiXmlFeature, ModelledEntity) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlFeatureWrapper: Constructor for XmlFeatureWrapper.
XmlFeatureWrapper(ExtendedPsiXmlFeature, ModelledEntity) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlFeatureWrapper: Constructor for XmlFeatureWrapper.
XmlFeatureWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25: XML 2.5 writer for a basic feature (ignore experimental details)
XmlFeatureWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25: XML 2.5 writer for a basic feature (ignore experimental details)
XmlFeatureWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.XmlFeatureWriter: Constructor for XmlFeatureWriter.
XmlFeatureWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25.XmlFeatureWriter: Constructor for XmlFeatureWriter.
XmlGene - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of a Gene
XmlGene - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of a Gene
XmlGene - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of a Gene
XmlGene(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlGene: Constructor for XmlGene.
XmlGene(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlGene: Constructor for XmlGene.
XmlGene(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlGene: Constructor for XmlGene.
XmlGene(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlGene: Constructor for XmlGene.
XmlGene(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlGene: Constructor for XmlGene.
XmlGene(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlGene: Constructor for XmlGene.
XmlGene(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlGene: Constructor for XmlGene.
XmlGene(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlGene: Constructor for XmlGene.
XmlGene(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlGene: Constructor for XmlGene.
XmlGene(String, String, CvTerm, Organism, Xref, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlGene: Constructor for XmlGene.
XmlGene(String, String, CvTerm, Organism, Xref, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlGene: Constructor for XmlGene.
XmlGene(String, String, CvTerm, Organism, Xref, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlGene: Constructor for XmlGene.
XmlGene(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlGene: Constructor for XmlGene.
XmlGene(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlGene: Constructor for XmlGene.
XmlGene(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlGene: Constructor for XmlGene.
XmlGene(String, String, CvTerm, Xref, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlGene: Constructor for XmlGene.
XmlGene(String, String, CvTerm, Xref, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlGene: Constructor for XmlGene.
XmlGene(String, String, CvTerm, Xref, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlGene: Constructor for XmlGene.
XmlGene(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlGene: Constructor for XmlGene.
XmlGene(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlGene: Constructor for XmlGene.
XmlGene(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlGene: Constructor for XmlGene.
XmlGene(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlGene: Constructor for XmlGene.
XmlGene(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlGene: Constructor for XmlGene.
XmlGene(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlGene: Constructor for XmlGene.
XmlGene(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlGene: Constructor for XmlGene.
XmlGene(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlGene: Constructor for XmlGene.
XmlGene(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlGene: Constructor for XmlGene.
XmlGene(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlGene: Constructor for XmlGene.
XmlGene(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlGene: Constructor for XmlGene.
XmlGene(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlGene: Constructor for XmlGene.
XmlGene(String, CvTerm, Organism, Xref, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlGene: Constructor for XmlGene.
XmlGene(String, CvTerm, Organism, Xref, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlGene: Constructor for XmlGene.
XmlGene(String, CvTerm, Organism, Xref, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlGene: Constructor for XmlGene.
XmlGene(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlGene: Constructor for XmlGene.
XmlGene(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlGene: Constructor for XmlGene.
XmlGene(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlGene: Constructor for XmlGene.
XmlGene(String, CvTerm, Xref, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlGene: Constructor for XmlGene.
XmlGene(String, CvTerm, Xref, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlGene: Constructor for XmlGene.
XmlGene(String, CvTerm, Xref, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlGene: Constructor for XmlGene.
XmlGene(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlGene: Constructor for XmlGene.
XmlGene(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlGene: Constructor for XmlGene.
XmlGene(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlGene: Constructor for XmlGene.
XmlGene(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlGene: Constructor for XmlGene.
XmlGene(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlGene: Constructor for XmlGene.
XmlGene(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlGene: Constructor for XmlGene.
XmlGene(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlGene: Constructor for XmlGene.
XmlGene(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlGene: Constructor for XmlGene.
XmlGene(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlGene: Constructor for XmlGene.
XmlHostOrganismWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml253: XML 2.5 writer for an expanded host organism having experiment references
XmlHostOrganismWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml254: XML 2.5 writer for an expanded host organism having experiment references
XmlHostOrganismWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30: XML 3.0 writer for an expanded host organism having experiment references
XmlHostOrganismWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl: PSI-XML writer for host organism
XmlHostOrganismWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlHostOrganismWriter: Constructor for XmlHostOrganismWriter.
XmlHostOrganismWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml253.XmlHostOrganismWriter: Constructor for XmlHostOrganismWriter.
XmlHostOrganismWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml254.XmlHostOrganismWriter: Constructor for XmlHostOrganismWriter.
XmlHostOrganismWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlHostOrganismWriter: Constructor for XmlHostOrganismWriter.
XmlIdReference - Interface in psidev.psi.mi.jami.xml.model.reference: A XML reference to an parent having an id
XmlInferredInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended: XML writer for an expanded inferred interaction
XmlInferredInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl: XML writer for Inferred interactions
XmlInferredInteractionWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.XmlInferredInteractionWriter: Constructor for XmlInferredInteractionWriter.
XmlInferredInteractionWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlInferredInteractionWriter: Constructor for XmlInferredInteractionWriter.
XmlInteractionEvidence - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of InteractionEvidence
XmlInteractionEvidence - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of InteractionEvidence
XmlInteractionEvidence - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of InteractionEvidence
XmlInteractionEvidence() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidence: Constructor for XmlInteractionEvidence.
XmlInteractionEvidence() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidence: Constructor for XmlInteractionEvidence.
XmlInteractionEvidence() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidence: Constructor for XmlInteractionEvidence.
XmlInteractionEvidence(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidence: Constructor for XmlInteractionEvidence.
XmlInteractionEvidence(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidence: Constructor for XmlInteractionEvidence.
XmlInteractionEvidence(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidence: Constructor for XmlInteractionEvidence.
XmlInteractionEvidence(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidence: Constructor for XmlInteractionEvidence.
XmlInteractionEvidence(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidence: Constructor for XmlInteractionEvidence.
XmlInteractionEvidence(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidence: Constructor for XmlInteractionEvidence.
XmlInteractionEvidence.JAXBCausalRelationshipWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
XmlInteractionEvidence.JAXBExperimentWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
XmlInteractionEvidence.JAXBVariableParameterValueSetWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
XmlInteractionEvidenceComplexWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml wrapper for interaction evidences used as complex
XmlInteractionEvidenceComplexWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml wrapper for interaction evidences used as complex
XmlInteractionEvidenceComplexWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml wrapper for interaction evidences used as complex
XmlInteractionEvidenceComplexWrapper(ExtendedPsiXmlInteractionEvidence) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractionEvidenceComplexWrapper: Constructor for XmlInteractionEvidenceComplexWrapper.
XmlInteractionEvidenceComplexWrapper(ExtendedPsiXmlInteractionEvidence) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractionEvidenceComplexWrapper: Constructor for XmlInteractionEvidenceComplexWrapper.
XmlInteractionEvidenceComplexWrapper(ExtendedPsiXmlInteractionEvidence) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractionEvidenceComplexWrapper: Constructor for XmlInteractionEvidenceComplexWrapper.
XmlInteractionEvidenceIterator - Class in psidev.psi.mi.jami.xml.io.iterator: Xml interaction evidence iterator
XmlInteractionEvidenceIterator(PsiXmlParser<InteractionEvidence>) - Constructor for class psidev.psi.mi.jami.xml.io.iterator.XmlInteractionEvidenceIterator: Constructor for XmlInteractionEvidenceIterator.
XmlInteractionEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25: Compact XML 2.5 writer for an interaction evidence (with full experimental details).
XmlInteractionEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30: Compact XML 3.0 writer for an interaction evidence (with full experimental details).
XmlInteractionEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25: Expanded XML 2.5 writer for an interaction evidence (with full experimental details).
XmlInteractionEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30: Expanded XML 3.0 writer for an interaction evidence (with full experimental details).
XmlInteractionEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25: Compact XML 2.5 writer for an expanded interaction evidence (having modelled, intramolecular properties, list of experiments, list of interaction types, etc.).
XmlInteractionEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30: Compact XML 3.0 writer for an expanded interaction evidence (having modelled, intramolecular properties, list of experiments, list of interaction types, etc.).
XmlInteractionEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25: Expanded XML 2.5 writer for an expanded interaction evidence (having modelled, intramolecular properties, list of experiments, list of interaction types, etc.).
XmlInteractionEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30: Expanded XML 3.0 writer for an expanded interaction evidence (having modelled, intramolecular properties, list of experiments, list of interaction types, etc.).
XmlInteractionEvidenceWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlInteractionEvidenceWriter: Constructor for XmlInteractionEvidenceWriter.
XmlInteractionEvidenceWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlInteractionEvidenceWriter: Constructor for XmlInteractionEvidenceWriter.
XmlInteractionEvidenceWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlInteractionEvidenceWriter: Constructor for XmlInteractionEvidenceWriter.
XmlInteractionEvidenceWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlInteractionEvidenceWriter: Constructor for XmlInteractionEvidenceWriter.
XmlInteractionEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlInteractionEvidenceWriter: Constructor for XmlInteractionEvidenceWriter.
XmlInteractionEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlInteractionEvidenceWriter: Constructor for XmlInteractionEvidenceWriter.
XmlInteractionEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlInteractionEvidenceWriter: Constructor for XmlInteractionEvidenceWriter.
XmlInteractionEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlInteractionEvidenceWriter: Constructor for XmlInteractionEvidenceWriter.
XmlInteractionIterator - Class in psidev.psi.mi.jami.xml.io.iterator: Xml basic interaction iterator
XmlInteractionIterator(PsiXmlParser<Interaction>) - Constructor for class psidev.psi.mi.jami.xml.io.iterator.XmlInteractionIterator: Constructor for XmlInteractionIterator.
XmlInteractor - Class in psidev.psi.mi.jami.xml.model.extension.xml253: The Xml implementation of Interactor
XmlInteractor - Class in psidev.psi.mi.jami.xml.model.extension.xml254: The Xml implementation of Interactor
XmlInteractor - Class in psidev.psi.mi.jami.xml.model.extension.xml300: The Xml implementation of Interactor
XmlInteractor() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractor: Constructor for XmlInteractor.
XmlInteractor(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractor: Constructor for XmlInteractor.
XmlInteractorFactory - Class in psidev.psi.mi.jami.xml.model.extension.factory: Interactor factory for XML interactors
XmlInteractorFactory() - Constructor for class psidev.psi.mi.jami.xml.model.extension.factory.XmlInteractorFactory: Constructor for XmlInteractorFactory.
XmlInteractorFactory(InteractorFactory) - Constructor for class psidev.psi.mi.jami.xml.model.extension.factory.XmlInteractorFactory: Constructor for XmlInteractorFactory.
XmlInteractorPool - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation for InteractorSet
XmlInteractorPool - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation for InteractorSet
XmlInteractorPool - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation for InteractorSet
XmlInteractorPool() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorPool(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInteractorPool: Constructor for XmlInteractorPool.
XmlInteractorWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended: Xml interactor writer
XmlInteractorWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl: Xml interactor writer
XmlInteractorWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.XmlInteractorWriter: Constructor for XmlInteractorWriter.
XmlInteractorWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlInteractorWriter: Constructor for XmlInteractorWriter.
XmlInterval - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of a position which is an interval The JAXB binding is designed to be read-only and is not designed for writing
XmlInterval - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of a position which is an interval The JAXB binding is designed to be read-only and is not designed for writing
XmlInterval - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of a position which is an interval The JAXB binding is designed to be read-only and is not designed for writing
XmlInterval() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInterval: Constructor for XmlInterval.
XmlInterval() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInterval: Constructor for XmlInterval.
XmlInterval() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInterval: Constructor for XmlInterval.
XmlInterval(CvTerm, boolean) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInterval: Constructor for XmlInterval.
XmlInterval(CvTerm, boolean) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInterval: Constructor for XmlInterval.
XmlInterval(CvTerm, boolean) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInterval: Constructor for XmlInterval.
XmlInterval(CvTerm, long, long, boolean) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlInterval: Constructor for XmlInterval.
XmlInterval(CvTerm, long, long, boolean) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlInterval: Constructor for XmlInterval.
XmlInterval(CvTerm, long, long, boolean) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlInterval: Constructor for XmlInterval.
XmlModelledBinaryInteraction - Class in psidev.psi.mi.jami.xml.model.extension.binary.xml30: Xml implementation of ModelledInteraction
XmlModelledBinaryInteraction - Class in psidev.psi.mi.jami.xml.model.extension.binary: Xml implementation of ModelledInteraction
XmlModelledBinaryInteraction() - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: Constructor for XmlModelledBinaryInteraction.
XmlModelledBinaryInteraction() - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteraction: Constructor for XmlModelledBinaryInteraction.
XmlModelledBinaryInteraction(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: Constructor for XmlModelledBinaryInteraction.
XmlModelledBinaryInteraction(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteraction: Constructor for XmlModelledBinaryInteraction.
XmlModelledBinaryInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: Constructor for XmlModelledBinaryInteraction.
XmlModelledBinaryInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteraction: Constructor for XmlModelledBinaryInteraction.
XmlModelledBinaryInteraction(String, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: Constructor for XmlModelledBinaryInteraction.
XmlModelledBinaryInteraction(String, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteraction: Constructor for XmlModelledBinaryInteraction.
XmlModelledBinaryInteraction(String, CvTerm, ModelledParticipant, ModelledParticipant) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: Constructor for XmlModelledBinaryInteraction.
XmlModelledBinaryInteraction(String, CvTerm, ModelledParticipant, ModelledParticipant) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteraction: Constructor for XmlModelledBinaryInteraction.
XmlModelledBinaryInteraction(String, CvTerm, ModelledParticipant, ModelledParticipant, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: Constructor for XmlModelledBinaryInteraction.
XmlModelledBinaryInteraction(String, CvTerm, ModelledParticipant, ModelledParticipant, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteraction: Constructor for XmlModelledBinaryInteraction.
XmlModelledBinaryInteraction(String, ModelledParticipant, ModelledParticipant) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: Constructor for XmlModelledBinaryInteraction.
XmlModelledBinaryInteraction(String, ModelledParticipant, ModelledParticipant) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteraction: Constructor for XmlModelledBinaryInteraction.
XmlModelledBinaryInteraction(String, ModelledParticipant, ModelledParticipant, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: Constructor for XmlModelledBinaryInteraction.
XmlModelledBinaryInteraction(String, ModelledParticipant, ModelledParticipant, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteraction: Constructor for XmlModelledBinaryInteraction.
XmlModelledBinaryInteraction(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: Constructor for XmlModelledBinaryInteraction.
XmlModelledBinaryInteraction(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteraction: Constructor for XmlModelledBinaryInteraction.
XmlModelledBinaryInteraction(ModelledParticipant, ModelledParticipant) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: Constructor for XmlModelledBinaryInteraction.
XmlModelledBinaryInteraction(ModelledParticipant, ModelledParticipant) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteraction: Constructor for XmlModelledBinaryInteraction.
XmlModelledBinaryInteraction(ModelledParticipant, ModelledParticipant, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteraction: Constructor for XmlModelledBinaryInteraction.
XmlModelledBinaryInteraction(ModelledParticipant, ModelledParticipant, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteraction: Constructor for XmlModelledBinaryInteraction.
XmlModelledBinaryInteractionIterator - Class in psidev.psi.mi.jami.xml.io.iterator: Xml modelled binary interaction iterator
XmlModelledBinaryInteractionIterator(PsiXmlParser<ModelledBinaryInteraction>) - Constructor for class psidev.psi.mi.jami.xml.io.iterator.XmlModelledBinaryInteractionIterator: Constructor for XmlModelledBinaryInteractionIterator.
XmlModelledBinaryInteractionWrapper - Class in psidev.psi.mi.jami.xml.model.extension.binary.xml30: Wrapper for Xml binary interactions
XmlModelledBinaryInteractionWrapper - Class in psidev.psi.mi.jami.xml.model.extension.binary: Wrapper for Xml binary interactions
XmlModelledBinaryInteractionWrapper(ExtendedPsiXmlModelledInteraction) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: Constructor for XmlModelledBinaryInteractionWrapper.
XmlModelledBinaryInteractionWrapper(ExtendedPsiXmlModelledInteraction, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.XmlModelledBinaryInteractionWrapper: Constructor for XmlModelledBinaryInteractionWrapper.
XmlModelledBinaryInteractionWrapper(ExtendedPsiXmlModelledInteraction) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: Constructor for XmlModelledBinaryInteractionWrapper.
XmlModelledBinaryInteractionWrapper(ExtendedPsiXmlModelledInteraction, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.binary.xml30.XmlModelledBinaryInteractionWrapper: Constructor for XmlModelledBinaryInteractionWrapper.
XmlModelledBinaryInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25: Compact XML 2.5 writer for a modelled binary interaction (ignore experimental details).
XmlModelledBinaryInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30: Compact XML 3.0 writer for a modelled binary interaction (ignore experimental details).
XmlModelledBinaryInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25: Expanded XML 2.5 writer for a modelled binary interaction (ignore experimental details).
XmlModelledBinaryInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30: Expanded XML 3.0 writer for a modelled binary interaction (ignore experimental details).
XmlModelledBinaryInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25: Compact XML 2.5 writer for an expanded modelled binary interaction (ignore experimental details).
XmlModelledBinaryInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30: Compact XML 3.0 writer for an expanded modelled binary interaction (ignore experimental details).
XmlModelledBinaryInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25: Expanded XML 2.5 writer for an expanded modelled binary interaction (ignore experimental details).
XmlModelledBinaryInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30: Expanded XML 3.0 writer for an expanded modelled binary interaction (ignore experimental details).
XmlModelledBinaryInteractionWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlModelledBinaryInteractionWriter: Constructor for XmlModelledBinaryInteractionWriter.
XmlModelledBinaryInteractionWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlModelledBinaryInteractionWriter: Constructor for XmlModelledBinaryInteractionWriter.
XmlModelledBinaryInteractionWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlModelledBinaryInteractionWriter: Constructor for XmlModelledBinaryInteractionWriter.
XmlModelledBinaryInteractionWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlModelledBinaryInteractionWriter: Constructor for XmlModelledBinaryInteractionWriter.
XmlModelledBinaryInteractionWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlModelledBinaryInteractionWriter: Constructor for XmlModelledBinaryInteractionWriter.
XmlModelledBinaryInteractionWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlModelledBinaryInteractionWriter: Constructor for XmlModelledBinaryInteractionWriter.
XmlModelledBinaryInteractionWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlModelledBinaryInteractionWriter: Constructor for XmlModelledBinaryInteractionWriter.
XmlModelledBinaryInteractionWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlModelledBinaryInteractionWriter: Constructor for XmlModelledBinaryInteractionWriter.
XmlModelledBinaryParser - Class in psidev.psi.mi.jami.xml.io.parser: Xml parser creating modelled binary interaction
XmlModelledBinaryParser(File) - Constructor for class psidev.psi.mi.jami.xml.io.parser.XmlModelledBinaryParser: Constructor for XmlModelledBinaryParser.
XmlModelledBinaryParser(InputStream) - Constructor for class psidev.psi.mi.jami.xml.io.parser.XmlModelledBinaryParser: Constructor for XmlModelledBinaryParser.
XmlModelledBinaryParser(Reader) - Constructor for class psidev.psi.mi.jami.xml.io.parser.XmlModelledBinaryParser: Constructor for XmlModelledBinaryParser.
XmlModelledBinaryParser(URL) - Constructor for class psidev.psi.mi.jami.xml.io.parser.XmlModelledBinaryParser: Constructor for XmlModelledBinaryParser.
XmlModelledBinarySource - Class in psidev.psi.mi.jami.xml.model.extension.datasource: PSI-XML data source that provides modelled binary interactions (ignore experimental details).
XmlModelledBinarySource() - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledBinarySource: Constructor for XmlModelledBinarySource.
XmlModelledBinarySource(File) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledBinarySource: Constructor for XmlModelledBinarySource.
XmlModelledBinarySource(InputStream) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledBinarySource: Constructor for XmlModelledBinarySource.
XmlModelledBinarySource(Reader) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledBinarySource: Constructor for XmlModelledBinarySource.
XmlModelledBinarySource(URL) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledBinarySource: Constructor for XmlModelledBinarySource.
XmlModelledBinaryStreamSource - Class in psidev.psi.mi.jami.xml.model.extension.datasource: Psi-xml datasource for modelled binary interactions
XmlModelledBinaryStreamSource() - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledBinaryStreamSource: Constructor for XmlModelledBinaryStreamSource.
XmlModelledBinaryStreamSource(File) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledBinaryStreamSource: Constructor for XmlModelledBinaryStreamSource.
XmlModelledBinaryStreamSource(InputStream) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledBinaryStreamSource: Constructor for XmlModelledBinaryStreamSource.
XmlModelledBinaryStreamSource(Reader) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledBinaryStreamSource: Constructor for XmlModelledBinaryStreamSource.
XmlModelledBinaryStreamSource(URL) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledBinaryStreamSource: Constructor for XmlModelledBinaryStreamSource.
XmlModelledConfidence - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of ModelledConfidence
XmlModelledConfidence - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of ModelledConfidence
XmlModelledConfidence - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml 3.0 implementation of ModelledConfidence
XmlModelledConfidence() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledConfidence: Constructor for XmlModelledConfidence.
XmlModelledConfidence() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledConfidence: Constructor for XmlModelledConfidence.
XmlModelledConfidence() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledConfidence: Constructor for XmlModelledConfidence.
XmlModelledConfidence(XmlOpenCvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledConfidence: Constructor for XmlModelledConfidence.
XmlModelledConfidence(XmlOpenCvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledConfidence: Constructor for XmlModelledConfidence.
XmlModelledConfidence(XmlOpenCvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledConfidence: Constructor for XmlModelledConfidence.
XmlModelledConfidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30: Xml30 writer for modelled confidences
XmlModelledConfidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30: Xml30 writer for modelled confidences
XmlModelledConfidenceWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlModelledConfidenceWriter: Constructor for XmlModelledConfidenceWriter.
XmlModelledConfidenceWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlModelledConfidenceWriter: Constructor for XmlModelledConfidenceWriter.
XmlModelledFeature - Class in psidev.psi.mi.jami.xml.model.extension.xml253: The xml implementation of a modelledFeature
XmlModelledFeature - Class in psidev.psi.mi.jami.xml.model.extension.xml254: The xml implementation of a modelledFeature
XmlModelledFeature - Class in psidev.psi.mi.jami.xml.model.extension.xml300: The xml implementation of a modelledFeature
XmlModelledFeature() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledFeature: Constructor for XmlModelledFeature.
XmlModelledFeature() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledFeature: Constructor for XmlModelledFeature.
XmlModelledFeature() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledFeature: Constructor for XmlModelledFeature.
XmlModelledFeature(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledFeature: Constructor for XmlModelledFeature.
XmlModelledFeature(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledFeature: Constructor for XmlModelledFeature.
XmlModelledFeature(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledFeature: Constructor for XmlModelledFeature.
XmlModelledFeature(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledFeature: Constructor for XmlModelledFeature.
XmlModelledFeature(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledFeature: Constructor for XmlModelledFeature.
XmlModelledFeature(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledFeature: Constructor for XmlModelledFeature.
XmlModelledFeature(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledFeature: Constructor for XmlModelledFeature.
XmlModelledFeature(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledFeature: Constructor for XmlModelledFeature.
XmlModelledFeature(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledFeature: Constructor for XmlModelledFeature.
XmlModelledFeature(String, String, CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledFeature: Constructor for XmlModelledFeature.
XmlModelledFeature(String, String, CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledFeature: Constructor for XmlModelledFeature.
XmlModelledFeature(String, String, CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledFeature: Constructor for XmlModelledFeature.
XmlModelledFeature(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledFeature: Constructor for XmlModelledFeature.
XmlModelledFeature(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledFeature: Constructor for XmlModelledFeature.
XmlModelledFeature(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledFeature: Constructor for XmlModelledFeature.
XmlModelledFeature(CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledFeature: Constructor for XmlModelledFeature.
XmlModelledFeature(CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledFeature: Constructor for XmlModelledFeature.
XmlModelledFeature(CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledFeature: Constructor for XmlModelledFeature.
XmlModelledFeatureWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25: XML 2.5 writer for a modelled feature (ignore experimental details)
XmlModelledFeatureWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30: XML 3.0 writer for a modelled feature (ignore experimental details)
XmlModelledFeatureWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25: XML 2.5 writer for a modelled feature (ignore experimental details)
XmlModelledFeatureWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30: XML 3.0 writer for a modelled feature (ignore experimental details)
XmlModelledFeatureWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.XmlModelledFeatureWriter: Constructor for XmlModelledFeatureWriter.
XmlModelledFeatureWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlModelledFeatureWriter: Constructor for XmlModelledFeatureWriter.
XmlModelledFeatureWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25.XmlModelledFeatureWriter: Constructor for XmlModelledFeatureWriter.
XmlModelledFeatureWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlModelledFeatureWriter: Constructor for XmlModelledFeatureWriter.
XmlModelledInteraction - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of ModelledInteraction
XmlModelledInteraction - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of ModelledInteraction
XmlModelledInteraction - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml 3.0.0 implementation of ModelledInteraction
XmlModelledInteraction() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteraction: Constructor for XmlModelledInteraction.
XmlModelledInteraction() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteraction: Constructor for XmlModelledInteraction.
XmlModelledInteraction() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: Constructor for XmlModelledInteraction.
XmlModelledInteraction(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteraction: Constructor for XmlModelledInteraction.
XmlModelledInteraction(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteraction: Constructor for XmlModelledInteraction.
XmlModelledInteraction(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: Constructor for XmlModelledInteraction.
XmlModelledInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteraction: Constructor for XmlModelledInteraction.
XmlModelledInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteraction: Constructor for XmlModelledInteraction.
XmlModelledInteraction(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteraction: Constructor for XmlModelledInteraction.
XmlModelledInteraction.JAXBAttributeWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
XmlModelledInteraction.JAXBBindingFeaturesWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
XmlModelledInteraction.JAXBCausalRelationshipWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
XmlModelledInteraction.JAXBConfidenceWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
XmlModelledInteraction.JAXBCooperativeEffectWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
XmlModelledInteraction.JAXBParameterWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
XmlModelledInteraction.JAXBParticipantWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
XmlModelledInteractionComplexWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Wrapper for complexes that were loaded as abstract interactions
XmlModelledInteractionComplexWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Wrapper for complexes that were loaded as abstract interactions
XmlModelledInteractionComplexWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Wrapper for complexes that were loaded as abstract interactions
XmlModelledInteractionComplexWrapper(ExtendedPsiXmlModelledInteraction) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledInteractionComplexWrapper: Constructor for XmlModelledInteractionComplexWrapper.
XmlModelledInteractionComplexWrapper(ExtendedPsiXmlModelledInteraction) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledInteractionComplexWrapper: Constructor for XmlModelledInteractionComplexWrapper.
XmlModelledInteractionComplexWrapper(ExtendedPsiXmlModelledInteraction) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledInteractionComplexWrapper: Constructor for XmlModelledInteractionComplexWrapper.
XmlModelledInteractionIterator - Class in psidev.psi.mi.jami.xml.io.iterator: Xml modelled interaction iterator
XmlModelledInteractionIterator(PsiXmlParser<ModelledInteraction>) - Constructor for class psidev.psi.mi.jami.xml.io.iterator.XmlModelledInteractionIterator: Constructor for XmlModelledInteractionIterator.
XmlModelledInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25: Compact XML 2.5 writer for a modelled interaction (ignore experimental details).
XmlModelledInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30: Compact XML 3.0 writer for a modelled interaction (ignore experimental details).
XmlModelledInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25: Expanded XML 2.5 writer for a modelled interaction (ignore experimental details).
XmlModelledInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30: Expanded XML 3.0 writer for a modelled interaction (ignore experimental details).
XmlModelledInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25: Compact XML 2.5 writer for an expanded modelled interaction (ignore experimental details).
XmlModelledInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30: Compact XML 3.0 writer for an expanded modelled interaction (ignore experimental details).
XmlModelledInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25: Expanded XML 2.5 writer for an expanded modelled interaction (ignore experimental details).
XmlModelledInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30: Expanded XML 3.0 writer for an expanded modelled interaction (ignore experimental details).
XmlModelledInteractionWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlModelledInteractionWriter: Constructor for XmlModelledInteractionWriter.
XmlModelledInteractionWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlModelledInteractionWriter: Constructor for XmlModelledInteractionWriter.
XmlModelledInteractionWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlModelledInteractionWriter: Constructor for XmlModelledInteractionWriter.
XmlModelledInteractionWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlModelledInteractionWriter: Constructor for XmlModelledInteractionWriter.
XmlModelledInteractionWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlModelledInteractionWriter: Constructor for XmlModelledInteractionWriter.
XmlModelledInteractionWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlModelledInteractionWriter: Constructor for XmlModelledInteractionWriter.
XmlModelledInteractionWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlModelledInteractionWriter: Constructor for XmlModelledInteractionWriter.
XmlModelledInteractionWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlModelledInteractionWriter: Constructor for XmlModelledInteractionWriter.
XmlModelledParameter - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of ModelledParameter
XmlModelledParameter - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of ModelledParameter
XmlModelledParameter - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml 3.0 implementation of ModelledParameter
XmlModelledParameter() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParameter: Constructor for XmlModelledParameter.
XmlModelledParameter() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParameter: Constructor for XmlModelledParameter.
XmlModelledParameter() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParameter: Constructor for XmlModelledParameter.
XmlModelledParameter(CvTerm, ParameterValue, BigDecimal, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParameter: Constructor for XmlModelledParameter.
XmlModelledParameter(CvTerm, ParameterValue, BigDecimal, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParameter: Constructor for XmlModelledParameter.
XmlModelledParameter(CvTerm, ParameterValue, BigDecimal, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParameter: Constructor for XmlModelledParameter.
XmlModelledParameterWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30: XML 3.0 writer of a modelled parameter
XmlModelledParameterWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30: XML 3.0 writer of a modelled parameter
XmlModelledParameterWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlModelledParameterWriter: Constructor for XmlModelledParameterWriter.
XmlModelledParameterWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlModelledParameterWriter: Constructor for XmlModelledParameterWriter.
XmlModelledParser - Class in psidev.psi.mi.jami.xml.io.parser: Parser generating modelled interaction objects and ignore experimental details
XmlModelledParser(File) - Constructor for class psidev.psi.mi.jami.xml.io.parser.XmlModelledParser: Constructor for XmlModelledParser.
XmlModelledParser(InputStream) - Constructor for class psidev.psi.mi.jami.xml.io.parser.XmlModelledParser: Constructor for XmlModelledParser.
XmlModelledParser(Reader) - Constructor for class psidev.psi.mi.jami.xml.io.parser.XmlModelledParser: Constructor for XmlModelledParser.
XmlModelledParser(URL) - Constructor for class psidev.psi.mi.jami.xml.io.parser.XmlModelledParser: Constructor for XmlModelledParser.
XmlModelledParticipant - Class in psidev.psi.mi.jami.xml.model.extension.xml253: XML implementation of ModelledParticipant
XmlModelledParticipant - Class in psidev.psi.mi.jami.xml.model.extension.xml254: XML implementation of ModelledParticipant
XmlModelledParticipant - Class in psidev.psi.mi.jami.xml.model.extension.xml300: XML implementation of ModelledParticipant
XmlModelledParticipant() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipant: Constructor for XmlModelledParticipant.
XmlModelledParticipant() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipant: Constructor for XmlModelledParticipant.
XmlModelledParticipant() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipant: Constructor for XmlModelledParticipant.
XmlModelledParticipant(Interactor) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipant: Constructor for XmlModelledParticipant.
XmlModelledParticipant(Interactor) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipant: Constructor for XmlModelledParticipant.
XmlModelledParticipant(Interactor) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipant: Constructor for XmlModelledParticipant.
XmlModelledParticipant(Interactor, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipant: Constructor for XmlModelledParticipant.
XmlModelledParticipant(Interactor, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipant: Constructor for XmlModelledParticipant.
XmlModelledParticipant(Interactor, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipant: Constructor for XmlModelledParticipant.
XmlModelledParticipant(Interactor, CvTerm, Stoichiometry) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipant: Constructor for XmlModelledParticipant.
XmlModelledParticipant(Interactor, CvTerm, Stoichiometry) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipant: Constructor for XmlModelledParticipant.
XmlModelledParticipant(Interactor, CvTerm, Stoichiometry) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipant: Constructor for XmlModelledParticipant.
XmlModelledParticipant(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipant: Constructor for XmlModelledParticipant.
XmlModelledParticipant(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipant: Constructor for XmlModelledParticipant.
XmlModelledParticipant(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipant: Constructor for XmlModelledParticipant.
XmlModelledParticipant.JAXBFeatureWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
XmlModelledParticipant.JAXBFeatureWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
XmlModelledParticipant.JAXBFeatureWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
XmlModelledParticipant.JAXBInteractorCandidatesWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
XmlModelledParticipant.JAXBInteractorCandidatesWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
XmlModelledParticipant.JAXBInteractorCandidatesWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
XmlModelledParticipantCandidate - Class in psidev.psi.mi.jami.xml.model.extension.xml253: XML implementation of ModelledParticipantCandidate
XmlModelledParticipantCandidate - Class in psidev.psi.mi.jami.xml.model.extension.xml254: XML implementation of ModelledParticipantCandidate
XmlModelledParticipantCandidate - Class in psidev.psi.mi.jami.xml.model.extension.xml300: XML implementation of ModelledParticipantCandidate
XmlModelledParticipantCandidate() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipantCandidate: Constructor for XmlModelledParticipantCandidate.
XmlModelledParticipantCandidate() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipantCandidate: Constructor for XmlModelledParticipantCandidate.
XmlModelledParticipantCandidate() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipantCandidate: Constructor for XmlModelledParticipantCandidate.
XmlModelledParticipantCandidate(Interactor) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipantCandidate: Constructor for XmlModelledParticipantCandidate.
XmlModelledParticipantCandidate(Interactor) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipantCandidate: Constructor for XmlModelledParticipantCandidate.
XmlModelledParticipantCandidate(Interactor) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipantCandidate: Constructor for XmlModelledParticipantCandidate.
XmlModelledParticipantCandidate(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipantCandidate: Constructor for XmlModelledParticipantCandidate.
XmlModelledParticipantCandidate(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipantCandidate: Constructor for XmlModelledParticipantCandidate.
XmlModelledParticipantCandidate(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipantCandidate: Constructor for XmlModelledParticipantCandidate.
XmlModelledParticipantCandidate.JAXBFeatureWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
XmlModelledParticipantCandidate.JAXBFeatureWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
XmlModelledParticipantCandidate.JAXBFeatureWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
XmlModelledParticipantCandidateWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30: Compact XML 3.0 writer for a participant evidence with full experimental details
XmlModelledParticipantCandidateWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30: Expanded XML 3.0 writer for a participant evidence with full experimental details
XmlModelledParticipantCandidateWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30: Compact XML 3.0 writer for a participant evidence with full experimental details
XmlModelledParticipantCandidateWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30: Expanded XML 3.0 writer for a participant evidence with full experimental details
XmlModelledParticipantCandidateWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlModelledParticipantCandidateWriter: Constructor for XmlModelledParticipantCandidateWriter.
XmlModelledParticipantCandidateWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlModelledParticipantCandidateWriter: Constructor for XmlModelledParticipantCandidateWriter.
XmlModelledParticipantCandidateWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlModelledParticipantCandidateWriter: Constructor for XmlModelledParticipantCandidateWriter.
XmlModelledParticipantCandidateWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlModelledParticipantCandidateWriter: Constructor for XmlModelledParticipantCandidateWriter.
XmlModelledParticipantPool - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of participant pool
XmlModelledParticipantPool - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of participant pool
XmlModelledParticipantPool - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of participant pool
XmlModelledParticipantPool() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipantPool: Constructor for XmlModelledParticipantPool.
XmlModelledParticipantPool() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipantPool: Constructor for XmlModelledParticipantPool.
XmlModelledParticipantPool() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipantPool: Constructor for XmlModelledParticipantPool.
XmlModelledParticipantPool(AbstractXmlParticipant<ModelledInteraction, ModelledFeature>) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlModelledParticipantPool: Constructor for XmlModelledParticipantPool.
XmlModelledParticipantPool(AbstractXmlParticipant<ModelledInteraction, ModelledFeature>) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlModelledParticipantPool: Constructor for XmlModelledParticipantPool.
XmlModelledParticipantPool(AbstractXmlParticipant<ModelledInteraction, ModelledFeature>) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlModelledParticipantPool: Constructor for XmlModelledParticipantPool.
XmlModelledParticipantWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25: Compact XML 2.5 writer for a modelled participant.
XmlModelledParticipantWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30: Compact XML 3.0 writer for a modelled participant.
XmlModelledParticipantWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25: Expanded XML 2.5 writer for a modelled participant.
XmlModelledParticipantWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30: Expanded XML 3.0 writer for a modelled participant.
XmlModelledParticipantWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25: Compact XML 2.5 writer for a modelled participant.
XmlModelledParticipantWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30: Compact XML 3.0 writer for a modelled participant.
XmlModelledParticipantWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25: Expanded XML 2.5 writer for a modelled participant.
XmlModelledParticipantWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30: Compact XML 3.0 writer for a modelled participant.
XmlModelledParticipantWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlModelledParticipantWriter: Constructor for XmlModelledParticipantWriter.
XmlModelledParticipantWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlModelledParticipantWriter: Constructor for XmlModelledParticipantWriter.
XmlModelledParticipantWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlModelledParticipantWriter: Constructor for XmlModelledParticipantWriter.
XmlModelledParticipantWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlModelledParticipantWriter: Constructor for XmlModelledParticipantWriter.
XmlModelledParticipantWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlModelledParticipantWriter: Constructor for XmlModelledParticipantWriter.
XmlModelledParticipantWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlModelledParticipantWriter: Constructor for XmlModelledParticipantWriter.
XmlModelledParticipantWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlModelledParticipantWriter: Constructor for XmlModelledParticipantWriter.
XmlModelledParticipantWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlModelledParticipantWriter: Constructor for XmlModelledParticipantWriter.
XmlModelledSource - Class in psidev.psi.mi.jami.xml.model.extension.datasource: PSI-XML data source that provides abstract interactions (ignore full experimental details).
XmlModelledSource() - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledSource: Constructor for XmlModelledSource.
XmlModelledSource(File) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledSource: Constructor for XmlModelledSource.
XmlModelledSource(InputStream) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledSource: Constructor for XmlModelledSource.
XmlModelledSource(Reader) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledSource: Constructor for XmlModelledSource.
XmlModelledSource(URL) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledSource: Constructor for XmlModelledSource.
XmlModelledStreamSource - Class in psidev.psi.mi.jami.xml.model.extension.datasource: Datasource for Psi-XML abstract interactions
XmlModelledStreamSource() - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledStreamSource: Constructor for XmlModelledStreamSource.
XmlModelledStreamSource(File) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledStreamSource: Constructor for XmlModelledStreamSource.
XmlModelledStreamSource(InputStream) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledStreamSource: Constructor for XmlModelledStreamSource.
XmlModelledStreamSource(Reader) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledStreamSource: Constructor for XmlModelledStreamSource.
XmlModelledStreamSource(URL) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledStreamSource: Constructor for XmlModelledStreamSource.
XmlMolecule - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of molecule
XmlMolecule - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of molecule
XmlMolecule - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of molecule
XmlMolecule() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlMolecule: Constructor for XmlMolecule.
XmlMolecule(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlMolecule: Constructor for XmlMolecule.
XmlMoleculeEffector - Class in psidev.psi.mi.jami.xml.model.extension.xml253: XML implementation of allosteric molecule effector
XmlMoleculeEffector - Class in psidev.psi.mi.jami.xml.model.extension.xml254: XML implementation of allosteric molecule effector
XmlMoleculeEffector - Class in psidev.psi.mi.jami.xml.model.extension.xml300: XML implementation of allosteric molecule effector
XmlMoleculeEffector(int, PsiXmlLocator) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlMoleculeEffector: Constructor for XmlMoleculeEffector.
XmlMoleculeEffector(int, PsiXmlLocator) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlMoleculeEffector: Constructor for XmlMoleculeEffector.
XmlMoleculeEffector(int, PsiXmlLocator) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlMoleculeEffector: Constructor for XmlMoleculeEffector.
XmlNamedBinaryInteractionEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25: Compact XML 2.5 writer for a named binary interaction evidence (with full experimental details).
XmlNamedBinaryInteractionEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30: Compact XML 3.0 writer for a named binary interaction evidence (with full experimental details).
XmlNamedBinaryInteractionEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25: Expanded XML 2.5 writer for a named binary interaction evidence (with full experimental details).
XmlNamedBinaryInteractionEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30: Expanded XML 3.0 writer for a named binary interaction evidence (with full experimental details).
XmlNamedBinaryInteractionEvidenceWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlNamedBinaryInteractionEvidenceWriter: Constructor for XmlNamedBinaryInteractionEvidenceWriter.
XmlNamedBinaryInteractionEvidenceWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlNamedBinaryInteractionEvidenceWriter: Constructor for XmlNamedBinaryInteractionEvidenceWriter.
XmlNamedBinaryInteractionEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedBinaryInteractionEvidenceWriter: Constructor for XmlNamedBinaryInteractionEvidenceWriter.
XmlNamedBinaryInteractionEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedBinaryInteractionEvidenceWriter: Constructor for XmlNamedBinaryInteractionEvidenceWriter.
XmlNamedBinaryInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25: Compact XML 2.5 writer for a basic binary interaction (ignore experimental details) which has a fullname and aliases in addition to a shortname
XmlNamedBinaryInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25: Expanded XML 2.5 writer for a basic binary interaction (ignore experimental details).
XmlNamedBinaryInteractionWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedBinaryInteractionWriter: Constructor for XmlNamedBinaryInteractionWriter.
XmlNamedBinaryInteractionWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedBinaryInteractionWriter: Constructor for XmlNamedBinaryInteractionWriter.
XmlNamedExperimentWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25: XML 2.5 experiment writer for a named experiment having shortlabel, fullname and aliases
XmlNamedExperimentWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30: XML 3.0 experiment writer for a named experiment having shortlabel, fullname and aliases
XmlNamedExperimentWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlNamedExperimentWriter: Constructor for XmlNamedExperimentWriter.
XmlNamedExperimentWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25.XmlNamedExperimentWriter: Constructor for XmlNamedExperimentWriter.
XmlNamedInteractionEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25: Compact XML 2.5 writer for a named interaction evidence (with full experimental details).
XmlNamedInteractionEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30: Compact XML 3.0 writer for a named interaction evidence (with full experimental details).
XmlNamedInteractionEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25: Expanded XML 2.5 writer for a named interaction evidence (with full experimental details).
XmlNamedInteractionEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30: Expanded XML 3.0writer for a named interaction evidence (with full experimental details).
XmlNamedInteractionEvidenceWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlNamedInteractionEvidenceWriter: Constructor for XmlNamedInteractionEvidenceWriter.
XmlNamedInteractionEvidenceWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlNamedInteractionEvidenceWriter: Constructor for XmlNamedInteractionEvidenceWriter.
XmlNamedInteractionEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedInteractionEvidenceWriter: Constructor for XmlNamedInteractionEvidenceWriter.
XmlNamedInteractionEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedInteractionEvidenceWriter: Constructor for XmlNamedInteractionEvidenceWriter.
XmlNamedInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25: Compact XML 2.5 writer for a basic interaction (ignore experimental details) which has a fullname and aliases in addition to a shortname
XmlNamedInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25: Expanded XML 2.5 writer for a basic interaction (ignore experimental details).
XmlNamedInteractionWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedInteractionWriter: Constructor for XmlNamedInteractionWriter.
XmlNamedInteractionWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedInteractionWriter: Constructor for XmlNamedInteractionWriter.
XmlNamedModelledBinaryInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25: Compact XML 2.5 writer for a modelled binary interaction (ignore experimental details) which have a fullname and aliases in addition to the shortname.
XmlNamedModelledBinaryInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30: Compact XML 3.0 writer for a modelled binary interaction (ignore experimental details) which have a fullname and aliases in addition to the shortname.
XmlNamedModelledBinaryInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25: Expanded XML 2.5 writer for a binary modelled interaction (ignore experimental details) which have a fullname and aliases in addition to the shortname.
XmlNamedModelledBinaryInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30: Expanded XML 3.0 writer for a binary modelled interaction (ignore experimental details) which have a fullname and aliases in addition to the shortname.
XmlNamedModelledBinaryInteractionWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlNamedModelledBinaryInteractionWriter: Constructor for XmlNamedModelledBinaryInteractionWriter.
XmlNamedModelledBinaryInteractionWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlNamedModelledBinaryInteractionWriter: Constructor for XmlNamedModelledBinaryInteractionWriter.
XmlNamedModelledBinaryInteractionWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedModelledBinaryInteractionWriter: Constructor for XmlNamedModelledBinaryInteractionWriter.
XmlNamedModelledBinaryInteractionWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedModelledBinaryInteractionWriter: Constructor for XmlNamedModelledBinaryInteractionWriter.
XmlNamedModelledInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25: Compact XML 2.5 writer for a modelled interaction (ignore experimental details) which have a fullname and aliases in addition to the shortname.
XmlNamedModelledInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30: Compact XML 3.0 writer for a modelled interaction (ignore experimental details) which have a fullname and aliases in addition to the shortname.
XmlNamedModelledInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25: Expanded XML 2.5 writer for a modelled interaction (ignore experimental details) which have a fullname and aliases in addition to the shortname.
XmlNamedModelledInteractionWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30: Expanded XML 3.0 writer for a modelled interaction (ignore experimental details) which have a fullname and aliases in addition to the shortname.
XmlNamedModelledInteractionWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlNamedModelledInteractionWriter: Constructor for XmlNamedModelledInteractionWriter.
XmlNamedModelledInteractionWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlNamedModelledInteractionWriter: Constructor for XmlNamedModelledInteractionWriter.
XmlNamedModelledInteractionWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedModelledInteractionWriter: Constructor for XmlNamedModelledInteractionWriter.
XmlNamedModelledInteractionWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedModelledInteractionWriter: Constructor for XmlNamedModelledInteractionWriter.
XmlNamedModelledParticipantWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25: Compact XML 2.5 writer for a named modelled participant having a fullname and a shortname.
XmlNamedModelledParticipantWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30: Compact XML 3.0 writer for a named modelled participant having a fullname and a shortname.
XmlNamedModelledParticipantWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25: Expanded XML 2.5 writer for a named modelled participant having a fullname and a shortname.
XmlNamedModelledParticipantWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30: Expanded XML 3.0 writer for a named modelled participant having a fullname and a shortname.
XmlNamedModelledParticipantWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlNamedModelledParticipantWriter: Constructor for XmlNamedModelledParticipantWriter.
XmlNamedModelledParticipantWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlNamedModelledParticipantWriter: Constructor for XmlNamedModelledParticipantWriter.
XmlNamedModelledParticipantWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedModelledParticipantWriter: Constructor for XmlNamedModelledParticipantWriter.
XmlNamedModelledParticipantWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedModelledParticipantWriter: Constructor for XmlNamedModelledParticipantWriter.
XmlNamedParticipantEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25: Compact Xml 2.5 writer for a named participant evidence with a shortname and a fullname.
XmlNamedParticipantEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30: Compact Xml 3.0 writer for a named participant evidence with a shortname and a fullname.
XmlNamedParticipantEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25: Expanded Xml 2.5 writer for a named participant evidence with a shortname and a fullname.
XmlNamedParticipantEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30: Expanded Xml 3.0 writer for a named participant evidence with a shortname and a fullname.
XmlNamedParticipantEvidenceWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlNamedParticipantEvidenceWriter: Constructor for XmlNamedParticipantEvidenceWriter.
XmlNamedParticipantEvidenceWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlNamedParticipantEvidenceWriter: Constructor for XmlNamedParticipantEvidenceWriter.
XmlNamedParticipantEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedParticipantEvidenceWriter: Constructor for XmlNamedParticipantEvidenceWriter.
XmlNamedParticipantEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedParticipantEvidenceWriter: Constructor for XmlNamedParticipantEvidenceWriter.
XmlNamedParticipantWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25: Compact Xml 2.5 writer for a basic named participant with a shortname and a fullname.
XmlNamedParticipantWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25: Expanded Xml 2.5 writer for a basic named participant with a shortname and a fullname.
XmlNamedParticipantWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedParticipantWriter: Constructor for XmlNamedParticipantWriter.
XmlNamedParticipantWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlNamedParticipantWriter: Constructor for XmlNamedParticipantWriter.
XmlNucleicAcid - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of Nucleic acid
XmlNucleicAcid - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of Nucleic acid
XmlNucleicAcid - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of Nucleic acid
XmlNucleicAcid(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlNucleicAcid(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlNucleicAcid: Constructor for XmlNucleicAcid.
XmlOpenCvTerm - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of CvTerm.
XmlOpenCvTerm - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of CvTerm.
XmlOpenCvTerm - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of CvTerm.
XmlOpenCvTerm() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOpenCvTerm: Constructor for XmlOpenCvTerm.
XmlOpenCvTerm() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOpenCvTerm: Constructor for XmlOpenCvTerm.
XmlOpenCvTerm() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOpenCvTerm: Constructor for XmlOpenCvTerm.
XmlOpenCvTerm(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOpenCvTerm: Constructor for XmlOpenCvTerm.
XmlOpenCvTerm(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOpenCvTerm: Constructor for XmlOpenCvTerm.
XmlOpenCvTerm(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOpenCvTerm: Constructor for XmlOpenCvTerm.
XmlOpenCvTerm(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOpenCvTerm: Constructor for XmlOpenCvTerm.
XmlOpenCvTerm(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOpenCvTerm: Constructor for XmlOpenCvTerm.
XmlOpenCvTerm(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOpenCvTerm: Constructor for XmlOpenCvTerm.
XmlOpenCvTerm(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOpenCvTerm: Constructor for XmlOpenCvTerm.
XmlOpenCvTerm(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOpenCvTerm: Constructor for XmlOpenCvTerm.
XmlOpenCvTerm(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOpenCvTerm: Constructor for XmlOpenCvTerm.
XmlOpenCvTerm(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOpenCvTerm: Constructor for XmlOpenCvTerm.
XmlOpenCvTerm(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOpenCvTerm: Constructor for XmlOpenCvTerm.
XmlOpenCvTerm(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOpenCvTerm: Constructor for XmlOpenCvTerm.
XmlOpenCvTerm(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOpenCvTerm: Constructor for XmlOpenCvTerm.
XmlOpenCvTerm(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOpenCvTerm: Constructor for XmlOpenCvTerm.
XmlOpenCvTerm(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOpenCvTerm: Constructor for XmlOpenCvTerm.
XmlOpenCvTermWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended: Xml writer for open cv terms
XmlOpenCvTermWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl: Xml writer for open cv terms
XmlOpenCvTermWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.XmlOpenCvTermWriter: Constructor for XmlOpenCvTermWriter.
XmlOpenCvTermWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlOpenCvTermWriter: Constructor for XmlOpenCvTermWriter.
XmlOrganism - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of an organism
XmlOrganism - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of an organism
XmlOrganism - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of an organism
XmlOrganism() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOrganism: Constructor for XmlOrganism.
XmlOrganism() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOrganism: Constructor for XmlOrganism.
XmlOrganism() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOrganism: Constructor for XmlOrganism.
XmlOrganism(int) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOrganism: Constructor for XmlOrganism.
XmlOrganism(int) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOrganism: Constructor for XmlOrganism.
XmlOrganism(int) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOrganism: Constructor for XmlOrganism.
XmlOrganism(int, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOrganism: Constructor for XmlOrganism.
XmlOrganism(int, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOrganism: Constructor for XmlOrganism.
XmlOrganism(int, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOrganism: Constructor for XmlOrganism.
XmlOrganism(int, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOrganism: Constructor for XmlOrganism.
XmlOrganism(int, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOrganism: Constructor for XmlOrganism.
XmlOrganism(int, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOrganism: Constructor for XmlOrganism.
XmlOrganism(int, String, String, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOrganism: Constructor for XmlOrganism.
XmlOrganism(int, String, String, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOrganism: Constructor for XmlOrganism.
XmlOrganism(int, String, String, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOrganism: Constructor for XmlOrganism.
XmlOrganism(int, String, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOrganism: Constructor for XmlOrganism.
XmlOrganism(int, String, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOrganism: Constructor for XmlOrganism.
XmlOrganism(int, String, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOrganism: Constructor for XmlOrganism.
XmlOrganism(int, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlOrganism: Constructor for XmlOrganism.
XmlOrganism(int, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlOrganism: Constructor for XmlOrganism.
XmlOrganism(int, CvTerm, CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlOrganism: Constructor for XmlOrganism.
XmlOrganismWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended: PSI-XML writer for organism
XmlOrganismWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl: PSI-XML writer for organism
XmlOrganismWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.XmlOrganismWriter: Constructor for XmlOrganismWriter.
XmlOrganismWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlOrganismWriter: Constructor for XmlOrganismWriter.
XmlParameter - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of Parameter
XmlParameter - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of Parameter
XmlParameter - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of Parameter
XmlParameter() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParameter: Constructor for XmlParameter.
XmlParameter() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParameter: Constructor for XmlParameter.
XmlParameter() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParameter: Constructor for XmlParameter.
XmlParameter(CvTerm, ParameterValue, BigDecimal, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParameter: Constructor for XmlParameter.
XmlParameter(CvTerm, ParameterValue, BigDecimal, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParameter: Constructor for XmlParameter.
XmlParameter(CvTerm, ParameterValue, BigDecimal, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParameter: Constructor for XmlParameter.
XmlParameterWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml parameter wrapper
XmlParameterWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml parameter wrapper
XmlParameterWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml parameter wrapper
XmlParameterWrapper(Parameter) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParameterWrapper: Constructor for XmlParameterWrapper.
XmlParameterWrapper(Parameter) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParameterWrapper: Constructor for XmlParameterWrapper.
XmlParameterWrapper(Parameter) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParameterWrapper: Constructor for XmlParameterWrapper.
XmlParameterWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml253: XML 2.5 writer of a parameter
XmlParameterWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml254: XML 2.5 writer of a parameter
XmlParameterWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30: XML 3.0 writer of a parameter
XmlParameterWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25: XML 2.5 writer of a parameter
XmlParameterWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30: XML 3.0 writer of a parameter
XmlParameterWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml253.XmlParameterWriter: Constructor for XmlParameterWriter.
XmlParameterWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.xml254.XmlParameterWriter: Constructor for XmlParameterWriter.
XmlParameterWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlParameterWriter: Constructor for XmlParameterWriter.
XmlParameterWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25.XmlParameterWriter: Constructor for XmlParameterWriter.
XmlParameterWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlParameterWriter: Constructor for XmlParameterWriter.
XmlParser - Class in psidev.psi.mi.jami.xml.io.parser: Parser generating interaction objects that can be interaction evidences or abstract interactions.
XmlParser(File) - Constructor for class psidev.psi.mi.jami.xml.io.parser.XmlParser: Constructor for XmlParser.
XmlParser(InputStream) - Constructor for class psidev.psi.mi.jami.xml.io.parser.XmlParser: Constructor for XmlParser.
XmlParser(Reader) - Constructor for class psidev.psi.mi.jami.xml.io.parser.XmlParser: Constructor for XmlParser.
XmlParser(URL) - Constructor for class psidev.psi.mi.jami.xml.io.parser.XmlParser: Constructor for XmlParser.
XmlParticipant - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of a simple participant
XmlParticipant - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of a simple participant
XmlParticipant - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of a simple participant
XmlParticipant() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipant: Constructor for XmlParticipant.
XmlParticipant() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipant: Constructor for XmlParticipant.
XmlParticipant() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipant: Constructor for XmlParticipant.
XmlParticipant(Interactor) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipant: Constructor for XmlParticipant.
XmlParticipant(Interactor) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipant: Constructor for XmlParticipant.
XmlParticipant(Interactor) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipant: Constructor for XmlParticipant.
XmlParticipant(Interactor, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipant: Constructor for XmlParticipant.
XmlParticipant(Interactor, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipant: Constructor for XmlParticipant.
XmlParticipant(Interactor, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipant: Constructor for XmlParticipant.
XmlParticipant(Interactor, CvTerm, Stoichiometry) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipant: Constructor for XmlParticipant.
XmlParticipant(Interactor, CvTerm, Stoichiometry) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipant: Constructor for XmlParticipant.
XmlParticipant(Interactor, CvTerm, Stoichiometry) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipant: Constructor for XmlParticipant.
XmlParticipant(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipant: Constructor for XmlParticipant.
XmlParticipant(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipant: Constructor for XmlParticipant.
XmlParticipant(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipant: Constructor for XmlParticipant.
XmlParticipant.JAXBFeatureWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
XmlParticipant.JAXBFeatureWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
XmlParticipant.JAXBFeatureWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
XmlParticipantCandidateWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Wrapper for XmlParticipantCandidate so it implements ModelledParticipantCanidate
XmlParticipantCandidateWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Wrapper for XmlParticipantCandidate so it implements ModelledParticipantCanidate
XmlParticipantCandidateWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Wrapper for XmlParticipantCandidate so it implements ModelledParticipantCanidate
XmlParticipantCandidateWrapper(ParticipantCandidate, ModelledParticipantPool) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantCandidateWrapper: Constructor for XmlParticipantCandidateWrapper.
XmlParticipantCandidateWrapper(ParticipantCandidate, ModelledParticipantPool) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantCandidateWrapper: Constructor for XmlParticipantCandidateWrapper.
XmlParticipantCandidateWrapper(ParticipantCandidate, ModelledParticipantPool) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantCandidateWrapper: Constructor for XmlParticipantCandidateWrapper.
XmlParticipantEvidence - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of ParticipantEvidence
XmlParticipantEvidence - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of ParticipantEvidence
XmlParticipantEvidence - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of ParticipantEvidence
XmlParticipantEvidence() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: Constructor for XmlParticipantEvidence.
XmlParticipantEvidence() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: Constructor for XmlParticipantEvidence.
XmlParticipantEvidence() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: Constructor for XmlParticipantEvidence.
XmlParticipantEvidence(Interactor) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: Constructor for XmlParticipantEvidence.
XmlParticipantEvidence(Interactor) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: Constructor for XmlParticipantEvidence.
XmlParticipantEvidence(Interactor) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: Constructor for XmlParticipantEvidence.
XmlParticipantEvidence(Interactor, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: Constructor for XmlParticipantEvidence.
XmlParticipantEvidence(Interactor, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: Constructor for XmlParticipantEvidence.
XmlParticipantEvidence(Interactor, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: Constructor for XmlParticipantEvidence.
XmlParticipantEvidence(Interactor, CvTerm, Stoichiometry) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: Constructor for XmlParticipantEvidence.
XmlParticipantEvidence(Interactor, CvTerm, Stoichiometry) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: Constructor for XmlParticipantEvidence.
XmlParticipantEvidence(Interactor, CvTerm, Stoichiometry) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: Constructor for XmlParticipantEvidence.
XmlParticipantEvidence(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidence: Constructor for XmlParticipantEvidence.
XmlParticipantEvidence(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidence: Constructor for XmlParticipantEvidence.
XmlParticipantEvidence(Interactor, Stoichiometry) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidence: Constructor for XmlParticipantEvidence.
XmlParticipantEvidence.JAXBConfidenceWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
XmlParticipantEvidence.JAXBConfidenceWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
XmlParticipantEvidence.JAXBConfidenceWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
XmlParticipantEvidence.JAXBExperimentalInteractorWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
XmlParticipantEvidence.JAXBExperimentalInteractorWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
XmlParticipantEvidence.JAXBExperimentalInteractorWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
XmlParticipantEvidence.JAXBExperimentalPreparationWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
XmlParticipantEvidence.JAXBExperimentalPreparationWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
XmlParticipantEvidence.JAXBExperimentalPreparationWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
XmlParticipantEvidence.JAXBExperimentalRoleWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
XmlParticipantEvidence.JAXBExperimentalRoleWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
XmlParticipantEvidence.JAXBExperimentalRoleWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
XmlParticipantEvidence.JAXBFeatureWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
XmlParticipantEvidence.JAXBFeatureWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
XmlParticipantEvidence.JAXBFeatureWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
XmlParticipantEvidence.JAXBHostOrganismWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
XmlParticipantEvidence.JAXBHostOrganismWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
XmlParticipantEvidence.JAXBHostOrganismWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
XmlParticipantEvidence.JAXBInteractorCandidatesWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
XmlParticipantEvidence.JAXBInteractorCandidatesWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
XmlParticipantEvidence.JAXBInteractorCandidatesWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
XmlParticipantEvidence.JAXBParameterWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
XmlParticipantEvidence.JAXBParameterWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
XmlParticipantEvidence.JAXBParameterWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
XmlParticipantEvidence.JAXBParticipantIdentificationWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
XmlParticipantEvidence.JAXBParticipantIdentificationWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
XmlParticipantEvidence.JAXBParticipantIdentificationWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
XmlParticipantEvidenceWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Wrapper for Xml participants Addeding new modelled feature to this participant will not add new feature evidences to the wrapped participant evidence as they are incompatibles.
XmlParticipantEvidenceWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Wrapper for Xml participants Addeding new modelled feature to this participant will not add new feature evidences to the wrapped participant evidence as they are incompatibles.
XmlParticipantEvidenceWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Wrapper for Xml participants Addeding new modelled feature to this participant will not add new feature evidences to the wrapped participant evidence as they are incompatibles.
XmlParticipantEvidenceWrapper(ExtendedPsiXmlParticipantEvidence, XmlInteractionEvidenceComplexWrapper) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantEvidenceWrapper: Constructor for XmlParticipantEvidenceWrapper.
XmlParticipantEvidenceWrapper(ExtendedPsiXmlParticipantEvidence, XmlInteractionEvidenceComplexWrapper) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantEvidenceWrapper: Constructor for XmlParticipantEvidenceWrapper.
XmlParticipantEvidenceWrapper(ExtendedPsiXmlParticipantEvidence, XmlInteractionEvidenceComplexWrapper) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantEvidenceWrapper: Constructor for XmlParticipantEvidenceWrapper.
XmlParticipantEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25: Compact XML 2.5 writer for a participant evidence with full experimental details
XmlParticipantEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30: Compact XML 3.0 writer for a participant evidence with full experimental details
XmlParticipantEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25: Expanded XML 2.5 writer for a participant evidence with full experimental details
XmlParticipantEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30: Expanded XML 3.0 writer for a participant evidence with full experimental details
XmlParticipantEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25: Compact XML 2.5 writer for an expanded participant evidence with full experimental details and having experimental interactors, list of host organisms and list of experimental roles.
XmlParticipantEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30: Compact XML 3.0 writer for an expanded participant evidence with full experimental details and having experimental interactors, list of host organisms and list of experimental roles.
XmlParticipantEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25: Expanded XML 2.5 writer for an expanded participant evidence with full experimental details and having experimental interactors, list of host organisms and list of experimental roles.
XmlParticipantEvidenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30: Expanded XML 3.0 writer for an expanded participant evidence with full experimental details and having experimental interactors, list of host organisms and list of experimental roles.
XmlParticipantEvidenceWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlParticipantEvidenceWriter: Constructor for XmlParticipantEvidenceWriter.
XmlParticipantEvidenceWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlParticipantEvidenceWriter: Constructor for XmlParticipantEvidenceWriter.
XmlParticipantEvidenceWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml30.XmlParticipantEvidenceWriter: Constructor for XmlParticipantEvidenceWriter.
XmlParticipantEvidenceWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml30.XmlParticipantEvidenceWriter: Constructor for XmlParticipantEvidenceWriter.
XmlParticipantEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlParticipantEvidenceWriter: Constructor for XmlParticipantEvidenceWriter.
XmlParticipantEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlParticipantEvidenceWriter: Constructor for XmlParticipantEvidenceWriter.
XmlParticipantEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlParticipantEvidenceWriter: Constructor for XmlParticipantEvidenceWriter.
XmlParticipantEvidenceWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlParticipantEvidenceWriter: Constructor for XmlParticipantEvidenceWriter.
XmlParticipantPoolWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Wrapper for XmlParticipant
XmlParticipantPoolWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Wrapper for XmlParticipant
XmlParticipantPoolWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Wrapper for XmlParticipant
XmlParticipantPoolWrapper(ParticipantPool, ModelledInteraction) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantPoolWrapper: Constructor for XmlParticipantPoolWrapper.
XmlParticipantPoolWrapper(ParticipantPool, ModelledInteraction) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantPoolWrapper: Constructor for XmlParticipantPoolWrapper.
XmlParticipantPoolWrapper(ParticipantPool, ModelledInteraction) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantPoolWrapper: Constructor for XmlParticipantPoolWrapper.
XmlParticipantWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Wrapper for XmlParticipant
XmlParticipantWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Wrapper for XmlParticipant
XmlParticipantWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Wrapper for XmlParticipant
XmlParticipantWrapper(ExtendedPsiXmlParticipant, ModelledInteraction) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlParticipantWrapper: Constructor for XmlParticipantWrapper.
XmlParticipantWrapper(ExtendedPsiXmlParticipant, ModelledInteraction) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlParticipantWrapper: Constructor for XmlParticipantWrapper.
XmlParticipantWrapper(ExtendedPsiXmlParticipant, ModelledInteraction) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlParticipantWrapper: Constructor for XmlParticipantWrapper.
XmlParticipantWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25: Compact XML 2.5 writer for a basic participant (ignore experimental details)
XmlParticipantWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25: Expanded XML 2.5 writer for a basic participant (ignore experimental details)
XmlParticipantWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25: Compact XML 2.5 writer for a basic participant (ignore experimental details)
XmlParticipantWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25: Compact XML 2.5 writer for a basic participant (ignore experimental details)
XmlParticipantWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlParticipantWriter: Constructor for XmlParticipantWriter.
XmlParticipantWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml25.XmlParticipantWriter: Constructor for XmlParticipantWriter.
XmlParticipantWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlParticipantWriter: Constructor for XmlParticipantWriter.
XmlParticipantWriter(PsiXmlVersion, XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.expanded.xml25.XmlParticipantWriter: Constructor for XmlParticipantWriter.
XmlPolymer - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of Polymer
XmlPolymer - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of Polymer
XmlPolymer - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of Polymer
XmlPolymer() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPolymer: Constructor for XmlPolymer.
XmlPolymer(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPolymer: Constructor for XmlPolymer.
XmlPosition - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of a simple Position The JAXB binding is designed to be read-only and is not designed for writing
XmlPosition - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of a simple Position The JAXB binding is designed to be read-only and is not designed for writing
XmlPosition - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of a simple Position The JAXB binding is designed to be read-only and is not designed for writing
XmlPosition() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPosition: Constructor for XmlPosition.
XmlPosition() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPosition: Constructor for XmlPosition.
XmlPosition() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPosition: Constructor for XmlPosition.
XmlPosition(CvTerm, boolean) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPosition: Constructor for XmlPosition.
XmlPosition(CvTerm, boolean) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPosition: Constructor for XmlPosition.
XmlPosition(CvTerm, boolean) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPosition: Constructor for XmlPosition.
XmlPosition(CvTerm, long, boolean) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPosition: Constructor for XmlPosition.
XmlPosition(CvTerm, long, boolean) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPosition: Constructor for XmlPosition.
XmlPosition(CvTerm, long, boolean) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPosition: Constructor for XmlPosition.
XmlPreAssembly - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of preassembly
XmlPreAssembly - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of preassembly
XmlPreAssembly - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml 3.0 implementation of preassembly
XmlPreAssembly() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPreAssembly: Constructor for XmlPreAssembly.
XmlPreAssembly(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPreAssembly: Constructor for XmlPreAssembly.
XmlPreAssembly(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPreAssembly: Constructor for XmlPreAssembly.
XmlPreAssembly(CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPreAssembly: Constructor for XmlPreAssembly.
XmlPreAssembly(CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlPreAssembly: Constructor for XmlPreAssembly.
XmlPreAssembly(CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlPreAssembly: Constructor for XmlPreAssembly.
XmlPreAssembly(CvTerm, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlPreAssembly: Constructor for XmlPreAssembly.
XmlPreAssemblyWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30: Xml 3.0 writer for preassembly
XmlPreAssemblyWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30: Xml 3.0 writer for preassembly
XmlPreAssemblyWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlPreAssemblyWriter: Constructor for XmlPreAssemblyWriter.
XmlPreAssemblyWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlPreAssemblyWriter: Constructor for XmlPreAssemblyWriter.
XmlProtein - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of protein
XmlProtein - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of protein
XmlProtein - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of protein
XmlProtein(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlProtein: Constructor for XmlProtein.
XmlProtein(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlProtein: Constructor for XmlProtein.
XmlProtein(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, CvTerm, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, CvTerm, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, CvTerm, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, Organism) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, Organism, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlProtein: Constructor for XmlProtein.
XmlProtein(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlProtein: Constructor for XmlProtein.
XmlPublicationWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25: Xml25 writer for publications (bibref objects)
XmlPublicationWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30: Xml30 writer for publications (bibref objects)
XmlPublicationWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25: Xml25 writer for publications (bibref objects)
XmlPublicationWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30: Xml30 writer for publications (bibref objects)
XmlPublicationWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.XmlPublicationWriter: Constructor for XmlPublicationWriter.
XmlPublicationWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlPublicationWriter: Constructor for XmlPublicationWriter.
XmlPublicationWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25.XmlPublicationWriter: Constructor for XmlPublicationWriter.
XmlPublicationWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlPublicationWriter: Constructor for XmlPublicationWriter.
XmlRange - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of Range The JAXB binding is designed to be read-only and is not designed for writing
XmlRange - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of Range The JAXB binding is designed to be read-only and is not designed for writing
XmlRange - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of Range The JAXB binding is designed to be read-only and is not designed for writing
XmlRange() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlRange: Constructor for XmlRange.
XmlRange() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlRange: Constructor for XmlRange.
XmlRange() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlRange: Constructor for XmlRange.
XmlRange(Position, Position) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlRange: Constructor for XmlRange.
XmlRange(Position, Position) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlRange: Constructor for XmlRange.
XmlRange(Position, Position) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlRange: Constructor for XmlRange.
XmlRange(Position, Position, boolean) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlRange: Constructor for XmlRange.
XmlRange(Position, Position, boolean) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlRange: Constructor for XmlRange.
XmlRange(Position, Position, boolean) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlRange: Constructor for XmlRange.
XmlRange(Position, Position, boolean, Participant) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlRange: Constructor for XmlRange.
XmlRange(Position, Position, boolean, Participant) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlRange: Constructor for XmlRange.
XmlRange(Position, Position, boolean, Participant) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlRange: Constructor for XmlRange.
XmlRange(Position, Position, boolean, ResultingSequence) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlRange: Constructor for XmlRange.
XmlRange(Position, Position, boolean, ResultingSequence) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlRange: Constructor for XmlRange.
XmlRange(Position, Position, boolean, ResultingSequence) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlRange: Constructor for XmlRange.
XmlRange(Position, Position, Participant) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlRange: Constructor for XmlRange.
XmlRange(Position, Position, Participant) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlRange: Constructor for XmlRange.
XmlRange(Position, Position, Participant) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlRange: Constructor for XmlRange.
XmlRange(Position, Position, ResultingSequence) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlRange: Constructor for XmlRange.
XmlRange(Position, Position, ResultingSequence) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlRange: Constructor for XmlRange.
XmlRange(Position, Position, ResultingSequence) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlRange: Constructor for XmlRange.
XmlRangeWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25: Xml 2.5 writer for a feature range
XmlRangeWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30: Xml 3.0 writer for a feature range
XmlRangeWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25: Xml 2.5 writer for a feature range
XmlRangeWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30: Xml 3.0 writer for a feature range
XmlRangeWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl: Xml writer for a feature range
XmlRangeWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.XmlRangeWriter: Constructor for XmlRangeWriter.
XmlRangeWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25.XmlRangeWriter: Constructor for XmlRangeWriter.
XmlRangeWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.XmlRangeWriter: Constructor for XmlRangeWriter.
XmlRangeWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlRangeWriter: Constructor for XmlRangeWriter.
XmlRangeWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlRangeWriter: Constructor for XmlRangeWriter.
XmlReaderWithDefaultNamespace - Class in psidev.psi.mi.jami.xml.io.parser: Namespace filter that sets default namespace when no namespaces are found
XmlReaderWithDefaultNamespace(XMLStreamReader, String) - Constructor for class psidev.psi.mi.jami.xml.io.parser.XmlReaderWithDefaultNamespace: Constructor for XmlReaderWithDefaultNamespace.
XmlResultingSequence - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml implementation of resulting sequence for XML 2.5
XmlResultingSequence - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml implementation of resulting sequence for XML 2.5
XmlResultingSequence - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml implementation of resulting sequence for XML 3.0
XmlResultingSequence() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlResultingSequence: Constructor for XmlResultingSequence.
XmlResultingSequence() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlResultingSequence: Constructor for XmlResultingSequence.
XmlResultingSequence() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlResultingSequence: Constructor for XmlResultingSequence.
XmlResultingSequence(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlResultingSequence: Constructor for XmlResultingSequence.
XmlResultingSequence(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlResultingSequence: Constructor for XmlResultingSequence.
XmlResultingSequence(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlResultingSequence: Constructor for XmlResultingSequence.
XmlResultingSequenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30: Xml 3.0 writer for resulting sequence
XmlResultingSequenceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30: Xml 3.0 writer for resulting sequence
XmlResultingSequenceWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlResultingSequenceWriter: Constructor for XmlResultingSequenceWriter.
XmlResultingSequenceWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlResultingSequenceWriter: Constructor for XmlResultingSequenceWriter.
XmlSource - Class in psidev.psi.mi.jami.xml.model.extension.datasource: PSI-XML data source that provides interactions (mix of abstract interactions and interaction evidences).
XmlSource - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Desciption of the source of the entry, usually an organisation
XmlSource - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Desciption of the source of the entry, usually an organisation
XmlSource - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Desciption of the source of the entry, usually an organisation
XmlSource() - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlSource: Constructor for XmlSource.
XmlSource() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlSource: Constructor for XmlSource.
XmlSource() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlSource: Constructor for XmlSource.
XmlSource() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlSource: Constructor for XmlSource.
XmlSource(File) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlSource: Constructor for XmlSource.
XmlSource(InputStream) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlSource: Constructor for XmlSource.
XmlSource(Reader) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlSource: Constructor for XmlSource.
XmlSource(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlSource: Constructor for XmlSource.
XmlSource(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlSource: Constructor for XmlSource.
XmlSource(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlSource: Constructor for XmlSource.
XmlSource(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlSource: Constructor for XmlSource.
XmlSource(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlSource: Constructor for XmlSource.
XmlSource(String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlSource: Constructor for XmlSource.
XmlSource(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlSource: Constructor for XmlSource.
XmlSource(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlSource: Constructor for XmlSource.
XmlSource(String, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlSource: Constructor for XmlSource.
XmlSource(String, String, String, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlSource: Constructor for XmlSource.
XmlSource(String, String, String, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlSource: Constructor for XmlSource.
XmlSource(String, String, String, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlSource: Constructor for XmlSource.
XmlSource(String, String, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlSource: Constructor for XmlSource.
XmlSource(String, String, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlSource: Constructor for XmlSource.
XmlSource(String, String, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlSource: Constructor for XmlSource.
XmlSource(String, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlSource: Constructor for XmlSource.
XmlSource(String, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlSource: Constructor for XmlSource.
XmlSource(String, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlSource: Constructor for XmlSource.
XmlSource(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlSource: Constructor for XmlSource.
XmlSource(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlSource: Constructor for XmlSource.
XmlSource(String, String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlSource: Constructor for XmlSource.
XmlSource(String, String, Xref, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlSource: Constructor for XmlSource.
XmlSource(String, String, Xref, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlSource: Constructor for XmlSource.
XmlSource(String, String, Xref, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlSource: Constructor for XmlSource.
XmlSource(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlSource: Constructor for XmlSource.
XmlSource(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlSource: Constructor for XmlSource.
XmlSource(String, Xref) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlSource: Constructor for XmlSource.
XmlSource(String, Xref, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlSource: Constructor for XmlSource.
XmlSource(String, Xref, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlSource: Constructor for XmlSource.
XmlSource(String, Xref, String, String, Publication) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlSource: Constructor for XmlSource.
XmlSource(URL) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlSource: Constructor for XmlSource.
XmlSourceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25: XML 2.5 writer for expanded XML source having a release description and a release date
XmlSourceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30: XML 3.0 writer for expanded XML source having a release description and a release date
XmlSourceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25: Writer of a source in an 2.5 entry.
XmlSourceWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30: Writer of a source in a 3.0 entry.
XmlSourceWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml25.XmlSourceWriter: Constructor for XmlSourceWriter.
XmlSourceWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlSourceWriter: Constructor for XmlSourceWriter.
XmlSourceWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml25.XmlSourceWriter: Constructor for XmlSourceWriter.
XmlSourceWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlSourceWriter: Constructor for XmlSourceWriter.
XmlStoichiometry - Class in psidev.psi.mi.jami.xml.model.extension: Xml implementation of stoichiometry
XmlStoichiometry() - Constructor for class psidev.psi.mi.jami.xml.model.extension.XmlStoichiometry
XmlStoichiometry(int) - Constructor for class psidev.psi.mi.jami.xml.model.extension.XmlStoichiometry: Constructor for XmlStoichiometry.
XmlStoichiometry(int, int) - Constructor for class psidev.psi.mi.jami.xml.model.extension.XmlStoichiometry: Constructor for XmlStoichiometry.
XmlStoichiometryRange - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xml 2.5 implementation of stoichiometry range values
XmlStoichiometryRange - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xml 2.5 implementation of stoichiometry range values
XmlStoichiometryRange - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xml 3.0 implementation of stoichiometry range values
XmlStoichiometryRange() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlStoichiometryRange: Constructor for XmlStoichiometryRange.
XmlStoichiometryRange() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlStoichiometryRange: Constructor for XmlStoichiometryRange.
XmlStoichiometryRange() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlStoichiometryRange: Constructor for XmlStoichiometryRange.
XmlStoichiometryRange(int) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlStoichiometryRange: Constructor for XmlStoichiometryRange.
XmlStoichiometryRange(int) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlStoichiometryRange: Constructor for XmlStoichiometryRange.
XmlStoichiometryRange(int) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlStoichiometryRange: Constructor for XmlStoichiometryRange.
XmlStoichiometryRange(int, int) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlStoichiometryRange: Constructor for XmlStoichiometryRange.
XmlStoichiometryRange(int, int) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlStoichiometryRange: Constructor for XmlStoichiometryRange.
XmlStoichiometryRange(int, int) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlStoichiometryRange: Constructor for XmlStoichiometryRange.
XmlStoichiometryWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30: XML 3.0 writer for stoichiometry
XmlStoichiometryWriter(XMLStreamWriter) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlStoichiometryWriter: Constructor for XmlStoichiometryWriter.
XmlStreamSource - Class in psidev.psi.mi.jami.xml.model.extension.datasource: Datasource for PSI-xml returning mix of abstract interactions and interaction evidences
XmlStreamSource() - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlStreamSource: Constructor for XmlStreamSource.
XmlStreamSource(File) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlStreamSource: Constructor for XmlStreamSource.
XmlStreamSource(InputStream) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlStreamSource: Constructor for XmlStreamSource.
XmlStreamSource(Reader) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlStreamSource: Constructor for XmlStreamSource.
XmlStreamSource(URL) - Constructor for class psidev.psi.mi.jami.xml.model.extension.datasource.XmlStreamSource: Constructor for XmlStreamSource.
XmlVariableParameter - Class in psidev.psi.mi.jami.xml.model.extension.xml253: XML 2.5 implementation of variable parameter
XmlVariableParameter - Class in psidev.psi.mi.jami.xml.model.extension.xml254: XML 2.5 implementation of variable parameter
XmlVariableParameter - Class in psidev.psi.mi.jami.xml.model.extension.xml300: XML 3.0 implementation of variable parameter
XmlVariableParameter() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameter: Constructor for XmlVariableParameter.
XmlVariableParameter() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameter: Constructor for XmlVariableParameter.
XmlVariableParameter() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameter: Constructor for XmlVariableParameter.
XmlVariableParameter(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameter: Constructor for XmlVariableParameter.
XmlVariableParameter(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameter: Constructor for XmlVariableParameter.
XmlVariableParameter(String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameter: Constructor for XmlVariableParameter.
XmlVariableParameter(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameter: Constructor for XmlVariableParameter.
XmlVariableParameter(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameter: Constructor for XmlVariableParameter.
XmlVariableParameter(String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameter: Constructor for XmlVariableParameter.
XmlVariableParameter(String, Experiment) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameter: Constructor for XmlVariableParameter.
XmlVariableParameter(String, Experiment) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameter: Constructor for XmlVariableParameter.
XmlVariableParameter(String, Experiment) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameter: Constructor for XmlVariableParameter.
XmlVariableParameter(String, Experiment, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameter: Constructor for XmlVariableParameter.
XmlVariableParameter(String, Experiment, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameter: Constructor for XmlVariableParameter.
XmlVariableParameter(String, Experiment, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameter: Constructor for XmlVariableParameter.
XmlVariableParameter.JAXBVariableValueWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
XmlVariableParameter.JAXBVariableValueWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
XmlVariableParameter.JAXBVariableValueWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
XmlVariableParameterValue - Class in psidev.psi.mi.jami.xml.model.extension.xml253: XML 2.5 implementation of variable parameter value
XmlVariableParameterValue - Class in psidev.psi.mi.jami.xml.model.extension.xml254: XML 2.5 implementation of variable parameter value
XmlVariableParameterValue - Class in psidev.psi.mi.jami.xml.model.extension.xml300: XML 3.0 implementation of variable parameter value
XmlVariableParameterValue() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameterValue: Constructor for XmlVariableParameterValue.
XmlVariableParameterValue() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameterValue: Constructor for XmlVariableParameterValue.
XmlVariableParameterValue() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameterValue: Constructor for XmlVariableParameterValue.
XmlVariableParameterValue(String, VariableParameter) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameterValue: Constructor for XmlVariableParameterValue.
XmlVariableParameterValue(String, VariableParameter) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameterValue: Constructor for XmlVariableParameterValue.
XmlVariableParameterValue(String, VariableParameter) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameterValue: Constructor for XmlVariableParameterValue.
XmlVariableParameterValue(String, VariableParameter, Integer) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlVariableParameterValue: Constructor for XmlVariableParameterValue.
XmlVariableParameterValue(String, VariableParameter, Integer) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlVariableParameterValue: Constructor for XmlVariableParameterValue.
XmlVariableParameterValue(String, VariableParameter, Integer) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameterValue: Constructor for XmlVariableParameterValue.
XmlVariableParameterValueSet - Class in psidev.psi.mi.jami.xml.model.extension.xml300: XML 3.0 implementation of variable parameter value set
XmlVariableParameterValueSet() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlVariableParameterValueSet: Constructor for XmlVariableParameterValueSet.
XmlVariableParameterValueSetWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30: XML 3.0 writer for variable parameter value set
XmlVariableParameterValueSetWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlVariableParameterValueSetWriter: Constructor for XmlVariableParameterValueSetWriter.
XmlVariableParameterValueWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30: XML 3.0 writer for variable parameter value
XmlVariableParameterValueWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlVariableParameterValueWriter: Constructor for XmlVariableParameterValueWriter.
XmlVariableParameterWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30: XML 3.0 writer for variable parameter
XmlVariableParameterWriter - Class in psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30: XML 3.0 writer for variable parameter
XmlVariableParameterWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.xml30.XmlVariableParameterWriter: Constructor for XmlVariableParameterWriter.
XmlVariableParameterWriter(XMLStreamWriter, PsiXmlObjectCache) - Constructor for class psidev.psi.mi.jami.xml.io.writer.elements.impl.xml30.XmlVariableParameterWriter: Constructor for XmlVariableParameterWriter.
XmlXref - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Refers to a unique object in an external database.
XmlXref - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Refers to a unique object in an external database.
XmlXref - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Refers to a unique object in an external database.
XmlXref() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlXref: Constructor for XmlXref.
XmlXref() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlXref: Constructor for XmlXref.
XmlXref() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlXref: Constructor for XmlXref.
XmlXref(CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlXref: Constructor for XmlXref.
XmlXref(CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlXref: Constructor for XmlXref.
XmlXref(CvTerm, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlXref: Constructor for XmlXref.
XmlXref(CvTerm, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlXref: Constructor for XmlXref.
XmlXref(CvTerm, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlXref: Constructor for XmlXref.
XmlXref(CvTerm, String, String) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlXref: Constructor for XmlXref.
XmlXref(CvTerm, String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlXref: Constructor for XmlXref.
XmlXref(CvTerm, String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlXref: Constructor for XmlXref.
XmlXref(CvTerm, String, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlXref: Constructor for XmlXref.
XmlXref(CvTerm, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XmlXref: Constructor for XmlXref.
XmlXref(CvTerm, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XmlXref: Constructor for XmlXref.
XmlXref(CvTerm, String, CvTerm) - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XmlXref: Constructor for XmlXref.
XmlXref.JAXBAttributeWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml253
XmlXref.JAXBAttributeWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml254
XmlXref.JAXBAttributeWrapper - Class in psidev.psi.mi.jami.xml.model.extension.xml300
Xref - Interface in psidev.psi.mi.jami.model: Cross reference to an external database/resource which can give more information about an object.
XREF_DEFINITION_KEY - Static variable in class psidev.psi.mi.jami.bridges.ols.utils.OlsUtils: Constant XREF_DEFINITION_KEY="xref_definition"
XREF_SEPARATOR - Static variable in class psidev.psi.mi.jami.crosslink.utils.CsvUtils: Constant XREF_SEPARATOR="|"
XREF_SEPARATOR - Static variable in class psidev.psi.mi.jami.tab.utils.MitabUtils: Constant XREF_SEPARATOR=":"
XREF_TYPE - Static variable in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Constant XREF_TYPE=3
XREF_TYPE - Static variable in class psidev.psi.mi.jami.bridges.obo.OntologyOboLoader: Constant XREF_TYPE=3
XREF_VALIDATION_REGEXP - Static variable in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Constant XREF_VALIDATION_REGEXP="id-validation-regexp"
XREF_VALIDATION_REGEXP_MI_REF - Static variable in class psidev.psi.mi.jami.bridges.obo.AbstractOboLoader: Constant XREF_VALIDATION_REGEXP_MI_REF="MI:0628"
XrefContainer - Class in psidev.psi.mi.jami.xml.model.extension.xml253: Xref container in XML implementation The JAXB binding is designed to be read-only and is not designed for writing
XrefContainer - Class in psidev.psi.mi.jami.xml.model.extension.xml254: Xref container in XML implementation The JAXB binding is designed to be read-only and is not designed for writing
XrefContainer - Class in psidev.psi.mi.jami.xml.model.extension.xml300: Xref container in XML implementation The JAXB binding is designed to be read-only and is not designed for writing
XrefContainer() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml253.XrefContainer
XrefContainer() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml254.XrefContainer
XrefContainer() - Constructor for class psidev.psi.mi.jami.xml.model.extension.xml300.XrefContainer
XrefContainer.JAXBSecondaryXrefList - Class in psidev.psi.mi.jami.xml.model.extension.xml253
XrefContainer.JAXBSecondaryXrefList - Class in psidev.psi.mi.jami.xml.model.extension.xml254
XrefContainer.JAXBSecondaryXrefList - Class in psidev.psi.mi.jami.xml.model.extension.xml300
XREFS_A - psidev.psi.mi.jami.tab.MitabColumnName
XREFS_B - psidev.psi.mi.jami.tab.MitabColumnName
XREFS_I - psidev.psi.mi.jami.tab.MitabColumnName
XrefsChangeListener<T> - Interface in psidev.psi.mi.jami.listener: A listener for changes to a bioactiveEntity.
XrefsCollectionComparator - Class in psidev.psi.mi.jami.utils.comparator.xref: Comparator for collection of Xrefs
XrefsCollectionComparator(Comparator<Xref>) - Constructor for class psidev.psi.mi.jami.utils.comparator.xref.XrefsCollectionComparator: Creates a new xref CollectionComparator.
XrefUtils - Class in psidev.psi.mi.jami.utils: Utility class for Xrefs
XrefUtils() - Constructor for class psidev.psi.mi.jami.utils.XrefUtils

Y

YEAR_FORMAT - Static variable in class psidev.psi.mi.jami.xml.utils.PsiXmlUtils: Constant YEAR_FORMAT

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