Uses of Interface
psidev.psi.mi.jami.model.BioactiveEntity

Packages that use BioactiveEntity

Package	Description
psidev.psi.mi.jami.bridges.chebi
psidev.psi.mi.jami.bridges.fetcher.mock
psidev.psi.mi.jami.enricher.impl
psidev.psi.mi.jami.enricher.impl.minimal
psidev.psi.mi.jami.factory
psidev.psi.mi.jami.model.impl
psidev.psi.mi.jami.tab.extension
psidev.psi.mi.jami.utils
psidev.psi.mi.jami.utils.comparator.interactor
psidev.psi.mi.jami.xml.model.extension.factory
psidev.psi.mi.jami.xml.model.extension.xml253
psidev.psi.mi.jami.xml.model.extension.xml254
psidev.psi.mi.jami.xml.model.extension.xml300

Uses of BioactiveEntity in psidev.psi.mi.jami.bridges.chebi

Methods in psidev.psi.mi.jami.bridges.chebi that return types with arguments of type BioactiveEntity

Modifier and Type	Method	Description
Collection<BioactiveEntity>	CachedChebiFetcher.fetchByIdentifier(String identifier)	Takes a string identifier and returns the interactors which match.
Collection<BioactiveEntity>	ChebiFetcher.fetchByIdentifier(String identifier)	Searches Chebi for an entry matching the identifier.
Collection<BioactiveEntity>	CachedChebiFetcher.fetchByIdentifiers(Collection<String> identifiers)	Takes a collection of string identifiers and returns the interactors which match.
Collection<BioactiveEntity>	ChebiFetcher.fetchByIdentifiers(Collection<String> identifiers)	Takes a collection of string identifiers and returns the interactors which match.

Uses of BioactiveEntity in psidev.psi.mi.jami.bridges.fetcher.mock

Methods in psidev.psi.mi.jami.bridges.fetcher.mock that return types with arguments of type BioactiveEntity

Modifier and Type	Method	Description
Collection<BioactiveEntity>	FailingBioactiveEntityFetcher.fetchByIdentifier(String identifier)	Takes a string identifier and returns the interactors which match.
Collection<BioactiveEntity>	MockBioactiveEntityFetcher.fetchByIdentifier(String identifier)	Takes a string identifier and returns the interactors which match.
Collection<BioactiveEntity>	FailingBioactiveEntityFetcher.fetchByIdentifiers(Collection<String> identifiers)	Takes a collection of string identifiers and returns the interactors which match.
Collection<BioactiveEntity>	MockBioactiveEntityFetcher.fetchByIdentifiers(Collection<String> identifiers)	Takes a collection of string identifiers and returns the interactors which match.

Uses of BioactiveEntity in psidev.psi.mi.jami.enricher.impl

Methods in psidev.psi.mi.jami.enricher.impl that return types with arguments of type BioactiveEntity

Modifier and Type	Method	Description
InteractorEnricher<BioactiveEntity>	CompositeInteractorEnricher.getBioactiveEntityEnricher()	Getter for the field bioactiveEntityEnricher.

Method parameters in psidev.psi.mi.jami.enricher.impl with type arguments of type BioactiveEntity

Modifier and Type	Method	Description
void	CompositeInteractorEnricher.setBioactiveEntityEnricher(InteractorEnricher<BioactiveEntity> bioactiveEntityEnricher)	Setter for the field bioactiveEntityEnricher.

Uses of BioactiveEntity in psidev.psi.mi.jami.enricher.impl.minimal

Methods in psidev.psi.mi.jami.enricher.impl.minimal that return BioactiveEntity

Modifier and Type	Method	Description
BioactiveEntity	MinimalBioactiveEntityEnricher.find(BioactiveEntity objectToEnrich)	find.

Methods in psidev.psi.mi.jami.enricher.impl.minimal with parameters of type BioactiveEntity

Modifier and Type	Method	Description
protected boolean	MinimalBioactiveEntityEnricher.canEnrichInteractor(BioactiveEntity entityToEnrich, BioactiveEntity fetchedEntity)	canEnrichInteractor.
BioactiveEntity	MinimalBioactiveEntityEnricher.find(BioactiveEntity objectToEnrich)	find.
protected void	MinimalBioactiveEntityEnricher.onCompletedEnrichment(BioactiveEntity objectToEnrich)	onCompletedEnrichment.
protected void	MinimalBioactiveEntityEnricher.onEnrichedVersionNotFound(BioactiveEntity objectToEnrich)	onEnrichedVersionNotFound.
protected void	MinimalBioactiveEntityEnricher.onInteractorCheckFailure(BioactiveEntity objectToEnrich, BioactiveEntity fetchedObject)	onInteractorCheckFailure.

Constructor parameters in psidev.psi.mi.jami.enricher.impl.minimal with type arguments of type BioactiveEntity

Constructor	Description
MinimalBioactiveEntityUpdater(AbstractInteractorEnricher<BioactiveEntity> interactorEnricher)	Constructor for MinimalBioactiveEntityUpdater.

Uses of BioactiveEntity in psidev.psi.mi.jami.factory

Methods in psidev.psi.mi.jami.factory that return BioactiveEntity

Modifier and Type	Method	Description
BioactiveEntity	DefaultInteractorFactory.createBioactiveEntity(String name, CvTerm type)	Creates a new BioactiveEntity with the name and interactor type
BioactiveEntity	InteractorFactory.createBioactiveEntity(String name, CvTerm type)	Creates a new BioactiveEntity with the name and interactor type

Uses of BioactiveEntity in psidev.psi.mi.jami.model.impl

Classes in psidev.psi.mi.jami.model.impl that implement BioactiveEntity

Modifier and Type	Class	Description
class	DefaultBioactiveEntity	Default implementation for bioactive entity Notes: The equals and hashcode methods have NOT been overridden because the BioactiveEntity object is a complex object.

Uses of BioactiveEntity in psidev.psi.mi.jami.tab.extension

Classes in psidev.psi.mi.jami.tab.extension that implement BioactiveEntity

Modifier and Type	Class	Description
class	MitabBioactiveEntity	Mitab extension for BioactiveEntity.

Uses of BioactiveEntity in psidev.psi.mi.jami.utils

Methods in psidev.psi.mi.jami.utils that return BioactiveEntity

Modifier and Type	Method	Description
static BioactiveEntity	InteractorUtils.createBioactiveEntityChebi(String name, String chebi)	createBioactiveEntityChebi
static BioactiveEntity	InteractorUtils.createBioactiveEntitySmile(String name, String smile)	createBioactiveEntitySmile
static BioactiveEntity	InteractorUtils.createBioactiveEntityStandardInchi(String name, String standard)	createBioactiveEntityStandardInchi
static BioactiveEntity	InteractorUtils.createBioactiveEntityStandardInchiKey(String name, String key)	createBioactiveEntityStandardInchiKey

Uses of BioactiveEntity in psidev.psi.mi.jami.utils.comparator.interactor

Methods in psidev.psi.mi.jami.utils.comparator.interactor that return types with arguments of type BioactiveEntity

Modifier and Type	Method	Description
Comparator<BioactiveEntity>	InteractorComparator.getBioactiveEntityComparator()	Getter for the field bioactiveEntityComparator.

Methods in psidev.psi.mi.jami.utils.comparator.interactor with parameters of type BioactiveEntity

Modifier and Type	Method	Description
static boolean	DefaultBioactiveEntityComparator.areEquals(BioactiveEntity bioactiveEntity1, BioactiveEntity bioactiveEntity2)	Use DefaultBioactiveEntityComparator to know if two bioactive entities are equals.
static boolean	DefaultExactBioactiveEntityComparator.areEquals(BioactiveEntity bioactiveEntity1, BioactiveEntity bioactiveEntity2)	Use DefaultBioactiveEntityComparator to know if two bioactive entities are equals.
static boolean	UnambiguousBioactiveEntityComparator.areEquals(BioactiveEntity entity1, BioactiveEntity entity2)	Use UnambiguousBioactiveEntityComparator to know if two bioactive entities are equals.
static boolean	UnambiguousExactBioactiveEntityComparator.areEquals(BioactiveEntity entity1, BioactiveEntity entity2)	Use UnambiguousExactBioactiveEntityComparator to know if two bioactive entities are equals.
int	BioactiveEntityComparator.compare(BioactiveEntity bioactiveEntity1, BioactiveEntity bioactiveEntity2)	It will first use UnambiguousInteractorBaseComparator to compare the basic interactor properties.
int	UnambiguousExactBioactiveEntityComparator.compare(BioactiveEntity bioactiveEntity1, BioactiveEntity bioactiveEntity2)

Uses of BioactiveEntity in psidev.psi.mi.jami.xml.model.extension.factory

Methods in psidev.psi.mi.jami.xml.model.extension.factory that return BioactiveEntity

Modifier and Type	Method	Description
BioactiveEntity	XmlInteractorFactory.createBioactiveEntity(String name, CvTerm type)	Creates a new BioactiveEntity with the name and interactor type

Uses of BioactiveEntity in psidev.psi.mi.jami.xml.model.extension.xml253

Classes in psidev.psi.mi.jami.xml.model.extension.xml253 that implement BioactiveEntity

Modifier and Type	Class	Description
class	XmlBioactiveEntity	Xml implementation of BioactiveEntity

Uses of BioactiveEntity in psidev.psi.mi.jami.xml.model.extension.xml254

Classes in psidev.psi.mi.jami.xml.model.extension.xml254 that implement BioactiveEntity

Modifier and Type	Class	Description
class	XmlBioactiveEntity	Xml implementation of BioactiveEntity

Uses of BioactiveEntity in psidev.psi.mi.jami.xml.model.extension.xml300

Classes in psidev.psi.mi.jami.xml.model.extension.xml300 that implement BioactiveEntity

Modifier and Type	Class	Description
class	XmlBioactiveEntity	Xml implementation of BioactiveEntity