Uses of Interface
psidev.psi.mi.jami.listener.MIFileParserListener

Packages that use MIFileParserListener

Package	Description
psidev.psi.mi.jami.commons
psidev.psi.mi.jami.crosslink
psidev.psi.mi.jami.crosslink.extension.datasource
psidev.psi.mi.jami.crosslink.listener
psidev.psi.mi.jami.datasource
psidev.psi.mi.jami.listener.impl
psidev.psi.mi.jami.tab.extension.datasource
psidev.psi.mi.jami.tab.listener
psidev.psi.mi.jami.xml.io.iterator
psidev.psi.mi.jami.xml.listener
psidev.psi.mi.jami.xml.model.extension.datasource

Uses of MIFileParserListener in psidev.psi.mi.jami.commons

Methods in psidev.psi.mi.jami.commons with parameters of type MIFileParserListener

Modifier and Type	Method	Description
Map<String,Object>	MIDataSourceOptionFactory.getMitabOptions(MIFileParserListener listener, Object inputData)	Create the options for the MITAB datasource using the provided MIFileParserListener.
Map<String,Object>	MIDataSourceOptionFactory.getMitabOptions(InteractionCategory objectCategory, ComplexType complexType, boolean streaming, MIFileParserListener listener, Object input)	Create the options for the MITAB datasource.
Map<String,Object>	MIDataSourceOptionFactory.getOptions(MIFileType type, InteractionCategory objectCategory, ComplexType complexType, boolean streaming, MIFileParserListener listener, Object input)	Create a map of options
Map<String,Object>	MIDataSourceOptionFactory.getXmlOptions(MIFileParserListener listener, Object inputData)	Create the options for the Psi-XML datasource using the provided MIFileParserListener.
Map<String,Object>	MIDataSourceOptionFactory.getXmlOptions(InteractionCategory objectCategory, ComplexType complexType, boolean streaming, MIFileParserListener listener, Object input, ComplexExpansionMethod expansionMethod, PsiXmlIdCache objectCache)	Create the options for the PSI-XML datasource.

Uses of MIFileParserListener in psidev.psi.mi.jami.crosslink

Methods in psidev.psi.mi.jami.crosslink with parameters of type MIFileParserListener

Modifier and Type	Method	Description
Map<String,Object>	CrossLinkCsvOptionFactory.getCsvOptions(CsvType csvType, ComplexType complexType, Boolean streaming, MIFileParserListener listener, Object input)	Create a map of options
Map<String,Object>	CrossLinkCsvOptionFactory.getCsvOptions(MIFileParserListener listener, Object inputData)	Create the options for the CSV datasource using the provided MIFileParserListener.

Uses of MIFileParserListener in psidev.psi.mi.jami.crosslink.extension.datasource

Subinterfaces of MIFileParserListener in psidev.psi.mi.jami.crosslink.extension.datasource

Modifier and Type	Interface	Description
interface	CsvSource<I extends InteractionEvidence>	Interface for Crosslink CSV sources that can parse full CSV files
interface	CsvStreamSource<I extends InteractionEvidence>	Interface for Crosslink CSV datasources that can stream CSV files

Classes in psidev.psi.mi.jami.crosslink.extension.datasource that implement MIFileParserListener

Modifier and Type	Class	Description
class	AbstractCsvSource<T extends InteractionEvidence>	Abstract class for an InteractionSource coming from a Crosslink CSV file.
class	AbstractCsvStreamSource<T extends InteractionEvidence>	abstract class for Crosslink Csv datasource.
class	CsvBinaryEvidenceSource	CrossLink CVS source of binary interaction evidences
class	CsvBinaryEvidenceStreamSource	CrossLink CVS stream source of binary interaction evidences
class	CsvEvidenceSource	CrossLink CVS source of interaction evidences
class	CsvEvidenceStreamSource	CrossLink CVS stream source of interaction evidences
class	CsvMixedEvidenceSource	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
class	CsvNaryEvidenceSource	This class is a source that can build a n-ary interaction evidence from a full Crosslink csv file

Methods in psidev.psi.mi.jami.crosslink.extension.datasource that return MIFileParserListener

Modifier and Type	Method	Description
MIFileParserListener	AbstractCsvSource.getFileParserListener()	getFileParserListener.
MIFileParserListener	AbstractCsvStreamSource.getFileParserListener()	getFileParserListener.
MIFileParserListener	CsvMixedEvidenceSource.getFileParserListener()	getFileParserListener.
MIFileParserListener	CsvNaryEvidenceSource.getFileParserListener()	getFileParserListener.

Methods in psidev.psi.mi.jami.crosslink.extension.datasource with parameters of type MIFileParserListener

Modifier and Type	Method	Description
void	AbstractCsvSource.setFileParserListener(MIFileParserListener listener)	setFileParserListener
void	AbstractCsvStreamSource.setFileParserListener(MIFileParserListener listener)	setFileParserListener
void	CsvMixedEvidenceSource.setFileParserListener(MIFileParserListener listener)	setFileParserListener
void	CsvNaryEvidenceSource.setFileParserListener(MIFileParserListener listener)	setFileParserListener
protected void	AbstractCsvSource.setMIFileParserListener(MIFileParserListener listener)	setMIFileParserListener.
protected void	AbstractCsvStreamSource.setMIFileParserListener(MIFileParserListener listener)	setMIFileParserListener.
boolean	AbstractCsvSource.validateSyntax(MIFileParserListener listener)	Validate the syntax of this MIFileDataSource and uses the provided MIFileParserListener to listen to the events.
boolean	AbstractCsvStreamSource.validateSyntax(MIFileParserListener listener)	Validate the syntax of this MIFileDataSource and uses the provided MIFileParserListener to listen to the events.
boolean	CsvMixedEvidenceSource.validateSyntax(MIFileParserListener listener)	Validate the syntax of this MIFileDataSource and uses the provided MIFileParserListener to listen to the events.
boolean	CsvNaryEvidenceSource.validateSyntax(MIFileParserListener listener)	Validate the syntax of this MIFileDataSource and uses the provided MIFileParserListener to listen to the events.

Uses of MIFileParserListener in psidev.psi.mi.jami.crosslink.listener

Subinterfaces of MIFileParserListener in psidev.psi.mi.jami.crosslink.listener

Modifier and Type	Interface	Description
interface	CsvParserListener	A listener listening to events when parsing a crosslink CSV file

Classes in psidev.psi.mi.jami.crosslink.listener that implement MIFileParserListener

Modifier and Type	Class	Description
class	CsvParserLogger	Logger for CsvParser

Uses of MIFileParserListener in psidev.psi.mi.jami.datasource

Methods in psidev.psi.mi.jami.datasource that return MIFileParserListener

Modifier and Type	Method	Description
MIFileParserListener	MIFileDataSource.getFileParserListener()	The MIFileParserListener can be null if not initialised

Methods in psidev.psi.mi.jami.datasource with parameters of type MIFileParserListener

Modifier and Type	Method	Description
void	MIFileDataSource.setFileParserListener(MIFileParserListener listener)	setFileParserListener
boolean	MIFileDataSource.validateSyntax(MIFileParserListener listener)	Validate the syntax of this MIFileDataSource and uses the provided MIFileParserListener to listen to the events.

Uses of MIFileParserListener in psidev.psi.mi.jami.listener.impl

Classes in psidev.psi.mi.jami.listener.impl with type parameters of type MIFileParserListener

Modifier and Type	Class	Description
class	MIFileParserCompositeListener<T extends MIFileParserListener>	This class contains several MI file listeners

Classes in psidev.psi.mi.jami.listener.impl that implement MIFileParserListener

Modifier and Type	Class	Description
class	MIFileParserCompositeListener<T extends MIFileParserListener>	This class contains several MI file listeners
class	MIFileParserLogger	Logger for MitabParser

Uses of MIFileParserListener in psidev.psi.mi.jami.tab.extension.datasource

Subinterfaces of MIFileParserListener in psidev.psi.mi.jami.tab.extension.datasource

Modifier and Type	Interface	Description
interface	MitabSource<I extends Interaction>	Interface for MITAB sources that can parse full MITAB files
interface	MitabStreamSource<I extends Interaction>	Interface for MITAB datasources that can stream MITAB files

Classes in psidev.psi.mi.jami.tab.extension.datasource that implement MIFileParserListener

Modifier and Type	Class	Description
class	AbstractMitabSource<T extends Interaction,P extends Participant,F extends Feature>	Abstract class for an InteractionSource coming from a MITAB file.
class	AbstractMitabStreamSource<T extends Interaction,P extends Participant,F extends Feature>	abstract class for Mitab datasource.
class	DefaultMitabSource	Abstract class for an InteractionSource coming from a MITAB file.
class	DefaultMitabStreamSource	Generic class for Mitab streaming datasource.
class	LightMitabBinarySource	A mitab datasource that loads very basic binary interactions and ignore experimental details, source, confidence and experimental details.
class	LightMitabBinaryStreamSource	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
class	LightMitabSource	A mitab datasource that loads very basic interactions and ignore experimental details, source, confidence and experimental details It will load the full interaction set.
class	LightMitabStreamSource	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.
class	MitabBinaryEvidenceSource	A mitab datasource that loads interaction evidences (full experimental details).
class	MitabBinaryEvidenceStreamSource	A mitab datasource that loads interaction evidences (full experimental details) It only provides an iterator of the interactions
class	MitabEvidenceSource	A mitab datasource that loads interaction evidences (full experimental details) It will load the full interaction dataset
class	MitabEvidenceStreamSource	A mitab datasource that loads interaction evidences (full experimental details) It only provides an iterator of the interactions
class	MitabModelledBinarySource	A mitab datasource that loads modelled binary interactions and ignore experimental details.
class	MitabModelledBinaryStreamSource	A mitab datasource that loads modelled binary interactions and ignore experimental details.
class	MitabModelledSource	A mitab datasource that loads modelled interactions and ignore experimental details It will load the full interaction dataset.
class	MitabModelledStreamSource	A mitab datasource that loads modelled interactions and ignore experimental details It only provides an iterator of modelled interactions

Methods in psidev.psi.mi.jami.tab.extension.datasource that return MIFileParserListener

Modifier and Type	Method	Description
MIFileParserListener	AbstractMitabSource.getFileParserListener()	getFileParserListener.
MIFileParserListener	AbstractMitabStreamSource.getFileParserListener()	getFileParserListener.
MIFileParserListener	DefaultMitabStreamSource.getFileParserListener()	getFileParserListener.

Methods in psidev.psi.mi.jami.tab.extension.datasource with parameters of type MIFileParserListener

Modifier and Type	Method	Description
void	AbstractMitabSource.setFileParserListener(MIFileParserListener listener)	setFileParserListener
void	AbstractMitabStreamSource.setFileParserListener(MIFileParserListener listener)	setFileParserListener
void	DefaultMitabStreamSource.setFileParserListener(MIFileParserListener listener)	setFileParserListener
protected void	AbstractMitabStreamSource.setMIFileParserListener(MIFileParserListener listener)	setMIFileParserListener.
boolean	AbstractMitabSource.validateSyntax(MIFileParserListener listener)	Validate the syntax of this MIFileDataSource and uses the provided MIFileParserListener to listen to the events.
boolean	AbstractMitabStreamSource.validateSyntax(MIFileParserListener listener)	Validate the syntax of this MIFileDataSource and uses the provided MIFileParserListener to listen to the events.
boolean	DefaultMitabStreamSource.validateSyntax(MIFileParserListener listener)	Validate the syntax of this MIFileDataSource and uses the provided MIFileParserListener to listen to the events.

Uses of MIFileParserListener in psidev.psi.mi.jami.tab.listener

Subinterfaces of MIFileParserListener in psidev.psi.mi.jami.tab.listener

Modifier and Type	Interface	Description
interface	MitabParserListener	A listener listening to events when parsing a mitab file

Classes in psidev.psi.mi.jami.tab.listener that implement MIFileParserListener

Modifier and Type	Class	Description
class	MitabParserCompositeListener	This class contains several MI file listeners
class	MitabParserLogger	Logger for MitabParser

Uses of MIFileParserListener in psidev.psi.mi.jami.xml.io.iterator

Methods in psidev.psi.mi.jami.xml.io.iterator with parameters of type MIFileParserListener

Modifier and Type	Method	Description
void	AbstractXmlIterator.setParserListener(MIFileParserListener defaultParserListener)	Setter for the field parserListener.

Uses of MIFileParserListener in psidev.psi.mi.jami.xml.listener

Subinterfaces of MIFileParserListener in psidev.psi.mi.jami.xml.listener

Modifier and Type	Interface	Description
interface	PsiXmlParserListener	A listener listening to events when parsing a mitab file

Classes in psidev.psi.mi.jami.xml.listener that implement MIFileParserListener

Modifier and Type	Class	Description
class	PsiXmlParserCompositeListener	This class contains several MI file listeners
class	PsiXmlParserLogger	Logger for MitabParser

Uses of MIFileParserListener in psidev.psi.mi.jami.xml.model.extension.datasource

Subinterfaces of MIFileParserListener in psidev.psi.mi.jami.xml.model.extension.datasource

Modifier and Type	Interface	Description
interface	PsiXmlSource<I extends Interaction>	Interface for PSI-MI XML sources that can parse full PSI-MI XML files
interface	PsiXmlStreamSource<I extends Interaction>	Interface for PSI-MI XML datasources that can stream PSI-MI XML files

Classes in psidev.psi.mi.jami.xml.model.extension.datasource that implement MIFileParserListener

Modifier and Type	Class	Description
class	AbstractPsiXmlBinarySource<T extends Interaction,B extends BinaryInteraction>	Abstract class for Psi-XML binary interaction data source which loads the full interaction dataset
class	AbstractPsiXmlBinaryStream<T extends Interaction,B extends BinaryInteraction>	Abstract class for binary interaction datasources
class	AbstractPsiXmlSource<T extends Interaction>	Abstract class for a PSI-XML datasource that loads the full interaction dataset
class	AbstractPsiXmlStream<T extends Interaction>	Abstract class for psiXml data source
class	DefaultPsiXmlSource	Generic class for PSI-XML full datasource.
class	DefaultPsiXmlStreamSource	Generic class for PSI-XML streaming datasource.
class	LightXmlBinarySource	PSI-XML data source that provides light binary interactions (no experimental details).
class	LightXmlBinaryStreamSource	Psi-XML binary interaction datasource
class	LightXmlSource	PSI-XML data source that provides light interactions (no experimental details).
class	LightXmlStreamSource	Datasource for PSI-xml returning basic interactions
class	XmlBinaryEvidenceSource	PSI-XML data source that provides binary interactions evidence (full experimental details).
class	XmlBinaryEvidenceStreamSource	PsiXml datasource for binaryInteractionEvidence
class	XmlBinarySource	PSI-XML data source that provides binary interactions (mixed of abstract interactions and interaction evidences).
class	XmlBinaryStreamSource	Psi-XML mixed binary interaction datasource
class	XmlComplexSource	PSI-XML data source that provides abstract interactions (ignore full experimental details).
class	XmlComplexStreamSource	Datasource for Psi-XML abstract interactions
class	XmlEvidenceSource	PSI-XML data source that provides interaction evidences (with full experimental details).
class	XmlEvidenceStreamSource	Datasource for Psi-xml interaction evidence
class	XmlModelledBinarySource	PSI-XML data source that provides modelled binary interactions (ignore experimental details).
class	XmlModelledBinaryStreamSource	Psi-xml datasource for modelled binary interactions
class	XmlModelledSource	PSI-XML data source that provides abstract interactions (ignore full experimental details).
class	XmlModelledStreamSource	Datasource for Psi-XML abstract interactions
class	XmlSource	PSI-XML data source that provides interactions (mix of abstract interactions and interaction evidences).
class	XmlStreamSource	Datasource for PSI-xml returning mix of abstract interactions and interaction evidences

Methods in psidev.psi.mi.jami.xml.model.extension.datasource that return MIFileParserListener

Modifier and Type	Method	Description
MIFileParserListener	AbstractPsiXmlStream.getFileParserListener()	The MIFileParserListener can be null if not initialised
MIFileParserListener	DefaultPsiXmlStreamSource.getFileParserListener()	getFileParserListener.

Methods in psidev.psi.mi.jami.xml.model.extension.datasource with parameters of type MIFileParserListener

Modifier and Type	Method	Description
void	AbstractPsiXmlStream.setFileParserListener(MIFileParserListener listener)	setFileParserListener
void	DefaultPsiXmlStreamSource.setFileParserListener(MIFileParserListener listener)	setFileParserListener
protected void	AbstractPsiXmlStream.setMIFileParserListener(MIFileParserListener listener)	setMIFileParserListener.
boolean	AbstractPsiXmlStream.validateSyntax(MIFileParserListener listener)	Validate the syntax of this MIFileDataSource and uses the provided MIFileParserListener to listen to the events.
boolean	DefaultPsiXmlStreamSource.validateSyntax(MIFileParserListener listener)	Validate the syntax of this MIFileDataSource and uses the provided MIFileParserListener to listen to the events.