Package psidev.psi.mi.jami.xml.model.extension.datasource

Class XmlModelledBinaryStreamSource

java.lang.Object

psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream<B>

psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlBinaryStream<ModelledInteraction,ModelledBinaryInteraction>

psidev.psi.mi.jami.xml.model.extension.datasource.XmlModelledBinaryStreamSource

All Implemented Interfaces:

ErrorHandler, BinaryInteractionStream<ModelledBinaryInteraction>, InteractionStream<ModelledBinaryInteraction>, MIDataSource, MIFileDataSource, ModelledBinaryInteractionStream, ModelledInteractionStream<ModelledBinaryInteraction>, MIFileParserListener, PsiXmlParserListener, PsiXmlStreamSource<ModelledBinaryInteraction>

public class XmlModelledBinaryStreamSource
extends AbstractPsiXmlBinaryStream<ModelledInteraction,ModelledBinaryInteraction>
implements ModelledBinaryInteractionStream

Psi-xml datasource for modelled binary interactions

Since:

17/10/13

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Field Summary

Fields inherited from class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream

SCHEMA_FEATURE, VALIDATION_FEATURE

Fields inherited from interface psidev.psi.mi.jami.datasource.MIFileDataSource

FILE_URI_PREFIX, URL_PREFIX_REGEXP

Constructor Summary

Constructors

Constructor	Description
XmlModelledBinaryStreamSource()	Constructor for XmlModelledBinaryStreamSource.
XmlModelledBinaryStreamSource(File file)	Constructor for XmlModelledBinaryStreamSource.
XmlModelledBinaryStreamSource(InputStream input)	Constructor for XmlModelledBinaryStreamSource.
XmlModelledBinaryStreamSource(Reader reader)	Constructor for XmlModelledBinaryStreamSource.
XmlModelledBinaryStreamSource(URL url)	Constructor for XmlModelledBinaryStreamSource.

Method Summary

Modifier and Type	Method	Description
protected Iterator<ModelledBinaryInteraction>	createXmlIterator()	createXmlIterator.
protected void	initialiseXmlParser(File file)	initialiseXmlParser.
protected void	initialiseXmlParser(InputStream input)	initialiseXmlParser.
protected void	initialiseXmlParser(Reader reader)	initialiseXmlParser.
protected void	initialiseXmlParser(URL url)	initialiseXmlParser.

Methods inherited from class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlBinaryStream

getComplexExpansion, initialiseExpansionMethod

Methods inherited from class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream

close, error, fatalError, getElementCache, getFileParserListener, getInteractionsIterator, getInteractorFactory, getParser, initialiseContext, isInitialised, onAliasWithoutName, onAnnotationWithoutTopic, onInteractionWithoutParticipants, onInvalidOrganismTaxid, onInvalidPosition, onInvalidRange, onInvalidStoichiometry, onInvalidSyntax, onMissingChecksumMethod, onMissingChecksumValue, onMissingConfidenceType, onMissingConfidenceValue, onMissingCvTermName, onMissingInteractorName, onMissingParameterType, onMissingParameterValue, onParticipantWithoutInteractor, onSeveralExperimentalRolesFound, onSeveralExperimentsFound, onSeveralExpressedInOrganismFound, onSeveralHostOrganismFound, onSyntaxWarning, onUnresolvedReference, onXrefWithoutDatabase, onXrefWithoutId, reInit, reset, setFileParserListener, setInteractorFactory, setMIFileParserListener, setParser, setXmlFileParserListener, validateSyntax, validateSyntax, warning

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Methods inherited from interface psidev.psi.mi.jami.datasource.InteractionStream

getInteractionsIterator

Methods inherited from interface psidev.psi.mi.jami.datasource.MIDataSource

close, initialiseContext, reset

Constructor Detail

XmlModelledBinaryStreamSource

public XmlModelledBinaryStreamSource()

Constructor for XmlModelledBinaryStreamSource.

XmlModelledBinaryStreamSource

public XmlModelledBinaryStreamSource(File file)

Constructor for XmlModelledBinaryStreamSource.

Parameters:

file - a File object.

XmlModelledBinaryStreamSource

public XmlModelledBinaryStreamSource(InputStream input)

Constructor for XmlModelledBinaryStreamSource.

Parameters:

input - a InputStream object.

XmlModelledBinaryStreamSource

public XmlModelledBinaryStreamSource(Reader reader)

Constructor for XmlModelledBinaryStreamSource.

Parameters:

reader - a Reader object.

XmlModelledBinaryStreamSource

public XmlModelledBinaryStreamSource(URL url)

Constructor for XmlModelledBinaryStreamSource.

Parameters:

url - a URL object.

Method Detail

initialiseXmlParser

protected void initialiseXmlParser(Reader reader)

initialiseXmlParser.

Specified by:

initialiseXmlParser in class AbstractPsiXmlStream<ModelledBinaryInteraction>

Parameters:

reader - a Reader object.

initialiseXmlParser

protected void initialiseXmlParser(File file)

initialiseXmlParser.

Specified by:

initialiseXmlParser in class AbstractPsiXmlStream<ModelledBinaryInteraction>

Parameters:

file - a File object.

initialiseXmlParser

protected void initialiseXmlParser(InputStream input)

initialiseXmlParser.

Specified by:

initialiseXmlParser in class AbstractPsiXmlStream<ModelledBinaryInteraction>

Parameters:

input - a InputStream object.

initialiseXmlParser

protected void initialiseXmlParser(URL url)

initialiseXmlParser.

Specified by:

initialiseXmlParser in class AbstractPsiXmlStream<ModelledBinaryInteraction>

Parameters:

url - a URL object.

createXmlIterator

protected Iterator<ModelledBinaryInteraction> createXmlIterator()

createXmlIterator.

Specified by:

createXmlIterator in class AbstractPsiXmlStream<ModelledBinaryInteraction>

Returns:

a Iterator object.