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

Class XmlBinaryStreamSource

java.lang.Object

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

psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlBinaryStream<Interaction,BinaryInteraction>

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

All Implemented Interfaces:

ErrorHandler, BinaryInteractionStream<BinaryInteraction>, InteractionStream<BinaryInteraction>, MIDataSource, MIFileDataSource, MIFileParserListener, PsiXmlParserListener, PsiXmlStreamSource<BinaryInteraction>

public class XmlBinaryStreamSource
extends AbstractPsiXmlBinaryStream<Interaction,BinaryInteraction>

Psi-XML mixed binary interaction datasource

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

Method Summary

Modifier and Type	Method	Description
protected Iterator<BinaryInteraction>	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

XmlBinaryStreamSource

public XmlBinaryStreamSource()

Constructor for XmlBinaryStreamSource.

XmlBinaryStreamSource

public XmlBinaryStreamSource(File file)

Constructor for XmlBinaryStreamSource.

Parameters:

file - a File object.

XmlBinaryStreamSource

public XmlBinaryStreamSource(InputStream input)

Constructor for XmlBinaryStreamSource.

Parameters:

input - a InputStream object.

XmlBinaryStreamSource

public XmlBinaryStreamSource(Reader reader)

Constructor for XmlBinaryStreamSource.

Parameters:

reader - a Reader object.

XmlBinaryStreamSource

public XmlBinaryStreamSource(URL url)

Constructor for XmlBinaryStreamSource.

Parameters:

url - a URL object.

Method Detail

initialiseXmlParser

protected void initialiseXmlParser(Reader reader)

initialiseXmlParser.

Specified by:

initialiseXmlParser in class AbstractPsiXmlStream<BinaryInteraction>

Parameters:

reader - a Reader object.

initialiseXmlParser

protected void initialiseXmlParser(File file)

initialiseXmlParser.

Specified by:

initialiseXmlParser in class AbstractPsiXmlStream<BinaryInteraction>

Parameters:

file - a File object.

initialiseXmlParser

protected void initialiseXmlParser(InputStream input)

initialiseXmlParser.

Specified by:

initialiseXmlParser in class AbstractPsiXmlStream<BinaryInteraction>

Parameters:

input - a InputStream object.

initialiseXmlParser

protected void initialiseXmlParser(URL url)

initialiseXmlParser.

Specified by:

initialiseXmlParser in class AbstractPsiXmlStream<BinaryInteraction>

Parameters:

url - a URL object.

createXmlIterator

protected Iterator<BinaryInteraction> createXmlIterator()

createXmlIterator.

Specified by:

createXmlIterator in class AbstractPsiXmlStream<BinaryInteraction>

Returns:

a Iterator object.