Package psidev.psi.mi.jami.xml.io.writer.compact.extended

Class CompactXmlBinaryEvidenceWriter

java.lang.Object

psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter<T>

psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter<BinaryInteractionEvidence>

psidev.psi.mi.jami.xml.io.writer.compact.extended.CompactXmlBinaryEvidenceWriter

All Implemented Interfaces:

InteractionWriter<BinaryInteractionEvidence>

public class CompactXmlBinaryEvidenceWriter
extends AbstractCompactXmlWriter<BinaryInteractionEvidence>

Compact PSI-XML writer for expanded binary interaction evidences (full experimental evidences)

Since:

19/11/13

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Constructor Summary

Constructors

Constructor	Description
CompactXmlBinaryEvidenceWriter(PsiXmlVersion version)	Constructor for CompactXmlBinaryEvidenceWriter.
CompactXmlBinaryEvidenceWriter(PsiXmlVersion version, File file)	Constructor for CompactXmlBinaryEvidenceWriter.
CompactXmlBinaryEvidenceWriter(PsiXmlVersion version, OutputStream output)	Constructor for CompactXmlBinaryEvidenceWriter.
CompactXmlBinaryEvidenceWriter(PsiXmlVersion version, Writer writer)	Constructor for CompactXmlBinaryEvidenceWriter.
CompactXmlBinaryEvidenceWriter(PsiXmlVersion version, XMLStreamWriter streamWriter, PsiXmlObjectCache elementCache)	Constructor for CompactXmlBinaryEvidenceWriter.

Method Summary

Modifier and Type	Method	Description
protected Source	extractSourceFromInteraction()	extractSourceFromInteraction.
protected void	initialiseDefaultSource()	initialiseDefaultSource.
protected void	initialiseSubWriters()	initialiseSubWriters.
protected void	registerAvailabilities(BinaryInteractionEvidence interaction)	registerAvailabilities.
protected void	registerExperiment(BinaryInteractionEvidence interaction)	registerExperiment.

Methods inherited from class psidev.psi.mi.jami.xml.io.writer.compact.AbstractCompactXmlWriter

close, getAvailabilities, getAvailabilityWriter, getExperiments, getExperimentWriter, getInteractionType, getInteractors, getInteractorWriter, initialiseContext, initialiseDefaultAvailabilitySet, initialiseDefaultElementCache, initialiseDefaultExperimentSet, initialiseDefaultInteractorSet, initialiseOptionalWriters, registerAllInteractionsProperties, registerAllInteractors, registerAllInteractorsAndExperimentsFrom, registerInteractionProperties, registerParticipantInteractor, registerParticipantPoolInteractor, reset, setAvailabilitySet, setAvailabilityWriter, setExperimentSet, setExperimentWriter, setInteractorSet, setInteractorWriter, writeStartEntryContent

Methods inherited from class psidev.psi.mi.jami.xml.io.writer.AbstractXmlWriter

end, flush, getComplexWriter, getCurrentInteraction, getCurrentSource, getElementCache, getInteractionsIterator, getInteractionWriter, getProcessedInteractions, getStreamWriter, getSubWritersFactory, getVersion, initialiseDefaultInteractionSet, initialiseSubWriters, isStarted, newXmlSource, setAnnotationsWriter, setComplexWriter, setCurrentInteraction, setCurrentSource, setDefaultReleaseDate, setDefaultSource, setElementCache, setEntryAnnotations, setInteractionSet, setInteractionsIterator, setInteractionWriter, setSourceWriter, setStarted, setSubWritersFactory, setVersion, setWriteComplexesAsInteractors, start, write, write, write, writeComplex, writeComplexesAsInteractors, writeEndEntry, writeEndEntryContent, writeEndInteractionList, writeEntryAttributes, writeEntrySetAttributes, writeInteraction, writeInteractionListContent, writeSource, writeStartEntry, writeStartInteractionList, writeSubComplexInEntry

Methods inherited from class java.lang.Object

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

Constructor Detail

CompactXmlBinaryEvidenceWriter

public CompactXmlBinaryEvidenceWriter(PsiXmlVersion version)

Constructor for CompactXmlBinaryEvidenceWriter.

Parameters:

version - a PsiXmlVersion object.

CompactXmlBinaryEvidenceWriter

public CompactXmlBinaryEvidenceWriter(PsiXmlVersion version,
                                      File file)
                               throws IOException,
                                      XMLStreamException

Constructor for CompactXmlBinaryEvidenceWriter.

Parameters:

version - a PsiXmlVersion object.

file - a File object.

Throws:

IOException - if any.

XMLStreamException - if any.

CompactXmlBinaryEvidenceWriter

public CompactXmlBinaryEvidenceWriter(PsiXmlVersion version,
                                      OutputStream output)
                               throws XMLStreamException

Constructor for CompactXmlBinaryEvidenceWriter.

Parameters:

version - a PsiXmlVersion object.

output - a OutputStream object.

Throws:

XMLStreamException - if any.

CompactXmlBinaryEvidenceWriter

public CompactXmlBinaryEvidenceWriter(PsiXmlVersion version,
                                      Writer writer)
                               throws XMLStreamException

Constructor for CompactXmlBinaryEvidenceWriter.

Parameters:

version - a PsiXmlVersion object.

writer - a Writer object.

Throws:

XMLStreamException - if any.

CompactXmlBinaryEvidenceWriter

public CompactXmlBinaryEvidenceWriter(PsiXmlVersion version,
                                      XMLStreamWriter streamWriter,
                                      PsiXmlObjectCache elementCache)

Constructor for CompactXmlBinaryEvidenceWriter.

Parameters:

version - a PsiXmlVersion object.

streamWriter - a XMLStreamWriter object.

elementCache - a PsiXmlObjectCache object.

Method Detail

registerAvailabilities

protected void registerAvailabilities(BinaryInteractionEvidence interaction)

registerAvailabilities.

Specified by:

registerAvailabilities in class AbstractCompactXmlWriter<BinaryInteractionEvidence>

Parameters:

interaction - a T object.

registerExperiment

protected void registerExperiment(BinaryInteractionEvidence interaction)

registerExperiment.

Specified by:

registerExperiment in class AbstractCompactXmlWriter<BinaryInteractionEvidence>

Parameters:

interaction - a T object.

extractSourceFromInteraction

protected Source extractSourceFromInteraction()

extractSourceFromInteraction.

Overrides:

extractSourceFromInteraction in class AbstractXmlWriter<BinaryInteractionEvidence>

Returns:

a Source object.

initialiseDefaultSource

protected void initialiseDefaultSource()

initialiseDefaultSource.

Overrides:

initialiseDefaultSource in class AbstractXmlWriter<BinaryInteractionEvidence>

initialiseSubWriters

protected void initialiseSubWriters()

initialiseSubWriters.

Specified by:

initialiseSubWriters in class AbstractXmlWriter<BinaryInteractionEvidence>