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

Class CompactXmlNamedModelledBinaryWriter

java.lang.Object

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

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

psidev.psi.mi.jami.xml.io.writer.compact.CompactXmlNamedModelledBinaryWriter

All Implemented Interfaces:

InteractionWriter<ModelledBinaryInteraction>

public class CompactXmlNamedModelledBinaryWriter
extends AbstractCompactXmlWriter<ModelledBinaryInteraction>

Compact PSI-XML writer for named modelled binary interactions (no experimental evidences). Participants, features, experiments also have expanded names

Since:

19/11/13

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Constructor Summary

Constructors

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

Method Summary

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

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, 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, initialiseDefaultSource, 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

CompactXmlNamedModelledBinaryWriter

public CompactXmlNamedModelledBinaryWriter(PsiXmlVersion version)

Constructor for CompactXmlNamedModelledBinaryWriter.

Parameters:

version - a PsiXmlVersion object.

CompactXmlNamedModelledBinaryWriter

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

Constructor for CompactXmlNamedModelledBinaryWriter.

Parameters:

version - a PsiXmlVersion object.

file - a File object.

Throws:

IOException - if any.

XMLStreamException - if any.

CompactXmlNamedModelledBinaryWriter

public CompactXmlNamedModelledBinaryWriter(PsiXmlVersion version,
                                           OutputStream output)
                                    throws XMLStreamException

Constructor for CompactXmlNamedModelledBinaryWriter.

Parameters:

version - a PsiXmlVersion object.

output - a OutputStream object.

Throws:

XMLStreamException - if any.

CompactXmlNamedModelledBinaryWriter

public CompactXmlNamedModelledBinaryWriter(PsiXmlVersion version,
                                           Writer writer)
                                    throws XMLStreamException

Constructor for CompactXmlNamedModelledBinaryWriter.

Parameters:

version - a PsiXmlVersion object.

writer - a Writer object.

Throws:

XMLStreamException - if any.

CompactXmlNamedModelledBinaryWriter

public CompactXmlNamedModelledBinaryWriter(PsiXmlVersion version,
                                           XMLStreamWriter streamWriter,
                                           PsiXmlObjectCache cache)

Constructor for CompactXmlNamedModelledBinaryWriter.

Parameters:

version - a PsiXmlVersion object.

streamWriter - a XMLStreamWriter object.

cache - a PsiXmlObjectCache object.

Method Detail

registerAvailabilities

protected void registerAvailabilities(ModelledBinaryInteraction interaction)

registerAvailabilities.

Specified by:

registerAvailabilities in class AbstractCompactXmlWriter<ModelledBinaryInteraction>

Parameters:

interaction - a T object.

registerInteractionProperties

protected void registerInteractionProperties()

registerInteractionProperties.

Overrides:

registerInteractionProperties in class AbstractCompactXmlWriter<ModelledBinaryInteraction>

registerExperiment

protected void registerExperiment(ModelledBinaryInteraction interaction)

registerExperiment.

Specified by:

registerExperiment in class AbstractCompactXmlWriter<ModelledBinaryInteraction>

Parameters:

interaction - a T object.

extractSourceFromInteraction

protected Source extractSourceFromInteraction()

extractSourceFromInteraction.

Overrides:

extractSourceFromInteraction in class AbstractXmlWriter<ModelledBinaryInteraction>

Returns:

a Source object.

initialiseSubWriters

protected void initialiseSubWriters()

initialiseSubWriters.

Specified by:

initialiseSubWriters in class AbstractXmlWriter<ModelledBinaryInteraction>