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

Class ExpandedXmlEvidenceWriter

java.lang.Object

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

psidev.psi.mi.jami.xml.io.writer.expanded.AbstractExpandedXmlWriter<InteractionEvidence>

psidev.psi.mi.jami.xml.io.writer.expanded.extended.ExpandedXmlEvidenceWriter

All Implemented Interfaces:

InteractionWriter<InteractionEvidence>

public class ExpandedXmlEvidenceWriter
extends AbstractExpandedXmlWriter<InteractionEvidence>

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

Since:

19/11/13

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Constructor Summary

Constructors

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

Method Summary

Modifier and Type	Method	Description
protected Source	extractSourceFromInteraction()	extractSourceFromInteraction.
protected void	initialiseDefaultSource()	initialiseDefaultSource.
protected void	initialiseSubWriters()	initialiseSubWriters.
protected void	writeComplex(ModelledInteraction modelled)	writeComplex.
protected void	writeInteraction()	writeInteraction.

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

getInteractionType, initialiseDefaultElementCache, initialiseOptionalWriters, writeStartEntryContent

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

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

ExpandedXmlEvidenceWriter

public ExpandedXmlEvidenceWriter(PsiXmlVersion version)

Constructor for ExpandedXmlEvidenceWriter.

Parameters:

version - a PsiXmlVersion object.

ExpandedXmlEvidenceWriter

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

Constructor for ExpandedXmlEvidenceWriter.

Parameters:

version - a PsiXmlVersion object.

file - a File object.

Throws:

IOException - if any.

XMLStreamException - if any.

ExpandedXmlEvidenceWriter

public ExpandedXmlEvidenceWriter(PsiXmlVersion version,
                                 OutputStream output)
                          throws XMLStreamException

Constructor for ExpandedXmlEvidenceWriter.

Parameters:

version - a PsiXmlVersion object.

output - a OutputStream object.

Throws:

XMLStreamException - if any.

ExpandedXmlEvidenceWriter

public ExpandedXmlEvidenceWriter(PsiXmlVersion version,
                                 Writer writer)
                          throws XMLStreamException

Constructor for ExpandedXmlEvidenceWriter.

Parameters:

version - a PsiXmlVersion object.

writer - a Writer object.

Throws:

XMLStreamException - if any.

ExpandedXmlEvidenceWriter

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

Constructor for ExpandedXmlEvidenceWriter.

Parameters:

version - a PsiXmlVersion object.

streamWriter - a XMLStreamWriter object.

cache - a PsiXmlObjectCache object.

Method Detail

extractSourceFromInteraction

protected Source extractSourceFromInteraction()

extractSourceFromInteraction.

Overrides:

extractSourceFromInteraction in class AbstractXmlWriter<InteractionEvidence>

Returns:

a Source object.

initialiseSubWriters

protected void initialiseSubWriters()

initialiseSubWriters.

Specified by:

initialiseSubWriters in class AbstractXmlWriter<InteractionEvidence>

initialiseDefaultSource

protected void initialiseDefaultSource()

initialiseDefaultSource.

Overrides:

initialiseDefaultSource in class AbstractXmlWriter<InteractionEvidence>

writeInteraction

protected void writeInteraction()
                         throws XMLStreamException

writeInteraction.

Overrides:

writeInteraction in class AbstractExpandedXmlWriter<InteractionEvidence>

Throws:

XMLStreamException - if any.

writeComplex

protected void writeComplex(ModelledInteraction modelled)

writeComplex.

Overrides:

writeComplex in class AbstractExpandedXmlWriter<InteractionEvidence>

Parameters:

modelled - a ModelledInteraction object.