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

Class ExpandedXmlComplexWriter

java.lang.Object

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

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

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

All Implemented Interfaces:

InteractionWriter<Complex>

public class ExpandedXmlComplexWriter
extends AbstractExpandedXmlWriter<Complex>

Expanded PSI-XML writer for biological complexes (no experimental evidences)

Since:

19/11/13

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Constructor Summary

Constructors

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

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

ExpandedXmlComplexWriter

public ExpandedXmlComplexWriter(PsiXmlVersion version)

Constructor for ExpandedXmlComplexWriter.

Parameters:

version - a PsiXmlVersion object.

ExpandedXmlComplexWriter

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

Constructor for ExpandedXmlComplexWriter.

Parameters:

version - a PsiXmlVersion object.

file - a File object.

Throws:

IOException - if any.

XMLStreamException - if any.

ExpandedXmlComplexWriter

public ExpandedXmlComplexWriter(PsiXmlVersion version,
                                OutputStream output)
                         throws XMLStreamException

Constructor for ExpandedXmlComplexWriter.

Parameters:

version - a PsiXmlVersion object.

output - a OutputStream object.

Throws:

XMLStreamException - if any.

ExpandedXmlComplexWriter

public ExpandedXmlComplexWriter(PsiXmlVersion version,
                                Writer writer)
                         throws XMLStreamException

Constructor for ExpandedXmlComplexWriter.

Parameters:

version - a PsiXmlVersion object.

writer - a Writer object.

Throws:

XMLStreamException - if any.

ExpandedXmlComplexWriter

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

Constructor for ExpandedXmlComplexWriter.

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<Complex>

Returns:

a Source object.

initialiseSubWriters

protected void initialiseSubWriters()

initialiseSubWriters.

Specified by:

initialiseSubWriters in class AbstractXmlWriter<Complex>

initialiseDefaultSource

protected void initialiseDefaultSource()

initialiseDefaultSource.

Overrides:

initialiseDefaultSource in class AbstractXmlWriter<Complex>

writeInteraction

protected void writeInteraction()
                         throws XMLStreamException

writeInteraction.

Overrides:

writeInteraction in class AbstractExpandedXmlWriter<Complex>

Throws:

XMLStreamException - if any.

writeComplex

protected void writeComplex(ModelledInteraction modelled)

writeComplex.

Overrides:

writeComplex in class AbstractExpandedXmlWriter<Complex>

Parameters:

modelled - a ModelledInteraction object.