Package psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30

Class XmlNamedInteractionEvidenceWriter

java.lang.Object

psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter<I,ParticipantEvidence>

psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionEvidenceWriter<I>

psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlInteractionEvidenceWriter<InteractionEvidence>

psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlInteractionEvidenceWriter

psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlNamedInteractionEvidenceWriter

All Implemented Interfaces:

ExpandedPsiXmlElementWriter<InteractionEvidence>, PsiXmlElementWriter<InteractionEvidence>, PsiXmlInteractionWriter<InteractionEvidence>

public class XmlNamedInteractionEvidenceWriter
extends XmlInteractionEvidenceWriter
implements ExpandedPsiXmlElementWriter<InteractionEvidence>

Expanded XML 3.0writer for a named interaction evidence (with full experimental details). The interaction has aliases and a fullname in addition to the shortname

Since:

18/11/13

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Constructor Summary

Constructors

Constructor	Description
XmlNamedInteractionEvidenceWriter(XMLStreamWriter writer, PsiXmlObjectCache objectIndex)	Constructor for XmlNamedInteractionEvidenceWriter.

Method Summary

Modifier and Type	Method	Description
PsiXmlElementWriter<Alias>	getAliasWriter()	Getter for the field aliasWriter.
protected void	initialiseExperimentWriter()	initialiseExperimentWriter.
protected void	initialiseParticipantWriter()	initialiseParticipantWriter.
void	setAliasWriter(PsiXmlElementWriter<Alias> aliasWriter)	Setter for the field aliasWriter.
protected void	writeNames(InteractionEvidence object)	writeNames.

Methods inherited from class psidev.psi.mi.jami.xml.io.writer.elements.impl.expanded.xml30.XmlInteractionEvidenceWriter

writeAvailability, writeExperiments

Methods inherited from class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlInteractionEvidenceWriter

getCausalRelationshipWriter, getVariableParameterValueSetWriter, initialiseCausalRelationshipWriter, initialiseConfidenceWriter, initialiseInferredInteractionWriter, initialiseInteractionTypeWriter, initialiseParameterWriter, initialiseXrefWriter, setCausalRelationshipWriter, setVariableParameterValueSetWriter, writeCausalRelationships, writeExperimentalVariableValues, writeOtherProperties

Methods inherited from class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionEvidenceWriter

extractDefaultExperimentFrom, getAvailabilityWriter, getConfidenceWriter, getParameterWriter, initialiseAvaliabilityWriter, initialiseDefaultExperiment, setAvailabilityWriter, setConfidenceWriter, setDefaultExperiment, setParameterWriter, writeAvailabilityDescription, writeAvailabilityRef, writeConfidences, writeInferredInteractions, writeModelled, writeNegative, writeOtherAttributes, writeParameters, writeStartInteraction

Methods inherited from class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlInteractionWriter

collectInferredInteractionsFrom, getAttributeWriter, getChecksumWriter, getDefaultExperiment, getExperimentWriter, getInferredInteractionWriter, getInteractionTypeWriter, getObjectIndex, getParticipantWriter, getStreamWriter, getVersion, getXrefWriter, newExperiment, newPublication, newPublication, newXmlCvTerm, setAttributeWriter, setChecksumWriter, setComplexAsInteractor, setExperimentWriter, setInferredInteractionWriter, setInteractionTypeWriter, setParticipantWriter, setXrefWriter, write, writeAttribute, writeAttributes, writeComplexAsInteractor, writeExperimentDescription, writeExperimentRef, writeInteractionType, writeIntraMolecular, writeParticipants, writeXref, writeXrefFromInteractionIdentifiers, writeXrefFromInteractionXrefs

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.xml.io.writer.elements.PsiXmlElementWriter

write

Constructor Detail

XmlNamedInteractionEvidenceWriter

public XmlNamedInteractionEvidenceWriter(XMLStreamWriter writer,
                                         PsiXmlObjectCache objectIndex)

Constructor for XmlNamedInteractionEvidenceWriter.

Parameters:

writer - a XMLStreamWriter object.

objectIndex - a PsiXmlObjectCache object.

Method Detail

initialiseExperimentWriter

protected void initialiseExperimentWriter()

initialiseExperimentWriter.

Overrides:

initialiseExperimentWriter in class AbstractXmlInteractionEvidenceWriter<InteractionEvidence>

initialiseParticipantWriter

protected void initialiseParticipantWriter()

initialiseParticipantWriter.

Overrides:

initialiseParticipantWriter in class XmlInteractionEvidenceWriter

getAliasWriter

public PsiXmlElementWriter<Alias> getAliasWriter()

Getter for the field aliasWriter.

Returns:

a PsiXmlElementWriter object.

setAliasWriter

public void setAliasWriter(PsiXmlElementWriter<Alias> aliasWriter)

Setter for the field aliasWriter.

Parameters:

aliasWriter - a PsiXmlElementWriter object.

writeNames

protected void writeNames(InteractionEvidence object)
                   throws XMLStreamException

writeNames.

Overrides:

writeNames in class AbstractXmlInteractionWriter<InteractionEvidence,ParticipantEvidence>

Parameters:

object - a T object.

Throws:

XMLStreamException - if any.