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

Class XmlNamedBinaryInteractionEvidenceWriter

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<BinaryInteractionEvidence>

psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlBinaryInteractionEvidenceWriter

psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlNamedBinaryInteractionEvidenceWriter

All Implemented Interfaces:

CompactPsiXmlElementWriter<BinaryInteractionEvidence>, PsiXmlElementWriter<BinaryInteractionEvidence>, PsiXmlInteractionWriter<BinaryInteractionEvidence>

public class XmlNamedBinaryInteractionEvidenceWriter
extends XmlBinaryInteractionEvidenceWriter

Compact XML 3.0 writer for a named binary 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
XmlNamedBinaryInteractionEvidenceWriter(XMLStreamWriter writer, PsiXmlObjectCache objectIndex)	Constructor for XmlNamedBinaryInteractionEvidenceWriter.

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(BinaryInteractionEvidence object)	writeNames.

Methods inherited from class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml30.XmlBinaryInteractionEvidenceWriter

writeAttributes, 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, 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

XmlNamedBinaryInteractionEvidenceWriter

public XmlNamedBinaryInteractionEvidenceWriter(XMLStreamWriter writer,
                                               PsiXmlObjectCache objectIndex)

Constructor for XmlNamedBinaryInteractionEvidenceWriter.

Parameters:

writer - a XMLStreamWriter object.

objectIndex - a PsiXmlObjectCache object.

Method Detail

initialiseParticipantWriter

protected void initialiseParticipantWriter()

initialiseParticipantWriter.

Overrides:

initialiseParticipantWriter in class XmlBinaryInteractionEvidenceWriter

initialiseExperimentWriter

protected void initialiseExperimentWriter()

initialiseExperimentWriter.

Overrides:

initialiseExperimentWriter in class AbstractXmlInteractionEvidenceWriter<BinaryInteractionEvidence>

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(BinaryInteractionEvidence object)
                   throws XMLStreamException

writeNames.

Overrides:

writeNames in class AbstractXmlInteractionWriter<BinaryInteractionEvidence,ParticipantEvidence>

Parameters:

object - a T object.

Throws:

XMLStreamException - if any.