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

Class XmlParticipantEvidenceWriter

java.lang.Object

psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter<ParticipantEvidence,FeatureEvidence>

psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantEvidenceWriter

psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlParticipantEvidenceWriter

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

All Implemented Interfaces:

ExpandedPsiXmlElementWriter<ParticipantEvidence>, PsiXmlElementWriter<ParticipantEvidence>, PsiXmlParticipantWriter<ParticipantEvidence>

public class XmlParticipantEvidenceWriter
extends AbstractXmlParticipantEvidenceWriter
implements ExpandedPsiXmlElementWriter<ParticipantEvidence>

Expanded XML 3.0 writer for an expanded participant evidence with full experimental details and having experimental interactors, list of host organisms and list of experimental roles.

Since:

14/11/13

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Constructor Summary

Constructors

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

Method Summary

Modifier and Type	Method	Description
ExpandedPsiXmlElementWriter<AbstractExperimentalInteractor>	getExperimentalInteractorWriter()	Getter for the field experimentalInteractorWriter.
protected void	initialiseFeatureWriter()	initialiseFeatureWriter.
protected void	initialiseParticipantCandidateWriter()	initialiseParticipantCandidateWriter.
void	setExperimentalInteractorWriter(ExpandedPsiXmlElementWriter<AbstractExperimentalInteractor> experimentalInteractorWriter)	Setter for the field experimentalInteractorWriter.
protected void	writeExperimentalInteractor(ParticipantEvidence object)	writeExperimentalInteractor.
protected void	writeExperimentalRoles(ParticipantEvidence object)	writeExperimentalRoles.
protected void	writeHostOrganisms(ParticipantEvidence object)	writeHostOrganisms.
protected void	writeMolecule(Interactor interactor)	writeMolecule.
protected void	writeNames(ParticipantEvidence object)	writeNames.

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

getParticipantCandidateWriter, getStoichiometryWriter, initialiseBiologicalRoleWriter, initialiseConfidenceWriter, initialiseCvWriter, initialiseHostOrganismWriter, initialiseInteractorWriter, initialiseParameterWriter, initialiseXrefWriter, setParticipantCandidateWriter, setStoichiometryWriter, writeOtherAttributes, writeParticipantPool, writeStoichiometry

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

getConfidenceWriter, getExperimentalCvWriter, getHostOrganismWriter, getParameterWriter, setConfidenceWriter, setExperimentalCvWriter, setHostOrganismWriter, setParameterWriter, writeConfidences, writeExperimentalPreparations, writeParameters, writeParticipantIdentificationMethods

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

getAliasWriter, getAttributeWriter, getBiologicalRoleWriter, getFeatureWriter, getInteractorWriter, getObjectIndex, getStreamWriter, getVersion, getXrefWriter, setAliasWriter, setAttributeWriter, setBiologicalRoleWriter, setComplexAsInteractor, setFeatureWriter, setInteractorWriter, setXrefWriter, write, writeAttributes, writeBiologicalRole, writeComplexAsInteractor, writeFeatures, writeInteractor, writeMoleculeDescription, writeMoleculeRef, writeParticipant, writeXref, writeXrefFromParticipantXrefs

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

XmlParticipantEvidenceWriter

public XmlParticipantEvidenceWriter(XMLStreamWriter writer,
                                    PsiXmlObjectCache objectIndex)

Constructor for XmlParticipantEvidenceWriter.

Parameters:

writer - a XMLStreamWriter object.

objectIndex - a PsiXmlObjectCache object.

Method Detail

initialiseFeatureWriter

protected void initialiseFeatureWriter()

initialiseFeatureWriter.

Overrides:

initialiseFeatureWriter in class AbstractXmlParticipantEvidenceWriter

initialiseParticipantCandidateWriter

protected void initialiseParticipantCandidateWriter()

initialiseParticipantCandidateWriter.

Specified by:

initialiseParticipantCandidateWriter in class AbstractXmlParticipantEvidenceWriter

getExperimentalInteractorWriter

public ExpandedPsiXmlElementWriter<AbstractExperimentalInteractor> getExperimentalInteractorWriter()

Getter for the field experimentalInteractorWriter.

Returns:

a ExpandedPsiXmlElementWriter object.

setExperimentalInteractorWriter

public void setExperimentalInteractorWriter(ExpandedPsiXmlElementWriter<AbstractExperimentalInteractor> experimentalInteractorWriter)

Setter for the field experimentalInteractorWriter.

Parameters:

experimentalInteractorWriter - a ExpandedPsiXmlElementWriter object.

writeMolecule

protected void writeMolecule(Interactor interactor)
                      throws XMLStreamException

writeMolecule.

Specified by:

writeMolecule in class AbstractXmlParticipantWriter<ParticipantEvidence,FeatureEvidence>

Parameters:

interactor - a Interactor object.

Throws:

XMLStreamException - if any.

writeExperimentalRoles

protected void writeExperimentalRoles(ParticipantEvidence object)
                               throws XMLStreamException

writeExperimentalRoles.

Overrides:

writeExperimentalRoles in class AbstractXmlParticipantEvidenceWriter

Parameters:

object - a P object.

Throws:

XMLStreamException - if any.

writeHostOrganisms

protected void writeHostOrganisms(ParticipantEvidence object)
                           throws XMLStreamException

writeHostOrganisms.

Overrides:

writeHostOrganisms in class AbstractXmlParticipantEvidenceWriter

Parameters:

object - a P object.

Throws:

XMLStreamException - if any.

writeExperimentalInteractor

protected void writeExperimentalInteractor(ParticipantEvidence object)
                                    throws XMLStreamException

writeExperimentalInteractor.

Overrides:

writeExperimentalInteractor in class AbstractXmlParticipantEvidenceWriter

Parameters:

object - a P object.

Throws:

XMLStreamException - if any.

writeNames

protected void writeNames(ParticipantEvidence object)
                   throws XMLStreamException

writeNames.

Overrides:

writeNames in class AbstractXmlParticipantWriter<ParticipantEvidence,FeatureEvidence>

Parameters:

object - a P object.

Throws:

XMLStreamException - if any.