Package psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25

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.xml25.AbstractXmlParticipantEvidenceWriter

psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlParticipantEvidenceWriter

psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedParticipantEvidenceWriter

psidev.psi.mi.jami.xml.io.writer.elements.impl.extended.compact.xml25.XmlParticipantEvidenceWriter

All Implemented Interfaces:

CompactPsiXmlElementWriter<ParticipantEvidence>, PsiXmlElementWriter<ParticipantEvidence>, PsiXmlParticipantWriter<ParticipantEvidence>

public class XmlParticipantEvidenceWriter
extends XmlNamedParticipantEvidenceWriter

Compact XML 2.5 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(PsiXmlVersion version, XMLStreamWriter writer, PsiXmlObjectCache objectIndex)	Constructor for XmlParticipantEvidenceWriter.

Method Summary

Modifier and Type	Method	Description
CompactPsiXmlElementWriter<AbstractExperimentalInteractor>	getExperimentalInteractorWriter()	Getter for the field experimentalInteractorWriter.
protected void	initialiseBiologicalRoleWriter()	initialiseBiologicalRoleWriter.
protected void	initialiseConfidenceWriter()	initialiseConfidenceWriter.
protected void	initialiseCvWriter()	initialiseCvWriter.
protected void	initialiseFeatureWriter()	initialiseFeatureWriter.
protected void	initialiseHostOrganismWriter()	initialiseHostOrganismWriter.
protected void	initialiseInteractorWriter()	initialiseInteractorWriter.
protected void	initialiseParameterWriter()	initialiseParameterWriter.
protected void	initialiseXrefWriter()	initialiseXrefWriter.
void	setExperimentalInteractorWriter(CompactPsiXmlElementWriter<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.

Methods inherited from class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlNamedParticipantEvidenceWriter

writeNames

Methods inherited from class psidev.psi.mi.jami.xml.io.writer.elements.impl.compact.xml25.XmlParticipantEvidenceWriter

writeMolecule

Methods inherited from class psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlParticipantEvidenceWriter

writeOtherAttributes, writeParticipantPool, writeStoichiometry, writeStoichiometryAttribute

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(PsiXmlVersion version,
                                    XMLStreamWriter writer,
                                    PsiXmlObjectCache objectIndex)

Constructor for XmlParticipantEvidenceWriter.

Parameters:

version - a PsiXmlVersion object.

writer - a XMLStreamWriter object.

objectIndex - a PsiXmlObjectCache object.

Method Detail

initialiseXrefWriter

protected void initialiseXrefWriter()

initialiseXrefWriter.

Overrides:

initialiseXrefWriter in class AbstractXmlParticipantEvidenceWriter

initialiseBiologicalRoleWriter

protected void initialiseBiologicalRoleWriter()

initialiseBiologicalRoleWriter.

Overrides:

initialiseBiologicalRoleWriter in class AbstractXmlParticipantEvidenceWriter

initialiseInteractorWriter

protected void initialiseInteractorWriter()

initialiseInteractorWriter.

Overrides:

initialiseInteractorWriter in class AbstractXmlParticipantEvidenceWriter

initialiseConfidenceWriter

protected void initialiseConfidenceWriter()

initialiseConfidenceWriter.

Overrides:

initialiseConfidenceWriter in class AbstractXmlParticipantEvidenceWriter

initialiseHostOrganismWriter

protected void initialiseHostOrganismWriter()

initialiseHostOrganismWriter.

Overrides:

initialiseHostOrganismWriter in class AbstractXmlParticipantEvidenceWriter

initialiseParameterWriter

protected void initialiseParameterWriter()

initialiseParameterWriter.

Overrides:

initialiseParameterWriter in class AbstractXmlParticipantEvidenceWriter

initialiseCvWriter

protected void initialiseCvWriter()

initialiseCvWriter.

Overrides:

initialiseCvWriter in class AbstractXmlParticipantEvidenceWriter

initialiseFeatureWriter

protected void initialiseFeatureWriter()

initialiseFeatureWriter.

Overrides:

initialiseFeatureWriter in class AbstractXmlParticipantEvidenceWriter

getExperimentalInteractorWriter

public CompactPsiXmlElementWriter<AbstractExperimentalInteractor> getExperimentalInteractorWriter()

Getter for the field experimentalInteractorWriter.

Returns:

a CompactPsiXmlElementWriter object.

setExperimentalInteractorWriter

public void setExperimentalInteractorWriter(CompactPsiXmlElementWriter<AbstractExperimentalInteractor> experimentalInteractorWriter)

Setter for the field experimentalInteractorWriter.

Parameters:

experimentalInteractorWriter - a CompactPsiXmlElementWriter object.

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.