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

Class XmlNamedModelledBinaryInteractionWriter

java.lang.Object

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

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

psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml30.AbstractXmlModelledInteractionWriter<ModelledBinaryInteraction>

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

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

All Implemented Interfaces:

ExpandedPsiXmlElementWriter<ModelledBinaryInteraction>, PsiXmlElementWriter<ModelledBinaryInteraction>, PsiXmlInteractionWriter<ModelledBinaryInteraction>

public class XmlNamedModelledBinaryInteractionWriter
extends XmlModelledBinaryInteractionWriter

Expanded XML 3.0 writer for a binary modelled interaction (ignore experimental details) which have a fullname and aliases in addition to the shortname. It will write cooperative effects as attributes

Since:

18/11/13

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Constructor Summary

Constructors

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

Method Summary

Modifier and Type	Method	Description
protected void	initialiseExperimentWriter()	initialiseExperimentWriter.
protected void	initialiseParticipantWriter()	initialiseParticipantWriter.

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

writeAttributes, writeExperiments, writeOtherProperties

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

getAllosteryWriter, getBindingFeaturesWriter, getCausalRelationshipWriter, getOrganismWriter, getPreAssemblyWriter, initialiseCausalRelationshipWriter, initialiseConfidenceWriter, initialiseInferredInteractionWriter, initialiseInteractionTypeWriter, initialiseParameterWriter, initialiseXrefWriter, setAllosteryWriter, setBindingFeaturesWriter, setCausalRelationshipWriter, setOrganismWriter, setPreAssemblyWriter, writeCausalRelationships, writeCooperativeEffect, writeCooperativeEffects, writeEvidenceType, writeExperimentDescription, writeExperimentRef, writeInferredInteractions, writeInteractorType, writeOrganism, writeStartInteraction

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

getAliasWriter, getConfidenceWriter, getParameterWriter, initialiseDefaultExperiment, setAliasWriter, setConfidenceWriter, setDefaultExperiment, setParameterWriter, writeAvailability, writeConfidences, writeModelled, writeNames, writeNegative, writeOtherAttributes, writeParameters

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

collectInferredInteractionsFrom, extractDefaultExperimentFrom, 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, 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

XmlNamedModelledBinaryInteractionWriter

public XmlNamedModelledBinaryInteractionWriter(XMLStreamWriter writer,
                                               PsiXmlObjectCache objectIndex)

Constructor for XmlNamedModelledBinaryInteractionWriter.

Parameters:

writer - a XMLStreamWriter object.

objectIndex - a PsiXmlObjectCache object.

Method Detail

initialiseExperimentWriter

protected void initialiseExperimentWriter()

initialiseExperimentWriter.

Overrides:

initialiseExperimentWriter in class AbstractXmlModelledInteractionWriter<ModelledBinaryInteraction>

initialiseParticipantWriter

protected void initialiseParticipantWriter()

initialiseParticipantWriter.

Overrides:

initialiseParticipantWriter in class XmlModelledBinaryInteractionWriter