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

Class AbstractXmlModelledParticipantWriter

java.lang.Object

psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter<ModelledParticipant,ModelledFeature>

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

All Implemented Interfaces:

PsiXmlElementWriter<ModelledParticipant>, PsiXmlParticipantWriter<ModelledParticipant>

Direct Known Subclasses:

AbstractXmlModelledParticipantWriter, AbstractXmlModelledParticipantWriter

public abstract class AbstractXmlModelledParticipantWriter
extends AbstractXmlParticipantWriter<ModelledParticipant,ModelledFeature>

abstract writer for a modelled participant. (ignore all experimental details)

Since:

14/11/13

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Constructor Summary

Constructors

Constructor	Description
AbstractXmlModelledParticipantWriter(PsiXmlVersion version, XMLStreamWriter writer, PsiXmlObjectCache objectIndex)	Constructor for AbstractXmlModelledParticipantWriter.

Method Summary

Modifier and Type	Method	Description
protected void	writeConfidences(ModelledParticipant object)	writeConfidences.
protected void	writeExperimentalInteractor(ModelledParticipant object)	writeExperimentalInteractor.
protected void	writeExperimentalPreparations(ModelledParticipant object)	writeExperimentalPreparations.
protected void	writeExperimentalRoles(ModelledParticipant object)	writeExperimentalRoles.
protected void	writeHostOrganisms(ModelledParticipant object)	writeHostOrganisms.
protected void	writeMolecule(Interactor interactor)	writeMolecule.
protected void	writeParameters(ModelledParticipant object)	writeParameters.
protected void	writeParticipantIdentificationMethods(ModelledParticipant object, CvTerm method)	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, initialiseBiologicalRoleWriter, initialiseFeatureWriter, initialiseInteractorWriter, initialiseXrefWriter, setAliasWriter, setAttributeWriter, setBiologicalRoleWriter, setComplexAsInteractor, setFeatureWriter, setInteractorWriter, setXrefWriter, write, writeAttributes, writeBiologicalRole, writeComplexAsInteractor, writeFeatures, writeInteractor, writeMoleculeDescription, writeMoleculeRef, writeNames, writeOtherAttributes, writeParticipant, writeParticipantPool, writeStoichiometry, writeXref, writeXrefFromParticipantXrefs

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

AbstractXmlModelledParticipantWriter

public AbstractXmlModelledParticipantWriter(PsiXmlVersion version,
                                            XMLStreamWriter writer,
                                            PsiXmlObjectCache objectIndex)

Constructor for AbstractXmlModelledParticipantWriter.

Parameters:

version - a PsiXmlVersion object.

writer - a XMLStreamWriter object.

objectIndex - a PsiXmlObjectCache object.

Method Detail

writeMolecule

protected void writeMolecule(Interactor interactor)
                      throws XMLStreamException

writeMolecule.

Specified by:

writeMolecule in class AbstractXmlParticipantWriter<ModelledParticipant,ModelledFeature>

Parameters:

interactor - a Interactor object.

Throws:

XMLStreamException - if any.

writeExperimentalPreparations

protected void writeExperimentalPreparations(ModelledParticipant object)

writeExperimentalPreparations.

Specified by:

writeExperimentalPreparations in class AbstractXmlParticipantWriter<ModelledParticipant,ModelledFeature>

Parameters:

object - a P object.

writeExperimentalRoles

protected void writeExperimentalRoles(ModelledParticipant object)

writeExperimentalRoles.

Specified by:

writeExperimentalRoles in class AbstractXmlParticipantWriter<ModelledParticipant,ModelledFeature>

Parameters:

object - a P object.

writeParticipantIdentificationMethods

protected void writeParticipantIdentificationMethods(ModelledParticipant object,
                                                     CvTerm method)

writeParticipantIdentificationMethods.

Specified by:

writeParticipantIdentificationMethods in class AbstractXmlParticipantWriter<ModelledParticipant,ModelledFeature>

Parameters:

object - a P object.

method - a CvTerm object.

writeExperimentalInteractor

protected void writeExperimentalInteractor(ModelledParticipant object)

writeExperimentalInteractor.

Specified by:

writeExperimentalInteractor in class AbstractXmlParticipantWriter<ModelledParticipant,ModelledFeature>

Parameters:

object - a P object.

writeHostOrganisms

protected void writeHostOrganisms(ModelledParticipant object)

writeHostOrganisms.

Specified by:

writeHostOrganisms in class AbstractXmlParticipantWriter<ModelledParticipant,ModelledFeature>

Parameters:

object - a P object.

writeConfidences

protected void writeConfidences(ModelledParticipant object)

writeConfidences.

Specified by:

writeConfidences in class AbstractXmlParticipantWriter<ModelledParticipant,ModelledFeature>

Parameters:

object - a P object.

writeParameters

protected void writeParameters(ModelledParticipant object)

writeParameters.

Specified by:

writeParameters in class AbstractXmlParticipantWriter<ModelledParticipant,ModelledFeature>

Parameters:

object - a P object.