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

Class AbstractXmlParticipantWriter

java.lang.Object

psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.AbstractXmlParticipantWriter<Participant,Feature>

psidev.psi.mi.jami.xml.io.writer.elements.impl.abstracts.xml25.AbstractXmlParticipantWriter

All Implemented Interfaces:

PsiXmlElementWriter<Participant>, PsiXmlParticipantWriter<Participant>

Direct Known Subclasses:

AbstractXmlNamedParticipantWriter, XmlParticipantWriter, XmlParticipantWriter

public abstract class AbstractXmlParticipantWriter
extends AbstractXmlParticipantWriter<Participant,Feature>

Xml 2.5 writer for participant

Since:

12/11/13

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Constructor Summary

Constructors

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

Method Summary

Modifier and Type	Method	Description
protected void	initialiseBiologicalRoleWriter()	initialiseBiologicalRoleWriter.
protected void	initialiseFeatureWriter()	initialiseFeatureWriter.
protected void	initialiseInteractorWriter()	initialiseInteractorWriter.
protected void	initialiseXrefWriter()	initialiseXrefWriter.
protected void	writeConfidences(Participant object)	writeConfidences.
protected void	writeExperimentalInteractor(Participant object)	writeExperimentalInteractor.
protected void	writeExperimentalPreparations(Participant object)	writeExperimentalPreparations.
protected void	writeExperimentalRoles(Participant object)	writeExperimentalRoles.
protected void	writeHostOrganisms(Participant object)	writeHostOrganisms.
protected void	writeOtherAttributes(Participant object, boolean writeAttributeList)	writeOtherAttributes.
protected void	writeParameters(Participant object)	writeParameters.
protected void	writeParticipantIdentificationMethods(Participant object, CvTerm method)	writeParticipantIdentificationMethods.
protected void	writeParticipantPool(ParticipantPool pool)	writeParticipantPool.
protected void	writeStoichiometry(Participant object)	writeStoichiometry.
protected void	writeStoichiometryAttribute(Stoichiometry stc)	writeStoichiometryAttribute.

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, writeMolecule, writeMoleculeDescription, writeMoleculeRef, writeNames, writeParticipant, writeXref, writeXrefFromParticipantXrefs

Methods inherited from class java.lang.Object

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

Constructor Detail

AbstractXmlParticipantWriter

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

Constructor for AbstractXmlParticipantWriter.

Parameters:

version - a PsiXmlVersion object.

writer - a XMLStreamWriter object.

objectIndex - a PsiXmlObjectCache object.

Method Detail

writeParticipantPool

protected void writeParticipantPool(ParticipantPool pool)
                             throws XMLStreamException

writeParticipantPool.

Specified by:

writeParticipantPool in class AbstractXmlParticipantWriter<Participant,Feature>

Parameters:

pool - a ParticipantPool object.

Throws:

XMLStreamException - if any.

initialiseXrefWriter

protected void initialiseXrefWriter()

initialiseXrefWriter.

Specified by:

initialiseXrefWriter in class AbstractXmlParticipantWriter<Participant,Feature>

initialiseFeatureWriter

protected void initialiseFeatureWriter()

initialiseFeatureWriter.

Specified by:

initialiseFeatureWriter in class AbstractXmlParticipantWriter<Participant,Feature>

initialiseBiologicalRoleWriter

protected void initialiseBiologicalRoleWriter()

initialiseBiologicalRoleWriter.

Specified by:

initialiseBiologicalRoleWriter in class AbstractXmlParticipantWriter<Participant,Feature>

initialiseInteractorWriter

protected void initialiseInteractorWriter()

initialiseInteractorWriter.

Specified by:

initialiseInteractorWriter in class AbstractXmlParticipantWriter<Participant,Feature>

writeStoichiometry

protected void writeStoichiometry(Participant object)

writeStoichiometry.

Specified by:

writeStoichiometry in class AbstractXmlParticipantWriter<Participant,Feature>

Parameters:

object - a P object.

writeOtherAttributes

protected void writeOtherAttributes(Participant object,
                                    boolean writeAttributeList)
                             throws XMLStreamException

writeOtherAttributes.

Specified by:

writeOtherAttributes in class AbstractXmlParticipantWriter<Participant,Feature>

Parameters:

object - a P object.

writeAttributeList - a boolean.

Throws:

XMLStreamException - if any.

writeStoichiometryAttribute

protected void writeStoichiometryAttribute(Stoichiometry stc)
                                    throws XMLStreamException

writeStoichiometryAttribute.

Parameters:

stc - a Stoichiometry object.

Throws:

XMLStreamException - if any.

writeExperimentalPreparations

protected void writeExperimentalPreparations(Participant object)

writeExperimentalPreparations.

Specified by:

writeExperimentalPreparations in class AbstractXmlParticipantWriter<Participant,Feature>

Parameters:

object - a P object.

writeExperimentalRoles

protected void writeExperimentalRoles(Participant object)

writeExperimentalRoles.

Specified by:

writeExperimentalRoles in class AbstractXmlParticipantWriter<Participant,Feature>

Parameters:

object - a P object.

writeParticipantIdentificationMethods

protected void writeParticipantIdentificationMethods(Participant object,
                                                     CvTerm method)

writeParticipantIdentificationMethods.

Specified by:

writeParticipantIdentificationMethods in class AbstractXmlParticipantWriter<Participant,Feature>

Parameters:

object - a P object.

method - a CvTerm object.

writeExperimentalInteractor

protected void writeExperimentalInteractor(Participant object)

writeExperimentalInteractor.

Specified by:

writeExperimentalInteractor in class AbstractXmlParticipantWriter<Participant,Feature>

Parameters:

object - a P object.

writeHostOrganisms

protected void writeHostOrganisms(Participant object)

writeHostOrganisms.

Specified by:

writeHostOrganisms in class AbstractXmlParticipantWriter<Participant,Feature>

Parameters:

object - a P object.

writeConfidences

protected void writeConfidences(Participant object)

writeConfidences.

Specified by:

writeConfidences in class AbstractXmlParticipantWriter<Participant,Feature>

Parameters:

object - a P object.

writeParameters

protected void writeParameters(Participant object)

writeParameters.

Specified by:

writeParameters in class AbstractXmlParticipantWriter<Participant,Feature>

Parameters:

object - a P object.