Package psidev.psi.mi.jami.tab.extension

Class MitabParticipant

java.lang.Object

psidev.psi.mi.jami.model.impl.AbstractEntity<F>

psidev.psi.mi.jami.model.impl.AbstractParticipant<Interaction,Feature>

psidev.psi.mi.jami.model.impl.DefaultParticipant

psidev.psi.mi.jami.tab.extension.MitabParticipant

All Implemented Interfaces:

FileSourceContext, Entity<Feature>, Participant<Interaction,Feature>

public class MitabParticipant
extends DefaultParticipant
implements FileSourceContext

Mitab extension for Participant. It contains a FileSourceLocator

Since:

11/06/13

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Field Summary

Fields inherited from interface psidev.psi.mi.jami.model.Participant

ACCEPTOR_ROLE, ACCEPTOR_ROLE_MI, BAIT_ROLE, BAIT_ROLE_MI, DONOR_ROLE, DONOR_ROLE_MI, ELECTRON_ACCEPTOR_ROLE, ELECTRON_ACCEPTOR_ROLE_MI, ELECTRON_DONOR_ROLE, ELECTRON_DONOR_ROLE_MI, ENZYME_REGULATOR_ROLE, ENZYME_REGULATOR_ROLE_MI, ENZYME_ROLE, ENZYME_ROLE_MI, ENZYME_TARGET_ROLE, ENZYME_TARGET_ROLE_MI, FLUORESCENCE_ACCEPTOR_ROLE, FLUORESCENCE_ACCEPTOR_ROLE_MI, FLUORESCENCE_DONOR_ROLE, FLUORESCENCE_DONOR_ROLE_MI, INHIBITED, INHIBITED_MI, INHIBITOR, INHIBITOR_MI, NEUTRAL, NEUTRAL_MI, PHOSPHATE_ACCEPTOR_ROLE, PHOSPHATE_ACCEPTOR_ROLE_MI, PHOSPHATE_DONOR_ROLE, PHOSPHATE_DONOR_ROLE_MI, PHOTON_ACCEPTOR_ROLE, PHOTON_ACCEPTOR_ROLE_MI, PHOTON_DONOR_ROLE, PHOTON_DONOR_ROLE_MI, PREDETERMINED, PREDETERMINED_MI, PREY, PREY_MI, PUTATIVE_SELF_ROLE, PUTATIVE_SELF_ROLE_MI, SELF_ROLE, SELF_ROLE_MI, SUPPRESSED_GENE_ROLE, SUPPRESSED_GENE_ROLE_MI, SUPPRESSOR_GENE_ROLE, SUPPRESSOR_GENE_ROLE_MI, UNSPECIFIED_ROLE, UNSPECIFIED_ROLE_MI

Constructor Summary

Constructors

Constructor	Description
MitabParticipant(Interactor interactor)	Constructor for MitabParticipant.
MitabParticipant(Interactor interactor, CvTerm bioRole)	Constructor for MitabParticipant.
MitabParticipant(Interactor interactor, CvTerm bioRole, Stoichiometry stoichiometry)	Constructor for MitabParticipant.
MitabParticipant(Interactor interactor, Stoichiometry stoichiometry)	Constructor for MitabParticipant.

Method Summary

Modifier and Type	Method	Description
FileSourceLocator	getSourceLocator()	Getter for the field sourceLocator.
void	setSourceLocator(FileSourceLocator sourceLocator)	Sets the source locator
String	toString()

Methods inherited from class psidev.psi.mi.jami.model.impl.AbstractParticipant

addAllFeatures, addFeature, getAliases, getAnnotations, getBiologicalEffect, getBiologicalRole, getInteraction, getXrefs, initialiseAliases, initialiseAliasesWith, initialiseAnnotations, initialiseAnnotationsWith, initialiseXrefs, initialiseXrefsWith, removeAllFeatures, removeFeature, setBiologicalEffect, setBiologicalRole, setInteraction, setInteractionAndAddParticipant

Methods inherited from class psidev.psi.mi.jami.model.impl.AbstractEntity

getCausalRelationships, getChangeListener, getFeatures, getInteractor, getStoichiometry, initialiseCausalRelationships, initialiseCausalRelationshipsWith, initialiseFeatures, initialiseFeaturesWith, setChangeListener, setInteractor, setStoichiometry, setStoichiometry

Methods inherited from class java.lang.Object

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

Methods inherited from interface psidev.psi.mi.jami.model.Entity

getCausalRelationships, getChangeListener, getFeatures, getInteractor, getStoichiometry, setChangeListener, setInteractor, setStoichiometry, setStoichiometry

Constructor Detail

MitabParticipant

public MitabParticipant(Interactor interactor)

Constructor for MitabParticipant.

Parameters:

interactor - a Interactor object.

MitabParticipant

public MitabParticipant(Interactor interactor,
                        CvTerm bioRole)

Constructor for MitabParticipant.

Parameters:

interactor - a Interactor object.

bioRole - a CvTerm object.

MitabParticipant

public MitabParticipant(Interactor interactor,
                        Stoichiometry stoichiometry)

Constructor for MitabParticipant.

Parameters:

interactor - a Interactor object.

stoichiometry - a Stoichiometry object.

MitabParticipant

public MitabParticipant(Interactor interactor,
                        CvTerm bioRole,
                        Stoichiometry stoichiometry)

Constructor for MitabParticipant.

Parameters:

interactor - a Interactor object.

bioRole - a CvTerm object.

stoichiometry - a Stoichiometry object.

Method Detail

getSourceLocator

public FileSourceLocator getSourceLocator()

Getter for the field sourceLocator.

Specified by:

getSourceLocator in interface FileSourceContext

Returns:

a FileSourceLocator object.

setSourceLocator

public void setSourceLocator(FileSourceLocator sourceLocator)

Sets the source locator

Specified by:

setSourceLocator in interface FileSourceContext

Parameters:

sourceLocator - : the file locator

toString

public String toString()

Specified by:

toString in interface FileSourceContext

Overrides:

toString in class AbstractParticipant<Interaction,Feature>

Returns:

the file source context as a String. If the source locator is not null, it should give the source locator properties