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

Class MitabModelledParticipant

java.lang.Object

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

psidev.psi.mi.jami.model.impl.AbstractParticipant<ModelledInteraction,ModelledFeature>

psidev.psi.mi.jami.model.impl.DefaultModelledParticipant

psidev.psi.mi.jami.tab.extension.MitabModelledParticipant

All Implemented Interfaces:

FileSourceContext, Entity<ModelledFeature>, ModelledEntity, ModelledParticipant, Participant<ModelledInteraction,ModelledFeature>

public class MitabModelledParticipant
extends DefaultModelledParticipant
implements FileSourceContext

Mitab extension for ModelledParticipant 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
MitabModelledParticipant(Interactor interactor)	Constructor for MitabModelledParticipant.
MitabModelledParticipant(Interactor interactor, CvTerm bioRole)	Constructor for MitabModelledParticipant.
MitabModelledParticipant(Interactor interactor, CvTerm bioRole, Stoichiometry stoichiometry)	Constructor for MitabModelledParticipant.
MitabModelledParticipant(Interactor interactor, Stoichiometry stoichiometry)	Constructor for MitabModelledParticipant.

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

addAllFeatures, addFeature, getCausalRelationships, getChangeListener, getFeatures, getInteractor, getStoichiometry, removeAllFeatures, removeFeature, setChangeListener, setInteractor, setStoichiometry, setStoichiometry

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

getAliases, getAnnotations, getBiologicalEffect, getBiologicalRole, getInteraction, getXrefs, setBiologicalEffect, setBiologicalRole, setInteraction, setInteractionAndAddParticipant

Constructor Detail

MitabModelledParticipant

public MitabModelledParticipant(Interactor interactor)

Constructor for MitabModelledParticipant.

Parameters:

interactor - a Interactor object.

MitabModelledParticipant

public MitabModelledParticipant(Interactor interactor,
                                CvTerm bioRole)

Constructor for MitabModelledParticipant.

Parameters:

interactor - a Interactor object.

bioRole - a CvTerm object.

MitabModelledParticipant

public MitabModelledParticipant(Interactor interactor,
                                Stoichiometry stoichiometry)

Constructor for MitabModelledParticipant.

Parameters:

interactor - a Interactor object.

stoichiometry - a Stoichiometry object.

MitabModelledParticipant

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

Constructor for MitabModelledParticipant.

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<ModelledInteraction,ModelledFeature>

Returns:

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