Package psidev.psi.mi.jami.model.impl

Class DefaultNamedModelledParticipant

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.model.impl.DefaultNamedModelledParticipant

All Implemented Interfaces:

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

public class DefaultNamedModelledParticipant
extends DefaultModelledParticipant
implements NamedParticipant<ModelledInteraction,ModelledFeature>

Default implementation of Named modelled participant

Since:

13/11/13

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

Method Summary

Modifier and Type	Method	Description
String	getFullName()	Getter for the field fullName.
String	getShortName()	Getter for the field shortName.
void	setFullName(String fullName)	Sets the full name of the entity
void	setShortName(String shortName)	Sets the short name of an entity

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, toString

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

DefaultNamedModelledParticipant

public DefaultNamedModelledParticipant(Interactor interactor)

Constructor for DefaultNamedModelledParticipant.

Parameters:

interactor - a Interactor object.

DefaultNamedModelledParticipant

public DefaultNamedModelledParticipant(Interactor interactor,
                                       CvTerm bioRole)

Constructor for DefaultNamedModelledParticipant.

Parameters:

interactor - a Interactor object.

bioRole - a CvTerm object.

DefaultNamedModelledParticipant

public DefaultNamedModelledParticipant(Interactor interactor,
                                       Stoichiometry stoichiometry)

Constructor for DefaultNamedModelledParticipant.

Parameters:

interactor - a Interactor object.

stoichiometry - a Stoichiometry object.

DefaultNamedModelledParticipant

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

Constructor for DefaultNamedModelledParticipant.

Parameters:

interactor - a Interactor object.

bioRole - a CvTerm object.

stoichiometry - a Stoichiometry object.

Method Detail

getShortName

public String getShortName()

Getter for the field shortName.

Specified by:

getShortName in interface NamedParticipant<ModelledInteraction,ModelledFeature>

Returns:

a String object.

setShortName

public void setShortName(String shortName)

Sets the short name of an entity

Specified by:

setShortName in interface NamedParticipant<ModelledInteraction,ModelledFeature>

Parameters:

shortName - : short name

getFullName

public String getFullName()

Getter for the field fullName.

Specified by:

getFullName in interface NamedParticipant<ModelledInteraction,ModelledFeature>

Returns:

a String object.

setFullName

public void setFullName(String fullName)

Sets the full name of the entity

Specified by:

setFullName in interface NamedParticipant<ModelledInteraction,ModelledFeature>

Parameters:

fullName - : full name