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

Class AbstractEntity<F extends Feature>

java.lang.Object

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

All Implemented Interfaces:

Entity<F>

Direct Known Subclasses:

AbstractParticipant, AbstractParticipantCandidate

public abstract class AbstractEntity<F extends Feature>
extends Object
implements Entity<F>

Abstract class for Entity

Since:

09/07/13

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Constructor Summary

Constructors

Constructor	Description
AbstractEntity(Interactor interactor)	Constructor for AbstractEntity.
AbstractEntity(Interactor interactor, Stoichiometry stoichiometry)	Constructor for AbstractEntity.

Method Summary

Modifier and Type	Method	Description
boolean	addAllFeatures(Collection<? extends F> features)	This method will add all features and set the entity of the new features to this current entity
boolean	addFeature(F feature)	addFeature
Collection<CausalRelationship>	getCausalRelationships()	Getter for the field causalRelationships.
EntityInteractorChangeListener	getChangeListener()	Getter for the field changeListener.
Collection<F>	getFeatures()	Getter for the field features.
Interactor	getInteractor()	Getter for the field interactor.
Stoichiometry	getStoichiometry()	Getter for the field stoichiometry.
protected void	initialiseCausalRelationships()	initialiseCausalRelationships
protected void	initialiseCausalRelationshipsWith(Collection<CausalRelationship> relationships)	initialiseCausalRelationshipsWith
protected void	initialiseFeatures()	initialiseFeatures
protected void	initialiseFeaturesWith(Collection<F> features)	initialiseFeaturesWith
boolean	removeAllFeatures(Collection<? extends F> features)	This method will remove all the features and set the entity of the removed features to null.
boolean	removeFeature(F feature)	removeFeature
void	setChangeListener(EntityInteractorChangeListener listener)	Sets the entity change listener
void	setInteractor(Interactor interactor)	Sets the interactor
void	setStoichiometry(Integer stoichiometry)	Sets the mean stoichiometry for this participant.
void	setStoichiometry(Stoichiometry stoichiometry)	Setter for the field stoichiometry.
String	toString()

Methods inherited from class java.lang.Object

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

Constructor Detail

AbstractEntity

public AbstractEntity(Interactor interactor)

Constructor for AbstractEntity.

Parameters:

interactor - a Interactor object.

AbstractEntity

public AbstractEntity(Interactor interactor,
                      Stoichiometry stoichiometry)

Constructor for AbstractEntity.

Parameters:

interactor - a Interactor object.

stoichiometry - a Stoichiometry object.

Method Detail

initialiseFeatures

protected void initialiseFeatures()

initialiseFeatures

initialiseCausalRelationships

protected void initialiseCausalRelationships()

initialiseCausalRelationships

initialiseCausalRelationshipsWith

protected void initialiseCausalRelationshipsWith(Collection<CausalRelationship> relationships)

initialiseCausalRelationshipsWith

Parameters:

relationships - a Collection object.

initialiseFeaturesWith

protected void initialiseFeaturesWith(Collection<F> features)

initialiseFeaturesWith

Parameters:

features - a Collection object.

getInteractor

public Interactor getInteractor()

Getter for the field interactor.

Specified by:

getInteractor in interface Entity<F extends Feature>

Returns:

a Interactor object.

setInteractor

public void setInteractor(Interactor interactor)

Sets the interactor

Specified by:

setInteractor in interface Entity<F extends Feature>

Parameters:

interactor - : interactor

getCausalRelationships

public Collection<CausalRelationship> getCausalRelationships()

Getter for the field causalRelationships.

Specified by:

getCausalRelationships in interface Entity<F extends Feature>

Returns:

a Collection object.

getStoichiometry

public Stoichiometry getStoichiometry()

Getter for the field stoichiometry.

Specified by:

getStoichiometry in interface Entity<F extends Feature>

Returns:

a Stoichiometry object.

setStoichiometry

public void setStoichiometry(Integer stoichiometry)

Sets the mean stoichiometry for this participant.

Specified by:

setStoichiometry in interface Entity<F extends Feature>

Parameters:

stoichiometry - : mean stoichiometry value

setStoichiometry

public void setStoichiometry(Stoichiometry stoichiometry)

Setter for the field stoichiometry.

Specified by:

setStoichiometry in interface Entity<F extends Feature>

Parameters:

stoichiometry - a Stoichiometry object.

getFeatures

public Collection<F> getFeatures()

Getter for the field features.

Specified by:

getFeatures in interface Entity<F extends Feature>

Returns:

a Collection object.

getChangeListener

public EntityInteractorChangeListener getChangeListener()

Getter for the field changeListener.

Specified by:

getChangeListener in interface Entity<F extends Feature>

Returns:

a EntityInteractorChangeListener object.

setChangeListener

public void setChangeListener(EntityInteractorChangeListener listener)

Sets the entity change listener

Specified by:

setChangeListener in interface Entity<F extends Feature>

Parameters:

listener - : the entity change listener

addFeature

public boolean addFeature(F feature)

addFeature

Specified by:

addFeature in interface Entity<F extends Feature>

Parameters:

feature - a F object.

Returns:

a boolean.

removeFeature

public boolean removeFeature(F feature)

removeFeature

Specified by:

removeFeature in interface Entity<F extends Feature>

Parameters:

feature - a F object.

Returns:

a boolean.

addAllFeatures

public boolean addAllFeatures(Collection<? extends F> features)

This method will add all features and set the entity of the new features to this current entity

Specified by:

addAllFeatures in interface Entity<F extends Feature>

Parameters:

features - : features to add

Returns:

true if features are added to the list of features

removeAllFeatures

public boolean removeAllFeatures(Collection<? extends F> features)

This method will remove all the features and set the entity of the removed features to null.

Specified by:

removeAllFeatures in interface Entity<F extends Feature>

Parameters:

features - : features to remove

Returns:

true if features are removed from the list of features

toString

public String toString()

Overrides:

toString in class Object