Package psidev.psi.mi.jami.factory

Class DefaultBinaryInteractionFactory

java.lang.Object

psidev.psi.mi.jami.factory.DefaultBinaryInteractionFactory

All Implemented Interfaces:

BinaryInteractionFactory

public class DefaultBinaryInteractionFactory
extends Object
implements BinaryInteractionFactory

A factory to create default BinaryInteractions

Since:

16/10/13

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Constructor Summary

Constructors

Constructor	Description
DefaultBinaryInteractionFactory()

Method Summary

Modifier and Type	Method	Description
BinaryInteraction	createBasicBinaryInteractionFrom(Interaction interaction, Participant p1, Participant p2, CvTerm expansionMethod)	Create a new BinaryInteraction object from an Interaction parent and two participants
BinaryInteractionEvidence	createBinaryInteractionEvidenceFrom(InteractionEvidence interaction, ParticipantEvidence p1, ParticipantEvidence p2, CvTerm expansionMethod)	Create a new BinaryInteractionEvidence object from an InteractionEvidence parent and two participants evidences
BinaryInteractionEvidence	createBinaryInteractionEvidenceWrapperFrom(InteractionEvidence interaction)	Creates a BinaryInteractionEvidence that wraps the given interaction
BinaryInteraction	createBinaryInteractionWrapperFrom(Interaction interaction)	Creates a BinaryInteraction that wraps the given interaction
ModelledBinaryInteraction	createModelledBinaryInteractionFrom(ModelledInteraction interaction, ModelledParticipant p1, ModelledParticipant p2, CvTerm expansionMethod)	Create a new ModelledBinaryInteraction object from a ModelledInteraction parent and two modelled participants
ModelledBinaryInteraction	createModelledBinaryInteractionWrapperFrom(ModelledInteraction interaction)	Creates a ModelledBinaryInteraction that wraps the given interaction
BinaryInteractionEvidence	createSelfBinaryInteractionEvidenceFrom(InteractionEvidence interaction)	Creates a BinaryInteractionEvidence representing a self interaction
BinaryInteraction	createSelfBinaryInteractionFrom(Interaction interaction)	Create a binary interaction representing a self interaction
ModelledBinaryInteraction	createSelfModelledBinaryInteractionFrom(ModelledInteraction interaction)	Creates a ModelledInteraction representing a self interaction
BinaryInteraction	instantiateNewBinaryInteraction()	instantiateNewBinaryInteraction
BinaryInteractionEvidence	instantiateNewBinaryInteractionEvidence()	instantiateNewBinaryInteractionEvidence
ModelledBinaryInteraction	instantiateNewModelledBinaryInteraction()	instantiateNewModelledBinaryInteraction

Methods inherited from class java.lang.Object

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

Constructor Detail

DefaultBinaryInteractionFactory

public DefaultBinaryInteractionFactory()

Method Detail

createBasicBinaryInteractionFrom

public BinaryInteraction createBasicBinaryInteractionFrom(Interaction interaction,
                                                          Participant p1,
                                                          Participant p2,
                                                          CvTerm expansionMethod)

Create a new BinaryInteraction object from an Interaction parent and two participants

Specified by:

createBasicBinaryInteractionFrom in interface BinaryInteractionFactory

Parameters:

interaction - : the original interaction

p1 - : the first participant

p2 - : the second participant

expansionMethod - a CvTerm object.

Returns:

the new BinaryInteraction object

createBinaryInteractionEvidenceFrom

public BinaryInteractionEvidence createBinaryInteractionEvidenceFrom(InteractionEvidence interaction,
                                                                     ParticipantEvidence p1,
                                                                     ParticipantEvidence p2,
                                                                     CvTerm expansionMethod)

Create a new BinaryInteractionEvidence object from an InteractionEvidence parent and two participants evidences

Specified by:

createBinaryInteractionEvidenceFrom in interface BinaryInteractionFactory

Parameters:

interaction - : the original interaction

p1 - : the first participant

p2 - : the second participant

expansionMethod - : the expansion method

Returns:

the new BinaryInteractionEvidence object

createModelledBinaryInteractionFrom

public ModelledBinaryInteraction createModelledBinaryInteractionFrom(ModelledInteraction interaction,
                                                                     ModelledParticipant p1,
                                                                     ModelledParticipant p2,
                                                                     CvTerm expansionMethod)

Create a new ModelledBinaryInteraction object from a ModelledInteraction parent and two modelled participants

Specified by:

createModelledBinaryInteractionFrom in interface BinaryInteractionFactory

Parameters:

interaction - : the original interaction

p1 - : the first participant

p2 - : the second participant

expansionMethod - : the expansion method

Returns:

the new ModelledBinaryInteraction object

createSelfBinaryInteractionFrom

public BinaryInteraction createSelfBinaryInteractionFrom(Interaction interaction)

Create a binary interaction representing a self interaction

Specified by:

createSelfBinaryInteractionFrom in interface BinaryInteractionFactory

Parameters:

interaction - : the original interaction

Returns:

the resulting self binary interaction

createSelfBinaryInteractionEvidenceFrom

public BinaryInteractionEvidence createSelfBinaryInteractionEvidenceFrom(InteractionEvidence interaction)

Creates a BinaryInteractionEvidence representing a self interaction

Specified by:

createSelfBinaryInteractionEvidenceFrom in interface BinaryInteractionFactory

Parameters:

interaction - : the original interaction

Returns:

the resulting self binary interaction

createSelfModelledBinaryInteractionFrom

public ModelledBinaryInteraction createSelfModelledBinaryInteractionFrom(ModelledInteraction interaction)

Creates a ModelledInteraction representing a self interaction

Specified by:

createSelfModelledBinaryInteractionFrom in interface BinaryInteractionFactory

Parameters:

interaction - : the original interaction

Returns:

the resulting self binary interaction

createBinaryInteractionWrapperFrom

public BinaryInteraction createBinaryInteractionWrapperFrom(Interaction interaction)

Creates a BinaryInteraction that wraps the given interaction

Specified by:

createBinaryInteractionWrapperFrom in interface BinaryInteractionFactory

Parameters:

interaction - : the original interaction

Returns:

the resulting binary interaction wrapper

createBinaryInteractionEvidenceWrapperFrom

public BinaryInteractionEvidence createBinaryInteractionEvidenceWrapperFrom(InteractionEvidence interaction)

Creates a BinaryInteractionEvidence that wraps the given interaction

Specified by:

createBinaryInteractionEvidenceWrapperFrom in interface BinaryInteractionFactory

Parameters:

interaction - : the original interaction

Returns:

the resulting binary interaction wrapper

createModelledBinaryInteractionWrapperFrom

public ModelledBinaryInteraction createModelledBinaryInteractionWrapperFrom(ModelledInteraction interaction)

Creates a ModelledBinaryInteraction that wraps the given interaction

Specified by:

createModelledBinaryInteractionWrapperFrom in interface BinaryInteractionFactory

Parameters:

interaction - : the original interaction

Returns:

the resulting binary interaction wrapper

instantiateNewBinaryInteraction

public BinaryInteraction instantiateNewBinaryInteraction()

instantiateNewBinaryInteraction

Specified by:

instantiateNewBinaryInteraction in interface BinaryInteractionFactory

Returns:

a BinaryInteraction object.

instantiateNewBinaryInteractionEvidence

public BinaryInteractionEvidence instantiateNewBinaryInteractionEvidence()

instantiateNewBinaryInteractionEvidence

Specified by:

instantiateNewBinaryInteractionEvidence in interface BinaryInteractionFactory

Returns:

a BinaryInteractionEvidence object.

instantiateNewModelledBinaryInteraction

public ModelledBinaryInteraction instantiateNewModelledBinaryInteraction()

instantiateNewModelledBinaryInteraction

Specified by:

instantiateNewModelledBinaryInteraction in interface BinaryInteractionFactory

Returns:

a ModelledBinaryInteraction object.