Package psidev.psi.mi.jami.xml.model.extension.factory.xml25

Class XmlBinaryInteractionFactory

java.lang.Object

psidev.psi.mi.jami.xml.model.extension.factory.xml25.XmlBinaryInteractionFactory

All Implemented Interfaces:

BinaryInteractionFactory

public class XmlBinaryInteractionFactory
extends Object
implements BinaryInteractionFactory

Xml extension of BinaryInteractionFactory for XML 2.5

Since:

16/10/13

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Constructor Summary

Constructors

Constructor	Description
XmlBinaryInteractionFactory(PsiXmlVersion version)

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
XmlBinaryInteraction	instantiateNewBinaryInteraction()	Instantiate a new BinaryInteraction
AbstractXmlBinaryInteractionEvidence	instantiateNewBinaryInteractionEvidence()	Instantiate a new BinaryInteraction evidence
XmlModelledBinaryInteraction	instantiateNewModelledBinaryInteraction()	Instantiate a new modelled binary interaction

Methods inherited from class java.lang.Object

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

Constructor Detail

XmlBinaryInteractionFactory

public XmlBinaryInteractionFactory(PsiXmlVersion version)

Method Detail

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

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

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

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

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 XmlBinaryInteraction instantiateNewBinaryInteraction()

Instantiate a new BinaryInteraction

Specified by:

instantiateNewBinaryInteraction in interface BinaryInteractionFactory

Returns:

the binary interaction instance

instantiateNewBinaryInteractionEvidence

public AbstractXmlBinaryInteractionEvidence instantiateNewBinaryInteractionEvidence()

Instantiate a new BinaryInteraction evidence

Specified by:

instantiateNewBinaryInteractionEvidence in interface BinaryInteractionFactory

Returns:

the binary interaction instance

instantiateNewModelledBinaryInteraction

public XmlModelledBinaryInteraction instantiateNewModelledBinaryInteraction()

Instantiate a new modelled binary interaction

Specified by:

instantiateNewModelledBinaryInteraction in interface BinaryInteractionFactory

Returns:

the binary interaction instance