Package psidev.psi.mi.jami.binary.expansion

Class ModelledInteractionMatrixExpansion

java.lang.Object

psidev.psi.mi.jami.binary.expansion.AbstractComplexExpansionMethod<T,B>

psidev.psi.mi.jami.binary.expansion.AbstractMatrixExpansion<ModelledInteraction,ModelledBinaryInteraction>

psidev.psi.mi.jami.binary.expansion.ModelledInteractionMatrixExpansion

All Implemented Interfaces:

ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction>

public class ModelledInteractionMatrixExpansion
extends AbstractMatrixExpansion<ModelledInteraction,ModelledBinaryInteraction>

Matrix expansion for ModelledInteraction

Since:

19/06/13

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Field Summary

Fields inherited from interface psidev.psi.mi.jami.binary.expansion.ComplexExpansionMethod

BIPARTITE, BIPARTITE_EXPANSION, BIPARTITE_EXPANSION_MI, MATRIX, MATRIX_EXPANSION, MATRIX_EXPANSION_MI, SPOKE, SPOKE_EXPANSION, SPOKE_EXPANSION_MI

Constructor Summary

Constructors

Constructor	Description
ModelledInteractionMatrixExpansion()

Method Summary

Modifier and Type	Method	Description
protected <P extends Participant> ModelledBinaryInteraction	createBinaryInteraction(ModelledInteraction interaction, P p1, P p2)	createBinaryInteraction
protected Collection<ModelledBinaryInteraction>	createBinaryInteractionWrappersFrom(ModelledInteraction interaction)	createBinaryInteractionWrappersFrom
protected Collection<ModelledBinaryInteraction>	createNewSelfBinaryInteractionsFrom(ModelledInteraction interaction)	createNewSelfBinaryInteractionsFrom
protected ModelledParticipant[]	createParticipantsArray(ModelledInteraction interaction)	createParticipantsArray
protected ComplexType	findInteractionCategory(ModelledInteraction interaction)	findInteractionCategory

Methods inherited from class psidev.psi.mi.jami.binary.expansion.AbstractMatrixExpansion

collectBinaryInteractionsFromNary

Methods inherited from class psidev.psi.mi.jami.binary.expansion.AbstractComplexExpansionMethod

expand, getBinaryInteractionFactory, getMethod, isInteractionExpandable, setBinaryInteractionFactory

Methods inherited from class java.lang.Object

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

Constructor Detail

ModelledInteractionMatrixExpansion

public ModelledInteractionMatrixExpansion()

Method Detail

createNewSelfBinaryInteractionsFrom

protected Collection<ModelledBinaryInteraction> createNewSelfBinaryInteractionsFrom(ModelledInteraction interaction)

createNewSelfBinaryInteractionsFrom

Overrides:

createNewSelfBinaryInteractionsFrom in class AbstractComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction>

Parameters:

interaction - : the self interaction to expand

Returns:

the collection of binary interaction generated from this self interaction

createBinaryInteractionWrappersFrom

protected Collection<ModelledBinaryInteraction> createBinaryInteractionWrappersFrom(ModelledInteraction interaction)

createBinaryInteractionWrappersFrom

Overrides:

createBinaryInteractionWrappersFrom in class AbstractComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction>

Parameters:

interaction - : the interaction with only two participants

Returns:

the collection of binary interaction wrappers generated from this interaction with two partcipants

findInteractionCategory

protected ComplexType findInteractionCategory(ModelledInteraction interaction)

findInteractionCategory

Overrides:

findInteractionCategory in class AbstractComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction>

Parameters:

interaction - : the interaction to expand

Returns:

the complexType that match this interaction and which will be used to expand

createBinaryInteraction

protected <P extends Participant> ModelledBinaryInteraction createBinaryInteraction(ModelledInteraction interaction,
                                                                                    P p1,
                                                                                    P p2)

createBinaryInteraction

Specified by:

createBinaryInteraction in class AbstractMatrixExpansion<ModelledInteraction,ModelledBinaryInteraction>

Type Parameters:

P - a P object.

Parameters:

interaction - : the interaction to expand

p1 - : participant A

p2 - : participant B

Returns:

the binary interaction

createParticipantsArray

protected ModelledParticipant[] createParticipantsArray(ModelledInteraction interaction)

createParticipantsArray

Specified by:

createParticipantsArray in class AbstractMatrixExpansion<ModelledInteraction,ModelledBinaryInteraction>

Parameters:

interaction - : the interaction to expand

Returns:

the array of participants involved in this interaction