Package psidev.psi.mi.jami.tab.extension

Class MitabModelledBinaryInteraction

java.lang.Object

psidev.psi.mi.jami.model.impl.AbstractInteraction<T>

psidev.psi.mi.jami.binary.impl.AbstractBinaryInteraction<ModelledParticipant>

psidev.psi.mi.jami.binary.impl.DefaultModelledBinaryInteraction

psidev.psi.mi.jami.tab.extension.MitabModelledBinaryInteraction

All Implemented Interfaces:

BinaryInteraction<ModelledParticipant>, ModelledBinaryInteraction, FileSourceContext, Interaction<ModelledParticipant>, ModelledInteraction

public class MitabModelledBinaryInteraction
extends DefaultModelledBinaryInteraction
implements FileSourceContext

A MitabBinaryInteraction is a modelled binaryInteraction with a MitabSourceLocator

Since:

20/06/13

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Field Summary

Fields inherited from interface psidev.psi.mi.jami.model.ModelledInteraction

ECO, ECO_MI

Constructor Summary

Constructors

Constructor	Description
MitabModelledBinaryInteraction()	Constructor for MitabModelledBinaryInteraction.
MitabModelledBinaryInteraction(String shortName)	Constructor for MitabModelledBinaryInteraction.
MitabModelledBinaryInteraction(String shortName, CvTerm type)	Constructor for MitabModelledBinaryInteraction.
MitabModelledBinaryInteraction(String shortName, CvTerm type, CvTerm complexExpansion)	Constructor for MitabModelledBinaryInteraction.
MitabModelledBinaryInteraction(String shortName, CvTerm type, ModelledParticipant participantA, ModelledParticipant participantB)	Constructor for MitabModelledBinaryInteraction.
MitabModelledBinaryInteraction(String shortName, CvTerm type, ModelledParticipant participantA, ModelledParticipant participantB, CvTerm complexExpansion)	Constructor for MitabModelledBinaryInteraction.
MitabModelledBinaryInteraction(String shortName, ModelledParticipant participantA, ModelledParticipant participantB)	Constructor for MitabModelledBinaryInteraction.
MitabModelledBinaryInteraction(String shortName, ModelledParticipant participantA, ModelledParticipant participantB, CvTerm complexExpansion)	Constructor for MitabModelledBinaryInteraction.
MitabModelledBinaryInteraction(CvTerm complexExpansion)	Constructor for MitabModelledBinaryInteraction.
MitabModelledBinaryInteraction(ModelledParticipant participantA, ModelledParticipant participantB)	Constructor for MitabModelledBinaryInteraction.
MitabModelledBinaryInteraction(ModelledParticipant participantA, ModelledParticipant participantB, CvTerm complexExpansion)	Constructor for MitabModelledBinaryInteraction.

Method Summary

Modifier and Type	Method	Description
FileSourceLocator	getSourceLocator()	Getter for the field sourceLocator.
void	setSourceLocator(FileSourceLocator sourceLocator)	Sets the source locator
String	toString()

Methods inherited from class psidev.psi.mi.jami.binary.impl.DefaultModelledBinaryInteraction

getCooperativeEffects, getEvidenceType, getInteractionEvidences, getModelledConfidences, getModelledParameters, getSource, initialiseCooperativeEffects, initialiseCooperativeEffectsWith, initialiseInteractionEvidences, initialiseInteractionEvidencesWith, initialiseModelledConfidences, initialiseModelledConfidencesWith, initialiseModelledParameters, initialiseModelledParametersWith, setEvidenceType, setSource

Methods inherited from class psidev.psi.mi.jami.binary.impl.AbstractBinaryInteraction

addAllParticipants, addParticipant, getCausalRegulatoryMechanism, getComplexExpansion, getParticipantA, getParticipantB, getParticipants, removeAllParticipants, removeParticipant, setCausalRegulatoryMechanism, setComplexExpansion, setParticipantA, setParticipantB

Methods inherited from class psidev.psi.mi.jami.model.impl.AbstractInteraction

clearPropertiesLinkedToChecksums, getAnnotations, getChecksums, getCreatedDate, getIdentifiers, getInteractionType, getRigid, getShortName, getUpdatedDate, getXrefs, initialiseAnnotations, initialiseAnnotationsWith, initialiseChecksums, initialiseChecksumWith, initialiseIdentifiers, initialiseIdentifiersWith, initialiseParticipants, initialiseParticipantsWith, initialiseXrefs, initialiseXrefsWith, processAddedChecksumEvent, processRemovedChecksumEvent, setCreatedDate, setInteractionType, setRigid, setShortName, setUpdatedDate

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.binary.BinaryInteraction

getCausalRegulatoryMechanism, getComplexExpansion, getParticipantA, getParticipantB, setCausalRegulatoryMechanism, setComplexExpansion, setParticipantA, setParticipantB

Methods inherited from interface psidev.psi.mi.jami.model.Interaction

addAllParticipants, addParticipant, getAnnotations, getChecksums, getCreatedDate, getIdentifiers, getInteractionType, getParticipants, getRigid, getShortName, getUpdatedDate, getXrefs, removeAllParticipants, removeParticipant, setCreatedDate, setInteractionType, setRigid, setShortName, setUpdatedDate

Constructor Detail

MitabModelledBinaryInteraction

public MitabModelledBinaryInteraction()

Constructor for MitabModelledBinaryInteraction.

MitabModelledBinaryInteraction

public MitabModelledBinaryInteraction(String shortName)

Constructor for MitabModelledBinaryInteraction.

Parameters:

shortName - a String object.

MitabModelledBinaryInteraction

public MitabModelledBinaryInteraction(String shortName,
                                      CvTerm type)

Constructor for MitabModelledBinaryInteraction.

Parameters:

shortName - a String object.

type - a CvTerm object.

MitabModelledBinaryInteraction

public MitabModelledBinaryInteraction(ModelledParticipant participantA,
                                      ModelledParticipant participantB)

Constructor for MitabModelledBinaryInteraction.

Parameters:

participantA - a ModelledParticipant object.

participantB - a ModelledParticipant object.

MitabModelledBinaryInteraction

public MitabModelledBinaryInteraction(String shortName,
                                      ModelledParticipant participantA,
                                      ModelledParticipant participantB)

Constructor for MitabModelledBinaryInteraction.

Parameters:

shortName - a String object.

participantA - a ModelledParticipant object.

participantB - a ModelledParticipant object.

MitabModelledBinaryInteraction

public MitabModelledBinaryInteraction(String shortName,
                                      CvTerm type,
                                      ModelledParticipant participantA,
                                      ModelledParticipant participantB)

Constructor for MitabModelledBinaryInteraction.

Parameters:

shortName - a String object.

type - a CvTerm object.

participantA - a ModelledParticipant object.

participantB - a ModelledParticipant object.

MitabModelledBinaryInteraction

public MitabModelledBinaryInteraction(CvTerm complexExpansion)

Constructor for MitabModelledBinaryInteraction.

Parameters:

complexExpansion - a CvTerm object.

MitabModelledBinaryInteraction

public MitabModelledBinaryInteraction(String shortName,
                                      CvTerm type,
                                      CvTerm complexExpansion)

Constructor for MitabModelledBinaryInteraction.

Parameters:

shortName - a String object.

type - a CvTerm object.

complexExpansion - a CvTerm object.

MitabModelledBinaryInteraction

public MitabModelledBinaryInteraction(ModelledParticipant participantA,
                                      ModelledParticipant participantB,
                                      CvTerm complexExpansion)

Constructor for MitabModelledBinaryInteraction.

Parameters:

participantA - a ModelledParticipant object.

participantB - a ModelledParticipant object.

complexExpansion - a CvTerm object.

MitabModelledBinaryInteraction

public MitabModelledBinaryInteraction(String shortName,
                                      ModelledParticipant participantA,
                                      ModelledParticipant participantB,
                                      CvTerm complexExpansion)

Constructor for MitabModelledBinaryInteraction.

Parameters:

shortName - a String object.

participantA - a ModelledParticipant object.

participantB - a ModelledParticipant object.

complexExpansion - a CvTerm object.

MitabModelledBinaryInteraction

public MitabModelledBinaryInteraction(String shortName,
                                      CvTerm type,
                                      ModelledParticipant participantA,
                                      ModelledParticipant participantB,
                                      CvTerm complexExpansion)

Constructor for MitabModelledBinaryInteraction.

Parameters:

shortName - a String object.

type - a CvTerm object.

participantA - a ModelledParticipant object.

participantB - a ModelledParticipant object.

complexExpansion - a CvTerm object.

Method Detail

getSourceLocator

public FileSourceLocator getSourceLocator()

Getter for the field sourceLocator.

Specified by:

getSourceLocator in interface FileSourceContext

Returns:

a FileSourceLocator object.

setSourceLocator

public void setSourceLocator(FileSourceLocator sourceLocator)

Sets the source locator

Specified by:

setSourceLocator in interface FileSourceContext

Parameters:

sourceLocator - : the file locator

toString

public String toString()

Specified by:

toString in interface FileSourceContext

Overrides:

toString in class AbstractBinaryInteraction<ModelledParticipant>

Returns:

the file source context as a String. If the source locator is not null, it should give the source locator properties