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

Class MitabBinaryInteractionEvidence

java.lang.Object

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

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

psidev.psi.mi.jami.binary.impl.DefaultBinaryInteractionEvidence

psidev.psi.mi.jami.tab.extension.MitabBinaryInteractionEvidence

All Implemented Interfaces:

BinaryInteraction<ParticipantEvidence>, BinaryInteractionEvidence, FileSourceContext, Interaction<ParticipantEvidence>, InteractionEvidence

public class MitabBinaryInteractionEvidence
extends DefaultBinaryInteractionEvidence
implements FileSourceContext

TODO comment this

Since:

20/06/13

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Constructor Summary

Constructors

Constructor	Description
MitabBinaryInteractionEvidence()	Constructor for MitabBinaryInteractionEvidence.
MitabBinaryInteractionEvidence(String shortName)	Constructor for MitabBinaryInteractionEvidence.
MitabBinaryInteractionEvidence(String shortName, CvTerm type)	Constructor for MitabBinaryInteractionEvidence.
MitabBinaryInteractionEvidence(String shortName, CvTerm type, CvTerm complexExpansion)	Constructor for MitabBinaryInteractionEvidence.
MitabBinaryInteractionEvidence(String shortName, CvTerm type, ParticipantEvidence participantA, ParticipantEvidence participantB)	Constructor for MitabBinaryInteractionEvidence.
MitabBinaryInteractionEvidence(String shortName, CvTerm type, ParticipantEvidence participantA, ParticipantEvidence participantB, CvTerm complexExpansion)	Constructor for MitabBinaryInteractionEvidence.
MitabBinaryInteractionEvidence(String shortName, ParticipantEvidence participantA, ParticipantEvidence participantB)	Constructor for MitabBinaryInteractionEvidence.
MitabBinaryInteractionEvidence(String shortName, ParticipantEvidence participantA, ParticipantEvidence participantB, CvTerm complexExpansion)	Constructor for MitabBinaryInteractionEvidence.
MitabBinaryInteractionEvidence(CvTerm complexExpansion)	Constructor for MitabBinaryInteractionEvidence.
MitabBinaryInteractionEvidence(ParticipantEvidence participantA, ParticipantEvidence participantB)	Constructor for MitabBinaryInteractionEvidence.
MitabBinaryInteractionEvidence(ParticipantEvidence participantA, ParticipantEvidence participantB, CvTerm complexExpansion)	Constructor for MitabBinaryInteractionEvidence.

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.DefaultBinaryInteractionEvidence

assignImexId, clearPropertiesLinkedToXrefs, getAvailability, getConfidences, getExperiment, getImexId, getParameters, getVariableParameterValues, initialiseExperimentalConfidences, initialiseExperimentalConfidencesWith, initialiseExperimentalParameters, initialiseExperimentalParametersWith, initialiseVariableParameterValueSets, initialiseVariableParameterValueSetsWith, initialiseXrefs, isInferred, isNegative, processAddedXrefEvent, processRemovedXrefEvent, setAvailability, setExperiment, setExperimentAndAddInteractionEvidence, setInferred, setNegative

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, 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

MitabBinaryInteractionEvidence

public MitabBinaryInteractionEvidence()

Constructor for MitabBinaryInteractionEvidence.

MitabBinaryInteractionEvidence

public MitabBinaryInteractionEvidence(String shortName)

Constructor for MitabBinaryInteractionEvidence.

Parameters:

shortName - a String object.

MitabBinaryInteractionEvidence

public MitabBinaryInteractionEvidence(String shortName,
                                      CvTerm type)

Constructor for MitabBinaryInteractionEvidence.

Parameters:

shortName - a String object.

type - a CvTerm object.

MitabBinaryInteractionEvidence

public MitabBinaryInteractionEvidence(ParticipantEvidence participantA,
                                      ParticipantEvidence participantB)

Constructor for MitabBinaryInteractionEvidence.

Parameters:

participantA - a ParticipantEvidence object.

participantB - a ParticipantEvidence object.

MitabBinaryInteractionEvidence

public MitabBinaryInteractionEvidence(String shortName,
                                      ParticipantEvidence participantA,
                                      ParticipantEvidence participantB)

Constructor for MitabBinaryInteractionEvidence.

Parameters:

shortName - a String object.

participantA - a ParticipantEvidence object.

participantB - a ParticipantEvidence object.

MitabBinaryInteractionEvidence

public MitabBinaryInteractionEvidence(String shortName,
                                      CvTerm type,
                                      ParticipantEvidence participantA,
                                      ParticipantEvidence participantB)

Constructor for MitabBinaryInteractionEvidence.

Parameters:

shortName - a String object.

type - a CvTerm object.

participantA - a ParticipantEvidence object.

participantB - a ParticipantEvidence object.

MitabBinaryInteractionEvidence

public MitabBinaryInteractionEvidence(CvTerm complexExpansion)

Constructor for MitabBinaryInteractionEvidence.

Parameters:

complexExpansion - a CvTerm object.

MitabBinaryInteractionEvidence

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

Constructor for MitabBinaryInteractionEvidence.

Parameters:

shortName - a String object.

type - a CvTerm object.

complexExpansion - a CvTerm object.

MitabBinaryInteractionEvidence

public MitabBinaryInteractionEvidence(ParticipantEvidence participantA,
                                      ParticipantEvidence participantB,
                                      CvTerm complexExpansion)

Constructor for MitabBinaryInteractionEvidence.

Parameters:

participantA - a ParticipantEvidence object.

participantB - a ParticipantEvidence object.

complexExpansion - a CvTerm object.

MitabBinaryInteractionEvidence

public MitabBinaryInteractionEvidence(String shortName,
                                      ParticipantEvidence participantA,
                                      ParticipantEvidence participantB,
                                      CvTerm complexExpansion)

Constructor for MitabBinaryInteractionEvidence.

Parameters:

shortName - a String object.

participantA - a ParticipantEvidence object.

participantB - a ParticipantEvidence object.

complexExpansion - a CvTerm object.

MitabBinaryInteractionEvidence

public MitabBinaryInteractionEvidence(String shortName,
                                      CvTerm type,
                                      ParticipantEvidence participantA,
                                      ParticipantEvidence participantB,
                                      CvTerm complexExpansion)

Constructor for MitabBinaryInteractionEvidence.

Parameters:

shortName - a String object.

type - a CvTerm object.

participantA - a ParticipantEvidence object.

participantB - a ParticipantEvidence 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 DefaultBinaryInteractionEvidence

Returns:

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