Package psidev.psi.mi.jami.enricher.impl.minimal

Class MinimalParticipantEvidenceUpdater<P extends ParticipantEvidence>

java.lang.Object

psidev.psi.mi.jami.enricher.impl.minimal.MinimalEntityEnricher<P,F>

psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEnricher<P,FeatureEvidence>

psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEvidenceEnricher<P>

psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEvidenceUpdater<P>

All Implemented Interfaces:

EntityEnricher<P,FeatureEvidence>, MIEnricher<P>, ParticipantEnricher<P,FeatureEvidence>, ParticipantEvidenceEnricher<P>

Direct Known Subclasses:

MinimalExperimentalParticipantPoolUpdater

public class MinimalParticipantEvidenceUpdater<P extends ParticipantEvidence>
extends MinimalParticipantEvidenceEnricher<P>

Created with IntelliJ IDEA.

Since:

28/06/13

Author:

Gabriel Aldam (galdam@ebi.ac.uk)

Constructor Summary

Constructors

Modifier	Constructor	Description
	MinimalParticipantEvidenceUpdater()	Constructor for MinimalParticipantEvidenceUpdater.
protected	MinimalParticipantEvidenceUpdater(MinimalParticipantUpdater<P,FeatureEvidence> delegate)	Constructor for MinimalParticipantEvidenceUpdater.

Method Summary

Modifier and Type	Method	Description
CvTermEnricher<CvTerm>	getCvTermEnricher()	The current CvTerm enricher, If null, CvTerms will not be enriched.
FeatureEnricher<FeatureEvidence>	getFeatureEnricher()	The current enricher used for features.
CompositeInteractorEnricher	getInteractorEnricher()	Getter for the field interactorEnricher.
protected MinimalParticipantUpdater<P,FeatureEvidence>	getMinimalUpdater()	Getter for the field minimalUpdater.
EntityEnricherListener	getParticipantEnricherListener()	The current listener that participant changes are reported to.
void	processAliases(P objectToEnrich, P objectSource)	processAliases.
void	processBiologicalRole(P objectToEnrich, P objectSource)	processBiologicalRole.
void	processExperimentalRole(P participantEvidenceToEnrich, P objectSource)	processExperimentalRole.
protected void	processExpressedInOrganism(P participantEvidenceToEnrich, P objectSource)	processExpressedInOrganism.
void	processFeatures(P objectToEnrich, P objectSource)	processFeatures.
void	processIdentificationMethods(P participantEvidenceToEnrich, P objectSource)	processIdentificationMethods.
void	processInteractor(P objectToEnrich, P objectSource)	processInteractor.
void	setCvTermEnricher(CvTermEnricher<CvTerm> cvTermEnricher)	setCvTermEnricher.
void	setFeatureEnricher(FeatureEnricher<FeatureEvidence> featureEnricher)	setFeatureEnricher.
void	setInteractorEnricher(CompositeInteractorEnricher interactorEnricher)	setInteractorEnricher.
void	setParticipantEnricherListener(EntityEnricherListener listener)	setParticipantEnricherListener.

Methods inherited from class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEvidenceEnricher

getOrganismEnricher, mergeIdentificationMethods, processExperimentalRole, processExpressedInOrganism, processIdentificationMethods, processOtherProperties, processOtherProperties, setOrganismEnricher

Methods inherited from class psidev.psi.mi.jami.enricher.impl.minimal.MinimalParticipantEnricher

enrich, processBiologicalRole

Methods inherited from class psidev.psi.mi.jami.enricher.impl.minimal.MinimalEntityEnricher

enrich, enrich, processFeatures, processInteractor

Methods inherited from class java.lang.Object

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

Methods inherited from interface psidev.psi.mi.jami.enricher.MIEnricher

enrich, enrich, enrich

Constructor Detail

MinimalParticipantEvidenceUpdater

public MinimalParticipantEvidenceUpdater()

Constructor for MinimalParticipantEvidenceUpdater.

MinimalParticipantEvidenceUpdater

protected MinimalParticipantEvidenceUpdater(MinimalParticipantUpdater<P,FeatureEvidence> delegate)

Constructor for MinimalParticipantEvidenceUpdater.

Parameters:

delegate - a MinimalParticipantUpdater object.

Method Detail

processIdentificationMethods

public void processIdentificationMethods(P participantEvidenceToEnrich,
                                         P objectSource)
                                  throws EnricherException

processIdentificationMethods.

Overrides:

processIdentificationMethods in class MinimalParticipantEvidenceEnricher<P extends ParticipantEvidence>

Parameters:

participantEvidenceToEnrich - a P object.

objectSource - a P object.

Throws:

EnricherException - if any.

processExpressedInOrganism

protected void processExpressedInOrganism(P participantEvidenceToEnrich,
                                          P objectSource)
                                   throws EnricherException

processExpressedInOrganism.

Overrides:

processExpressedInOrganism in class MinimalParticipantEvidenceEnricher<P extends ParticipantEvidence>

Parameters:

participantEvidenceToEnrich - a P object.

objectSource - a P object.

Throws:

EnricherException - if any.

processExperimentalRole

public void processExperimentalRole(P participantEvidenceToEnrich,
                                    P objectSource)
                             throws EnricherException

processExperimentalRole.

Overrides:

processExperimentalRole in class MinimalParticipantEvidenceEnricher<P extends ParticipantEvidence>

Parameters:

participantEvidenceToEnrich - a P object.

objectSource - a P object.

Throws:

EnricherException - if any.

processInteractor

public void processInteractor(P objectToEnrich,
                              P objectSource)
                       throws EnricherException

processInteractor.

Overrides:

processInteractor in class MinimalParticipantEnricher<P extends ParticipantEvidence,FeatureEvidence>

Parameters:

objectToEnrich - a P object.

objectSource - a P object.

Throws:

EnricherException - if any.

processFeatures

public void processFeatures(P objectToEnrich,
                            P objectSource)
                     throws EnricherException

processFeatures.

Overrides:

processFeatures in class MinimalEntityEnricher<P extends ParticipantEvidence,FeatureEvidence>

Parameters:

objectToEnrich - a P object.

objectSource - a P object.

Throws:

EnricherException - if any.

processBiologicalRole

public void processBiologicalRole(P objectToEnrich,
                                  P objectSource)
                           throws EnricherException

processBiologicalRole.

Overrides:

processBiologicalRole in class MinimalParticipantEnricher<P extends ParticipantEvidence,FeatureEvidence>

Parameters:

objectToEnrich - a P object.

objectSource - a P object.

Throws:

EnricherException - if any.

processAliases

public void processAliases(P objectToEnrich,
                           P objectSource)
                    throws EnricherException

processAliases.

Overrides:

processAliases in class MinimalParticipantEnricher<P extends ParticipantEvidence,FeatureEvidence>

Parameters:

objectToEnrich - a P object.

objectSource - a P object.

Throws:

EnricherException - if any.

setParticipantEnricherListener

public void setParticipantEnricherListener(EntityEnricherListener listener)

setParticipantEnricherListener.

Sets the listener for Participant events. If null, events will not be reported.

Specified by:

setParticipantEnricherListener in interface EntityEnricher<P extends ParticipantEvidence,FeatureEvidence>

Overrides:

setParticipantEnricherListener in class MinimalEntityEnricher<P extends ParticipantEvidence,FeatureEvidence>

Parameters:

listener - a EntityEnricherListener object.

getParticipantEnricherListener

public EntityEnricherListener getParticipantEnricherListener()

The current listener that participant changes are reported to. If null, events are not being reported.

Specified by:

getParticipantEnricherListener in interface EntityEnricher<P extends ParticipantEvidence,FeatureEvidence>

Overrides:

getParticipantEnricherListener in class MinimalEntityEnricher<P extends ParticipantEvidence,FeatureEvidence>

Returns:

TThe current listener. Can be null.

setCvTermEnricher

public void setCvTermEnricher(CvTermEnricher<CvTerm> cvTermEnricher)

setCvTermEnricher.

Sets the enricher for CvTerms. If null, cvTerms are not being enriched.

Specified by:

setCvTermEnricher in interface ParticipantEnricher<P extends ParticipantEvidence,FeatureEvidence>

Overrides:

setCvTermEnricher in class MinimalParticipantEnricher<P extends ParticipantEvidence,FeatureEvidence>

Parameters:

cvTermEnricher - a CvTermEnricher object.

getCvTermEnricher

public CvTermEnricher<CvTerm> getCvTermEnricher()

The current CvTerm enricher, If null, CvTerms will not be enriched.

Specified by:

getCvTermEnricher in interface ParticipantEnricher<P extends ParticipantEvidence,FeatureEvidence>

Overrides:

getCvTermEnricher in class MinimalParticipantEnricher<P extends ParticipantEvidence,FeatureEvidence>

Returns:

The new enricher for CvTerms. Can be null.

setFeatureEnricher

public void setFeatureEnricher(FeatureEnricher<FeatureEvidence> featureEnricher)

setFeatureEnricher.

Will attempt to add the featureEnricher as a proteinListener if this is valid. If the proteinEnricher already has a listener, this will be preserved using a listener manager.

Specified by:

setFeatureEnricher in interface EntityEnricher<P extends ParticipantEvidence,FeatureEvidence>

Overrides:

setFeatureEnricher in class MinimalEntityEnricher<P extends ParticipantEvidence,FeatureEvidence>

Parameters:

featureEnricher - a FeatureEnricher object.

getFeatureEnricher

public FeatureEnricher<FeatureEvidence> getFeatureEnricher()

The current enricher used for features. If null, features are not currently being enriched.

Specified by:

getFeatureEnricher in interface EntityEnricher<P extends ParticipantEvidence,FeatureEvidence>

Overrides:

getFeatureEnricher in class MinimalEntityEnricher<P extends ParticipantEvidence,FeatureEvidence>

Returns:

The current enricher. May be null.

setInteractorEnricher

public void setInteractorEnricher(CompositeInteractorEnricher interactorEnricher)

setInteractorEnricher.

Specified by:

setInteractorEnricher in interface EntityEnricher<P extends ParticipantEvidence,FeatureEvidence>

Overrides:

setInteractorEnricher in class MinimalEntityEnricher<P extends ParticipantEvidence,FeatureEvidence>

Parameters:

interactorEnricher - a CompositeInteractorEnricher object.

getInteractorEnricher

public CompositeInteractorEnricher getInteractorEnricher()

Getter for the field interactorEnricher.

Specified by:

getInteractorEnricher in interface EntityEnricher<P extends ParticipantEvidence,FeatureEvidence>

Overrides:

getInteractorEnricher in class MinimalEntityEnricher<P extends ParticipantEvidence,FeatureEvidence>

Returns:

a CompositeInteractorEnricher object.

getMinimalUpdater

protected MinimalParticipantUpdater<P,FeatureEvidence> getMinimalUpdater()

Getter for the field minimalUpdater.

Returns:

a MinimalParticipantUpdater object.