Package psidev.psi.mi.jami.imex

Class ImexExperimentUpdater

java.lang.Object

psidev.psi.mi.jami.enricher.impl.AbstractMIEnricher<Experiment>

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

psidev.psi.mi.jami.enricher.impl.full.FullExperimentEnricher

psidev.psi.mi.jami.imex.ImexExperimentUpdater

All Implemented Interfaces:

ExperimentEnricher, MIEnricher<Experiment>

public class ImexExperimentUpdater
extends FullExperimentEnricher

This enricher will update an experiment attached to a publication having an IMEx id

Since:

29/10/14

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Constructor Summary

Constructors

Constructor	Description
ImexExperimentUpdater()	Constructor for ImexExperimentUpdater.

Method Summary

Modifier and Type	Method	Description
ImexAssigner	getImexAssigner()	Getter for the field imexAssigner.
protected void	processAnnotations(Experiment experimentToEnrich, Experiment objectSource)	processAnnotations.
protected void	processConfidences(Experiment experimentToEnrich, Experiment objectSource)	processConfidences.
protected void	processInteractionDetectionMethod(Experiment experimentToEnrich)	processInteractionDetectionMethod.
protected void	processInteractionDetectionMethod(Experiment experimentToEnrich, Experiment objectSource)	processInteractionDetectionMethod.
protected void	processOrganism(Experiment experimentToEnrich)	processOrganism.
protected void	processOrganism(Experiment experimentToEnrich, Experiment objectSource)	processOrganism.
protected void	processOtherProperties(Experiment experimentToEnrich)	processOtherProperties.
protected void	processVariableParameters(Experiment experimentToEnrich, Experiment objectSource)	processVariableParameters.
protected void	processXrefs(Experiment experimentToEnrich, Experiment objectSource)	processXrefs.
void	setImexAssigner(ImexAssigner imexAssigner)	Setter for the field imexAssigner.

Methods inherited from class psidev.psi.mi.jami.enricher.impl.full.FullExperimentEnricher

mergerVariableParameters, processOtherProperties

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

enrich, enrich, find, getCvTermEnricher, getExperimentEnricherListener, getOrganismEnricher, getPublicationEnricher, onEnrichedVersionNotFound, processExperiment, processExperiment, processPublication, processPublication, setCvTermEnricher, setExperimentEnricherListener, setOrganismEnricher, setPublicationEnricher

Methods inherited from class psidev.psi.mi.jami.enricher.impl.AbstractMIEnricher

enrich

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

Constructor Detail

ImexExperimentUpdater

public ImexExperimentUpdater()

Constructor for ImexExperimentUpdater.

Method Detail

processInteractionDetectionMethod

protected void processInteractionDetectionMethod(Experiment experimentToEnrich)
                                          throws EnricherException

processInteractionDetectionMethod.

Overrides:

processInteractionDetectionMethod in class MinimalExperimentEnricher

Parameters:

experimentToEnrich - a Experiment object.

Throws:

EnricherException - if any.

processOrganism

protected void processOrganism(Experiment experimentToEnrich)
                        throws EnricherException

processOrganism.

Overrides:

processOrganism in class MinimalExperimentEnricher

Parameters:

experimentToEnrich - a Experiment object.

Throws:

EnricherException - if any.

processConfidences

protected void processConfidences(Experiment experimentToEnrich,
                                  Experiment objectSource)

processConfidences.

Overrides:

processConfidences in class FullExperimentEnricher

Parameters:

experimentToEnrich - a Experiment object.

objectSource - a Experiment object.

processAnnotations

protected void processAnnotations(Experiment experimentToEnrich,
                                  Experiment objectSource)

processAnnotations.

Overrides:

processAnnotations in class FullExperimentEnricher

Parameters:

experimentToEnrich - a Experiment object.

objectSource - a Experiment object.

processXrefs

protected void processXrefs(Experiment experimentToEnrich,
                            Experiment objectSource)

processXrefs.

Overrides:

processXrefs in class FullExperimentEnricher

Parameters:

experimentToEnrich - a Experiment object.

objectSource - a Experiment object.

processInteractionDetectionMethod

protected void processInteractionDetectionMethod(Experiment experimentToEnrich,
                                                 Experiment objectSource)
                                          throws EnricherException

processInteractionDetectionMethod.

Overrides:

processInteractionDetectionMethod in class MinimalExperimentEnricher

Parameters:

experimentToEnrich - a Experiment object.

objectSource - a Experiment object.

Throws:

EnricherException - if any.

processOrganism

protected void processOrganism(Experiment experimentToEnrich,
                               Experiment objectSource)
                        throws EnricherException

processOrganism.

Overrides:

processOrganism in class MinimalExperimentEnricher

Parameters:

experimentToEnrich - a Experiment object.

objectSource - a Experiment object.

Throws:

EnricherException - if any.

processVariableParameters

protected void processVariableParameters(Experiment experimentToEnrich,
                                         Experiment objectSource)

processVariableParameters.

Overrides:

processVariableParameters in class FullExperimentEnricher

Parameters:

experimentToEnrich - a Experiment object.

objectSource - a Experiment object.

processOtherProperties

protected void processOtherProperties(Experiment experimentToEnrich)
                               throws EnricherException

processOtherProperties.

Overrides:

processOtherProperties in class FullExperimentEnricher

Parameters:

experimentToEnrich - a Experiment object.

Throws:

EnricherException - if any.

getImexAssigner

public ImexAssigner getImexAssigner()

Getter for the field imexAssigner.

Returns:

a ImexAssigner object.

setImexAssigner

public void setImexAssigner(ImexAssigner imexAssigner)

Setter for the field imexAssigner.

Parameters:

imexAssigner - a ImexAssigner object.