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

Class MinimalOrganismUpdater

java.lang.Object

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

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

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

All Implemented Interfaces:

MIEnricher<Organism>, OrganismEnricher

Direct Known Subclasses:

FullOrganismUpdater

public class MinimalOrganismUpdater
extends MinimalOrganismEnricher

Provides minimum update of a Organism. - update taxid if different from fetched organism taxid. - update common name if different from fetched organism common name. - update scientific name if different from fetched organism scientific name. The organism fetcher is required for enriching organism

Since:

13/06/13

Author:

Gabriel Aldam (galdam@ebi.ac.uk)

Constructor Summary

Constructors

Constructor	Description
MinimalOrganismUpdater(OrganismFetcher organismFetcher)	Constructor for MinimalOrganismUpdater.

Method Summary

Modifier and Type	Method	Description
protected void	processCommonName(Organism organismToEnrich, Organism organismFetched)	processCommonName.
protected void	processScientificName(Organism organismToEnrich, Organism organismFetched)	processScientificName.
protected void	processTaxid(Organism organismToEnrich, Organism organismFetched)	processTaxid.

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

enrich, find, getCvTermEnricher, getOrganismEnricherListener, getOrganismFetcher, getRetryCount, onEnrichedVersionNotFound, processOtherProperties, setCvTermEnricher, setOrganismEnricherListener, setRetryCount

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

enrich, 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, enrich

Constructor Detail

MinimalOrganismUpdater

public MinimalOrganismUpdater(OrganismFetcher organismFetcher)

Constructor for MinimalOrganismUpdater.

Parameters:

organismFetcher - a OrganismFetcher object.

Method Detail

processScientificName

protected void processScientificName(Organism organismToEnrich,
                                     Organism organismFetched)

processScientificName.

Overrides:

processScientificName in class MinimalOrganismEnricher

Parameters:

organismToEnrich - a Organism object.

organismFetched - a Organism object.

processCommonName

protected void processCommonName(Organism organismToEnrich,
                                 Organism organismFetched)

processCommonName.

Overrides:

processCommonName in class MinimalOrganismEnricher

Parameters:

organismToEnrich - a Organism object.

organismFetched - a Organism object.

processTaxid

protected void processTaxid(Organism organismToEnrich,
                            Organism organismFetched)
                     throws EnricherException

processTaxid.

Overrides:

processTaxid in class MinimalOrganismEnricher

Parameters:

organismToEnrich - a Organism object.

organismFetched - a Organism object.

Throws:

EnricherException - if any.