ubic.gemma.web.services.rest.util.args

Class GeneAnyIdArg<T>

java.lang.Object

ubic.gemma.web.services.rest.util.args.AbstractArg<T>

ubic.gemma.web.services.rest.util.args.AbstractEntityArg<T,Gene,GeneService>

ubic.gemma.web.services.rest.util.args.GeneArg<T>

ubic.gemma.web.services.rest.util.args.GeneAnyIdArg<T>

Type Parameters:

T - the type of the Gene Identifier.

All Implemented Interfaces:

Arg<T>

Direct Known Subclasses:

GeneEnsemblIdArg, GeneNcbiIdArg

public abstract class GeneAnyIdArg<T>
extends GeneArg<T>

Base class for GeneArg representing any of the identifiers of a Gene.

Author:

tesarst

Method Summary

Modifier and Type	Method and Description
List<PhysicalLocationValueObject>	getGeneLocation(GeneService geneService) Returns all known locations of the gene(s) that this GeneArg represents.
List<PhysicalLocationValueObject>	getGeneLocation(GeneService geneService, Taxon taxon) Returns all known locations of the gene that this GeneArg represents.
List<GeneValueObject>	getValueObjects(GeneService service)

Methods inherited from class ubic.gemma.web.services.rest.util.args.GeneArg

getGeneEvidence, getGenesOnTaxon, getGoTerms, valueOf

Methods inherited from class ubic.gemma.web.services.rest.util.args.AbstractEntityArg

checkEntity, getEntity, getObjectFilters, getPropertyName

Methods inherited from class ubic.gemma.web.services.rest.util.args.AbstractArg

getValue, toString

Methods inherited from class java.lang.Object

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

Method Detail

getValueObjects

public List<GeneValueObject> getValueObjects(GeneService service)

Specified by:

getValueObjects in class GeneArg<T>

Parameters:

service - the service used to load the Gene value objects.

Returns:

all genes that match the value of the GeneArg.

getGeneLocation

public List<PhysicalLocationValueObject> getGeneLocation(GeneService geneService)

Description copied from class: GeneArg

Returns all known locations of the gene(s) that this GeneArg represents.

Specified by:

getGeneLocation in class GeneArg<T>

Parameters:

geneService - service that will be used to retrieve the persistent Gene object.

Returns:

collection of physical location objects.

getGeneLocation

public List<PhysicalLocationValueObject> getGeneLocation(GeneService geneService,
                                                         Taxon taxon)

Description copied from class: GeneArg

Returns all known locations of the gene that this GeneArg represents.

Specified by:

getGeneLocation in class GeneArg<T>

Parameters:

geneService - service that will be used to retrieve the persistent Gene object.

taxon - the taxon to limit the search to. Can be null.

Returns:

collection of physical location objects.