Package ubic.gemma.core.loader.util.mapper

Class EnsemblIdDesignElementMapper

java.lang.Object

ubic.gemma.core.loader.util.mapper.AbstractGeneIdentifierBasedDesignElementMapper<String>

ubic.gemma.core.loader.util.mapper.EnsemblIdDesignElementMapper

All Implemented Interfaces:

DesignElementMapper, EntityMapper<CompositeSequence>

public class EnsemblIdDesignElementMapper
extends AbstractGeneIdentifierBasedDesignElementMapper<String>

Match design elements using Ensembl IDs.

Author:

poirigui

See Also:

• Gene.getEnsemblId()

Nested Class Summary

Nested classes/interfaces inherited from interface ubic.gemma.core.loader.util.mapper.EntityMapper

EntityMapper.MappingStatistics, EntityMapper.StatefulEntityMapper<T extends Identifiable>

Constructor Summary

Constructors

Constructor	Description
EnsemblIdDesignElementMapper(Map<CompositeSequence,Set<Gene>> cs2g)

Method Summary

Modifier and Type	Method	Description
protected String	getIdentifier(Gene gene)	Extract an identifier from the gene.
String	getName()	Obtain the name of the mapping strategy.
protected String	processIdentifier(String identifier)	Extract an identifier from an externally supplied string.

Methods inherited from class ubic.gemma.core.loader.util.mapper.AbstractGeneIdentifierBasedDesignElementMapper

forCandidates, toString

Methods inherited from class java.lang.Object

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

Methods inherited from interface ubic.gemma.core.loader.util.mapper.DesignElementMapper

forCandidates

Methods inherited from interface ubic.gemma.core.loader.util.mapper.EntityMapper

contains, containsAny, getMappingStatistics, matchAll, matchAll, matchOne, matchOne

Constructor Details

EnsemblIdDesignElementMapper

public EnsemblIdDesignElementMapper(Map<CompositeSequence,Set<Gene>> cs2g)

Method Details

getName

public String getName()

Description copied from interface: EntityMapper

Obtain the name of the mapping strategy.

getIdentifier

protected String getIdentifier(Gene gene)

Description copied from class: AbstractGeneIdentifierBasedDesignElementMapper

Extract an identifier from the gene.

Specified by:

getIdentifier in class AbstractGeneIdentifierBasedDesignElementMapper<String>

processIdentifier

protected String processIdentifier(String identifier)

Description copied from class: AbstractGeneIdentifierBasedDesignElementMapper

Extract an identifier from an externally supplied string.

This may return null if the identifier cannot be parsed.

Specified by:

processIdentifier in class AbstractGeneIdentifierBasedDesignElementMapper<String>