Package de.julielab.genemapper.mappingcores.quercus

Class SemanticIndexDisambiguationStep

java.lang.Object

de.julielab.genemapper.mappingcores.quercus.SemanticIndexDisambiguationStep

All Implemented Interfaces:

QuercusDisambiguationStep

public class SemanticIndexDisambiguationStep
extends Object
implements QuercusDisambiguationStep

Constructor Summary

Constructors

Constructor	Description
SemanticIndexDisambiguationStep(de.julielab.geneexpbase.configuration.Configuration config)

Method Summary

Modifier and Type	Method	Description
void	disambiguate(de.julielab.geneexpbase.genemodel.GeneMention gm, de.julielab.geneexpbase.candidateretrieval.SynHit candidate)
de.julielab.geneexpbase.candidateretrieval.SynHit	doDisambiguation(de.julielab.geneexpbase.candidateretrieval.SynHit synHit, org.apache.lucene.search.Query query, double minContextScore)
org.apache.lucene.search.TopDocs	getContextForSynHits(de.julielab.geneexpbase.candidateretrieval.SynHit synHit, org.apache.lucene.search.Query query)
org.apache.lucene.search.Query	makeQuery(List<String> allowedIDs, org.apache.lucene.search.Query query)

Methods inherited from class java.lang.Object

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

Constructor Detail

SemanticIndexDisambiguationStep

@Inject
public SemanticIndexDisambiguationStep(de.julielab.geneexpbase.configuration.Configuration config)
                                throws GeneMapperException

Throws:

GeneMapperException

Method Detail

disambiguate

public void disambiguate(de.julielab.geneexpbase.genemodel.GeneMention gm,
                         de.julielab.geneexpbase.candidateretrieval.SynHit candidate)

Specified by:

disambiguate in interface QuercusDisambiguationStep

doDisambiguation

public de.julielab.geneexpbase.candidateretrieval.SynHit doDisambiguation(de.julielab.geneexpbase.candidateretrieval.SynHit synHit,
                                                                          org.apache.lucene.search.Query query,
                                                                          double minContextScore)
                                                                   throws IOException

Throws:

IOException

getContextForSynHits

public org.apache.lucene.search.TopDocs getContextForSynHits(de.julielab.geneexpbase.candidateretrieval.SynHit synHit,
                                                             org.apache.lucene.search.Query query)
                                                      throws IOException

Throws:

IOException

makeQuery

public org.apache.lucene.search.Query makeQuery(List<String> allowedIDs,
                                                org.apache.lucene.search.Query query)
                                         throws IOException

Throws:

IOException