Package de.julielab.genemapper.disambig

Class ContextItemRecordsIndex

java.lang.Object

de.julielab.genemapper.disambig.ContextItemRecordsIndex

All Implemented Interfaces:

SemanticIndex

public class ContextItemRecordsIndex
extends Object
implements SemanticIndex

Deprecated.

in favor of ContextItemsIndex

Field Summary

Fields

Modifier and Type	Field	Description
org.apache.lucene.search.IndexSearcher	searcher	Deprecated.

Constructor Summary

Constructors

Constructor	Description
ContextItemRecordsIndex(Configuration configuration)	Deprecated.

Method Summary

Modifier and Type	Method	Description
Collection<String>	getContextItems(ContextItemsCacheKey key)	Deprecated.
Collection<String>	getContextItems(String geneId, String field)	Deprecated.
Map<String,org.apache.commons.lang3.tuple.Pair<Double,String>>	getContextItemScores(Collection<String> ids, org.apache.lucene.search.BooleanQuery contextQuery, String semanticItemFieldName, boolean returnContextItemValue)	Deprecated.
org.apache.lucene.search.IndexSearcher	getContextItemsSearcher()	Deprecated.
Map<String,org.apache.commons.lang3.tuple.Pair<Double,String>>	getIntraTaxAmbiguousContextItemScores(de.julielab.geneexpbase.candidateretrieval.SynHit synHit, org.apache.lucene.search.BooleanQuery contextQuery, String semanticItemFieldName, boolean returnContextItemValue)	Deprecated.
Map<String,Float>	getSynonymGeneRifScoresForTaxIds(de.julielab.geneexpbase.candidateretrieval.SynHit synHit, Set<String> taxonomyIds)	Deprecated.

Methods inherited from class java.lang.Object

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

Field Detail

searcher

public org.apache.lucene.search.IndexSearcher searcher

Deprecated.

Constructor Detail

ContextItemRecordsIndex

public ContextItemRecordsIndex(Configuration configuration)
                        throws GeneMapperException

Deprecated.

Throws:

GeneMapperException

Method Detail

getContextItems

public Collection<String> getContextItems(ContextItemsCacheKey key)
                                   throws ExecutionException

Deprecated.

Throws:

ExecutionException

getContextItems

public Collection<String> getContextItems(String geneId,
                                          String field)
                                   throws ExecutionException

Deprecated.

Throws:

ExecutionException

getSynonymGeneRifScoresForTaxIds

public Map<String,Float> getSynonymGeneRifScoresForTaxIds(de.julielab.geneexpbase.candidateretrieval.SynHit synHit,
                                                                Set<String> taxonomyIds)
                                                         throws IOException

Deprecated.

Parameters:

synHit -

Returns:

Throws:

IOException

getIntraTaxAmbiguousContextItemScores

public Map<String,org.apache.commons.lang3.tuple.Pair<Double,String>> getIntraTaxAmbiguousContextItemScores(de.julielab.geneexpbase.candidateretrieval.SynHit synHit,
                                                                                                                        org.apache.lucene.search.BooleanQuery contextQuery,
                                                                                                                        String semanticItemFieldName,
                                                                                                                        boolean returnContextItemValue)
                                                                                                                 throws IOException

Deprecated.

Throws:

IOException

getContextItemScores

public Map<String,org.apache.commons.lang3.tuple.Pair<Double,String>> getContextItemScores(Collection<String> ids,
                                                                                                       org.apache.lucene.search.BooleanQuery contextQuery,
                                                                                                       String semanticItemFieldName,
                                                                                                       boolean returnContextItemValue)
                                                                                                throws IOException

Deprecated.

Throws:

IOException

getContextItemsSearcher

public org.apache.lucene.search.IndexSearcher getContextItemsSearcher()

Deprecated.