Class DypsisCandidateSetter
- java.lang.Object
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- de.julielab.genemapper.mappingcores.DypsisCandidateSetter
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public class DypsisCandidateSetter extends Object
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Field Summary
Fields Modifier and Type Field Description static booleanrecordStats
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Constructor Summary
Constructors Constructor Description DypsisCandidateSetter(Configuration config, CandidateRetrieval candidateRetrieval, NameCentricRetrieval nameCentricRetrieval, DypsisCandidateRanker candidateRanker, de.julielab.geneexpbase.genemodel.GeneOrthologs geneOrthologs)
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Method Summary
All Methods Instance Methods Concrete Methods Modifier and Type Method Description voidclear()CandidateRetrievalgetCandidateRetrieval()de.julielab.geneexpbase.configuration.ParametersgetModelParameters()voidload(File source)voidloadLexicalCandidateRankingModel(Configuration config)voidsave(File destination, de.julielab.geneexpbase.configuration.Parameters parameters)voidsetCandidates(de.julielab.geneexpbase.genemodel.GeneDocument document, de.julielab.geneexpbase.configuration.Parameters parameterMap, Stats stats)voidsetCandidates(de.julielab.geneexpbase.genemodel.GeneMention gm, AtomicInteger gmidCounter, de.julielab.geneexpbase.configuration.Parameters parameterMap, Stats stats)voidshutdown()
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Field Detail
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recordStats
public static final boolean recordStats
- See Also:
- Constant Field Values
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Constructor Detail
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DypsisCandidateSetter
@Inject public DypsisCandidateSetter(Configuration config, CandidateRetrieval candidateRetrieval, NameCentricRetrieval nameCentricRetrieval, DypsisCandidateRanker candidateRanker, de.julielab.geneexpbase.genemodel.GeneOrthologs geneOrthologs) throws GeneMapperInitializationException
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Method Detail
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loadLexicalCandidateRankingModel
public void loadLexicalCandidateRankingModel(Configuration config) throws GeneMapperInitializationException
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save
public void save(File destination, de.julielab.geneexpbase.configuration.Parameters parameters)
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load
public void load(File source) throws IOException, ClassNotFoundException
- Throws:
IOExceptionClassNotFoundException
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shutdown
public void shutdown() throws GeneMapperException- Throws:
GeneMapperException
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getCandidateRetrieval
public CandidateRetrieval getCandidateRetrieval()
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setCandidates
public void setCandidates(de.julielab.geneexpbase.genemodel.GeneDocument document, de.julielab.geneexpbase.configuration.Parameters parameterMap, Stats stats) throws GeneMapperException- Throws:
GeneMapperException
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setCandidates
public void setCandidates(de.julielab.geneexpbase.genemodel.GeneMention gm, AtomicInteger gmidCounter, de.julielab.geneexpbase.configuration.Parameters parameterMap, Stats stats) throws GeneMapperException- Throws:
GeneMapperException
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clear
public void clear()
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getModelParameters
public de.julielab.geneexpbase.configuration.Parameters getModelParameters()
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