org.apache.ctakes.temporal.nn.eval

Class EventTimeNeuralEvaluation

java.lang.Object

org.cleartk.eval.Evaluation_ImplBase<Integer,STATISTICS_TYPE>

org.apache.ctakes.temporal.eval.Evaluation_ImplBase<org.cleartk.eval.AnnotationStatistics<String>>

org.apache.ctakes.temporal.eval.EvaluationOfTemporalRelations_ImplBase

org.apache.ctakes.temporal.nn.eval.EventTimeNeuralEvaluation

public class EventTimeNeuralEvaluation
extends EvaluationOfTemporalRelations_ImplBase

Nested Class Summary

Nested Classes

Modifier and Type	Class and Description
static class	EventTimeNeuralEvaluation.AddClosure
static class	EventTimeNeuralEvaluation.AddContain2Overlap
static class	EventTimeNeuralEvaluation.AddFlippedOverlap
static class	EventTimeNeuralEvaluation.AddPotentialRelations
static class	EventTimeNeuralEvaluation.AddTransitiveContainsRelations
static class	EventTimeNeuralEvaluation.CountCloseRelation
static class	EventTimeNeuralEvaluation.Overlap2Contains For conflicting temporal relations on the same pair of arguments, if some of the relation types are "overlap", and "contains", remove "overlap" and keep "contains"
static class	EventTimeNeuralEvaluation.RemoveCrossSentenceRelations
static class	EventTimeNeuralEvaluation.RemoveEventEventRelations
static class	EventTimeNeuralEvaluation.RemoveNonUMLSEtEvents
static class	EventTimeNeuralEvaluation.RemoveRelations

Nested classes/interfaces inherited from class org.apache.ctakes.temporal.eval.EvaluationOfTemporalRelations_ImplBase

EvaluationOfTemporalRelations_ImplBase.PreserveEventEventRelations, EvaluationOfTemporalRelations_ImplBase.RemoveGoldAttributes, EvaluationOfTemporalRelations_ImplBase.RemoveNonContainsRelations

Nested classes/interfaces inherited from class org.apache.ctakes.temporal.eval.Evaluation_ImplBase

Evaluation_ImplBase.CopyFromGold, Evaluation_ImplBase.CopyFromSystem, Evaluation_ImplBase.CopyNPChunksToLookupWindowAnnotations, Evaluation_ImplBase.EntityMentionRemover, Evaluation_ImplBase.EventMentionRemover, Evaluation_ImplBase.Options, Evaluation_ImplBase.PittHeaderAnnotator, Evaluation_ImplBase.RemoveEnclosedLookupWindows, Evaluation_ImplBase.SegmentsFromBracketedSectionTagsAnnotator, Evaluation_ImplBase.Subcorpus, Evaluation_ImplBase.TimexAnnotationCorrector, Evaluation_ImplBase.UriToDocumentTextAnnotatorCtakes, Evaluation_ImplBase.WriteAnaforaXML, Evaluation_ImplBase.WriteI2B2XML, Evaluation_ImplBase.XMIReader, Evaluation_ImplBase.XMIWriter, Evaluation_ImplBase.XMLFormat

Field Summary

Fields

Modifier and Type	Field and Description
protected static EvaluationOfEventTimeRelations.ParameterSettings	allBagsParams
protected static EvaluationOfEventTimeRelations.ParameterSettings	allParams
protected static EvaluationOfEventTimeRelations.ParameterSettings	flatParams
protected static EvaluationOfEventTimeRelations.ParameterSettings	ftParams
protected boolean	skipTrain
boolean	skipWrite
protected boolean	testOnTrain
protected boolean	useClosure
protected boolean	useGoldAttributes

Fields inherited from class org.apache.ctakes.temporal.eval.EvaluationOfTemporalRelations_ImplBase

DEFAULT_BOTH_DIRECTIONS, DEFAULT_DOWNSAMPLE, DEFAULT_LAMBDA, DEFAULT_SVM_C, DEFAULT_SVM_G, DEFAULT_TK, defaultParams, params, printRelations

Fields inherited from class org.apache.ctakes.temporal.eval.Evaluation_ImplBase

anaforaOutput, badNotes, GOLD_VIEW_NAME, i2b2Output, kernelParams, printErrors, printOverlapping, PROB_VIEW_NAME, rawTextDirectory, subcorpus, treebankDirectory, xmiDirectory, xmlDirectory, xmlFormat

Fields inherited from class org.cleartk.eval.Evaluation_ImplBase

baseDirectory

Constructor Summary

Constructors

Constructor and Description

EventTimeNeuralEvaluation(File baseDirectory, File rawTextDirectory, File xmlDirectory, Evaluation_ImplBase.XMLFormat xmlFormat, Evaluation_ImplBase.Subcorpus subcorpus, File xmiDirectory, File treebankDirectory, boolean useClosure, boolean printErrors, boolean printRelations, boolean baseline, boolean useGoldAttributes, String kernelParams, EvaluationOfEventTimeRelations.ParameterSettings params)

Method Summary

Modifier and Type	Method and Description
static void	main(String[] args)
protected org.cleartk.eval.AnnotationStatistics<String>	test(org.apache.uima.collection.CollectionReader collectionReader, File directory)
protected void	train(org.apache.uima.collection.CollectionReader collectionReader, File directory)

Methods inherited from class org.apache.ctakes.temporal.eval.EvaluationOfTemporalRelations_ImplBase

correctArgOrder, formatRelation, printRelationAnnotations

Methods inherited from class org.apache.ctakes.temporal.eval.Evaluation_ImplBase

getCollectionReader, getPreprocessorAggregateBuilder, getRelationId, getTestItems, getTrainItems, getXMIReadingPreprocessorAggregateBuilder, getXMIWritingPreprocessorAggregateBuilder, prepareXMIsFor, selectExact, setI2B2Output

Methods inherited from class org.cleartk.eval.Evaluation_ImplBase

crossValidation, selectFoldTestItems, selectFoldTrainItems, trainAndTest

Methods inherited from class java.lang.Object

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

Field Detail

flatParams

protected static EvaluationOfEventTimeRelations.ParameterSettings flatParams

allBagsParams

protected static EvaluationOfEventTimeRelations.ParameterSettings allBagsParams

allParams

protected static EvaluationOfEventTimeRelations.ParameterSettings allParams

ftParams

protected static EvaluationOfEventTimeRelations.ParameterSettings ftParams

useClosure

protected boolean useClosure

useGoldAttributes

protected boolean useGoldAttributes

skipTrain

protected boolean skipTrain

skipWrite

public boolean skipWrite

testOnTrain

protected boolean testOnTrain

Constructor Detail

EventTimeNeuralEvaluation

public EventTimeNeuralEvaluation(File baseDirectory,
                                 File rawTextDirectory,
                                 File xmlDirectory,
                                 Evaluation_ImplBase.XMLFormat xmlFormat,
                                 Evaluation_ImplBase.Subcorpus subcorpus,
                                 File xmiDirectory,
                                 File treebankDirectory,
                                 boolean useClosure,
                                 boolean printErrors,
                                 boolean printRelations,
                                 boolean baseline,
                                 boolean useGoldAttributes,
                                 String kernelParams,
                                 EvaluationOfEventTimeRelations.ParameterSettings params)

Method Detail

main

public static void main(String[] args)
                 throws Exception

Throws:

Exception

train

protected void train(org.apache.uima.collection.CollectionReader collectionReader,
                     File directory)
              throws Exception

Specified by:

train in class org.cleartk.eval.Evaluation_ImplBase<Integer,org.cleartk.eval.AnnotationStatistics<String>>

Throws:

Exception

test

protected org.cleartk.eval.AnnotationStatistics<String> test(org.apache.uima.collection.CollectionReader collectionReader,
                                                             File directory)
                                                      throws Exception

Specified by:

test in class org.cleartk.eval.Evaluation_ImplBase<Integer,org.cleartk.eval.AnnotationStatistics<String>>

Throws:

Exception