A B C D E F G H I J K L M N O P Q R S T U V W X Z _

B

B3Type - Enum in org.apache.ctakes.coreference.eval.helpers

BACKUP_BOUNDARY_ANN_TYPE - Static variable in class org.apache.ctakes.padtermspotter.ae.PADHitAnnotator

Annotation type that defines a backup boundary within which the dictionary hits should be present.

BaseDictionaryImpl - Class in org.apache.ctakes.dictionary.lookup

Deprecated. Use AbstractBaseDictionary

BaseDictionaryImpl() - Constructor for class org.apache.ctakes.dictionary.lookup.BaseDictionaryImpl

Deprecated.

Baseline1DegreeOfRelationExtractorAnnotator - Class in org.apache.ctakes.relationextractor.ae.baselines

Annotated degree_of relation in sentences containing a single entity mention of a valid degree_of type and a single modifier.

Baseline1DegreeOfRelationExtractorAnnotator() - Constructor for class org.apache.ctakes.relationextractor.ae.baselines.Baseline1DegreeOfRelationExtractorAnnotator

Baseline1EntityMentionPairRelationExtractorAnnotator - Class in org.apache.ctakes.relationextractor.ae.baselines

Annotate location_of relation between two entities in sentences containing exactly two entities (where the entities are of the correct types).

Baseline1EntityMentionPairRelationExtractorAnnotator() - Constructor for class org.apache.ctakes.relationextractor.ae.baselines.Baseline1EntityMentionPairRelationExtractorAnnotator

Baseline2DegreeOfRelationExtractorAnnotator - Class in org.apache.ctakes.relationextractor.ae.baselines

Annotated degree_of relation between two entities in sentences with multiple modifiers (arg2) and a single legitimate degree_of arg1 (i.e.

Baseline2DegreeOfRelationExtractorAnnotator() - Constructor for class org.apache.ctakes.relationextractor.ae.baselines.Baseline2DegreeOfRelationExtractorAnnotator

Baseline2EntityMentionPairRelationExtractorAnnotator - Class in org.apache.ctakes.relationextractor.ae.baselines

Annotate location_of relation between two entities in sentences with multiple anatomical sites and a single legitimate location_of arg2.

Baseline2EntityMentionPairRelationExtractorAnnotator() - Constructor for class org.apache.ctakes.relationextractor.ae.baselines.Baseline2EntityMentionPairRelationExtractorAnnotator

Baseline3DegreeOfRelationExtractorAnnotator - Class in org.apache.ctakes.relationextractor.ae.baselines

Annotate degree_of relation between two entities whenever they are enclosed within the same noun phrse.

Baseline3DegreeOfRelationExtractorAnnotator() - Constructor for class org.apache.ctakes.relationextractor.ae.baselines.Baseline3DegreeOfRelationExtractorAnnotator

Baseline3EntityMentionPairRelationExtractorAnnotator - Class in org.apache.ctakes.relationextractor.ae.baselines

Annotate location_of relation between two entities whenever they are enclosed within the same noun phrse.

Baseline3EntityMentionPairRelationExtractorAnnotator() - Constructor for class org.apache.ctakes.relationextractor.ae.baselines.Baseline3EntityMentionPairRelationExtractorAnnotator

BaseLookupConsumerImpl - Class in org.apache.ctakes.dictionary.lookup.ae

Provides some base functionality for subclasses.

BaseLookupConsumerImpl() - Constructor for class org.apache.ctakes.dictionary.lookup.ae.BaseLookupConsumerImpl

BaseLookupConsumerImpl.LookupHitKey - Class in org.apache.ctakes.dictionary.lookup.ae

Using a String as a HashMap Key can be slow as the hashCode is computed per character with each call - ditto for equals

BaseMetaDataHitImpl - Class in org.apache.ctakes.dictionary.lookup

Deprecated. please use AbstractBaseMetaDataHit

BaseMetaDataHitImpl() - Constructor for class org.apache.ctakes.dictionary.lookup.BaseMetaDataHitImpl

Deprecated.

BaseToken - Interface in org.apache.ctakes.core.fsm.token

BaseToken - Class in org.apache.ctakes.typesystem.type.syntax

A supertype for tokens subsuming word, punctuation, symbol, newline, contraction, or number.

BaseToken() - Constructor for class org.apache.ctakes.typesystem.type.syntax.BaseToken

Never called.

BaseToken(int, TOP_Type) - Constructor for class org.apache.ctakes.typesystem.type.syntax.BaseToken

Internal - constructor used by generator

BaseToken(JCas) - Constructor for class org.apache.ctakes.typesystem.type.syntax.BaseToken

BaseToken(JCas, int, int) - Constructor for class org.apache.ctakes.typesystem.type.syntax.BaseToken

BaseToken_Type - Class in org.apache.ctakes.typesystem.type.syntax

A supertype for tokens subsuming word, punctuation, symbol, newline, contraction, or number.

BaseToken_Type(JCas, Type) - Constructor for class org.apache.ctakes.typesystem.type.syntax.BaseToken_Type

initialize variables to correspond with Cas Type and Features

BaseTokenAdapter - Class in org.apache.ctakes.core.fsm.adapters

Adapts JCas token annotation to interface expected by the Context Dependent Tokenizer.

BaseTokenAdapter(Annotation) - Constructor for class org.apache.ctakes.core.fsm.adapters.BaseTokenAdapter

BaseTokenAdapter - Class in org.apache.ctakes.core.fsm.token.adapter

BaseTokenAdapter(Token) - Constructor for class org.apache.ctakes.core.fsm.token.adapter.BaseTokenAdapter

BaseTokenImpl - Class in org.apache.ctakes.core.fsm.output

BaseTokenImpl(int, int) - Constructor for class org.apache.ctakes.core.fsm.output.BaseTokenImpl

BaseTokenImpl - Class in org.apache.ctakes.drugner.fsm.output.elements

BaseTokenImpl(int, int) - Constructor for class org.apache.ctakes.drugner.fsm.output.elements.BaseTokenImpl

basicNumber(Markable) - Method in class org.apache.ctakes.coreference.util.AttributeCalculator

batchProcessComplete() - Method in class org.apache.ctakes.coreference.cc.ODIEVectorFileWriter

batchProcessComplete() - Method in class org.apache.ctakes.postagger.test.CpeTests.StatusCallbackListenerImpl

Called when the batchProcessing is completed.

batchProcessComplete() - Method in class org.apache.ctakes.regression.test.RegressionPipelineTest.StatusCallbackListenerImpl

Called when the batchProcessing is completed.

begin - Variable in class org.apache.ctakes.assertion.eval.AssertionEvaluation.HashableAnnotation

begin - Variable in class org.apache.ctakes.core.knowtator.KnowtatorAnnotation.Span

The offset of the first character in the text span.

beginTreeMap - Variable in class org.apache.ctakes.assertion.medfacts.i2b2.api.CharacterOffsetToLineTokenConverterCtakesImpl

BEST_DEGREE_OF_PARAMETERS - Static variable in class org.apache.ctakes.relationextractor.eval.RelationExtractorEvaluation

BEST_NON_DEGREE_OF_PARAMETERS - Static variable in class org.apache.ctakes.relationextractor.eval.RelationExtractorEvaluation

bfs(Queue<TreebankNode>, TreebankNode, TreebankNode) - Static method in class org.apache.ctakes.coreference.util.HobbsTreeNavigator

binaryLookup(String) - Method in class org.apache.ctakes.dictionary.lookup.DictionaryEngine

Determines whether the input text is contained by the Dictionary.

BinaryTextRelation - Class in org.apache.ctakes.typesystem.type.relation

A super-type for relationships between two spans of text.

BinaryTextRelation() - Constructor for class org.apache.ctakes.typesystem.type.relation.BinaryTextRelation

Never called.

BinaryTextRelation(int, TOP_Type) - Constructor for class org.apache.ctakes.typesystem.type.relation.BinaryTextRelation

Internal - constructor used by generator

BinaryTextRelation(JCas) - Constructor for class org.apache.ctakes.typesystem.type.relation.BinaryTextRelation

BinaryTextRelation_Type - Class in org.apache.ctakes.typesystem.type.relation

A super-type for relationships between two spans of text.

BinaryTextRelation_Type(JCas, Type) - Constructor for class org.apache.ctakes.typesystem.type.relation.BinaryTextRelation_Type

initialize variables to correspond with Cas Type and Features

BodyLaterality - Class in org.apache.ctakes.typesystem.type.refsem

The proximity of the location in anatomical terms (distal, proximal, superior, anterior and etc.).

BodyLaterality() - Constructor for class org.apache.ctakes.typesystem.type.refsem.BodyLaterality

Never called.

BodyLaterality(int, TOP_Type) - Constructor for class org.apache.ctakes.typesystem.type.refsem.BodyLaterality

Internal - constructor used by generator

BodyLaterality(JCas) - Constructor for class org.apache.ctakes.typesystem.type.refsem.BodyLaterality

BodyLaterality_Type - Class in org.apache.ctakes.typesystem.type.refsem

The proximity of the location in anatomical terms (distal, proximal, superior, anterior and etc.).

BodyLaterality_Type(JCas, Type) - Constructor for class org.apache.ctakes.typesystem.type.refsem.BodyLaterality_Type

initialize variables to correspond with Cas Type and Features

BodyLateralityModifier - Class in org.apache.ctakes.typesystem.type.textsem

The proximity of the location in anatomical terms (distal, proximal, superior, anterior and etc.).

BodyLateralityModifier() - Constructor for class org.apache.ctakes.typesystem.type.textsem.BodyLateralityModifier

Never called.

BodyLateralityModifier(int, TOP_Type) - Constructor for class org.apache.ctakes.typesystem.type.textsem.BodyLateralityModifier

Internal - constructor used by generator

BodyLateralityModifier(JCas) - Constructor for class org.apache.ctakes.typesystem.type.textsem.BodyLateralityModifier

BodyLateralityModifier(JCas, int, int) - Constructor for class org.apache.ctakes.typesystem.type.textsem.BodyLateralityModifier

BodyLateralityModifier_Type - Class in org.apache.ctakes.typesystem.type.textsem

The proximity of the location in anatomical terms (distal, proximal, superior, anterior and etc.).

BodyLateralityModifier_Type(JCas, Type) - Constructor for class org.apache.ctakes.typesystem.type.textsem.BodyLateralityModifier_Type

initialize variables to correspond with Cas Type and Features

BodySide - Class in org.apache.ctakes.typesystem.type.refsem

Value set: unmarked (default), left, right, bilateral Updated by JCasGen Tue Apr 09 12:44:01 EDT 2013 XML source: trunk/ctakes-pad-term-spotter-res/src/main/resources/org/apache/ctakes/padtermspotter/types/TypeSystem.xml

BodySide() - Constructor for class org.apache.ctakes.typesystem.type.refsem.BodySide

Never called.

BodySide(int, TOP_Type) - Constructor for class org.apache.ctakes.typesystem.type.refsem.BodySide

Internal - constructor used by generator

BodySide(JCas) - Constructor for class org.apache.ctakes.typesystem.type.refsem.BodySide

BodySide_Type - Class in org.apache.ctakes.typesystem.type.refsem

Value set: unmarked (default), left, right, bilateral Updated by JCasGen Tue Apr 09 12:44:01 EDT 2013

BodySide_Type(JCas, Type) - Constructor for class org.apache.ctakes.typesystem.type.refsem.BodySide_Type

initialize variables to correspond with Cas Type and Features

BodySideModifier - Class in org.apache.ctakes.typesystem.type.textsem

Value set: unmarked (default), left, right, bilateral Updated by JCasGen Tue Apr 09 12:44:04 EDT 2013 XML source: trunk/ctakes-pad-term-spotter-res/src/main/resources/org/apache/ctakes/padtermspotter/types/TypeSystem.xml

BodySideModifier() - Constructor for class org.apache.ctakes.typesystem.type.textsem.BodySideModifier

Never called.

BodySideModifier(int, TOP_Type) - Constructor for class org.apache.ctakes.typesystem.type.textsem.BodySideModifier

Internal - constructor used by generator

BodySideModifier(JCas) - Constructor for class org.apache.ctakes.typesystem.type.textsem.BodySideModifier

BodySideModifier(JCas, int, int) - Constructor for class org.apache.ctakes.typesystem.type.textsem.BodySideModifier

BodySideModifier_Type - Class in org.apache.ctakes.typesystem.type.textsem

Value set: unmarked (default), left, right, bilateral Updated by JCasGen Tue Apr 09 12:44:04 EDT 2013

BodySideModifier_Type(JCas, Type) - Constructor for class org.apache.ctakes.typesystem.type.textsem.BodySideModifier_Type

initialize variables to correspond with Cas Type and Features

BooleanLabeledFS - Class in org.apache.ctakes.coreference.type

Updated by JCasGen Tue Apr 09 12:45:20 EDT 2013 XML source: trunk/ctakes-coreference/src/main/resources/org/apache/ctakes/coreference/types/TypeSystem.xml

BooleanLabeledFS() - Constructor for class org.apache.ctakes.coreference.type.BooleanLabeledFS

Never called.

BooleanLabeledFS(int, TOP_Type) - Constructor for class org.apache.ctakes.coreference.type.BooleanLabeledFS

Internal - constructor used by generator

BooleanLabeledFS(JCas) - Constructor for class org.apache.ctakes.coreference.type.BooleanLabeledFS

BooleanLabeledFS_Type - Class in org.apache.ctakes.coreference.type

Updated by JCasGen Tue Apr 09 12:45:20 EDT 2013

BooleanLabeledFS_Type(JCas, Type) - Constructor for class org.apache.ctakes.coreference.type.BooleanLabeledFS_Type

initialize variables to correspond with Cas Type and Features

BooleanLabeledTree - Class in org.apache.ctakes.constituency.parser.uima.type

Updated by JCasGen Tue Apr 09 12:44:12 EDT 2013 XML source: trunk/ctakes-constituency-parser-res/src/main/resources/org/apache/ctakes/constituency/parser/types/LabeledTree.xml

BooleanLabeledTree() - Constructor for class org.apache.ctakes.constituency.parser.uima.type.BooleanLabeledTree

Never called.

BooleanLabeledTree(int, TOP_Type) - Constructor for class org.apache.ctakes.constituency.parser.uima.type.BooleanLabeledTree

Internal - constructor used by generator

BooleanLabeledTree(JCas) - Constructor for class org.apache.ctakes.constituency.parser.uima.type.BooleanLabeledTree

BooleanLabeledTree(JCas, int, int) - Constructor for class org.apache.ctakes.constituency.parser.uima.type.BooleanLabeledTree

BooleanLabeledTree_Type - Class in org.apache.ctakes.constituency.parser.uima.type

Updated by JCasGen Tue Apr 09 12:44:12 EDT 2013

BooleanLabeledTree_Type(JCas, Type) - Constructor for class org.apache.ctakes.constituency.parser.uima.type.BooleanLabeledTree_Type

initialize variables to correspond with Cas Type and Features

booleanSlots - Variable in class org.apache.ctakes.core.knowtator.KnowtatorAnnotation

The boolean-valued annotation attributes

BOUNDARY_ANN_TYPE - Static variable in class org.apache.ctakes.drugner.ae.DrugMentionAnnotator

Annotation type that defines the boundary within which the dictionary hits should be present.

BOUNDARY_ANN_TYPE - Static variable in class org.apache.ctakes.padtermspotter.ae.PADHitAnnotator

Annotation type that defines the boundary within which the dictionary hits should be present.

BRAIN_STATUS - Static variable in class org.apache.ctakes.padtermspotter.fsm.output.IllnessDxIndicator

breakAtApostrophe(String, int) - Static method in class org.apache.ctakes.core.nlp.tokenizer.ContractionsPTB

Assumes apostrophe is not first character....

BREAST_STATUS - Static variable in class org.apache.ctakes.padtermspotter.fsm.output.IllnessDxIndicator

build(Reader, String, String, boolean) - Static method in class org.apache.ctakes.dictionary.lookup.strtable.StringTableFactory

Reads from a character stream.

build(Reader, String, String, FieldConstraint, boolean) - Static method in class org.apache.ctakes.dictionary.lookup.strtable.StringTableFactory

Reads from a character stream.

build(Reader, String, String[], boolean) - Static method in class org.apache.ctakes.dictionary.lookup.strtable.StringTableFactory

Reads from a character stream.

build(Reader, String, String[], FieldConstraint, boolean) - Static method in class org.apache.ctakes.dictionary.lookup.strtable.StringTableFactory

Reads from a character stream.

buildAlignedTree(JCas, Parse, Sentence) - Static method in class org.apache.ctakes.constituency.parser.util.TreeUtils

buildList(JCas, TOP[]) - Static method in class org.apache.ctakes.core.util.ListFactory

Builds a FSList from an array of JCas objects.

BuildPear - Class in org.apache.ctakes.utils.build

Build a PEAR file for this project
Looks for BuildPear.properties file for classpath and datapath values to use for PEAR.
Expects the properties file to be in the same directory as this class file.

BuildPear() - Constructor for class org.apache.ctakes.utils.build.BuildPear

BuildPipelinePears - Class in org.apache.ctakes.utils.build

This class is used to edu.mayo.bmi.utils.build the PEAR files for the pipeline.

BuildPipelinePears() - Constructor for class org.apache.ctakes.utils.build.BuildPipelinePears

buildSentenceBoundaryMap() - Method in class org.apache.ctakes.assertion.medfacts.i2b2.api.CharacterOffsetToLineTokenConverterCtakesImpl

buildTokenBoundaryMap() - Method in class org.apache.ctakes.assertion.medfacts.i2b2.api.CharacterOffsetToLineTokenConverterCtakesImpl