Path	Lines of Code
ctakes-coreference/desc/MipacqMarkableCreator.xml	111
ctakes-coreference/desc/MipacqMarkableExpander.xml	35
ctakes-coreference/desc/MipacqMarkablePairGenerator.xml	55
ctakes-coreference/desc/MipacqSvmChainCreator.xml	149
ctakes-coreference/desc/MipacqSvmCoreferenceResolverAggregate.xml	50
ctakes-coreference/desc/MipacqSvmVectorCreator.xml	75
ctakes-coreference/desc/MipacqSvmVectorCreatorAggregate.xml	46
ctakes-coreference/desc/analysis_engine/CorefProcessor.xml	130
ctakes-coreference/desc/analysis_engine/CorefUMLSProcessor.xml	138
ctakes-coreference/desc/analysis_engine/MarkablePairPlaintextDBProcessor.xml	149
ctakes-coreference/desc/analysis_engine/ODIESvmVectorCreator.xml	134
ctakes-coreference/desc/analysis_engine/ODIESvmVectorCreator_wSection.xml	204
ctakes-coreference/desc/cas_consumer/EvaluationConsumer.xml	152
ctakes-coreference/desc/cas_consumer/ODIEVectorFileWriterCasConsumer.xml	146
ctakes-coreference/desc/collection_processing_engine/Coref-resolver_CPE.xml	58
ctakes-coreference/desc/collection_processing_engine/ODIESvmModelCPE.xml	52
ctakes-coreference/desc/collection_processing_engine/SectionModelCPE.xml	52
ctakes-coreference/desc/collection_processing_engine/SystemScoringCPE.xml	70
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/CopyCoreferenceRelations.java	134
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/CoreferenceChainCoNLLWriter.java	191
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/CoreferenceChainScoringOutput.java	279
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/DeterministicMarkableAnnotator.java	188
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/EventCoreferenceAnnotator.java	654
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/MarkableSalienceAnnotator.java	89
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/MentionClusterCoreferenceAnnotator.java	446
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/MentionClusterRankingCoreferenceAnnotator.java	471
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/MipacqMarkableCreator.java	96
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/MipacqMarkableExpander.java	137
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/MipacqMarkablePairGenerator.java	190
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/MipacqSvmChainCreator.java	214
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/PatientMentionClusterCoreferencer.java	45
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/PatientScoringWriter.java	257
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/PersonChainAnnotator.java	165
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/ThymeAnaforaCrossDocCorefXmlReader.java	406
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/features/AttributeFeatureExtractor.java	50
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/features/CorefSyntaxFeatureExtractor.java	25
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/features/DistSemFeatureExtractor.java	76
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/features/DistanceFeatureExtractor.java	24
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/features/SalienceFeatureExtractor.java	18
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/features/SectionFeatureExtractor.java	49
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/features/StringMatchingFeatureExtractor.java	115
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/features/TemporalFeatureExtractor.java	43
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/features/TokenFeatureExtractor.java	114
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/features/UMLSFeatureExtractor.java	139
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/features/cluster/MentionClusterAgreementFeaturesExtractor.java	83
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/features/cluster/MentionClusterAttributeFeaturesExtractor.java	80
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/features/cluster/MentionClusterAttributeVectorExtractor.java	16
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/features/cluster/MentionClusterDepHeadExtractor.java	63
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/features/cluster/MentionClusterDistSemExtractor.java	103
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/features/cluster/MentionClusterDistanceFeaturesExtractor.java	36
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/features/cluster/MentionClusterMentionFeaturesExtractor.java	57
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/features/cluster/MentionClusterSalienceFeaturesExtractor.java	38
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/features/cluster/MentionClusterSectionFeaturesExtractor.java	78
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/features/cluster/MentionClusterSemTypeDepPrefsFeatureExtractor.java	57
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/features/cluster/MentionClusterStackFeaturesExtractor.java	43
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/features/cluster/MentionClusterStringFeaturesExtractor.java	89
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/features/cluster/MentionClusterUMLSFeatureExtractor.java	160
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/features/salience/ClinicalFeatureExtractor.java	55
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/features/salience/GrammaticalRoleFeatureExtractor.java	48
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/features/salience/MorphosyntacticFeatureExtractor.java	44
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/features/salience/SemanticEnvironmentFeatureExtractor.java	108
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/pairing/AnnotationPairer.java	7
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/pairing/cluster/ClusterMentionPairer_ImplBase.java	67
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/pairing/cluster/ClusterPairer.java	42
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/pairing/cluster/CrossDocumentPairer_ImplBase.java	12
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/pairing/cluster/ExactStringPairer.java	39
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/pairing/cluster/HeadwordPairer.java	37
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/pairing/cluster/PreviousDocumentPairer.java	29
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/pairing/cluster/SectionHeaderPairer.java	53
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/ae/pairing/cluster/SentenceDistancePairer.java	51
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/cc/ODIEVectorFileWriter.java	283
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/cc/PreprocessAndWriteXmi.java	89
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/concurrent/ThreadSafeMarkableSalienceAnnotator.java	84
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/concurrent/ThreadSafeMentionClusterCoreferencer.java	96
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/data/PrintMimicMarkables.java	93
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/eval/EvaluationOfEventCoreference.java	828
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/eval/EvaluationOfMarkableSalience.java	188
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/eval/helpers/B3Type.java	2
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/eval/helpers/CEAFType.java	2
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/eval/helpers/KAlphaType.java	2
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/eval/helpers/MatType.java	7
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/eval/helpers/PairType.java	2
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/eval/helpers/Span.java	83
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/eval/helpers/SpanAlignment.java	67
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/eval/helpers/SpanOffsetComparator.java	22
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/extractors/ContinuousBag.java	83
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/extractors/ContinuousTextExtractor.java	47
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/factory/CoreferenceAnnotatorFactory.java	31
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/treekernel/training/KernelMatrixCompositor.java	63
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/treekernel/training/LinearKernelMatrixWriter.java	122
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/treekernel/training/RowFillerThread.java	43
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/treekernel/training/TreeKernelTrainer.java	118
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/util/AbstractClassifier.java	29
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/util/AnaphoricityAttributeCalculator.java	157
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/util/AnnotOffsetComparator.java	9
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/util/AnnotationCounter.java	20
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/util/AnnotationSelector.java	162
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/util/AttributeCalculator.java	114
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/util/ClusterMentionFetcher.java	107
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/util/ClusterUtils.java	29
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/util/CorefConsts.java	11
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/util/EditDistance.java	41
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/util/FSIteratorToList.java	15
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/util/FeatureVector.java	90
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/util/GoldStandardLabeler.java	119
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/util/HobbsTreeNavigator.java	137
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/util/MarkableCacheRelationExtractor.java	7
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/util/MarkableDepUtils.java	22
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/util/MarkableTreeUtils.java	67
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/util/MarkableUtilities.java	33
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/util/PairAttributeCalculator.java	405
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/util/ParentPtrTree.java	58
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/util/SvmUtils.java	15
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/util/SvmVectorCreator.java	173
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/util/SyntaxAttributeCalculator.java	350
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/util/TextMatch.java	17
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/util/ThreadDelegator.java	5
ctakes-coreference/src/main/java/org/apache/ctakes/coreference/util/ThymeCasOrderer.java	38
ctakes-coreference/src/main/resources/org/apache/ctakes/coreference/types/BinaryRelation.xml	30
ctakes-coreference/src/main/resources/org/apache/ctakes/coreference/types/BooleanLabeledFS.xml	26
ctakes-coreference/src/main/resources/org/apache/ctakes/coreference/types/CollectionRelation.xml	26
ctakes-coreference/src/main/resources/org/apache/ctakes/coreference/types/CoreferenceRelation.xml	36
ctakes-coreference/src/main/resources/org/apache/ctakes/coreference/types/DiscoveryTechnique.xml	26
ctakes-coreference/src/main/resources/org/apache/ctakes/coreference/types/Pair.xml	26
ctakes-coreference/src/main/resources/org/apache/ctakes/coreference/types/PredicateArgRelation.xml	17
ctakes-coreference/src/main/resources/org/apache/ctakes/coreference/types/Properties.xml	26
ctakes-coreference/src/main/resources/org/apache/ctakes/coreference/types/Relation.xml	40
ctakes-coreference/src/main/resources/org/apache/ctakes/coreference/types/RelationArgument.xml	36
ctakes-coreference/src/main/resources/org/apache/ctakes/coreference/types/TypeSystem.xml	90
ctakes-coreference/src/main/resources/org/apache/ctakes/coreference/types/VecInst.xml	68
ctakes-coreference/src/main/scripts/perl/reorganize_thyme.pl	29