org.apache.ctakes.relationextractor.ae

Class ManifestationOfRelationExtractorAnnotator

java.lang.Object

org.apache.uima.analysis_component.AnalysisComponent_ImplBase

org.apache.uima.analysis_component.Annotator_ImplBase

org.apache.uima.analysis_component.JCasAnnotator_ImplBase

org.apache.uima.fit.component.JCasAnnotator_ImplBase

org.cleartk.ml.CleartkAnnotator<String>

org.apache.ctakes.relationextractor.ae.RelationExtractorAnnotator

org.apache.ctakes.relationextractor.ae.ManifestationOfRelationExtractorAnnotator

All Implemented Interfaces:

org.apache.uima.analysis_component.AnalysisComponent, org.apache.uima.fit.factory.initializable.Initializable

@PipeBitInfo(name="Manifestation of Annotator",
             description="Annotates Manifestation Of relations.",
             role=ANNOTATOR,
             dependencies={SENTENCE,IDENTIFIED_ANNOTATION},
             products=GENERIC_RELATION)
public class ManifestationOfRelationExtractorAnnotator
extends RelationExtractorAnnotator

Identifies manifestation_of relation. In SHARP data the arguments are the following: arg1: AnatomicalSiteMention (4), DiseaseDisorderMention (74), LabMention (2), SignSymptomMention (38) arg2: AnatomicalSiteMention (1), DiseaseDisorderMention (114), SignSymptomMention (3) But for now, only considering only the most frequent cases: arg1: disease/disorder, sign/symptom arg2: disease/disorder

Nested Class Summary

Nested classes/interfaces inherited from class org.apache.ctakes.relationextractor.ae.RelationExtractorAnnotator

RelationExtractorAnnotator.IdentifiedAnnotationPair

Field Summary

Fields inherited from class org.apache.ctakes.relationextractor.ae.RelationExtractorAnnotator

category_frequency, coin, NO_RELATION_CATEGORY, PARAM_PROBABILITY_OF_KEEPING_A_NEGATIVE_EXAMPLE, probabilityOfKeepingANegativeExample

Fields inherited from class org.cleartk.ml.CleartkAnnotator

classifier, dataWriter, PARAM_CLASSIFIER_FACTORY_CLASS_NAME, PARAM_DATA_WRITER_FACTORY_CLASS_NAME, PARAM_IS_TRAINING

Constructor Summary

Constructors

Constructor and Description
ManifestationOfRelationExtractorAnnotator()

Method Summary

Modifier and Type	Method and Description
protected void	createRelation(org.apache.uima.jcas.JCas jCas, IdentifiedAnnotation arg1, IdentifiedAnnotation arg2, String predictedCategory) Create a UIMA relation type based on arguments and the relation label.
List<RelationExtractorAnnotator.IdentifiedAnnotationPair>	getCandidateRelationArgumentPairs(org.apache.uima.jcas.JCas identifiedAnnotationView, org.apache.uima.jcas.tcas.Annotation sentence) Selects the relevant mentions/annotations within a covering annotation for relation identification/extraction.
protected Class<? extends org.apache.uima.jcas.tcas.Annotation>	getCoveringClass()
protected Class<? extends BinaryTextRelation>	getRelationClass()

Methods inherited from class org.apache.ctakes.relationextractor.ae.RelationExtractorAnnotator

classify, clearCategoryFrequency, getFeatureExtractors, getRelationCategory, initialize, process

Methods inherited from class org.cleartk.ml.CleartkAnnotator

collectionProcessComplete, isTraining

Methods inherited from class org.apache.uima.fit.component.JCasAnnotator_ImplBase

getLogger

Methods inherited from class org.apache.uima.analysis_component.JCasAnnotator_ImplBase

getRequiredCasInterface, process

Methods inherited from class org.apache.uima.analysis_component.Annotator_ImplBase

getCasInstancesRequired, hasNext, next

Methods inherited from class org.apache.uima.analysis_component.AnalysisComponent_ImplBase

batchProcessComplete, destroy, getContext, getResultSpecification, reconfigure, setResultSpecification

Methods inherited from class java.lang.Object

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

Constructor Detail

ManifestationOfRelationExtractorAnnotator

public ManifestationOfRelationExtractorAnnotator()

Method Detail

getRelationClass

protected Class<? extends BinaryTextRelation> getRelationClass()

Overrides:

getRelationClass in class RelationExtractorAnnotator

getCandidateRelationArgumentPairs

public List<RelationExtractorAnnotator.IdentifiedAnnotationPair> getCandidateRelationArgumentPairs(org.apache.uima.jcas.JCas identifiedAnnotationView,
                                                                                                   org.apache.uima.jcas.tcas.Annotation sentence)

Description copied from class: RelationExtractorAnnotator

Selects the relevant mentions/annotations within a covering annotation for relation identification/extraction.

Specified by:

getCandidateRelationArgumentPairs in class RelationExtractorAnnotator

createRelation

protected void createRelation(org.apache.uima.jcas.JCas jCas,
                              IdentifiedAnnotation arg1,
                              IdentifiedAnnotation arg2,
                              String predictedCategory)

Description copied from class: RelationExtractorAnnotator

Create a UIMA relation type based on arguments and the relation label. This allows subclasses to create/define their own types: e.g. coreference can create CoreferenceRelation instead of BinaryTextRelation

Overrides:

createRelation in class RelationExtractorAnnotator

Parameters:

jCas - - JCas object, needed to create new UIMA types

arg1 - - First argument to relation

arg2 - - Second argument to relation

predictedCategory - - Name of relation

getCoveringClass

protected Class<? extends org.apache.uima.jcas.tcas.Annotation> getCoveringClass()

Specified by:

getCoveringClass in class RelationExtractorAnnotator