org.apache.ctakes.assertion.medfacts.cleartk
Class AssertionCleartkAnalysisEngine

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.uimafit.component.JCasAnnotator_ImplBase
                  org.cleartk.classifier.CleartkAnnotator<java.lang.String>
                      org.apache.ctakes.assertion.medfacts.cleartk.AssertionCleartkAnalysisEngine

All Implemented Interfaces:

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

Direct Known Subclasses:

ConditionalCleartkAnalysisEngine, GenericCleartkAnalysisEngine, HistoryCleartkAnalysisEngine, PolarityCleartkAnalysisEngine, SubjectCleartkAnalysisEngine, UncertaintyCleartkAnalysisEngine

public abstract class AssertionCleartkAnalysisEngine
extends org.cleartk.classifier.CleartkAnnotator<java.lang.String>

Field Summary

protected java.util.Random	coin
protected java.util.List<org.cleartk.classifier.feature.extractor.ContextExtractor<IdentifiedAnnotation>>	contextFeatureExtractors
protected org.cleartk.classifier.feature.extractor.CleartkExtractor	cuePhraseInWindowExtractor
protected java.util.List<org.cleartk.classifier.feature.extractor.simple.SimpleFeatureExtractor>	entityFeatureExtractors
protected java.lang.String	goldViewName
(package private) org.apache.log4j.Logger	logger
static java.lang.String	PARAM_GOLD_VIEW_NAME
static java.lang.String	PARAM_PRINT_ERRORS
static java.lang.String	PARAM_PROBABILITY_OF_KEEPING_DEFAULT_EXAMPLE
(package private) boolean	printErrors
protected double	probabilityOfKeepingADefaultExample
static int	relationId
protected java.util.List<org.cleartk.classifier.feature.extractor.CleartkExtractor>	tokenCleartkExtractors
protected java.util.List<org.cleartk.classifier.feature.extractor.ContextExtractor<BaseToken>>	tokenContextFeatureExtractors

Fields inherited from class org.cleartk.classifier.CleartkAnnotator

classifier, dataWriter, PARAM_CLASSIFIER_FACTORY_CLASS_NAME, PARAM_DATA_WRITER_FACTORY_CLASS_NAME, PARAM_IS_TRAINING

Constructor Summary

AssertionCleartkAnalysisEngine()

Method Summary

java.util.List<org.cleartk.classifier.Feature>	extractZoneFeatures(java.util.Map<EntityMention,java.util.Collection<Zone>> coveringZoneMap, IdentifiedAnnotation entityMention)
ConllDependencyNode	findAnnotationHead(org.apache.uima.jcas.JCas jcas, org.apache.uima.jcas.tcas.Annotation annotation)
static org.apache.uima.analysis_engine.AnalysisEngineDescription	getDescription(java.lang.Object... additionalConfiguration)
void	initialize(org.apache.uima.UimaContext context)
void	process(org.apache.uima.jcas.JCas jCas)
abstract void	setClassLabel(IdentifiedAnnotation entityMention, org.cleartk.classifier.Instance<java.lang.String> instance)

Methods inherited from class org.cleartk.classifier.CleartkAnnotator

collectionProcessComplete, isTraining

Methods inherited from class org.uimafit.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

Field Detail

logger

org.apache.log4j.Logger logger

PARAM_GOLD_VIEW_NAME

public static final java.lang.String PARAM_GOLD_VIEW_NAME

See Also:

Constant Field Values

relationId

public static int relationId

goldViewName

protected java.lang.String goldViewName

PARAM_PRINT_ERRORS

public static final java.lang.String PARAM_PRINT_ERRORS

See Also:

Constant Field Values

printErrors

boolean printErrors

PARAM_PROBABILITY_OF_KEEPING_DEFAULT_EXAMPLE

public static final java.lang.String PARAM_PROBABILITY_OF_KEEPING_DEFAULT_EXAMPLE

See Also:

Constant Field Values

probabilityOfKeepingADefaultExample

protected double probabilityOfKeepingADefaultExample

coin

protected java.util.Random coin

contextFeatureExtractors

protected java.util.List<org.cleartk.classifier.feature.extractor.ContextExtractor<IdentifiedAnnotation>> contextFeatureExtractors

tokenContextFeatureExtractors

protected java.util.List<org.cleartk.classifier.feature.extractor.ContextExtractor<BaseToken>> tokenContextFeatureExtractors

tokenCleartkExtractors

protected java.util.List<org.cleartk.classifier.feature.extractor.CleartkExtractor> tokenCleartkExtractors

entityFeatureExtractors

protected java.util.List<org.cleartk.classifier.feature.extractor.simple.SimpleFeatureExtractor> entityFeatureExtractors

cuePhraseInWindowExtractor

protected org.cleartk.classifier.feature.extractor.CleartkExtractor cuePhraseInWindowExtractor

Constructor Detail

AssertionCleartkAnalysisEngine

public AssertionCleartkAnalysisEngine()

Method Detail

findAnnotationHead

public ConllDependencyNode findAnnotationHead(org.apache.uima.jcas.JCas jcas,
                                              org.apache.uima.jcas.tcas.Annotation annotation)

initialize

public void initialize(org.apache.uima.UimaContext context)
                throws org.apache.uima.resource.ResourceInitializationException

Specified by:

initialize in interface org.apache.uima.analysis_component.AnalysisComponent

Specified by:

initialize in interface org.uimafit.factory.initializable.Initializable

Overrides:

initialize in class org.cleartk.classifier.CleartkAnnotator<java.lang.String>

Throws:

org.apache.uima.resource.ResourceInitializationException

setClassLabel

public abstract void setClassLabel(IdentifiedAnnotation entityMention,
                                   org.cleartk.classifier.Instance<java.lang.String> instance)
                            throws org.apache.uima.analysis_engine.AnalysisEngineProcessException

Throws:

org.apache.uima.analysis_engine.AnalysisEngineProcessException

process

public void process(org.apache.uima.jcas.JCas jCas)
             throws org.apache.uima.analysis_engine.AnalysisEngineProcessException

Specified by:

process in class org.apache.uima.analysis_component.JCasAnnotator_ImplBase

Throws:

org.apache.uima.analysis_engine.AnalysisEngineProcessException

extractZoneFeatures

public java.util.List<org.cleartk.classifier.Feature> extractZoneFeatures(java.util.Map<EntityMention,java.util.Collection<Zone>> coveringZoneMap,
                                                                          IdentifiedAnnotation entityMention)

getDescription

public static org.apache.uima.analysis_engine.AnalysisEngineDescription getDescription(java.lang.Object... additionalConfiguration)
                                                                                throws org.apache.uima.resource.ResourceInitializationException

Throws:

org.apache.uima.resource.ResourceInitializationException