org.apache.ctakes.assertion.medfacts

Class AssertionAnalysisEngine

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.ctakes.assertion.medfacts.AssertionAnalysisEngine

All Implemented Interfaces:

org.apache.uima.analysis_component.AnalysisComponent

@PipeBitInfo(name="Assertion Engine",
             description="Adds Negation, Uncertainty, Conditional and Subject to annotations.",
             role=ANNOTATOR,
             dependencies=IDENTIFIED_ANNOTATION)
public class AssertionAnalysisEngine
extends org.apache.uima.analysis_component.JCasAnnotator_ImplBase

Constructor Summary

Constructors

Constructor and Description
AssertionAnalysisEngine()

Method Summary

Modifier and Type	Method and Description
String	convert2DTokenArrayToText(ArrayList<ArrayList<String>> arrayOfLines)
void	debugAnnotationsInCas(org.apache.uima.jcas.JCas jcas, IdentifiedAnnotation annotation, String label)
Map<Integer,org.apache.uima.jcas.tcas.Annotation>	generateAnnotationMap(org.apache.uima.jcas.JCas jcas)
Map<Integer,org.apache.uima.jcas.tcas.Annotation>	generateAnnotationMap(org.apache.uima.jcas.JCas jcas, Integer typeId)
void	initialize(org.apache.uima.UimaContext uimaContext)
static void	mapI2B2AssertionValueToCtakes(String assertionType, IdentifiedAnnotation annotation)
void	process(org.apache.uima.jcas.JCas jcas)

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, collectionProcessComplete, 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

AssertionAnalysisEngine

public AssertionAnalysisEngine()

Method Detail

initialize

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

Specified by:

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

Overrides:

initialize in class org.apache.uima.analysis_component.AnalysisComponent_ImplBase

Throws:

org.apache.uima.resource.ResourceInitializationException

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

mapI2B2AssertionValueToCtakes

public static void mapI2B2AssertionValueToCtakes(String assertionType,
                                                 IdentifiedAnnotation annotation)
                                          throws org.apache.uima.analysis_engine.AnalysisEngineProcessException

Throws:

org.apache.uima.analysis_engine.AnalysisEngineProcessException

debugAnnotationsInCas

public void debugAnnotationsInCas(org.apache.uima.jcas.JCas jcas,
                                  IdentifiedAnnotation annotation,
                                  String label)

generateAnnotationMap

public Map<Integer,org.apache.uima.jcas.tcas.Annotation> generateAnnotationMap(org.apache.uima.jcas.JCas jcas)

generateAnnotationMap

public Map<Integer,org.apache.uima.jcas.tcas.Annotation> generateAnnotationMap(org.apache.uima.jcas.JCas jcas,
                                                                               Integer typeId)

convert2DTokenArrayToText

public String convert2DTokenArrayToText(ArrayList<ArrayList<String>> arrayOfLines)