org.apache.ctakes.assertion.medfacts.i2b2.api
Class SingleDocumentProcessorCtakes

java.lang.Object
  org.mitre.medfacts.i2b2.api.SingleDocumentProcessor
      org.apache.ctakes.assertion.medfacts.i2b2.api.SingleDocumentProcessorCtakes

public class SingleDocumentProcessorCtakes
extends org.mitre.medfacts.i2b2.api.SingleDocumentProcessor

Field Summary

protected org.apache.uima.jcas.JCas	jcas
(package private) java.util.logging.Logger	logger

Fields inherited from class org.mitre.medfacts.i2b2.api.SingleDocumentProcessor

allAnnotationList, annotationsByType, apiConceptList, arrayOfArrayOfTokens, assertionDecoderConfiguration, assertionTypeMap, contents, converter2

Constructor Summary

SingleDocumentProcessorCtakes()

Method Summary

java.util.List<org.mitre.medfacts.zoner.LineAndTokenPosition>	calculateBeginAndEndOfConcept(org.mitre.medfacts.i2b2.api.ApiConcept problem)
java.util.List<org.mitre.medfacts.zoner.LineAndTokenPosition>	calculateBeginAndEndOfConcept(int problemBegin, int problemEnd)
java.util.ArrayList<java.util.ArrayList<java.lang.String>>	construct2DTokenArray(org.apache.uima.jcas.JCas jcas)
org.mitre.medfacts.zoner.LineAndTokenPosition	convertCharacterOffsetToLineToken(int characterOffset)
org.apache.uima.jcas.JCas	getJcas()
void	postprocess()
protected void	preExecutionTest()
void	preprocess()
void	setJcas(org.apache.uima.jcas.JCas jcas)

Methods inherited from class org.mitre.medfacts.i2b2.api.SingleDocumentProcessor

addConcept, addConcept, checkForEnabledFeature, decode, generateAnnotations, generateConceptAnnotations, generateFeatures, getApiConceptList, getAssertionDecoderConfiguration, getAssertionTypeMap, getContents, getConverter2, getTokenArrays, processSingleDocument, processZones, setApiConceptList, setAssertionDecoderConfiguration, setAssertionTypeMap, setContents, setConverter2

Methods inherited from class java.lang.Object

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

Field Detail

logger

java.util.logging.Logger logger

jcas

protected org.apache.uima.jcas.JCas jcas

Constructor Detail

SingleDocumentProcessorCtakes

public SingleDocumentProcessorCtakes()

Method Detail

getJcas

public org.apache.uima.jcas.JCas getJcas()

setJcas

public void setJcas(org.apache.uima.jcas.JCas jcas)

preExecutionTest

protected void preExecutionTest()

Overrides:

preExecutionTest in class org.mitre.medfacts.i2b2.api.SingleDocumentProcessor

preprocess

public void preprocess()

Overrides:

preprocess in class org.mitre.medfacts.i2b2.api.SingleDocumentProcessor

postprocess

public void postprocess()

Overrides:

postprocess in class org.mitre.medfacts.i2b2.api.SingleDocumentProcessor

construct2DTokenArray

public java.util.ArrayList<java.util.ArrayList<java.lang.String>> construct2DTokenArray(org.apache.uima.jcas.JCas jcas)

convertCharacterOffsetToLineToken

public org.mitre.medfacts.zoner.LineAndTokenPosition convertCharacterOffsetToLineToken(int characterOffset)

Overrides:

convertCharacterOffsetToLineToken in class org.mitre.medfacts.i2b2.api.SingleDocumentProcessor

calculateBeginAndEndOfConcept

public java.util.List<org.mitre.medfacts.zoner.LineAndTokenPosition> calculateBeginAndEndOfConcept(org.mitre.medfacts.i2b2.api.ApiConcept problem)

Overrides:

calculateBeginAndEndOfConcept in class org.mitre.medfacts.i2b2.api.SingleDocumentProcessor

calculateBeginAndEndOfConcept

public java.util.List<org.mitre.medfacts.zoner.LineAndTokenPosition> calculateBeginAndEndOfConcept(int problemBegin,
                                                                                                   int problemEnd)