edu.ucdenver.ccp.nlp.biolemmatizer.uima
Class BioLemmatizer_AE

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
                  edu.ucdenver.ccp.nlp.biolemmatizer.uima.BioLemmatizer_AE

All Implemented Interfaces:

AnalysisComponent

public class BioLemmatizer_AE
extends org.apache.uima.fit.component.JCasAnnotator_ImplBase

This annotator processes tokens in the CAS and inserts corresponding lemmas. This annotator is type-system-independent and relies on implementations of TokenAttributeExtractor, TokenAttributeInserter, and AnnotationDataExtractor in order to function as intended.

Author:

Colorado Computational Pharmacology, UC Denver; ccpsupport@ucdenver.edu

PARAM_TOKEN_TYPE_NAME

public static final String PARAM_TOKEN_TYPE_NAME

Parameter name used in the UIMA descriptor file for the token type

See Also:

Constant Field Values

PARAM_TOKEN_GET_POS_METHOD_NAME

public static final String PARAM_TOKEN_GET_POS_METHOD_NAME

Parameter name used in the UIMA descriptor file for the name of the method that returns a part-of-speech (as a String) from the token annotation

See Also:

Constant Field Values

PARAM_POS_DECORATOR_CLASS

public static final String PARAM_POS_DECORATOR_CLASS

Parameter name used in the UIMA descriptor file for the PartOfSpeechDecorator implementation to use

See Also:

Constant Field Values

PARAM_LEMMA_DECORATOR_CLASS

public static final String PARAM_LEMMA_DECORATOR_CLASS

Parameter name used in the UIMA descriptor file for the LemmaDecorator implementation to use

See Also:

Constant Field Values

PARAM_ANNOTATION_DATA_EXTRACTOR_CLASS

public static final String PARAM_ANNOTATION_DATA_EXTRACTOR_CLASS

Parameter name used in the UIMA descriptor file for the annotation data extractor implementation to use

See Also:

Constant Field Values

BioLemmatizer_AE

public BioLemmatizer_AE()

initialize

public void initialize(UimaContext context)
                throws ResourceInitializationException

Initializes the BioLemmatizer that will be used by the process(JCas) method

Specified by:

initialize in interface AnalysisComponent

Overrides:

initialize in class org.apache.uima.fit.component.JCasAnnotator_ImplBase

Throws:

ResourceInitializationException

See Also:

org.uimafit.component.JCasAnnotator_ImplBase#initialize(org.apache.uima.UimaContext)

invokeNoArgsConstructor

public static Object invokeNoArgsConstructor(String className)

Returns an instantiation of the class specified by the input String. Assumes default constructor, i.e. no arguments.

Parameters:

className -

arguments -

Returns:

process

public void process(JCas jCas)
             throws AnalysisEngineProcessException

This process(JCas) method cycles through all annotations in the CAS. For those that are identified as tokens by AnnotationDataExtractor implementation being used, an attempt is made to extract part-of-speech information. The covered text for each token is then lemmatized using the BioLemmatizer, using the part-of-speech information if it was available. Results from the BioLemmatizer are added to the CAS via the specified LemmaDecorator implementation.

Specified by:

process in class JCasAnnotator_ImplBase

Throws:

AnalysisEngineProcessException

See Also:

JCasAnnotator_ImplBase.process(org.apache.uima.jcas.JCas)

createAnalysisEngineDescription

public static AnalysisEngineDescription createAnalysisEngineDescription(TypeSystemDescription tsd,
                                                                        Class<? extends Annotation> tokenClass,
                                                                        String tokenGetPosMethodName,
                                                                        Class<? extends edu.ucdenver.ccp.uima.shims.annotation.AnnotationDataExtractor> annotationDataExtractorClass,
                                                                        Class<? extends edu.ucdenver.ccp.uima.shims.annotation.syntactic.token.LemmaDecorator> lemmaDecoratorClass)
                                                                 throws ResourceInitializationException

Initializes an AnalysisEngine that will determine lemmas for tokens that are present in the CAS

Parameters:

tsd -

tokenClass -

tokenGetPosMethodName -

annotationDataExtractorClass -

lemmaDecoratorClass -

Returns:

Throws:

ResourceInitializationException

createAnalysisEngineDescription

public static AnalysisEngineDescription createAnalysisEngineDescription(TypeSystemDescription tsd,
                                                                        String tokenType,
                                                                        Class<? extends edu.ucdenver.ccp.uima.shims.annotation.syntactic.token.PartOfSpeechDecorator> partOfSpeechDecoratorClass,
                                                                        Class<? extends edu.ucdenver.ccp.uima.shims.annotation.AnnotationDataExtractor> annotationDataExtractorClass,
                                                                        Class<? extends edu.ucdenver.ccp.uima.shims.annotation.syntactic.token.LemmaDecorator> lemmaDecoratorClass)
                                                                 throws ResourceInitializationException

Parameters:

tsd -

tokenType -

partOfSpeechDecoratorClass -

annotationDataExtractorClass -

lemmaDecoratorClass -

Returns:

Throws:

ResourceInitializationException

createAnalysisEngineDescription

public static AnalysisEngineDescription createAnalysisEngineDescription(TypeSystemDescription tsd,
                                                                        Class<? extends Annotation> tokenClass)
                                                                 throws ResourceInitializationException

Parameters:

tsd -

tokenClass -

Returns:

Throws:

ResourceInitializationException

createAnalysisEngineDescription

public static AnalysisEngineDescription createAnalysisEngineDescription(TypeSystemDescription tsd,
                                                                        Class<? extends Annotation> tokenClass,
                                                                        String tokenGetPosMethodName)
                                                                 throws ResourceInitializationException

Parameters:

tsd -

tokenClass -

tokenGetPosMethodName -

Returns:

Throws:

ResourceInitializationException