Package de.julielab.jcore.consumer.bc2gmformat

Class BC2GMFormatWriter

java.lang.Object

org.apache.uima.analysis_component.AnalysisComponent_ImplBase

org.apache.uima.analysis_component.Annotator_ImplBase

org.apache.uima.analysis_component.JCasAnnotator_ImplBase

de.julielab.jcore.consumer.bc2gmformat.BC2GMFormatWriter

All Implemented Interfaces:

org.apache.uima.analysis_component.AnalysisComponent

public class BC2GMFormatWriter
extends org.apache.uima.analysis_component.JCasAnnotator_ImplBase

Field Summary

Fields

Modifier and Type	Field	Description
static String	PARAM_GENE_FILE
static String	PARAM_OUTPUT_DIR
static String	PARAM_SENTENCES_FILE

Constructor Summary

Constructors

Constructor	Description
BC2GMFormatWriter()

Method Summary

Modifier and Type	Method	Description
TreeMap<Integer,Integer>	buildWSMap(String text)
void	collectionProcessComplete()
void	initialize(org.apache.uima.UimaContext aContext)
void	process(org.apache.uima.jcas.JCas aJCas)

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

PARAM_OUTPUT_DIR

public static final String PARAM_OUTPUT_DIR

See Also:

Constant Field Values

PARAM_SENTENCES_FILE

public static final String PARAM_SENTENCES_FILE

See Also:

Constant Field Values

PARAM_GENE_FILE

public static final String PARAM_GENE_FILE

See Also:

Constant Field Values

Constructor Detail

BC2GMFormatWriter

public BC2GMFormatWriter()

Method Detail

initialize

public void initialize(org.apache.uima.UimaContext aContext)
                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 aJCas)
             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

collectionProcessComplete

public void collectionProcessComplete()
                               throws org.apache.uima.analysis_engine.AnalysisEngineProcessException

Specified by:

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

Overrides:

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

Throws:

org.apache.uima.analysis_engine.AnalysisEngineProcessException

buildWSMap

public TreeMap<Integer,Integer> buildWSMap(String text)