org.apache.ctakes.drugner.ae

Class DrugMentionAnnotator

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.drugner.ae.DrugMentionAnnotator

All Implemented Interfaces:

org.apache.uima.analysis_component.AnalysisComponent

@PipeBitInfo(name="Drug Mention Annotator",
             description="Creates modifier annotations needed to handle the drug mentions.",
             dependencies={SECTION,BASE_TOKEN},
             products=IDENTIFIED_ANNOTATION)
public class DrugMentionAnnotator
extends org.apache.uima.analysis_component.JCasAnnotator_ImplBase

Finds tokens based on context. There are two major groupings or ranges that will be used to create the additional annotations needed to handle the drug mentions used to represent the status changes.

Author:

Mayo Clinic

Field Summary

Fields

Modifier and Type	Field and Description
static String	BOUNDARY_ANN_TYPE Annotation type that defines the boundary within which the dictionary hits should be present.
static String	DISTANCE
static String	DISTANCE_ANN_TYPE Annotation type that is used to count the distance.
static org.apache.log4j.Logger	iv_logger
static int	NO_ANNOTATION_TYPE_SPECIFIED
static int	NO_WINDOW_SIZE_SPECIFIED
static String	PARAM_SEGMENTS_MEDICATION_RELATED This identifies the section ids that will be considered in generating DrugMentionAnnotaitons

Constructor Summary

Constructors

Constructor and Description
DrugMentionAnnotator()

Method Summary

Modifier and Type	Method and Description
void	initialize(org.apache.uima.UimaContext annotCtx)
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

Field Detail

iv_logger

public static org.apache.log4j.Logger iv_logger

PARAM_SEGMENTS_MEDICATION_RELATED

public static final String PARAM_SEGMENTS_MEDICATION_RELATED

This identifies the section ids that will be considered in generating DrugMentionAnnotaitons

See Also:

Constant Field Values

DISTANCE

public static String DISTANCE

DISTANCE_ANN_TYPE

public static String DISTANCE_ANN_TYPE

Annotation type that is used to count the distance.

BOUNDARY_ANN_TYPE

public static String BOUNDARY_ANN_TYPE

Annotation type that defines the boundary within which the dictionary hits should be present.

NO_WINDOW_SIZE_SPECIFIED

public static int NO_WINDOW_SIZE_SPECIFIED

NO_ANNOTATION_TYPE_SPECIFIED

public static int NO_ANNOTATION_TYPE_SPECIFIED

Constructor Detail

DrugMentionAnnotator

public DrugMentionAnnotator()

Method Detail

initialize

public void initialize(org.apache.uima.UimaContext annotCtx)
                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