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From "James Joseph Masanz (JIRA)" <j...@apache.org>
Subject [jira] [Created] (CTAKES-435) AE descriptors for processing CDA input is using deprecated assertion annotators
Date Thu, 20 Apr 2017 18:38:04 GMT
James Joseph Masanz created CTAKES-435:
------------------------------------------

             Summary: AE descriptors for processing CDA input is using deprecated assertion
annotators
                 Key: CTAKES-435
                 URL: https://issues.apache.org/jira/browse/CTAKES-435
             Project: cTAKES
          Issue Type: Bug
          Components: ctakes-assertion, ctakes-clinical-pipeline
    Affects Versions: 4.0.0
            Reporter: James Joseph Masanz
            Assignee: James Joseph Masanz
            Priority: Minor
             Fix For: future enhancement



Found while testing rc3 for 4.0.0. This looks like something that can be fixed in the next
point release. Users can get an updated .xml file if they need a fix for this, which will
use the later version of the assertion annotators

Symptoms:
Using AggregateCdaUMLSProcessor.xml or AggregateCdaProcessor.xml

Might notice the following warnings while loading the AE:

 WARN BatchRunner - This class cannot be used until CTAKES-76 is implemented.
 WARN JarafeMEDecoder - This class cannot be used until CTAKES-76 is implemented.

The following occur when running the AE against a document:
  WARN SingleDocumentProcessor - This class cannot be used until CTAKES-76 is implemented.
  WARN SingleDocumentProcessor - This class cannot be used until CTAKES-76 is implemented.
  WARN SingleDocumentProcessor - This class cannot be used until CTAKES-76 is implemented.

And when run the AE, a stack trace that includes:

Caused by: java.lang.NullPointerException
	at org.apache.ctakes.assertion.medfacts.AssertionAnalysisEngine.process(AssertionAnalysisEngine.java:213)
	at org.apache.uima.analysis_component.JCasAnnotator_ImplBase.process(JCasAnnotator_ImplBase.java:48)
	at org.apache.uima.analysis_engine.impl.PrimitiveAnalysisEngine_impl.callAnalysisComponentProcess(PrimitiveAnalysisEngine_impl.java:396)
	... 51 more




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