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From "Tomasz Oliwa (JIRA)" <j...@apache.org>
Subject [jira] [Created] (CTAKES-370) Include smoking status in clinical pipeline
Date Wed, 15 Jul 2015 20:58:04 GMT
Tomasz Oliwa created CTAKES-370:
-----------------------------------

             Summary: Include smoking status in clinical pipeline
                 Key: CTAKES-370
                 URL: https://issues.apache.org/jira/browse/CTAKES-370
             Project: cTAKES
          Issue Type: Improvement
          Components: ctakes-clinical-pipeline, ctakes-smoking-status
    Affects Versions: 3.2.2
         Environment: Linux
            Reporter: Tomasz Oliwa
            Priority: Minor


The smoking status detection can be included in the clinical pipeline. 

Attached is a AggregatePlaintextFastUMLSProcessor.xml that has the clinical pipeline + the
smoking status detection integrated.

Currently cTAKES has smoking status resources that need to have 
their imports adjusted for any smoking status detection to work. As a workaround, in:

ProductionPostSentenceAggregate_step1.xml

change:

<import name="org.apache.ctakes.core.analysis_engine.TokenizerAnnotator"/>
<import name="org.apache.ctakes.core.analysis_engine.SentenceDetectorAnnotator"/>

to the absolute or relative path (depends on the installed system, on my machine it is) of
these annotators:

<import location="../../../../../../desc/ctakes-core/desc/analysis_engine/TokenizerAnnotator.xml"/>
<import location="../../../../../../desc/ctakes-core/desc/analysis_engine/SentenceDetectorAnnotator.xml"/>



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