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I am trying to use Apache cTAKES to detect negations in physician notes.

I have loaded the provided analysis engine apache-ctakes-3.2.2-bin\apache-ctakes-3.2.2\desc\ctakes-assertion\desc\AssertionMiniPipelineAnalysisEngine.xml in the UIMA CAS Visual Debugger.

However, when I run it, I don't see any annotation (except one uima.tcas.DocumentAnnotation):

enter image description here

Why?

I use Apache cTAKES version 3.2.2 on Windows 7 SP1 x64 Ultimate.

To run CVD, I've added my umlsuser as well as my umlspw in apache-ctakes-3.2.2\bin\runctakesCVD.bat:

java -Dctakes.umlsuser=MY_USERNAME -Dctakes.umlspw=MY_PASSWORD -cp "%CTAKES_HOME%/desc/;%CTAKES_HOME%/resources/;%CTAKES_HOME%/lib/*" -Dlog4j.configuration=file:/%CTAKES_HOME%/config/log4j.xml -Xms512M -Xmx3g org.apache.uima.tools.cvd.CVD

I've also added my UMLS username and password in \apache-ctakes-3.2.2-bin\apache-ctakes-3.2.2\desc\ctakes-dictionary-lookup\desc\analysis_engine\DictionaryLookupAnnotatorUMLS.xml.

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  • I think you can get a better answer in Stackoverflow Mar 8, 2016 at 10:33

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