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Comment: added mention of "ERROR PipelineBuilder - No Collection Reader specified."

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You can view information in the XMI files using the UIMA Cas Visual Debugger (CVD). See the cTAKES 4.0 Component Use Guide for reference.

  1. Execute bin/runctakesCVD
  2. Select File > Read Type System File
  3. Select TypeSystem.xml in resources/org/apache/ctakes/typesystem/types/
  4. Select File > Read XMI CAS File
  5. Select any .xmi file in your outputDirectory

Selections in the tree on the left can provide highlighting in the document text on the right.  Browsing annotations is not necessarily straightforward.  Reference the CVD main area documentation if necessary.for how to use the CVD. See the cTAKES 4.0 Component Use Guide for cTAKES annotations and attributes.

For cTAKES 4.0, if runClinicalPipeline fails with "ERROR PipelineBuilder - No Collection Reader specified.", verify that you used  -i inputDirectory 

Info

The command line bin/runClinicalPipeline runs the Piper File DefaultFastPipeline.piper in resources/org/apache/ctakes/clinical/pipeline/

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