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UTHealth-CCB / clamp-support

Clinical Language Annotation Modeling and Processing toolkit
http://clamp.uth.edu/
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How can I get non-null CUIs? #15

Open emmuzoo opened 6 years ago

emmuzoo commented 6 years ago

When I execute your example: "Discharge summary of a patient with mood swings and oppositional and defiant behavior."(README.txt), I get null CUIs for "mood swings" and "oppositional and defiant behavior" entities. I get the same results in "live demo" and "comand line" modes. How can I get non-null CUIs for any entities?

jingqihit commented 6 years ago

In the default clamp-ner.pipeline.jar, there is no UMLS encoder component by default. You can try to run this script: 'run_attribute_pipeline.bat/sh' to get the most comprehensive results including CUIs.

emmuzoo commented 6 years ago

I tried to run both 'run_attribute_pipeline.sh' and "run_ner_pipeline.sh" in Ubuntu 16.x, but the results are the same, I can not get non-null CUIs