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From Leonard Jacuzzo <>
Subject Re: Expected Results
Date Thu, 25 Oct 2012 12:34:58 GMT
Thanks Sean!

I was wondering about dosages and frequencies. In the documentation it
suggests that the DrugNER will pick out stuff like that, but I don't see

When I view these with the UIMA annotatin viewer, there are fields like
those that are not populated, though the text has things like 'once a day'..

Tester1 is the file I ran through the Drug NER pipeline.


On Thu, Oct 25, 2012 at 1:27 AM, Masanz, James J. <>wrote:

> Below is the response from Sean Murphy:
> -----------------------------------------------------------------
> Hello Leonard,
>         I would be happy to assist in any way I can.   I want to
> be sure I understand what type of behavior you are expecting.   I'm
> using the CVD application to view the one of processed tester*.xml files
> you provided.  Other than missing the 'multivitamin' mention I see that
> most drugs are discovered in the medication list.  Is it how the
> annotations attributes are being picked up (or missed) or something else
> that you are anticipating?
>         Thanks,
>         ~Sean
> From:[mailto:
>] On
> Behalf Of Leonard Jacuzzo
> Sent: Tuesday, October 23, 2012 5:13 PM
> To:
> Subject: Expected Results
> Dear List,
> I have been experimenting with cTAKES. It looks promising, but I am
> wondering whether or not I am getting the expected results.
> I have attached a text file that is a transcription example I found on
> line. tester1 is the textfile. tester.txt.xml is the result of running the
> AggregateUMLSplaintext cdp. tester1.txt.xml is the result of running a CPE
> with DrugNER(Plaintext UMLS) aggregate analysis engine. I have attached the
> CPE description here as LJFDRNER.xml...
> If it is not too much trouble, I am hoping that someone that is familiar
> with the expected outputs will take a look at these to see if this is what
> is expected.
> The Drug NER does not seem to do what I expected.
> Any help will be greatly appreciated.
> Best wishes,
> Leonard

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