Hey Ravi,
I could be mistaken and if so, hopefully, someone else from the
cTAKES community can set me straight. However, even if the dictionary resource
is shipped it will not be available until it is authorized via the
DictionaryLookupAnnotatorDB.xml in the Drug NER pipeline. There will be
fields for your user name and password within this xml file that you can
provide your authentication credentials.
Thanks,
~Sean
From: ravi garg [mailto:[email protected]]
Sent: Monday, March 10, 2014 11:21 AM
To: [email protected]
Subject: Re: How to use Drug NER
Hey Sean,
Thanx for the reply. I think what you are talking about is the
clinical-pipeline but I want to run Drug - NER pipeline. The external resources
provided has a dictionary named rxnorm_index which has around 162563 terms in
it. So I guess it should be able to annotate that, but I believe I am not using
it correctly.
Regards,
Ravi
On Mon, Mar 10, 2014 at 9:44 PM, Murphy, Sean P.
<[email protected]<mailto:[email protected]>> wrote:
Good morning Ravi,
I believe only a sample dictionary is provided which uses a simple case where
'aspirin' would be annotated. The UMLS provided dictionary will need to be
enabled to access the actual rxnorm_index. You will require a UMLS profile to
access the dictionary resource provided. There should be details on how to
include the UMLS profile and password information in your environment. Let me
know if you need further assistance.
Thanks,
~Sean
From: ravi garg [mailto:[email protected]<mailto:[email protected]>]
Sent: Monday, March 10, 2014 11:05 AM
To: [email protected]<mailto:[email protected]>
Subject: How to use Drug NER
Hey,
I am using DrugAggregatePlainTextProcessor.xml as my analysis engine annotator.
I have downloaded all the required resources by cTAKES 3.1 . I guess it uses
the rxnorm_index as the drug database. But I am not getting any annotations as
the output. Please let me know the correct way using Drug NER
Thanks,
Ravi
--
Ravi Garg
4th Year
MSc (hons) Biological Sciences
B.E (hons) Computer Science and Engineering
BITS Pilani KK Birla Goa Campus
--
Ravi Garg
4th Year
MSc (hons) Biological Sciences
B.E (hons) Computer Science and Engineering
BITS Pilani KK Birla Goa Campus
