Nick,
When you mean no medication is being annotated, I presume you mean the
medication attributes (i.e. dosage, frequency, etc.) are not being
annotated? I think the DrugNER needs a list of section names in the
config; I think it includes SIMPLE_SEGMENT. I am very surprised that
...@apache.org]
Sent: Tuesday, September 09, 2014 2:54 PM
To: dev@ctakes.apache.org
Subject: Re: Ctakes to process 5000K recoreds
Nick,
When you mean no medication is being annotated, I presume you mean the
medication attributes (i.e. dosage, frequency, etc.) are not being annotated?
I think the DrugNER
/segment identified.
Are you getting any annotations at all?
-Original Message-
From: Nick Nikandish [mailto:snika...@emerginghealthit.com]
Sent: Tuesday, September 09, 2014 2:02 PM
To: dev@ctakes.apache.org
Subject: RE: Ctakes to process 5000K recoreds
Pei,
I need the name of the medications
To: dev@ctakes.apache.org
Subject: RE: Ctakes to process 5000K recoreds
James,
Do you have any suggestion about running cTakes with minimum annotators that
can return Medications in DictionaryLookupAnnotator?
Thanks,
Nick
-Original Message-
From: Masanz, James J. [mailto:masanz.ja
From: Nick Nikandish [snika...@emerginghealthit.com]
Sent: Tuesday, September 09, 2014 4:10 PM
To: dev@ctakes.apache.org
Subject: RE: Ctakes to process 5000K recoreds
Thanks, let me try it.
Nick
-Original Message-
From: Masanz, James J. [mailto:masanz.ja...@mayo.edu]
Sent: Tuesday
@ctakes.apache.org
Subject: RE: Ctakes to process 5000K recoreds
Hi Nick,
I think that the bottleneck is probably the lookup module itself. So, I just
sent you a secure email/ftp link. It contains a build of the new
dictionary-lookup-fast module. Should you choose to try it, let me know how
things
To: dev@ctakes.apache.org
Subject: RE: Ctakes to process 5000K recoreds
Hi Sean,
Many thanks, I will try it tomorrow. Do you have any special instruction to run
that scrip or I have to use it with cTakes?
Thanks,
Nick
-Original Message-
From: Finan, Sean [mailto:sean.fi
@ctakes.apache.org
Subject: RE: Ctakes to process 5000K recoreds
Just use it with cTakes. Instead of removing other modules from the
pipeline, replace the dictionary-lookup with dictionary-lookup-fast.
For the
desc/ctakes-clinical-pipeline/desc/analysis_engine/AggregatePlaintextUMLSProcessor.xml
, you
:39 PM
To: dev@ctakes.apache.org
Subject: RE: Ctakes to process 5000K recoreds
Just use it with cTakes. Instead of removing other modules from the
pipeline, replace the dictionary-lookup with dictionary-lookup-fast.
For the
desc/ctakes-clinical-pipeline/desc/analysis_engine
