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From "Savova, Guergana" <Guergana.Sav...@childrens.harvard.edu>
Subject RE: Scaling cTakes
Date Fri, 05 Dec 2014 18:24:42 GMT
Hi Brandon,
Our estimate of how long it takes to process a document is under a second with the fast dictionary
lookup I believe. Sean can provide more details. 

-----Original Message-----
From: Finan, Sean [mailto:Sean.Finan@childrens.harvard.edu] 
Sent: Friday, December 05, 2014 1:21 PM
To: dev@ctakes.apache.org
Subject: RE: Scaling cTakes

Hi Brandon,

It sounds like you've got  a decent pipeline set up.  To increase the speed you could try
swapping out use of ctakes-dictionary-lookup with ctakes-dictionary-lookup-fast in the AE.
 Check ctakes-clinical-pipeline/desc/[ae]/AggregatePlaintextFastUMLSProcessor.xml for an example.
 As for the CASPool, I don't think that it will make any difference for cTakes.  

From: Geise, Brandon D. [bdgeise@geisinger.edu]
Sent: Friday, December 05, 2014 12:40 PM
To: dev@ctakes.apache.org
Subject: Scaling cTakes


I'm new to cTakes and the UIMA framework.  I've read most of the UIMA documentation and was
able to take the BagofCUIGenerator example and modify to read notes from a DB, process using
the UMLS AE in the clinical-pipeline using a local DB version of UMLS, and output the CUIs
to a DB.  However, the problem I'm having is it's extremely slow; ~3.5-4 notes a minute. 
I was hoping I could get some hints or advice on speeding the process up.  I read there's
a patch for LVG, but wasn't quite sure how to implement.  Also from testing using the CPE
GUI, I don't notice any different in processing time by adjusting the CASPool setting.  Some
advice on the CASPool would be appreciated also.


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