Hi Kim, This actually looks like a pretty good bug fix. It seems like you already have the code/patch, should we just commit it to trunk once you verify the fix?
--Pei From: Kim Ebert [mailto:[email protected]] Sent: Monday, April 15, 2013 4:41 PM To: Deepal Dhariwal Cc: [email protected]; [email protected] Subject: Re: Regarding inconsistency in UMLS Dictionary Lookup Annotator Hi Deepal, I have a patch for cTAKES 2.5 to resolve the problem of batch processing returning fewer results as processing continues due to the permutation list becoming corrupt. https://issues.apache.org/jira/browse/CTAKES-146 The patch should still apply to ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/algorithms/FirstTokenPermutationImpl.java Thanks, Kim Ebert 1.801.669.7342 Perfect Search Corp http://www.perfectsearchcorp.com/ On 04/15/2013 01:53 PM, Deepal Dhariwal wrote: Hello Kim, Yeah when I processed record individually blood pressure was annotated as a medical concept. Can you kindly explain the reason behind this difference in behavior. Thanks so much. Regards Deepal Dhariwal On Mon, Apr 15, 2013 at 3:39 PM, Kim Ebert <[email protected]<mailto:[email protected]>> wrote: Hi Deepal, Trying running the records individually and see if it identifies the terms correctly; if so I may have an idea of the problem. Thanks, Kim Ebert 1.801.669.7342<tel:1.801.669.7342> Perfect Search Corp http://www.perfectsearchcorp.com/ On 04/15/2013 01:36 PM, Deepal Dhariwal wrote: Hello Kim, The records were processed in a batch using UIMA Collection processing Engine. The parameters for UIMA CPE were as follows: Descriptor: UIMA File System Collection Reader Analysis Engine: cTAKES Aggregate UMLS Plaintext Processor CAS Consumer: XMI Writer CAS Consumer Thanks Deepal Dhariwal On Mon, Apr 15, 2013 at 3:31 PM, Kim Ebert <[email protected]<mailto:[email protected]>> wrote: Hi Deepal, Was either record processed in a batch of records? Or where they processed as individual records? Kim Ebert 1.801.669.7342<tel:1.801.669.7342> Perfect Search Corp http://www.perfectsearchcorp.com/ On 04/15/2013 12:49 PM, Deepal Dhariwal wrote: > Hello all, > > I have 2 medical records with the following content: > > Record 1 : > He went to the hospital Emergency Room where his blood pressure was > 120 / 80 , heart rate 94. > > Record 2: > Weight 197 lbs, up to 6 lbs, blood pressure 128/88, heart rate 70 . > > In the first record blood pressure is getting annotated as a Clinical > Entity Mention and a Medical Concept while in second record blood > pressure is not getting annotated as a clinical entity. > > Could someone shed some light on why the difference in behavior ? I > have attached the screenshots for reference. > > Regards > Deepal Dhariwal
