Hi Sean, Thanks so much for your reply. For now I don’t care about the secondary codes and I for sure have < 1000 terms. Can you tell me how to wire up the BSV file by editing specific places in cTAKES? What specific commands should I run or what format should the BSV file look like? I must admit I have never heard of BSV files and the Internet varies on these between Bluespec System Verilog and BASIC bsave files.
Then after I make the BSV file, what steps next? Recompile cTAKES? Can I take the BSV file and simply point to it from a binary installation of cTAKES? Thank you! Cheers, Chris ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ Chris Mattmann, Ph.D. Chief Architect Instrument Software and Science Data Systems Section (398) NASA Jet Propulsion Laboratory Pasadena, CA 91109 USA Office: 168-519, Mailstop: 168-527 Email: [email protected] WWW: http://sunset.usc.edu/~mattmann/ ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ Adjunct Associate Professor, Computer Science Department University of Southern California, Los Angeles, CA 90089 USA ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ -----Original Message----- From: "Finan, Sean" <[email protected]> Reply-To: "[email protected]" <[email protected]> Date: Tuesday, October 6, 2015 at 8:05 AM To: "[email protected]" <[email protected]> Subject: RE: How to update cTAKES so that new top level categories come out based on local dictionary? >Hi Chris, > >There are a few ways to do this: >1. Create an additional dictionary with the terms of interest and add it >as a source >2. Create a new dictionary hsqldb that contains everything, old and new >3. Add to the existing hsqldb dictionary > >The best approach for you would probably depend upon >1. How many new terms you have >2. Whether or not you desire additional codes, i.e. rxnorm, snomed > >If you don't have many new terms (<1000) and you don't care about >secondary codes then the easiest thing would be to create a BSV file with >the new terms and cuis. > >If you have a lot of new terms or do care about secondary codes, then a >less facile solution would be to create a new hsqldb with only the new >info or a complete replacement with new and old/existing terms. Of the >two hsql options creating a new all-inclusive database would probably be >easier unless you want to learn the ins and outs of hsql. If all of the >terms are in the umls, then the new all-inclusive hsqldb would definitely >be easiest (I think) as you could use the dictionary tool to create it. > >If you let me know your exact situation then I may be able to better >expound. > >Sean > >-----Original Message----- >From: Mattmann, Chris A (3980) [mailto:[email protected]] >Sent: Monday, October 05, 2015 7:36 PM >To: [email protected] >Subject: How to update cTAKES so that new top level categories come out >based on local dictionary? > >Hi cTAKES team, > > > >Hope you’re well! I had a quick question. I was wondering if someone > >could provide me a step-by-step guide to updating cTAKES to be based > >off a local dictionary, so that in addition to e.g., > > > >ProceduralMention > > Value1 position etc > > Value2 position etc > > > >MedicationMention > > Value1 position etc > > Value2 position etc > > > > > >NewTopLevelCategoryFromMyDictionary > > FoundValue1 position etc > > FoundValue2 position etc > > > > > >I realize this has something to do with updating the annotation > >descriptions etc in XML, so if I someone just could tell me what > >to update I’d really appreciate it. > > > >Thank you! > > > >Cheers, > >Chris > > > >++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ > >Chris Mattmann, Ph.D. > >Chief Architect > >Instrument Software and Science Data Systems Section (398) > >NASA Jet Propulsion Laboratory Pasadena, CA 91109 USA > >Office: 168-519, Mailstop: 168-527 > >Email: [email protected] > >WWW: >https://urldefense.proofpoint.com/v2/url?u=http-3A__sunset.usc.edu_-7Ematt >mann_&d=BQIGaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=fs67GvlGZst >TpyIisCYNYmQCP6r0bcpKGd4f7d4gTao&m=MEZE0aOE5pBHul1QA3A9xWbiwS6LzZaIq2rMw9a >jiB0&s=cvi79MY1__guvBRsQmsYfc39lqPvv-1Yx1Pg8g5B0QU&e= > >++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ > >Adjunct Associate Professor, Computer Science Department > >University of Southern California, Los Angeles, CA 90089 USA > >++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ > > > > > > >
