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From "Glover, Jessica" <Jessica.Glo...@ssa.gov>
Subject RE: Integrate cTakes with latest UMLS DB
Date Tue, 29 Mar 2016 11:47:23 GMT
Hi Stuti,

One thing to note about the dictionary tool is that it is still in sandbox mode, so there
is no official documentation or step-by-step guide for it. However, it contains a readme,
and it has been discussed on the mailing list, so you can search the archive for that "documentation."

Searchable cTakes mailing list archive: http://ctakes.markmail.org/search/


From: Stuti Awasthi [mailto:stutiawasthi@hcl.com]
Sent: Tuesday, March 29, 2016 7:10 AM
To: 'user@ctakes.apache.org'
Subject: RE: Integrate cTakes with latest UMLS DB

Hi All,
Any help will be good. Im still waiting for some response.

Thanks &Regards
Stuti Awasthi

From: Stuti Awasthi
Sent: Monday, March 28, 2016 2:46 PM
To: user@ctakes.apache.org<mailto:user@ctakes.apache.org>
Subject: Integrate cTakes with latest UMLS DB

Hi All,
I have been exploring cTakes and wanted to use latest UMLS 2015ab with it. To achieve the
same, I have installed UMLS in mysql database.

Database Name: umls
Numbers of Tables created : 53
Eg : mysql> show tables;
| Tables_in_umls           |
| AMBIGLUI                 |
| AMBIGSUI                 |
| DELETEDCUI               |
| DELETEDLUI               |
| SRSTRE1                  |
| SRSTRE2                  |

Now im not able to find any step by step guide to integrate cTakes with umls database.
Here is what I have done :
1) Modified DictionaryLookupAnnotatorDB.xml with jdbc url of my database along with username
and password.

Now I believe I also need to modify LookupDesc_DB.xml with some umls tablename which can get
cui, tui and text info.
I need some help , which table should I be pointing to lookup ? Also after is there any other
step or I should be good in executing clinical pipeline with umls database.
Also please point some steps guide/document of available for cTakes integration with UMLS.

Thanks &Regards
Stuti Awasthi

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