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From "ASF subversion and git services (JIRA)" <j...@apache.org>
Subject [jira] [Commented] (CTAKES-368) Allow alternate CUI formats in fast dictionary lookup module
Date Thu, 09 Jul 2015 19:39:04 GMT

    [ https://issues.apache.org/jira/browse/CTAKES-368?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14621130#comment-14621130
] 

ASF subversion and git services commented on CTAKES-368:
--------------------------------------------------------

Commit 1690150 from [~seanfinan] in branch 'ctakes/trunk'
[ https://svn.apache.org/r1690150 ]

CTAKES-368  Adding capability to use custom cui prefixes

> Allow alternate CUI formats in fast dictionary lookup module
> ------------------------------------------------------------
>
>                 Key: CTAKES-368
>                 URL: https://issues.apache.org/jira/browse/CTAKES-368
>             Project: cTAKES
>          Issue Type: Improvement
>          Components: ctakes-dictionary-lookup
>    Affects Versions: 3.2.2
>            Reporter: britt fitch
>            Assignee: Sean Finan
>             Fix For: 3.2.3
>
>
> The current fast lookup using a BSV parses the first field as “C” and up to 7 numerals,
padding with “0" as needed to reach that length when applicable [see CuiCodeUtil.getCuiCode(String)]
> The CUI string is then substring’d from 1 to len and parsed as a Long.
> This is producing issues with other related, but separate, ontologies (MedGen) where
the bulk of concepts use UMLS CUIs but some additional concepts were created by the NCBI where
no CUI previously existed.
> These MedGen-specific concepts are created with a prefix “CN” + 6 numerals, resulting
in “N123456” failing to produce a Long.
> It is preferred to allow alternative CUI formats.



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