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https://issues.apache.org/jira/browse/CTAKES-450?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=16729085#comment-16729085
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Kean Kaufmann commented on CTAKES-450:
--------------------------------------
Fine with me, but it would be good to make sure it's actually fixed. :-)
Have you got the current codebase set up such that you can run
the TestCDASegmentAnnotator and see if it gets those last two segments?
MEDICATION USE
History
Thanks for checking.
On Tue, Dec 25, 2018 at 12:00 PM Sean Finan (JIRA) <j...@apache.org> wrote:
> CDASegmentAnnotator misses all headings after empty segment
> -----------------------------------------------------------
>
> Key: CTAKES-450
> URL: https://issues.apache.org/jira/browse/CTAKES-450
> Project: cTAKES
> Issue Type: Bug
> Components: ctakes-core
> Reporter: Kean Kaufmann
> Priority: Major
> Attachments: CDASegmentAnnotator-empty-segment.CTAKES-450.svn.patch,
> CDASegmentAnnotator.diff
>
>
> If the CDASegmentAnnotator encounters an empty segment, it throws away
> everything after that in the document. You can see this in the test document
> provided for TestCDASegmentAnnotator. The heading "CURRENT HEALTH STATUS" is
> followed immediately by the heading "Medications"; the test case misses the
> "Medications" heading, and "FAMILY HISTORY" after that. The sorted_segments
> loop is only incrementing the index variable for non-empty segments.
> Patch attached.
> TestCDASegmentAnnotator output before fix (with getPreferredText()):
> Segment:2.16.840.1.113883.10.20.22.1.1 Begin:92 End:159: Header
> Segment:1.3.6.1.4.1.19376.1.5.3.1.1.13.2.1 Begin:176 End:1612: CHIEF COMPLAINT
> Segment:2.16.840.1.113883.10.20.22.2.20 Begin:1634 End:1696: HISTORY OF PAST
> ILLNESS
> Segment:2.16.840.1.113883.10.20.22.2.2.1 Begin:1711 End:2271: History of
> immunizations
> After fix:
> Segment:2.16.840.1.113883.10.20.22.1.1 Begin:92 End:159: Header
> Segment:1.3.6.1.4.1.19376.1.5.3.1.1.13.2.1 Begin:176 End:1612: CHIEF COMPLAINT
> Segment:2.16.840.1.113883.10.20.22.2.20 Begin:1634 End:1696: HISTORY OF PAST
> ILLNESS
> Segment:2.16.840.1.113883.10.20.22.2.2.1 Begin:1711 End:2271: History of
> immunizations
> Segment:2.16.840.1.113883.10.20.22.2.1.1 Begin:2307 End:3506: HISTORY OF
> MEDICATION USE
> Segment:2.16.840.1.113883.10.20.22.2.15 Begin:3522 End:5608: Family History
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