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Posted to notifications@ctakes.apache.org by "Chen Lin (JIRA)" <ji...@apache.org> on 2013/09/25 15:48:02 UTC
[jira] [Commented] (CTAKES-246) DrugMentionAnnotator falls to
infinite loop for some expression
[ https://issues.apache.org/jira/browse/CTAKES-246?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=13777481#comment-13777481 ]
Chen Lin commented on CTAKES-246:
---------------------------------
Several more triggering sentences:
1>
Back on prednisone 5 daily for RA since 2/09.
Peak flows decreased from 450/500 --> 350 on Flovent 1 BID, with SOB and increased albuterol use. No nocturnal symptoms. Now back to normal on Flovent 2 BID.
2>
\t3/16/92 VISIT REPORTS PAIN IS SIGNIFICANTLY IMPROVED BUT STILL SIGNIFICANTLY SYMPTOMATIC. TEGRETOL LEVEL 1/15/92 WAS 4.4 AND DOSE INCREASED FROM 200 BID TO 200 TID. WILL RECHECK LEVEL AND CBC TODAY.
> DrugMentionAnnotator falls to infinite loop for some expression
> -----------------------------------------------------------------
>
> Key: CTAKES-246
> URL: https://issues.apache.org/jira/browse/CTAKES-246
> Project: cTAKES
> Issue Type: Bug
> Components: ctakes-drug-ner
> Affects Versions: 3.1
> Reporter: Chen Lin
> Priority: Minor
>
> I was using an older version of cTAKES (Revision: 1479606, the version right before type-system changed for adding more eventMentioins from entities) to process some notes. One note seems trigger DrugMentionAnnotator to an infinite loop. The error message was attached below. This error didn't occur with the newest trunk version. I am thus wondering if this was a known bug and has been fixed in some way. My situation is that I cannot switch to the latest version of trunk, because my down-streaming pipeline was relying on the old eventMentions.
> The actual sentences that trigger this loop is the following.
> "Blah of increased pain him long standing MS Contin was increased from 15 mg. q12 hours to 60 mg. q.12 hours."
> Oddly, it worked fine if the text was "q24 hours."
> Error message:
> Caused by: java.lang.StackOverflowError
> at org.apache.ctakes.typesystem.type.textsem.EventMention.<init>(EventMention.java:45)
> at org.apache.ctakes.typesystem.type.textsem.MedicationEventMention.<init>(MedicationEventMention.java:58)
> at org.apache.ctakes.drugner.ae.DrugMentionAnnotator.generateAdditionalNER(DrugMentionAnnotator.java:2117)
> at org.apache.ctakes.drugner.ae.DrugMentionAnnotator.statusChangePhraseGenerator(DrugMentionAnnotator.java:2100)
> at org.apache.ctakes.drugner.ae.DrugMentionAnnotator.generateDrugMentionsAndAnnotations(DrugMentionAnnotator.java:1397)
> at org.apache.ctakes.drugner.ae.DrugMentionAnnotator.generateAdditionalNER(DrugMentionAnnotator.java:2270)
> at org.apache.ctakes.drugner.ae.DrugMentionAnnotator.statusChangePhraseGenerator(DrugMentionAnnotator.java:2100)
> at org.apache.ctakes.drugner.ae.DrugMentionAnnotator.generateDrugMentionsAndAnnotations(DrugMentionAnnotator.java:1397)
> at org.apache.ctakes.drugner.ae.DrugMentionAnnotator.generateAdditionalNER(DrugMentionAnnotator.java:2270)
> at org.apache.ctakes.drugner.ae.DrugMentionAnnotator.statusChangePhraseGenerator(DrugMentionAnnotator.java:2100)
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