Chen Lin created CTAKES-246:
-------------------------------
Summary: 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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