Dear Sean and Co.,
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. Please help shed some light. The actual sentences that trigger
this loop is the following. Thank you very much for your help!
Best,
Chen
Example Triggering sentences:
"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)
Chen Lin
Applications Development Specialist
Children's Hospital Boston
Informatics Program
300 Longwood Avenue
Enders 142
Boston, MA 02115
Phone: 617-919-3421
chen....@childrens.harvard.edu<mailto:chen....@childrens.harvard.edu>
