[CTAKES-288] Severity not set for DiseaseDisorderMention

• Type: Bug
• Status: Resolved
• Priority: Minor
• Resolution: Fixed
• Affects Version/s: 3.1.1
• Fix Version/s: 3.2.0
• Component/s: ctakes-relation-extractor, ctakes-template-filler
• Assignee: James Joseph Masanz
• Reporter: Pei Chen
• Created: 20/Mar/14 14:37
• Updated: 20/Mar/14 18:45
• Resolved: 20/Mar/14 18:45

Description

>
> If I'm reading this logic correctly, it will only populate severity for
> SignSymptomMention.... Can't think of why not to populate it if it exists in
> the BinaryTextRelations-
> have you tried adding: ddm.setSeverity(degreeOfTextRelation); instead
> of logging the error ???
>
> if (eventMention instanceof
> DiseaseDisorderMention)

{ > DiseaseDisorderMention ddm = > (DiseaseDisorderMention) eventMention; > logger.error("Need to implement attr for " + relation + " for > DiseaseDisorderMention"); > }

else if (eventMention instanceof
> SignSymptomMention) {
> SignSymptomMention ssm =
> (SignSymptomMention) eventMention;
>
> ssm.setSeverity(degreeOfTextRelation);
>
> Would you mind

> > > > Hi,
> > > >
> > > > I am trying to output the relations associated with
> > > DiseaseDisorderMentions
> > > > and other types. But I want to start by iterating over
> > > > DiseaseDisorderMention, not BinaryTextRelations since I want to
> > > > be sure
> > > to
> > > > find them all, even if they have no associated relation.
> > > >
> > > > I always get null when using any of the getters like
> > > > "getSeverity()". I
> > > am
> > > > using the example text "He had a slight fracture in the proximal
> > > > right
> > > fibula".
> > > > When I iterate over BinaryTextRelations, I see the following
> > > > valid
> > > values:
> > > > BinaryTextRelation slightFracture = iterator.next();
> > > > slightFracture.getArg1().getArgument().getCoveredText() is "fracture"
> > > > slightFracture.getArg2().getArgument().getCoveredText() is "slight".
> > > > However, for the "fracture" DiseaseDisorderMention,
> > > > getSeverity() is
> > > null.
> > > > If it wasn't, I would then grab
> > > > disease.getSeverity().getArg1().getArgument().getCoveredText(),
> > > > or for Arg2.
> > > >
> > > > Thanks,
> > > > Chase
> > >