Sean, Thanks for the response. I m interested in testing this but unfortunately the infrastructure issues I have currently is stopping me from doing this. That's why the apology for my helplessness currently. Will have a check once my setup is ready but at this point the timelines are not clear to me.
On Friday, January 11, 2019, Finan, Sean <sean.fi...@childrens.harvard.edu> wrote: > Hi Gandhi, > > It would be great if you could test this! Why are you sorry? > > - I shouldn't have said "let me know", but rather "let the group know" or > something like that. > > > Cheers, > Sean > > ________________________________________ > From: gandhi rajan <gandhiraja...@gmail.com> > Sent: Friday, January 11, 2019 12:35 PM > To: dev@ctakes.apache.org > Subject: Re: AggregateCdaUmlsprocessor only annotates last section of CDA > document [EXTERNAL] > > Sorry Sean. I would love to do this but my old setup is all gone with my > previous organization. Gotta do a fresh setup in my personal machine all > over again. Sorry about that. > > On Friday, January 11, 2019, Finan, Sean <sean.fi...@childrens.harvard.edu > > > wrote: > > > Hi Sana, > > > > This might be related to > > > > https://urldefense.proofpoint.com/v2/url?u=https-3A__issues. > apache.org_jira_browse_CTAKES-2D450-3Ffilter-3D&d=DwIBaQ&c= > qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r= > fs67GvlGZstTpyIisCYNYmQCP6r0bcpKGd4f7d4gTao&m=GSH42JyRAyTSQdrgKBYhzxD- > 6j2sEhEwivjJTCh6YOQ&s=9rfxDksaU1nnkKao1IAuhngpM8fW0eVT8YWMcY-gne0&e= > > -5&jql=project%20%3D%20CTAKES%20AND%20resolution%20%3D% > > 20Unresolved%20AND%20%22Attachment%20count%22%20%3C% > 3D%20%222%22%20AND%20% > > 22Attachment%20count%22%20%3E%3D%20%221%22%20order%20by% > > 20priority%20DESC%2Cupdated%20DESC > > > > If anybody has time to test and approve the patch attached to that tar > > please let me know so that it can be checked in. > > > > Thanks, > > Sean > > ________________________________________ > > From: Sana Riaz <sana.r...@xflowresearch.com> > > Sent: Friday, January 11, 2019 5:33 AM > > To: dev@ctakes.apache.org > > Subject: AggregateCdaUmlsprocessor only annotates last section of CDA > > document [EXTERNAL] > > > > Hi, > > I am trying to process CDA documents with AggregateCdaUMLSProcessor.xml > > descriptor (clinical-pipeline). The cda document includes sections like > > problems, medications, allergies, tests etc. In the plain_view, all these > > section are visible in CVD but all the annotations extracted by > > AggregateCdaUMLSProcessor are only on last section. i.e. there's no > > annotation on the medications or problems. > > > > I've looked into CdaCasInitializer output , and it only passes one > segment > > (the last one) so all the other annotators only process on that. In > > addition to that, every section's id (including last) is assigned null as > > [start section id="null"] > > .... > > [end section id="null"] > > > > Do i have to assign section id's myself? Any suggestion would be very > > helpful. > > > > Warm Regards, > > > > Sana Riaz > > > > > -- > Regards, > Gandhi > > "The best way to find urself is to lose urself in the service of others > !!!" > -- Regards, Gandhi "The best way to find urself is to lose urself in the service of others !!!"
