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From "Chen, Pei" <Pei.C...@childrens.harvard.edu>
Subject RE: Regarding Assertion Tagger
Date Mon, 26 Nov 2012 17:25:03 GMT
Thanks Sean,
If the issue was just a descriptor path issue, then it was probably already fixed in 3.0 as
part of the ASF move.  
We can just verify and test it?

--Pei

> -----Original Message-----
> From: Murphy, Sean P. [mailto:Murphy.Sean@mayo.edu]
> Sent: Monday, November 26, 2012 12:21 PM
> To: Chen, Pei
> Cc: ctakes-dev@incubator.apache.org; <ctakes-user@incubator.apache.org>
> Subject: RE: Regarding Assertion Tagger
> 
> Hello Pei,
> 	I have created a bug for the 3.0 branch as well.   However, since the
> problem is related to the relative path structures being incorrectly migrated
> to the updated format,  I am not sure if the fix should be made to the
> sourceforge 2.5 version only or all releases.    The maven driven build changes
> appear to be consolidating some of these issues, but won't be in place until
> the 3.0 build has finalized.    If so, and please correct me if I'm wrong, then:
> 	1) There is no need to fix at 2.6. and
> 	2) The fix checked in at 3.0 would be the based on the old directory
> structure.
> 	Thanks,
> 		~Sean
> 
> -----Original Message-----
> From: ctakes-user-return-31-
> Murphy.Sean=mayo.edu@incubator.apache.org [mailto:ctakes-user-return-
> 31-Murphy.Sean=mayo.edu@incubator.apache.org] On Behalf Of Chen, Pei
> Sent: Thursday, November 15, 2012 3:45 PM
> To: <ctakes-user@incubator.apache.org>
> Cc: <ctakes-user@incubator.apache.org>; ctakes-dev@incubator.apache.org
> Subject: Re: Regarding Assertion Tagger
> 
> There's a 3.0.0 branch.  The release will be made from there.  So we should
> make the fixes in both trunk and 3.0.0.
> 
> 
> On Nov 15, 2012, at 10:32 PM, "Murphy, Sean P."
> <Murphy.Sean@mayo.edu> wrote:
> 
> > Hello Pei,
> >    The issue is at 2.5.   When is the 3.0 release freeze?   I will try to propagate
> the fix forward.
> >
> > -----Original Message-----
> > From: ctakes-user-return-29-
> Murphy.Sean=mayo.edu@incubator.apache.org
> > [mailto:ctakes-user-return-29-
> Murphy.Sean=mayo.edu@incubator.apache.or
> > g] On Behalf Of Chen, Pei
> > Sent: Thursday, November 15, 2012 3:15 PM
> > To: <ctakes-user@incubator.apache.org>
> > Cc: ctakes-user@incubator.apache.org; ctakes-dev@incubator.apache.org
> > Subject: Re: Regarding Assertion Tagger
> >
> > Hi Sean,
> > What was the issue in 2.5?  Just want to make sure this is also fixed in the
> upcoming 3.0 release coming out of ASF as well... Jira#?
> >
> >
> >
> > On Nov 15, 2012, at 7:59 PM, "Murphy, Sean P."
> <Murphy.Sean@mayo.edu> wrote:
> >
> >> I was able to see an issue with the 'PAD term spotter' which will most
> likely be related to the problem you're seeing with the smoking status as
> well.    The problem seems to have  stemmed from the reorganization of the
> path structures with the latest cTAKES  release.  Due to time and resource
> constraints we were not able to test each project independently.
> >>
> >> I will open a bug report against these problems and provide a fix as soon
> as possible.  I will keep you posted, but I hope to have this resolved in a few
> days.
> >>   Thanks,
> >>       ~Sean
> >>
> >> -----Original Message-----
> >> From: ctakes-user-return-26-
> Murphy.Sean=mayo.edu@incubator.apache.org
> >> [mailto:ctakes-user-return-26-
> Murphy.Sean=mayo.edu@incubator.apache.o
> >> r
> >> g] On Behalf Of Coarr, Matt
> >> Sent: Thursday, November 15, 2012 12:22 PM
> >> To: ctakes-dev@incubator.apache.org
> >> Cc: ctakes-user@incubator.apache.org
> >> Subject: Re: Regarding Assertion Tagger
> >>
> >> You were looking in the right place Deepal! The "cTAKES 2.5 Component
> Use Guide" (the link at the bottom of your email) has a link to more
> information about the assertion module.
> >>
> >> Assertion module info:
> >>
> >> https://wiki.nci.nih.gov/display/VKC/cTAKES+2.5+-+Assertion
> >>
> >> I'm not familiar with the peripheral artery disease spotter or the simulated
> prod smoking tae.  So I'll let someone else chime in there.
> >>
> >> Matt
> >>
> >>
> >> On 2012-11-15 13:11 , "Deepal Dhariwal" <deepaldhariwal@gmail.com>
> wrote:
> >>
> >>> Hello Matt,
> >>>
> >>> Thanks for your reply. I am using cTAKES-2.5.0 Binary Version which
> >>> I have downloaded from
> >>> https://wiki.nci.nih.gov/display/VKC/cTAKES+2.5+User+Install+Instruc
> >>> t
> >>> io
> >>> ns
> >>> .
> >>> I have gone through the cTAKES documentation however no where was
> it
> >>> mentioned that polarity / uncertainty properties are on Entity Mention.
> >>> In order to avoid sending repeated mails to the mailing list could
> >>> you tell me if there is some other documentation as well ? I am
> >>> trying to use Peripheral Artery Disease Spotter , however it returns
> >>> only document annotation. Further even the SimulatedProdSmokingTAE
> >>> Annotator returns smoking status 'unknown' for every input. Is there
> >>> some order in which these annotator need to be executed (Reference :
> >>>
> https://wiki.nci.nih.gov/display/VKC/cTAKES+2.5+Component+Use+Guide
> >>> )
> >>>
> >>> Thanks for clarifying the user list email id.
> >>>
> >>> Regards
> >>> Deepal Dhariwal
> >>>
> >>> On Thu, Nov 15, 2012 at 12:48 PM, Coarr, Matt <mcoarr@mitre.org>
> wrote:
> >>>
> >>>> FYI, the user list is ctakes-user (singular).  I've corrected the CC.
> >>>>
> >>>> The polarity/conditional/uncertainty properties are on
> >>>> EntityMention and EventMention.
> >>>>
> >>>> Are you using a current development copy of ctakes (from apache svn
> >>>> or from 3.0 RC2)?
> >>>>
> >>>> If not, what version of ctakes are you using?  Version number?
> >>>> Binary, source zip, or source from svn?
> >>>>
> >>>> Matt
> >>>>
> >>>>
> >>

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