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From "Chen, Pei" <Pei.C...@childrens.harvard.edu>
Subject RE: Preparing for an Apache cTAKES 3.2 Release?
Date Tue, 17 Jun 2014 14:13:21 GMT
Yes.  It's only temporary to give folks a chance try out and transition to the new lookup algorithm
(hence, the +1 for the -fast suffix rename).
But open to biting the bullet and defaulting it now if folks are compelled to do so.

> -----Original Message-----
> From: Finan, Sean [mailto:Sean.Finan@childrens.harvard.edu]
> Sent: Monday, June 16, 2014 11:36 AM
> To: dev@ctakes.apache.org
> Subject: RE: Preparing for an Apache cTAKES 3.2 Release?
> 
> I guess that I've got one question at this point:
> 
> Is the name being given to the -new- dictionary lookup module temporary or
> permanent?
> 
> I was under the assumption that it was temporary and that with the switch to
> it being default (and eventually only) the module would simply be named
> "dictionary-lookup".
> 
> 
> 
> -----Original Message-----
> From: Masanz, James J. [mailto:Masanz.James@mayo.edu]
> Sent: Monday, June 16, 2014 11:24 AM
> To: 'dev@ctakes.apache.org'
> Subject: RE: Preparing for an Apache cTAKES 3.2 Release?
> 
> I'd rather something else than "dictionary-lookup-fast". If we come up with
> something even faster than this one, having an older one called "fast" could
> be confusing.
> 
> -----Original Message-----
> From: Dligach, Dmitriy [mailto:Dmitriy.Dligach@childrens.harvard.edu]
> Sent: Monday, June 16, 2014 9:55 AM
> To: cTAKES Developer list
> Subject: Re: Preparing for an Apache cTAKES 3.2 Release?
> 
> +1
> 
> Dima
> 
> 
> 
> 
> On Jun 16, 2014, at 9:42, Miller, Timothy
> <Timothy.Miller@childrens.harvard.edu> wrote:
> 
> > Sorry to weigh in so late on this -- just returned from vacation. If
> > we want to have a one release delay before making dictionary2 default
> > for testing/documentation/configuration purposes, and there isn't an
> > obvious function-related name, and the main difference is speed, maybe
> > we could call it dictionary-lookup-fast? Besides being accurate and
> > more descriptive than "2", it might lure people into trying it and
> > give us some feedback.
> >
> > Tim
> >
> >
> > On 06/16/2014 10:34 AM, Chen, Pei wrote:
> >> I'm making some significant updates to trunk that may cause some
> instability for this release.
> >> It should be mostly transparent, but let me know if you encounter any
> issues with trunk.
> >>
> >> Also, regarding the dictionary-lookup2.  If there are no strong objections,
> we can leave default to as-is (old behavior).  Folks who wish to give the new
> one a try are welcome to do so and we can change the default behavior in a
> future release.
> >>
> >> [ducks for cover now]
> >> --Pei
> >>
> >>> -----Original Message-----
> >>> From: ksarma@gmail.com [mailto:ksarma@gmail.com] On Behalf Of
> >>> Karthik Sarma
> >>> Sent: Wednesday, June 11, 2014 9:58 AM
> >>> To: dev@ctakes.apache.org
> >>> Subject: Re: Preparing for an Apache cTAKES 3.2 Release?
> >>>
> >>> Agreed
> >>>
> >>> On Wednesday, June 11, 2014, vijay garla <vngarla@gmail.com> wrote:
> >>>
> >>>> regardless of the name, I think it would be incredibly helpful to
> >>>> have thorough documentation on the dictionary lookup, how to
> >>>> configure it, and how to create new dictionaries.  I would venture
> >>>> to say that this is the most important component in cTAKES, and
> >>>> probably the one that has generated the most questions on the
> newsgroup.
> >>>>
> >>>>
> >>>>
> >>>> On Wed, Jun 11, 2014 at 9:21 AM, Finan, Sean <
> >>>> Sean.Finan@childrens.harvard.edu> wrote:
> >>>>
> >>>>>> . The newer NER should have in its name the Behavior...
> >>>>> I agree, but the *2 module is a complete replacement for the
> >>>>> current lookup.  It does not (really) have any different behavior,
> >>>>> just a
> >>>> different
> >>>>> implementation and performance.  We plan to swap out the old with
> >>>>> the new in the next release and get rid of the *2 suffix.  So, any
> >>>>> name provided now is just temporary - unless people don't like the
> >>>>> name "dictionary-lookup" at all.
> >>>>>
> >>>>> In my original sandbox it was named "RareWordLookup", a nod to its
> >>>>> implementation.  However, this doesn't help any users.
> >>>>>
> >>>>> Sean
> >>>>>
> >>>>> -----Original Message-----
> >>>>> From: andy mcmurry [mailto:mcmurry.andy@gmail.com]
> >>>>> Sent: Wednesday, June 11, 2014 3:09 AM
> >>>>> To: dev@ctakes.apache.org
> >>>>> Subject: Re: Preparing for an Apache cTAKES 3.2 Release?
> >>>>>
> >>>>> "2" doesn't mean much. The newer NER should have in its name the
> >>>>> Behavior...
> >>>>>
> >>>>> Perhaps something like MetaMap Usage
> >>>>> <http://metamap.nlm.nih.gov/Docs/MM09_Usage.shtml> "--
> >>> allow_overmatches"
> >>>>> or  "--allow_concept_gaps" or .....other?
> >>>>>
> >>>>> Since yTex already provides a pluggable *DictionaryLookup, *that
> >>>>> seems like the best place to define the differing Behavior /  Usage.
> >>>>>
> >>>>> https://cwiki.apache.org/confluence/display/CTAKES/User's+Guide
> >>>>> https://code.google.com/p/ytex/wiki/DictionaryLookup_V05
> >>>>>
> >>>>>
> >>>>> AndyMC
> >>>>>
> >>>>> On Tue, Jun 10, 2014 at 9:55 AM, britt fitch
> >>>>> <britt.fitch@gmail.com>
> >>>>> wrote:
> >>>>>
> >>>>>> I don't have an issue with the *-2 name. I also don't have any
> >>>>>> objections to renaming it.
> >>>>>>
> >>>>>> It might be nice to keep the old dictionary code around for
a
> >>>>>> release-worth of time but after that I would vote purging it.
> >>>>>> If someone needs it after that it'll be accessible in the
> >>>>>> archived releases.
> >>>>>>
> >>>>>>
> >>>>>>
> >>>>>> On Jun 10, 2014, at 12:48 PM, Chen, Pei
> >>>>>> <Pei.Chen@childrens.harvard.edu>
> >>>>>> wrote:
> >>>>>>
> >>>>>>> I think James has a fair point here.
> >>>>>>> It may be worthwhile biting the bullet here and push forward.
> >>>>>>>
> >>>>>>> Since this essentially will be a full replacement of the
> >>>>>> ctakes-dictionary-lookup module, a good option maybe to just
> >>>>>> replace the entire module now and rename the existing module
to *
> >>> _deprecated.
> >>>>>>> How do folks feel about that?  In a nutshell,
> >>>>>>> ctakes-dictionary-lookup-2
> >>>>>> is a faster algorithm with a simpler code base- and comparable
> >>>>>> results (Sean has a full comparison in the documentation for
> >>>>>> those who are
> >>>>> curious).
> >>>>>>> --Pei
> >>>>>>>
> >>>>>>>> -----Original Message-----
> >>>>>>>> From: britt fitch [mailto:britt.fitch@gmail.com]
> >>>>>>>> Sent: Monday, June 09, 2014 5:42 PM
> >>>>>>>> To: dev@ctakes.apache.org
> >>>>>>>> Subject: Re: Preparing for an Apache cTAKES 3.2 Release?
> >>>>>>>>
> >>>>>>>> There is some documentation in the dictionary2 module
under
> >>>>>>>> /doc/DictionaryLookupHelp.{txt | docx} that gives some
some
> >>>>>>>> details of
> >>>>>> the
> >>>>>>>> different lookup implementation options within that
module that
> >>>>>>>> I found helpful.
> >>>>>>>>
> >>>>>>>>
> >>>>>>>> On Jun 9, 2014, at 5:17 PM, Masanz, James J.
> >>>>>>>> <
> >>>
> >>>
> >>> --
> >>>
> >>>
> >>>
> >>>
> >>> --
> >>> Karthik Sarma
> >>> UCLA Medical Scientist Training Program Class of 20??
> >>> Member, UCLA Medical Imaging & Informatics Lab Member, CA
> Delegation
> >>> to the House of Delegates of the American Medical Association
> >>> ksarma@ksarma.com
> >>> gchat: ksarma@gmail.com
> >>> linkedin: www.linkedin.com/in/ksarma
> >
> > --
> > Tim Miller
> > Instructor
> > Boston Children's Hospital and Harvard Medical School
> > timothy.miller@childrens.harvard.edu
> > 617-919-1223
> >


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