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From "Finan, Sean" <Sean.Fi...@childrens.harvard.edu>
Subject RE: Preparing for an Apache cTAKES 3.2 Release?
Date Mon, 16 Jun 2014 15:35:18 GMT
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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