yes

-----Original Message-----
From: James Masanz [mailto:masanz.ja...@gmail.com] 
Sent: Friday, March 17, 2017 11:57 AM
To: dev@ctakes.apache.org
Subject: Re: Trouble with the DictionaryTool

Do the updates you mentioned include a way to run a cTAKES pipeline through a 
GUI? If not, you might want to choose a different name than ctakes-gui for the 
module



On Fri, Mar 17, 2017 at 11:48 AM, Finan, Sean < 
sean.fi...@childrens.harvard.edu> wrote:

> Hi James,
> I actually do have an expanded version that I was going to check in 
> this weekend.  I will back out your checkin as the new module is just 
> named "ctakes-gui", having more than the dictionary creator.
> Sean
>
> -----Original Message-----
> From: James Masanz [mailto:masanz.ja...@gmail.com]
> Sent: Friday, March 17, 2017 8:13 AM
> To: dev@ctakes.apache.org
> Subject: Re: Trouble with the DictionaryTool
>
> I checked in the gui under trunk as  ctakes-dictionary-gui FYI, I 
> moved the data directory under resources It runs from source but 
> haven't tested from a jar yet.
> Sean if you make changes, please make them to the trunk version. Thanks.
>
> On Thu, Mar 16, 2017 at 5:12 PM, Finan, Sean < 
> sean.fi...@childrens.harvard.edu> wrote:
>
> > Hi Leander,
> >
> > I thought that I was saving people problems by preselecting English 
> > as the default ...  But you are the second person to request another
> language.
> >
> > I hardcoded the gui to only fetch English synonyms.  I will change 
> > this before it goes into the official release.  It is already set up 
> > for it, but I never exposed the control.
> >
> > In the class MainPanel line 179 or so has:
> > Collections.singletonList( "ENG" ),
> >
> > I think that umls uses iso 639-2, so you can swap "ENG" with "GER".
> > Iso
> > 639-3 uses DEU, so just in case one or two vocabularies have 
> > switched you could catch both with Arrays.asList( "GER", "DEU" ).
> >
> > That should do it, but let me know if it doesn't work.
> >
> > Sean
> >
> >
> > -----Original Message-----
> > From: Leander Melms [mailto:me...@students.uni-marburg.de]
> > Sent: Thursday, March 16, 2017 4:43 PM
> > To: dev@ctakes.apache.org
> > Subject: Re: Trouble with the DictionaryTool
> >
> > Sean,
> >
> > apologies for disturbing again. I'm trying to populate the db with a 
> > german translation of various sources (such as MesH, DIMDICD, ..). 
> > The UMLS install succeeded but whenever running the dictionary guy, 
> > it only fills the db with the english concepts (from RxNorm I think?).
> >
> > How is the data fetched from the UMLS install? Is it possible to use 
> > a different language than English?
> >
> > I had a quick look at the source code but couldn't find out where 
> > the problem is. Any hints are greatly appreciated.
> >
> > Leander
> >
> >
> > > On 16 Mar 2017, at 10:50, Leander Melms 
> > > <me...@students.uni-marburg.de>
> > wrote:
> > >
> > > Sorry,
> > >
> > > Should have thought before writing again.. I imported the GUI 
> > > under
> > main.java and had to fix the imports.
> > >
> > > It's working now as expected!
> > >
> > >> Am 16.03.2017 um 08:37 schrieb Leander Melms <
> > me...@students.uni-marburg.de>:
> > >>
> > >> Hi Sean,
> > >>
> > >> Thank you for the fast reply! I imported the dictionary gui into
> > eclipse (as standalone), added the lib folder to the build path and 
> > tried to compile with Java 8. Eclipse complained about ~ 200 errors.
> > >>
> > >> What am I missing here?
> > >>
> > >> Leander
> > >>
> > >>> Am 15.03.2017 um 19:16 schrieb Finan, Sean <
> > sean.fi...@childrens.harvard.edu>:
> > >>>
> > >>> Hi Leander.  I think that you would be better off using the 
> > >>> dictionary
> > gui.  It is also in sandbox, and though it was originally a wrapper 
> > interface for the cli tool, it has since been the more active 
> > project with new features and bug fixes.
> > >>>
> > >>> -----Original Message-----
> > >>> From: Leander Melms [mailto:me...@students.uni-marburg.de]
> > >>> Sent: Wednesday, March 15, 2017 1:22 PM
> > >>> To: dev@ctakes.apache.org
> > >>> Subject: Trouble with the DictionaryTool
> > >>>
> > >>> Hi,
> > >>>
> > >>> I've followed the instructions found in this mailing list to set 
> > >>> up
> > and run the dictionary tool. I made a quick summary of what I found:
> > >>>
> > >>> Change the configuration at /data/default/CtakesSources.txt to
> > include ICD10 or other extensions; there can be zero or more sources.
> > >>> Copy ctakesumls.properties and ctakesumls.script from 
> > >>> resource/memdbtemplate to a new folder to put the new UMLS DB 
> > >>> Run
> > >>> DictionaryCreator2 java -cp dictionarytool.jar;lib/*
> > >>> org.apache.ctakes.dictionarytool.DictionaryCreator2
> > >>> -umls "/2015AB/META"
> > >>> -atui ./data/tiny/CtakesAnatTuis.txt -tui 
> > >>> ./data/tiny/CtakesSnomedTuis.txt -src 
> > >>> ./data/tiny/CtakesSources.txt -fd ./data/tiny -db
> > >>> jdbc:hsqldb:file:pathTonewDB/snorx2015
> > >>> -tbl CUI_TERMS
> > >>> Run CodeMapCreator
> > >>> java -cp dictionarytool.jar;lib/* 
> > >>> org.apache.ctakes.dictionarytool.CodeMapCreator
> > >>> -umls "/2015AB/META"
> > >>> -atui ./data/tiny/CtakesAnatTuis.txt -db
> > >>> jdbc:hsqldb:file:pathTonewDB/snorx2015
> > >>> -fd ./data/tiny
> > >>> -tbl CUI_TERMS
> > >>> Copy new DB files to new location and create a copy of 
> > >>> cTakesHsql.xml and update dictionary location
> > >>>
> > >>> I'm failing at step 3 when running the DictionaryCreator2 with 
> > >>> the
> > output:
> > >>>
> > >>> lib/hsqldb.jar: warning: cannot start debugger; debugging mode 
> > >>> disabled
> > >>> lib/hsqldb.jar: line 1: $'PK\003\004': command not found
> > >>> lib/hsqldb.jar: line 2: META-INF/  PK: No such file or directory
> > >>> lib/hsqldb.jar: line 3: syntax error near unexpected token `('
> > >>> lib/hsqldb.jar: line 3:  p < _  xMETA-INF/MANIFEST.MFm Ok!    c{  f o
> > m {(.   \5      uf   5ڙR   N 8F+w    @ V %m"
> > >>>                        =] / U   { D  Hc   9eٹ =b tf0 Υ  &[  U  m   g&
> >  w       @ p  % )`    kQe z{' w   ͩ H+. /f՜ Z  ]   Q   S   /vHG  ٔ e h[
> > -F}PK'
> > >>>
> > >>> The path should be correctly pointing to the UMLS folder. I'm 
> > >>> running
> > Mac OS Sierra.
> > >>>
> > >>> Any help is greatly appreciated.
> > >>>
> > >>> Leander
> > >>>
> > >>>
> > >>
> > >>
> > >
> > >
> >
> >
>

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