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Posted to dev@ctakes.apache.org by vijay garla <vn...@gmail.com> on 2014/03/17 02:52:49 UTC
YTEX Doc in cwiki
Hello All,
I've made a first cut at moving and updating the YTEX docs over from google
code to the cTAKES confluence site.
This is a first cut, and I'm trying to keep the YTEX docs separated, as it
is not yet in trunk/released, and I don't want to mess up any existing docs.
see https://cwiki.apache.org/confluence/display/CTAKES/YTEX+3.2
Best,
VJ
Re: YTEX install - one error after building
Posted by "Chen, Pei" <Pe...@childrens.harvard.edu>.
VJ,
Could you confirm the implications? It probably does make sense to separate out the name:value attributes. Even though they eventually resolve to the proper string... (So probably not a show stopper for this release)
Sent from my iPhone
> On Jun 27, 2014, at 3:38 PM, "Masanz, James J." <Ma...@mayo.edu> wrote:
>
> Thanks Pei! I created
> https://issues.apache.org/jira/browse/CTAKES-302
>
> -----Original Message-----
> From: Chen, Pei [mailto:Pei.Chen@childrens.harvard.edu]
> Sent: Friday, June 27, 2014 2:08 PM
> To: dev@ctakes.apache.org
> Subject: RE: YTEX install - one error after building
>
> I presume the parameter markers should really have a property name attached to it:
> catalog="@filter.umls.catalog@" rather than "@filter.umls.catalog@" byitself in order to pass xml validation.
>
>> -----Original Message-----
>> From: Masanz, James J. [mailto:Masanz.James@mayo.edu]
>> Sent: Friday, June 27, 2014 2:59 PM
>> To: 'dev@ctakes.apache.org'
>> Subject: RE: YTEX install - one error after building
>>
>> I had a workspace in eclipse that I had checked out 6/6 but never built.
>> Today I did a Team->Update and then File->Import->Existing Maven Projects
>> to pick up new modules such as temporal relations
>>
>> Now during build I am getting the same kind of error Paula was seeing a few
>> months ago:
>>
>> Description Resource Path Location Type
>> Element type "hibernate-mapping" must be followed by either attribute
>> specifications, ">" or "/>". UMLS.hbm.template.xml /ctakes-ytex-
>> res/src/main/resources/org/apache/ctakes/ytex/umls/model line 27 XML
>> Problem
>>
>> This is on Windows 7 with Eclipse 4.2.2
>>
>> Line 27 is the second line of this XML fragment:
>> <hibernate-mapping package="org.apache.ctakes.ytex.umls.model"
>> schema="@umls.schema@" @filter.umls.catalog@>
>>
>> Are there parts of these instructions that still apply?
>> https://cwiki.apache.org/confluence/display/CTAKES/YTEX+Installation
>>
>> Since mine was not a fresh check out from SVN, will people who check out
>> fresh from trunk need to perform any of those steps?
>>
>> -- James
>>
>>
>> -----Original Message-----
>> From: digital paula [mailto:cybersation@hotmail.com]
>> Sent: Wednesday, March 26, 2014 7:05 PM
>> To: dev@ctakes.apache.org
>> Subject: RE: YTEX install - one error after building
>>
>> Thanks VJ. I did try disabling validation in eclipse but that didn't work. At any
>> rate, I see that there is also a 'ytex installation' link on the ctakes wiki that I
>> did not follow (I was still referring to your code.google.com site where ytex
>> was previously stored) which also seems to align to the readme file link you
>> provided. I might not be able to get to till the weekend but will let you know
>> but I'm sure it will work once I execute according to instructions.
>>
>>> Date: Wed, 26 Mar 2014 10:03:33 -0400
>>> Subject: Re: YTEX install - one error after building
>>> From: vngarla@gmail.com
>>> To: dev@ctakes.apache.org
>>>
>>> Hi Paula,
>>>
>>> UMLS.hbm.template.xml is a template used to generate a valid hibernate
>>> xml config file. If you have imported YTEX into eclipse, follow these
>>> guidelines:
>>>
>>> https://svn.apache.org/repos/asf/ctakes/branches/ytex/ctakes-
>> ytex/READ
>>> ME
>>>
>>> I believe the issue might be that you have validation enabled for XML;
>>> I believe you can disable it for specific files (like UMLS.hbm.template.xml).
>>> I am using keper, and it doesn't complain about
>>> UMLS.hbm.template.xml; I'm not sure if I tweaked my validator settings.
>>>
>>> -vj
>>>
>>>
>>>
>>> On Tue, Mar 25, 2014 at 6:16 PM, digital paula
>> <cy...@hotmail.com>wrote:
>>>
>>>> Hi VJ,
>>>>
>>>> As part of testing, I did a fresh install of cTAKES with YTEX and
>>>> everything installed correctly but after building I got one error
>>>> pertaining to this page, five lines down.
>>>>
>>>>
>>>> https://svn.apache.org/repos/asf/ctakes/branches/ytex/ctakes-ytex-re
>> s/src/main/resources/org/apache/ctakes/ytex/umls/model/UMLS.hbm.tem
>> p
>>>> late.xml
>>>>
>>>>
>>>> The error is this line:
>>>> <hibernate-mapping package="org.apache.ctakes.ytex.umls.model"
>>>> schema="@umls.schema@" @filter.umls.catalog@>
>>>>
>>>> Using Eclipse Juno, the error states:
>>>>
>>>> Element type "hibernate-mapping" must be followed by either
>>>> attribute specifications, ">" or "/>".
>>>>
>>>> I tried using /> instead of > and putting it all on one line instead
>>>> of two but can't seem to fix it.
>>>>
>>>> Also, I was about to install the sectionizer separately as a module
>>>> but I see that YTEX already has a
>>>> sectionizer(SegmentRegexSectionizer) so I look forward to exploring it
>> further.
>>>>
>>>> Regards,
>>>> Paula
>>>>
>>>>> Date: Thu, 20 Mar 2014 14:08:32 -0400
>>>>> Subject: Re: YTEX Doc in cwiki
>>>>> From: vngarla@gmail.com
>>>>> To: dev@ctakes.apache.org
>>>>>
>>>>> I plan to fix all the links.
>>>>>
>>>>> I have not yet moved the scripts for the semantic similarity
>>>>> benchmark to cTAKES, so I dropped that from the cTAKES semantic
>>>>> similarity docs. When those scripts get moved to cTAKES, I'll update the
>> docs.
>>>>>
>>>>>
>>>>> On Thu, Mar 20, 2014 at 12:33 PM, Masanz, James J. <
>>>> Masanz.James@mayo.edu>wrote:
>>>>>
>>>>>> hi vijay,
>>>>>>
>>>>>> I have just skimmed a few sections so far.
>>>>>>
>>>>>> the page has links at the top to google docs pages and then
>>>>>> links to
>>>> our
>>>>>> web pages (the children pages) at the bottom. Is your intent to
>>>>>> remove
>>>> the
>>>>>> first 3 links once things are finalized?
>>>>>>
>>>>>> some of the examples on the Semantic+Similarity page use "cd
>>>> CTAKES_HOME"
>>>>>> but later use %CTAKES_HOME%
>>>>>>
>>>>>> so it looks like you meant cd %CTAKES_HOME%
>>>>>>
>>>>>> I didn't see anything about the Similarity Benchmark on the new
>> pages.
>>>> Is
>>>>>> that still part of ytex?
>>>>>>
>>>>>> -- james
>>>>>>
>>>>>>
>>>>>> -----Original Message-----
>>>>>> From: vijay garla [mailto:vngarla@gmail.com]
>>>>>> Sent: Sunday, March 16, 2014 8:53 PM
>>>>>> To: dev@ctakes.apache.org
>>>>>> Subject: YTEX Doc in cwiki
>>>>>>
>>>>>> Hello All,
>>>>>>
>>>>>> I've made a first cut at moving and updating the YTEX docs over
>>>>>> from
>>>> google
>>>>>> code to the cTAKES confluence site.
>>>>>>
>>>>>> This is a first cut, and I'm trying to keep the YTEX docs
>>>>>> separated,
>>>> as it
>>>>>> is not yet in trunk/released, and I don't want to mess up any
>>>>>> existing docs.
>>>>>>
>>>>>> see https://cwiki.apache.org/confluence/display/CTAKES/YTEX+3.2
>>>>>>
>>>>>> Best,
>>>>>>
>>>>>> VJ
>>
RE: YTEX install - one error after building
Posted by "Masanz, James J." <Ma...@mayo.edu>.
Thanks Pei! I created
https://issues.apache.org/jira/browse/CTAKES-302
-----Original Message-----
From: Chen, Pei [mailto:Pei.Chen@childrens.harvard.edu]
Sent: Friday, June 27, 2014 2:08 PM
To: dev@ctakes.apache.org
Subject: RE: YTEX install - one error after building
I presume the parameter markers should really have a property name attached to it:
catalog="@filter.umls.catalog@" rather than "@filter.umls.catalog@" byitself in order to pass xml validation.
> -----Original Message-----
> From: Masanz, James J. [mailto:Masanz.James@mayo.edu]
> Sent: Friday, June 27, 2014 2:59 PM
> To: 'dev@ctakes.apache.org'
> Subject: RE: YTEX install - one error after building
>
> I had a workspace in eclipse that I had checked out 6/6 but never built.
> Today I did a Team->Update and then File->Import->Existing Maven Projects
> to pick up new modules such as temporal relations
>
> Now during build I am getting the same kind of error Paula was seeing a few
> months ago:
>
> Description Resource Path Location Type
> Element type "hibernate-mapping" must be followed by either attribute
> specifications, ">" or "/>". UMLS.hbm.template.xml /ctakes-ytex-
> res/src/main/resources/org/apache/ctakes/ytex/umls/model line 27 XML
> Problem
>
> This is on Windows 7 with Eclipse 4.2.2
>
> Line 27 is the second line of this XML fragment:
> <hibernate-mapping package="org.apache.ctakes.ytex.umls.model"
> schema="@umls.schema@" @filter.umls.catalog@>
>
> Are there parts of these instructions that still apply?
> https://cwiki.apache.org/confluence/display/CTAKES/YTEX+Installation
>
> Since mine was not a fresh check out from SVN, will people who check out
> fresh from trunk need to perform any of those steps?
>
> -- James
>
>
> -----Original Message-----
> From: digital paula [mailto:cybersation@hotmail.com]
> Sent: Wednesday, March 26, 2014 7:05 PM
> To: dev@ctakes.apache.org
> Subject: RE: YTEX install - one error after building
>
> Thanks VJ. I did try disabling validation in eclipse but that didn't work. At any
> rate, I see that there is also a 'ytex installation' link on the ctakes wiki that I
> did not follow (I was still referring to your code.google.com site where ytex
> was previously stored) which also seems to align to the readme file link you
> provided. I might not be able to get to till the weekend but will let you know
> but I'm sure it will work once I execute according to instructions.
>
> > Date: Wed, 26 Mar 2014 10:03:33 -0400
> > Subject: Re: YTEX install - one error after building
> > From: vngarla@gmail.com
> > To: dev@ctakes.apache.org
> >
> > Hi Paula,
> >
> > UMLS.hbm.template.xml is a template used to generate a valid hibernate
> > xml config file. If you have imported YTEX into eclipse, follow these
> > guidelines:
> >
> > https://svn.apache.org/repos/asf/ctakes/branches/ytex/ctakes-
> ytex/READ
> > ME
> >
> > I believe the issue might be that you have validation enabled for XML;
> > I believe you can disable it for specific files (like UMLS.hbm.template.xml).
> > I am using keper, and it doesn't complain about
> > UMLS.hbm.template.xml; I'm not sure if I tweaked my validator settings.
> >
> > -vj
> >
> >
> >
> > On Tue, Mar 25, 2014 at 6:16 PM, digital paula
> <cy...@hotmail.com>wrote:
> >
> > > Hi VJ,
> > >
> > > As part of testing, I did a fresh install of cTAKES with YTEX and
> > > everything installed correctly but after building I got one error
> > > pertaining to this page, five lines down.
> > >
> > >
> > > https://svn.apache.org/repos/asf/ctakes/branches/ytex/ctakes-ytex-re
> > >
> s/src/main/resources/org/apache/ctakes/ytex/umls/model/UMLS.hbm.tem
> p
> > > late.xml
> > >
> > >
> > > The error is this line:
> > > <hibernate-mapping package="org.apache.ctakes.ytex.umls.model"
> > > schema="@umls.schema@" @filter.umls.catalog@>
> > >
> > > Using Eclipse Juno, the error states:
> > >
> > > Element type "hibernate-mapping" must be followed by either
> > > attribute specifications, ">" or "/>".
> > >
> > > I tried using /> instead of > and putting it all on one line instead
> > > of two but can't seem to fix it.
> > >
> > > Also, I was about to install the sectionizer separately as a module
> > > but I see that YTEX already has a
> > > sectionizer(SegmentRegexSectionizer) so I look forward to exploring it
> further.
> > >
> > > Regards,
> > > Paula
> > >
> > > > Date: Thu, 20 Mar 2014 14:08:32 -0400
> > > > Subject: Re: YTEX Doc in cwiki
> > > > From: vngarla@gmail.com
> > > > To: dev@ctakes.apache.org
> > > >
> > > > I plan to fix all the links.
> > > >
> > > > I have not yet moved the scripts for the semantic similarity
> > > > benchmark to cTAKES, so I dropped that from the cTAKES semantic
> > > > similarity docs. When those scripts get moved to cTAKES, I'll update the
> docs.
> > > >
> > > >
> > > > On Thu, Mar 20, 2014 at 12:33 PM, Masanz, James J. <
> > > Masanz.James@mayo.edu>wrote:
> > > >
> > > > > hi vijay,
> > > > >
> > > > > I have just skimmed a few sections so far.
> > > > >
> > > > > the page has links at the top to google docs pages and then
> > > > > links to
> > > our
> > > > > web pages (the children pages) at the bottom. Is your intent to
> > > > > remove
> > > the
> > > > > first 3 links once things are finalized?
> > > > >
> > > > > some of the examples on the Semantic+Similarity page use "cd
> > > CTAKES_HOME"
> > > > > but later use %CTAKES_HOME%
> > > > >
> > > > > so it looks like you meant cd %CTAKES_HOME%
> > > > >
> > > > > I didn't see anything about the Similarity Benchmark on the new
> pages.
> > > Is
> > > > > that still part of ytex?
> > > > >
> > > > > -- james
> > > > >
> > > > >
> > > > > -----Original Message-----
> > > > > From: vijay garla [mailto:vngarla@gmail.com]
> > > > > Sent: Sunday, March 16, 2014 8:53 PM
> > > > > To: dev@ctakes.apache.org
> > > > > Subject: YTEX Doc in cwiki
> > > > >
> > > > > Hello All,
> > > > >
> > > > > I've made a first cut at moving and updating the YTEX docs over
> > > > > from
> > > google
> > > > > code to the cTAKES confluence site.
> > > > >
> > > > > This is a first cut, and I'm trying to keep the YTEX docs
> > > > > separated,
> > > as it
> > > > > is not yet in trunk/released, and I don't want to mess up any
> > > > > existing docs.
> > > > >
> > > > > see https://cwiki.apache.org/confluence/display/CTAKES/YTEX+3.2
> > > > >
> > > > > Best,
> > > > >
> > > > > VJ
> > > > >
> > >
>
RE: YTEX install - one error after building
Posted by "Chen, Pei" <Pe...@childrens.harvard.edu>.
I presume the parameter markers should really have a property name attached to it:
catalog="@filter.umls.catalog@" rather than "@filter.umls.catalog@" byitself in order to pass xml validation.
> -----Original Message-----
> From: Masanz, James J. [mailto:Masanz.James@mayo.edu]
> Sent: Friday, June 27, 2014 2:59 PM
> To: 'dev@ctakes.apache.org'
> Subject: RE: YTEX install - one error after building
>
> I had a workspace in eclipse that I had checked out 6/6 but never built.
> Today I did a Team->Update and then File->Import->Existing Maven Projects
> to pick up new modules such as temporal relations
>
> Now during build I am getting the same kind of error Paula was seeing a few
> months ago:
>
> Description Resource Path Location Type
> Element type "hibernate-mapping" must be followed by either attribute
> specifications, ">" or "/>". UMLS.hbm.template.xml /ctakes-ytex-
> res/src/main/resources/org/apache/ctakes/ytex/umls/model line 27 XML
> Problem
>
> This is on Windows 7 with Eclipse 4.2.2
>
> Line 27 is the second line of this XML fragment:
> <hibernate-mapping package="org.apache.ctakes.ytex.umls.model"
> schema="@umls.schema@" @filter.umls.catalog@>
>
> Are there parts of these instructions that still apply?
> https://cwiki.apache.org/confluence/display/CTAKES/YTEX+Installation
>
> Since mine was not a fresh check out from SVN, will people who check out
> fresh from trunk need to perform any of those steps?
>
> -- James
>
>
> -----Original Message-----
> From: digital paula [mailto:cybersation@hotmail.com]
> Sent: Wednesday, March 26, 2014 7:05 PM
> To: dev@ctakes.apache.org
> Subject: RE: YTEX install - one error after building
>
> Thanks VJ. I did try disabling validation in eclipse but that didn't work. At any
> rate, I see that there is also a 'ytex installation' link on the ctakes wiki that I
> did not follow (I was still referring to your code.google.com site where ytex
> was previously stored) which also seems to align to the readme file link you
> provided. I might not be able to get to till the weekend but will let you know
> but I'm sure it will work once I execute according to instructions.
>
> > Date: Wed, 26 Mar 2014 10:03:33 -0400
> > Subject: Re: YTEX install - one error after building
> > From: vngarla@gmail.com
> > To: dev@ctakes.apache.org
> >
> > Hi Paula,
> >
> > UMLS.hbm.template.xml is a template used to generate a valid hibernate
> > xml config file. If you have imported YTEX into eclipse, follow these
> > guidelines:
> >
> > https://svn.apache.org/repos/asf/ctakes/branches/ytex/ctakes-
> ytex/READ
> > ME
> >
> > I believe the issue might be that you have validation enabled for XML;
> > I believe you can disable it for specific files (like UMLS.hbm.template.xml).
> > I am using keper, and it doesn't complain about
> > UMLS.hbm.template.xml; I'm not sure if I tweaked my validator settings.
> >
> > -vj
> >
> >
> >
> > On Tue, Mar 25, 2014 at 6:16 PM, digital paula
> <cy...@hotmail.com>wrote:
> >
> > > Hi VJ,
> > >
> > > As part of testing, I did a fresh install of cTAKES with YTEX and
> > > everything installed correctly but after building I got one error
> > > pertaining to this page, five lines down.
> > >
> > >
> > > https://svn.apache.org/repos/asf/ctakes/branches/ytex/ctakes-ytex-re
> > >
> s/src/main/resources/org/apache/ctakes/ytex/umls/model/UMLS.hbm.tem
> p
> > > late.xml
> > >
> > >
> > > The error is this line:
> > > <hibernate-mapping package="org.apache.ctakes.ytex.umls.model"
> > > schema="@umls.schema@" @filter.umls.catalog@>
> > >
> > > Using Eclipse Juno, the error states:
> > >
> > > Element type "hibernate-mapping" must be followed by either
> > > attribute specifications, ">" or "/>".
> > >
> > > I tried using /> instead of > and putting it all on one line instead
> > > of two but can't seem to fix it.
> > >
> > > Also, I was about to install the sectionizer separately as a module
> > > but I see that YTEX already has a
> > > sectionizer(SegmentRegexSectionizer) so I look forward to exploring it
> further.
> > >
> > > Regards,
> > > Paula
> > >
> > > > Date: Thu, 20 Mar 2014 14:08:32 -0400
> > > > Subject: Re: YTEX Doc in cwiki
> > > > From: vngarla@gmail.com
> > > > To: dev@ctakes.apache.org
> > > >
> > > > I plan to fix all the links.
> > > >
> > > > I have not yet moved the scripts for the semantic similarity
> > > > benchmark to cTAKES, so I dropped that from the cTAKES semantic
> > > > similarity docs. When those scripts get moved to cTAKES, I'll update the
> docs.
> > > >
> > > >
> > > > On Thu, Mar 20, 2014 at 12:33 PM, Masanz, James J. <
> > > Masanz.James@mayo.edu>wrote:
> > > >
> > > > > hi vijay,
> > > > >
> > > > > I have just skimmed a few sections so far.
> > > > >
> > > > > the page has links at the top to google docs pages and then
> > > > > links to
> > > our
> > > > > web pages (the children pages) at the bottom. Is your intent to
> > > > > remove
> > > the
> > > > > first 3 links once things are finalized?
> > > > >
> > > > > some of the examples on the Semantic+Similarity page use "cd
> > > CTAKES_HOME"
> > > > > but later use %CTAKES_HOME%
> > > > >
> > > > > so it looks like you meant cd %CTAKES_HOME%
> > > > >
> > > > > I didn't see anything about the Similarity Benchmark on the new
> pages.
> > > Is
> > > > > that still part of ytex?
> > > > >
> > > > > -- james
> > > > >
> > > > >
> > > > > -----Original Message-----
> > > > > From: vijay garla [mailto:vngarla@gmail.com]
> > > > > Sent: Sunday, March 16, 2014 8:53 PM
> > > > > To: dev@ctakes.apache.org
> > > > > Subject: YTEX Doc in cwiki
> > > > >
> > > > > Hello All,
> > > > >
> > > > > I've made a first cut at moving and updating the YTEX docs over
> > > > > from
> > > google
> > > > > code to the cTAKES confluence site.
> > > > >
> > > > > This is a first cut, and I'm trying to keep the YTEX docs
> > > > > separated,
> > > as it
> > > > > is not yet in trunk/released, and I don't want to mess up any
> > > > > existing docs.
> > > > >
> > > > > see https://cwiki.apache.org/confluence/display/CTAKES/YTEX+3.2
> > > > >
> > > > > Best,
> > > > >
> > > > > VJ
> > > > >
> > >
>
RE: YTEX install - one error after building
Posted by "Masanz, James J." <Ma...@mayo.edu>.
I had a workspace in eclipse that I had checked out 6/6 but never built.
Today I did a Team->Update and then File->Import->Existing Maven Projects to pick up new modules such as temporal relations
Now during build I am getting the same kind of error Paula was seeing a few months ago:
Description Resource Path Location Type
Element type "hibernate-mapping" must be followed by either attribute specifications, ">" or "/>". UMLS.hbm.template.xml /ctakes-ytex-res/src/main/resources/org/apache/ctakes/ytex/umls/model line 27 XML Problem
This is on Windows 7 with Eclipse 4.2.2
Line 27 is the second line of this XML fragment:
<hibernate-mapping package="org.apache.ctakes.ytex.umls.model"
schema="@umls.schema@" @filter.umls.catalog@>
Are there parts of these instructions that still apply?
https://cwiki.apache.org/confluence/display/CTAKES/YTEX+Installation
Since mine was not a fresh check out from SVN, will people who check out fresh from trunk need to perform any of those steps?
-- James
-----Original Message-----
From: digital paula [mailto:cybersation@hotmail.com]
Sent: Wednesday, March 26, 2014 7:05 PM
To: dev@ctakes.apache.org
Subject: RE: YTEX install - one error after building
Thanks VJ. I did try disabling validation in eclipse but that didn't work. At any rate, I see that there is also a 'ytex installation' link on the ctakes wiki that I did not follow (I was still referring to your code.google.com site where ytex was previously stored) which also seems to align to the readme file link you provided. I might not be able to get to till the weekend but will let you know but I'm sure it will work once I execute according to instructions.
> Date: Wed, 26 Mar 2014 10:03:33 -0400
> Subject: Re: YTEX install - one error after building
> From: vngarla@gmail.com
> To: dev@ctakes.apache.org
>
> Hi Paula,
>
> UMLS.hbm.template.xml is a template used to generate a valid hibernate xml
> config file. If you have imported YTEX into eclipse, follow these
> guidelines:
>
> https://svn.apache.org/repos/asf/ctakes/branches/ytex/ctakes-ytex/README
>
> I believe the issue might be that you have validation enabled for XML; I
> believe you can disable it for specific files (like UMLS.hbm.template.xml).
> I am using keper, and it doesn't complain about UMLS.hbm.template.xml; I'm
> not sure if I tweaked my validator settings.
>
> -vj
>
>
>
> On Tue, Mar 25, 2014 at 6:16 PM, digital paula <cy...@hotmail.com>wrote:
>
> > Hi VJ,
> >
> > As part of testing, I did a fresh install of cTAKES with YTEX and
> > everything installed correctly but after building I got one error
> > pertaining to this page, five lines down.
> >
> >
> > https://svn.apache.org/repos/asf/ctakes/branches/ytex/ctakes-ytex-res/src/main/resources/org/apache/ctakes/ytex/umls/model/UMLS.hbm.template.xml
> >
> >
> > The error is this line:
> > <hibernate-mapping package="org.apache.ctakes.ytex.umls.model"
> > schema="@umls.schema@" @filter.umls.catalog@>
> >
> > Using Eclipse Juno, the error states:
> >
> > Element type "hibernate-mapping" must be followed by either attribute
> > specifications, ">" or "/>".
> >
> > I tried using /> instead of > and putting it all on one line instead of
> > two but can't seem to fix it.
> >
> > Also, I was about to install the sectionizer separately as a module but I
> > see that YTEX already has a sectionizer(SegmentRegexSectionizer) so I look
> > forward to exploring it further.
> >
> > Regards,
> > Paula
> >
> > > Date: Thu, 20 Mar 2014 14:08:32 -0400
> > > Subject: Re: YTEX Doc in cwiki
> > > From: vngarla@gmail.com
> > > To: dev@ctakes.apache.org
> > >
> > > I plan to fix all the links.
> > >
> > > I have not yet moved the scripts for the semantic similarity benchmark to
> > > cTAKES, so I dropped that from the cTAKES semantic similarity docs. When
> > > those scripts get moved to cTAKES, I'll update the docs.
> > >
> > >
> > > On Thu, Mar 20, 2014 at 12:33 PM, Masanz, James J. <
> > Masanz.James@mayo.edu>wrote:
> > >
> > > > hi vijay,
> > > >
> > > > I have just skimmed a few sections so far.
> > > >
> > > > the page has links at the top to google docs pages and then links to
> > our
> > > > web pages (the children pages) at the bottom. Is your intent to remove
> > the
> > > > first 3 links once things are finalized?
> > > >
> > > > some of the examples on the Semantic+Similarity page use "cd
> > CTAKES_HOME"
> > > > but later use %CTAKES_HOME%
> > > >
> > > > so it looks like you meant cd %CTAKES_HOME%
> > > >
> > > > I didn't see anything about the Similarity Benchmark on the new pages.
> > Is
> > > > that still part of ytex?
> > > >
> > > > -- james
> > > >
> > > >
> > > > -----Original Message-----
> > > > From: vijay garla [mailto:vngarla@gmail.com]
> > > > Sent: Sunday, March 16, 2014 8:53 PM
> > > > To: dev@ctakes.apache.org
> > > > Subject: YTEX Doc in cwiki
> > > >
> > > > Hello All,
> > > >
> > > > I've made a first cut at moving and updating the YTEX docs over from
> > google
> > > > code to the cTAKES confluence site.
> > > >
> > > > This is a first cut, and I'm trying to keep the YTEX docs separated,
> > as it
> > > > is not yet in trunk/released, and I don't want to mess up any existing
> > > > docs.
> > > >
> > > > see https://cwiki.apache.org/confluence/display/CTAKES/YTEX+3.2
> > > >
> > > > Best,
> > > >
> > > > VJ
> > > >
> >
RE: YTEX install - one error after building
Posted by digital paula <cy...@hotmail.com>.
Thanks VJ. I did try disabling validation in eclipse but that didn't work. At any rate, I see that there is also a 'ytex installation' link on the ctakes wiki that I did not follow (I was still referring to your code.google.com site where ytex was previously stored) which also seems to align to the readme file link you provided. I might not be able to get to till the weekend but will let you know but I'm sure it will work once I execute according to instructions.
> Date: Wed, 26 Mar 2014 10:03:33 -0400
> Subject: Re: YTEX install - one error after building
> From: vngarla@gmail.com
> To: dev@ctakes.apache.org
>
> Hi Paula,
>
> UMLS.hbm.template.xml is a template used to generate a valid hibernate xml
> config file. If you have imported YTEX into eclipse, follow these
> guidelines:
>
> https://svn.apache.org/repos/asf/ctakes/branches/ytex/ctakes-ytex/README
>
> I believe the issue might be that you have validation enabled for XML; I
> believe you can disable it for specific files (like UMLS.hbm.template.xml).
> I am using keper, and it doesn't complain about UMLS.hbm.template.xml; I'm
> not sure if I tweaked my validator settings.
>
> -vj
>
>
>
> On Tue, Mar 25, 2014 at 6:16 PM, digital paula <cy...@hotmail.com>wrote:
>
> > Hi VJ,
> >
> > As part of testing, I did a fresh install of cTAKES with YTEX and
> > everything installed correctly but after building I got one error
> > pertaining to this page, five lines down.
> >
> >
> > https://svn.apache.org/repos/asf/ctakes/branches/ytex/ctakes-ytex-res/src/main/resources/org/apache/ctakes/ytex/umls/model/UMLS.hbm.template.xml
> >
> >
> > The error is this line:
> > <hibernate-mapping package="org.apache.ctakes.ytex.umls.model"
> > schema="@umls.schema@" @filter.umls.catalog@>
> >
> > Using Eclipse Juno, the error states:
> >
> > Element type "hibernate-mapping" must be followed by either attribute
> > specifications, ">" or "/>".
> >
> > I tried using /> instead of > and putting it all on one line instead of
> > two but can't seem to fix it.
> >
> > Also, I was about to install the sectionizer separately as a module but I
> > see that YTEX already has a sectionizer(SegmentRegexSectionizer) so I look
> > forward to exploring it further.
> >
> > Regards,
> > Paula
> >
> > > Date: Thu, 20 Mar 2014 14:08:32 -0400
> > > Subject: Re: YTEX Doc in cwiki
> > > From: vngarla@gmail.com
> > > To: dev@ctakes.apache.org
> > >
> > > I plan to fix all the links.
> > >
> > > I have not yet moved the scripts for the semantic similarity benchmark to
> > > cTAKES, so I dropped that from the cTAKES semantic similarity docs. When
> > > those scripts get moved to cTAKES, I'll update the docs.
> > >
> > >
> > > On Thu, Mar 20, 2014 at 12:33 PM, Masanz, James J. <
> > Masanz.James@mayo.edu>wrote:
> > >
> > > > hi vijay,
> > > >
> > > > I have just skimmed a few sections so far.
> > > >
> > > > the page has links at the top to google docs pages and then links to
> > our
> > > > web pages (the children pages) at the bottom. Is your intent to remove
> > the
> > > > first 3 links once things are finalized?
> > > >
> > > > some of the examples on the Semantic+Similarity page use "cd
> > CTAKES_HOME"
> > > > but later use %CTAKES_HOME%
> > > >
> > > > so it looks like you meant cd %CTAKES_HOME%
> > > >
> > > > I didn't see anything about the Similarity Benchmark on the new pages.
> > Is
> > > > that still part of ytex?
> > > >
> > > > -- james
> > > >
> > > >
> > > > -----Original Message-----
> > > > From: vijay garla [mailto:vngarla@gmail.com]
> > > > Sent: Sunday, March 16, 2014 8:53 PM
> > > > To: dev@ctakes.apache.org
> > > > Subject: YTEX Doc in cwiki
> > > >
> > > > Hello All,
> > > >
> > > > I've made a first cut at moving and updating the YTEX docs over from
> > google
> > > > code to the cTAKES confluence site.
> > > >
> > > > This is a first cut, and I'm trying to keep the YTEX docs separated,
> > as it
> > > > is not yet in trunk/released, and I don't want to mess up any existing
> > > > docs.
> > > >
> > > > see https://cwiki.apache.org/confluence/display/CTAKES/YTEX+3.2
> > > >
> > > > Best,
> > > >
> > > > VJ
> > > >
> >
Re: YTEX install - one error after building
Posted by vijay garla <vn...@gmail.com>.
Hi Paula,
UMLS.hbm.template.xml is a template used to generate a valid hibernate xml
config file. If you have imported YTEX into eclipse, follow these
guidelines:
https://svn.apache.org/repos/asf/ctakes/branches/ytex/ctakes-ytex/README
I believe the issue might be that you have validation enabled for XML; I
believe you can disable it for specific files (like UMLS.hbm.template.xml).
I am using keper, and it doesn't complain about UMLS.hbm.template.xml; I'm
not sure if I tweaked my validator settings.
-vj
On Tue, Mar 25, 2014 at 6:16 PM, digital paula <cy...@hotmail.com>wrote:
> Hi VJ,
>
> As part of testing, I did a fresh install of cTAKES with YTEX and
> everything installed correctly but after building I got one error
> pertaining to this page, five lines down.
>
>
> https://svn.apache.org/repos/asf/ctakes/branches/ytex/ctakes-ytex-res/src/main/resources/org/apache/ctakes/ytex/umls/model/UMLS.hbm.template.xml
>
>
> The error is this line:
> <hibernate-mapping package="org.apache.ctakes.ytex.umls.model"
> schema="@umls.schema@" @filter.umls.catalog@>
>
> Using Eclipse Juno, the error states:
>
> Element type "hibernate-mapping" must be followed by either attribute
> specifications, ">" or "/>".
>
> I tried using /> instead of > and putting it all on one line instead of
> two but can't seem to fix it.
>
> Also, I was about to install the sectionizer separately as a module but I
> see that YTEX already has a sectionizer(SegmentRegexSectionizer) so I look
> forward to exploring it further.
>
> Regards,
> Paula
>
> > Date: Thu, 20 Mar 2014 14:08:32 -0400
> > Subject: Re: YTEX Doc in cwiki
> > From: vngarla@gmail.com
> > To: dev@ctakes.apache.org
> >
> > I plan to fix all the links.
> >
> > I have not yet moved the scripts for the semantic similarity benchmark to
> > cTAKES, so I dropped that from the cTAKES semantic similarity docs. When
> > those scripts get moved to cTAKES, I'll update the docs.
> >
> >
> > On Thu, Mar 20, 2014 at 12:33 PM, Masanz, James J. <
> Masanz.James@mayo.edu>wrote:
> >
> > > hi vijay,
> > >
> > > I have just skimmed a few sections so far.
> > >
> > > the page has links at the top to google docs pages and then links to
> our
> > > web pages (the children pages) at the bottom. Is your intent to remove
> the
> > > first 3 links once things are finalized?
> > >
> > > some of the examples on the Semantic+Similarity page use "cd
> CTAKES_HOME"
> > > but later use %CTAKES_HOME%
> > >
> > > so it looks like you meant cd %CTAKES_HOME%
> > >
> > > I didn't see anything about the Similarity Benchmark on the new pages.
> Is
> > > that still part of ytex?
> > >
> > > -- james
> > >
> > >
> > > -----Original Message-----
> > > From: vijay garla [mailto:vngarla@gmail.com]
> > > Sent: Sunday, March 16, 2014 8:53 PM
> > > To: dev@ctakes.apache.org
> > > Subject: YTEX Doc in cwiki
> > >
> > > Hello All,
> > >
> > > I've made a first cut at moving and updating the YTEX docs over from
> google
> > > code to the cTAKES confluence site.
> > >
> > > This is a first cut, and I'm trying to keep the YTEX docs separated,
> as it
> > > is not yet in trunk/released, and I don't want to mess up any existing
> > > docs.
> > >
> > > see https://cwiki.apache.org/confluence/display/CTAKES/YTEX+3.2
> > >
> > > Best,
> > >
> > > VJ
> > >
>
YTEX install - one error after building
Posted by digital paula <cy...@hotmail.com>.
Hi VJ,
As part of testing, I did a fresh install of cTAKES with YTEX and everything installed correctly but after building I got one error pertaining to this page, five lines down.
https://svn.apache.org/repos/asf/ctakes/branches/ytex/ctakes-ytex-res/src/main/resources/org/apache/ctakes/ytex/umls/model/UMLS.hbm.template.xml
The error is this line:
<hibernate-mapping package="org.apache.ctakes.ytex.umls.model"
schema="@umls.schema@" @filter.umls.catalog@>
Using Eclipse Juno, the error states:
Element type "hibernate-mapping" must be followed by either attribute specifications, ">" or "/>".
I tried using /> instead of > and putting it all on one line instead of two but can't seem to fix it.
Also, I was about to install the sectionizer separately as a module but I see that YTEX already has a sectionizer(SegmentRegexSectionizer) so I look forward to exploring it further.
Regards,
Paula
> Date: Thu, 20 Mar 2014 14:08:32 -0400
> Subject: Re: YTEX Doc in cwiki
> From: vngarla@gmail.com
> To: dev@ctakes.apache.org
>
> I plan to fix all the links.
>
> I have not yet moved the scripts for the semantic similarity benchmark to
> cTAKES, so I dropped that from the cTAKES semantic similarity docs. When
> those scripts get moved to cTAKES, I'll update the docs.
>
>
> On Thu, Mar 20, 2014 at 12:33 PM, Masanz, James J. <Ma...@mayo.edu>wrote:
>
> > hi vijay,
> >
> > I have just skimmed a few sections so far.
> >
> > the page has links at the top to google docs pages and then links to our
> > web pages (the children pages) at the bottom. Is your intent to remove the
> > first 3 links once things are finalized?
> >
> > some of the examples on the Semantic+Similarity page use "cd CTAKES_HOME"
> > but later use %CTAKES_HOME%
> >
> > so it looks like you meant cd %CTAKES_HOME%
> >
> > I didn't see anything about the Similarity Benchmark on the new pages. Is
> > that still part of ytex?
> >
> > -- james
> >
> >
> > -----Original Message-----
> > From: vijay garla [mailto:vngarla@gmail.com]
> > Sent: Sunday, March 16, 2014 8:53 PM
> > To: dev@ctakes.apache.org
> > Subject: YTEX Doc in cwiki
> >
> > Hello All,
> >
> > I've made a first cut at moving and updating the YTEX docs over from google
> > code to the cTAKES confluence site.
> >
> > This is a first cut, and I'm trying to keep the YTEX docs separated, as it
> > is not yet in trunk/released, and I don't want to mess up any existing
> > docs.
> >
> > see https://cwiki.apache.org/confluence/display/CTAKES/YTEX+3.2
> >
> > Best,
> >
> > VJ
> >
Re: YTEX Doc in cwiki
Posted by vijay garla <vn...@gmail.com>.
I plan to fix all the links.
I have not yet moved the scripts for the semantic similarity benchmark to
cTAKES, so I dropped that from the cTAKES semantic similarity docs. When
those scripts get moved to cTAKES, I'll update the docs.
On Thu, Mar 20, 2014 at 12:33 PM, Masanz, James J. <Ma...@mayo.edu>wrote:
> hi vijay,
>
> I have just skimmed a few sections so far.
>
> the page has links at the top to google docs pages and then links to our
> web pages (the children pages) at the bottom. Is your intent to remove the
> first 3 links once things are finalized?
>
> some of the examples on the Semantic+Similarity page use "cd CTAKES_HOME"
> but later use %CTAKES_HOME%
>
> so it looks like you meant cd %CTAKES_HOME%
>
> I didn't see anything about the Similarity Benchmark on the new pages. Is
> that still part of ytex?
>
> -- james
>
>
> -----Original Message-----
> From: vijay garla [mailto:vngarla@gmail.com]
> Sent: Sunday, March 16, 2014 8:53 PM
> To: dev@ctakes.apache.org
> Subject: YTEX Doc in cwiki
>
> Hello All,
>
> I've made a first cut at moving and updating the YTEX docs over from google
> code to the cTAKES confluence site.
>
> This is a first cut, and I'm trying to keep the YTEX docs separated, as it
> is not yet in trunk/released, and I don't want to mess up any existing
> docs.
>
> see https://cwiki.apache.org/confluence/display/CTAKES/YTEX+3.2
>
> Best,
>
> VJ
>
RE: YTEX Doc in cwiki
Posted by "Masanz, James J." <Ma...@mayo.edu>.
hi vijay,
I have just skimmed a few sections so far.
the page has links at the top to google docs pages and then links to our web pages (the children pages) at the bottom. Is your intent to remove the first 3 links once things are finalized?
some of the examples on the Semantic+Similarity page use "cd CTAKES_HOME" but later use %CTAKES_HOME%
so it looks like you meant cd %CTAKES_HOME%
I didn't see anything about the Similarity Benchmark on the new pages. Is that still part of ytex?
-- james
-----Original Message-----
From: vijay garla [mailto:vngarla@gmail.com]
Sent: Sunday, March 16, 2014 8:53 PM
To: dev@ctakes.apache.org
Subject: YTEX Doc in cwiki
Hello All,
I've made a first cut at moving and updating the YTEX docs over from google
code to the cTAKES confluence site.
This is a first cut, and I'm trying to keep the YTEX docs separated, as it
is not yet in trunk/released, and I don't want to mess up any existing docs.
see https://cwiki.apache.org/confluence/display/CTAKES/YTEX+3.2
Best,
VJ