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From Kannan Thiagarajan <kanna...@gmail.com>
Subject Re: export runnable jar issue
Date Tue, 07 May 2013 02:14:15 GMT
I updated my local "DrugCNP2LookupWindow.xml"  with the latest but the
problem persists.

Caused by: org.apache.uima.util.InvalidXMLException: An import could not be
resolved.  No .xml file with name
"org.apache.ctakes.drugner.types.TypeSystem" was found in the class path or
data path. (Descriptor:
file:/C:/cTAKES_Workspace2/ctakes/ctakes-drug-ner/desc/analysis_engine/DrugCNP2LookupWindow.xml)

Please let me know if there are any other files that I need to pull-in.

Thanks



On Mon, May 6, 2013 at 7:39 PM, Masanz, James J. <Masanz.James@mayo.edu>wrote:

>
> I just checked in a fix today for this actually.
> CTAKES-194
> InvalidXMLException: An import could not be resolved.
> org.apache.ctakes.drugner.types.Typesystem DrugCNP2LookupWindow.xml
> https://issues.apache.org/jira/browse/CTAKES-194
>
> If you check out the latest you should get the fix. or fix the casing of
> TypeSystem so there is a capital S.
>
> Regards,
> James Masanz
>
> > -----Original Message-----
> > From: dev-return-1575-Masanz.James=mayo.edu@ctakes.apache.org [mailto:
> dev-
> > return-1575-Masanz.James=mayo.edu@ctakes.apache.org] On Behalf Of Kannan
> > Thiagarajan
> > Sent: Monday, May 06, 2013 6:12 PM
> > To: dev@ctakes.apache.org
> > Subject: Re: export runnable jar issue
> >
> > Hello,
> >
> > I'm facing a similar issue not sure if it is related to this.
> >
> > I created an eclipse/maven project which just contains a pipeline that
> > includes many cTAKES components for which I included the Maven
> > dependencies. Everything worked out fine until I included the Drug NER. I
> > got the following error.
> >
> > An import could not be resolved.  No .xml file with name
> > "org.apache.ctakes.drugner.types.Typesystem" was found in the class path
> > or data path. (Descriptor:
> > file:/C:/cTAKES_Workspace2/ctakes/ctakes-drug-
> > ner/desc/analysis_engine/DrugCNP2LookupWindow.xml)
> >
> > I tried to add the ctakes-drug-ner-res and it did not resolve the issue.
> I
> > could workaround this by copying the contents of
> ctakes-drug-ner-resources
> > project but hate doing so. Maybe this is a maven newbie issue.
> >
> > Any thoughts?
> >
> > Thanks
> > Kannan
> >
> >
> > On Tue, Apr 23, 2013 at 10:35 AM, Tim Miller <
> > timothy.miller@childrens.harvard.edu> wrote:
> >
> > > It may actually be a maven issue:
> > > https://bugs.eclipse.org/bugs/**show_bug.cgi?id=284928<https://bugs.ec
> > > lipse.org/bugs/show_bug.cgi?id=284928>
> > >
> > > I'm a little swamped right now, but I'd like to try setting up a
> > > non-maven project with two source folders:
> > > src/main/java
> > > src/main/resources
> > >
> > > like ours, and see if this issue persists.
> > > Tim
> > >
> > >
> > > On 04/23/2013 11:21 AM, Masanz, James J. wrote:
> > >
> > >> I'm having the same issue.
> > >> I tried just creating a jar instead of a runnable jar and get the
> same.
> > >>
> > >> Tim, I don't know if it's 1, 2 or 3.
> > >>
> > >> -- James
> > >>
> > >>
> > >>
> > >>  -----Original Message-----
> > >>> From: dev-return-1533-
> > Masanz.James=m**ayo.edu@ctakes.apache.org<mayo.edu@ctakes.apache.org
> >[mail
> > to:
> > >>> dev-
> > >>> return-1533-Masanz.James=mayo.**edu@ctakes.apache.org<mayo.edu@ctake
> > >>> s.apache.org>]
> > >>> On Behalf Of Miller,
> > >>> Timothy
> > >>> Sent: Sunday, April 21, 2013 7:23 AM
> > >>> To: dev@ctakes.apache.org
> > >>> Subject: export runnable jar issue
> > >>>
> > >>> I've found it useful to "export runnable jar" to create a single
> > >>> file that can be run with 'java -jar' on a server/cluster for a
> > >>> given run configuration. There is an issue that may be an eclipse
> > >>> bug but also may be a ctakes issue.
> > >>>
> > >>> The issue is that files under src/main/java source folders export
> > >>> exactly as expected, while files under src/main/resources folders
> > >>> export with the "resources" folder prepended. So you will get the
> > >>> following classpaths in the jar:
> > >>>
> > >>> org/apache/ctakes/someproject/**SomeCode.class
> > >>> resources/org/apache/ctakes/**someproject/some_model.bin
> > >>>
> > >>> This obviously screws up important classpaths at runtime. I can
> > >>> workaround it, but does anyone have a sense of whether this issue
> > >>> is:
> > >>> 1) Clearly an eclipse issue with nothing we can do except try to
> > >>> notify someone
> > >>> 2) An eclipse issue but there is something we're doing wrong (like
a
> > >>> convention for resources we're not following that would fix this)
> > >>> 3) Clearly a ctakes issue
> > >>>
> > >>> Tim
> > >>>
> > >>
> > >
> >
> >
> > --
> > Best Regards
> > Kannan Thiagarajan
>



-- 
Best Regards
Kannan Thiagarajan

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