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From Pei Chen <chen...@apache.org>
Subject Re: Package for use with Solr
Date Tue, 10 Sep 2013 18:18:22 GMT
Ack.  Thanks for pointing that out.
Please use the one from
ctakes-core/desc/analysis_engine/SentenceDetectorAnnotator.xml example [1]
[1]
http://svn.apache.org/repos/asf/ctakes/trunk/ctakes-core/desc/analysis_engine/SentenceDetectorAnnotator.xml

We'll fix this- or even better- delete these multiple desc files (which
just seems to cause a maintenance headache.)
CTAKES-243<https://issues.apache.org/jira/browse/CTAKES-243>
opened for this.



On Tue, Sep 10, 2013 at 1:45 PM, Vogel, James <JVogel@activehealth.net>wrote:

> I've now checked out ctakes-3.1.0-rc3 and it contains
> SuffixMaxentModelResourceImpl in SentenceDetectorAnnotator.xml under
> ctakes-core-res and ctakes-chunker, e.g.,
>
>
> <implementationName>org.apache.ctakes.core.resource.SuffixMaxentModelResourceImpl</implementationName>
>
> -----Original Message-----
> From: Chen, Pei [mailto:Pei.Chen@childrens.harvard.edu]
> Sent: Friday, September 06, 2013 9:51 AM
> To: user@ctakes.apache.org
> Subject: RE: Package for use with Solr
>
> Hi James,
> > Now I'm getting ClassNotFoundException:
> > org.apache.ctakes.core.resource.SuffixMaxentModelResourceImpl.  I don't
> > see this class in the distribution.  Was SuffixMaxentModelResourceImpl
> > removed?
> Yes, SuffixMaxentModelResourceImpl was removed in 3.1 and above.  Could
> you let us know the version you are using and the reference that caused
> this so we could remove it?  SuffixMaxentModelResourceImpl should no longer
> be required- the loading of OpenNLP models within cTAKES has been
> simplified significantly in 3.1.
> --Pei
>
> > -----Original Message-----
> > From: Vogel, James [mailto:JVogel@activehealth.net]
> > Sent: Friday, September 06, 2013 9:44 AM
> > To: user@ctakes.apache.org
> > Subject: RE: Package for use with Solr
> >
> > Thanks for the guidance.  Making it an absolute path in the desc xml file
> > worked.  I'm still trying to figure out what's wrong with my classpath /
> class
> > loader.  It may be a bug in the solr implementation I'm using.  Assuming
> I get
> > this working I'll write up the steps to run with solr as the end of this
> thread.
> >
> > Now I'm getting ClassNotFoundException:
> > org.apache.ctakes.core.resource.SuffixMaxentModelResourceImpl.  I don't
> > see this class in the distribution.  Was SuffixMaxentModelResourceImpl
> > removed?
> >
> >
> > -----Original Message-----
> > From: Pei Chen [mailto:chenpei@apache.org]
> > Sent: Thursday, September 05, 2013 10:39 AM
> > To: user@ctakes.apache.org
> > Subject: Re: Package for use with Solr
> >
> > James,
> > Ensure that dir is in your classpath. To test out the theory, try making
> that
> > path an {absolute_path} instead of res.
> >
> > Note, if you're trying to run this under a servlet container, the webapp
> could
> > have a different class loader than the container.
> >
> > On Thu, Sep 5, 2013 at 9:37 AM, Vogel, James <JVogel@activehealth.net>
> > wrote:
> > > hsqldb is throwing java.sql.SQLException: File input/output error:
> > > java.io.IOException: Stream closed at the following code in
> > > JdbcConnectionResourceImpl. load:
> > >
> > >
> > >
> > > iv_conn = DriverManager.getConnection(
> > >
> > >               urlStr,
> > >
> > >               username,
> > >
> > >               password);
> > >
> > >
> > >
> > > urlStr is:
> > > jdbc:hsqldb:res:org/apache/ctakes/dictionary/lookup/umls2011ab/umls
> > >
> > > username is: SA
> > >
> > > password is: blank
> > >
> > >
> > >
> > > That path is expanded as regular files along with the other resources
> > > off of my default directory and on the classpath.  Is there something
> > > special about the placement of the hsqldb files or something I need to
> > > do to enable use of hsqldb?
> > >
> > >
> > >
> > > Exception details:
> > >
> > >
> > >
> > > Caused by: org.apache.uima.resource.ResourceInitializationException
> > >
> > >                 at
> > >
> > org.apache.ctakes.core.resource.JdbcConnectionResourceImpl.load(JdbcCo
> > > nnectionResourceImpl.java:130)
> > >
> > >                 at
> > >
> > org.apache.uima.resource.impl.ResourceManager_impl.registerResource(Re
> > > sourceManager_impl.java:611)
> > >
> > >                 at
> > > org.apache.uima.resource.impl.ResourceManager_impl.initializeExternalR
> > > esources(ResourceManager_impl.java:450)
> > >
> > >                 at
> > > org.apache.uima.resource.Resource_ImplBase.initialize(Resource_ImplBas
> > > e.java:182)
> > >
> > >                 at
> > > org.apache.uima.analysis_engine.impl.AnalysisEngineImplBase.initialize
> > > (AnalysisEngineImplBase.java:157)
> > >
> > >                 at
> > > org.apache.uima.analysis_engine.impl.PrimitiveAnalysisEngine_impl.init
> > > ialize(PrimitiveAnalysisEngine_impl.java:123)
> > >
> > >                 at
> > >
> > org.apache.uima.impl.AnalysisEngineFactory_impl.produceResource(Analys
> > > isEngineFactory_impl.java:94)
> > >
> > >                 at
> > >
> > org.apache.uima.impl.CompositeResourceFactory_impl.produceResource(C
> > om
> > > positeResourceFactory_impl.java:62)
> > >
> > >                 at
> > >
> > org.apache.uima.UIMAFramework.produceResource(UIMAFramework.java:
> > 269)
> > >
> > >                 at
> > >
> > org.apache.uima.UIMAFramework.produceAnalysisEngine(UIMAFramework
> > .java
> > > :387)
> > >
> > >                 at
> > > org.apache.uima.analysis_engine.asb.impl.ASB_impl.setup(ASB_impl.java:
> > > 255)
> > >
> > >                 at
> > > org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.init
> > > ASB(AggregateAnalysisEngine_impl.java:429)
> > >
> > >                 at
> > > org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.init
> > > ializeAggregateAnalysisEngine(AggregateAnalysisEngine_impl.java:373)
> > >
> > >                 at
> > > org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.init
> > > ialize(AggregateAnalysisEngine_impl.java:186)
> > >
> > >                 at
> > >
> > org.apache.uima.impl.AnalysisEngineFactory_impl.produceResource(Analys
> > > isEngineFactory_impl.java:94)
> > >
> > >                 at
> > >
> > org.apache.uima.impl.CompositeResourceFactory_impl.produceResource(C
> > om
> > > positeResourceFactory_impl.java:62)
> > >
> > >                 at
> > >
> > org.apache.uima.UIMAFramework.produceResource(UIMAFramework.java:
> > 269)
> > >
> > >                 at
> > >
> > org.apache.uima.UIMAFramework.produceAnalysisEngine(UIMAFramework
> > .java
> > > :354)
> > >
> > >                 at
> > > org.apache.lucene.analysis.uima.ae.BasicAEProvider.getAE(BasicAEProvid
> > > er.java:73)
> > >
> > >                 at
> > >
> > org.apache.solr.uima.processor.UIMAUpdateRequestProcessor.processText
> > (
> > > UIMAUpdateRequestProcessor.java:155)
> > >
> > >                 at
> > >
> > org.apache.solr.uima.processor.UIMAUpdateRequestProcessor.processAdd(
> > U
> > > IMAUpdateRequestProcessor.java:80)
> > >
> > >                 ... 40 more
> > >
> > > Caused by: java.sql.SQLException: File input/output error:
> > > java.io.IOException: Stream closed
> > >
> > >                 at org.hsqldb.jdbc.Util.sqlException(Unknown Source)
> > >
> > >                 at org.hsqldb.jdbc.jdbcConnection.<init>(Unknown
> > > Source)
> > >
> > >                 at org.hsqldb.jdbcDriver.getConnection(Unknown Source)
> > >
> > >                 at org.hsqldb.jdbcDriver.connect(Unknown Source)
> > >
> > >                 at java.sql.DriverManager.getConnection(Unknown
> > > Source)
> > >
> > >                 at java.sql.DriverManager.getConnection(Unknown
> > > Source)
> > >
> > >                 at
> > >
> > org.apache.ctakes.core.resource.JdbcConnectionResourceImpl.load(JdbcCo
> > > nnectionResourceImpl.java:109)
> > >
> > >                 ... 60 more
> > >
> > >
> > >
> > > From: Chen, Pei [mailto:Pei.Chen@childrens.harvard.edu]
> > >
> > > Sent: Thursday, August 29, 2013 5:57 PM
> > > To: <user@ctakes.apache.org>
> > > Cc: user@ctakes.apache.org
> > >
> > > Subject: Re: Package for use with Solr
> > >
> > >
> > >
> > > Sorry if i was unclear- i meant Only resources need to be unpacked.
> > > What was the full stack trace?
> > >
> > >
> > > Sent from my iPhone
> > >
> > >
> > > On Aug 29, 2013, at 5:52 PM, "Vogel, James" <JVogel@activehealth.net>
> > wrote:
> > >
> > > I do, including ctakes-type-system-3.0.0-incubating.jar.  I thought
> > > you said that the xml files needed to be unpacked rather than just in
> > > jars so I was assuming the reason it wasn't being found had to do with
> that.
> > >
> > >
> > >
> > > From: Chen, Pei [mailto:Pei.Chen@childrens.harvard.edu]
> > > Sent: Thursday, August 29, 2013 5:43 PM
> > > To: user@ctakes.apache.org
> > > Subject: RE: Package for use with Solr
> > >
> > >
> > >
> > > James,
> > >
> > > Do you have all of the ctakes jars in your classpath?
> > >
> > > i.e:
> > >
> > > ctakes-type-system-{version}.jar in your classpath?
> > >
> > >
> > >
> > > --Pei
> > >
> > >
> > >
> > >
> > >
> > > From: Vogel, James [mailto:JVogel@activehealth.net]
> > > Sent: Thursday, August 29, 2013 5:37 PM
> > > To: user@ctakes.apache.org
> > > Subject: RE: Package for use with Solr
> > >
> > >
> > >
> > > Is there something special about where
> > > org\apache\ctakes\typesystem\types\TypeSystem.xml needs to be placed
> > > relative to the other files in the binary distribution? I put a
> 'resources'
> > > folder on the path containing
> > > org\apache\ctakes\typesystem\types\TypeSystem.xml but it isn't being
> > found.
> > >
> > >
> > >
> > > From: Pei Chen [mailto:chenpei@apache.org]
> > > Sent: Wednesday, August 28, 2013 1:43 PM
> > > To: user@ctakes.apache.org
> > > Subject: Re: Package for use with Solr
> > >
> > >
> > >
> > > There is a current limitation where the resources need to be
> unpacked...
> > > (Lucene doesn't like the indexes being inside the compressed jar's.)
> > > Try unpacking the resources and adding resources to your classpath...
> > >
> > > --Pei
> > >
> > >
> > >
> > > On Wed, Aug 28, 2013 at 12:59 PM, Vogel, James
> > > <JVogel@activehealth.net>
> > > wrote:
> > >
> > > I renamed apache-ctakes-3.1.0-SNAPSHOT-bin.zip to jar and created a
> > > jar containing the contents of ctakes-dictionary-lookup\resources and
> > > put them on the classpath.  When I don't add the resources jar I get
> > > an error because it can't find those files.  Once I get past that, I
> > > get a
> > > java.lang.IllegalArgumentException: URI is not hierarchical exception,
> > > full stack trace below.  I saw some posts from 2012
> > > (http://ctakes.markmail.org/search/?q=URI+is+not+hierarchical#query:UR
> > >
> > I%20is%20not%20hierarchical+page:1+mid:yaqtqzbylwdyy35n+state:results)
> > > where you wrote about a similar problem.  Any suggestions on why this
> > > happens?
> > >
> > >
> > >
> > > 2013-08-28 16:41:51,692 ERROR core.SolrCore -
> > > org.apache.solr.common.SolrException: processing error URI is not
> > > hierarchical.
> > >
> > id=file:/C:/Users/jvogel/Documents/data/uima_tests/drug%20name%20test
> > %
> > > 20v1.txt, text="George Washington was aspirin exposed to butenafine
> > > hydrochloride which is a more complex drug refer..."
> > >
> > >                 at
> > >
> > org.apache.solr.uima.processor.UIMAUpdateRequestProcessor.processAdd(
> > U
> > > IMAUpdateRequestProcessor.java:118)
> > >
> > >                 at
> > >
> > org.apache.solr.update.processor.UpdateRequestProcessor.processAdd(Up
> > d
> > > ateRequestProcessor.java:51)
> > >
> > >                 at
> > >
> > com.lucid.update.FieldMappingProcessor.processAdd(FieldMappingUpdate
> > Pr
> > > ocessorFactory.java:98)
> > >
> > >                 at
> > >
> > org.apache.solr.update.processor.LogUpdateProcessor.processAdd(LogUpd
> > a
> > > teProcessorFactory.java:100)
> > >
> > >                 at
> > >
> > org.apache.solr.handler.loader.XMLLoader.processUpdate(XMLLoader.java:
> > > 246)
> > >
> > >                 at
> > > org.apache.solr.handler.loader.XMLLoader.load(XMLLoader.java:173)
> > >
> > >                 at
> > >
> > org.apache.solr.handler.UpdateRequestHandler$1.load(UpdateRequestHan
> > dl
> > > er.java:92)
> > >
> > >                 at
> > >
> > org.apache.solr.handler.ContentStreamHandlerBase.handleRequestBody(Co
> > n
> > > tentStreamHandlerBase.java:74)
> > >
> > >                 at
> > >
> > org.apache.solr.handler.RequestHandlerBase.handleRequest(RequestHandl
> > e
> > > rBase.java:135)
> > >
> > >                 at
> > > org.apache.solr.core.SolrCore.execute(SolrCore.java:1816)
> > >
> > >                 at
> > > org.apache.solr.servlet.SolrDispatchFilter.execute(SolrDispatchFilter.
> > > java:448)
> > >
> > >                 at
> > > org.apache.solr.servlet.SolrDispatchFilter.doFilter(SolrDispatchFilter
> > > .java:269)
> > >
> > >                 at
> > > com.google.inject.servlet.FilterDefinition.doFilter(FilterDefinition.j
> > > ava:163)
> > >
> > >                 at
> > > com.google.inject.servlet.FilterChainInvocation.doFilter(FilterChainIn
> > > vocation.java:58)
> > >
> > >                 at
> > > com.google.inject.servlet.ManagedFilterPipeline.dispatch(ManagedFilter
> > > Pipeline.java:118)
> > >
> > >                 at
> > > com.google.inject.servlet.GuiceFilter.doFilter(GuiceFilter.java:113)
> > >
> > >                 at
> > > org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletH
> > > andler.java:1337)
> > >
> > >                 at
> > > org.eclipse.jetty.servlet.ServletHandler.doHandle(ServletHandler.java:
> > > 484)
> > >
> > >                 at
> > > org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.ja
> > > va:119)
> > >
> > >                 at
> > > org.eclipse.jetty.security.SecurityHandler.handle(SecurityHandler.java
> > > :524)
> > >
> > >                 at
> > > org.eclipse.jetty.server.session.SessionHandler.doHandle(SessionHandle
> > > r.java:233)
> > >
> > >                 at
> > > org.eclipse.jetty.server.handler.ContextHandler.doHandle(ContextHandle
> > > r.java:1065)
> > >
> > >                 at
> > > org.eclipse.jetty.servlet.ServletHandler.doScope(ServletHandler.java:4
> > > 13)
> > >
> > >                 at
> > > org.eclipse.jetty.server.session.SessionHandler.doScope(SessionHandler
> > > .java:192)
> > >
> > >                 at
> > > org.eclipse.jetty.server.handler.ContextHandler.doScope(ContextHandler
> > > .java:999)
> > >
> > >                 at
> > > org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.ja
> > > va:117)
> > >
> > >                 at
> > > org.eclipse.jetty.server.handler.ContextHandlerCollection.handle(Conte
> > > xtHandlerCollection.java:250)
> > >
> > >                 at
> > > org.eclipse.jetty.server.handler.HandlerCollection.handle(HandlerColle
> > > ction.java:149)
> > >
> > >                 at
> > > org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.
> > > java:111)
> > >
> > >                 at
> > > org.eclipse.jetty.server.Server.handle(Server.java:351)
> > >
> > >                 at
> > > org.eclipse.jetty.server.AbstractHttpConnection.handleRequest(Abstract
> > > HttpConnection.java:454)
> > >
> > >                 at
> > > org.eclipse.jetty.server.BlockingHttpConnection.handleRequest(Blocking
> > > HttpConnection.java:47)
> > >
> > >                 at
> > > org.eclipse.jetty.server.AbstractHttpConnection.content(AbstractHttpCo
> > > nnection.java:900)
> > >
> > >                 at
> > > org.eclipse.jetty.server.AbstractHttpConnection$RequestHandler.content
> > > (AbstractHttpConnection.java:954)
> > >
> > >                 at
> > > org.eclipse.jetty.http.HttpParser.parseNext(HttpParser.java:952)
> > >
> > >                 at
> > > org.eclipse.jetty.http.HttpParser.parseAvailable(HttpParser.java:230)
> > >
> > >                 at
> > > org.eclipse.jetty.server.BlockingHttpConnection.handle(BlockingHttpCon
> > > nection.java:66)
> > >
> > >                 at
> > > org.eclipse.jetty.server.bio.SocketConnector$ConnectorEndPoint.run(Soc
> > > ketConnector.java:254)
> > >
> > >                 at
> > >
> > org.eclipse.jetty.util.thread.QueuedThreadPool.runJob(QueuedThreadPool
> > > .java:599)
> > >
> > >                 at
> > > org.eclipse.jetty.util.thread.QueuedThreadPool$3.run(QueuedThreadPool.
> > > java:534)
> > >
> > >                 at java.lang.Thread.run(Unknown Source)
> > >
> > > Caused by: java.lang.IllegalArgumentException: URI is not hierarchical
> > >
> > >                 at java.io.File.<init>(Unknown Source)
> > >
> > >                 at
> > > org.apache.ctakes.core.resource.FileResourceImpl.load(FileResourceImpl
> > > .java:44)
> > >
> > >                 at
> > >
> > org.apache.uima.resource.impl.ResourceManager_impl.registerResource(Re
> > > sourceManager_impl.java:603)
> > >
> > >                 at
> > > org.apache.uima.resource.impl.ResourceManager_impl.initializeExternalR
> > > esources(ResourceManager_impl.java:442)
> > >
> > >                 at
> > > org.apache.uima.resource.Resource_ImplBase.initialize(Resource_ImplBas
> > > e.java:146)
> > >
> > >                 at
> > > org.apache.uima.analysis_engine.impl.AnalysisEngineImplBase.initialize
> > > (AnalysisEngineImplBase.java:157)
> > >
> > >                 at
> > > org.apache.uima.analysis_engine.impl.PrimitiveAnalysisEngine_impl.init
> > > ialize(PrimitiveAnalysisEngine_impl.java:122)
> > >
> > >                 at
> > >
> > org.apache.uima.impl.AnalysisEngineFactory_impl.produceResource(Analys
> > > isEngineFactory_impl.java:94)
> > >
> > >                 at
> > >
> > org.apache.uima.impl.CompositeResourceFactory_impl.produceResource(C
> > om
> > > positeResourceFactory_impl.java:62)
> > >
> > >                 at
> > >
> > org.apache.uima.UIMAFramework.produceResource(UIMAFramework.java:
> > 267)
> > >
> > >                 at
> > >
> > org.apache.uima.UIMAFramework.produceAnalysisEngine(UIMAFramework
> > .java
> > > :361)
> > >
> > >                 at
> > > org.apache.uima.analysis_engine.asb.impl.ASB_impl.setup(ASB_impl.java:
> > > 254)
> > >
> > >                 at
> > > org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.init
> > > ASB(AggregateAnalysisEngine_impl.java:431)
> > >
> > >                 at
> > > org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.init
> > > ializeAggregateAnalysisEngine(AggregateAnalysisEngine_impl.java:375)
> > >
> > >                 at
> > > org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.init
> > > ialize(AggregateAnalysisEngine_impl.java:185)
> > >
> > >                 at
> > >
> > org.apache.uima.impl.AnalysisEngineFactory_impl.produceResource(Analys
> > > isEngineFactory_impl.java:94)
> > >
> > >                 at
> > >
> > org.apache.uima.impl.CompositeResourceFactory_impl.produceResource(C
> > om
> > > positeResourceFactory_impl.java:62)
> > >
> > >                 at
> > >
> > org.apache.uima.UIMAFramework.produceResource(UIMAFramework.java:
> > 267)
> > >
> > >                 at
> > >
> > org.apache.uima.UIMAFramework.produceAnalysisEngine(UIMAFramework
> > .java
> > > :335)
> > >
> > >                 at
> > > org.apache.lucene.analysis.uima.ae.BasicAEProvider.getAE(BasicAEProvid
> > > er.java:73)
> > >
> > >                 at
> > >
> > org.apache.solr.uima.processor.UIMAUpdateRequestProcessor.processText
> > (
> > > UIMAUpdateRequestProcessor.java:155)
> > >
> > >                 at
> > >
> > org.apache.solr.uima.processor.UIMAUpdateRequestProcessor.processAdd(
> > U
> > > IMAUpdateRequestProcessor.java:80)
> > >
> > >                 ... 40 more
> > >
> > >
> > >
> > > From: Pei Chen [mailto:chenpei@apache.org]
> > > Sent: Wednesday, August 28, 2013 11:43 AM
> > > To: user@ctakes.apache.org
> > > Subject: Re: Package for use with Solr
> > >
> > >
> > >
> > > One can download the binaries which has all of the jars and resources.
> > > Of if you build from source, you can run $mvn package which will
> > > generate a convenience zip with all of the jars and transitive
> > > dependencies and resources neatly packaged inside ctakes-dist/target/.
> > >
> > >
> > >
> > > Hope that helps-
> > >
> > > Pei
> > >
> > >
> > >
> > > On Tue, Aug 27, 2013 at 6:07 PM, Vogel, James
> > > <JVogel@activehealth.net>
> > > wrote:
> > >
> > > I'm not yet planning on SolrCAS because I'm not familiar with it yet.
> > > First I just want to use the UIMAUpdateRequestProcessor to map the
> > > results from specific fields into solr.  I'm currently stuck on how to
> > > create jar(s) that contain all the things under the *-res folders to
> > > work around the following
> > > error:
> > >
> > > Caused by: java.io.FileNotFoundException:
> > > org\apache\ctakes\dependency\parser\models\lemmatizer\dictionary-
> > 1.3.1
> > > .jar (The system cannot find the path specified)
> > >
> > >
> > >
> > > I'm not familiar with maven.  The jars I created via the maven
> > > assembly command only contain the classes.  Is there a maven command
> > > to create a ctakes jar(s) that contains all the components (classes,
> > > xmls, dictionaries, etc.)?
> > >
> > >
> > >
> > > From: Chen, Pei [mailto:Pei.Chen@childrens.harvard.edu]
> > > Sent: Tuesday, August 27, 2013 9:58 AM
> > > To: user@ctakes.apache.org
> > > Subject: RE: Package for use with Solr
> > >
> > >
> > >
> > > Hi James,
> > >
> > > I believe the process of deploying a primitive annotator should be the
> > > same as an aggregate pipeline that contains a fixed flow...
> > >
> > > I presume you would like to append something like the SolrCAS cas
> > > consumer at the end of the pipeline?
> > >
> > > --Pei
> > >
> > >
> > >
> > > From: Vogel, James [mailto:JVogel@activehealth.net]
> > > Sent: Tuesday, August 27, 2013 7:09 AM
> > > To: user@ctakes.apache.org
> > > Subject: Package for use with Solr
> > >
> > >
> > >
> > > Any guidance on how to package all the components needed for the
> > > ctakes clinical pipeline AggregatePlaintextUMLSProcessor so that it
> > > can be deployed as part of another application?  I'd like to deploy it
> > > to be run by the UIMAUpdateRequestProcessor as part of solr document
> > > indexing. I know how to package a single UIMA annotator by just
> > > referencing the .xml file and putting the jar on the class path for
> > > Solr.  I don't know how to do the same for all of the components in the
> > pipeline.
> > >
> > >
> > >
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