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From "Chen, Pei" <Pei.C...@childrens.harvard.edu>
Subject RE: NPE with ytex in ctakes 3.2.0
Date Fri, 10 Oct 2014 20:53:35 GMT
I think it’s in ctakes-ytex-res.jar (is that in your classpath)?
This is just a guess… vj may have a better idea if it still doesn’t work for you.

From: David Kincaid [mailto:kincaid.dave@gmail.com]
Sent: Friday, October 10, 2014 4:51 PM
To: user@ctakes.apache.org
Subject: Re: NPE with ytex in ctakes 3.2.0

No. I have no file named beanRefContext.xml anywhere on my hard drive.



On Fri, Oct 10, 2014 at 3:45 PM, Chen, Pei <Pei.Chen@childrens.harvard.edu<mailto:Pei.Chen@childrens.harvard.edu>>
wrote:
I’m not too familiar with the ytex component,
but my guess is that the ytexApplicationContext bean is null?
It seems that it would be expected to be in the classpath*:org/apache/ctakes/ytex/uima/beanRefContext.xml?
 Do those exists?

From: David Kincaid [mailto:kincaid.dave@gmail.com<mailto:kincaid.dave@gmail.com>]
Sent: Friday, October 10, 2014 4:23 PM
To: user@ctakes.apache.org<mailto:user@ctakes.apache.org>
Subject: NPE with ytex in ctakes 3.2.0

I'm trying to experiment the ytex in 3.2.0. Trying to run AggregatePlaintextUMLSProcessor
with the FilesInDirectoryCollectionReader and FileWriterCASConsumer. When I try to run it
against some text files it blows up with a null pointer exception during initialization. Here's
the relevant part of the stack trace. Anyone have any ideas what I might have wrong?:

Caused by: org.apache.uima.resource.ResourceInitializationException: Initialization of annotator
class "org.apache.ctakes.ytex.uima.annotators.SegmentRegexAnnotator" failed.  (Descriptor:
file:/home/davek/apps/apache-ctakes-3.2.0/desc/ctakes-ytex-uima/desc/analysis_engine/SegmentRegexAnnotator.xml)
          at org.apache.uima.analysis_engine.impl.PrimitiveAnalysisEngine_impl.initializeAnalysisComponent(PrimitiveAnalysisEngine_impl.java:252)
          at org.apache.uima.analysis_engine.impl.PrimitiveAnalysisEngine_impl.initialize(PrimitiveAnalysisEngine_impl.java:156)
          at org.apache.uima.impl.AnalysisEngineFactory_impl.produceResource(AnalysisEngineFactory_impl.java:94)
          at org.apache.uima.impl.CompositeResourceFactory_impl.produceResource(CompositeResourceFactory_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:254)
          at org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.initASB(AggregateAnalysisEngine_impl.java:431)
          at org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.initializeAggregateAnalysisEngine(AggregateAnalysisEngine_impl.java:375)
          at org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.initialize(AggregateAnalysisEngine_impl.java:185)
          at org.apache.uima.impl.AnalysisEngineFactory_impl.produceResource(AnalysisEngineFactory_impl.java:94)
          at org.apache.uima.impl.CompositeResourceFactory_impl.produceResource(CompositeResourceFactory_impl.java:62)
          at org.apache.uima.UIMAFramework.produceResource(UIMAFramework.java:269)
          at org.apache.uima.UIMAFramework.produceResource(UIMAFramework.java:314)
          at org.apache.uima.UIMAFramework.produceAnalysisEngine(UIMAFramework.java:425)
          at org.apache.uima.collection.impl.cpm.container.CPEFactory.produceIntegratedCasProcessor(CPEFactory.java:1088)
          ... 9 more
Caused by: java.lang.NullPointerException
          at org.apache.ctakes.ytex.uima.ApplicationContextHolder.getApplicationContext(ApplicationContextHolder.java:79)
          at org.apache.ctakes.ytex.uima.annotators.SegmentRegexAnnotator.initialize(SegmentRegexAnnotator.java:64)
          at org.apache.uima.analysis_engine.impl.PrimitiveAnalysisEngine_impl.initializeAnalysisComponent(PrimitiveAnalysisEngine_impl.java:250)
          ... 24 more


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