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From "Pei Chen (JIRA)" <j...@apache.org>
Subject [jira] [Commented] (CTAKES-347) AggregateCdaProcessor fails with URI is not hierarchical
Date Mon, 02 Feb 2015 18:17:34 GMT

    [ https://issues.apache.org/jira/browse/CTAKES-347?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14301577#comment-14301577
] 

Pei Chen commented on CTAKES-347:
---------------------------------

Thanks Weiwei Zhang for the stacktrace:
Stacktrace: 

log4j: reset attribute= "false".
log4j: Threshold ="null".
log4j: Level value for root is  [INFO].
log4j: root level set to INFO
log4j: Class name: [org.apache.log4j.ConsoleAppender]
log4j: Parsing layout of class: "org.apache.log4j.PatternLayout"
log4j: Setting property [conversionPattern] to [%d{dd MMM yyyy HH:mm:ss} %5p %c{1} - %m%n].
log4j: Adding appender named [consoleAppender] to category [root].
02 Feb 2015 09:50:51  INFO LvgCmdApiResourceImpl - Loading NLM Norm and Lvg with config file
= /usr/local/apache-ctakes-3.2.0/resources/org/apache/ctakes/lvg/data/config/lvg.properties
02 Feb 2015 09:50:51  INFO LvgCmdApiResourceImpl -   config file absolute path = /usr/local/apache-ctakes-3.2.0/resources/org/apache/ctakes/lvg/data/config/lvg.properties
02 Feb 2015 09:50:51  INFO LvgCmdApiResourceImpl - cwd = /usr/local/apache-ctakes-3.2.0
02 Feb 2015 09:50:51  INFO LvgCmdApiResourceImpl - cd /usr/local/apache-ctakes-3.2.0/resources/org/apache/ctakes/lvg/
02 Feb 2015 09:50:53  INFO LvgCmdApiResourceImpl - cd /usr/local/apache-ctakes-3.2.0
org.apache.uima.resource.ResourceInitializationException: Initialization of CAS Processor
with name "AggregateCdaProcessor" failed.  
at org.apache.uima.collection.impl.CollectionProcessingEngine_impl.initialize(CollectionProcessingEngine_impl.java:83)
at org.apache.uima.impl.UIMAFramework_impl._produceCollectionProcessingEngine(UIMAFramework_impl.java:420)
at org.apache.uima.UIMAFramework.produceCollectionProcessingEngine(UIMAFramework.java:864)
at org.apache.uima.tools.cpm.CpmPanel.startProcessing(CpmPanel.java:573)
at org.apache.uima.tools.cpm.CpmPanel.access$000(CpmPanel.java:105)
at org.apache.uima.tools.cpm.CpmPanel$1.run(CpmPanel.java:713)
Caused by: org.apache.uima.resource.ResourceConfigurationException: Initialization of CAS
Processor with name "AggregateCdaProcessor" failed.  
at org.apache.uima.collection.impl.cpm.container.CPEFactory.produceIntegratedCasProcessor(CPEFactory.java:1104)
at org.apache.uima.collection.impl.cpm.container.CPEFactory.getCasProcessors(CPEFactory.java:550)
at org.apache.uima.collection.impl.cpm.BaseCPMImpl.init(BaseCPMImpl.java:253)
at org.apache.uima.collection.impl.cpm.BaseCPMImpl.<init>(BaseCPMImpl.java:127)
at org.apache.uima.collection.impl.CollectionProcessingEngine_impl.initialize(CollectionProcessingEngine_impl.java:75)
... 5 more
Caused by: java.lang.IllegalArgumentException: URI is not hierarchical
at java.io.File.<init>(File.java:418)
at org.apache.ctakes.core.resource.FileResourceImpl.load(FileResourceImpl.java:44)
at org.apache.uima.resource.impl.ResourceManager_impl.registerResource(ResourceManager_impl.java:603)
at org.apache.uima.resource.impl.ResourceManager_impl.initializeExternalResources(ResourceManager_impl.java:442)
at org.apache.uima.resource.Resource_ImplBase.initialize(Resource_ImplBase.java:153)
at org.apache.uima.analysis_engine.impl.AnalysisEngineImplBase.initialize(AnalysisEngineImplBase.java:157)
at org.apache.uima.analysis_engine.impl.PrimitiveAnalysisEngine_impl.initialize(PrimitiveAnalysisEngine_impl.java:123)
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


> AggregateCdaProcessor fails with URI is not hierarchical
> --------------------------------------------------------
>
>                 Key: CTAKES-347
>                 URL: https://issues.apache.org/jira/browse/CTAKES-347
>             Project: cTAKES
>          Issue Type: Bug
>          Components: ctakes-clinical-pipeline
>    Affects Versions: 3.2.1
>            Reporter: Pei Chen
>             Fix For: 3.2.2
>
>
> Currently configured to attempt to use physical file:/// instead of using classpath.
> http://svn.apache.org/repos/asf/ctakes/trunk/ctakes-
> preprocessor/desc/CdaCasInitializer.xml



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