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From Apache Jenkins Server <jenk...@builds.apache.org>
Subject Build failed in Jenkins: ctakes-trunk-compiletest #223
Date Wed, 10 Apr 2013 02:14:56 GMT
See <https://builds.apache.org/job/ctakes-trunk-compiletest/223/changes>

Changes:

[chenpei] CTAKES-186 - Add ClearNLP POSTagger as optional AE.  Moved the clearnlp model into
a clearnnlp sub folder.

[chenpei] CTAKES-186 - Add ClearNLP POSTagger as optional AE

------------------------------------------
[...truncated 6541 lines...]
10 Apr 2013 02:00:40  INFO CopyAnnotator - process(JCas)
10 Apr 2013 02:00:40  INFO OverlapAnnotator - process(JCas)
10 Apr 2013 02:00:40  INFO DictionaryLookupAnnotator - process(JCas)
10 Apr 2013 02:00:40  INFO MaxentParserWrapper - Started processing: doc2_07543210_sample_past_smoker.txt
   ....ended with 0 vectors.
10 Apr 2013 02:00:41  INFO MipacqSvmChainCreator - Classifying coreference in document: doc2_07543210_sample_past_smoker.txt
10 Apr 2013 02:00:41  INFO MipacqSvmChainCreator - Done classifying document: doc2_07543210_sample_past_smoker.txt
10 Apr 2013 02:00:41  INFO CasConsumer - Started
10 Apr 2013 02:00:41  INFO SentenceDetector - Starting processing.
10 Apr 2013 02:00:41  INFO TokenizerAnnotatorPTB - process(JCas) in org.apache.ctakes.core.ae.TokenizerAnnotatorPTB
10 Apr 2013 02:00:41  INFO LvgAnnotator - process(JCas)
10 Apr 2013 02:00:41  INFO ContextDependentTokenizerAnnotator - process(JCas)
10 Apr 2013 02:00:41  INFO POSTagger - process(JCas)
10 Apr 2013 02:00:41  INFO Chunker -  process(JCas)
10 Apr 2013 02:00:41  INFO CopyAnnotator - process(JCas)
10 Apr 2013 02:00:41  INFO OverlapAnnotator - process(JCas)
10 Apr 2013 02:00:41  INFO DictionaryLookupAnnotator - process(JCas)
10 Apr 2013 02:00:41  INFO MaxentParserWrapper - Started processing: testpatient_plaintext_2.txt
   ....ended with 0 vectors.
10 Apr 2013 02:00:42  INFO MipacqSvmChainCreator - Classifying coreference in document: testpatient_plaintext_2.txt
10 Apr 2013 02:00:42  INFO MipacqSvmChainCreator - Done classifying document: testpatient_plaintext_2.txt
10 Apr 2013 02:00:42  INFO CasConsumer - Started
10 Apr 2013 02:00:42  INFO SentenceDetector - Starting processing.
10 Apr 2013 02:00:42  INFO TokenizerAnnotatorPTB - process(JCas) in org.apache.ctakes.core.ae.TokenizerAnnotatorPTB
10 Apr 2013 02:00:42  INFO LvgAnnotator - process(JCas)
10 Apr 2013 02:00:42  INFO ContextDependentTokenizerAnnotator - process(JCas)
10 Apr 2013 02:00:42  INFO POSTagger - process(JCas)
10 Apr 2013 02:00:42  INFO Chunker -  process(JCas)
10 Apr 2013 02:00:43  INFO CopyAnnotator - process(JCas)
10 Apr 2013 02:00:43  INFO OverlapAnnotator - process(JCas)
10 Apr 2013 02:00:43  INFO DictionaryLookupAnnotator - process(JCas)
10 Apr 2013 02:00:43  INFO MaxentParserWrapper - Started processing: SampleInputRadiologyNotes.txt
   ....ended with 2 vectors.
10 Apr 2013 02:00:49  INFO MipacqSvmChainCreator - Classifying coreference in document: SampleInputRadiologyNotes.txt
10 Apr 2013 02:00:50  INFO MipacqSvmChainCreator - Done classifying document: SampleInputRadiologyNotes.txt
10 Apr 2013 02:00:50  INFO CasConsumer - Started
10 Apr 2013 02:00:50  INFO SentenceDetector - Starting processing.
10 Apr 2013 02:00:50  INFO TokenizerAnnotatorPTB - process(JCas) in org.apache.ctakes.core.ae.TokenizerAnnotatorPTB
10 Apr 2013 02:00:50  INFO LvgAnnotator - process(JCas)
10 Apr 2013 02:00:50  INFO ContextDependentTokenizerAnnotator - process(JCas)
10 Apr 2013 02:00:50  INFO POSTagger - process(JCas)
10 Apr 2013 02:00:50  INFO Chunker -  process(JCas)
10 Apr 2013 02:00:50  INFO CopyAnnotator - process(JCas)
10 Apr 2013 02:00:50  INFO OverlapAnnotator - process(JCas)
10 Apr 2013 02:00:50  INFO DictionaryLookupAnnotator - process(JCas)
10 Apr 2013 02:00:50  INFO MaxentParserWrapper - Started processing: testfakenote.txt
   ....ended with 5 vectors.
10 Apr 2013 02:00:50  INFO MipacqSvmChainCreator - Classifying coreference in document: testfakenote.txt
10 Apr 2013 02:00:51  INFO MipacqSvmChainCreator - Done classifying document: testfakenote.txt
10 Apr 2013 02:00:51  INFO CasConsumer - Started
10 Apr 2013 02:00:51  INFO SentenceDetector - Starting processing.
10 Apr 2013 02:00:51  INFO TokenizerAnnotatorPTB - process(JCas) in org.apache.ctakes.core.ae.TokenizerAnnotatorPTB
10 Apr 2013 02:00:51  INFO LvgAnnotator - process(JCas)
10 Apr 2013 02:00:51  INFO ContextDependentTokenizerAnnotator - process(JCas)
10 Apr 2013 02:00:51  INFO POSTagger - process(JCas)
10 Apr 2013 02:00:51  INFO Chunker -  process(JCas)
10 Apr 2013 02:00:51  INFO CopyAnnotator - process(JCas)
10 Apr 2013 02:00:51  INFO OverlapAnnotator - process(JCas)
10 Apr 2013 02:00:51  INFO DictionaryLookupAnnotator - process(JCas)
10 Apr 2013 02:00:51  INFO MaxentParserWrapper - Started processing: sample_note_plaintext
   ....ended with 2 vectors.
10 Apr 2013 02:00:51  INFO MipacqSvmChainCreator - Classifying coreference in document: sample_note_plaintext
10 Apr 2013 02:00:52  INFO MipacqSvmChainCreator - Done classifying document: sample_note_plaintext
10 Apr 2013 02:00:52  INFO CasConsumer - Started
10 Apr 2013 02:00:52  INFO SentenceDetector - Starting processing.
10 Apr 2013 02:00:52  INFO TokenizerAnnotatorPTB - process(JCas) in org.apache.ctakes.core.ae.TokenizerAnnotatorPTB
10 Apr 2013 02:00:52  INFO LvgAnnotator - process(JCas)
10 Apr 2013 02:00:52  INFO ContextDependentTokenizerAnnotator - process(JCas)
10 Apr 2013 02:00:52  INFO POSTagger - process(JCas)
10 Apr 2013 02:00:52  INFO Chunker -  process(JCas)
10 Apr 2013 02:00:52  INFO CopyAnnotator - process(JCas)
10 Apr 2013 02:00:52  INFO OverlapAnnotator - process(JCas)
10 Apr 2013 02:00:52  INFO DictionaryLookupAnnotator - process(JCas)
10 Apr 2013 02:00:52  INFO MaxentParserWrapper - Started processing: text1.txt
   ....ended with 0 vectors.
10 Apr 2013 02:00:52  INFO MipacqSvmChainCreator - Classifying coreference in document: text1.txt
10 Apr 2013 02:00:52  INFO MipacqSvmChainCreator - Done classifying document: text1.txt
10 Apr 2013 02:00:52  INFO CasConsumer - Started
10 Apr 2013 02:00:52  INFO SentenceDetector - Starting processing.
10 Apr 2013 02:00:52  INFO TokenizerAnnotatorPTB - process(JCas) in org.apache.ctakes.core.ae.TokenizerAnnotatorPTB
10 Apr 2013 02:00:52  INFO LvgAnnotator - process(JCas)
10 Apr 2013 02:00:52  INFO ContextDependentTokenizerAnnotator - process(JCas)
10 Apr 2013 02:00:52  INFO POSTagger - process(JCas)
10 Apr 2013 02:00:52  INFO Chunker -  process(JCas)
10 Apr 2013 02:00:52  INFO CopyAnnotator - process(JCas)
10 Apr 2013 02:00:52  INFO OverlapAnnotator - process(JCas)
10 Apr 2013 02:00:52  INFO DictionaryLookupAnnotator - process(JCas)
10 Apr 2013 02:00:52  INFO MaxentParserWrapper - Started processing: sample_note
   ....ended with 0 vectors.
10 Apr 2013 02:00:52  INFO MipacqSvmChainCreator - Classifying coreference in document: sample_note
10 Apr 2013 02:00:52  INFO MipacqSvmChainCreator - Done classifying document: sample_note
10 Apr 2013 02:00:52  INFO CasConsumer - Started
10 Apr 2013 02:00:52  INFO RegressionPipelineTest - Completed 12 documents
10 Apr 2013 02:00:52  INFO RegressionPipelineTest - Verifying Test Output: <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-regression-test/testdata/expectedoutput/CoreferenceCPETest/doc1_07543210_sample_unknown.txt.xml>
10 Apr 2013 02:00:54  INFO RegressionPipelineTest - Verifying Test Output: <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-regression-test/testdata/expectedoutput/CoreferenceCPETest/testpatient_plaintext_2.txt.xml>
10 Apr 2013 02:00:54  INFO RegressionPipelineTest - Verifying Test Output: <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-regression-test/testdata/expectedoutput/CoreferenceCPETest/doc2_07543210_sample_current.txt.xml>
Exception in thread "BaseCPMImpl-Thread" junit.framework.AssertionFailedError: Verifying Test
Output: doc2_07543210_sample_current.txt.xmlorg.custommonkey.xmlunit.Diff
[different] Expected number of child nodes '66263' but was '66251' - comparing <CAS...>
at /CAS[1] to <CAS...> at /CAS[1]

	at junit.framework.Assert.fail(Assert.java:50)
	at junit.framework.Assert.assertTrue(Assert.java:20)
	at org.apache.ctakes.regression.test.RegressionPipelineTest.compareXMLOutput(RegressionPipelineTest.java:148)
	at org.apache.ctakes.regression.test.RegressionPipelineTest$StatusCallbackListenerImpl.collectionProcessComplete(RegressionPipelineTest.java:201)
	at org.apache.uima.collection.impl.cpm.BaseCPMImpl.run(BaseCPMImpl.java:538)
	at java.lang.Thread.run(Thread.java:662)

Results :

Tests run: 0, Failures: 0, Errors: 0, Skipped: 0

[JENKINS] Recording test results
[INFO] ------------------------------------------------------------------------
[INFO] Reactor Summary:
[INFO] 
[INFO] Apache cTAKES ..................................... SUCCESS [3.816s]
[INFO] Apache cTAKES common type system .................. SUCCESS [7.863s]
[INFO] Apache cTAKES utils ............................... SUCCESS [1.925s]
[INFO] Apache cTAKES Resources core ...................... SUCCESS [0.700s]
[INFO] Apache cTAKES core ................................ SUCCESS [7.179s]
[INFO] Apache cTAKES Resources pos-tagger ................ SUCCESS [0.681s]
[INFO] Apache cTAKES part-of-speech tagger ............... SUCCESS [2.957s]
[INFO] Apache cTAKES Resources ctakes-chunker-res ........ SUCCESS [0.694s]
[INFO] Apache cTAKES chunker ............................. SUCCESS [1.234s]
[INFO] Apache cTAKES document preprocessor ............... SUCCESS [1.722s]
[INFO] Apache cTAKES Resources dictionary-lookup ......... SUCCESS [1.013s]
[INFO] Apache cTAKES dictionary lookup ................... SUCCESS [10.700s]
[INFO] Apache cTAKES context dependent tokenizer ......... SUCCESS [0.848s]
[INFO] Apache cTAKES Resources lvg ....................... SUCCESS [0.677s]
[INFO] Apache cTAKES LVG lexical tools ................... SUCCESS [1.068s]
[INFO] Apache cTAKES Resources ne-contexts ............... SUCCESS [0.573s]
[INFO] Apache cTAKES named entity contexts ............... SUCCESS [1.844s]
[INFO] Apache cTAKES Resources constituency-parser ....... SUCCESS [0.914s]
[INFO] Apache cTAKES Constituency Parser ................. SUCCESS [0.961s]
[INFO] Apache cTAKES Resources coreference ............... SUCCESS [1.310s]
[INFO] Apache cTAKES Resources relation-extractor ........ SUCCESS [0.628s]
[INFO] Apache cTAKES Resources dependency-parser ......... SUCCESS [1.608s]
[INFO] Apache cTAKES Dependency Parser ................... SUCCESS [24.820s]
[INFO] Apache cTAKES Relation Extractor .................. SUCCESS [6.464s]
[INFO] Apache cTAKES CoReference Resolver ................ SUCCESS [2.806s]
[INFO] Apache cTAKES Resources drug-ner .................. SUCCESS [1.019s]
[INFO] Apache cTAKES Drug NER ............................ SUCCESS [2.535s]
[INFO] Apache cTAKES Resources side-effect ............... SUCCESS [1.434s]
[INFO] Apache cTAKES Side Effects ........................ SUCCESS [1.971s]
[INFO] Apache cTAKES Resources smoking-status ............ SUCCESS [1.678s]
[INFO] Apache cTAKES Smoking Status ...................... SUCCESS [2.031s]
[INFO] Apache cTAKES Resources pad-term-spotter-res ...... SUCCESS [1.324s]
[INFO] Apache cTAKES Pad Term Spotter .................... SUCCESS [1.959s]
[INFO] Apache cTAKES Resources assertion ................. SUCCESS [1.244s]
[INFO] Apache cTAKES Resources assertion-zoner ........... SUCCESS [0.817s]
[INFO] Apache cTAKES Assertion's zoner ................... SUCCESS [0.972s]
[INFO] Apache cTAKES Assertion ........................... SUCCESS [5.905s]
[INFO] Apache cTAKES Resources temporal .................. SUCCESS [0.576s]
[INFO] Apache cTAKES Temporal Information Extraction ..... SUCCESS [7.228s]
[INFO] Apache cTAKES ctakes-clinical-pipeline ............ SUCCESS [3.023s]
[INFO] Apache cTAKES Distribution ........................ SUCCESS [0.835s]
[INFO] Apache cTAKES Regression-test ..................... FAILURE [15:03.195s]
[INFO] ------------------------------------------------------------------------
[INFO] BUILD FAILURE
[INFO] ------------------------------------------------------------------------
[INFO] Total time: 17:05.839s
[INFO] Finished at: Wed Apr 10 02:14:48 UTC 2013
[INFO] Final Memory: 38M/245M
[INFO] ------------------------------------------------------------------------
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Waiting for Jenkins to finish collecting data
mavenExecutionResult exceptions not empty
message : Failed to execute goal org.apache.maven.plugins:maven-surefire-plugin:2.12:test
(default-test) on project ctakes-regression-test: Failure or timeout
cause : Failure or timeout
Stack trace : 
org.apache.maven.lifecycle.LifecycleExecutionException: Failed to execute goal org.apache.maven.plugins:maven-surefire-plugin:2.12:test
(default-test) on project ctakes-regression-test: Failure or timeout
	at org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:217)
	at org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:153)
	at org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:145)
	at org.apache.maven.lifecycle.internal.LifecycleModuleBuilder.buildProject(LifecycleModuleBuilder.java:84)
	at org.apache.maven.lifecycle.internal.LifecycleModuleBuilder.buildProject(LifecycleModuleBuilder.java:59)
	at org.apache.maven.lifecycle.internal.LifecycleStarter.singleThreadedBuild(LifecycleStarter.java:183)
	at org.apache.maven.lifecycle.internal.LifecycleStarter.execute(LifecycleStarter.java:161)
	at org.apache.maven.DefaultMaven.doExecute(DefaultMaven.java:320)
	at org.apache.maven.DefaultMaven.execute(DefaultMaven.java:156)
	at org.jvnet.hudson.maven3.launcher.Maven3Launcher.main(Maven3Launcher.java:79)
	at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
	at java.lang.reflect.Method.invoke(Method.java:597)
	at org.codehaus.plexus.classworlds.launcher.Launcher.launchStandard(Launcher.java:329)
	at org.codehaus.plexus.classworlds.launcher.Launcher.launch(Launcher.java:239)
	at org.jvnet.hudson.maven3.agent.Maven3Main.launch(Maven3Main.java:158)
	at hudson.maven.Maven3Builder.call(Maven3Builder.java:100)
	at hudson.maven.Maven3Builder.call(Maven3Builder.java:66)
	at hudson.remoting.UserRequest.perform(UserRequest.java:118)
	at hudson.remoting.UserRequest.perform(UserRequest.java:48)
	at hudson.remoting.Request$2.run(Request.java:326)
	at hudson.remoting.InterceptingExecutorService$1.call(InterceptingExecutorService.java:72)
	at java.util.concurrent.FutureTask$Sync.innerRun(FutureTask.java:303)
	at java.util.concurrent.FutureTask.run(FutureTask.java:138)
	at java.util.concurrent.ThreadPoolExecutor$Worker.runTask(ThreadPoolExecutor.java:886)
	at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:908)
	at java.lang.Thread.run(Thread.java:662)
Caused by: org.apache.maven.plugin.MojoExecutionException: Failure or timeout
	at org.apache.maven.plugin.surefire.SurefirePlugin.assertNoFailureOrTimeout(SurefirePlugin.java:665)
	at org.apache.maven.plugin.surefire.SurefirePlugin.handleSummary(SurefirePlugin.java:646)
	at org.apache.maven.plugin.surefire.AbstractSurefireMojo.executeAfterPreconditionsChecked(AbstractSurefireMojo.java:137)
	at org.apache.maven.plugin.surefire.AbstractSurefireMojo.execute(AbstractSurefireMojo.java:98)
	at org.apache.maven.plugin.DefaultBuildPluginManager.executeMojo(DefaultBuildPluginManager.java:101)
	at org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:209)
	... 27 more
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