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From Apache Jenkins Server <jenk...@builds.apache.org>
Subject Build failed in Jenkins: ctakes-trunk-package #467
Date Wed, 05 Oct 2016 11:44:50 GMT
See <https://builds.apache.org/job/ctakes-trunk-package/467/changes>

Changes:

[seanfinan] Check for zero printable tokens

[dligach] simplified label assignment

[clin] add event-event CNN annotation and evaluation code

------------------------------------------
[...truncated 3529 lines...]
A         ctakes-chunker/scripts/groovy/data
A         ctakes-chunker/scripts/groovy/data/chunk
A         ctakes-chunker/scripts/groovy/data/chunk/TagReport.groovy
A         ctakes-chunker/src
A         ctakes-chunker/src/main
A         ctakes-chunker/src/main/java
A         ctakes-chunker/src/main/java/org
A         ctakes-chunker/src/main/java/org/apache
A         ctakes-chunker/src/main/java/org/apache/ctakes
A         ctakes-chunker/src/main/java/org/apache/ctakes/chunker
A         ctakes-chunker/src/main/java/org/apache/ctakes/chunker/ae
A         ctakes-chunker/src/main/java/org/apache/ctakes/chunker/ae/adjuster
A         ctakes-chunker/src/main/java/org/apache/ctakes/chunker/ae/adjuster/ChunkAdjuster.java
A         ctakes-chunker/src/main/java/org/apache/ctakes/chunker/ae/ChunkCreator.java
A         ctakes-chunker/src/main/java/org/apache/ctakes/chunker/ae/DefaultChunkCreator.java
A         ctakes-chunker/src/main/java/org/apache/ctakes/chunker/ae/PhraseTypeChunkCreator.java
A         ctakes-chunker/src/main/java/org/apache/ctakes/chunker/ae/Chunker.java
A         ctakes-chunker/src/test
A         ctakes-chunker/src/test/java
A         ctakes-chunker/src/test/java/org
A         ctakes-chunker/src/test/java/org/apache
A         ctakes-chunker/src/test/java/org/apache/ctakes
A         ctakes-chunker/src/test/java/org/apache/ctakes/chunker
A         ctakes-chunker/src/test/java/org/apache/ctakes/chunker/ChunkAdjusterTests.java
A         ctakes-chunker/src/test/java/org/apache/ctakes/chunker/ChunkerTests.java
A         ctakes-chunker/src/test/resources
A         ctakes-chunker/src/test/resources/data
A         ctakes-chunker/src/test/resources/data/output
A         ctakes-chunker/src/test/resources/data/output/text1.txt.included.used.tag-dictionary.xml
A         ctakes-chunker/src/test/resources/data/output/NotesIIST_RTF.DTD
A         ctakes-chunker/src/test/resources/data/output/text1.txt.included.xml
A         ctakes-chunker/src/test/resources/data/unit-test.opennlp.chunks
A         ctakes-chunker/src/test/resources/data/text-files
A         ctakes-chunker/src/test/resources/data/text-files/text1.txt
A         ctakes-chunker/src/test/resources/data/README
A         ctakes-chunker/data
A         ctakes-chunker/data/chunk
A         ctakes-chunker/data/chunk/genia
A         ctakes-chunker/data/chunk/genia/genia.opennlp.chunks
A         ctakes-chunker/data/chunk/genia/README
A         ctakes-chunker/data/chunk/combinations
A         ctakes-chunker/data/chunk/ptb
A         ctakes-chunker/data/chunk/ptb/README
A         ctakes-chunker/data/treebank
A         ctakes-chunker/data/treebank/genia
A         ctakes-chunker/data/treebank/genia/README
A         ctakes-chunker/data/treebank/genia/names-00.txt
A         ctakes-chunker/data/treebank/genia/00
A         ctakes-chunker/data/treebank/genia/names-01.txt
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A         ctakes-chunker/pom.xml
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A         ctakes-chunker/resources/launch
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AU        ctakes-chunker/resources/launch/chunker.launch
AU        ctakes-chunker/resources/launch/UIMA_CPE_GUI--chunker.launch
A         ctakes-chunker/README
A         ctakes-chunker/ExampleTrainChunker.bat
A         ctakes-chunker/desc
A         ctakes-chunker/desc/Chunker.xml
A         ctakes-chunker/desc/test
A         ctakes-chunker/desc/test/POSTagger.xml
A         ctakes-chunker/desc/test/PhraseTypeChunkerAggregate.xml
A         ctakes-chunker/desc/test/Chunker.xml
A         ctakes-chunker/desc/test/TokenizerAnnotator.xml
A         ctakes-chunker/desc/test/ChunkAdjusterAggregate.xml
A         ctakes-chunker/desc/test/ChunkerCpeUsingPosTagDictionary.xml
A         ctakes-chunker/desc/test/SimpleSegmentAnnotator.xml
A         ctakes-chunker/desc/test/AdjustNounPhraseToIncludeFollowingPPNP.xml
A         ctakes-chunker/desc/test/ChunkerAggregate.xml
A         ctakes-chunker/desc/test/ChunkerCPE.xml
A         ctakes-chunker/desc/SimpleSegmentAnnotator.xml
A         ctakes-chunker/desc/AdjustNounPhraseToIncludeFollowingNP.xml
A         ctakes-chunker/desc/AdjustNounPhraseToIncludeFollowingPPNP.xml
A         ctakes-chunker/desc/AdjustOPhraseToIncludeFollowingO.xml
A         ctakes-chunker/desc/ChunkerAggregate.xml
A         ctakes-chunker/desc/ChunkerCPE.xml
A         ctakes-chunker/desc/analysis_engine
A         ctakes-chunker/desc/ChunkAdjuster.xml
A         ctakes-chunker/desc/POSTagger.xml
A         ctakes-chunker/desc/AggregateAE.xml
A         ctakes-chunker/desc/collection_processing_engine
A         ctakes-dependency-parser-res
A         ctakes-dependency-parser-res/LICENSE
A         ctakes-dependency-parser-res/src
A         ctakes-dependency-parser-res/src/test
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A         ctakes-dependency-parser-res/src/main/resources
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A         ctakes-dependency-parser-res/src/main/resources/org/apache/ctakes
A         ctakes-dependency-parser-res/src/main/resources/org/apache/ctakes/dependency
A         ctakes-dependency-parser-res/src/main/resources/org/apache/ctakes/dependency/parser
A         ctakes-dependency-parser-res/src/main/resources/org/apache/ctakes/dependency/parser/models
A         ctakes-dependency-parser-res/src/main/resources/org/apache/ctakes/dependency/parser/models/srl
AU        ctakes-dependency-parser-res/src/main/resources/org/apache/ctakes/dependency/parser/models/srl/mayo-en-srl-1.3.0.jar
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AU        ctakes-dependency-parser-res/src/main/resources/org/apache/ctakes/dependency/parser/models/clearparser_models.jar
A         ctakes-dependency-parser-res/src/main/resources/org/apache/ctakes/dependency/parser/models/role
AU        ctakes-dependency-parser-res/src/main/resources/org/apache/ctakes/dependency/parser/models/role/mayo-en-role-1.3.0.jar
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A         ctakes-dependency-parser-res/src/main/resources/org/apache/ctakes/dependency/parser/models/pred
AU        ctakes-dependency-parser-res/src/main/resources/org/apache/ctakes/dependency/parser/models/pred/mayo-en-pred-1.3.0.jar
A         ctakes-dependency-parser-res/src/main/resources/org/apache/ctakes/dependency/parser/models/dependency
AU        ctakes-dependency-parser-res/src/main/resources/org/apache/ctakes/dependency/parser/models/dependency/mayo-en-dep-1.3.0.jar
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A         ctakes-ytex-web/src/main/java/org
A         ctakes-ytex-web/src/main/java/org/apache
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A         ctakes-ytex-web/src/main/java/org/apache/ctakes/ytex/web
A         ctakes-ytex-web/src/main/java/org/apache/ctakes/ytex/web/search
A         ctakes-ytex-web/src/main/java/org/apache/ctakes/ytex/web/search/DocumentSearchServiceImpl.java
A         ctakes-ytex-web/src/main/java/org/apache/ctakes/ytex/web/search/FullTextDocumentViewBean.java
A         ctakes-ytex-web/src/main/java/org/apache/ctakes/ytex/web/search/ConceptLookupBean.java
A         ctakes-ytex-web/src/main/java/org/apache/ctakes/ytex/web/search/SemanticSimRegistryBean.java
A         ctakes-ytex-web/src/main/java/org/apache/ctakes/ytex/web/search/ConceptFirstWord.java
A         ctakes-ytex-web/src/main/java/org/apache/ctakes/ytex/web/search/DocumentViewBean.java
A         ctakes-ytex-web/src/main/java/org/apache/ctakes/ytex/web/search/SemanticSearchBean.java
A         ctakes-ytex-web/src/main/java/org/apache/ctakes/ytex/web/search/SearchConfigBean.java
A         ctakes-ytex-web/src/main/java/org/apache/ctakes/ytex/web/search/ConceptSearchService.java
A         ctakes-ytex-web/src/main/java/org/apache/ctakes/ytex/web/search/SemanticSimBean.java
A         ctakes-ytex-web/src/main/java/org/apache/ctakes/ytex/web/search/DocumentSearchResult.java
A         ctakes-ytex-web/src/main/java/org/apache/ctakes/ytex/web/search/FullTextSearchBean.java
A         ctakes-ytex-web/src/main/java/org/apache/ctakes/ytex/web/search/SemanticSimServiceBean.java
A         ctakes-ytex-web/src/main/java/org/apache/ctakes/ytex/web/search/ConceptSearchServiceImpl.java
A         ctakes-ytex-web/src/main/java/org/apache/ctakes/ytex/web/search/DocumentSearchService.java
A         ctakes-ytex-web/src/main/java/org/apache/ctakes/ytex/ws
A         ctakes-ytex-web/src/main/java/org/apache/ctakes/ytex/ws/ConceptSimilarityRestService.java
A         ctakes-ytex-web/src/main/java/org/apache/ctakes/ytex/ws/ConceptSimilarityWebService.java
A         ctakes-ytex-web/src/main/java/org/apache/ctakes/ytex/ws/ConceptSimilarityWebServiceImpl.java
A         ctakes-ytex-web/src/main/java/org/apache/ctakes/ytex/ws/SimServiceInfo.java
A         ctakes-ytex-web/src/main/resources
A         ctakes-ytex-web/src/main/webapp
A         ctakes-ytex-web/src/main/webapp/metricCheckboxes.xhtml
A         ctakes-ytex-web/src/main/webapp/timeout.jsp
A         ctakes-ytex-web/src/main/webapp/index.jsp
A         ctakes-ytex-web/src/main/webapp/semanticSimMulti.xhtml
A         ctakes-ytex-web/src/main/webapp/semanticSearch.xhtml
A         ctakes-ytex-web/src/main/webapp/viewDocument.xhtml
A         ctakes-ytex-web/src/main/webapp/about.xhtml
A         ctakes-ytex-web/src/main/webapp/images
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AU        ctakes-ytex-web/src/main/webapp/images/new-address-button-disabled.gif
AU        ctakes-ytex-web/src/main/webapp/images/status_blank.gif
AU        ctakes-ytex-web/src/main/webapp/images/reset-button.gif
AU        ctakes-ytex-web/src/main/webapp/images/button_bkgnd2.gif
AU        ctakes-ytex-web/src/main/webapp/images/ysm_logo_print.gif
AU        ctakes-ytex-web/src/main/webapp/images/complete-address-button.gif
AU        ctakes-ytex-web/src/main/webapp/images/ysm_home_banner.gif
AU        ctakes-ytex-web/src/main/webapp/images/ctakes_logo.jpg
AU        ctakes-ytex-web/src/main/webapp/images/blue-fade-bkgnd.gif
AU        ctakes-ytex-web/src/main/webapp/images/status_progress.gif
AU        ctakes-ytex-web/src/main/webapp/images/hide-notes-button.gif
AU        ctakes-ytex-web/src/main/webapp/images/view-notes-button.gif
AU        ctakes-ytex-web/src/main/webapp/images/status_alert.gif
AU        ctakes-ytex-web/src/main/webapp/images/blue-header-fade.gif
AU        ctakes-ytex-web/src/main/webapp/images/button_bkgnd.gif
AU        ctakes-ytex-web/src/main/webapp/images/complete-address-button-dis.gif
AU        ctakes-ytex-web/src/main/webapp/images/ysm_logo_print.png
AU        ctakes-ytex-web/src/main/webapp/images/new-address-button.gif
AU        ctakes-ytex-web/src/main/webapp/images/debug.gif
A         ctakes-ytex-web/src/main/webapp/WEB-INF
A         ctakes-ytex-web/src/main/webapp/WEB-INF/inc-templates
A         ctakes-ytex-web/src/main/webapp/WEB-INF/inc-templates/commonLayout.xhtml
A         ctakes-ytex-web/src/main/webapp/WEB-INF/applicationContext.xml
A         ctakes-ytex-web/src/main/webapp/WEB-INF/web.xml
A         ctakes-ytex-web/src/main/webapp/WEB-INF/inc-content
A         ctakes-ytex-web/src/main/webapp/WEB-INF/inc-content/header.xhtml
A         ctakes-ytex-web/src/main/webapp/WEB-INF/faces-config.xml
A         ctakes-ytex-web/src/main/webapp/semanticSim.xhtml
A         ctakes-ytex-web/src/main/webapp/css
A         ctakes-ytex-web/src/main/webapp/css/images
AU        ctakes-ytex-web/src/main/webapp/css/images/banner_hdr_address.jpg
AU        ctakes-ytex-web/src/main/webapp/css/images/bgslice_footer.gif
AU        ctakes-ytex-web/src/main/webapp/css/images/blue004.jpg
AU        ctakes-ytex-web/src/main/webapp/css/images/footer_faces.jpg
AU        ctakes-ytex-web/src/main/webapp/css/images/banner_bg.gif
AU        ctakes-ytex-web/src/main/webapp/css/images/banner_logo.jpg
AU        ctakes-ytex-web/src/main/webapp/css/images/images.jpg
AU        ctakes-ytex-web/src/main/webapp/css/images/bgslice_footer.jpg
A         ctakes-ytex-web/src/main/webapp/css/menuStyle.css
A         ctakes-ytex-web/src/main/webapp/css/mainscript.css
A         ctakes-ytex-web/pom.xml
A         ctakes-ytex-web/README.txt
 U        .
At revision 1763433

ERROR: Processing failed due to a bug in the code. Please report this to jenkinsci-users@googlegroups.com
java.lang.IllegalArgumentException: /home/jenkins/tools/maven/apache-maven-3.0.5 doesn't have
a 'lib' subdirectory - thus cannot be a valid maven installation!
	at hudson.maven.MavenEmbedderUtils.buildClassRealm(MavenEmbedderUtils.java:83)
	at hudson.maven.MavenEmbedderUtils.getMavenVersion(MavenEmbedderUtils.java:188)
	at hudson.maven.MavenVersionCallable.call(MavenVersionCallable.java:70)
	at hudson.maven.MavenVersionCallable.call(MavenVersionCallable.java:42)
	at hudson.remoting.UserRequest.perform(UserRequest.java:153)
	at hudson.remoting.UserRequest.perform(UserRequest.java:50)
	at hudson.remoting.Request$2.run(Request.java:332)
	at hudson.remoting.InterceptingExecutorService$1.call(InterceptingExecutorService.java:68)
	at java.util.concurrent.FutureTask.run(FutureTask.java:262)
	at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1145)
	at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:615)
	at java.lang.Thread.run(Thread.java:745)
	at ......remote call to jenkins-test-552(Native Method)
	at hudson.remoting.Channel.attachCallSiteStackTrace(Channel.java:1416)
	at hudson.remoting.UserResponse.retrieve(UserRequest.java:253)
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	at hudson.FilePath.act(FilePath.java:1102)
	at hudson.maven.MavenModuleSetBuild$MavenModuleSetBuildExecution.doRun(MavenModuleSetBuild.java:629)
	at hudson.model.AbstractBuild$AbstractBuildExecution.run(AbstractBuild.java:534)
	at hudson.model.Run.execute(Run.java:1741)
	at hudson.maven.MavenModuleSetBuild.run(MavenModuleSetBuild.java:531)
	at hudson.model.ResourceController.execute(ResourceController.java:98)
	at hudson.model.Executor.run(Executor.java:410)
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hudson.maven.MavenModule@706ca43d[ctakes-trunk-package/org.apache.ctakes:ctakes-pos-tagger-res][ctakes-trunk-package/org.apache.ctakes:ctakes-pos-tagger-res][relativePath:ctakes-pos-tagger-res],
hudson.maven.MavenModule@632acea9[ctakes-trunk-package/org.apache.ctakes:ctakes-preprocessor][ctakes-trunk-package/org.apache.ctakes:ctakes-preprocessor][relativePath:ctakes-preprocessor],
hudson.maven.MavenModule@1d1f2e[ctakes-trunk-package/org.apache.ctakes:ctakes-regression-test][ctakes-trunk-package/org.apache.ctakes:ctakes-regression-test][relativePath:ctakes-regression-test],
hudson.maven.MavenModule@6721530d[ctakes-trunk-package/org.apache.ctakes:ctakes-relation-extractor][ctakes-trunk-package/org.apache.ctakes:ctakes-relation-extractor][relativePath:ctakes-relation-extractor],
hudson.maven.MavenModule@bb24dff[ctakes-trunk-package/org.apache.ctakes:ctakes-relation-extractor-res][ctakes-trunk-package/org.apache.ctakes:ctakes-relation-extractor-res][relativePath:ctakes-relation-extractor-res],
hudson.maven.MavenModule@ed268c9[ctakes-trunk-package/org.apache.ctakes:ctakes-side-effect][ctakes-trunk-package/org.apache.ctakes:ctakes-side-effect][relativePath:ctakes-side-effect],
hudson.maven.MavenModule@5008985[ctakes-trunk-package/org.apache.ctakes:ctakes-side-effect-res][ctakes-trunk-package/org.apache.ctakes:ctakes-side-effect-res][relativePath:ctakes-side-effect-res],
hudson.maven.MavenModule@669dd482[ctakes-trunk-package/org.apache.ctakes:ctakes-smoking-status][ctakes-trunk-package/org.apache.ctakes:ctakes-smoking-status][relativePath:ctakes-smoking-status],
hudson.maven.MavenModule@5d0b0b23[ctakes-trunk-package/org.apache.ctakes:ctakes-smoking-status-res][ctakes-trunk-package/org.apache.ctakes:ctakes-smoking-status-res][relativePath:ctakes-smoking-status-res],
hudson.maven.MavenModule@291b630[ctakes-trunk-package/org.apache.ctakes:ctakes-template-filler][ctakes-trunk-package/org.apache.ctakes:ctakes-template-filler][relativePath:ctakes-template-filler],
hudson.maven.MavenModule@3530703d[ctakes-trunk-package/org.apache.ctakes:ctakes-temporal][ctakes-trunk-package/org.apache.ctakes:ctakes-temporal][relativePath:ctakes-temporal],
hudson.maven.MavenModule@19f0ae07[ctakes-trunk-package/org.apache.ctakes:ctakes-temporal-res][ctakes-trunk-package/org.apache.ctakes:ctakes-temporal-res][relativePath:ctakes-temporal-res],
hudson.maven.MavenModule@4ca9deca[ctakes-trunk-package/org.apache.ctakes:ctakes-type-system][ctakes-trunk-package/org.apache.ctakes:ctakes-type-system][relativePath:ctakes-type-system],
hudson.maven.MavenModule@b7cd889[ctakes-trunk-package/org.apache.ctakes:ctakes-utils][ctakes-trunk-package/org.apache.ctakes:ctakes-utils][relativePath:ctakes-utils],
hudson.maven.MavenModule@12cab8b1[ctakes-trunk-package/org.apache.ctakes:ctakes-ytex][ctakes-trunk-package/org.apache.ctakes:ctakes-ytex][relativePath:ctakes-ytex],
hudson.maven.MavenModule@10958f9e[ctakes-trunk-package/org.apache.ctakes:ctakes-ytex-res][ctakes-trunk-package/org.apache.ctakes:ctakes-ytex-res][relativePath:ctakes-ytex-res],
hudson.maven.MavenModule@60fb4dea[ctakes-trunk-package/org.apache.ctakes:ctakes-ytex-uima][ctakes-trunk-package/org.apache.ctakes:ctakes-ytex-uima][relativePath:ctakes-ytex-uima],
hudson.maven.MavenModule@3a961551[ctakes-trunk-package/org.apache.ctakes:ctakes-ytex-web][ctakes-trunk-package/org.apache.ctakes:ctakes-ytex-web][relativePath:ctakes-ytex-web]]
project.getRootModule()=hudson.maven.MavenModule@5133f018[ctakes-trunk-package/org.apache.ctakes:ctakes][ctakes-trunk-package/org.apache.ctakes:ctakes][relativePath:]
FATAL: /home/jenkins/tools/maven/apache-maven-3.0.5 doesn't have a 'lib' subdirectory - thus
cannot be a valid maven installation!
java.lang.IllegalArgumentException: /home/jenkins/tools/maven/apache-maven-3.0.5 doesn't have
a 'lib' subdirectory - thus cannot be a valid maven installation!
	at hudson.maven.MavenEmbedderUtils.buildClassRealm(MavenEmbedderUtils.java:83)
	at hudson.maven.MavenEmbedderUtils.getMavenVersion(MavenEmbedderUtils.java:188)
	at hudson.maven.MavenVersionCallable.call(MavenVersionCallable.java:70)
	at hudson.maven.MavenVersionCallable.call(MavenVersionCallable.java:42)
	at hudson.remoting.UserRequest.perform(UserRequest.java:153)
	at hudson.remoting.UserRequest.perform(UserRequest.java:50)
	at hudson.remoting.Request$2.run(Request.java:332)
	at hudson.remoting.InterceptingExecutorService$1.call(InterceptingExecutorService.java:68)
	at java.util.concurrent.FutureTask.run(FutureTask.java:262)
	at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1145)
	at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:615)
	at java.lang.Thread.run(Thread.java:745)
	at ......remote call to jenkins-test-552(Native Method)
	at hudson.remoting.Channel.attachCallSiteStackTrace(Channel.java:1416)
	at hudson.remoting.UserResponse.retrieve(UserRequest.java:253)
	at hudson.remoting.Channel.call(Channel.java:781)
	at hudson.FilePath.act(FilePath.java:1102)
	at hudson.maven.MavenModuleSetBuild$MavenModuleSetBuildExecution.doRun(MavenModuleSetBuild.java:629)
	at hudson.model.AbstractBuild$AbstractBuildExecution.run(AbstractBuild.java:534)
	at hudson.model.Run.execute(Run.java:1741)
	at hudson.maven.MavenModuleSetBuild.run(MavenModuleSetBuild.java:531)
	at hudson.model.ResourceController.execute(ResourceController.java:98)
	at hudson.model.Executor.run(Executor.java:410)

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