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From Apache Jenkins Server <jenk...@builds.apache.org>
Subject Build failed in Jenkins: ctakes-trunk-package #2
Date Fri, 26 Oct 2012 01:31:27 GMT
See <https://builds.apache.org/job/ctakes-trunk-package/2/changes>

Changes:

[tmill] Added a few more utility methods to AnnotationTreeUtils.  Made a parameter use a public
static string key so it can be invoked from uimafit.

[tmill] Added isLeaf() utility method.  Changed to escape parens.

[chenpei] CTAKES-28 - UMLS username and password could be passed in as a system property or
env variable.
-Added a simple util class called EnvironmentVariable .getEnv(name) will attempt to read the
variables
from system properties, environment variable, then context.  
-Renamed variable name to ctakes.umlsuser and ctakes.umlspw to avoid any potential clashes
in the future.
-Updated any references that used to use those parameters.
-Added a note to the startup scripts and README for users
Feel free to use this/edit consolidated mechanism so it will be easier for maintenance if
we decide to change things.

[tmill] Added type system import to chunker descriptor so eclipse viewer doesn't give errors.
 Also fixed indentation.

[chenpei] CTAKES-89 - During assembly copy the resources from src/main/resources to a resources
directory which could then be added to the classpath during runtime scripts. exclude them
in the jars for now since things like lucene can't read them from a jar anyway.  This is a
non issue for eclipse ide development since maven automatically copies them to target and
is in the classpath anyway.

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A         ctakes-chunker/src/main/java/org/apache/ctakes/chunker/ae
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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/resources
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A         ctakes-chunker/pom.xml
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AU        ctakes-chunker/resources/launch/chunker.launch
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A         ctakes-chunker/ExampleTrainChunker.bat
A         ctakes-chunker/desc
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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/SentenceDetectorAnnotator.xml
A         ctakes-chunker/desc/test/ChunkerAggregate.xml
A         ctakes-chunker/desc/test/ChunkerCPE.xml
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/SimpleSegmentAnnotator.xml
A         ctakes-chunker/desc/AdjustNounPhraseToIncludeFollowingNP.xml
A         ctakes-chunker/desc/AdjustNounPhraseToIncludeFollowingPPNP.xml
A         ctakes-chunker/desc/AdjustOPhraseToIncludeFollowingO.xml
A         ctakes-chunker/desc/SentenceDetectorAnnotator.xml
A         ctakes-chunker/desc/ChunkerCPE-using-unit-test-models_and_tag-dictionary.xml
A         ctakes-chunker/desc/ChunkerAggregate.xml
A         ctakes-chunker/desc/ChunkerCPE.xml
A         ctakes-chunker/desc/ChunkAdjuster.xml
A         ctakes-chunker/desc/POSTagger.xml
A         ctakes-chunker/desc/AggregateAE.xml
A         ctakes-chunker/desc/Chunker.xml
A         ctakes-utils
A         ctakes-utils/.classpath
A         ctakes-utils/.project
A         ctakes-utils/scripts
A         ctakes-utils/scripts/knowtatorTools
AU        ctakes-utils/scripts/knowtatorTools/cTakesNeToKnowtatorAnnotation (for Apache UIMA
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A         ctakes-utils/scripts/knowtatorTools/createGroupTransform.bat
A         ctakes-utils/scripts/knowtatorTools/crtNominateAndTransform.bat
A         ctakes-utils/scripts/knowtatorTools/copyKnowtatorFiles.bat
A         ctakes-utils/scripts/knowtatorTools/createGroupDocs.bat
A         ctakes-utils/src
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A         ctakes-utils/src/main/java/org/apache/ctakes/utils/build/BuildPear.java
A         ctakes-utils/src/main/java/org/apache/ctakes/utils/build/BuildPear.LVG.properties
A         ctakes-utils/src/main/java/org/apache/ctakes/utils/build/BuildPear.core.properties
A         ctakes-utils/src/main/java/org/apache/ctakes/utils/build/InstallPipelineFromPears.java
A         ctakes-utils/src/main/java/org/apache/ctakes/utils/build/BuildPear.NE contexts.properties
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A         ctakes-utils/src/main/java/org/apache/ctakes/utils/build/BuildPipelinePears.java
A         ctakes-utils/src/main/java/org/apache/ctakes/utils/build/BuildPear.chunker.properties
A         ctakes-utils/src/main/java/org/apache/ctakes/utils/build/BuildPear.dictionary lookup.properties
A         ctakes-utils/src/main/java/org/apache/ctakes/utils/build/BuildPear.SideEffect.properties
A         ctakes-utils/src/main/java/org/apache/ctakes/utils/build/BuildPear.Constituency
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A         ctakes-utils/src/main/java/org/apache/ctakes/utils/build/BuildPear.context dependent
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A         ctakes-utils/src/main/java/org/apache/ctakes/utils/build/BuildPear.Drug NER.properties
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A         ctakes-utils/src/main/java/org/apache/ctakes/utils/build/BuildPear.PAD term spotter.properties
A         ctakes-utils/src/main/java/org/apache/ctakes/utils/test
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A         ctakes-utils/src/main/java/org/apache/ctakes/utils/xcas_comparison
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A         ctakes-utils/src/main/java/org/apache/ctakes/utils/xcas_comparison/Const.java
A         ctakes-utils/src/main/java/org/apache/ctakes/utils/xcas_comparison/attributes_to_ignore.properties
A         ctakes-utils/src/main/java/org/apache/ctakes/utils/xcas_comparison/XcasDiff.java
A         ctakes-utils/src/main/java/org/apache/ctakes/utils/xcas_comparison/XcasAnnotation.java
A         ctakes-utils/src/main/java/org/apache/ctakes/utils/xcas_comparison/ConvertAndCompare.java
A         ctakes-utils/src/main/java/org/apache/ctakes/utils/xcas_comparison/XcasFile.java
A         ctakes-utils/src/main/java/org/apache/ctakes/utils/xcas_comparison/XcasProcessor.java
A         ctakes-utils/pom.xml
A         ctakes-utils/.settings
AU        ctakes-utils/.settings/org.eclipse.jdt.core.prefs
AU        ctakes-utils/.settings/org.eclipse.core.resources.prefs
A         ctakes-type-system
A         ctakes-type-system/.classpath
A         ctakes-type-system/META-INF
A         ctakes-type-system/META-INF/MANIFEST.MF
A         ctakes-type-system/metadata
A         ctakes-type-system/metadata/install.xml
A         ctakes-type-system/.project
A         ctakes-type-system/doc
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A         ctakes-type-system/src
A         ctakes-type-system/src/main
A         ctakes-type-system/src/main/java
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A         ctakes-type-system/src/main/java/org/chboston
A         ctakes-type-system/src/main/java/org/apache
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A         ctakes-type-system/src/main/java/org/apache/ctakes/typesystem/kernel/Kernel.java
A         ctakes-type-system/src/main/java/org/apache/ctakes/typesystem/kernel/PolyKernel.java
A         ctakes-type-system/src/main/java/org/apache/ctakes/typesystem/kernel/RBFKernel.java
A         ctakes-type-system/src/main/java/org/apache/ctakes/typesystem/kernel/LinearKernel.java
A         ctakes-type-system/src/main/java/org/apache/ctakes/typesystem/type
A         ctakes-type-system/src/main/java/org/apache/ctakes/typesystem/type/constants
A         ctakes-type-system/src/main/java/org/apache/ctakes/typesystem/type/constants/CONST.java
A         ctakes-type-system/src/main/java/org/apache/ctakes/typesystem/util
A         ctakes-type-system/src/main/java/org/apache/ctakes/typesystem/util/FragmentUtils.java
A         ctakes-type-system/src/main/java/org/apache/ctakes/typesystem/util/SimpleTree.java
A         ctakes-type-system/src/main/java/edu
A         ctakes-type-system/src/main/java/edu/mayo
A         ctakes-type-system/src/main/java/edu/mayo/bmi
A         ctakes-type-system/src/main/java/edu/mayo/bmi/uima
A         ctakes-type-system/src/main/java/edu/mayo/bmi/uima/core
A         ctakes-type-system/src/main/java/edu/mayo/bmi/uima/core/type
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A         ctakes-type-system/src/main/resources/META-INF/org.uimafit
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A         ctakes-type-system/src/main/resources/org
A         ctakes-type-system/src/main/resources/org/apache
A         ctakes-type-system/src/main/resources/org/apache/ctakes
A         ctakes-type-system/src/main/resources/org/apache/ctakes/typesystem
A         ctakes-type-system/src/main/resources/org/apache/ctakes/typesystem/types
A         ctakes-type-system/src/main/resources/org/apache/ctakes/typesystem/types/TypeSystem.xml
A         ctakes-type-system/pom.xml
A         ctakes-type-system/.settings
AU        ctakes-type-system/.settings/org.eclipse.jdt.core.prefs
AU        ctakes-type-system/.settings/org.eclipse.core.resources.prefs
A         ctakes-type-system/desc
At revision 1402357
Parsing POMs
Downloaded artifact http://repo.maven.apache.org/maven2//org/cleartk/cleartk-release/1.2.0/cleartk-release-1.2.0.pom
Downloaded artifact http://repo.maven.apache.org/maven2//org/cleartk/cleartk-parent/1.2.0/cleartk-parent-1.2.0.pom
[ctakes-trunk-package] $ /home/hudson/tools/java/latest1.6/bin/java -cp /export/home/hudson/hudson-slave/maven-agent.jar:/export/home/hudson/hudson-slave/classworlds.jar
hudson.maven.agent.Main /home/hudson/tools/maven/latest /zonestorage/hudson_solaris/home/hudson/hudson-slave/slave.jar
/export/home/hudson/hudson-slave/maven-interceptor.jar 55507 /export/home/hudson/hudson-slave/maven2.1-interceptor.jar
<===[JENKINS REMOTING CAPACITY]===>channel started
   log4j:WARN No appenders could be found for logger (org.apache.commons.beanutils.converters.BooleanConverter).
log4j:WARN Please initialize the log4j system properly.
Executing Maven:  -B -f <https://builds.apache.org/job/ctakes-trunk-package/ws/pom.xml>
-Dmaven.repo.local=/export/home/hudson/hudson-slave/maven-repositories/1 install
[INFO] Scanning for projects...
[INFO] Reactor build order: 
[INFO]   Apache cTAKES
[INFO]   Apache cTAKES common type system
[INFO]   Apache cTAKES utils
[INFO]   Apache cTAKES core
[INFO]   Apache cTAKES part-of-speech tagger
[INFO]   Apache cTAKES chunker
[INFO]   Apache cTAKES document preprocessor
[INFO]   Apache cTAKES dictionary lookup
[INFO]   Apache cTAKES context dependent tokenizer
[INFO]   Apache cTAKES LVG lexical tools
[INFO]   Apache cTAKES named entity contexts
[INFO]   Apache cTAKES Constituency Parser
[INFO]   Apache cTAKES CoReference Resolver
[INFO]   Apache cTAKES Drug NER
[INFO]   Apache cTAKES Side Effects
[INFO]   Apache cTAKES Smoking Status
[INFO]   Apache cTAKES Dependency Parser
[INFO]   Apache cTAKES Assertion
[INFO]   Apache cTAKES ctakes-clinical-pipeline
[INFO]   Apache cTAKES Relation Extractor
[INFO]   Apache cTAKES Pad Term Spotter
[INFO]   Apache cTAKES Temporal Information Extraction
[INFO]   Apache cTAKES Distribution
[INFO] ------------------------------------------------------------------------
[INFO] Building Apache cTAKES
[INFO]    task-segment: [install]
[INFO] ------------------------------------------------------------------------
[WARNING] The parameter expression: 'project.build.resources' used in mojo: 'process' has
been deprecated. Use 'project.resources' instead.
[INFO] [remote-resources:process {execution: default}]
[INFO] [site:attach-descriptor {execution: default-attach-descriptor}]
[INFO] [install:install {execution: default-install}]
[INFO] Installing <https://builds.apache.org/job/ctakes-trunk-package/ws/pom.xml> to
/export/home/hudson/hudson-slave/maven-repositories/1/org/apache/ctakes/ctakes/3.0.0-incubating-SNAPSHOT/ctakes-3.0.0-incubating-SNAPSHOT.pom
[JENKINS] Archiving <https://builds.apache.org/job/ctakes-trunk-package/ws/pom.xml>
to /home/hudson/hudson/jobs/ctakes-trunk-package/modules/org.apache.ctakes$ctakes/builds/2012-10-26_01-26-41/archive/org.apache.ctakes/ctakes/3.0.0-incubating-SNAPSHOT/ctakes-3.0.0-incubating-SNAPSHOT.pom
[INFO] ------------------------------------------------------------------------
[INFO] Building Apache cTAKES common type system
[INFO]    task-segment: [install]
[INFO] ------------------------------------------------------------------------
Downloading: http://repo1.maven.org/maven2/org/cleartk/jcasgen-maven-plugin/0.9.3/jcasgen-maven-plugin-0.9.3.pom
6K downloaded  (jcasgen-maven-plugin-0.9.3.pom)
[INFO] ------------------------------------------------------------------------
[ERROR] BUILD ERROR
[INFO] ------------------------------------------------------------------------
[INFO] Error resolving version for 'org.cleartk:jcasgen-maven-plugin': Plugin requires Maven
version 3.0
[INFO] ------------------------------------------------------------------------
[INFO] For more information, run Maven with the -e switch
[INFO] ------------------------------------------------------------------------
[INFO] Total time: 1 minute 32 seconds
[INFO] Finished at: Fri Oct 26 01:32:00 GMT+00:00 2012
[INFO] Final Memory: 36M/321M
[INFO] ------------------------------------------------------------------------
channel stopped

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