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Posted to notifications@ctakes.apache.org by Apache Jenkins Server <je...@builds.apache.org> on 2014/04/28 18:44:39 UTC
Build failed in Jenkins: ctakes-trunk-package #221
See <https://builds.apache.org/job/ctakes-trunk-package/221/changes>
Changes:
[tmill] Fixed bug in dictionary lookup introduced by Java 7 changes.
[vjapache] #CTAKES-253, CTAKES-292 ytex merge
[vjapache] #CTAKES-253, CTAKES-292 ytex merge
[vjapache] #CTAKES-253, CTAKES-292 ytex merge
[tmill] Fixed reference to non-official model, and switched lvg to not post lemmas.
[tmill] CTAKES-297: First pass at some default pipelines. Full dictionary pipeline still WIP but basics are set up.
[tmill] CTAKES-197: Update Dictionary module to java 7 (and java 5 and 6 while I was at it).
[tmill] CTAKES-297: Standardized Lvg static factory method by catching URI exception.
[tmill] CTAKES-297: Added method for getting default descriptor & model-specifying descriptor for ChunkAdjuster.
[tmill] CTAKES-297: Added method for getting default descriptor & model-specifying descriptor for Chunker.
[tmill] CTAKES-297: Added method for getting default descriptor & model-specifying descriptor for POSTagger.
[tmill] CTAKES-297: Added method for getting default descriptor for ContextDependentTokenizerAnnotator.
[tmill] CTAKES-297: Added method for getting descriptor for LvgAnnotator. Added unit test. Made some parameters optional with sane defaults.
[tmill] CTAKES-297: Added method for getting descriptor for TokenizerAnnotatorPTB
[tmill] CTAKES-16: Fix TokenizerAnnotatorPTB to use UIMAFit select instead of iterator.
[tmill] CTAKES-297: Added methods for getting descriptors for SentenceDetector.
[tmill] CTAKES-297: Added methods for getting descriptors for SimpleSegmentAnnotator.
[tmill] CTAKES-16: Fix to use UIMAFit select instead of iterator.
[dligach] added note name to the output
[chenpei] CTAKES-286 - Remove no longer used pad term spotter and related resources.
Full Thread here: http://mail-archives.apache.org/mod_mbox/ctakes-dev/201402.mbox/%3C924DE05C19409B438EB81DE683A942D91066CE4B%40CHEXMBX1A.CHBOSTON.ORG%3E
[chenpei] CTAKES-294
Wrong PROJECT_ATTR in ctakes-core/resources/launch/UIMA_CVD--core.launch
Thanks iglewski for identifying the issue.
[dligach] got rid of the loop and replaced it with an iterator
[dligach] now using cumulative probability as a feature
[tmill] CTAKES-295: Update CopyAnnotator to use UimaFit-style configuration.
[tmill] CTAKES-295: Update ChunkAdjuster to use UimaFit-style configuration parameters.
[tmill] CTAKES-197: Used java 7 style generics w/o unnecessary type specifications to remove warnings.
[tmill] Minor cleanup -- added comment to undocumented empty method.
[tmill] CTAKES-295: Updated to use uima-fit configuration parameters.
[tmill] CTAKES-295: Update pos tagger to use uimafit configuratino parameters, some other minor java 7 updates.
[tmill] CTAKES-295: Update ContextDependentTokenizerAnnotator to UIMAFit-style methods and Java >=6 overrides.
[tmill] CTAKES-295: Update LVG to use UIMAFit style configuration parameters and resources -- changes some arguments to being optional with sane default values.
[dligach] added event-time relations where arg1=event and arg2=time
[clin] fix a typo in CheckSpecialWordRelatinExtractor, which is used for event-time relation discovery.
[clin] added three more feature extractors for event-time relation discovery.
[dligach] added event-time relations
[dligach] Added a class to display duration information for event arguments of event-event relations. Did some refactoring for EventTimeDurationStatistics related to this.
[dligach] output durations in days (instead of normalized seconds)
[clin] fix a dependency error. added dependency distance as a feature
[clin] add transitive closure for event-time relation discovery. Closure was added for both training and testing, and both gold relations and system predictions.
[dligach] only print contexts of up to 80 characters
[tmill] CTAKES-197: Java 7 updates (mainly type/generic stuff, some try-with-resources) to LVG Annotator.
[dligach] now including relation context too
[tmill] Fixed order of annotators in TokensAndSentencesTAE descriptor.
[dligach] dump duration of event and time arguments of time-event relations to a file
[tmill] CTAKES-295: Updated TokenizerAnnotatorPTB to use UIMAFit configuration.
[tmill] CTAKES-295: Updated CDA segmenter to use uimafit configurations.
[tmill] CTAKES-197: Updates for java 7 to remove warnings.
[tmill] CTAKES-295: Updates SentenceDetector to use UimaFit-style configuration.
[tmill] CTAKES-70: Adds unit test for sentence detector.
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At revision 1590699
Parsing POMs
Discovered a new module org.apache.ctakes:ctakes-ytex-res Apache cTAKES Resources ctakes-ytex-res
Discovered a new module org.apache.ctakes:ctakes-ytex Apache cTAKES YTEX
Discovered a new module org.apache.ctakes:ctakes-ytex-uima Apache cTAKES YTEX UIMA
Discovered a new module org.apache.ctakes:ctakes-ytex-web Apache cTAKES YTEX Web
Modules changed, recalculating dependency graph
maven3-agent.jar already up to date
maven3-interceptor.jar already up to date
maven3-interceptor-commons.jar already up to date
[ctakes-trunk-package] $ /home/hudson/tools/java/latest1.7/bin/java -cp /home/jenkins/jenkins-slave/maven3-agent.jar:/home/hudson/tools/maven/apache-maven-3.0.4/boot/plexus-classworlds-2.4.jar org.jvnet.hudson.maven3.agent.Maven3Main /home/hudson/tools/maven/apache-maven-3.0.4 /home/jenkins/jenkins-slave/slave.jar /home/jenkins/jenkins-slave/maven3-interceptor.jar /home/jenkins/jenkins-slave/maven3-interceptor-commons.jar 46666
<===[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=/home/jenkins/jenkins-slave/maven-repositories/1 clean install -DskipTests=true -pl ctakes-utils,ctakes-core,ctakes-type-system,ctakes-pos-tagger,ctakes-chunker,ctakes-preprocessor,ctakes-dictionary-lookup,ctakes-context-tokenizer,ctakes-lvg,ctakes-ne-contexts,ctakes-constituency-parser,ctakes-coreference,ctakes-drug-ner,ctakes-side-effect,ctakes-smoking-status,ctakes-dependency-parser,ctakes-relation-extractor,ctakes-pad-term-spotter,ctakes-assertion,ctakes-assertion-zoner,ctakes-temporal,ctakes-clinical-pipeline,ctakes-regression-test,ctakes-assertion-res,ctakes-chunker-res,ctakes-constituency-parser-res,ctakes-core-res,ctakes-coreference-res,ctakes-dependency-parser-res,ctakes-dictionary-lookup-res,ctakes-lvg-res,ctakes-pad-term-spotter-res,ctakes-pos-tagger-res,ctakes-relation-extractor-res,ctakes-side-effect-res,ctakes-smoking-status-res,ctakes-temporal-res,ctakes-assertion-zoner-res,ctakes-drug-ner-res,ctakes-ne-contexts-res,ctakes-template-filler,ctakes-examples
[INFO] Scanning for projects...
[WARNING]
[WARNING] Some problems were encountered while building the effective model for org.apache.ctakes:ctakes-assertion:jar:3.1.2-SNAPSHOT
[WARNING] 'dependencies.dependency.(groupId:artifactId:type:classifier)' must be unique: junit:junit:jar -> duplicate declaration of version (?) @ line 154, column 15
[WARNING] 'dependencies.dependency.systemPath' for org.mitre.medfacts:medfacts-i2b2:jar should not point at files within the project directory, ${project.basedir}/lib/med-facts-i2b2-1.2-SNAPSHOT.jar will be unresolvable by dependent projects @ line 197, column 16
[WARNING] 'dependencies.dependency.systemPath' for org.mitre.medfacts:medfacts-zoner:jar should not point at files within the project directory, ${project.basedir}/lib/med-facts-zoner-1.1.jar will be unresolvable by dependent projects @ line 204, column 16
[WARNING] 'dependencies.dependency.systemPath' for org.mitre.jcarafe.core:jcarafe.core:jar should not point at files within the project directory, ${project.basedir}/lib/jcarafe-core_2.9.1-0.9.8.3.RC4.jar will be unresolvable by dependent projects @ line 211, column 16
[WARNING] 'dependencies.dependency.systemPath' for org.mitre.jcarafe.ext:jcarafe.ext:jar should not point at files within the project directory, ${project.basedir}/lib/jcarafe-ext_2.9.1-0.9.8.3.RC4.jar will be unresolvable by dependent projects @ line 218, column 16
[WARNING]
[WARNING] Some problems were encountered while building the effective model for org.apache.ctakes:ctakes-distribution:pom:3.1.2-SNAPSHOT
[WARNING] 'dependencies.dependency.(groupId:artifactId:type:classifier)' must be unique: org.apache.ctakes:ctakes-ne-contexts:jar -> duplicate declaration of version (?) @ line 99, column 15
[WARNING]
[WARNING] Some problems were encountered while building the effective model for org.apache.ctakes:ctakes-ytex:jar:3.1.2-SNAPSHOT
[WARNING] 'build.plugins.plugin.version' for org.codehaus.mojo:jaxb2-maven-plugin is missing. @ line 231, column 12
[WARNING]
[WARNING] It is highly recommended to fix these problems because they threaten the stability of your build.
[WARNING]
[WARNING] For this reason, future Maven versions might no longer support building such malformed projects.
[WARNING]
[ERROR] Could not find the selected project in the reactor: ctakes-pad-term-spotter -> [Help 1]
[ERROR]
[ERROR] To see the full stack trace of the errors, re-run Maven with the -e switch.
[ERROR] Re-run Maven using the -X switch to enable full debug logging.
[ERROR]
[ERROR] For more information about the errors and possible solutions, please read the following articles:
[ERROR] [Help 1] http://cwiki.apache.org/confluence/display/MAVEN/MavenExecutionException
channel stopped
Build failed in Jenkins: ctakes-trunk-package #223
Posted by Apache Jenkins Server <je...@builds.apache.org>.
See <https://builds.apache.org/job/ctakes-trunk-package/223/>
------------------------------------------
Started by user chenpei
Building remotely on ubuntu5 (Ubuntu ubuntu) in workspace <https://builds.apache.org/job/ctakes-trunk-package/ws/>
Cleaning up <https://builds.apache.org/job/ctakes-trunk-package/ws/.>
Updating http://svn.apache.org/repos/asf/ctakes/trunk at revision '2014-04-30T23:36:31.822 +0000'
At revision 1591510
no change for http://svn.apache.org/repos/asf/ctakes/trunk since the previous build
Parsing POMs
Modules changed, recalculating dependency graph
maven3-agent.jar already up to date
maven3-interceptor.jar already up to date
maven3-interceptor-commons.jar already up to date
[ctakes-trunk-package] $ /home/hudson/tools/java/latest1.7/bin/java -cp /home/jenkins/jenkins-slave/maven3-agent.jar:/home/jenkins/jenkins-slave/tools/hudson.tasks.Maven_MavenInstallation/Maven_3.0.5/boot/plexus-classworlds-2.4.jar org.jvnet.hudson.maven3.agent.Maven3Main /home/jenkins/jenkins-slave/tools/hudson.tasks.Maven_MavenInstallation/Maven_3.0.5 /home/jenkins/jenkins-slave/slave.jar /home/jenkins/jenkins-slave/maven3-interceptor.jar /home/jenkins/jenkins-slave/maven3-interceptor-commons.jar 35173
<===[JENKINS REMOTING CAPACITY]===> channel started
Executing Maven: -B -f <https://builds.apache.org/job/ctakes-trunk-package/ws/pom.xml> -Dmaven.repo.local=/home/jenkins/jenkins-slave/maven-repositories/1 clean install -DskipTests=true -pl ctakes-utils,ctakes-core,ctakes-type-system,ctakes-pos-tagger,ctakes-chunker,ctakes-preprocessor,ctakes-dictionary-lookup,ctakes-context-tokenizer,ctakes-lvg,ctakes-ne-contexts,ctakes-constituency-parser,ctakes-coreference,ctakes-drug-ner,ctakes-side-effect,ctakes-smoking-status,ctakes-dependency-parser,ctakes-relation-extractor,ctakes-assertion,ctakes-assertion-zoner,ctakes-temporal,ctakes-clinical-pipeline,ctakes-regression-test,ctakes-assertion-res,ctakes-chunker-res,ctakes-constituency-parser-res,ctakes-core-res,ctakes-coreference-res,ctakes-dependency-parser-res,ctakes-dictionary-lookup-res,ctakes-lvg-res,ctakes-pad-term-spotter-res,ctakes-pos-tagger-res,ctakes-relation-extractor-res,ctakes-side-effect-res,ctakes-smoking-status-res,ctakes-temporal-res,ctakes-assertion-zoner-res,ctakes-drug-ner-res,ctakes-ne-contexts-res,ctakes-template-filler,ctakes-examples
[INFO] Scanning for projects...
[WARNING]
[WARNING] Some problems were encountered while building the effective model for org.apache.ctakes:ctakes-assertion:jar:3.1.2-SNAPSHOT
[WARNING] 'dependencies.dependency.(groupId:artifactId:type:classifier)' must be unique: junit:junit:jar -> duplicate declaration of version (?) @ line 154, column 15
[WARNING] 'dependencies.dependency.systemPath' for org.mitre.medfacts:medfacts-i2b2:jar should not point at files within the project directory, ${project.basedir}/lib/med-facts-i2b2-1.2-SNAPSHOT.jar will be unresolvable by dependent projects @ line 197, column 16
[WARNING] 'dependencies.dependency.systemPath' for org.mitre.medfacts:medfacts-zoner:jar should not point at files within the project directory, ${project.basedir}/lib/med-facts-zoner-1.1.jar will be unresolvable by dependent projects @ line 204, column 16
[WARNING] 'dependencies.dependency.systemPath' for org.mitre.jcarafe.core:jcarafe.core:jar should not point at files within the project directory, ${project.basedir}/lib/jcarafe-core_2.9.1-0.9.8.3.RC4.jar will be unresolvable by dependent projects @ line 211, column 16
[WARNING] 'dependencies.dependency.systemPath' for org.mitre.jcarafe.ext:jcarafe.ext:jar should not point at files within the project directory, ${project.basedir}/lib/jcarafe-ext_2.9.1-0.9.8.3.RC4.jar will be unresolvable by dependent projects @ line 218, column 16
[WARNING]
[WARNING] Some problems were encountered while building the effective model for org.apache.ctakes:ctakes-distribution:pom:3.1.2-SNAPSHOT
[WARNING] 'dependencies.dependency.(groupId:artifactId:type:classifier)' must be unique: org.apache.ctakes:ctakes-ne-contexts:jar -> duplicate declaration of version (?) @ line 99, column 15
[WARNING]
[WARNING] Some problems were encountered while building the effective model for org.apache.ctakes:ctakes-ytex:jar:3.1.2-SNAPSHOT
[WARNING] 'build.plugins.plugin.version' for org.codehaus.mojo:jaxb2-maven-plugin is missing. @ line 231, column 12
[WARNING]
[WARNING] It is highly recommended to fix these problems because they threaten the stability of your build.
[WARNING]
[WARNING] For this reason, future Maven versions might no longer support building such malformed projects.
[WARNING]
[ERROR] Could not find the selected project in the reactor: ctakes-temporal -> [Help 1]
[ERROR]
[ERROR] To see the full stack trace of the errors, re-run Maven with the -e switch.
[ERROR] Re-run Maven using the -X switch to enable full debug logging.
[ERROR]
[ERROR] For more information about the errors and possible solutions, please read the following articles:
[ERROR] [Help 1] http://cwiki.apache.org/confluence/display/MAVEN/MavenExecutionException
channel stopped
Build failed in Jenkins: ctakes-trunk-package #222
Posted by Apache Jenkins Server <je...@builds.apache.org>.
See <https://builds.apache.org/job/ctakes-trunk-package/222/changes>
Changes:
[tmill] Switched params to being public.
[vjapache] #CTAKES-253, CTAKES-292 fix tests in ctakes-ytex-uima
[vjapache] #CTAKES-253, CTAKES-292 workaround for MDEP-187 - move copy-dependencies to package
[vjapache] #CTAKES-253, CTAKES-292 workaround for MDEP-187 - move copy-dependencies to package
------------------------------------------
[...truncated 3336 lines...]
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/AbstractBagOfWordsExporter.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/SparseDataFormatter.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/CytoscapeHelperImpl.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/wsd
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/wsd/WordSenseDisambiguator.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/wsd/WordSenseDisambiguatorImpl.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/FileUtil.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/IntrinsicInfoContentEvaluatorImpl.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/KernelUtil.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/SVMLinFormatterFactory.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/BaseClassifierEvaluationParser.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/ImputedFeatureEvaluatorImpl.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/ClassifierEvaluationParser.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/CytoscapeHelper.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/Pair.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/InfoContentEvaluatorImpl.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/IntrinsicInfoContentEvaluator.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/IRMetrics.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/SparseDataExporterImpl.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/metric
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/metric/WuPalmerMetric.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/metric/PathMetric.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/metric/SimilarityInfo.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/metric/ConceptSimilarityServiceImpl.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/metric/ConceptInfo.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/metric/ConceptPair.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/metric/LCHMetric.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/metric/RadaMetric.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/metric/ConceptPairSimilarity.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/metric/SokalSneathMetric.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/metric/ConceptSimilarityService.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/metric/IntrinsicPathMetric.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/metric/BaseSimilarityMetric.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/metric/LinMetric.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/metric/SimilarityMetric.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/metric/JaccardMetric.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/metric/PageRankMetric.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/metric/IntrinsicLCHMetric.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/metric/IntrinsicRadaMetric.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/metric/LCSPath.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/BaseSparseDataFormatter.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/ImputedFeatureEvaluator.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/SimSvcContextHolder.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/InfoContentEvaluator.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/ClassifierEvaluationResult.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/FoldGeneratorImpl.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/SvmlinEvaluationParser.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/tree
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/tree/Node.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/tree/TreeMappingInfo.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/tree/InstanceTreeBuilder.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/tree/InstanceTreeBuilderImpl.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/tree/NodeMappingInfo.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/tree/QueryMappingInfo.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/tree/NodeKey.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/SparseDataExporter.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/model
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/model/ClassifierInstanceEvaluation.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/model/SVMClassifierEvaluation.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/model/ClassifierEvaluationIRStat.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/model/FeatureEvaluation.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/model/ConcRel.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/model/ObjPair.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/model/SemiLClassifierEvaluation.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/model/FeatureRank.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/model/KernelEvaluation.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/model/CrossValidationFold.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/model/FeatureParentChild.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/model/ClassifierEvaluation.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/model/ConceptGraph.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/model/KernelEvaluationInstance.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/model/CrossValidationFoldInstance.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/evaluator
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/evaluator/CacheKernel.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/evaluator/SumKernel.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/evaluator/AttributeProductKernel.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/evaluator/SemanticTypeKernel.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/evaluator/NamedEntityNegationKernel.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/evaluator/NodeAttributeKernel.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/evaluator/MethodCachingInterceptor.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/evaluator/NormKernel.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/evaluator/SemanticSimKernel.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/evaluator/ConvolutionKernel.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/evaluator/Kernel.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/evaluator/WeightedPolynomialMixingKernel.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/evaluator/CorpusKernelEvaluatorImpl.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/evaluator/ProductKernel.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/evaluator/LinKernel.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/evaluator/CacheKeyGenerator.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/evaluator/SymmetricPairCacheKeyGenerator.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/evaluator/EqualityKernel.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/evaluator/CorpusKernelEvaluator.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/evaluator/TreePrinter.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/dao
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/dao/StringArrayUserType.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/dao/KernelEvaluationDao.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/dao/SortedSetUserType.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/dao/KernelEvaluationDaoImpl.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/dao/ConceptDao.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/dao/ClassifierEvaluationDao.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/dao/ConceptDaoImpl.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/dao/ClassifierEvaluationDaoImpl.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/KernelContextHolder.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/kernel/BagOfWordsExporter.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/umls
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/umls/model
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/umls/model/MRSTY.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/umls/model/MRCONSO.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/umls/model/MRREL.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/umls/model/UmlsAuiFirstWord.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/umls/dao
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/umls/dao/UMLSDao.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/umls/dao/UMLSDaoImpl.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/R
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/R/RGramMatrixExporter.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/R/RGramMatrixExporterImpl.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/KernelLauncher.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/sparsematrix
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/sparsematrix/InstanceDataExporterImpl.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/sparsematrix/SparseMatrixFormatterFactory.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/sparsematrix/InstanceDataExporter.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/dao
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/dao/DBUtil.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/weka
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/weka/WekaResultsImporter.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/weka/ExportGramMatrix.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/weka/WekaResultInstanceImporter.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/weka/WekaResultsImporterImpl.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/weka/WekaAttributeEvaluator.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/weka/WekaBagOfWordsExporter.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/weka/ExportBagOfWords.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/weka/WekaAttributeEvaluatorImpl.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/weka/WekaBagOfWordsExporterImpl.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/weka/WekaFormatterFactory.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/weka/DocumentResultInstanceImporter.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/weka/GramMatrixExporter.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/weka/ImportWekaResults.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/weka/GramMatrixExporterImpl.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/semil
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/semil/SemiLFormatterFactory.java
A ctakes-ytex/src/main/java/org/apache/ctakes/ytex/semil/SemiLEvaluationParser.java
A ctakes-ytex/src/main/java/META-INF
A ctakes-ytex/src/main/java/META-INF/MANIFEST.MF
A ctakes-ytex/src/assemble
A ctakes-ytex/src/assemble/dist.xml
A ctakes-ytex/src/test
A ctakes-ytex/src/test/java
A ctakes-ytex/src/test/java/org
A ctakes-ytex/src/test/java/org/apache
A ctakes-ytex/src/test/java/org/apache/ctakes
A ctakes-ytex/src/test/java/org/apache/ctakes/jdl
A ctakes-ytex/src/test/java/org/apache/ctakes/jdl/common
A ctakes-ytex/src/test/java/org/apache/ctakes/jdl/common/PropertiesFileTest.java
A ctakes-ytex/src/test/java/org/apache/ctakes/jdl/common/FileUtilTest.java
A ctakes-ytex/src/test/java/org/apache/ctakes/jdl/common/PropFileTest.java
A ctakes-ytex/src/test/java/org/apache/ctakes/jdl/common/SingletonTest.java
A ctakes-ytex/src/test/java/org/apache/ctakes/jdl/data
A ctakes-ytex/src/test/java/org/apache/ctakes/jdl/data/base
A ctakes-ytex/src/test/java/org/apache/ctakes/jdl/data/base/JdlConnectionTest.java
A ctakes-ytex/src/test/java/org/apache/ctakes/jdl/data/xml
A ctakes-ytex/src/test/java/org/apache/ctakes/jdl/data/xml/ValidationTest.java
A ctakes-ytex/src/test/java/org/apache/ctakes/jdl/data/xml/DomParserTest.java
A ctakes-ytex/src/test/java/org/apache/ctakes/jdl/data/xml/DomUtilTest.java
A ctakes-ytex/src/test/java/org/apache/ctakes/jdl/data/xml/jaxb
A ctakes-ytex/src/test/java/org/apache/ctakes/jdl/data/xml/jaxb/ObjectFactoryBindTest.java
A ctakes-ytex/src/test/java/org/apache/ctakes/jdl/data/xml/jaxb/ObjectFactoryUtilTest.java
A ctakes-ytex/src/test/java/org/apache/ctakes/jdl/data/loader
A ctakes-ytex/src/test/java/org/apache/ctakes/jdl/data/loader/CsvLoaderTest.java
A ctakes-ytex/src/test/java/org/apache/ctakes/jdl/data/loader/XmlLoaderTest.java
A ctakes-ytex/src/test/java/org/apache/ctakes/jdl/AppJdlTest.java
A ctakes-ytex/src/test/java/org/apache/ctakes/jdl/test
A ctakes-ytex/src/test/java/org/apache/ctakes/jdl/test/PropFileMaps.java
A ctakes-ytex/src/test/java/org/apache/ctakes/jdl/test/package-info.java
A ctakes-ytex/src/test/java/org/apache/ctakes/jdl/test/SqlJdl.java
A ctakes-ytex/src/test/java/org/apache/ctakes/jdl/test/Resources.java
A ctakes-ytex/src/test/java/org/apache/ctakes/jdl/AppTest.java
A ctakes-ytex/src/test/java/org/apache/ctakes/jdl/AppMainTest.java
A ctakes-ytex/src/test/java/org/apache/ctakes/ytex
A ctakes-ytex/src/test/java/org/apache/ctakes/ytex/ConceptDaoTest.java
A ctakes-ytex/src/test/java/org/apache/ctakes/ytex/umls
A ctakes-ytex/src/test/java/org/apache/ctakes/ytex/umls/dao
A ctakes-ytex/src/test/java/org/apache/ctakes/ytex/umls/dao/UMLSDaoTest.java
A ctakes-ytex/src/test/resources
A ctakes-ytex/src/test/resources/org
A ctakes-ytex/src/test/resources/org/apache
A ctakes-ytex/src/test/resources/org/apache/ctakes
A ctakes-ytex/src/test/resources/org/apache/ctakes/ytex
A ctakes-ytex/src/test/resources/org/apache/ctakes/ytex/umls
A ctakes-ytex/src/test/resources/org/apache/ctakes/ytex/umls/model
A ctakes-ytex/src/test/resources/org/apache/ctakes/ytex/umls/model/UMLS.hbm.xml
A ctakes-ytex/src/test/resources/org/apache/ctakes/ytex/ytex.mssql.properties
A ctakes-ytex/src/test/resources/org/apache/ctakes/ytex/ytex.orcl.properties
A ctakes-ytex/src/test/resources/org/apache/ctakes/ytex/ytex.hsql.properties.template
A ctakes-ytex/src/test/resources/org/apache/ctakes/ytex/ytex.mysql.properties
A ctakes-ytex/src/test/resources/data1.xml
A ctakes-ytex/src/test/resources/data2.xml
A ctakes-ytex/src/test/resources/log4j.properties
A ctakes-ytex/src/test/resources/load1csv.xml
A ctakes-ytex/src/test/resources/maps.properties
A ctakes-ytex/src/test/resources/conn.xml
A ctakes-ytex/src/test/resources/load2csv.xml
A ctakes-ytex/src/test/resources/load1xml.xml
A ctakes-ytex/src/test/resources/load2xml.xml
A ctakes-ytex/src/test/resources/data1.csv
A ctakes-ytex/src/test/resources/data2.csv
A ctakes-ytex/pom.xml
A ctakes-ytex/README
A ctakes-ytex/.settings
A ctakes-ytex/.settings/org.eclipse.m2e.core.prefs
A ctakes-ytex/.settings/org.eclipse.core.resources.prefs
A ctakes-ytex/.settings/org.eclipse.jdt.core.prefs
A ctakes-ytex/.classpath
U .
At revision 1591459
Parsing POMs
Modules changed, recalculating dependency graph
maven3-agent.jar already up to date
maven3-interceptor.jar already up to date
maven3-interceptor-commons.jar already up to date
[ctakes-trunk-package] $ /home/hudson/tools/java/latest1.7/bin/java -cp /home/jenkins/jenkins-slave/maven3-agent.jar:/home/jenkins/jenkins-slave/tools/hudson.tasks.Maven_MavenInstallation/Maven_3.0.5/boot/plexus-classworlds-2.4.jar org.jvnet.hudson.maven3.agent.Maven3Main /home/jenkins/jenkins-slave/tools/hudson.tasks.Maven_MavenInstallation/Maven_3.0.5 /home/jenkins/jenkins-slave/slave.jar /home/jenkins/jenkins-slave/maven3-interceptor.jar /home/jenkins/jenkins-slave/maven3-interceptor-commons.jar 36603
<===[JENKINS REMOTING CAPACITY]===> channel started
Executing Maven: -B -f <https://builds.apache.org/job/ctakes-trunk-package/ws/pom.xml> -Dmaven.repo.local=/home/jenkins/jenkins-slave/maven-repositories/1 clean install -DskipTests=true -pl ctakes-utils,ctakes-core,ctakes-type-system,ctakes-pos-tagger,ctakes-chunker,ctakes-preprocessor,ctakes-dictionary-lookup,ctakes-context-tokenizer,ctakes-lvg,ctakes-ne-contexts,ctakes-constituency-parser,ctakes-coreference,ctakes-drug-ner,ctakes-side-effect,ctakes-smoking-status,ctakes-dependency-parser,ctakes-relation-extractor,ctakes-pad-term-spotter,ctakes-assertion,ctakes-assertion-zoner,ctakes-temporal,ctakes-clinical-pipeline,ctakes-regression-test,ctakes-assertion-res,ctakes-chunker-res,ctakes-constituency-parser-res,ctakes-core-res,ctakes-coreference-res,ctakes-dependency-parser-res,ctakes-dictionary-lookup-res,ctakes-lvg-res,ctakes-pad-term-spotter-res,ctakes-pos-tagger-res,ctakes-relation-extractor-res,ctakes-side-effect-res,ctakes-smoking-status-res,ctakes-temporal-res,ctakes-assertion-zoner-res,ctakes-drug-ner-res,ctakes-ne-contexts-res,ctakes-template-filler,ctakes-examples
[INFO] Scanning for projects...
[WARNING]
[WARNING] Some problems were encountered while building the effective model for org.apache.ctakes:ctakes-assertion:jar:3.1.2-SNAPSHOT
[WARNING] 'dependencies.dependency.(groupId:artifactId:type:classifier)' must be unique: junit:junit:jar -> duplicate declaration of version (?) @ line 154, column 15
[WARNING] 'dependencies.dependency.systemPath' for org.mitre.medfacts:medfacts-i2b2:jar should not point at files within the project directory, ${project.basedir}/lib/med-facts-i2b2-1.2-SNAPSHOT.jar will be unresolvable by dependent projects @ line 197, column 16
[WARNING] 'dependencies.dependency.systemPath' for org.mitre.medfacts:medfacts-zoner:jar should not point at files within the project directory, ${project.basedir}/lib/med-facts-zoner-1.1.jar will be unresolvable by dependent projects @ line 204, column 16
[WARNING] 'dependencies.dependency.systemPath' for org.mitre.jcarafe.core:jcarafe.core:jar should not point at files within the project directory, ${project.basedir}/lib/jcarafe-core_2.9.1-0.9.8.3.RC4.jar will be unresolvable by dependent projects @ line 211, column 16
[WARNING] 'dependencies.dependency.systemPath' for org.mitre.jcarafe.ext:jcarafe.ext:jar should not point at files within the project directory, ${project.basedir}/lib/jcarafe-ext_2.9.1-0.9.8.3.RC4.jar will be unresolvable by dependent projects @ line 218, column 16
[WARNING]
[WARNING] Some problems were encountered while building the effective model for org.apache.ctakes:ctakes-distribution:pom:3.1.2-SNAPSHOT
[WARNING] 'dependencies.dependency.(groupId:artifactId:type:classifier)' must be unique: org.apache.ctakes:ctakes-ne-contexts:jar -> duplicate declaration of version (?) @ line 99, column 15
[WARNING]
[WARNING] Some problems were encountered while building the effective model for org.apache.ctakes:ctakes-ytex:jar:3.1.2-SNAPSHOT
[WARNING] 'build.plugins.plugin.version' for org.codehaus.mojo:jaxb2-maven-plugin is missing. @ line 231, column 12
[WARNING]
[WARNING] It is highly recommended to fix these problems because they threaten the stability of your build.
[WARNING]
[WARNING] For this reason, future Maven versions might no longer support building such malformed projects.
[WARNING]
[ERROR] Could not find the selected project in the reactor: ctakes-pad-term-spotter -> [Help 1]
[ERROR]
[ERROR] To see the full stack trace of the errors, re-run Maven with the -e switch.
[ERROR] Re-run Maven using the -X switch to enable full debug logging.
[ERROR]
[ERROR] For more information about the errors and possible solutions, please read the following articles:
[ERROR] [Help 1] http://cwiki.apache.org/confluence/display/MAVEN/MavenExecutionException
channel stopped