Started by an SCM change Building remotely on i-d20da2aa in workspace /media/ephemeral0/workspace/ncbitaxonomy [ncbitaxonomy] $ hg showconfig paths.default [ncbitaxonomy] $ hg pull --rev default [ncbitaxonomy] $ hg update --clean --rev default 1 files updated, 0 files merged, 0 files removed, 0 files unresolved [ncbitaxonomy] $ hg --config extensions.purge= clean --all [ncbitaxonomy] $ hg log --rev . --template {node} [ncbitaxonomy] $ hg log --rev . --template {rev} [ncbitaxonomy] $ hg log --rev c87805ce1704ef6b70bf69d161fe62ee6824d043 [ncbitaxonomy] $ hg log --template "<changeset node='{node}' author='{author|xmlescape}' rev='{rev}' date='{date}'><msg>{desc|xmlescape}</msg><added>{file_adds|stringify|xmlescape}</added><deleted>{file_dels|stringify|xmlescape}</deleted><files>{files|stringify|xmlescape}</files><parents>{parents}</parents></changeset>\n" --rev default:0 --follow --prune c87805ce1704ef6b70bf69d161fe62ee6824d043 your Apache Maven build is setup to use a config with id org.jenkinsci.plugins.configfiles.maven.MavenSettingsConfig1337980147845 but cannot find the config Parsing POMs [ncbitaxonomy] $ /usr/java/default/bin/java -Xmx1024M -XX:MaxPermSize=256M -cp /media/ephemeral0/maven3-agent.jar:/media/ephemeral0/tools/Maven/Maven_3.0.4/boot/plexus-classworlds-2.4.jar org.jvnet.hudson.maven3.agent.Maven3Main /media/ephemeral0/tools/Maven/Maven_3.0.4 /tmp/slave.jar /media/ephemeral0/maven3-interceptor.jar 36031 <===[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 /media/ephemeral0/workspace/ncbitaxonomy/pom.xml -U -e clean source:jar package jar:test-jar [INFO] Error stacktraces are turned on. [INFO] Scanning for projects... [INFO] ------------------------------------------------------------------------ [INFO] Reactor Build Order: [INFO] [INFO] ncbitaxonomy [INFO] ncbitaxonomyClient [INFO] ncbitaxonomyServer Projects to build: [MavenProject: edu.berkeley.compbio:ncbitaxonomy:0.91-SNAPSHOT @ /media/ephemeral0/workspace/ncbitaxonomy/pom.xml, MavenProject: edu.berkeley.compbio:ncbitaxonomyClient:0.91-SNAPSHOT @ /media/ephemeral0/workspace/ncbitaxonomy/ncbitaxonomyClient/pom.xml, MavenProject: edu.berkeley.compbio:ncbitaxonomyServer:0.91-SNAPSHOT @ /media/ephemeral0/workspace/ncbitaxonomy/ncbitaxonomyServer/pom.xml] Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/plugins/maven-metadata.xml Downloading: http://repo.maven.apache.org/maven2/org/apache/maven/plugins/maven-metadata.xml Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/codehaus/mojo/maven-metadata.xml Downloading: http://repo.maven.apache.org/maven2/org/codehaus/mojo/maven-metadata.xml Downloaded: http://repo.maven.apache.org/maven2/org/apache/maven/plugins/maven-metadata.xml (11 KB at 20.0 KB/sec) Downloaded: http://repo.maven.apache.org/maven2/org/codehaus/mojo/maven-metadata.xml (21 KB at 39.3 KB/sec) Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/plugins/maven-metadata.xml (11 KB at 7.7 KB/sec) Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/codehaus/mojo/maven-metadata.xml (21 KB at 15.0 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/plugins/maven-source-plugin/maven-metadata.xml Downloading: http://repo.maven.apache.org/maven2/org/apache/maven/plugins/maven-source-plugin/maven-metadata.xml Downloaded: http://repo.maven.apache.org/maven2/org/apache/maven/plugins/maven-source-plugin/maven-metadata.xml (632 B at 41.1 KB/sec) Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/plugins/maven-source-plugin/maven-metadata.xml (632 B at 16.7 KB/sec) projectStarted edu.berkeley.compbio:ncbitaxonomy:0.91-SNAPSHOT [INFO] [INFO] ------------------------------------------------------------------------ [INFO] Building ncbitaxonomy 0.91-SNAPSHOT [INFO] ------------------------------------------------------------------------ mojoStarted org.apache.maven.plugins:maven-clean-plugin:2.4.1(default-clean) [INFO] [INFO] --- maven-clean-plugin:2.4.1:clean (default-clean) @ ncbitaxonomy --- mojoSucceeded org.apache.maven.plugins:maven-clean-plugin:2.4.1(default-clean) mojoStarted org.codehaus.mojo:cobertura-maven-plugin:2.5.1(clean) [INFO] [INFO] --- cobertura-maven-plugin:2.5.1:clean (clean) @ ncbitaxonomy --- mojoSucceeded org.codehaus.mojo:cobertura-maven-plugin:2.5.1(clean)[INFO] Skipping cobertura mojo for project with packaging type 'pom' Jul 08, 2012 1:20:16 AM hudson.maven.ExecutedMojo <init> WARNING: Failed to getClass for org.apache.maven.plugin.source.SourceJarMojo mojoStarted org.apache.maven.plugins:maven-source-plugin:2.1.2(default-cli) [INFO] [INFO] --- maven-source-plugin:2.1.2:jar (default-cli) @ ncbitaxonomy --- mojoSucceeded org.apache.maven.plugins:maven-source-plugin:2.1.2(default-cli) mojoStarted org.apache.maven.plugins:maven-jar-plugin:2.4(default) [INFO] [INFO] --- maven-jar-plugin:2.4:test-jar (default) @ ncbitaxonomy --- [WARNING] JAR will be empty - no content was marked for inclusion! [INFO] Building jar: /media/ephemeral0/workspace/ncbitaxonomy/target/ncbitaxonomy-0.91-SNAPSHOT-tests.jar mojoSucceeded org.apache.maven.plugins:maven-jar-plugin:2.4(default) mojoStarted org.apache.maven.plugins:maven-jar-plugin:2.4(default) [WARNING] JAR will be empty - no content was marked for inclusion! [INFO] Building jar: /media/ephemeral0/workspace/ncbitaxonomy/target/ncbitaxonomy-0.91-SNAPSHOT.jar [INFO] [INFO] --- maven-jar-plugin:2.4:jar (default) @ ncbitaxonomy --- mojoSucceeded org.apache.maven.plugins:maven-jar-plugin:2.4(default) mojoStarted org.apache.maven.plugins:maven-jar-plugin:2.4(default-cli) [WARNING] JAR will be empty - no content was marked for inclusion! [WARNING] Artifact edu.berkeley.compbio:ncbitaxonomy:test-jar:tests:0.91-SNAPSHOT already attached to project, ignoring duplicate [INFO] [INFO] --- maven-jar-plugin:2.4:test-jar (default-cli) @ ncbitaxonomy --- mojoSucceeded org.apache.maven.plugins:maven-jar-plugin:2.4(default-cli) projectSucceeded edu.berkeley.compbio:ncbitaxonomy:0.91-SNAPSHOT projectStarted edu.berkeley.compbio:ncbitaxonomyClient:0.91-SNAPSHOT [INFO] [INFO] ------------------------------------------------------------------------ [INFO] Building ncbitaxonomyClient 0.91-SNAPSHOT [INFO] ------------------------------------------------------------------------ mojoStarted org.apache.maven.plugins:maven-clean-plugin:2.4.1(default-clean) [INFO] [INFO] --- maven-clean-plugin:2.4.1:clean (default-clean) @ ncbitaxonomyClient --- mojoSucceeded org.apache.maven.plugins:maven-clean-plugin:2.4.1(default-clean) mojoStarted org.codehaus.mojo:cobertura-maven-plugin:2.5.1(clean) [INFO] [INFO] --- cobertura-maven-plugin:2.5.1:clean (clean) @ ncbitaxonomyClient --- mojoSucceeded org.codehaus.mojo:cobertura-maven-plugin:2.5.1(clean) Jul 08, 2012 1:20:22 AM hudson.maven.ExecutedMojo <init> WARNING: Failed to getClass for org.apache.maven.plugin.source.SourceJarMojo mojoStarted org.apache.maven.plugins:maven-source-plugin:2.1.2(default-cli) [INFO] [INFO] --- maven-source-plugin:2.1.2:jar (default-cli) @ ncbitaxonomyClient --- [INFO] Building jar: /media/ephemeral0/workspace/ncbitaxonomy/ncbitaxonomyClient/target/ncbitaxonomyClient-0.91-SNAPSHOT-sources.jar mojoSucceeded org.apache.maven.plugins:maven-source-plugin:2.1.2(default-cli) mojoStarted org.apache.maven.plugins:maven-resources-plugin:2.5(default-resources) [INFO] [INFO] --- maven-resources-plugin:2.5:resources (default-resources) @ ncbitaxonomyClient --- [debug] execute contextualize [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 1 resource mojoSucceeded org.apache.maven.plugins:maven-resources-plugin:2.5(default-resources) mojoStarted org.apache.maven.plugins:maven-compiler-plugin:2.4(default-compile) [INFO] [INFO] --- maven-compiler-plugin:2.4:compile (default-compile) @ ncbitaxonomyClient --- [INFO] Compiling 10 source files to /media/ephemeral0/workspace/ncbitaxonomy/ncbitaxonomyClient/target/classes mojoSucceeded org.apache.maven.plugins:maven-compiler-plugin:2.4(default-compile) mojoStarted org.apache.maven.plugins:maven-resources-plugin:2.5(default-testResources)[debug] execute contextualize [INFO] [INFO] --- maven-resources-plugin:2.5:testResources (default-testResources) @ ncbitaxonomyClient --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] skip non existing resourceDirectory /media/ephemeral0/workspace/ncbitaxonomy/ncbitaxonomyClient/src/test/resources mojoSucceeded org.apache.maven.plugins:maven-resources-plugin:2.5(default-testResources) [INFO] Compiling 1 source file to /media/ephemeral0/workspace/ncbitaxonomy/ncbitaxonomyClient/target/test-classes mojoStarted org.apache.maven.plugins:maven-compiler-plugin:2.4(default-testCompile) [INFO] [INFO] --- maven-compiler-plugin:2.4:testCompile (default-testCompile) @ ncbitaxonomyClient --- mojoSucceeded org.apache.maven.plugins:maven-compiler-plugin:2.4(default-testCompile) mojoStarted org.apache.maven.plugins:maven-surefire-plugin:2.12(default-test) [INFO] [INFO] --- maven-surefire-plugin:2.12:test (default-test) @ ncbitaxonomyClient --- [INFO] Surefire report directory: /media/ephemeral0/workspace/ncbitaxonomy/ncbitaxonomyClient/target/surefire-reports ------------------------------------------------------- T E S T S ------------------------------------------------------- Running TestSuite Tests run: 0, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 2.167 sec Results : Tests run: 0, Failures: 0, Errors: 0, Skipped: 0 mojoSucceeded org.apache.maven.plugins:maven-surefire-plugin:2.12(default-test) [JENKINS] Recording test results mojoStarted org.apache.maven.plugins:maven-jar-plugin:2.4(default-jar) [INFO] [INFO] --- maven-jar-plugin:2.4:jar (default-jar) @ ncbitaxonomyClient --- [INFO] Building jar: /media/ephemeral0/workspace/ncbitaxonomy/ncbitaxonomyClient/target/ncbitaxonomyClient-0.91-SNAPSHOT.jar mojoSucceeded org.apache.maven.plugins:maven-jar-plugin:2.4(default-jar) mojoStarted org.apache.maven.plugins:maven-jar-plugin:2.4(default) [INFO] [INFO] Building jar: /media/ephemeral0/workspace/ncbitaxonomy/ncbitaxonomyClient/target/ncbitaxonomyClient-0.91-SNAPSHOT-tests.jar [INFO] --- maven-jar-plugin:2.4:test-jar (default) @ ncbitaxonomyClient --- mojoSucceeded org.apache.maven.plugins:maven-jar-plugin:2.4(default) mojoStarted org.apache.maven.plugins:maven-jar-plugin:2.4(default) [INFO] [INFO] --- maven-jar-plugin:2.4:jar (default) @ ncbitaxonomyClient --- mojoSucceeded org.apache.maven.plugins:maven-jar-plugin:2.4(default) mojoStarted org.apache.maven.plugins:maven-jar-plugin:2.4(default-cli) [WARNING] Artifact edu.berkeley.compbio:ncbitaxonomyClient:test-jar:tests:0.91-SNAPSHOT already attached to project, ignoring duplicate [INFO] [INFO] --- maven-jar-plugin:2.4:test-jar (default-cli) @ ncbitaxonomyClient --- mojoSucceeded org.apache.maven.plugins:maven-jar-plugin:2.4(default-cli) projectSucceeded edu.berkeley.compbio:ncbitaxonomyClient:0.91-SNAPSHOT projectStarted edu.berkeley.compbio:ncbitaxonomyServer:0.91-SNAPSHOT [INFO] [INFO] ------------------------------------------------------------------------ [INFO] Building ncbitaxonomyServer 0.91-SNAPSHOT [INFO] ------------------------------------------------------------------------ mojoStarted org.apache.maven.plugins:maven-clean-plugin:2.4.1(default-clean) [INFO] [INFO] --- maven-clean-plugin:2.4.1:clean (default-clean) @ ncbitaxonomyServer --- mojoSucceeded org.apache.maven.plugins:maven-clean-plugin:2.4.1(default-clean) mojoStarted org.codehaus.mojo:cobertura-maven-plugin:2.5.1(clean) [INFO] [INFO] --- cobertura-maven-plugin:2.5.1:clean (clean) @ ncbitaxonomyServer --- mojoSucceeded org.codehaus.mojo:cobertura-maven-plugin:2.5.1(clean) Jul 08, 2012 1:20:51 AM hudson.maven.ExecutedMojo <init> WARNING: Failed to getClass for org.apache.maven.plugin.source.SourceJarMojo mojoStarted org.apache.maven.plugins:maven-source-plugin:2.1.2(default-cli) [INFO] [INFO] --- maven-source-plugin:2.1.2:jar (default-cli) @ ncbitaxonomyServer --- [INFO] Building jar: /media/ephemeral0/workspace/ncbitaxonomy/ncbitaxonomyServer/target/ncbitaxonomyServer-sources.jar mojoSucceeded org.apache.maven.plugins:maven-source-plugin:2.1.2(default-cli) [debug] execute contextualize [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 4 resources mojoStarted org.apache.maven.plugins:maven-resources-plugin:2.5(default-resources) [INFO] [INFO] --- maven-resources-plugin:2.5:resources (default-resources) @ ncbitaxonomyServer --- mojoSucceeded org.apache.maven.plugins:maven-resources-plugin:2.5(default-resources) mojoStarted org.apache.maven.plugins:maven-compiler-plugin:2.4(default-compile) [INFO] [INFO] --- maven-compiler-plugin:2.4:compile (default-compile) @ ncbitaxonomyServer --- [INFO] Compiling 16 source files to /media/ephemeral0/workspace/ncbitaxonomy/ncbitaxonomyServer/target/classes mojoSucceeded org.apache.maven.plugins:maven-compiler-plugin:2.4(default-compile) mojoStarted org.codehaus.mojo:aspectj-maven-plugin:1.3(default) [INFO] [INFO] --- aspectj-maven-plugin:1.3:compile (default) @ ncbitaxonomyServer --- [WARNING] bad version number found in /home/ec2-user/.m2/repository/org/aspectj/aspectjrt/1.6.10/aspectjrt-1.6.10.jar expected 1.6.7 found 1.6.10 [INFO] Join point 'method-execution(com.davidsoergel.trees.BasicRootedPhylogeny edu.berkeley.compbio.ncbitaxonomy.NcbiCiccarelliHybridServiceImpl.extractTreeWithLeafIDs(java.util.Set, boolean, boolean, com.davidsoergel.trees.AbstractRootedPhylogeny$MutualExclusionResolutionMode))' in Type 'edu.berkeley.compbio.ncbitaxonomy.NcbiCiccarelliHybridServiceImpl' (NcbiCiccarelliHybridServiceImpl.java:412) advised by before advice from 'org.springframework.transaction.aspectj.AnnotationTransactionAspect' (spring-aspects-2.5.6.jar!AbstractTransactionAspect.class:60(from AbstractTransactionAspect.aj)) [INFO] Join point 'method-execution(com.davidsoergel.trees.BasicRootedPhylogeny edu.berkeley.compbio.ncbitaxonomy.NcbiCiccarelliHybridServiceImpl.extractTreeWithLeafIDs(java.util.Set, boolean, boolean, com.davidsoergel.trees.AbstractRootedPhylogeny$MutualExclusionResolutionMode))' in Type 'edu.berkeley.compbio.ncbitaxonomy.NcbiCiccarelliHybridServiceImpl' (NcbiCiccarelliHybridServiceImpl.java:412) advised by afterThrowing advice from 'org.springframework.transaction.aspectj.AnnotationTransactionAspect' (spring-aspects-2.5.6.jar!AbstractTransactionAspect.class:67(from AbstractTransactionAspect.aj)) [INFO] Join point 'method-execution(com.davidsoergel.trees.BasicRootedPhylogeny edu.berkeley.compbio.ncbitaxonomy.NcbiCiccarelliHybridServiceImpl.extractTreeWithLeafIDs(java.util.Set, boolean, boolean, com.davidsoergel.trees.AbstractRootedPhylogeny$MutualExclusionResolutionMode))' in Type 'edu.berkeley.compbio.ncbitaxonomy.NcbiCiccarelliHybridServiceImpl' (NcbiCiccarelliHybridServiceImpl.java:412) advised by afterReturning advice from 'org.springframework.transaction.aspectj.AnnotationTransactionAspect' (spring-aspects-2.5.6.jar!AbstractTransactionAspect.class:77(from AbstractTransactionAspect.aj)) [INFO] Join point 'method-execution(com.davidsoergel.trees.BasicRootedPhylogeny edu.berkeley.compbio.ncbitaxonomy.NcbiCiccarelliHybridServiceImpl.extractTreeWithLeafIDs(java.util.Set, boolean, boolean, com.davidsoergel.trees.AbstractRootedPhylogeny$MutualExclusionResolutionMode))' in Type 'edu.berkeley.compbio.ncbitaxonomy.NcbiCiccarelliHybridServiceImpl' (NcbiCiccarelliHybridServiceImpl.java:412) advised by after advice from 'org.springframework.transaction.aspectj.AnnotationTransactionAspect' (spring-aspects-2.5.6.jar!AbstractTransactionAspect.class:82(from AbstractTransactionAspect.aj)) [INFO] Join point 'method-execution(com.davidsoergel.trees.BasicRootedPhylogeny edu.berkeley.compbio.ncbitaxonomy.NcbiCiccarelliHybridServiceImpl.extractTreeWithLeafIDs(java.util.Set, boolean, boolean))' in Type 'edu.berkeley.compbio.ncbitaxonomy.NcbiCiccarelliHybridServiceImpl' (NcbiCiccarelliHybridServiceImpl.java:421) advised by before advice from 'org.springframework.transaction.aspectj.AnnotationTransactionAspect' (spring-aspects-2.5.6.jar!AbstractTransactionAspect.class:60(from AbstractTransactionAspect.aj)) [INFO] Join point 'method-execution(com.davidsoergel.trees.BasicRootedPhylogeny edu.berkeley.compbio.ncbitaxonomy.NcbiCiccarelliHybridServiceImpl.extractTreeWithLeafIDs(java.util.Set, boolean, boolean))' in Type 'edu.berkeley.compbio.ncbitaxonomy.NcbiCiccarelliHybridServiceImpl' (NcbiCiccarelliHybridServiceImpl.java:421) advised by afterThrowing advice from 'org.springframework.transaction.aspectj.AnnotationTransactionAspect' (spring-aspects-2.5.6.jar!AbstractTransactionAspect.class:67(from AbstractTransactionAspect.aj)) [INFO] Join point 'method-execution(com.davidsoergel.trees.BasicRootedPhylogeny edu.berkeley.compbio.ncbitaxonomy.NcbiCiccarelliHybridServiceImpl.extractTreeWithLeafIDs(java.util.Set, boolean, boolean))' in Type 'edu.berkeley.compbio.ncbitaxonomy.NcbiCiccarelliHybridServiceImpl' (NcbiCiccarelliHybridServiceImpl.java:421) advised by afterReturning advice from 'org.springframework.transaction.aspectj.AnnotationTransactionAspect' (spring-aspects-2.5.6.jar!AbstractTransactionAspect.class:77(from AbstractTransactionAspect.aj)) [INFO] Join point 'method-execution(com.davidsoergel.trees.BasicRootedPhylogeny edu.berkeley.compbio.ncbitaxonomy.NcbiCiccarelliHybridServiceImpl.extractTreeWithLeafIDs(java.util.Set, boolean, boolean))' in Type 'edu.berkeley.compbio.ncbitaxonomy.NcbiCiccarelliHybridServiceImpl' (NcbiCiccarelliHybridServiceImpl.java:421) advised by after advice from 'org.springframework.transaction.aspectj.AnnotationTransactionAspect' (spring-aspects-2.5.6.jar!AbstractTransactionAspect.class:82(from AbstractTransactionAspect.aj)) [INFO] Join point 'method-execution(boolean edu.berkeley.compbio.ncbitaxonomy.jpa.NcbiTaxonomyNode.isLeaf())' in Type 'edu.berkeley.compbio.ncbitaxonomy.jpa.NcbiTaxonomyNode' (NcbiTaxonomyNode.java:636) advised by before advice from 'org.springframework.transaction.aspectj.AnnotationTransactionAspect' (spring-aspects-2.5.6.jar!AbstractTransactionAspect.class:60(from AbstractTransactionAspect.aj)) [INFO] Join point 'method-execution(boolean edu.berkeley.compbio.ncbitaxonomy.jpa.NcbiTaxonomyNode.isLeaf())' in Type 'edu.berkeley.compbio.ncbitaxonomy.jpa.NcbiTaxonomyNode' (NcbiTaxonomyNode.java:636) advised by afterThrowing advice from 'org.springframework.transaction.aspectj.AnnotationTransactionAspect' (spring-aspects-2.5.6.jar!AbstractTransactionAspect.class:67(from AbstractTransactionAspect.aj)) [INFO] Join point 'method-execution(boolean edu.berkeley.compbio.ncbitaxonomy.jpa.NcbiTaxonomyNode.isLeaf())' in Type 'edu.berkeley.compbio.ncbitaxonomy.jpa.NcbiTaxonomyNode' (NcbiTaxonomyNode.java:636) advised by afterReturning advice from 'org.springframework.transaction.aspectj.AnnotationTransactionAspect' (spring-aspects-2.5.6.jar!AbstractTransactionAspect.class:77(from AbstractTransactionAspect.aj)) [INFO] Join point 'method-execution(boolean edu.berkeley.compbio.ncbitaxonomy.jpa.NcbiTaxonomyNode.isLeaf())' in Type 'edu.berkeley.compbio.ncbitaxonomy.jpa.NcbiTaxonomyNode' (NcbiTaxonomyNode.java:636) advised by after advice from 'org.springframework.transaction.aspectj.AnnotationTransactionAspect' (spring-aspects-2.5.6.jar!AbstractTransactionAspect.class:82(from AbstractTransactionAspect.aj)) mojoSucceeded org.codehaus.mojo:aspectj-maven-plugin:1.3(default) [debug] execute contextualize [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 3 resources mojoStarted org.apache.maven.plugins:maven-resources-plugin:2.5(default-testResources) [INFO] [INFO] --- maven-resources-plugin:2.5:testResources (default-testResources) @ ncbitaxonomyServer --- mojoSucceeded org.apache.maven.plugins:maven-resources-plugin:2.5(default-testResources) mojoStarted org.apache.maven.plugins:maven-compiler-plugin:2.4(default-testCompile) [INFO] [INFO] --- maven-compiler-plugin:2.4:testCompile (default-testCompile) @ ncbitaxonomyServer --- [INFO] Compiling 2 source files to /media/ephemeral0/workspace/ncbitaxonomy/ncbitaxonomyServer/target/test-classes mojoSucceeded org.apache.maven.plugins:maven-compiler-plugin:2.4(default-testCompile) mojoStarted org.codehaus.mojo:aspectj-maven-plugin:1.3(default) [INFO] [INFO] --- aspectj-maven-plugin:1.3:test-compile (default) @ ncbitaxonomyServer --- [WARNING] bad version number found in /home/ec2-user/.m2/repository/org/aspectj/aspectjrt/1.6.10/aspectjrt-1.6.10.jar expected 1.6.7 found 1.6.10 mojoSucceeded org.codehaus.mojo:aspectj-maven-plugin:1.3(default) [INFO] Surefire report directory: /media/ephemeral0/workspace/ncbitaxonomy/ncbitaxonomyServer/target/surefire-reports mojoStarted org.apache.maven.plugins:maven-surefire-plugin:2.12(default-test) [INFO] [INFO] --- maven-surefire-plugin:2.12:test (default-test) @ ncbitaxonomyServer --- ------------------------------------------------------- T E S T S ------------------------------------------------------- Running TestSuite 2012-07-08 01:21:29,411 [main] INFO edu.berkeley.compbio.phyloutils.NewickStringTaxonomyService - Cache key: itol090314_name.tree, false 2012-07-08 01:21:29,651 [main] INFO com.davidsoergel.dsutils.CacheManager - Loading cache: /tmp/testCacheedu.berkeley.compbio.phyloutils.CiccarelliTaxonomyService/itol090314_name.tree, false.basePhylogeny 2012-07-08 01:21:30,250 [main] INFO edu.berkeley.compbio.phyloutils.NewickStringTaxonomyService - Loaded caches for itol090314_name.tree, false 2012-07-08 01:21:30,289 [main] INFO com.davidsoergel.dsutils.CacheManager - Loading cache: /tmp/testCacheedu.berkeley.compbio.ncbitaxonomy.NcbiTaxonomyPhylogeny/ancestorPathCache Tests run: 17, Failures: 13, Errors: 0, Skipped: 0, Time elapsed: 7.419 sec <<< FAILURE! 2012-07-08 01:21:32,436 [Thread-1] WARN com.davidsoergel.dsutils.CacheManager - AccumulatingMap did not change: /tmp/testCacheedu.berkeley.compbio.ncbitaxonomy.NcbiTaxonomyPhylogeny/ancestorPathCache Results : Failed tests: edu.berkeley.compbio.phyloutils.HybridRootedPhylogeny(com.davidsoergel.trees.TaxonMergingPhylogenyInterfaceTest) edu.berkeley.compbio.phyloutils.HybridRootedPhylogeny(com.davidsoergel.trees.TaxonMergingPhylogenyInterfaceTest) ciccarelliTreeIsConvertedToTaxIdTree(edu.berkeley.compbio.ncbitaxonomy.NcbiCiccarelliHybridServiceImplTest) exactDistanceBetweenWorks(edu.berkeley.compbio.ncbitaxonomy.NcbiCiccarelliHybridServiceImplTest): No such element: 5664 extractTreeWithLeafIDsForNonCiccarelliNodesWorks(edu.berkeley.compbio.ncbitaxonomy.NcbiCiccarelliHybridServiceImplTest) extractTreeWithLeafIDsThrowsExceptionForCiccarelliNodesWhenArgumentsAreNotAllLeaves(edu.berkeley.compbio.ncbitaxonomy.NcbiCiccarelliHybridServiceImplTest): (..) extractTreeWithLeafIDsWorksForCiccarelliNodes(edu.berkeley.compbio.ncbitaxonomy.NcbiCiccarelliHybridServiceImplTest) findTaxIDByNameWorks(edu.berkeley.compbio.ncbitaxonomy.NcbiCiccarelliHybridServiceImplTest) findTaxIDByUnknownNameThrowsException(edu.berkeley.compbio.ncbitaxonomy.NcbiCiccarelliHybridServiceImplTest): (..) minDistanceBetweenWorks(edu.berkeley.compbio.ncbitaxonomy.NcbiCiccarelliHybridServiceImplTest) nearestKnownAncestorIntegerWorks(edu.berkeley.compbio.ncbitaxonomy.NcbiCiccarelliHybridServiceImplTest) nearestKnownAncestorStringWorks(edu.berkeley.compbio.ncbitaxonomy.NcbiCiccarelliHybridServiceImplTest) findTaxonByNameWorks(edu.berkeley.compbio.ncbitaxonomy.NcbiTaxonomyPhylogenyTest) Tests run: 17, Failures: 13, Errors: 0, Skipped: 0 [ERROR] There are test failures. Please refer to /media/ephemeral0/workspace/ncbitaxonomy/ncbitaxonomyServer/target/surefire-reports for the individual test results. mojoSucceeded org.apache.maven.plugins:maven-surefire-plugin:2.12(default-test) [JENKINS] Recording test results mojoStarted org.apache.maven.plugins:maven-war-plugin:2.0(default-war) [INFO] [INFO] --- maven-war-plugin:2.0:war (default-war) @ ncbitaxonomyServer --- [INFO] Exploding webapp... [INFO] Copy webapp webResources to /media/ephemeral0/workspace/ncbitaxonomy/ncbitaxonomyServer/target/ncbitaxonomyServer [INFO] Assembling webapp ncbitaxonomyServer in /media/ephemeral0/workspace/ncbitaxonomy/ncbitaxonomyServer/target/ncbitaxonomyServer [INFO] Generating war /media/ephemeral0/workspace/ncbitaxonomy/ncbitaxonomyServer/target/ncbitaxonomyServer.war [INFO] Building war: /media/ephemeral0/workspace/ncbitaxonomy/ncbitaxonomyServer/target/ncbitaxonomyServer.war mojoSucceeded org.apache.maven.plugins:maven-war-plugin:2.0(default-war) mojoStarted org.apache.maven.plugins:maven-jar-plugin:2.4(default) [INFO] [INFO] --- maven-jar-plugin:2.4:test-jar (default) @ ncbitaxonomyServer --- [INFO] Building jar: /media/ephemeral0/workspace/ncbitaxonomy/ncbitaxonomyServer/target/ncbitaxonomyServer-tests.jar mojoSucceeded org.apache.maven.plugins:maven-jar-plugin:2.4(default) mojoStarted org.apache.maven.plugins:maven-jar-plugin:2.4(default) [INFO] [INFO] --- maven-jar-plugin:2.4:jar (default) @ ncbitaxonomyServer --- [INFO] Building jar: /media/ephemeral0/workspace/ncbitaxonomy/ncbitaxonomyServer/target/ncbitaxonomyServer.jar mojoSucceeded org.apache.maven.plugins:maven-jar-plugin:2.4(default) mojoStarted org.apache.maven.plugins:maven-jar-plugin:2.4(default-cli) [INFO] [INFO] --- maven-jar-plugin:2.4:test-jar (default-cli) @ ncbitaxonomyServer --- [WARNING] Artifact edu.berkeley.compbio:ncbitaxonomyServer:test-jar:tests:0.91-SNAPSHOT already attached to project, ignoring duplicate mojoSucceeded org.apache.maven.plugins:maven-jar-plugin:2.4(default-cli) projectSucceeded edu.berkeley.compbio:ncbitaxonomyServer:0.91-SNAPSHOT sessionEnded [INFO] ------------------------------------------------------------------------ [INFO] Reactor Summary: [INFO] [INFO] ncbitaxonomy ...................................... SUCCESS [27.380s] [INFO] ncbitaxonomyClient ................................ SUCCESS [27.758s] [INFO] ncbitaxonomyServer ................................ SUCCESS [57.425s] [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 2:06.304s [INFO] Finished at: Sun Jul 08 01:21:46 UTC 2012 [INFO] Final Memory: 25M/61M [INFO] ------------------------------------------------------------------------ Projects to build: [MavenProject: edu.berkeley.compbio:ncbitaxonomy:0.91-SNAPSHOT @ /media/ephemeral0/workspace/ncbitaxonomy/pom.xml, MavenProject: edu.berkeley.compbio:ncbitaxonomyClient:0.91-SNAPSHOT @ /media/ephemeral0/workspace/ncbitaxonomy/ncbitaxonomyClient/pom.xml, MavenProject: edu.berkeley.compbio:ncbitaxonomyServer:0.91-SNAPSHOT @ /media/ephemeral0/workspace/ncbitaxonomy/ncbitaxonomyServer/pom.xml] [JENKINS] Archiving /media/ephemeral0/workspace/ncbitaxonomy/ncbitaxonomyServer/pom.xml to /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/ncbitaxonomy/modules/edu.berkeley.compbio$ncbitaxonomyServer/builds/2012-07-07_21-19-12/archive/edu.berkeley.compbio/ncbitaxonomyServer/0.91-SNAPSHOT/ncbitaxonomyServer-0.91-SNAPSHOT.pom [JENKINS] Archiving /media/ephemeral0/workspace/ncbitaxonomy/ncbitaxonomyServer/target/ncbitaxonomyServer.jar to /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/ncbitaxonomy/modules/edu.berkeley.compbio$ncbitaxonomyServer/builds/2012-07-07_21-19-12/archive/edu.berkeley.compbio/ncbitaxonomyServer/0.91-SNAPSHOT/ncbitaxonomyServer-0.91-SNAPSHOT.war [JENKINS] Archiving /media/ephemeral0/workspace/ncbitaxonomy/ncbitaxonomyServer/target/ncbitaxonomyServer-sources.jar to /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/ncbitaxonomy/modules/edu.berkeley.compbio$ncbitaxonomyServer/builds/2012-07-07_21-19-12/archive/edu.berkeley.compbio/ncbitaxonomyServer/0.91-SNAPSHOT/ncbitaxonomyServer-0.91-SNAPSHOT-sources.jar [JENKINS] Archiving /media/ephemeral0/workspace/ncbitaxonomy/ncbitaxonomyServer/target/ncbitaxonomyServer-tests.jar to /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/ncbitaxonomy/modules/edu.berkeley.compbio$ncbitaxonomyServer/builds/2012-07-07_21-19-12/archive/edu.berkeley.compbio/ncbitaxonomyServer/0.91-SNAPSHOT/ncbitaxonomyServer-0.91-SNAPSHOT-tests.jar [JENKINS] Archiving /media/ephemeral0/workspace/ncbitaxonomy/ncbitaxonomyClient/pom.xml to /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/ncbitaxonomy/modules/edu.berkeley.compbio$ncbitaxonomyClient/builds/2012-07-07_21-19-12/archive/edu.berkeley.compbio/ncbitaxonomyClient/0.91-SNAPSHOT/ncbitaxonomyClient-0.91-SNAPSHOT.pom [JENKINS] Archiving /media/ephemeral0/workspace/ncbitaxonomy/ncbitaxonomyClient/target/ncbitaxonomyClient-0.91-SNAPSHOT.jar to /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/ncbitaxonomy/modules/edu.berkeley.compbio$ncbitaxonomyClient/builds/2012-07-07_21-19-12/archive/edu.berkeley.compbio/ncbitaxonomyClient/0.91-SNAPSHOT/ncbitaxonomyClient-0.91-SNAPSHOT.jar [JENKINS] Archiving /media/ephemeral0/workspace/ncbitaxonomy/ncbitaxonomyClient/target/ncbitaxonomyClient-0.91-SNAPSHOT-sources.jar to /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/ncbitaxonomy/modules/edu.berkeley.compbio$ncbitaxonomyClient/builds/2012-07-07_21-19-12/archive/edu.berkeley.compbio/ncbitaxonomyClient/0.91-SNAPSHOT/ncbitaxonomyClient-0.91-SNAPSHOT-sources.jar [JENKINS] Archiving /media/ephemeral0/workspace/ncbitaxonomy/ncbitaxonomyClient/target/ncbitaxonomyClient-0.91-SNAPSHOT-tests.jar to /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/ncbitaxonomy/modules/edu.berkeley.compbio$ncbitaxonomyClient/builds/2012-07-07_21-19-12/archive/edu.berkeley.compbio/ncbitaxonomyClient/0.91-SNAPSHOT/ncbitaxonomyClient-0.91-SNAPSHOT-tests.jar [JENKINS] Archiving /media/ephemeral0/workspace/ncbitaxonomy/pom.xml to /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/ncbitaxonomy/modules/edu.berkeley.compbio$ncbitaxonomy/builds/2012-07-07_21-19-12/archive/edu.berkeley.compbio/ncbitaxonomy/0.91-SNAPSHOT/ncbitaxonomy-0.91-SNAPSHOT.pom [JENKINS] Re-archiving /media/ephemeral0/workspace/ncbitaxonomy/target/ncbitaxonomy-0.91-SNAPSHOT.jar [JENKINS] Archiving /media/ephemeral0/workspace/ncbitaxonomy/target/ncbitaxonomy-0.91-SNAPSHOT-tests.jar to /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/ncbitaxonomy/modules/edu.berkeley.compbio$ncbitaxonomy/builds/2012-07-07_21-19-12/archive/edu.berkeley.compbio/ncbitaxonomy/0.91-SNAPSHOT/ncbitaxonomy-0.91-SNAPSHOT-tests.jar Waiting for Jenkins to finish collecting data channel stopped Sending e-mails to: dev@davidsoergel.com Finished: SUCCESS