projectStarted edu.berkeley.compbio:ncbitaxonomyServer:0.91-SNAPSHOT [INFO] Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/codehaus/mojo/aspectj-maven-plugin/1.3/aspectj-maven-plugin-1.3.pom [INFO] ------------------------------------------------------------------------ [INFO] Building ncbitaxonomyServer 0.91-SNAPSHOT [INFO] ------------------------------------------------------------------------ Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/codehaus/mojo/aspectj-maven-plugin/1.3/aspectj-maven-plugin-1.3.pom (9 KB at 24.6 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/codehaus/mojo/mojo-parent/23/mojo-parent-23.pom Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/codehaus/mojo/mojo-parent/23/mojo-parent-23.pom (23 KB at 56.5 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/codehaus/mojo/aspectj-maven-plugin/1.3/aspectj-maven-plugin-1.3.jar Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/codehaus/mojo/aspectj-maven-plugin/1.3/aspectj-maven-plugin-1.3.jar (37 KB at 318.7 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/plugins/maven-war-plugin/2.0/maven-war-plugin-2.0.pom Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/plugins/maven-war-plugin/2.0/maven-war-plugin-2.0.pom (2 KB at 7.5 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/plugins/maven-plugins/1/maven-plugins-1.pom Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/plugins/maven-plugins/1/maven-plugins-1.pom (4 KB at 30.4 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/maven-parent/1/maven-parent-1.pom Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/maven-parent/1/maven-parent-1.pom (7 KB at 23.6 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/plugins/maven-war-plugin/2.0/maven-war-plugin-2.0.jar Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/plugins/maven-war-plugin/2.0/maven-war-plugin-2.0.jar (22 KB at 211.4 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/springframework/spring-webmvc/2.5.6/spring-webmvc-2.5.6.pom Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/springframework/spring-webmvc/2.5.6/spring-webmvc-2.5.6.pom (6 KB at 41.4 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/springframework/spring-context/2.5.6/spring-context-2.5.6.pom Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/springframework/spring-context/2.5.6/spring-context-2.5.6.pom (4 KB at 16.8 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/aopalliance/aopalliance/1.0/aopalliance-1.0.pom Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/aopalliance/aopalliance/1.0/aopalliance-1.0.pom (363 B at 1.2 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/springframework/spring-context-support/2.5.6/spring-context-support-2.5.6.pom Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/springframework/spring-context-support/2.5.6/spring-context-support-2.5.6.pom (6 KB at 56.7 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/springframework/spring-web/2.5.6/spring-web-2.5.6.pom Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/springframework/spring-web/2.5.6/spring-web-2.5.6.pom (5 KB at 47.2 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/repositories/snapshots/com/davidsoergel/springjpautils/0.9-SNAPSHOT/maven-metadata.xml Downloaded: http://dev.davidsoergel.com/nexus/content/repositories/snapshots/com/davidsoergel/springjpautils/0.9-SNAPSHOT/maven-metadata.xml (2 KB at 7.8 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/springframework/spring-mock/2.0.2/spring-mock-2.0.2.pom Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/springframework/spring-mock/2.0.2/spring-mock-2.0.2.pom (5 KB at 30.0 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/hsqldb/hsqldb/1.8.0.1/hsqldb-1.8.0.1.pom Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/hsqldb/hsqldb/1.8.0.1/hsqldb-1.8.0.1.pom (148 B at 1.8 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/aspectj/aspectjrt/1.6.10/aspectjrt-1.6.10.pom Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/aspectj/aspectjrt/1.6.10/aspectjrt-1.6.10.pom (2 KB at 19.4 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/springframework/spring-webmvc/2.5.6/spring-webmvc-2.5.6.jar Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/aopalliance/aopalliance/1.0/aopalliance-1.0.jar Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/springframework/spring-context-support/2.5.6/spring-context-support-2.5.6.jar Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/springframework/spring-context/2.5.6/spring-context-2.5.6.jar Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/springframework/spring-web/2.5.6/spring-web-2.5.6.jar Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/springframework/spring-webmvc/2.5.6/spring-webmvc-2.5.6.jar (393 KB at 2046.7 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/springframework/spring-mock/2.0.2/spring-mock-2.0.2.jar Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/aopalliance/aopalliance/1.0/aopalliance-1.0.jar (5 KB at 21.8 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/hsqldb/hsqldb/1.8.0.1/hsqldb-1.8.0.1.jar Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/springframework/spring-context-support/2.5.6/spring-context-support-2.5.6.jar (95 KB at 354.3 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/aspectj/aspectjrt/1.6.10/aspectjrt-1.6.10.jar Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/springframework/spring-web/2.5.6/spring-web-2.5.6.jar (191 KB at 683.5 KB/sec) Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/springframework/spring-context/2.5.6/spring-context-2.5.6.jar (466 KB at 1297.4 KB/sec) Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/springframework/spring-mock/2.0.2/spring-mock-2.0.2.jar (98 KB at 510.7 KB/sec) Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/aspectj/aspectjrt/1.6.10/aspectjrt-1.6.10.jar (114 KB at 713.8 KB/sec) Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/hsqldb/hsqldb/1.8.0.1/hsqldb-1.8.0.1.jar (611 KB at 2512.1 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/repositories/snapshots/com/davidsoergel/dsutils/1.04-SNAPSHOT/dsutils-1.04-20120706.173021-20-tests.jar Downloading: http://dev.davidsoergel.com/nexus/content/repositories/snapshots/edu/berkeley/compbio/phyloutils/0.92-SNAPSHOT/phyloutils-0.92-20120707.185343-13-tests.jar Downloading: http://dev.davidsoergel.com/nexus/content/repositories/snapshots/com/davidsoergel/trees/1.023-SNAPSHOT/trees-1.023-20120706.202634-15-tests.jar Downloaded: http://dev.davidsoergel.com/nexus/content/repositories/snapshots/edu/berkeley/compbio/phyloutils/0.92-SNAPSHOT/phyloutils-0.92-20120707.185343-13-tests.jar (11 KB at 62.0 KB/sec) Downloaded: http://dev.davidsoergel.com/nexus/content/repositories/snapshots/com/davidsoergel/trees/1.023-SNAPSHOT/trees-1.023-20120706.202634-15-tests.jar (28 KB at 162.8 KB/sec) Downloaded: http://dev.davidsoergel.com/nexus/content/repositories/snapshots/com/davidsoergel/dsutils/1.04-SNAPSHOT/dsutils-1.04-20120706.173021-20-tests.jar (96 KB at 508.6 KB/sec) 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 07, 2012 6:55:18 PM 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) [INFO] Compiling 16 source files to /media/ephemeral0/workspace/ncbitaxonomy/ncbitaxonomyServer/target/classes mojoStarted org.apache.maven.plugins:maven-compiler-plugin:2.4(default-compile) [INFO] [INFO] --- maven-compiler-plugin:2.4:compile (default-compile) @ ncbitaxonomyServer --- 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 --- Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/aspectj/aspectjtools/1.6.7/aspectjtools-1.6.7.pom Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/aspectj/aspectjtools/1.6.7/aspectjtools-1.6.7.pom (881 B at 1.0 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/reporting/maven-reporting-api/2.0/maven-reporting-api-2.0.pom Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/reporting/maven-reporting-api/2.0/maven-reporting-api-2.0.pom (2 KB at 27.8 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/reporting/maven-reporting/2.0/maven-reporting-2.0.pom Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/reporting/maven-reporting/2.0/maven-reporting-2.0.pom (504 B at 6.2 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/doxia/doxia-sink-api/1.0-alpha-4/doxia-sink-api-1.0-alpha-4.pom Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/doxia/doxia-sink-api/1.0-alpha-4/doxia-sink-api-1.0-alpha-4.pom (2 KB at 19.1 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/reporting/maven-reporting-impl/2.0/maven-reporting-impl-2.0.pom Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/reporting/maven-reporting-impl/2.0/maven-reporting-impl-2.0.pom (3 KB at 40.7 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/commons-validator/commons-validator/1.1.4/commons-validator-1.1.4.pom Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/commons-validator/commons-validator/1.1.4/commons-validator-1.1.4.pom (168 B at 2.4 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/oro/oro/2.0.7/oro-2.0.7.pom Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/oro/oro/2.0.7/oro-2.0.7.pom (141 B at 1.5 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/doxia/doxia-core/1.0-alpha-4/doxia-core-1.0-alpha-4.pom Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/doxia/doxia-core/1.0-alpha-4/doxia-core-1.0-alpha-4.pom (5 KB at 85.3 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/codehaus/plexus/plexus-utils/1.5.15/plexus-utils-1.5.15.jar Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/aspectj/aspectjtools/1.6.7/aspectjtools-1.6.7.jar Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/reporting/maven-reporting-api/2.0/maven-reporting-api-2.0.jar Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/doxia/doxia-sink-api/1.0-alpha-4/doxia-sink-api-1.0-alpha-4.jar Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/reporting/maven-reporting-impl/2.0/maven-reporting-impl-2.0.jar Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/reporting/maven-reporting-api/2.0/maven-reporting-api-2.0.jar (7 KB at 35.2 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/commons-validator/commons-validator/1.1.4/commons-validator-1.1.4.jar Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/doxia/doxia-sink-api/1.0-alpha-4/doxia-sink-api-1.0-alpha-4.jar (5 KB at 21.3 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/oro/oro/2.0.7/oro-2.0.7.jar Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/reporting/maven-reporting-impl/2.0/maven-reporting-impl-2.0.jar (16 KB at 64.9 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/doxia/doxia-core/1.0-alpha-4/doxia-core-1.0-alpha-4.jar Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/codehaus/plexus/plexus-utils/1.5.15/plexus-utils-1.5.15.jar (223 KB at 822.0 KB/sec) Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/oro/oro/2.0.7/oro-2.0.7.jar (64 KB at 322.7 KB/sec) Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/commons-validator/commons-validator/1.1.4/commons-validator-1.1.4.jar (83 KB at 369.9 KB/sec) Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/doxia/doxia-core/1.0-alpha-4/doxia-core-1.0-alpha-4.jar (255 KB at 1601.6 KB/sec) Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/aspectj/aspectjtools/1.6.7/aspectjtools-1.6.7.jar (8707 KB at 11120.0 KB/sec) [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. mojoStarted org.apache.maven.plugins:maven-resources-plugin:2.5(default-testResources) [INFO] [INFO] --- maven-resources-plugin:2.5:testResources (default-testResources) @ ncbitaxonomyServer --- [INFO] Copying 3 resources 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) mojoStarted org.apache.maven.plugins:maven-surefire-plugin:2.12(default-test) [INFO] [INFO] --- maven-surefire-plugin:2.12:test (default-test) @ ncbitaxonomyServer --- [INFO] Surefire report directory: /media/ephemeral0/workspace/ncbitaxonomy/ncbitaxonomyServer/target/surefire-reports ------------------------------------------------------- T E S T S ------------------------------------------------------- Running TestSuite 2012-07-07 18:55:47,946 [main] INFO edu.berkeley.compbio.phyloutils.NewickStringTaxonomyService - Cache key: itol090314_name.tree, false 2012-07-07 18:55:48,062 [main] INFO com.davidsoergel.dsutils.CacheManager - Loading cache: /tmp/testCacheedu.berkeley.compbio.phyloutils.CiccarelliTaxonomyService/itol090314_name.tree, false.basePhylogeny 2012-07-07 18:55:48,063 [main] INFO edu.berkeley.compbio.phyloutils.NewickStringTaxonomyService - Caches not found for itol090314_name.tree, false, reloading... 2012-07-07 18:55:48,091 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Eukaryota subclade not unique, substituting Eukaryota subclade 1 2012-07-07 18:55:48,092 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Eukaryota subclade not unique, substituting Eukaryota subclade 2 2012-07-07 18:55:48,092 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Eukaryota subclade not unique, substituting Eukaryota subclade 3 2012-07-07 18:55:48,093 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Eukaryota subclade not unique, substituting Eukaryota subclade 4 2012-07-07 18:55:48,093 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Eukaryota subclade not unique, substituting Eukaryota subclade 5 2012-07-07 18:55:48,093 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Eukaryota subclade not unique, substituting Eukaryota subclade 6 2012-07-07 18:55:48,094 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Euryarchaeota subclade not unique, substituting Euryarchaeota subclade 1 2012-07-07 18:55:48,096 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Euryarchaeota subclade not unique, substituting Euryarchaeota subclade 2 2012-07-07 18:55:48,187 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Euryarchaeota subclade not unique, substituting Euryarchaeota subclade 3 2012-07-07 18:55:48,187 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Euryarchaeota subclade not unique, substituting Euryarchaeota subclade 4 2012-07-07 18:55:48,188 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Euryarchaeota subclade not unique, substituting Euryarchaeota subclade 5 2012-07-07 18:55:48,188 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Staphylococcus subclade not unique, substituting Staphylococcus subclade 1 2012-07-07 18:55:48,188 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Bacillus subclade not unique, substituting Bacillus subclade 1 2012-07-07 18:55:48,188 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Streptococcus subclade not unique, substituting Streptococcus subclade 1 2012-07-07 18:55:48,188 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Streptococcus subclade not unique, substituting Streptococcus subclade 2 2012-07-07 18:55:48,188 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Streptococcus subclade not unique, substituting Streptococcus subclade 3 2012-07-07 18:55:48,188 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Streptococcus subclade not unique, substituting Streptococcus subclade 4 2012-07-07 18:55:48,189 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Streptococcus subclade not unique, substituting Streptococcus subclade 5 2012-07-07 18:55:48,189 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Streptococcus subclade not unique, substituting Streptococcus subclade 6 2012-07-07 18:55:48,189 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Mycoplasmataceae subclade not unique, substituting Mycoplasmataceae subclade 1 2012-07-07 18:55:48,189 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Mycoplasma subclade not unique, substituting Mycoplasma subclade 1 2012-07-07 18:55:48,195 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Mycoplasma subclade not unique, substituting Mycoplasma subclade 2 2012-07-07 18:55:48,195 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Mycoplasma subclade not unique, substituting Mycoplasma subclade 3 2012-07-07 18:55:48,196 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Bacteria subclade not unique, substituting Bacteria subclade 1 2012-07-07 18:55:48,196 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Bacteria subclade not unique, substituting Bacteria subclade 2 2012-07-07 18:55:48,196 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Bacteria subclade not unique, substituting Bacteria subclade 3 2012-07-07 18:55:48,196 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Chlamydophila subclade not unique, substituting Chlamydophila subclade 1 2012-07-07 18:55:48,196 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Chlamydophila subclade not unique, substituting Chlamydophila subclade 2 2012-07-07 18:55:48,196 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Bacteria subclade not unique, substituting Bacteria subclade 4 2012-07-07 18:55:48,196 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Bacteria subclade not unique, substituting Bacteria subclade 5 2012-07-07 18:55:48,197 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Mycobacterium subclade not unique, substituting Mycobacterium subclade 1 2012-07-07 18:55:48,197 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Mycobacterium subclade not unique, substituting Mycobacterium subclade 2 2012-07-07 18:55:48,197 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Corynebacterium subclade not unique, substituting Corynebacterium subclade 1 2012-07-07 18:55:48,200 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Bacteria subclade not unique, substituting Bacteria subclade 6 2012-07-07 18:55:48,200 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Bacteria subclade not unique, substituting Bacteria subclade 7 2012-07-07 18:55:48,200 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Bacteria subclade not unique, substituting Bacteria subclade 8 2012-07-07 18:55:48,201 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Bacteria subclade not unique, substituting Bacteria subclade 9 2012-07-07 18:55:48,201 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Bacteria subclade not unique, substituting Bacteria subclade 10 2012-07-07 18:55:48,201 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Bacteria subclade not unique, substituting Bacteria subclade 11 2012-07-07 18:55:48,201 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Cyanobacteria subclade not unique, substituting Cyanobacteria subclade 1 2012-07-07 18:55:48,201 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Cyanobacteria subclade not unique, substituting Cyanobacteria subclade 2 2012-07-07 18:55:48,201 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Cyanobacteria subclade not unique, substituting Cyanobacteria subclade 3 2012-07-07 18:55:48,201 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Cyanobacteria subclade not unique, substituting Cyanobacteria subclade 4 2012-07-07 18:55:48,202 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Cyanobacteria subclade not unique, substituting Cyanobacteria subclade 5 2012-07-07 18:55:48,202 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Bacteria subclade not unique, substituting Bacteria subclade 12 2012-07-07 18:55:48,202 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Bacteria subclade not unique, substituting Bacteria subclade 13 2012-07-07 18:55:48,202 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Proteobacteria subclade not unique, substituting Proteobacteria subclade 1 2012-07-07 18:55:48,206 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Rhizobiales subclade not unique, substituting Rhizobiales subclade 1 2012-07-07 18:55:48,206 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Proteobacteria subclade not unique, substituting Proteobacteria subclade 2 2012-07-07 18:55:48,207 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Gammaproteobacteria subclade not unique, substituting Gammaproteobacteria subclade 1 2012-07-07 18:55:48,207 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Gammaproteobacteria subclade not unique, substituting Gammaproteobacteria subclade 2 2012-07-07 18:55:48,207 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Gammaproteobacteria subclade not unique, substituting Gammaproteobacteria subclade 3 2012-07-07 18:55:48,207 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Vibrio subclade not unique, substituting Vibrio subclade 1 2012-07-07 18:55:48,207 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Gammaproteobacteria subclade not unique, substituting Gammaproteobacteria subclade 4 2012-07-07 18:55:48,207 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Enterobacteriaceae subclade not unique, substituting Enterobacteriaceae subclade 1 2012-07-07 18:55:48,208 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Enterobacteriaceae subclade not unique, substituting Enterobacteriaceae subclade 2 2012-07-07 18:55:48,208 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Enterobacteriaceae subclade not unique, substituting Enterobacteriaceae subclade 3 2012-07-07 18:55:48,208 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Escherichia subclade not unique, substituting Escherichia subclade 1 2012-07-07 18:55:48,208 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Enterobacteriaceae subclade not unique, substituting Enterobacteriaceae subclade 4 2012-07-07 18:55:48,208 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Enterobacteriaceae subclade not unique, substituting Enterobacteriaceae subclade 5 2012-07-07 18:55:48,213 [main] WARN com.davidsoergel.trees.BasicPhylogenyNode - Name Enterobacteriaceae subclade not unique, substituting Enterobacteriaceae subclade 6 2012-07-07 18:55:48,899 [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: 4.736 sec <<< FAILURE! 2012-07-07 18:55:50,276 [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] Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/maven-archiver/2.0.1/maven-archiver-2.0.1.pom [INFO] --- maven-war-plugin:2.0:war (default-war) @ ncbitaxonomyServer --- Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/maven-archiver/2.0.1/maven-archiver-2.0.1.pom (912 B at 16.8 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/maven/2.0.1/maven-2.0.1.pom Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/maven/2.0.1/maven-2.0.1.pom (12 KB at 130.6 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/maven-project/2.0.1/maven-project-2.0.1.pom Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/maven-project/2.0.1/maven-project-2.0.1.pom (2 KB at 5.6 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/maven-profile/2.0.1/maven-profile-2.0.1.pom Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/maven-profile/2.0.1/maven-profile-2.0.1.pom (2 KB at 16.9 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/maven-model/2.0.1/maven-model-2.0.1.pom Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/maven-model/2.0.1/maven-model-2.0.1.pom (3 KB at 24.3 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/codehaus/plexus/plexus-utils/1.0.5/plexus-utils-1.0.5.pom Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/codehaus/plexus/plexus-utils/1.0.5/plexus-utils-1.0.5.pom (918 B at 10.7 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/maven-artifact-manager/2.0.1/maven-artifact-manager-2.0.1.pom Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/maven-artifact-manager/2.0.1/maven-artifact-manager-2.0.1.pom (2 KB at 52.4 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/maven-repository-metadata/2.0.1/maven-repository-metadata-2.0.1.pom Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/maven-repository-metadata/2.0.1/maven-repository-metadata-2.0.1.pom (2 KB at 10.6 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/maven-artifact/2.0.1/maven-artifact-2.0.1.pom Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/maven-artifact/2.0.1/maven-artifact-2.0.1.pom (765 B at 28.7 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/codehaus/plexus/plexus-archiver/1.0-alpha-4/plexus-archiver-1.0-alpha-4.pom Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/codehaus/plexus/plexus-archiver/1.0-alpha-4/plexus-archiver-1.0-alpha-4.pom (439 B at 3.3 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/codehaus/plexus/plexus-components/1.1.4/plexus-components-1.1.4.pom Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/codehaus/plexus/plexus-components/1.1.4/plexus-components-1.1.4.pom (3 KB at 87.9 KB/sec) Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/maven-archiver/2.0.1/maven-archiver-2.0.1.jar Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/codehaus/plexus/plexus-archiver/1.0-alpha-4/plexus-archiver-1.0-alpha-4.jar Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/maven-archiver/2.0.1/maven-archiver-2.0.1.jar (10 KB at 58.7 KB/sec) Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/codehaus/plexus/plexus-archiver/1.0-alpha-4/plexus-archiver-1.0-alpha-4.jar (128 KB at 507.1 KB/sec) [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] Building jar: /media/ephemeral0/workspace/ncbitaxonomy/ncbitaxonomyServer/target/ncbitaxonomyServer-tests.jar [INFO] [INFO] --- maven-jar-plugin:2.4:test-jar (default) @ ncbitaxonomyServer --- 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