<===[JENKINS REMOTING CAPACITY]===>channel started Executing Maven: -B -f /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/pom.xml -U -e clean source:jar package jar:test-jar javadoc:jar [INFO] Error stacktraces are turned on. [WARNING] [WARNING] Some problems were encountered while building the effective settings [WARNING] Unrecognised tag: 'scmVersionType' (position: START_TAG seen ...</username>\n <scmVersionType>... @22:21) @ /usr/share/apache-tomcat-7.0.22/.m2/settings.xml, line 22, column 21 [WARNING] [INFO] Scanning for projects... [INFO] Downloading: http://repo.maven.apache.org/maven2/org/apache/maven/plugins/maven-metadata.xml [INFO] Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/codehaus/mojo/maven-metadata.xml [INFO] Downloading: http://repo.maven.apache.org/maven2/org/codehaus/mojo/maven-metadata.xml [INFO] Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/plugins/maven-metadata.xml [INFO] Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/codehaus/mojo/maven-metadata.xml (20 KB at 38.1 KB/sec) [INFO] Downloaded: http://repo.maven.apache.org/maven2/org/codehaus/mojo/maven-metadata.xml (20 KB at 35.1 KB/sec) [INFO] Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/plugins/maven-metadata.xml (13 KB at 35.1 KB/sec) [INFO] Downloaded: http://repo.maven.apache.org/maven2/org/apache/maven/plugins/maven-metadata.xml (13 KB at 17.9 KB/sec) [INFO] Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/plugins/maven-source-plugin/maven-metadata.xml [INFO] Downloading: http://repo.maven.apache.org/maven2/org/apache/maven/plugins/maven-source-plugin/maven-metadata.xml [INFO] Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/plugins/maven-source-plugin/maven-metadata.xml (692 B at 11.5 KB/sec) [INFO] Downloaded: http://repo.maven.apache.org/maven2/org/apache/maven/plugins/maven-source-plugin/maven-metadata.xml (692 B at 6.3 KB/sec) [INFO] Downloading: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/plugins/maven-javadoc-plugin/maven-metadata.xml [INFO] Downloading: http://repo.maven.apache.org/maven2/org/apache/maven/plugins/maven-javadoc-plugin/maven-metadata.xml [INFO] Downloaded: http://dev.davidsoergel.com/nexus/content/groups/public/org/apache/maven/plugins/maven-javadoc-plugin/maven-metadata.xml (782 B at 8.6 KB/sec) [INFO] Downloaded: http://repo.maven.apache.org/maven2/org/apache/maven/plugins/maven-javadoc-plugin/maven-metadata.xml (782 B at 8.0 KB/sec) [INFO] [INFO] ------------------------------------------------------------------------ [INFO] Building trees 1.04-SNAPSHOT [INFO] ------------------------------------------------------------------------ [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ trees --- [INFO] Deleting /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target [INFO] [INFO] --- cobertura-maven-plugin:2.5.1:clean (clean) @ trees --- [INFO] [INFO] >>> maven-source-plugin:2.2.1:jar (default-cli) @ trees >>> [WARNING] Failed to getClass for org.apache.maven.plugin.source.SourceJarMojo [INFO] [INFO] <<< maven-source-plugin:2.2.1:jar (default-cli) @ trees <<< [INFO] [INFO] --- maven-source-plugin:2.2.1:jar (default-cli) @ trees --- [INFO] Building jar: /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/trees-1.04-SNAPSHOT-sources.jar [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ trees --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] skip non existing resourceDirectory /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/resources [INFO] [INFO] --- maven-compiler-plugin:2.4:compile (default-compile) @ trees --- [INFO] Compiling 44 source files to /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/classes [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ trees --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] skip non existing resourceDirectory /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/test/resources [INFO] [INFO] --- maven-compiler-plugin:2.4:testCompile (default-testCompile) @ trees --- [INFO] Compiling 12 source files to /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/test-classes [INFO] [INFO] --- maven-surefire-plugin:2.12:test (default-test) @ trees --- [INFO] Surefire report directory: /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/surefire-reports ------------------------------------------------------- T E S T S ------------------------------------------------------- Running TestSuite 2014-07-08 12:58:58,082 [main] INFO com.davidsoergel.trees.BasicPhylogenyNodeTest - Tree iterator provided node: root 2014-07-08 12:58:58,085 [main] INFO com.davidsoergel.trees.BasicPhylogenyNodeTest - Tree iterator provided node: a 2014-07-08 12:58:58,085 [main] INFO com.davidsoergel.trees.BasicPhylogenyNodeTest - Tree iterator provided node: aa 2014-07-08 12:58:58,085 [main] INFO com.davidsoergel.trees.BasicPhylogenyNodeTest - Tree iterator provided node: aaa 2014-07-08 12:58:58,086 [main] INFO com.davidsoergel.trees.BasicPhylogenyNodeTest - Tree iterator provided node: aaaa 2014-07-08 12:58:58,086 [main] INFO com.davidsoergel.trees.BasicPhylogenyNodeTest - Tree iterator provided node: ab 2014-07-08 12:58:58,086 [main] INFO com.davidsoergel.trees.BasicPhylogenyNodeTest - Tree iterator provided node: b 2014-07-08 12:58:58,086 [main] INFO com.davidsoergel.trees.BasicPhylogenyNodeTest - Tree iterator provided node: ba 2014-07-08 12:58:58,087 [main] INFO com.davidsoergel.trees.BasicPhylogenyNodeTest - Tree iterator provided node: baa 2014-07-08 12:58:58,087 [main] INFO com.davidsoergel.trees.BasicPhylogenyNodeTest - Tree iterator provided node: bab 2014-07-08 12:58:58,087 [main] INFO com.davidsoergel.trees.BasicPhylogenyNodeTest - Tree iterator provided node: bb 2014-07-08 12:58:58,088 [main] INFO com.davidsoergel.trees.BasicPhylogenyNodeTest - Tree iterator provided node: bba 2014-07-08 12:58:58,088 [main] INFO com.davidsoergel.trees.BasicPhylogenyNodeTest - Tree iterator provided node: bbb 2014-07-08 12:58:58,088 [main] INFO com.davidsoergel.trees.BasicPhylogenyNodeTest - Tree iterator provided node: bbba 2014-07-08 12:58:58,097 [main] INFO com.davidsoergel.trees.BasicPhylogenyNodeTest - Tree iterator provided node: c 2014-07-08 12:58:58,098 [main] INFO com.davidsoergel.trees.BasicPhylogenyNodeTest - Tree iterator provided node: ca 2014-07-08 12:58:58,098 [main] INFO com.davidsoergel.trees.BasicPhylogenyNodeTest - Tree iterator provided node: cb Tests run: 68, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 2.429 sec [JENKINS] Recording test results Results : Tests run: 68, Failures: 0, Errors: 0, Skipped: 0 log4j:WARN No appenders could be found for logger (org.apache.commons.beanutils.converters.BooleanConverter). log4j:WARN Please initialize the log4j system properly. [INFO] [INFO] --- maven-jar-plugin:2.4:jar (default-jar) @ trees --- [INFO] Building jar: /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/trees-1.04-SNAPSHOT.jar [INFO] [INFO] --- maven-jar-plugin:2.4:test-jar (default) @ trees --- [INFO] Building jar: /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/trees-1.04-SNAPSHOT-tests.jar [INFO] [INFO] --- maven-jar-plugin:2.4:jar (default) @ trees --- [INFO] [INFO] --- maven-jar-plugin:2.4:test-jar (default-cli) @ trees --- [INFO] [INFO] --- maven-javadoc-plugin:2.9.1:jar (default-cli) @ trees --- [INFO] Loading source files for package com.davidsoergel.trees... Loading source files for package com.davidsoergel.trees.dhtpn... Loading source files for package com.davidsoergel.trees.htpn... Constructing Javadoc information... Standard Doclet version 1.7.0_60 Building tree for all the packages and classes... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/AbstractHierarchyNode.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/AbstractRootedPhylogeny.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/AbstractRootedPhylogeny.MutualExclusionResolutionMode.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/BasicHierarchicalStringObjectMap.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/BasicPhylogenyNode.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/BasicRootedPhylogeny.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/DepthFirstTreeIterator.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/DepthFirstTreeIteratorImpl.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/HierarchicalStringObjectMap.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/HierarchyNode.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/ImmutableHierarchyNode.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/ImmutableSortedSetHierarchyNode.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/IntegerGeneratingNodeNamer.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/IntegerNodeNamer.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/LengthWeightHierarchyNode.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/ListHierarchyNode.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/NodeNamer.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/NoSuchNodeException.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/PhylogenyNode.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/RequireExistingNodeNamer.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/RootedPhylogeny.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/SerializablePhylogenyNode.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/SerializableRootedPhylogeny.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/SetHierarchyNode.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/StringIntegerNodeNamer.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/StringNodeNamer.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/TaxonMergingPhylogeny.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/TreeException.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/TreePrinter.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/TreeRuntimeException.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/dhtpn/AbstractDoubleHierarchicalTypedProperties.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/dhtpn/AbstractSerializableDoubleHierarchicalTypedProperties.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/dhtpn/DoubleHierarchicalTypedProperties.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/dhtpn/ExtendedDoubleHierarchicalTypedProperties.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/dhtpn/ResultCollector.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/dhtpn/SerializableDoubleHierarchicalTypedProperties.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/htpn/AbstractExtendedHierarchicalTypedPropertyNode.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/htpn/AbstractHierarchicalTypedPropertyNode.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/htpn/BasicHierarchicalTypedPropertyNode.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/htpn/ExtendedHierarchicalTypedPropertyNode.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/htpn/ExtendedHierarchicalTypedPropertyNodeImpl.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/htpn/HierarchicalPropertyNodeException.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/htpn/HierarchicalTypedPropertyNode.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/htpn/HierarchicalTypedPropertyNode.PropertyConsumerFlags.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/htpn/MapToHierarchicalTypedPropertyNodeAdapter.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/htpn/SerializableHierarchicalTypedPropertyNode.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/overview-frame.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/package-frame.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/package-summary.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/package-tree.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/dhtpn/package-frame.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/dhtpn/package-summary.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/dhtpn/package-tree.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/htpn/package-frame.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/htpn/package-summary.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/htpn/package-tree.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/constant-values.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/serialized-form.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/class-use/DepthFirstTreeIterator.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/class-use/TreePrinter.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/class-use/AbstractHierarchyNode.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/class-use/SerializableRootedPhylogeny.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/class-use/RequireExistingNodeNamer.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/class-use/ImmutableSortedSetHierarchyNode.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/class-use/NodeNamer.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/class-use/BasicPhylogenyNode.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/class-use/StringNodeNamer.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/class-use/IntegerNodeNamer.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/class-use/HierarchyNode.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/class-use/TaxonMergingPhylogeny.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/class-use/TreeRuntimeException.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/class-use/TreeException.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/class-use/RootedPhylogeny.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/class-use/ImmutableHierarchyNode.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/class-use/StringIntegerNodeNamer.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/class-use/HierarchicalStringObjectMap.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/class-use/AbstractRootedPhylogeny.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/class-use/AbstractRootedPhylogeny.MutualExclusionResolutionMode.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/class-use/NoSuchNodeException.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/class-use/IntegerGeneratingNodeNamer.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/class-use/SetHierarchyNode.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/class-use/BasicHierarchicalStringObjectMap.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/class-use/LengthWeightHierarchyNode.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/class-use/SerializablePhylogenyNode.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/class-use/DepthFirstTreeIteratorImpl.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/class-use/BasicRootedPhylogeny.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/class-use/ListHierarchyNode.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/class-use/PhylogenyNode.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/dhtpn/class-use/AbstractSerializableDoubleHierarchicalTypedProperties.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/dhtpn/class-use/DoubleHierarchicalTypedProperties.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/dhtpn/class-use/ExtendedDoubleHierarchicalTypedProperties.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/dhtpn/class-use/AbstractDoubleHierarchicalTypedProperties.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/dhtpn/class-use/SerializableDoubleHierarchicalTypedProperties.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/dhtpn/class-use/ResultCollector.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/htpn/class-use/ExtendedHierarchicalTypedPropertyNode.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/htpn/class-use/MapToHierarchicalTypedPropertyNodeAdapter.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/htpn/class-use/HierarchicalPropertyNodeException.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/htpn/class-use/AbstractHierarchicalTypedPropertyNode.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/htpn/class-use/SerializableHierarchicalTypedPropertyNode.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/htpn/class-use/BasicHierarchicalTypedPropertyNode.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/htpn/class-use/AbstractExtendedHierarchicalTypedPropertyNode.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/htpn/class-use/HierarchicalTypedPropertyNode.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/htpn/class-use/HierarchicalTypedPropertyNode.PropertyConsumerFlags.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/htpn/class-use/ExtendedHierarchicalTypedPropertyNodeImpl.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/package-use.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/dhtpn/package-use.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/com/davidsoergel/trees/htpn/package-use.html... Building index for all the packages and classes... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/overview-tree.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/index-all.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/deprecated-list.html... Building index for all classes... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/allclasses-frame.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/allclasses-noframe.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/index.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/overview-summary.html... Generating /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/apidocs/help-doc.html... 65 warnings [WARNING] Javadoc Warnings [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/AbstractRootedPhylogeny.java:333: warning - @return tag has no arguments. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/AbstractRootedPhylogeny.java:540: warning - @return tag has no arguments. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/AbstractRootedPhylogeny.java:757: warning - @return tag has no arguments. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/RootedPhylogeny.java:116: warning - @return tag has no arguments. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/PhylogenyNode.java:92: warning - @return tag has no arguments. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/LengthWeightHierarchyNode.java:63: warning - @return tag has no arguments. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/LengthWeightHierarchyNode.java:72: warning - @return tag has no arguments. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/LengthWeightHierarchyNode.java:81: warning - @return tag has no arguments. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/TaxonMergingPhylogeny.java:111: warning - @return tag has no arguments. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/PhylogenyNode.java:75: warning - @inheritDoc used but clone() does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/AbstractRootedPhylogeny.java:143: warning - @inheritDoc used but commonAncestor(PhylogenyNode<T>, PhylogenyNode<T>) does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/AbstractRootedPhylogeny.java:143: warning - @inheritDoc used but commonAncestor(PhylogenyNode<T>, PhylogenyNode<T>) does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/PhylogenyNode.java:75: warning - @inheritDoc used but clone() does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/BasicPhylogenyNode.java:305: warning - @return tag has no arguments. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/BasicPhylogenyNode.java:644: warning - @inheritDoc used but appendToValue(String, NodeNamer<T>) does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/PhylogenyNode.java:75: warning - @inheritDoc used but clone() does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/BasicPhylogenyNode.java:778: warning - @inheritDoc used but getGreatestNodeDepthBelow() does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/LengthWeightHierarchyNode.java:105: warning - @inheritDoc used but toNewick(Writer, String, String, int, double) does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/LengthWeightHierarchyNode.java:105: warning - @inheritDoc used but toNewick(Writer, String, String, int, double) does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/BasicPhylogenyNode.java:644: warning - @inheritDoc used but appendToValue(String, NodeNamer<T>) does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/BasicPhylogenyNode.java:778: warning - @inheritDoc used but getGreatestNodeDepthBelow() does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/PhylogenyNode.java:75: warning - @inheritDoc used but clone() does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/BasicRootedPhylogeny.java:38: warning - @Author is an unknown tag -- same as a known tag except for case. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/BasicRootedPhylogeny.java:38: warning - @Version is an unknown tag -- same as a known tag except for case. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/PhylogenyNode.java:75: warning - @inheritDoc used but clone() does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/LengthWeightHierarchyNode.java:105: warning - @inheritDoc used but toNewick(Writer, String, String, int, double) does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/LengthWeightHierarchyNode.java:105: warning - @inheritDoc used but toNewick(Writer, String, String, int, double) does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/PhylogenyNode.java:75: warning - @inheritDoc used but clone() does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/HierarchyNode.java:24: warning - @See is an unknown tag -- same as a known tag except for case. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/LengthWeightHierarchyNode.java:22: warning - @JavadocOK is an unknown tag. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/LengthWeightHierarchyNode.java:105: warning - @inheritDoc used but toNewick(Writer, String, String, int, double) does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/LengthWeightHierarchyNode.java:105: warning - @inheritDoc used but toNewick(Writer, String, String, int, double) does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/NodeNamer.java:18: warning - @JavadocOK is an unknown tag. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/PhylogenyNode.java:24: warning - @JavadocOK is an unknown tag. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/PhylogenyNode.java:75: warning - @inheritDoc used but clone() does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/PhylogenyNode.java:75: warning - @inheritDoc used but clone() does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/RootedPhylogeny.java:29: warning - @JavadocOK is an unknown tag. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/PhylogenyNode.java:75: warning - @inheritDoc used but clone() does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/PhylogenyNode.java:75: warning - @inheritDoc used but clone() does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/TaxonMergingPhylogeny.java:23: warning - @JavadocOK is an unknown tag. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/htpn/HierarchicalTypedPropertyNode.java:90: warning - @return tag has no arguments. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/htpn/AbstractHierarchicalTypedPropertyNode.java:214: warning - @return tag has no arguments. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/htpn/AbstractHierarchicalTypedPropertyNode.java:273: warning - @return tag has no arguments. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/htpn/AbstractHierarchicalTypedPropertyNode.java:72: warning - @return tag has no arguments. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/htpn/AbstractHierarchicalTypedPropertyNode.java:72: warning - Tag @return cannot be used in field documentation. It can only be used in the following types of documentation: method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/BasicPhylogenyNode.java:644: warning - @inheritDoc used but appendToValue(String, NodeNamer<T>) does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/PhylogenyNode.java:75: warning - @inheritDoc used but clone() does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/BasicPhylogenyNode.java:644: warning - @inheritDoc used but appendToValue(String, NodeNamer<T>) does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/PhylogenyNode.java:75: warning - @inheritDoc used but clone() does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/PhylogenyNode.java:75: warning - @inheritDoc used but clone() does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/AbstractRootedPhylogeny.java:143: warning - @inheritDoc used but commonAncestor(PhylogenyNode<T>, PhylogenyNode<T>) does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/PhylogenyNode.java:75: warning - @inheritDoc used but clone() does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/PhylogenyNode.java:75: warning - @inheritDoc used but clone() does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/AbstractRootedPhylogeny.java:143: warning - @inheritDoc used but commonAncestor(PhylogenyNode<T>, PhylogenyNode<T>) does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/AbstractRootedPhylogeny.java:143: warning - @inheritDoc used but commonAncestor(PhylogenyNode<T>, PhylogenyNode<T>) does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/AbstractRootedPhylogeny.java:143: warning - @inheritDoc used but commonAncestor(PhylogenyNode<T>, PhylogenyNode<T>) does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/BasicPhylogenyNode.java:644: warning - @inheritDoc used but appendToValue(String, NodeNamer<T>) does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/PhylogenyNode.java:75: warning - @inheritDoc used but clone() does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/PhylogenyNode.java:75: warning - @inheritDoc used but clone() does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/PhylogenyNode.java:75: warning - @inheritDoc used but clone() does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/PhylogenyNode.java:75: warning - @inheritDoc used but clone() does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/PhylogenyNode.java:75: warning - @inheritDoc used but clone() does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/AbstractRootedPhylogeny.java:143: warning - @inheritDoc used but commonAncestor(PhylogenyNode<T>, PhylogenyNode<T>) does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/BasicPhylogenyNode.java:778: warning - @inheritDoc used but getGreatestNodeDepthBelow() does not override or implement any method. [WARNING] /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/src/main/java/com/davidsoergel/trees/LengthWeightHierarchyNode.java:105: warning - @inheritDoc used but toNewick(Writer, String, String, int, double) does not override or implement any method. [INFO] Building jar: /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/trees/workspace/target/trees-1.04-SNAPSHOT-javadoc.jar [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 40.407s [INFO] Finished at: Tue Jul 08 12:59:17 EDT 2014 [INFO] Final Memory: 21M/52M [INFO] ------------------------------------------------------------------------