See <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/13/>
------------------------------------------ [...truncated 144 lines...] Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/apidocs/org/cytoscape/equations//class-use/Interpreter.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/apidocs/org/cytoscape/equations//class-use/EquationUtil.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/apidocs/org/cytoscape/equations//class-use/BooleanList.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/apidocs/org/cytoscape/equations//class-use/AbstractFunction.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/apidocs/org/cytoscape/equations//class-use/DoubleList.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/apidocs/org/cytoscape/equations//class-use/ArgType.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/apidocs/org/cytoscape/equations//class-use/ArgDescriptor.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/apidocs/org/cytoscape/equations//class-use/StringList.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/apidocs/org/cytoscape/equations//class-use/IdentDescriptor.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/apidocs/org/cytoscape/equations//class-use/Equation.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/apidocs/org/cytoscape/equations//class-use/EqnCompiler.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/apidocs/org/cytoscape/equations//class-use/CodeAndSourceLocation.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/apidocs/org/cytoscape/equations//class-use/Node.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/apidocs/org/cytoscape/equations//class-use/Function.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/apidocs/org/cytoscape/equations//class-use/EqnParser.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/apidocs/org/cytoscape/equations//class-use/FunctionError.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/apidocs/org/cytoscape/equations//class-use/FunctionUtil.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/apidocs/org/cytoscape/equations//package-use.html...> Building index for all the packages and classes... Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/apidocs/overview-tree.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/apidocs/index-all.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/apidocs/deprecated-list.html...> Building index for all classes... Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/apidocs/allclasses-frame.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/apidocs/allclasses-noframe.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/apidocs/index.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/apidocs/help-doc.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/apidocs/stylesheet.css...> [INFO] Building jar: <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/equations-api-1.0-SNAPSHOT-javadoc.jar> [INFO] Preparing source:jar [WARNING] Removing: jar from forked lifecycle, to prevent recursive invocation. [INFO] No goals needed for project - skipping [INFO] [source:jar {execution: attach-sources}] [INFO] Building jar: <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/equations-api-1.0-SNAPSHOT-sources.jar> [INFO] [jar:test-jar {execution: default}] [INFO] Building jar: <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/equations-api-1.0-SNAPSHOT-tests.jar> [INFO] [install:install] [INFO] Installing <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/equations-api-1.0-SNAPSHOT.jar> to /home/bturner/.m2/repository/org/cytoscape/equations-api/1.0-SNAPSHOT/equations-api-1.0-SNAPSHOT.jar [INFO] Installing <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/equations-api-1.0-SNAPSHOT-javadoc.jar> to /home/bturner/.m2/repository/org/cytoscape/equations-api/1.0-SNAPSHOT/equations-api-1.0-SNAPSHOT-javadoc.jar [INFO] Installing <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/equations-api-1.0-SNAPSHOT-sources.jar> to /home/bturner/.m2/repository/org/cytoscape/equations-api/1.0-SNAPSHOT/equations-api-1.0-SNAPSHOT-sources.jar [INFO] Installing <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/equations-api-1.0-SNAPSHOT-tests.jar> to /home/bturner/.m2/repository/org/cytoscape/equations-api/1.0-SNAPSHOT/equations-api-1.0-SNAPSHOT-tests.jar [INFO] [bundle:install] [INFO] Parsing file:/home/bturner/.m2/repository/repository.xml [Fatal Error] repository.xml:3:1: Premature end of file. org.xml.sax.SAXParseException: Premature end of file. at com.sun.org.apache.xerces.internal.parsers.DOMParser.parse(DOMParser.java:249) at com.sun.org.apache.xerces.internal.jaxp.DocumentBuilderImpl.parse(DocumentBuilderImpl.java:284) at javax.xml.parsers.DocumentBuilder.parse(DocumentBuilder.java:208) at org.apache.felix.obrplugin.ObrUpdate.parseFile(ObrUpdate.java:347) at org.apache.felix.obrplugin.ObrUpdate.parseRepositoryXml(ObrUpdate.java:324) at org.apache.felix.obrplugin.ObrInstall.execute(ObrInstall.java:140) at org.apache.maven.plugin.DefaultPluginManager.executeMojo(DefaultPluginManager.java:483) at hudson.maven.agent.PluginManagerInterceptor.executeMojo(PluginManagerInterceptor.java:182) at org.apache.maven.lifecycle.DefaultLifecycleExecutor.executeGoals(DefaultLifecycleExecutor.java:678) at org.apache.maven.lifecycle.DefaultLifecycleExecutor.executeGoalWithLifecycle(DefaultLifecycleExecutor.java:540) at org.apache.maven.lifecycle.DefaultLifecycleExecutor.executeGoal(DefaultLifecycleExecutor.java:519) at org.apache.maven.lifecycle.DefaultLifecycleExecutor.executeGoalAndHandleFailures(DefaultLifecycleExecutor.java:371) at org.apache.maven.lifecycle.DefaultLifecycleExecutor.executeTaskSegments(DefaultLifecycleExecutor.java:332) at org.apache.maven.lifecycle.DefaultLifecycleExecutor.execute(DefaultLifecycleExecutor.java:181) at org.apache.maven.lifecycle.LifecycleExecutorInterceptor.execute(LifecycleExecutorInterceptor.java:65) at org.apache.maven.DefaultMaven.doExecute(DefaultMaven.java:356) at org.apache.maven.DefaultMaven.execute(DefaultMaven.java:137) at org.apache.maven.cli.MavenCli.main(MavenCli.java:356) at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25) at java.lang.reflect.Method.invoke(Method.java:597) at org.codehaus.classworlds.Launcher.launchEnhanced(Launcher.java:315) at org.codehaus.classworlds.Launcher.launch(Launcher.java:255) at hudson.maven.agent.Main.launch(Main.java:165) at hudson.maven.MavenBuilder.call(MavenBuilder.java:165) at hudson.maven.MavenModuleSetBuild$Builder.call(MavenModuleSetBuild.java:750) at hudson.maven.MavenModuleSetBuild$Builder.call(MavenModuleSetBuild.java:694) at hudson.remoting.UserRequest.perform(UserRequest.java:114) at hudson.remoting.UserRequest.perform(UserRequest.java:48) at hudson.remoting.Request$2.run(Request.java:270) at java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:441) at java.util.concurrent.FutureTask$Sync.innerRun(FutureTask.java:303) at java.util.concurrent.FutureTask.run(FutureTask.java:138) at java.util.concurrent.ThreadPoolExecutor$Worker.runTask(ThreadPoolExecutor.java:886) at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:908) at java.lang.Thread.run(Thread.java:619) [INFO] Writing OBR metadata [INFO] [deploy:deploy] [INFO] Retrieving previous build number from snapshots [INFO] repository metadata for: 'snapshot org.cytoscape:equations-api:1.0-SNAPSHOT' could not be found on repository: snapshots, so will be created Uploading: http://cytoscape.wodaklab.org/nexus/content/repositories/snapshots/org/cytoscape/equations-api/1.0-SNAPSHOT/equations-api-1.0-20101122.010542-1.jar [HUDSON] Archiving <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/pom.xml> to /R1/resources/webapps/cytoscape_build_sys/hudson_home/jobs/Cy3 Equation API/modules/org.cytoscape$equations-api/builds/2010-11-21_20-05-05/archive/org.cytoscape/equations-api/1.0-SNAPSHOT/pom.xml [HUDSON] Archiving <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/equations-api-1.0-SNAPSHOT.jar> to /R1/resources/webapps/cytoscape_build_sys/hudson_home/jobs/Cy3 Equation API/modules/org.cytoscape$equations-api/builds/2010-11-21_20-05-05/archive/org.cytoscape/equations-api/1.0-20101122.010542-1/equations-api-1.0-SNAPSHOT.jar [HUDSON] Archiving <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/equations-api-1.0-SNAPSHOT-javadoc.jar> to /R1/resources/webapps/cytoscape_build_sys/hudson_home/jobs/Cy3 Equation API/modules/org.cytoscape$equations-api/builds/2010-11-21_20-05-05/archive/org.cytoscape/equations-api/1.0-20101122.010542-1/equations-api-1.0-SNAPSHOT-javadoc.jar [HUDSON] Archiving <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/equations-api-1.0-SNAPSHOT-sources.jar> to /R1/resources/webapps/cytoscape_build_sys/hudson_home/jobs/Cy3 Equation API/modules/org.cytoscape$equations-api/builds/2010-11-21_20-05-05/archive/org.cytoscape/equations-api/1.0-20101122.010542-1/equations-api-1.0-SNAPSHOT-sources.jar [HUDSON] Archiving <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/equations-api-1.0-SNAPSHOT-tests.jar> to /R1/resources/webapps/cytoscape_build_sys/hudson_home/jobs/Cy3 Equation API/modules/org.cytoscape$equations-api/builds/2010-11-21_20-05-05/archive/org.cytoscape/equations-api/1.0-20101122.010542-1/equations-api-1.0-SNAPSHOT-tests.jar [INFO] ------------------------------------------------------------------------ [ERROR] BUILD ERROR [INFO] ------------------------------------------------------------------------ [INFO] Error deploying artifact: Failed to transfer file: http://cytoscape.wodaklab.org/nexus/content/repositories/snapshots/org/cytoscape/equations-api/1.0-SNAPSHOT/equations-api-1.0-20101122.010542-1.jar. Return code is: 500 [INFO] ------------------------------------------------------------------------ [INFO] For more information, run Maven with the -e switch [INFO] ------------------------------------------------------------------------ [INFO] Total time: 35 seconds [INFO] Finished at: Sun Nov 21 20:05:43 EST 2010 [INFO] Final Memory: 64M/728M [INFO] ------------------------------------------------------------------------ Sending e-mails to: [email protected] channel stopped [trunk] $ /R1/tools/maven/apache-maven-2.1.0/bin/mvn org.codehaus.sonar:sonar-maven-plugin:1.8:sonar -Dsonar.jdbc.driver=com.mysql.jdbc.Driver -Dsonar.jdbc.username=sonar -Dsonar.jdbc.password=deploysonar -Dsonar.jdbc.url=jdbc:mysql://localhost:3306/sonar -Dsonar.host.url=http://localhost:8021/sonar/ -Dsonar.skipInstall=true [INFO] Scanning for projects... WAGON_VERSION: 1.0-beta-2 [INFO] ------------------------------------------------------------------------ [INFO] Building org.cytoscape.equations-api [INFO] task-segment: [org.codehaus.sonar:sonar-maven-plugin:1.8:sonar] (aggregator-style) [INFO] ------------------------------------------------------------------------ [INFO] [sonar:sonar] [INFO] Sonar host: http://localhost:8021/sonar [INFO] Sonar version: 2.4 [INFO] [sonar-core:internal] [INFO] Database dialect class org.sonar.jpa.dialect.MySql [INFO] ------------- Analyzing org.cytoscape.equations-api [INFO] Selected quality profile : [name=Cytoscape,language=java] [INFO] Configure maven plugins... [INFO] Sensor JavaSourceImporter... [INFO] Sensor JavaSourceImporter done: 560 ms [INFO] Sensor AsynchronousMeasuresSensor... [INFO] Sensor AsynchronousMeasuresSensor done: 27 ms [INFO] Sensor SquidSensor... [INFO] Java AST scan... [INFO] Java AST scan done: 558 ms [INFO] Java bytecode scan... [INFO] Java bytecode scan done: 96 ms [INFO] Squid extraction... [INFO] Package design analysis... [INFO] Package design analysis done: 9 ms [INFO] Squid extraction done: 331 ms [INFO] Sensor SquidSensor done: 1043 ms [INFO] Sensor FindbugsSensor... [INFO] Execute Findbugs 1.3.9... [INFO] Findbugs output report: <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/sonar/findbugs-result.xml> [INFO] Execute Findbugs 1.3.9 done: 6703 ms [INFO] Sensor FindbugsSensor done: 6973 ms [INFO] Execute maven plugin cobertura-maven-plugin... [INFO] ------------------------------------------------------------------------ [INFO] Building org.cytoscape.equations-api [INFO] task-segment: [org.codehaus.mojo:cobertura-maven-plugin::cobertura] [INFO] ------------------------------------------------------------------------ [INFO] Preparing cobertura:cobertura [INFO] [resources:resources] [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 0 resource [INFO] Copying 0 resource [INFO] [pax:compile] [INFO] Compiling 1 source file to <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/classes> [INFO] [cobertura:instrument] [INFO] Cobertura 1.9.4.1 - GNU GPL License (NO WARRANTY) - See COPYRIGHT file Instrumenting 18 files to <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/generated-classes/cobertura> Cobertura: Saved information on 18 classes. Instrument time: 565ms [INFO] Instrumentation was successful. [INFO] [resources:testResources] [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] skip non existing resourceDirectory <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/src/test/resources> [INFO] [pax:testCompile] [INFO] Nothing to compile - all classes are up to date [INFO] [surefire:test] [INFO] Surefire report directory: <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/surefire-reports> ------------------------------------------------------- T E S T S ------------------------------------------------------- Running org.cytoscape.equations.StringListTest Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.039 sec Running org.cytoscape.equations.EquationTest Tests run: 7, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.301 sec Running org.cytoscape.equations.BooleanListTest Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.051 sec Running org.cytoscape.equations.FunctionUtilTest Tests run: 73, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.184 sec Running org.cytoscape.equations.AbstractFunctionTest Tests run: 9, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.083 sec Running org.cytoscape.equations.LongListTest Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.084 sec Running org.cytoscape.equations.ArgDescriptorTest Tests run: 6, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.043 sec Running org.cytoscape.equations.FunctionErrorTest Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.041 sec Running org.cytoscape.equations.DoubleListTest Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.091 sec Running org.cytoscape.equations.CodeAndSourceLocationTest Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.082 sec Running org.cytoscape.equations.EquationUtilTest Tests run: 6, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.067 sec Running org.cytoscape.equations.IdentDescriptorTest Tests run: 8, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.083 sec Running org.cytoscape.equations.NodeTest Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.076 sec Results : Tests run: 117, Failures: 0, Errors: 0, Skipped: 0 [INFO] [cobertura:cobertura] [INFO] Cobertura 1.9.4.1 - GNU GPL License (NO WARRANTY) - See COPYRIGHT file Cobertura: Loaded information on 18 classes. Report time: 434ms [INFO] Cobertura Report generation was successful. [INFO] Execute maven plugin cobertura-maven-plugin done: 7349 ms [INFO] Sensor CoberturaSensor... [INFO] parsing <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/site/cobertura/coverage.xml> [INFO] Sensor CoberturaSensor done: 179 ms [INFO] Sensor CpdSensor... [INFO] Sensor CpdSensor done: 117 ms [INFO] Sensor CheckstyleSensor... [INFO] Execute Checkstyle 5.1... [INFO] Checkstyle configuration: <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/sonar/checkstyle.xml> [INFO] Execute Checkstyle 5.1 done: 878 ms [INFO] Sensor CheckstyleSensor done: 904 ms [INFO] Sensor PmdSensor... [INFO] Execute PMD 4.2.5... [INFO] Java version: 1.6 [INFO] PMD configuration: <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/sonar/pmd.xml> [INFO] PMD output report: <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/sonar/pmd-result.xml> [INFO] Execute PMD 4.2.5 done: 2104 ms [INFO] Sensor PmdSensor done: 2183 ms [INFO] Sensor ProfileSensor... [INFO] Sensor ProfileSensor done: 33 ms [INFO] Sensor ProjectLinksSensor... [INFO] Sensor ProjectLinksSensor done: 11 ms [INFO] Sensor VersionEventsSensor... [INFO] Sensor VersionEventsSensor done: 48 ms [INFO] Sensor Maven dependencies... [INFO] Sensor Maven dependencies done: 108 ms [INFO] Sensor SurefireSensor... [INFO] parsing <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Equation%20API/ws/trunk/target/surefire-reports> [INFO] Sensor SurefireSensor done: 91 ms [INFO] Execute decorators... [INFO] ANALYSIS SUCCESSFUL, you can browse http://localhost:8021/sonar [INFO] Database optimization... [INFO] Deleting files data before Sun Nov 21 08:06:16 EST 2010 [INFO] Deleting unprocessed data before Sun Nov 21 08:06:17 EST 2010 [INFO] Database optimization done: 514 ms [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESSFUL [INFO] ------------------------------------------------------------------------ [INFO] Total time: 27 seconds [INFO] Finished at: Sun Nov 21 20:06:17 EST 2010 [INFO] Final Memory: 74M/720M [INFO] ------------------------------------------------------------------------ -- You received this message because you are subscribed to the Google Groups "cytoscape-cvs" group. To post to this group, send email to [email protected]. To unsubscribe from this group, send email to [email protected]. For more options, visit this group at http://groups.google.com/group/cytoscape-cvs?hl=en.
