See <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/621/>
------------------------------------------ [...truncated 155 lines...] Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/apidocs/org/apache/commons/cli//class-use/OptionBuilder.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/apidocs/org/apache/commons/cli//class-use/HelpFormatter.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/apidocs/org/apache/commons/cli//class-use/BasicParser.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/apidocs/org/apache/commons/cli//class-use/GnuParser.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/apidocs/org/apache/commons/cli//class-use/PatternOptionBuilder.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/apidocs/org/apache/commons/cli//class-use/TypeHandler.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/apidocs/org/apache/commons/cli//class-use/OptionValidator.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/apidocs/org/apache/commons/cli//class-use/PosixParser.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/apidocs/org/apache/commons/cli//class-use/UnrecognizedOptionException.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/apidocs/org/apache/commons/cli//class-use/AlreadySelectedException.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/apidocs/org/apache/commons/cli//class-use/OptionGroup.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/apidocs/org/apache/commons/cli//class-use/Option.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/apidocs/org/apache/commons/cli//class-use/MissingOptionException.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/apidocs/org/apache/commons/cli//class-use/ParseException.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/apidocs/org/apache/commons/cli//class-use/Options.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/apidocs/org/apache/commons/cli//class-use/CommandLine.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/apidocs/org/apache/commons/cli//class-use/CommandLineParser.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/apidocs/org/apache/commons/cli//class-use/Parser.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/apidocs/org/apache/commons/cli//package-use.html...> Building index for all the packages and classes... Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/apidocs/overview-tree.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/apidocs/index-all.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/apidocs/deprecated-list.html...> Building index for all classes... Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/apidocs/allclasses-frame.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/apidocs/allclasses-noframe.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/apidocs/index.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/apidocs/help-doc.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/apidocs/stylesheet.css...> [INFO] Building jar: <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/cy-commons-cli-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%20Commons%20CLI/ws/trunk/target/cy-commons-cli-1.0-SNAPSHOT-sources.jar> [INFO] [install:install] [INFO] Installing <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/cy-commons-cli-1.0-SNAPSHOT.jar> to /home/bturner/.m2/repository/org/cytoscape/cy-commons-cli/1.0-SNAPSHOT/cy-commons-cli-1.0-SNAPSHOT.jar [INFO] Installing <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/cy-commons-cli-1.0-SNAPSHOT-javadoc.jar> to /home/bturner/.m2/repository/org/cytoscape/cy-commons-cli/1.0-SNAPSHOT/cy-commons-cli-1.0-SNAPSHOT-javadoc.jar [INFO] Installing <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/cy-commons-cli-1.0-SNAPSHOT-sources.jar> to /home/bturner/.m2/repository/org/cytoscape/cy-commons-cli/1.0-SNAPSHOT/cy-commons-cli-1.0-SNAPSHOT-sources.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$Worker.run(ThreadPoolExecutor.java:908) at java.lang.Thread.run(Thread.java:619) [INFO] Writing OBR metadata [INFO] [deploy:deploy] [INFO] Retrieving previous build number from snapshots [INFO] repository metadata for: 'snapshot org.cytoscape:cy-commons-cli:1.0-SNAPSHOT' could not be found on repository: snapshots, so will be created Uploading: http://cytoscape.wodaklab.org/nexus/content/repositories/snapshots/org/cytoscape/cy-commons-cli/1.0-SNAPSHOT/cy-commons-cli-1.0-20101122.010126-1.jar [HUDSON] Archiving <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/pom.xml> to /R1/resources/webapps/cytoscape_build_sys/hudson_home/jobs/Cy3 Commons CLI/modules/org.cytoscape$cy-commons-cli/builds/2010-11-21_20-00-54/archive/org.cytoscape/cy-commons-cli/1.0-SNAPSHOT/pom.xml [HUDSON] Archiving <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/cy-commons-cli-1.0-SNAPSHOT.jar> to /R1/resources/webapps/cytoscape_build_sys/hudson_home/jobs/Cy3 Commons CLI/modules/org.cytoscape$cy-commons-cli/builds/2010-11-21_20-00-54/archive/org.cytoscape/cy-commons-cli/1.0-20101122.010126-1/cy-commons-cli-1.0-SNAPSHOT.jar [HUDSON] Archiving <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/cy-commons-cli-1.0-SNAPSHOT-javadoc.jar> to /R1/resources/webapps/cytoscape_build_sys/hudson_home/jobs/Cy3 Commons CLI/modules/org.cytoscape$cy-commons-cli/builds/2010-11-21_20-00-54/archive/org.cytoscape/cy-commons-cli/1.0-20101122.010126-1/cy-commons-cli-1.0-SNAPSHOT-javadoc.jar [HUDSON] Archiving <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/cy-commons-cli-1.0-SNAPSHOT-sources.jar> to /R1/resources/webapps/cytoscape_build_sys/hudson_home/jobs/Cy3 Commons CLI/modules/org.cytoscape$cy-commons-cli/builds/2010-11-21_20-00-54/archive/org.cytoscape/cy-commons-cli/1.0-20101122.010126-1/cy-commons-cli-1.0-SNAPSHOT-sources.jar [INFO] ------------------------------------------------------------------------ [ERROR] BUILD ERROR [INFO] ------------------------------------------------------------------------ [INFO] Error deploying artifact: Failed to transfer file: http://cytoscape.wodaklab.org/nexus/content/repositories/snapshots/org/cytoscape/cy-commons-cli/1.0-SNAPSHOT/cy-commons-cli-1.0-20101122.010126-1.jar. Return code is: 500 [INFO] ------------------------------------------------------------------------ [INFO] For more information, run Maven with the -e switch [INFO] ------------------------------------------------------------------------ [INFO] Total time: 29 seconds [INFO] Finished at: Sun Nov 21 20:01:26 EST 2010 [INFO] Final Memory: 64M/726M [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.cy-commons-cli [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.cy-commons-cli [INFO] Selected quality profile : [name=Cytoscape,language=java] [INFO] Configure maven plugins... [INFO] Sensor JavaSourceImporter... [INFO] Sensor JavaSourceImporter done: 612 ms [INFO] Sensor AsynchronousMeasuresSensor... [INFO] Sensor AsynchronousMeasuresSensor done: 27 ms [INFO] Sensor SquidSensor... [INFO] Java AST scan... [INFO] Java AST scan done: 642 ms [INFO] Java bytecode scan... [INFO] Java bytecode scan done: 167 ms [INFO] Squid extraction... [INFO] Package design analysis... [INFO] Package design analysis done: 23 ms [INFO] Squid extraction done: 646 ms [INFO] Sensor SquidSensor done: 1533 ms [INFO] Sensor FindbugsSensor... [INFO] Execute Findbugs 1.3.9... [INFO] Findbugs output report: <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/sonar/findbugs-result.xml> [INFO] Execute Findbugs 1.3.9 done: 9170 ms [INFO] Sensor FindbugsSensor done: 9347 ms [INFO] Execute maven plugin cobertura-maven-plugin... [INFO] ------------------------------------------------------------------------ [INFO] Building org.cytoscape.cy-commons-cli [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] skip non existing resourceDirectory <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/src/main/resources> [INFO] [pax:compile] [INFO] Nothing to compile - all classes are up to date [INFO] [cobertura:instrument] [INFO] Cobertura 1.9.4.1 - GNU GPL License (NO WARRANTY) - See COPYRIGHT file Instrumenting 21 files to <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/generated-classes/cobertura> Cobertura: Saved information on 21 classes. Instrument time: 1746ms [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%20Commons%20CLI/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%20Commons%20CLI/ws/trunk/target/surefire-reports> ------------------------------------------------------- T E S T S ------------------------------------------------------- Running org.apache.commons.cli.OptionGroupTest Tests run: 10, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.795 sec Running org.apache.commons.cli.TestHelpFormatter Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.852 sec Running org.apache.commons.cli.ValuesTest Tests run: 7, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.227 sec Running org.apache.commons.cli.OptionsTest Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.084 sec Running org.apache.commons.cli.ValueTest Tests run: 16, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.024 sec Running org.apache.commons.cli.PatternOptionBuilderTest Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 5.025 sec Running org.apache.commons.cli.OptionBuilderTest Tests run: 7, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.056 sec Running org.apache.commons.cli.ParseTest Tests run: 10, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.097 sec Running org.apache.commons.cli.ArgumentIsOptionTest Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.058 sec Running org.apache.commons.cli.BuildTest Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.062 sec Running org.apache.commons.cli.ApplicationTest Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.067 sec Running org.apache.commons.cli.GnuParseTest Tests run: 9, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.068 sec Running org.apache.commons.cli.ParseRequiredTest Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.005 sec Results : Tests run: 77, Failures: 0, Errors: 0, Skipped: 0 Flushing results... Flushing results done Cobertura: Loaded information on 21 classes. Cobertura: Saved information on 21 classes. [INFO] [cobertura:cobertura] [INFO] Cobertura 1.9.4.1 - GNU GPL License (NO WARRANTY) - See COPYRIGHT file Cobertura: Loaded information on 21 classes. Report time: 559ms [INFO] Cobertura Report generation was successful. [INFO] Execute maven plugin cobertura-maven-plugin done: 14970 ms [INFO] Sensor CoberturaSensor... [INFO] parsing <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/site/cobertura/coverage.xml> [INFO] Sensor CoberturaSensor done: 212 ms [INFO] Sensor CpdSensor... [INFO] Sensor CpdSensor done: 181 ms [INFO] Sensor CheckstyleSensor... [INFO] Execute Checkstyle 5.1... [INFO] Checkstyle configuration: <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/sonar/checkstyle.xml> [INFO] Execute Checkstyle 5.1 done: 898 ms [INFO] Sensor CheckstyleSensor done: 947 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%20Commons%20CLI/ws/trunk/target/sonar/pmd.xml> [INFO] PMD output report: <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/ws/trunk/target/sonar/pmd-result.xml> [INFO] Execute PMD 4.2.5 done: 2348 ms [INFO] Sensor PmdSensor done: 2424 ms [INFO] Sensor ProfileSensor... [INFO] Sensor ProfileSensor done: 25 ms [INFO] Sensor ProjectLinksSensor... [INFO] Sensor ProjectLinksSensor done: 9 ms [INFO] Sensor VersionEventsSensor... [INFO] Sensor VersionEventsSensor done: 41 ms [INFO] Sensor Maven dependencies... [INFO] Sensor Maven dependencies done: 108 ms [INFO] Sensor SurefireSensor... [INFO] parsing <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Commons%20CLI/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 08:02:16 EST 2010 [INFO] Deleting unprocessed data before Sun Nov 21 08:02:17 EST 2010 [INFO] Database optimization done: 465 ms [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESSFUL [INFO] ------------------------------------------------------------------------ [INFO] Total time: 38 seconds [INFO] Finished at: Sun Nov 21 20:02:17 EST 2010 [INFO] Final Memory: 68M/757M [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.
