See <http://cytoscape.wodaklab.org/hudson/job/Cy3%20PSI-MI%20impl/98/>
------------------------------------------ [...truncated 522 lines...] Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20PSI-MI%20impl/ws/trunk/target/apidocs/help-doc.html...> Generating <http://cytoscape.wodaklab.org/hudson/job/Cy3%20PSI-MI%20impl/ws/trunk/target/apidocs/stylesheet.css...> [INFO] Building jar: <http://cytoscape.wodaklab.org/hudson/job/Cy3%20PSI-MI%20impl/ws/trunk/target/psi-mi-impl-1.0-SNAPSHOT-javadoc.jar> [INFO] Preparing source:jar [WARNING] Removing: jar from forked lifecycle, to prevent recursive invocation. [HUDSON] Archiving <http://cytoscape.wodaklab.org/hudson/job/Cy3%20PSI-MI%20impl/ws/trunk/pom.xml> to /R1/resources/webapps/cytoscape_build_sys/hudson_home/jobs/Cy3 PSI-MI impl/modules/org.cytoscape$psi-mi-impl/builds/2010-11-10_21-15-56/archive/org.cytoscape/psi-mi-impl/1.0-SNAPSHOT/pom.xml [HUDSON] Archiving <http://cytoscape.wodaklab.org/hudson/job/Cy3%20PSI-MI%20impl/ws/trunk/target/psi-mi-impl-1.0-SNAPSHOT.jar> to /R1/resources/webapps/cytoscape_build_sys/hudson_home/jobs/Cy3 PSI-MI impl/modules/org.cytoscape$psi-mi-impl/builds/2010-11-10_21-15-56/archive/org.cytoscape/psi-mi-impl/1.0-SNAPSHOT/psi-mi-impl-1.0-SNAPSHOT.jar [HUDSON] Archiving <http://cytoscape.wodaklab.org/hudson/job/Cy3%20PSI-MI%20impl/ws/trunk/target/psi-mi-impl-1.0-SNAPSHOT-javadoc.jar> to /R1/resources/webapps/cytoscape_build_sys/hudson_home/jobs/Cy3 PSI-MI impl/modules/org.cytoscape$psi-mi-impl/builds/2010-11-10_21-15-56/archive/org.cytoscape/psi-mi-impl/1.0-SNAPSHOT/psi-mi-impl-1.0-SNAPSHOT-javadoc.jar [INFO] [jaxb2:xjc {execution: mi1}] [INFO] No changes detected in schema or binding files, skipping source generation. [INFO] [jaxb2:xjc {execution: mi25}] [INFO] No changes detected in schema or binding files, skipping source generation. [INFO] [source:jar {execution: attach-sources}] [INFO] Building jar: <http://cytoscape.wodaklab.org/hudson/job/Cy3%20PSI-MI%20impl/ws/trunk/target/psi-mi-impl-1.0-SNAPSHOT-sources.jar> [INFO] [install:install] [INFO] Installing <http://cytoscape.wodaklab.org/hudson/job/Cy3%20PSI-MI%20impl/ws/trunk/target/psi-mi-impl-1.0-SNAPSHOT.jar> to /home/bturner/.m2/repository/org/cytoscape/psi-mi-impl/1.0-SNAPSHOT/psi-mi-impl-1.0-SNAPSHOT.jar [INFO] Installing <http://cytoscape.wodaklab.org/hudson/job/Cy3%20PSI-MI%20impl/ws/trunk/target/psi-mi-impl-1.0-SNAPSHOT-javadoc.jar> to /home/bturner/.m2/repository/org/cytoscape/psi-mi-impl/1.0-SNAPSHOT/psi-mi-impl-1.0-SNAPSHOT-javadoc.jar [INFO] Installing <http://cytoscape.wodaklab.org/hudson/job/Cy3%20PSI-MI%20impl/ws/trunk/target/psi-mi-impl-1.0-SNAPSHOT-sources.jar> to /home/bturner/.m2/repository/org/cytoscape/psi-mi-impl/1.0-SNAPSHOT/psi-mi-impl-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:708) at hudson.maven.MavenModuleSetBuild$Builder.call(MavenModuleSetBuild.java:652) 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$Worker.run(ThreadPoolExecutor.java:908) at java.lang.Thread.run(Thread.java:619) [INFO] Writing OBR metadata [INFO] [deploy:deploy] [INFO] Retrieving previous build number from snapshots [HUDSON] Archiving <http://cytoscape.wodaklab.org/hudson/job/Cy3%20PSI-MI%20impl/ws/trunk/target/psi-mi-impl-1.0-SNAPSHOT.jar> to /R1/resources/webapps/cytoscape_build_sys/hudson_home/jobs/Cy3 PSI-MI impl/modules/org.cytoscape$psi-mi-impl/builds/2010-11-10_21-15-56/archive/org.cytoscape/psi-mi-impl/1.0-20101111.021653-84/psi-mi-impl-1.0-SNAPSHOT.jar [HUDSON] Archiving <http://cytoscape.wodaklab.org/hudson/job/Cy3%20PSI-MI%20impl/ws/trunk/target/psi-mi-impl-1.0-SNAPSHOT-javadoc.jar> to /R1/resources/webapps/cytoscape_build_sys/hudson_home/jobs/Cy3 PSI-MI impl/modules/org.cytoscape$psi-mi-impl/builds/2010-11-10_21-15-56/archive/org.cytoscape/psi-mi-impl/1.0-20101111.021653-84/psi-mi-impl-1.0-SNAPSHOT-javadoc.jar [HUDSON] Archiving <http://cytoscape.wodaklab.org/hudson/job/Cy3%20PSI-MI%20impl/ws/trunk/target/psi-mi-impl-1.0-SNAPSHOT-sources.jar> to /R1/resources/webapps/cytoscape_build_sys/hudson_home/jobs/Cy3 PSI-MI impl/modules/org.cytoscape$psi-mi-impl/builds/2010-11-10_21-15-56/archive/org.cytoscape/psi-mi-impl/1.0-20101111.021653-84/psi-mi-impl-1.0-SNAPSHOT-sources.jar [INFO] ------------------------------------------------------------------------ [ERROR] BUILD ERROR [INFO] ------------------------------------------------------------------------ [INFO] Error deploying artifact: No space left on device [INFO] ------------------------------------------------------------------------ [INFO] For more information, run Maven with the -e switch [INFO] ------------------------------------------------------------------------ [INFO] Total time: 56 seconds [INFO] Finished at: Wed Nov 10 21:16:54 EST 2010 [INFO] Final Memory: 74M/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.psi-mi-impl [org.cytoscape.psi_mi] [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: 2.2 [INFO] [sonar-core:internal] [INFO] Database dialect class org.sonar.api.database.dialect.MySql [INFO] ------------- Analyzing org.cytoscape.psi-mi-impl [org.cytoscape.psi_mi] [INFO] Selected quality profile : Cytoscape, language=java [INFO] Configure maven plugins... [INFO] Sensor JavaSourceImporter... [INFO] Sensor JavaSourceImporter done: 509 ms [INFO] Sensor AsynchronousMeasuresSensor... [INFO] Sensor AsynchronousMeasuresSensor done: 30 ms [INFO] Sensor SquidSensor... [INFO] Java AST scan... [INFO] Java AST scan done: 659 ms [INFO] Java bytecode scan... [WARN] Class '[Lorg/cytoscape/psi_mi/internal/plugin/SchemaVersion;' is not accessible through the ClassLoader. [INFO] Java bytecode scan done: 173 ms [INFO] Squid extraction... [INFO] Package design analysis... [INFO] Package design analysis done: 49 ms [INFO] Squid extraction done: 716 ms [INFO] Sensor SquidSensor done: 1639 ms [INFO] Sensor ProfileSensor... [INFO] Sensor ProfileSensor done: 24 ms [INFO] Sensor ProjectLinksSensor... [INFO] Sensor ProjectLinksSensor done: 6 ms [INFO] Sensor VersionEventsSensor... [INFO] Sensor VersionEventsSensor done: 36 ms [INFO] Sensor Maven dependencies... [INFO] Sensor Maven dependencies done: 340 ms [INFO] Execute maven plugin findbugs-maven-plugin... [INFO] ------------------------------------------------------------------------ [INFO] Building org.cytoscape.psi-mi-impl [org.cytoscape.psi_mi] [INFO] task-segment: [org.codehaus.mojo:findbugs-maven-plugin:2.3.1:findbugs] [INFO] ------------------------------------------------------------------------ [INFO] Preparing findbugs:findbugs [INFO] [jaxb2:xjc {execution: mi1}] [INFO] No changes detected in schema or binding files, skipping source generation. [INFO] [jaxb2:xjc {execution: mi25}] [INFO] No changes detected in schema or binding files, skipping source generation. [INFO] [resources:resources] [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 3 resources [INFO] [pax:compile] [INFO] Nothing to compile - all classes are up to date [INFO] [findbugs:findbugs] [INFO] Locale is en [java] Warnings generated: 19 [INFO] Execute maven plugin findbugs-maven-plugin done: 21351 ms [INFO] Sensor FindbugsSensor... [INFO] Sensor FindbugsSensor done: 323 ms [INFO] Sensor CheckstyleSensor... [INFO] Execute Checkstyle 5.1... [INFO] Checkstyle output report: <http://cytoscape.wodaklab.org/hudson/job/Cy3%20PSI-MI%20impl/ws/trunk/target/sonar/checkstyle-result.xml> [INFO] Checkstyle configuration: <http://cytoscape.wodaklab.org/hudson/job/Cy3%20PSI-MI%20impl/ws/trunk/target/sonar/checkstyle.xml> [INFO] Execute Checkstyle 5.1 done: 1371 ms [INFO] Sensor CheckstyleSensor done: 1585 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%20PSI-MI%20impl/ws/trunk/target/sonar/pmd.xml> [INFO] PMD output report: <http://cytoscape.wodaklab.org/hudson/job/Cy3%20PSI-MI%20impl/ws/trunk/target/sonar/pmd-result.xml> [INFO] Execute PMD 4.2.5 done: 4364 ms [INFO] Sensor PmdSensor done: 4483 ms [INFO] Execute maven plugin cobertura-maven-plugin... [INFO] ------------------------------------------------------------------------ [INFO] Building org.cytoscape.psi-mi-impl [org.cytoscape.psi_mi] [INFO] task-segment: [org.codehaus.mojo:cobertura-maven-plugin::cobertura] [INFO] ------------------------------------------------------------------------ [INFO] Preparing cobertura:cobertura [INFO] [jaxb2:xjc {execution: mi1}] [INFO] No changes detected in schema or binding files, skipping source generation. [INFO] [jaxb2:xjc {execution: mi25}] [INFO] No changes detected in schema or binding files, skipping source generation. [INFO] [resources:resources] [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 3 resources [INFO] [pax:compile] [INFO] Nothing to compile - all classes are up to date [INFO] [cobertura:instrument] [INFO] Cobertura 1.9.2 - GNU GPL License (NO WARRANTY) - See COPYRIGHT file Instrumenting 126 files to <http://cytoscape.wodaklab.org/hudson/job/Cy3%20PSI-MI%20impl/ws/trunk/target/generated-classes/cobertura> Cobertura: Saved information on 126 classes. Instrument time: 2644ms [INFO] Instrumentation was successful. [INFO] [resources:testResources] [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 12 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%20PSI-MI%20impl/ws/trunk/target/surefire-reports> ------------------------------------------------------- T E S T S ------------------------------------------------------- Running org.cytoscape.psi_mi.internal.cyto_mapper.MapFromCytoscapeTest Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.795 sec Running org.cytoscape.psi_mi.internal.plugin.PsiMiNetworkViewReaderTest Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.589 sec Running org.cytoscape.psi_mi.internal.cyto_mapper.MapToCytoscapeTest Tests run: 6, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 1.208 sec Running org.cytoscape.psi_mi.internal.model.InteractorTest Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.011 sec Running org.cytoscape.psi_mi.internal.data_mapper.MapInteractionsToPsiOneTest Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.25 sec Running org.cytoscape.psi_mi.internal.data_mapper.MapPsiOneToInteractionsTest Tests run: 6, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.843 sec Running org.cytoscape.psi_mi.internal.data_mapper.MapInteractionsToPsiTwoFiveTest Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.219 sec Running org.cytoscape.psi_mi.internal.data_mapper.MapPsiTwoFiveToInteractionsTest Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.343 sec Running org.cytoscape.psi_mi.internal.plugin.PsiMiCyFileFilterTest Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.015 sec Results : Tests run: 23, Failures: 0, Errors: 0, Skipped: 0 [INFO] [cobertura:cobertura] [INFO] Cobertura 1.9.2 - GNU GPL License (NO WARRANTY) - See COPYRIGHT file Cobertura: Loaded information on 126 classes. Report time: 1138ms [INFO] Cobertura Report generation was successful. [INFO] Execute maven plugin cobertura-maven-plugin done: 12267 ms [INFO] Sensor CoberturaSensor... [INFO] parsing <http://cytoscape.wodaklab.org/hudson/job/Cy3%20PSI-MI%20impl/ws/trunk/target/site/cobertura/coverage.xml> [INFO] Sensor CoberturaSensor done: 598 ms [INFO] Sensor CpdSensor... [INFO] Sensor CpdSensor done: 365 ms [INFO] Execute maven plugin taglist-maven-plugin... [INFO] ------------------------------------------------------------------------ [INFO] Building org.cytoscape.psi-mi-impl [org.cytoscape.psi_mi] [INFO] task-segment: [org.codehaus.mojo:taglist-maven-plugin:2.4:taglist] [INFO] ------------------------------------------------------------------------ [WARNING] DEPRECATED [tags]: No reason given [INFO] [taglist:taglist] [WARNING] Using legacy tag format. This is not recommended. [INFO] Execute maven plugin taglist-maven-plugin done: 5531 ms [INFO] Sensor org.sonar.plugins.taglist.taglistsen...@620f1399... [INFO] Sensor org.sonar.plugins.taglist.taglistsen...@620f1399 done: 54 ms [INFO] Sensor SurefireSensor... [INFO] parsing <http://cytoscape.wodaklab.org/hudson/job/Cy3%20PSI-MI%20impl/ws/trunk/target/surefire-reports> [INFO] Sensor SurefireSensor done: 57 ms [INFO] Execute decorators... [INFO] ANALYSIS SUCCESSFUL, you can browse http://localhost:8021/sonar/ [INFO] Database optimization... [INFO] Database optimization done: 2083 ms [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESSFUL [INFO] ------------------------------------------------------------------------ [INFO] Total time: 1 minute 2 seconds [INFO] Finished at: Wed Nov 10 21:18:08 EST 2010 [INFO] Final Memory: 90M/774M [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.
