See <http://code.cytoscape.org/jenkins/job/cytoscape-3-impl/1142/>
------------------------------------------ [...truncated 79157 lines...] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ command-dialog-impl --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] skip non existing resourceDirectory <http://code.cytoscape.org/jenkins/job/cytoscape-3-impl/ws/command-dialog-impl/src/main/resources> [INFO] [INFO] --- maven-compiler-plugin:2.5.1:compile (default-compile) @ command-dialog-impl --- [INFO] Compiling 16 source files to <http://code.cytoscape.org/jenkins/job/cytoscape-3-impl/ws/command-dialog-impl/target/classes> [INFO] [INFO] --- cobertura-maven-plugin:2.5:instrument (default-cli) @ command-dialog-impl --- [INFO] Cobertura 1.9.4.1 - GNU GPL License (NO WARRANTY) - See COPYRIGHT file Instrumenting 20 files to <http://code.cytoscape.org/jenkins/job/cytoscape-3-impl/ws/command-dialog-impl/target/generated-classes/cobertura> Cobertura: Saved information on 20 classes. Instrument time: 277ms [INFO] Instrumentation was successful. [INFO] NOT adding cobertura ser file to attached artifacts list. [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ command-dialog-impl --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] skip non existing resourceDirectory <http://code.cytoscape.org/jenkins/job/cytoscape-3-impl/ws/command-dialog-impl/src/test/resources> [INFO] [INFO] --- maven-compiler-plugin:2.5.1:testCompile (default-testCompile) @ command-dialog-impl --- [INFO] No sources to compile [INFO] [INFO] --- maven-surefire-plugin:2.12.4:test (default-test) @ command-dialog-impl --- [INFO] No tests to run. [INFO] [INFO] <<< cobertura-maven-plugin:2.5:cobertura (default-cli) @ command-dialog-impl <<< [INFO] [INFO] --- cobertura-maven-plugin:2.5:cobertura (default-cli) @ command-dialog-impl --- [INFO] Cobertura 1.9.4.1 - GNU GPL License (NO WARRANTY) - See COPYRIGHT file Cobertura: Loaded information on 20 classes. Report time: 234ms [INFO] Cobertura Report generation was successful. [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 1:04.246s [INFO] Finished at: Sun Nov 03 20:23:42 GMT-05:00 2013 [INFO] Final Memory: 45M/131M [INFO] ------------------------------------------------------------------------ [INFO] Execute org.codehaus.mojo:cobertura-maven-plugin:2.5:cobertura done: 4414 ms [INFO] Execute maven plugin cobertura-maven-plugin done: 4414 ms [INFO] Initializer CoberturaMavenInitializer... [INFO] Initializer CoberturaMavenInitializer done: 0 ms [INFO] Sensor JavaSourceImporter... [INFO] Sensor JavaSourceImporter done: 180 ms [INFO] Sensor SquidSensor... [INFO] Java AST scan... [ERROR] Squid Error occurs when analysing :<http://code.cytoscape.org/jenkins/job/cytoscape-3-impl/ws/command-dialog-impl/src/main/java/org/cytoscape/command-dialog/internal/tasks/SleepCommandTaskFactory.java> org.sonar.squid.api.AnalysisException: The package declaration org.cytoscape.commandDialog.internal.tasks does not correspond to the file path org/cytoscape/command-dialog/internal/tasks/SleepCommandTaskFactory.java at org.sonar.java.ast.visitor.PackageVisitor.checkPhysicalDirectory(PackageVisitor.java:95) [sonar-squid-java-plugin-2.10.jar:na] at org.sonar.java.ast.visitor.PackageVisitor.createSourcePackage(PackageVisitor.java:75) [sonar-squid-java-plugin-2.10.jar:na] at org.sonar.java.ast.visitor.PackageVisitor.visitFile(PackageVisitor.java:50) [sonar-squid-java-plugin-2.10.jar:na] at org.sonar.java.ast.CheckstyleSquidBridge.beginTree(CheckstyleSquidBridge.java:87) [sonar-squid-java-plugin-2.10.jar:na] at com.puppycrawl.tools.checkstyle.TreeWalker.notifyBegin(TreeWalker.java:349) [checkstyle-5.1.jar:5.1] at com.puppycrawl.tools.checkstyle.TreeWalker.walk(TreeWalker.java:324) [checkstyle-5.1.jar:5.1] at com.puppycrawl.tools.checkstyle.TreeWalker.processFiltered(TreeWalker.java:186) [checkstyle-5.1.jar:5.1] at com.puppycrawl.tools.checkstyle.api.AbstractFileSetCheck.process(AbstractFileSetCheck.java:73) [checkstyle-5.1.jar:5.1] at com.puppycrawl.tools.checkstyle.Checker.process(Checker.java:262) [checkstyle-5.1.jar:5.1] at org.sonar.java.ast.JavaAstScanner.launchCheckstyle(JavaAstScanner.java:129) [sonar-squid-java-plugin-2.10.jar:na] at org.sonar.java.ast.JavaAstScanner.scanFiles(JavaAstScanner.java:118) [sonar-squid-java-plugin-2.10.jar:na] at org.sonar.plugins.squid.SquidExecutor.scanSources(SquidExecutor.java:170) [sonar-squid-java-plugin-2.10.jar:na] at org.sonar.plugins.squid.SquidExecutor.scan(SquidExecutor.java:85) [sonar-squid-java-plugin-2.10.jar:na] at org.sonar.plugins.squid.SquidSensor.analyzeMainSources(SquidSensor.java:77) [sonar-squid-java-plugin-2.10.jar:na] at org.sonar.plugins.squid.SquidSensor.analyse(SquidSensor.java:61) [sonar-squid-java-plugin-2.10.jar:na] at org.sonar.batch.phases.SensorsExecutor.execute(SensorsExecutor.java:64) [sonar-batch-2.10.jar:na] at org.sonar.batch.phases.Phases.execute(Phases.java:93) [sonar-batch-2.10.jar:na] at org.sonar.batch.bootstrap.ProjectModule.doStart(ProjectModule.java:143) [sonar-batch-2.10.jar:na] at org.sonar.batch.bootstrap.Module.start(Module.java:89) [sonar-batch-2.10.jar:na] at org.sonar.batch.bootstrap.BatchModule.analyze(BatchModule.java:110) [sonar-batch-2.10.jar:na] at org.sonar.batch.bootstrap.BatchModule.analyze(BatchModule.java:105) [sonar-batch-2.10.jar:na] at org.sonar.batch.bootstrap.BatchModule.doStart(BatchModule.java:100) [sonar-batch-2.10.jar:na] at org.sonar.batch.bootstrap.Module.start(Module.java:89) [sonar-batch-2.10.jar:na] at org.sonar.batch.bootstrap.BootstrapModule.doStart(BootstrapModule.java:96) [sonar-batch-2.10.jar:na] at org.sonar.batch.bootstrap.Module.start(Module.java:89) [sonar-batch-2.10.jar:na] at org.sonar.batch.Batch.execute(Batch.java:74) [sonar-batch-2.10.jar:na] at org.sonar.maven3.SonarMojo.executeBatch(SonarMojo.java:147) [sonar-maven3-plugin-2.10.jar:na] at org.sonar.maven3.SonarMojo.execute(SonarMojo.java:136) [sonar-maven3-plugin-2.10.jar:na] at org.codehaus.mojo.sonar.Bootstraper.executeMojo(Bootstraper.java:113) [sonar-maven-plugin-2.0.jar:na] at org.codehaus.mojo.sonar.Bootstraper.start(Bootstraper.java:65) [sonar-maven-plugin-2.0.jar:na] at org.codehaus.mojo.sonar.SonarMojo.execute(SonarMojo.java:90) [sonar-maven-plugin-2.0.jar:na] at org.apache.maven.plugin.DefaultBuildPluginManager.executeMojo(DefaultBuildPluginManager.java:101) [maven-core-3.0.3.jar:3.0.3] at org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:209) [maven-core-3.0.3.jar:3.0.3] at org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:153) [maven-core-3.0.3.jar:3.0.3] at org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:145) [maven-core-3.0.3.jar:3.0.3] at org.apache.maven.lifecycle.internal.LifecycleModuleBuilder.buildProject(LifecycleModuleBuilder.java:84) [maven-core-3.0.3.jar:3.0.3] at org.apache.maven.lifecycle.internal.LifecycleModuleBuilder.buildProject(LifecycleModuleBuilder.java:59) [maven-core-3.0.3.jar:3.0.3] at org.apache.maven.lifecycle.internal.LifecycleStarter.singleThreadedBuild(LifecycleStarter.java:183) [maven-core-3.0.3.jar:3.0.3] at org.apache.maven.lifecycle.internal.LifecycleStarter.execute(LifecycleStarter.java:161) [maven-core-3.0.3.jar:3.0.3] at org.apache.maven.DefaultMaven.doExecute(DefaultMaven.java:319) [maven-core-3.0.3.jar:3.0.3] at org.apache.maven.DefaultMaven.execute(DefaultMaven.java:156) [maven-core-3.0.3.jar:3.0.3] at org.apache.maven.cli.MavenCli.execute(MavenCli.java:537) [maven-embedder-3.0.3.jar:3.0.3] at org.apache.maven.cli.MavenCli.doMain(MavenCli.java:196) [maven-embedder-3.0.3.jar:3.0.3] at org.apache.maven.cli.MavenCli.main(MavenCli.java:141) [maven-embedder-3.0.3.jar:3.0.3] at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) [na:1.6.0_32] at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39) [na:1.6.0_32] at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25) [na:1.6.0_32] at java.lang.reflect.Method.invoke(Method.java:597) [na:1.6.0_32] at org.codehaus.plexus.classworlds.launcher.Launcher.launchEnhanced(Launcher.java:290) [plexus-classworlds-2.4.jar:na] at org.codehaus.plexus.classworlds.launcher.Launcher.launch(Launcher.java:230) [plexus-classworlds-2.4.jar:na] at org.codehaus.plexus.classworlds.launcher.Launcher.mainWithExitCode(Launcher.java:409) [plexus-classworlds-2.4.jar:na] at org.codehaus.plexus.classworlds.launcher.Launcher.main(Launcher.java:352) [plexus-classworlds-2.4.jar:na] [INFO] ------------------------------------------------------------------------ [INFO] Reactor Summary: [INFO] [INFO] Cytoscape Implementation Parent Project POM ....... FAILURE [1:01.109s] [INFO] BioPAX Reader for Cytoscape ....................... SUCCESS [3.095s] [INFO] Cytoscape Command Line Implementation (command-dialog-impl) SUCCESS [3.940s] [INFO] Cytoscape Command Executor Impl (command-executor-impl) SKIPPED [INFO] Old Pathway Commons WS Client (cpath2-impl) ....... SKIPPED [INFO] Cytoscape Equations Impl (equations-impl) ......... SKIPPED [INFO] Cytoscape Model Impl Parent (model-impl-parent) ... SKIPPED [INFO] Cytoscape Model Impl (model-impl) ................. SKIPPED [INFO] Cytoscape Ding Impl Parent (ding-impl) ............ SKIPPED [INFO] Cytoscape Ding View/Presentation Impl (ding-presentation-impl) SKIPPED [INFO] Cytoscape View Model Impl Parent (viewmodel-impl-parent) SKIPPED [INFO] Cytoscape View Model Impl (viewmodel-impl) ........ SKIPPED [INFO] Cytoscape Groups Impl (group-impl) ................ SKIPPED [INFO] Cytoscape IO Impl Parent (io-impl-parent) ......... SKIPPED [INFO] Cytoscape IO Impl (io-impl) ....................... SKIPPED [INFO] Cytoscape Event Impl Parent (event-impl-parent) ... SKIPPED [INFO] Cytoscape Event Impl (event-impl) ................. SKIPPED [INFO] Cytoscape Layout Impl (layout-impl) ............... SKIPPED [INFO] Cytoscape Ding View/Presentation Impl Performance (ding-impl-performance-debug) SKIPPED [INFO] Cytoscape Editor Impl (editor-impl) ............... SKIPPED [INFO] Cytoscape Equation Functions Impl (equations-functions-impl) SKIPPED [INFO] Cytoscape Filters Impl (filter-impl) .............. SKIPPED [INFO] Cytoscape Filters 2 Impl (filter2-impl) ........... SKIPPED [INFO] Cytoscape GraphML Impl (graphml-impl) ............. SKIPPED [INFO] Cytoscape Group Data Impl (group-data-impl) ....... SKIPPED [INFO] Cytoscape Group View Impl (group-view-impl) ....... SKIPPED [INFO] Cytoscape IO Impl Performance (io-impl-performance) SKIPPED [INFO] Cytoscape VizMap Impl Parent (vizmap-impl-parent) . SKIPPED [INFO] Cytoscape VizMap Impl (vizmap-impl) ............... SKIPPED [INFO] Cytoscape JSON IO Impl (json-impl) ................ SKIPPED [INFO] Cytoscape Layout Algorithms Impl (layout-cytoscape-impl) SKIPPED [INFO] Cytoscape JGraph Layout Impl (layout-jgraph-impl) . SKIPPED [INFO] Cytoscape Prefuse Layout Impl (layout-prefuse-impl) SKIPPED [INFO] Cytoscape Linkout Impl (linkout-impl) ............. SKIPPED [INFO] Cytoscape Log Swing Impl (log-swing-impl) ......... SKIPPED [INFO] Cytoscape Manual Layout Impl (manual-layout-impl) . SKIPPED [INFO] Cytoscape Model Impl Performance Debug (model-impl-performance-debug) SKIPPED [INFO] Cytoscape Model Impl Table Performance Debug (model-impl-table-performance-debug) SKIPPED [INFO] Cytoscape NetworkAnalyzer Impl (network-analyzer-impl) SKIPPED [INFO] Cytoscape Merge Impl (network-merge-impl) ......... SKIPPED [INFO] Cytoscape App Impl (app-impl) ..................... SKIPPED [INFO] Cytoscape Presentation Impl (presentation-impl) ... SKIPPED [INFO] Cytoscape Property Impl (property-impl) ........... SKIPPED [INFO] Cytoscape PSI-MI Impl Parent (psi-mi-impl-parent) . SKIPPED [INFO] Cytoscape PSI-MI Impl (psi-mi-impl) ............... SKIPPED [INFO] Cytoscape PSI-MI Impl Performance (psi-mi-impl-performance) SKIPPED [INFO] Cytoscape SBML Impl (sbml-impl) ................... SKIPPED [INFO] Cytoscape Search Impl (search-impl) ............... SKIPPED [INFO] Cytoscape Session Impl (session-impl) ............. SKIPPED [INFO] Cytoscape Help Impl (help-impl) ................... SKIPPED [INFO] Cytoscape Swing Utility Impl (swing-util-impl) .... SKIPPED [INFO] Cytoscape Swing Application Impl (swing-application-impl) SKIPPED [INFO] Cytoscape Table Browser Impl (table-browser-impl) . SKIPPED [INFO] Cytoscape Table Import Impl (table-import-impl) ... SKIPPED [INFO] Cytoscape VizMap GUI Core Impl (vizmap-gui-core-impl) SKIPPED [INFO] Cytoscape VizMap GUI Impl (vizmap-gui-impl) ....... SKIPPED [INFO] Cytoscape Biomart Webservice Impl (webservice-biomart-client-impl) SKIPPED [INFO] Cytoscape Webservice Impl (webservice-impl) ....... SKIPPED [INFO] org.cytoscape.work-headless-impl .................. SKIPPED [INFO] org.cytoscape.work-impl ........................... SKIPPED [INFO] Cytoscape Work Swing Impl Parent (work-swing-impl-parent) SKIPPED [INFO] Cytoscape Work Swing Impl (work-swing-impl) ....... SKIPPED [INFO] Cytoscape Application Impl (application-impl) ..... SKIPPED [INFO] Cytoscape PSIQUIC Web Service Impl (webservice-psicquic-client-impl) SKIPPED [INFO] Cytoscape Datasource Impl (datasource-impl) ....... SKIPPED [INFO] Cytoscape BioGrid Datasource Impl (datasource-biogrid-impl) SKIPPED [INFO] Cytoscape Welcome Screen Impl (welcome-impl) ...... SKIPPED [INFO] Cytoscape GUI Command Line Parser Impl (gui-cmdline-parser-impl) SKIPPED [INFO] Cytoscape Edge Bundler Impl (edge-bundler-impl) ... SKIPPED [INFO] Cytoscape Scripting Impl (scripting-impl) ......... SKIPPED [INFO] Cytoscape Core Task Impl (core-task-impl) ......... SKIPPED [INFO] Cytoscape Headless Application Impl (headless-application-impl) SKIPPED [INFO] Cytoscape Headless Command Line Parser Impl (headless-cmdline-parser-impl) SKIPPED [INFO] Cytoscape REST Impl (rest-impl) ................... SKIPPED [INFO] ------------------------------------------------------------------------ [INFO] BUILD FAILURE [INFO] ------------------------------------------------------------------------ [INFO] Total time: 1:05.006s [INFO] Finished at: Sun Nov 03 20:23:43 GMT-05:00 2013 [INFO] Final Memory: 36M/131M [INFO] ------------------------------------------------------------------------ [ERROR] Failed to execute goal org.codehaus.mojo:sonar-maven-plugin:2.0:sonar (default-cli) on project impl-parent: Can not execute Sonar: Got an exception - org.sonar.squid.api.AnalysisException: The package declaration org.cytoscape.commandDialog.internal.tasks does not correspond to the file path org/cytoscape/command-dialog/internal/tasks/SleepCommandTaskFactory.java, file : <http://code.cytoscape.org/jenkins/job/cytoscape-3-impl/ws/command-dialog-impl/src/main/java/org/cytoscape/command-dialog/internal/tasks/SleepCommandTaskFactory.java,> line : 0 -> [Help 1] org.apache.maven.lifecycle.LifecycleExecutionException: Failed to execute goal org.codehaus.mojo:sonar-maven-plugin:2.0:sonar (default-cli) on project impl-parent: Can not execute Sonar at org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:217) at org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:153) at org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:145) at org.apache.maven.lifecycle.internal.LifecycleModuleBuilder.buildProject(LifecycleModuleBuilder.java:84) at org.apache.maven.lifecycle.internal.LifecycleModuleBuilder.buildProject(LifecycleModuleBuilder.java:59) at org.apache.maven.lifecycle.internal.LifecycleStarter.singleThreadedBuild(LifecycleStarter.java:183) at org.apache.maven.lifecycle.internal.LifecycleStarter.execute(LifecycleStarter.java:161) at org.apache.maven.DefaultMaven.doExecute(DefaultMaven.java:319) at org.apache.maven.DefaultMaven.execute(DefaultMaven.java:156) at org.apache.maven.cli.MavenCli.execute(MavenCli.java:537) at org.apache.maven.cli.MavenCli.doMain(MavenCli.java:196) at org.apache.maven.cli.MavenCli.main(MavenCli.java:141) 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.plexus.classworlds.launcher.Launcher.launchEnhanced(Launcher.java:290) at org.codehaus.plexus.classworlds.launcher.Launcher.launch(Launcher.java:230) at org.codehaus.plexus.classworlds.launcher.Launcher.mainWithExitCode(Launcher.java:409) at org.codehaus.plexus.classworlds.launcher.Launcher.main(Launcher.java:352) Caused by: org.apache.maven.plugin.MojoExecutionException: Can not execute Sonar at org.codehaus.mojo.sonar.Bootstraper.executeMojo(Bootstraper.java:118) at org.codehaus.mojo.sonar.Bootstraper.start(Bootstraper.java:65) at org.codehaus.mojo.sonar.SonarMojo.execute(SonarMojo.java:90) at org.apache.maven.plugin.DefaultBuildPluginManager.executeMojo(DefaultBuildPluginManager.java:101) at org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:209) ... 19 more Caused by: org.sonar.squid.api.AnalysisException: Got an exception - org.sonar.squid.api.AnalysisException: The package declaration org.cytoscape.commandDialog.internal.tasks does not correspond to the file path org/cytoscape/command-dialog/internal/tasks/SleepCommandTaskFactory.java, file : <http://code.cytoscape.org/jenkins/job/cytoscape-3-impl/ws/command-dialog-impl/src/main/java/org/cytoscape/command-dialog/internal/tasks/SleepCommandTaskFactory.java,> line : 0 at org.sonar.java.ast.CheckstyleAuditListener.addError(CheckstyleAuditListener.java:40) at com.puppycrawl.tools.checkstyle.Checker.fireErrors(Checker.java:513) at com.puppycrawl.tools.checkstyle.Checker.process(Checker.java:279) at org.sonar.java.ast.JavaAstScanner.launchCheckstyle(JavaAstScanner.java:129) at org.sonar.java.ast.JavaAstScanner.scanFiles(JavaAstScanner.java:118) at org.sonar.plugins.squid.SquidExecutor.scanSources(SquidExecutor.java:170) at org.sonar.plugins.squid.SquidExecutor.scan(SquidExecutor.java:85) at org.sonar.plugins.squid.SquidSensor.analyzeMainSources(SquidSensor.java:77) at org.sonar.plugins.squid.SquidSensor.analyse(SquidSensor.java:61) at org.sonar.batch.phases.SensorsExecutor.execute(SensorsExecutor.java:64) at org.sonar.batch.phases.Phases.execute(Phases.java:93) at org.sonar.batch.bootstrap.ProjectModule.doStart(ProjectModule.java:143) at org.sonar.batch.bootstrap.Module.start(Module.java:89) at org.sonar.batch.bootstrap.BatchModule.analyze(BatchModule.java:110) at org.sonar.batch.bootstrap.BatchModule.analyze(BatchModule.java:105) at org.sonar.batch.bootstrap.BatchModule.doStart(BatchModule.java:100) at org.sonar.batch.bootstrap.Module.start(Module.java:89) at org.sonar.batch.bootstrap.BootstrapModule.doStart(BootstrapModule.java:96) at org.sonar.batch.bootstrap.Module.start(Module.java:89) at org.sonar.batch.Batch.execute(Batch.java:74) at org.sonar.maven3.SonarMojo.executeBatch(SonarMojo.java:147) at org.sonar.maven3.SonarMojo.execute(SonarMojo.java:136) at org.codehaus.mojo.sonar.Bootstraper.executeMojo(Bootstraper.java:113) ... 23 more [ERROR] [ERROR] Re-run Maven using the -X switch to enable full debug logging. [ERROR] [ERROR] For more information about the errors and possible solutions, please read the following articles: [ERROR] [Help 1] http://cwiki.apache.org/confluence/display/MAVEN/MojoExecutionException Sonar analysis completed: FAILURE Build step 'Sonar' changed build result to FAILURE Build step 'Sonar' marked build as failure -- You received this message because you are subscribed to the Google Groups "cytoscape-cvs" group. To unsubscribe from this group and stop receiving emails from it, send an email to [email protected]. To post to this group, send email to [email protected]. Visit this group at http://groups.google.com/group/cytoscape-cvs. For more options, visit https://groups.google.com/groups/opt_out.
