See <http://code.cytoscape.org/jenkins/job/Cytoscape%203%20Implementation/1946/>

------------------------------------------
[...truncated 22197 lines...]
 schemaLanguage=null
 
schemas=[<http://code.cytoscape.org/jenkins/job/Cytoscape%203%20Implementation/ws/trunk/io-impl/impl/src/main/resources/xsd/cysession.xsd]>
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Using java.util.ServiceLoader
[INFO] File 
[<http://code.cytoscape.org/jenkins/job/Cytoscape%203%20Implementation/ws/trunk/io-impl/impl/src/main/resources/xsd/cysession.xsd]>
 was changed since the last build.
[INFO] File 
[<http://code.cytoscape.org/jenkins/job/Cytoscape%203%20Implementation/ws/trunk/io-impl/impl/pom.xml]>
 was changed since the last build.
[INFO] Checking up-to-date depends 
[[<http://code.cytoscape.org/jenkins/job/Cytoscape%203%20Implementation/ws/trunk/io-impl/impl/src/main/resources/xsd/cysession.xsd,>
 
<http://code.cytoscape.org/jenkins/job/Cytoscape%203%20Implementation/ws/trunk/io-impl/impl/pom.xml]].>
[INFO] Checking up-to-date produces 
[[<http://code.cytoscape.org/jenkins/job/Cytoscape%203%20Implementation/ws/trunk/io-impl/impl/target/generated-sources/xjc/cysession/org/cytoscape/io/internal/util/session/model/Cytopanel.java,>
 
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<http://code.cytoscape.org/jenkins/job/Cytoscape%203%20Implementation/ws/trunk/io-impl/impl/target/generated-sources/xjc/cysession/org/cytoscape/io/internal/util/session/model/OntologyServer.java,>
 
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<http://code.cytoscape.org/jenkins/job/Cytoscape%203%20Implementation/ws/trunk/io-impl/impl/target/generated-sources/xjc/cysession/org/cytoscape/io/internal/util/session/model/Cysession.java,>
 
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[INFO] Depends timestamp [1,352,941,402,000], produces timestamp 
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[INFO] Skipped XJC execution. Generated sources were up-to-date.
[INFO] [INFO] Started execution.
[INFO] JAXB API is loaded from the [jar:file:/opt/jdk1.6.0_32/jre/lib/rt.jar!].
[INFO] Detected JAXB API version [2.1].
[INFO] 
pluginArtifacts:[org.jvnet.jaxb2.maven2:maven-jaxb2-plugin:maven-plugin:0.8.1:, 
org.jvnet.jaxb2.maven2:maven-jaxb2-plugin-core:jar:0.8.1:compile, 
com.sun.org.apache.xml.internal:resolver:jar:20050927:compile, 
org.sonatype.plexus:plexus-build-api:jar:0.0.7:compile, 
junit:junit:jar:4.8.1:compile, 
org.jfrog.maven.annomojo:maven-plugin-anno:jar:1.3.1:compile, 
org.codehaus.plexus:plexus-utils:jar:1.5.15:compile, 
org.jvnet.jaxb2.maven2:maven-jaxb22-plugin:jar:0.8.1:compile, 
com.sun.xml.bind:jaxb-impl:jar:2.2.5-b10:compile, 
com.sun.xml.bind:jaxb-xjc:jar:2.2.5-b10:compile]
[INFO] specVersion:2.1
[INFO] encoding:UTF-8
[INFO] schemaLanguage:null
[INFO] 
schemaDirectory:<http://code.cytoscape.org/jenkins/job/Cytoscape%203%20Implementation/ws/trunk/io-impl/impl/src/main/resources/xsd>
[INFO] schemaIncludes:[cytables.xsd]
[INFO] schemaExcludes:null
[INFO] schemas:[]
[INFO] 
bindingDirectory:<http://code.cytoscape.org/jenkins/job/Cytoscape%203%20Implementation/ws/trunk/io-impl/impl/src/main/resources/xsd>
[INFO] bindingIncludes:[*.xjb]
[INFO] bindingExcludes:null
[INFO] bindings:[]
[INFO] disableDefaultExcludes:false
[INFO] catalog:null
[INFO] catalogResolver:null
[INFO] generatePackage:org.cytoscape.io.internal.util.cytables.model
[INFO] 
generateDirectory:<http://code.cytoscape.org/jenkins/job/Cytoscape%203%20Implementation/ws/trunk/io-impl/impl/target/generated-sources/xjc/cytables>
[INFO] readOnly:false
[INFO] extension:false
[INFO] strict:true
[INFO] writeCode:true
[INFO] verbose:true
[INFO] debug:false
[INFO] args:[]
[INFO] forceRegenerate:false
[INFO] removeOldOutput:false
[INFO] produces:[**/*.*, **/*.java, **/bgm.ser, **/jaxb.properties]
[INFO] otherDepends:null
[INFO] 
episodeFile:<http://code.cytoscape.org/jenkins/job/Cytoscape%203%20Implementation/ws/trunk/io-impl/impl/target/generated-sources/xjc/cytables/META-INF/sun-jaxb.episode>
[INFO] episode:true
[INFO] 
classpathElements:[<http://code.cytoscape.org/jenkins/job/Cytoscape%203%20Implementation/ws/trunk/io-impl/impl/target/classes]>
[INFO] plugins:null
[INFO] episodes:null
[INFO] useDependenciesAsEpisodes:false
[INFO] xjcPlugins:null
[INFO] episodes:null
[INFO] schemaFiles 
(calculated):[<http://code.cytoscape.org/jenkins/job/Cytoscape%203%20Implementation/ws/trunk/io-impl/impl/src/main/resources/xsd/cytables.xsd]>
[INFO] bindingFiles (calculated):[]
[INFO] xjcPluginArtifacts (resolved):[]
[INFO] xjcPluginFiles (resolved):[]
[INFO] xjcPluginURLs (resolved):[]
[INFO] episodeArtifacts (resolved):[]
[INFO] episodeFiles (resolved):[]
[INFO] optionsConfiguration:OptionsConfiguration [specVersion=2.1
 
generateDirectory=<http://code.cytoscape.org/jenkins/job/Cytoscape%203%20Implementation/ws/trunk/io-impl/impl/target/generated-sources/xjc/cytables>
 generatePackage=org.cytoscape.io.internal.util.cytables.model
 schemaLanguage=null
 
schemas=[<http://code.cytoscape.org/jenkins/job/Cytoscape%203%20Implementation/ws/trunk/io-impl/impl/src/main/resources/xsd/cytables.xsd]>
 bindings=[]
 plugins=[]
 catalogs=[]
 
catalogResolver=org.jvnet.jaxb2.maven2.resolver.tools.MavenCatalogResolver@6a97dd
 readOnly=false
 extension=false
 strict=true
 verbose=true
 debugMode=false
 arguments=[-episode, 
<http://code.cytoscape.org/jenkins/job/Cytoscape%203%20Implementation/ws/trunk/io-impl/impl/target/generated-sources/xjc/cytables/META-INF/sun-jaxb.episode]]>
Using java.util.ServiceLoader
[INFO] File 
[<http://code.cytoscape.org/jenkins/job/Cytoscape%203%20Implementation/ws/trunk/io-impl/impl/src/main/resources/xsd/cytables.xsd]>
 was changed since the last build.
[INFO] File 
[<http://code.cytoscape.org/jenkins/job/Cytoscape%203%20Implementation/ws/trunk/io-impl/impl/pom.xml]>
 was changed since the last build.
[INFO] Checking up-to-date depends 
[[<http://code.cytoscape.org/jenkins/job/Cytoscape%203%20Implementation/ws/trunk/io-impl/impl/src/main/resources/xsd/cytables.xsd,>
 
<http://code.cytoscape.org/jenkins/job/Cytoscape%203%20Implementation/ws/trunk/io-impl/impl/pom.xml]].>
[INFO] Checking up-to-date produces 
[[<http://code.cytoscape.org/jenkins/job/Cytoscape%203%20Implementation/ws/trunk/io-impl/impl/target/generated-sources/xjc/cytables/org/cytoscape/io/internal/util/cytables/model/VirtualColumn.java,>
 
<http://code.cytoscape.org/jenkins/job/Cytoscape%203%20Implementation/ws/trunk/io-impl/impl/target/generated-sources/xjc/cytables/org/cytoscape/io/internal/util/cytables/model/VirtualColumns.java,>
 
<http://code.cytoscape.org/jenkins/job/Cytoscape%203%20Implementation/ws/trunk/io-impl/impl/target/generated-sources/xjc/cytables/org/cytoscape/io/internal/util/cytables/model/CyTables.java,>
 
<http://code.cytoscape.org/jenkins/job/Cytoscape%203%20Implementation/ws/trunk/io-impl/impl/target/generated-sources/xjc/cytables/org/cytoscape/io/internal/util/cytables/model/ObjectFactory.java,>
 
<http://code.cytoscape.org/jenkins/job/Cytoscape%203%20Implementation/ws/trunk/io-impl/impl/target/generated-sources/xjc/cytables/META-INF/sun-jaxb.episode]].>
[INFO] Depends timestamp [1,352,941,402,000], produces timestamp 
[1,352,941,432,000].
[INFO] Skipped XJC execution. Generated sources were up-to-date.

[INFO] --- maven-jaxb2-plugin:0.8.1:generate (cytables) @ io-impl ---
[debug] execute contextualize
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] 
[INFO] --- maven-resources-plugin:2.5:resources (default-resources) @ io-impl 
---
[INFO] Copying 6 resources
[INFO] Copying 1 resource
[INFO] Copying 1 resource
[INFO] Copying 1 resource
[INFO] 
[INFO] --- maven-compiler-plugin:2.3.2:compile (default-compile) @ io-impl ---
[INFO] Compiling 211 source files to 
<http://code.cytoscape.org/jenkins/job/Cytoscape%203%20Implementation/ws/trunk/io-impl/impl/target/classes>
[INFO] -------------------------------------------------------------
[ERROR] COMPILATION ERROR : 
[INFO] -------------------------------------------------------------
[ERROR] 
<http://code.cytoscape.org/jenkins/job/Cytoscape%203%20Implementation/ws/trunk/io-impl/impl/src/main/java/org/cytoscape/io/internal/write/xgmml/GenericXGMMLWriter.java>:[709,-1]
 cannot access org.cytoscape.view.presentation.property.values.NodeShape
bad class file: 
org/cytoscape/view/presentation/property/values/NodeShape.class(org/cytoscape/view/presentation/property/values:NodeShape.class)
unable to access file: corrupted zip file
[INFO] 1 error
[INFO] -------------------------------------------------------------
[INFO] ------------------------------------------------------------------------
[INFO] Reactor Summary:
[INFO] 
[INFO] Cytoscape Implementation Parent Project POM ....... SUCCESS [1:10.372s]
[INFO] Cytoscape BioPAX Impl (biopax-impl) ............... SUCCESS [13.019s]
[INFO] Cytoscape Command Executor Impl (command-executor-impl)  SUCCESS [6.396s]
[INFO] Cytoscape Equations Impl (equations-impl) ......... SUCCESS [10.319s]
[INFO] Cytoscape Model Impl Parent (model-impl-parent) ... SUCCESS [42.994s]
[INFO] Cytoscape Model Impl (model-impl) ................. SUCCESS [12.445s]
[INFO] Cytoscape View Model Impl Parent (viewmodel-impl-parent)  SUCCESS 
[30.461s]
[INFO] Cytoscape View Model Impl (viewmodel-impl) ........ SUCCESS [6.910s]
[INFO] Cytoscape Ding Impl Parent (ding-impl) ............ SUCCESS [41.227s]
[INFO] Cytoscape Ding View/Presentation Impl (ding-presentation-impl)  SUCCESS 
[1:26.915s]
[INFO] org.cytoscape.work-impl ........................... SUCCESS [4.798s]
[INFO] Cytoscape Core Task Impl (core-task-impl) ......... SUCCESS [10.803s]
[INFO] Cytoscape CPath2 Impl (cpath2-impl) ............... SUCCESS [9.171s]
[INFO] Cytoscape Groups Impl (group-impl) ................ SUCCESS [7.730s]
[INFO] Cytoscape IO Impl Parent (io-impl-parent) ......... SUCCESS [50.215s]
[INFO] Cytoscape IO Impl (io-impl) ....................... FAILURE [6.739s]
[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 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 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 Parent (session-impl-parent)  SKIPPED
[INFO] Cytoscape Session Impl (session-impl) ............. SKIPPED
[INFO] Cytoscape Datasource Impl (datasource-impl) ....... SKIPPED
[INFO] org.cytoscape.work-headless-impl .................. SKIPPED
[INFO] Cytoscape VizMap Impl Parent (vizmap-impl-parent) . SKIPPED
[INFO] Cytoscape VizMap Impl (vizmap-impl) ............... SKIPPED
[INFO] Cytoscape Application Impl (application-impl) ..... SKIPPED
[INFO] Cytoscape VizMap GUI Impl (vizmap-gui-impl) ....... SKIPPED
[INFO] Cytoscape Work Swing Impl Parent (work-swing-impl-parent)  SKIPPED
[INFO] Cytoscape Work Swing Impl (work-swing-impl) ....... SKIPPED
[INFO] Cytoscape Session Impl Integration Test (session-impl-integration-test)  
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 Biomart Webservice Impl (webservice-biomart-client-impl)  
SKIPPED
[INFO] Cytoscape Webservice Impl (webservice-impl) ....... SKIPPED
[INFO] Cytoscape NCBI Webservice Impl (webservice-ncbi-client-impl)  SKIPPED
[INFO] Cytoscape PSIQUIC Web Service Impl (webservice-psicquic-client-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 Headless Application Impl (headless-application-impl)  SKIPPED
[INFO] Cytoscape Headless Command Line Parser Impl 
(headless-cmdline-parser-impl)  SKIPPED
[INFO] ------------------------------------------------------------------------
[INFO] BUILD FAILURE
[INFO] ------------------------------------------------------------------------
[INFO] Total time: 7:45.710s
[INFO] Finished at: Wed Nov 14 20:11:28 GMT-05:00 2012
[INFO] Final Memory: 95M/311M
[INFO] ------------------------------------------------------------------------
mavenExecutionResult exceptions not empty
message : Failed to execute goal 
org.apache.maven.plugins:maven-compiler-plugin:2.3.2:compile (default-compile) 
on project io-impl: Compilation failure
<http://code.cytoscape.org/jenkins/job/Cytoscape%203%20Implementation/ws/trunk/io-impl/impl/src/main/java/org/cytoscape/io/internal/write/xgmml/GenericXGMMLWriter.java>:[709,-1]
 cannot access org.cytoscape.view.presentation.property.values.NodeShape
bad class file: 
org/cytoscape/view/presentation/property/values/NodeShape.class(org/cytoscape/view/presentation/property/values:NodeShape.class)
unable to access file: corrupted zip file

cause : Compilation failure
<http://code.cytoscape.org/jenkins/job/Cytoscape%203%20Implementation/ws/trunk/io-impl/impl/src/main/java/org/cytoscape/io/internal/write/xgmml/GenericXGMMLWriter.java>:[709,-1]
 cannot access org.cytoscape.view.presentation.property.values.NodeShape
bad class file: 
org/cytoscape/view/presentation/property/values/NodeShape.class(org/cytoscape/view/presentation/property/values:NodeShape.class)
unable to access file: corrupted zip file

Stack trace : 
org.apache.maven.lifecycle.LifecycleExecutionException: Failed to execute goal 
org.apache.maven.plugins:maven-compiler-plugin:2.3.2:compile (default-compile) 
on project io-impl: Compilation failure
<http://code.cytoscape.org/jenkins/job/Cytoscape%203%20Implementation/ws/trunk/io-impl/impl/src/main/java/org/cytoscape/io/internal/write/xgmml/GenericXGMMLWriter.java>:[709,-1]
 cannot access org.cytoscape.view.presentation.property.values.NodeShape
bad class file: 
org/cytoscape/view/presentation/property/values/NodeShape.class(org/cytoscape/view/presentation/property/values:NodeShape.class)
unable to access file: corrupted zip file

        at 
org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:213)
        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.jvnet.hudson.maven3.launcher.Maven3Launcher.main(Maven3Launcher.java:79)
        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.launchStandard(Launcher.java:329)
        at 
org.codehaus.plexus.classworlds.launcher.Launcher.launch(Launcher.java:239)
        at org.jvnet.hudson.maven3.agent.Maven3Main.launch(Maven3Main.java:158)
        at hudson.maven.Maven3Builder.call(Maven3Builder.java:112)
        at hudson.maven.Maven3Builder.call(Maven3Builder.java:70)
        at hudson.remoting.UserRequest.perform(UserRequest.java:118)
        at hudson.remoting.UserRequest.perform(UserRequest.java:48)
        at hudson.remoting.Request$2.run(Request.java:287)
        at 
java.util.concurrent.Executors$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:662)
Caused by: org.apache.maven.plugin.CompilationFailureException: Compilation 
failure
<http://code.cytoscape.org/jenkins/job/Cytoscape%203%20Implementation/ws/trunk/io-impl/impl/src/main/java/org/cytoscape/io/internal/write/xgmml/GenericXGMMLWriter.java>:[709,-1]
 cannot access org.cytoscape.view.presentation.property.values.NodeShape
bad class file: 
org/cytoscape/view/presentation/property/values/NodeShape.class(org/cytoscape/view/presentation/property/values:NodeShape.class)
unable to access file: corrupted zip file

        at 
org.apache.maven.plugin.AbstractCompilerMojo.execute(AbstractCompilerMojo.java:656)
        at org.apache.maven.plugin.CompilerMojo.execute(CompilerMojo.java:128)
        at 
org.apache.maven.plugin.DefaultBuildPluginManager.executeMojo(DefaultBuildPluginManager.java:101)
        at 
org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:209)
        ... 27 more
Sending e-mails to: [email protected]
channel stopped
Skipping sonar analysis due to bad build status FAILURE

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