See <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Model%20impl/1192/changes>
Changes: [kono] "Node," "Edge," and "Network" static Strings are removed. To specify one of these types in your code, you need to use Class<?> of the data type (for example, CyNode.class). VizMapGui is currently turned off until this refactoring is finished. ------------------------------------------ Started by an SCM change Checking out http://chianti.ucsd.edu/svn/core3/model-impl/trunk A osgi.bnd A src A src/test A src/test/java A src/test/java/org A src/test/java/org/cytoscape A src/test/java/org/cytoscape/model A src/test/java/org/cytoscape/model/IdentifiableTest.java A src/test/java/org/cytoscape/model/CyEdgeTest.java A src/test/java/org/cytoscape/model/CyNodeTest.java A src/test/java/org/cytoscape/model/CyTableTest.java A src/test/java/org/cytoscape/model/subnetwork A src/test/java/org/cytoscape/model/subnetwork/CyRootNetworkCyNetworkTest.java A src/test/java/org/cytoscape/model/subnetwork/CySubNetworkTest.java A src/test/java/org/cytoscape/model/subnetwork/CySubNetworkCyNetworkTest.java A src/test/java/org/cytoscape/model/subnetwork/CyRootNetworkTest.java A src/test/java/org/cytoscape/model/CyNetworkTest.java A src/test/java/org/cytoscape/model/GraphObjectTest.java A src/test/java/org/cytoscape/model/TestCyNetworkFactory.java A src/test/java/org/cytoscape/model/CyTableManagerTest.java A src/integration A src/integration/java A src/integration/java/integration A src/integration/java/integration/ITSpringIntegration.java A src/integration/resources A src/integration/resources/log4j.properties A src/main A src/main/java A src/main/java/org A src/main/java/org/cytoscape A src/main/java/org/cytoscape/model A src/main/java/org/cytoscape/model/internal A src/main/java/org/cytoscape/model/internal/CyNetworkFactoryImpl.java A src/main/java/org/cytoscape/model/internal/ArrayGraph.java A src/main/java/org/cytoscape/model/internal/CyTableManagerImpl.java A src/main/java/org/cytoscape/model/internal/CyEdgeImpl.java A src/main/java/org/cytoscape/model/internal/CyNetworkManagerImpl.java A src/main/java/org/cytoscape/model/internal/CyNodeImpl.java A src/main/java/org/cytoscape/model/internal/CyRootNetworkFactoryImpl.java A src/main/java/org/cytoscape/model/internal/CyTableImpl.java A src/main/java/org/cytoscape/model/internal/EdgePointer.java A src/main/java/org/cytoscape/model/internal/NodePointer.java A src/main/java/org/cytoscape/model/internal/CyTableEntryImpl.java A src/main/java/org/cytoscape/model/internal/ArraySubGraph.java A src/main/java/org/cytoscape/model/internal/CyTableFactoryImpl.java A src/main/javadoc A src/main/javadoc/org A src/main/javadoc/org/cytoscape A src/main/javadoc/org/cytoscape/model A src/main/javadoc/org/cytoscape/model/subnetwork A src/main/javadoc/org/cytoscape/model/subnetwork/package.html A src/main/javadoc/org/cytoscape/model/events A src/main/javadoc/org/cytoscape/model/events/package.html A src/main/javadoc/org/cytoscape/model/package.html A src/main/resources A src/main/resources/META-INF A src/main/resources/META-INF/spring A src/main/resources/META-INF/spring/bundle-context-osgi.xml A src/main/resources/META-INF/spring/bundle-context.xml A src/main/resources/readme.txt A pom.xml U . At revision 22828 WARNING: clock of the subversion server appears to be out of sync. This can result in inconsistent check out behavior. No emails were triggered. Parsing POMs [trunk] $ java -cp /R1/resources/webapps/cytoscape_build_sys/hudson_home/plugins/maven-plugin/WEB-INF/lib/maven-agent-1.369.jar:/R1/tools/maven/apache-maven-2.1.0/boot/classworlds-1.1.jar hudson.maven.agent.Main /R1/tools/maven/apache-maven-2.1.0 /R1/resources/webservers/tomcat_2/webapps/hudson/WEB-INF/lib/remoting-1.369.jar /R1/resources/webapps/cytoscape_build_sys/hudson_home/plugins/maven-plugin/WEB-INF/lib/maven-interceptor-1.369.jar 54210 /R1/resources/webapps/cytoscape_build_sys/hudson_home/plugins/maven-plugin/WEB-INF/lib/maven2.1-interceptor-1.2.jar <===[HUDSON REMOTING CAPACITY]===> channel started Executing Maven: -B -f <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Model%20impl/ws/trunk/pom.xml> deploy [INFO] Scanning for projects... WAGON_VERSION: 1.0-beta-2 [INFO] ------------------------------------------------------------------------ [INFO] Building org.cytoscape.model-impl [INFO] task-segment: [deploy] [INFO] ------------------------------------------------------------------------ [INFO] [resources:resources] [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 3 resources [INFO] Copying 1 resource [INFO] snapshot org.cytoscape:event-api:3.0.0-alpha2-SNAPSHOT: checking for updates from cytoscape_snapshots [WARNING] repository metadata for: 'snapshot org.cytoscape:event-api:3.0.0-alpha2-SNAPSHOT' could not be retrieved from repository: cytoscape_snapshots due to an error: GET request of: org/cytoscape/event-api/3.0.0-alpha2-SNAPSHOT/maven-metadata.xml from cytoscape_snapshots failed [INFO] Repository 'cytoscape_snapshots' will be blacklisted [INFO] snapshot org.cytoscape:event-impl:3.0.0-alpha2-SNAPSHOT: checking for updates from cytoscape_biopax_snapshot [INFO] snapshot org.cytoscape:event-impl:3.0.0-alpha2-SNAPSHOT: checking for updates from spring-osgi-snapshots [INFO] snapshot org.springframework.osgi:log4j.osgi:1.2.15-SNAPSHOT: checking for updates from cytoscape_biopax_snapshot [INFO] snapshot org.springframework.osgi:log4j.osgi:1.2.15-SNAPSHOT: checking for updates from spring-osgi-snapshots [WARNING] repository metadata for: 'snapshot org.springframework.osgi:log4j.osgi:1.2.15-SNAPSHOT' could not be retrieved from repository: spring-osgi-snapshots due to an error: GET request of: org/springframework/osgi/log4j.osgi/1.2.15-SNAPSHOT/maven-metadata.xml from spring-osgi-snapshots failed [INFO] Repository 'spring-osgi-snapshots' will be blacklisted Downloading: http://cytoscape.wodaklab.org/nexus/content/repositories/biopax-snapshot//org/springframework/osgi/log4j.osgi/1.2.15-SNAPSHOT/log4j.osgi-1.2.15-SNAPSHOT.pom [INFO] Unable to find resource 'org.springframework.osgi:log4j.osgi:pom:1.2.15-SNAPSHOT' in repository cytoscape_biopax_snapshot (http://cytoscape.wodaklab.org/nexus/content/repositories/biopax-snapshot/) [INFO] snapshot org.springframework.osgi:osgi-repo:1.0-SNAPSHOT: checking for updates from cytoscape_biopax_snapshot Downloading: http://cytoscape.wodaklab.org/nexus/content/repositories/biopax-snapshot//org/springframework/osgi/osgi-repo/1.0-SNAPSHOT/osgi-repo-1.0-SNAPSHOT.pom [INFO] Unable to find resource 'org.springframework.osgi:osgi-repo:pom:1.0-SNAPSHOT' in repository cytoscape_biopax_snapshot (http://cytoscape.wodaklab.org/nexus/content/repositories/biopax-snapshot/) [INFO] [pax:compile] [INFO] Compiling 13 source files to <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Model%20impl/ws/trunk/target/classes> [INFO] [recovering meta-data] [HUDSON] Archiving <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Model%20impl/ws/trunk/pom.xml> to /R1/resources/webapps/cytoscape_build_sys/hudson_home/jobs/Cy3 Model impl/modules/org.cytoscape$model-impl/builds/2010-11-12_17-09-24/archive/org.cytoscape/model-impl/3.0.0-alpha2-SNAPSHOT/pom.xml [INFO] ------------------------------------------------------------------------ [ERROR] BUILD FAILURE [INFO] ------------------------------------------------------------------------ [INFO] Compilation failure <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Model%20impl/ws/trunk/src/main/java/org/cytoscape/model/internal/CyTableManagerImpl.java>:[55,7] org.cytoscape.model.internal.CyTableManagerImpl is not abstract and does not override abstract method getTableMap(java.lang.String,org.cytoscape.model.CyNetwork) in org.cytoscape.model.CyTableManager [INFO] ------------------------------------------------------------------------ [INFO] For more information, run Maven with the -e switch [INFO] ------------------------------------------------------------------------ [INFO] Total time: 15 seconds [INFO] Finished at: Fri Nov 12 17:09:42 EST 2010 [INFO] Final Memory: 50M/494M [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.model-impl [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 Downloading: http://localhost:8021/sonar/deploy/maven/org/codehaus/sonar/runtime/sonar-core-maven-plugin/20101112010106/sonar-core-maven-plugin-20101112010106.pom 1863/511b [WARNING] Unable to get resource 'org.codehaus.sonar.runtime:sonar-core-maven-plugin:pom:20101112010106' from repository sonar (http://localhost:8021/sonar/deploy/maven): GET request of: org/codehaus/sonar/runtime/sonar-core-maven-plugin/20101112010106/sonar-core-maven-plugin-20101112010106.pom from sonar failed Downloading: http://download.java.net/maven/2/org/codehaus/sonar/runtime/sonar-core-maven-plugin/20101112010106/sonar-core-maven-plugin-20101112010106.pom [INFO] Unable to find resource 'org.codehaus.sonar.runtime:sonar-core-maven-plugin:pom:20101112010106' in repository maven2-repository.dev.java.net (http://download.java.net/maven/2) Downloading: http://download.java.net/maven/1/org.codehaus.sonar.runtime/poms/sonar-core-maven-plugin-20101112010106.pom [INFO] Unable to find resource 'org.codehaus.sonar.runtime:sonar-core-maven-plugin:pom:20101112010106' in repository maven-repository.dev.java.net (http://download.java.net/maven/1) Downloading: http://cytoscape.wodaklab.org/nexus/content/groups/public/org/codehaus/sonar/runtime/sonar-core-maven-plugin/20101112010106/sonar-core-maven-plugin-20101112010106.pom [INFO] Unable to find resource 'org.codehaus.sonar.runtime:sonar-core-maven-plugin:pom:20101112010106' in repository central (http://repo1.maven.org/maven2) Downloading: http://localhost:8021/sonar/deploy/maven/org/codehaus/sonar/runtime/sonar-core-maven-plugin/20101112010106/sonar-core-maven-plugin-20101112010106.pom 3726/511b [WARNING] Unable to get resource 'org.codehaus.sonar.runtime:sonar-core-maven-plugin:pom:20101112010106' from repository sonar (http://localhost:8021/sonar/deploy/maven): GET request of: org/codehaus/sonar/runtime/sonar-core-maven-plugin/20101112010106/sonar-core-maven-plugin-20101112010106.pom from sonar failed Downloading: http://cytoscape.wodaklab.org/nexus/content/repositories/releases//org/codehaus/sonar/runtime/sonar-core-maven-plugin/20101112010106/sonar-core-maven-plugin-20101112010106.pom [INFO] Unable to find resource 'org.codehaus.sonar.runtime:sonar-core-maven-plugin:pom:20101112010106' in repository cytoscape_releases (http://cytoscape.wodaklab.org/nexus/content/repositories/releases/) Downloading: http://cytoscape.wodaklab.org/nexus/content/repositories/thirdparty//org/codehaus/sonar/runtime/sonar-core-maven-plugin/20101112010106/sonar-core-maven-plugin-20101112010106.pom [INFO] Unable to find resource 'org.codehaus.sonar.runtime:sonar-core-maven-plugin:pom:20101112010106' in repository cytoscape_thirdparty (http://cytoscape.wodaklab.org/nexus/content/repositories/thirdparty/) Downloading: http://cytoscape.wodaklab.org/nexus/content/repositories/biopax-release//org/codehaus/sonar/runtime/sonar-core-maven-plugin/20101112010106/sonar-core-maven-plugin-20101112010106.pom [INFO] Unable to find resource 'org.codehaus.sonar.runtime:sonar-core-maven-plugin:pom:20101112010106' in repository cytoscape_biopax_release (http://cytoscape.wodaklab.org/nexus/content/repositories/biopax-release/) Downloading: http://cytoscape.wodaklab.org/nexus/content/repositories/ops4j-release//org/codehaus/sonar/runtime/sonar-core-maven-plugin/20101112010106/sonar-core-maven-plugin-20101112010106.pom [INFO] Unable to find resource 'org.codehaus.sonar.runtime:sonar-core-maven-plugin:pom:20101112010106' in repository ops4j-release (http://cytoscape.wodaklab.org/nexus/content/repositories/ops4j-release/) Downloading: http://cytoscape.wodaklab.org/nexus/content/repositories/l2fprod-release//org/codehaus/sonar/runtime/sonar-core-maven-plugin/20101112010106/sonar-core-maven-plugin-20101112010106.pom [INFO] Unable to find resource 'org.codehaus.sonar.runtime:sonar-core-maven-plugin:pom:20101112010106' in repository l2fprod-release (http://cytoscape.wodaklab.org/nexus/content/repositories/l2fprod-release/) Downloading: http://cytoscape.wodaklab.org/nexus/content/repositories/spring-osgi//org/codehaus/sonar/runtime/sonar-core-maven-plugin/20101112010106/sonar-core-maven-plugin-20101112010106.pom [INFO] Unable to find resource 'org.codehaus.sonar.runtime:sonar-core-maven-plugin:pom:20101112010106' in repository spring-osgi (http://cytoscape.wodaklab.org/nexus/content/repositories/spring-osgi/) Downloading: http://cytoscape.wodaklab.org/nexus/content/groups/public/org/codehaus/sonar/runtime/sonar-core-maven-plugin/20101112010106/sonar-core-maven-plugin-20101112010106.pom [INFO] Unable to find resource 'org.codehaus.sonar.runtime:sonar-core-maven-plugin:pom:20101112010106' in repository central (http://repo1.maven.org/maven2) [INFO] ------------------------------------------------------------------------ [ERROR] BUILD ERROR [INFO] ------------------------------------------------------------------------ [INFO] Can not execute Sonar Embedded error: Unable to build project for plugin 'org.codehaus.sonar.runtime:sonar-core-maven-plugin': POM 'org.codehaus.sonar.runtime:sonar-core-maven-plugin' not found in repository: Unable to download the artifact from any repository org.codehaus.sonar.runtime:sonar-core-maven-plugin:pom:20101112010106 from the specified remote repositories: cytoscape_releases (http://cytoscape.wodaklab.org/nexus/content/repositories/releases/), cytoscape_biopax_snapshot (http://cytoscape.wodaklab.org/nexus/content/repositories/biopax-snapshot/), cytoscape_thirdparty (http://cytoscape.wodaklab.org/nexus/content/repositories/thirdparty/), cytoscape_snapshots (http://cytoscape.wodaklab.org/nexus/content/repositories/snapshots/), maven2-repository.dev.java.net (http://download.java.net/maven/2), l2fprod-release (http://cytoscape.wodaklab.org/nexus/content/repositories/l2fprod-release/), sonar (http://localhost:8021/sonar/deploy/maven), cytoscape_biopax_release (http://cytoscape.wodaklab.org/nexus/content/repositories/biopax-release/), ops4j-release (http://cytoscape.wodaklab.org/nexus/content/repositories/ops4j-release/), spring-osgi-snapshots (http://cytoscape.wodaklab.org/nexus/content/repositories/spring-osgi-snapshots/), Nexus (http://cytoscape.wodaklab.org/nexus/content/groups/public), maven-repository.dev.java.net (http://download.java.net/maven/1), spring-osgi (http://cytoscape.wodaklab.org/nexus/content/repositories/spring-osgi/) for project org.codehaus.sonar.runtime:sonar-core-maven-plugin [INFO] ------------------------------------------------------------------------ [INFO] For more information, run Maven with the -e switch [INFO] ------------------------------------------------------------------------ [INFO] Total time: 8 seconds [INFO] Finished at: Fri Nov 12 17:09:57 EST 2010 [INFO] Final Memory: 11M/213M [INFO] ------------------------------------------------------------------------ -- You received this message because you are subscribed to the Google Groups "cytoscape-cvs" group. 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