See <http://cytoscape.wodaklab.org/hudson/job/Cy3%20PSI-MI%20impl/100/changes>
Changes: [mes] fixed dependencies ------------------------------------------ Started by an SCM change Checking out http://chianti.ucsd.edu/svn/core3/psi-mi-impl/trunk A .classpath A osgi.bnd A .project 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/psi_mi A src/test/java/org/cytoscape/psi_mi/internal A src/test/java/org/cytoscape/psi_mi/internal/model A src/test/java/org/cytoscape/psi_mi/internal/model/InteractorTest.java A src/test/java/org/cytoscape/psi_mi/internal/cyto_mapper AU src/test/java/org/cytoscape/psi_mi/internal/cyto_mapper/MapToCytoscapeTest.java AU src/test/java/org/cytoscape/psi_mi/internal/cyto_mapper/MapFromCytoscapeTest.java A src/test/java/org/cytoscape/psi_mi/internal/cyto_mapper/package.html A src/test/java/org/cytoscape/psi_mi/internal/data_mapper AU src/test/java/org/cytoscape/psi_mi/internal/data_mapper/MapInteractionsToPsiOneTest.java A src/test/java/org/cytoscape/psi_mi/internal/data_mapper/MapPsiOneToInteractionsTest.java A src/test/java/org/cytoscape/psi_mi/internal/data_mapper/MapInteractionsToPsiTwoFiveTest.java A src/test/java/org/cytoscape/psi_mi/internal/data_mapper/MapPsiTwoFiveToInteractionsTest.java AU src/test/java/org/cytoscape/psi_mi/internal/data_mapper/package.html A src/test/java/org/cytoscape/psi_mi/internal/plugin AU src/test/java/org/cytoscape/psi_mi/internal/plugin/PsiMiCyFileFilterTest.java AU src/test/java/org/cytoscape/psi_mi/internal/plugin/PsiMiNetworkViewReaderTest.java A src/test/resources A src/test/resources/testData AU src/test/resources/testData/psi_malformed.xml AU src/test/resources/testData/psi_sample_2_5_1.xml AU src/test/resources/testData/psi_sample_2_5_2.xml AU src/test/resources/testData/yeast_normalised.xml A src/test/resources/testData/cpath_p53.xml AU src/test/resources/testData/galFiltered.xgmml AU src/test/resources/testData/yeast_denormalised.xml AU src/test/resources/testData/dip_sample.xml AU src/test/resources/testData/hprd.xml AU src/test/resources/testData/psi_sample1.xml A src/test/resources/testData/bio_grid.xml AU src/test/resources/testData/psi_sample2.xml A src/main A src/main/java A src/main/java/org A src/main/java/org/cytoscape A src/main/java/org/cytoscape/psi_mi A src/main/java/org/cytoscape/psi_mi/internal A src/main/java/org/cytoscape/psi_mi/internal/model A src/main/java/org/cytoscape/psi_mi/internal/model/Interaction.java A src/main/java/org/cytoscape/psi_mi/internal/model/ExternalReference.java A src/main/java/org/cytoscape/psi_mi/internal/model/Interactor.java A src/main/java/org/cytoscape/psi_mi/internal/model/vocab A src/main/java/org/cytoscape/psi_mi/internal/model/vocab/GoVocab.java A src/main/java/org/cytoscape/psi_mi/internal/model/vocab/CommonVocab.java A src/main/java/org/cytoscape/psi_mi/internal/model/vocab/InteractorVocab.java A src/main/java/org/cytoscape/psi_mi/internal/model/vocab/InteractionVocab.java AU src/main/java/org/cytoscape/psi_mi/internal/model/vocab/package.html A src/main/java/org/cytoscape/psi_mi/internal/model/AttributeBag.java AU src/main/java/org/cytoscape/psi_mi/internal/model/package.html A src/main/java/org/cytoscape/psi_mi/internal/cyto_mapper AU src/main/java/org/cytoscape/psi_mi/internal/cyto_mapper/MapToCytoscape.java AU src/main/java/org/cytoscape/psi_mi/internal/cyto_mapper/MapFromCytoscape.java A src/main/java/org/cytoscape/psi_mi/internal/cyto_mapper/package.html A src/main/java/org/cytoscape/psi_mi/internal/data_mapper A src/main/java/org/cytoscape/psi_mi/internal/data_mapper/MapInteractionsToPsiOne.java A src/main/java/org/cytoscape/psi_mi/internal/data_mapper/MapPsiOneToInteractions.java A src/main/java/org/cytoscape/psi_mi/internal/data_mapper/MapperUtil.java A src/main/java/org/cytoscape/psi_mi/internal/data_mapper/MapInteractionsToPsiTwoFive.java A src/main/java/org/cytoscape/psi_mi/internal/data_mapper/MapPsiTwoFiveToInteractions.java A src/main/java/org/cytoscape/psi_mi/internal/data_mapper/MapperException.java A src/main/java/org/cytoscape/psi_mi/internal/data_mapper/Mapper.java AU src/main/java/org/cytoscape/psi_mi/internal/data_mapper/SchemaMapper.java AU src/main/java/org/cytoscape/psi_mi/internal/data_mapper/package.html A src/main/java/org/cytoscape/psi_mi/internal/util A src/main/java/org/cytoscape/psi_mi/internal/util/AttributeUtil.java A src/main/java/org/cytoscape/psi_mi/internal/util/DataServiceException.java A src/main/java/org/cytoscape/psi_mi/internal/util/ContentReader.java AU src/main/java/org/cytoscape/psi_mi/internal/util/package.html A src/main/java/org/cytoscape/psi_mi/internal/plugin AU src/main/java/org/cytoscape/psi_mi/internal/plugin/PsiMiNetworkWriterFactory.java A src/main/java/org/cytoscape/psi_mi/internal/plugin/PsiMiNetworkViewTaskFactory.java A src/main/java/org/cytoscape/psi_mi/internal/plugin/PsiMiCyFileFilter.java AU src/main/java/org/cytoscape/psi_mi/internal/plugin/SchemaVersion.java A src/main/java/org/cytoscape/psi_mi/internal/plugin/PsiMiNetworkViewReader.java AU src/main/java/org/cytoscape/psi_mi/internal/plugin/PsiMiWriter.java A src/main/java/org/cytoscape/psi_mi/internal/plugin/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/org A src/main/resources/org/cytoscape A src/main/resources/org/cytoscape/internal A src/main/resources/org/cytoscape/internal/psi_mi A src/main/resources/org/cytoscape/internal/psi_mi/plugin A src/main/resources/org/cytoscape/internal/psi_mi/plugin/plugin.props A src/main/xsd AU src/main/xsd/MIF25.xsd AU src/main/xsd/MIF1.xsd A pom.xml A .settings A .settings/org.eclipse.jdt.core.prefs A .settings/org.maven.ide.eclipse.prefs 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 47830 /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%20PSI-MI%20impl/ws/trunk/pom.xml> deploy [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: [deploy] [INFO] ------------------------------------------------------------------------ [INFO] artifact org.codehaus.mojo:jaxb2-maven-plugin: checking for updates from maven2-repository.dev.java.net [INFO] artifact org.codehaus.mojo:jaxb2-maven-plugin: checking for updates from maven-repository.dev.java.net [INFO] snapshot org.cytoscape:layout-api:1.0-SNAPSHOT: checking for updates from cytoscape_snapshots [INFO] snapshot org.cytoscape:layout-api:1.0-SNAPSHOT: checking for updates from cytoscape_biopax_snapshot [INFO] snapshot org.cytoscape:presentation-api:3.0.0-alpha2-SNAPSHOT: checking for updates from cytoscape_snapshots [WARNING] repository metadata for: 'snapshot org.cytoscape:presentation-api:3.0.0-alpha2-SNAPSHOT' could not be retrieved from repository: cytoscape_snapshots due to an error: GET request of: org/cytoscape/presentation-api/3.0.0-alpha2-SNAPSHOT/maven-metadata.xml.sha1 from cytoscape_snapshots failed [INFO] Repository 'cytoscape_snapshots' will be blacklisted [INFO] snapshot org.cytoscape:core-task-api:1.0-SNAPSHOT: checking for updates from cytoscape_biopax_snapshot [INFO] snapshot org.cytoscape:viewmodel-api:1.0-SNAPSHOT: checking for updates from cytoscape_biopax_snapshot [INFO] snapshot org.cytoscape:work-api:1.0-SNAPSHOT: checking for updates from cytoscape_biopax_snapshot [INFO] ------------------------------------------------------------------------ [ERROR] BUILD ERROR [INFO] ------------------------------------------------------------------------ [INFO] Error building POM (may not be this project's POM). Project ID: org.cytoscape:work-api Reason: Error getting POM for 'org.cytoscape:work-api' from the repository: Unable to read local copy of metadata: Cannot read metadata from '/home/bturner/.m2/repository/org/cytoscape/work-api/1.0-SNAPSHOT/maven-metadata-cytoscape_snapshots.xml': input contained no data org.cytoscape:work-api:pom:1.0-SNAPSHOT for project org.cytoscape:work-api [INFO] ------------------------------------------------------------------------ [INFO] For more information, run Maven with the -e switch [INFO] ------------------------------------------------------------------------ [INFO] Total time: 19 seconds [INFO] Finished at: Fri Nov 12 17:06:25 EST 2010 [INFO] Final Memory: 26M/220M [INFO] ------------------------------------------------------------------------ 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 Downloading: http://localhost:8021/sonar/deploy/maven/org/codehaus/sonar/runtime/sonar-core-maven-plugin/20101112010106/sonar-core-maven-plugin-20101112010106.pom 1863/511b 511b downloaded (sonar-core-maven-plugin-20101112010106.pom) [WARNING] *** CHECKSUM FAILED - Invalid checksum file - RETRYING Downloading: http://localhost:8021/sonar/deploy/maven/org/codehaus/sonar/runtime/sonar-core-maven-plugin/20101112010106/sonar-core-maven-plugin-20101112010106.pom 1863/511b 511b downloaded (sonar-core-maven-plugin-20101112010106.pom) [WARNING] Unable to get resource 'org.codehaus.sonar.runtime:sonar-core-maven-plugin:pom:20101112010106' from repository sonar (http://localhost:8021/sonar/deploy/maven): Error copying temporary file to the final destination: /home/bturner/.m2/repository/org/codehaus/sonar/runtime/sonar-core-maven-plugin/20101112010106/sonar-core-maven-plugin-20101112010106.pom (No space left on device) 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 1863/511b 511b downloaded (sonar-core-maven-plugin-20101112010106.pom) [WARNING] *** CHECKSUM FAILED - Invalid checksum file - RETRYING Downloading: http://localhost:8021/sonar/deploy/maven/org/codehaus/sonar/runtime/sonar-core-maven-plugin/20101112010106/sonar-core-maven-plugin-20101112010106.pom 1863/511b 511b downloaded (sonar-core-maven-plugin-20101112010106.pom) [WARNING] Unable to get resource 'org.codehaus.sonar.runtime:sonar-core-maven-plugin:pom:20101112010106' from repository sonar (http://localhost:8021/sonar/deploy/maven): Error copying temporary file to the final destination: /home/bturner/.m2/repository/org/codehaus/sonar/runtime/sonar-core-maven-plugin/20101112010106/sonar-core-maven-plugin-20101112010106.pom (No space left on device) 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/), cytoscape_biopax_release (http://cytoscape.wodaklab.org/nexus/content/repositories/biopax-release/), sonar (http://localhost:8021/sonar/deploy/maven), ops4j-release (http://cytoscape.wodaklab.org/nexus/content/repositories/ops4j-release/), 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: 9 seconds [INFO] Finished at: Fri Nov 12 17:06:35 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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