See <http://cytoscape.wodaklab.org/hudson/job/Cy3%20PSI-MI%20impl/61/>
------------------------------------------ [...truncated 86 lines...] 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 22422 no change for http://chianti.ucsd.edu/svn/core3/psi-mi-impl/trunk since the previous build 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 42715 /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] [jaxb2:xjc {execution: mi1}] [INFO] Generating source... [INFO] parsing a schema... [INFO] compiling a schema... [INFO] org/cytoscape/psi_mi/internal/schema/mi1/AttributeListType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi1/AvailabilityType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi1/BaseLocationType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi1/BibrefType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi1/BioSourceType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi1/CvType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi1/DbReferenceType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi1/EntrySet.java [INFO] org/cytoscape/psi_mi/internal/schema/mi1/ExperimentType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi1/FeatureType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi1/FullNameType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi1/InteractionElementType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi1/IntervalType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi1/LabelType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi1/NamesType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi1/ObjectFactory.java [INFO] org/cytoscape/psi_mi/internal/schema/mi1/OpenCvType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi1/PositionType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi1/ProteinInteractorType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi1/ProteinParticipantType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi1/RefType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi1/XrefType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi1/package-info.java [INFO] [jaxb2:xjc {execution: mi25}] [INFO] Generating source... [INFO] parsing a schema... [INFO] compiling a schema... [INFO] org/cytoscape/psi_mi/internal/schema/mi25/AttributeListType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi25/AvailabilityType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi25/BaseLocationType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi25/BibrefType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi25/BioSourceType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi25/ConfidenceListType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi25/ConfidenceType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi25/CvType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi25/DbReferenceType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi25/EntrySet.java [INFO] org/cytoscape/psi_mi/internal/schema/mi25/ExperimentRefListType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi25/ExperimentType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi25/FeatureElementType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi25/FullNameType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi25/InteractionElementType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi25/InteractorElementType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi25/IntervalType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi25/LabelType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi25/NamesType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi25/ObjectFactory.java [INFO] org/cytoscape/psi_mi/internal/schema/mi25/OpenCvType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi25/ParameterType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi25/ParticipantType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi25/PositionType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi25/XrefType.java [INFO] org/cytoscape/psi_mi/internal/schema/mi25/package-info.java [INFO] [resources:resources] [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 3 resources [INFO] [pax:compile] [INFO] Compiling 76 source files to <http://cytoscape.wodaklab.org/hudson/job/Cy3%20PSI-MI%20impl/ws/trunk/target/classes> [INFO] [recovering meta-data] [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/2010-10-25_20-47-03/archive/org.cytoscape/psi-mi-impl/1.0-SNAPSHOT/pom.xml [INFO] ------------------------------------------------------------------------ [ERROR] BUILD FAILURE [INFO] ------------------------------------------------------------------------ [INFO] Compilation failure <http://cytoscape.wodaklab.org/hudson/job/Cy3%20PSI-MI%20impl/ws/trunk/src/main/java/org/cytoscape/psi_mi/internal/cyto_mapper/MapToCytoscape.java>:[568,19] cannot find symbol symbol : method contains(java.lang.String,java.lang.Class<java.lang.String>) location: interface org.cytoscape.model.CyRow <http://cytoscape.wodaklab.org/hudson/job/Cy3%20PSI-MI%20impl/ws/trunk/src/main/java/org/cytoscape/psi_mi/internal/cyto_mapper/MapToCytoscape.java>:[614,17] cannot find symbol symbol : method contains(java.lang.String,java.lang.Class<capture#779 of ? extends java.lang.Object>) location: interface org.cytoscape.model.CyRow [INFO] ------------------------------------------------------------------------ [INFO] For more information, run Maven with the -e switch [INFO] ------------------------------------------------------------------------ [INFO] Total time: 8 seconds [INFO] Finished at: Mon Oct 25 20:47:14 EDT 2010 [INFO] Final Memory: 55M/605M [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: 436 ms [INFO] Sensor AsynchronousMeasuresSensor... [INFO] Sensor AsynchronousMeasuresSensor done: 29 ms [INFO] Sensor SquidSensor... [INFO] Java AST scan... [INFO] Java AST scan done: 592 ms [INFO] Java bytecode scan... [WARN] Class 'org/cytoscape/psi_mi/internal/plugin/SchemaVersion' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/cyto_mapper/MapFromCytoscape' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/util/ContentReader' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/util/AttributeUtil' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/model/vocab/GoVocab' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/plugin/PsiMiNetworkWriterFactory' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/plugin/PsiMiCyFileFilter' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/data_mapper/MapInteractionsToPsiTwoFive' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/data_mapper/MapPsiTwoFiveToInteractions' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/data_mapper/MapPsiTwoFiveToInteractions' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/data_mapper/MapPsiOneToInteractions' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/data_mapper/MapPsiOneToInteractions' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/cyto_mapper/MapToCytoscape' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/cyto_mapper/MapToCytoscape' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/data_mapper/MapPsiOneToInteractions' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/model/vocab/InteractorVocab' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/model/Interaction' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/data_mapper/MapperUtil' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/data_mapper/MapPsiTwoFiveToInteractions' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/model/vocab/InteractionVocab' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/plugin/PsiMiWriter' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/plugin/PsiMiNetworkViewTaskFactory' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/cyto_mapper/MapToCytoscape' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/schema/mi1/ProteinInteractorType' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/schema/mi1/ProteinInteractorType' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/schema/mi1/ProteinInteractorType' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/schema/mi1/ProteinInteractorType' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/schema/mi1/ProteinInteractorType' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/schema/mi1/ProteinInteractorType$Organism' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/schema/mi1/ProteinInteractorType$Organism' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/schema/mi1/ProteinInteractorType$Organism' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/schema/mi1/ProteinInteractorType' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/model/Interaction' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/schema/mi1/ExperimentType' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/schema/mi1/ExperimentType' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/model/Interaction' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/schema/mi1/ExperimentType' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/schema/mi1/ExperimentType' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/model/Interaction' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/model/Interaction' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/model/Interaction' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/model/Interaction' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/plugin/SchemaVersion' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/cyto_mapper/MapFromCytoscape' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/util/ContentReader' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/util/AttributeUtil' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/model/vocab/GoVocab' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/plugin/PsiMiNetworkWriterFactory' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/plugin/PsiMiCyFileFilter' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/data_mapper/MapInteractionsToPsiTwoFive' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/data_mapper/MapPsiOneToInteractions' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/model/vocab/InteractorVocab' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/model/Interaction' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/data_mapper/MapperUtil' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/data_mapper/MapPsiTwoFiveToInteractions' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/model/vocab/InteractionVocab' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/plugin/PsiMiWriter' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/plugin/PsiMiNetworkViewTaskFactory' is not accessible through the ClassLoader. [WARN] Class 'org/cytoscape/psi_mi/internal/cyto_mapper/MapToCytoscape' is not accessible through the ClassLoader. [INFO] Java bytecode scan done: 102 ms [INFO] Squid extraction... [INFO] Package design analysis... [INFO] Package design analysis done: 14 ms [INFO] Squid extraction done: 459 ms [INFO] Sensor SquidSensor done: 1215 ms [INFO] Sensor ProfileSensor... [INFO] Sensor ProfileSensor done: 17 ms [INFO] Sensor ProjectLinksSensor... [INFO] Sensor ProjectLinksSensor done: 5 ms [INFO] Sensor VersionEventsSensor... [INFO] Sensor VersionEventsSensor done: 37 ms [INFO] Sensor Maven dependencies... [INFO] Sensor Maven dependencies done: 290 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] Compiling 26 source files to <http://cytoscape.wodaklab.org/hudson/job/Cy3%20PSI-MI%20impl/ws/trunk/target/classes> [INFO] [recovering meta-data] [INFO] ------------------------------------------------------------------------ [ERROR] BUILD ERROR [INFO] ------------------------------------------------------------------------ [INFO] Can not execute Sonar Embedded error: Unable to execute maven plugin Compilation failure [INFO] ------------------------------------------------------------------------ [INFO] For more information, run Maven with the -e switch [INFO] ------------------------------------------------------------------------ [INFO] Total time: 12 seconds [INFO] Finished at: Mon Oct 25 20:47:38 EDT 2010 [INFO] Final Memory: 75M/721M [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.
