See <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Layout%20impl/1046/changes>
Changes: [pwang] Refactored [pwang] Refactored ------------------------------------------ [...truncated 6 lines...] A src/main/java/csplugins A src/main/java/csplugins/layout A src/main/java/csplugins/layout/Profile.java A src/main/java/csplugins/layout/algorithms A src/main/java/csplugins/layout/algorithms/GroupAttributesLayout.java.broken A src/main/java/csplugins/layout/algorithms/StackedNodeLayout.java A src/main/java/csplugins/layout/algorithms/circularLayout A src/main/java/csplugins/layout/algorithms/circularLayout/CircularLayoutAlgorithm.java A src/main/java/csplugins/layout/algorithms/circularLayout/CircularLayoutAlgorithmTask.java A src/main/java/csplugins/layout/algorithms/bioLayout A src/main/java/csplugins/layout/algorithms/bioLayout/BioLayoutKKAlgorithm.java A src/main/java/csplugins/layout/algorithms/bioLayout/BioLayoutFRAlgorithm.java A src/main/java/csplugins/layout/algorithms/bioLayout/BioLayoutAlgorithm.java A src/main/java/csplugins/layout/algorithms/graphPartition A src/main/java/csplugins/layout/algorithms/graphPartition/AttributeCircleLayout.java A src/main/java/csplugins/layout/algorithms/graphPartition/ISOMLayout.java A src/main/java/csplugins/layout/algorithms/graphPartition/AttributeCircleLayoutTask.java A src/main/java/csplugins/layout/algorithms/graphPartition/DegreeSortedCircleLayout.java A src/main/java/csplugins/layout/algorithms/graphPartition/Layout.java A src/main/java/csplugins/layout/algorithms/hierarchicalLayout A src/main/java/csplugins/layout/algorithms/hierarchicalLayout/Graph.java A src/main/java/csplugins/layout/algorithms/hierarchicalLayout/HierarchicalLayoutAlgorithm.java A src/main/java/csplugins/layout/algorithms/hierarchicalLayout/Edge.java A src/main/java/csplugins/layout/algorithms/hierarchicalLayout/HierarchicalLayoutAlgorithmTask.java 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 pom.xml U . At revision 22051 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 39633 /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%20Layout%20impl/ws/trunk/pom.xml> deploy [INFO] Scanning for projects... WAGON_VERSION: 1.0-beta-2 [INFO] ------------------------------------------------------------------------ [INFO] Building org.cytoscape.layout-cytoscape-impl [csplugins.layout] [INFO] task-segment: [deploy] [INFO] ------------------------------------------------------------------------ [INFO] [resources:resources] [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 2 resources Downloading: http://maven.springframework.org/osgi/org/cytoscape/work-api/1.0-SNAPSHOT/work-api-1.0-SNAPSHOT.pom [INFO] Unable to find resource 'org.cytoscape:work-api:pom:1.0-SNAPSHOT' in repository spring-osgified-artifacts (http://maven.springframework.org/osgi) Downloading: http://repository.ops4j.org/maven2//org/cytoscape/work-api/1.0-SNAPSHOT/work-api-1.0-SNAPSHOT.pom [INFO] Unable to find resource 'org.cytoscape:work-api:pom:1.0-SNAPSHOT' in repository ops4j.releases (http://repository.ops4j.org/maven2/) Downloading: http://www.l2fprod.com/maven2//org/cytoscape/work-api/1.0-SNAPSHOT/work-api-1.0-SNAPSHOT.pom [INFO] Unable to find resource 'org.cytoscape:work-api:pom:1.0-SNAPSHOT' in repository l2fprod-maven-repo (http://www.l2fprod.com/maven2/) Downloading: http://maven.springframework.org/osgi/org/cytoscape/work-api/1.0-SNAPSHOT/work-api-1.0-SNAPSHOT.jar [INFO] Unable to find resource 'org.cytoscape:work-api:jar:1.0-SNAPSHOT' in repository spring-osgified-artifacts (http://maven.springframework.org/osgi) Downloading: http://repository.ops4j.org/maven2//org/cytoscape/work-api/1.0-SNAPSHOT/work-api-1.0-SNAPSHOT.jar [INFO] Unable to find resource 'org.cytoscape:work-api:jar:1.0-SNAPSHOT' in repository ops4j.releases (http://repository.ops4j.org/maven2/) Downloading: http://www.l2fprod.com/maven2//org/cytoscape/work-api/1.0-SNAPSHOT/work-api-1.0-SNAPSHOT.jar [INFO] Unable to find resource 'org.cytoscape:work-api:jar:1.0-SNAPSHOT' in repository l2fprod-maven-repo (http://www.l2fprod.com/maven2/) Downloading: http://maven.springframework.org/osgi/org/cytoscape/work-api/1.0-SNAPSHOT/work-api-1.0-SNAPSHOT.jar [INFO] Unable to find resource 'org.cytoscape:work-api:jar:1.0-SNAPSHOT' in repository spring-osgified-artifacts (http://maven.springframework.org/osgi) Downloading: http://repository.ops4j.org/maven2//org/cytoscape/work-api/1.0-SNAPSHOT/work-api-1.0-SNAPSHOT.jar [INFO] Unable to find resource 'org.cytoscape:work-api:jar:1.0-SNAPSHOT' in repository ops4j.releases (http://repository.ops4j.org/maven2/) Downloading: http://www.l2fprod.com/maven2//org/cytoscape/work-api/1.0-SNAPSHOT/work-api-1.0-SNAPSHOT.jar [INFO] Unable to find resource 'org.cytoscape:work-api:jar:1.0-SNAPSHOT' in repository l2fprod-maven-repo (http://www.l2fprod.com/maven2/) [INFO] [pax:compile] [INFO] Compiling 16 source files to <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Layout%20impl/ws/trunk/target/classes> [INFO] [recovering meta-data] [HUDSON] Archiving <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Layout%20impl/ws/trunk/pom.xml> to /R1/resources/webapps/cytoscape_build_sys/hudson_home/jobs/Cy3 Layout impl/modules/org.cytoscape$layout-cytoscape-impl/builds/2010-09-24_18-01-44/archive/org.cytoscape/layout-cytoscape-impl/1.0-SNAPSHOT/pom.xml [INFO] ------------------------------------------------------------------------ [ERROR] BUILD FAILURE [INFO] ------------------------------------------------------------------------ [INFO] Compilation failure <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Layout%20impl/ws/trunk/src/main/java/csplugins/layout/algorithms/StackedNodeLayout.java>:[52,7] csplugins.layout.algorithms.StackedNodeLayout is not abstract and does not override abstract method getTaskIterator() in org.cytoscape.work.TaskFactory <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Layout%20impl/ws/trunk/src/main/java/csplugins/layout/algorithms/bioLayout/BioLayoutAlgorithm.java>:[94,2] cannot find symbol symbol : constructor AbstractGraphPartition(org.cytoscape.work.undo.UndoSupport) location: class org.cytoscape.view.layout.AbstractGraphPartition <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Layout%20impl/ws/trunk/src/main/java/csplugins/layout/algorithms/bioLayout/BioLayoutAlgorithm.java>:[146,2] cannot assign a value to final variable selectedOnly <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Layout%20impl/ws/trunk/src/main/java/csplugins/layout/algorithms/bioLayout/BioLayoutAlgorithm.java>:[156,2] cannot assign a value to final variable selectedOnly <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Layout%20impl/ws/trunk/src/main/java/csplugins/layout/algorithms/bioLayout/BioLayoutKKAlgorithm.java>:[362,6] cannot find symbol symbol : variable canceled location: class csplugins.layout.algorithms.bioLayout.BioLayoutKKAlgorithm <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Layout%20impl/ws/trunk/src/main/java/csplugins/layout/algorithms/bioLayout/BioLayoutKKAlgorithm.java>:[370,6] cannot find symbol symbol : variable canceled location: class csplugins.layout.algorithms.bioLayout.BioLayoutKKAlgorithm <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Layout%20impl/ws/trunk/src/main/java/csplugins/layout/algorithms/bioLayout/BioLayoutKKAlgorithm.java>:[415,8] cannot find symbol symbol : variable canceled location: class csplugins.layout.algorithms.bioLayout.BioLayoutKKAlgorithm <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Layout%20impl/ws/trunk/src/main/java/csplugins/layout/algorithms/bioLayout/BioLayoutKKAlgorithm.java>:[445,8] cannot find symbol symbol : variable canceled location: class csplugins.layout.algorithms.bioLayout.BioLayoutKKAlgorithm <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Layout%20impl/ws/trunk/src/main/java/csplugins/layout/algorithms/graphPartition/DegreeSortedCircleLayout.java>:[34,2] cannot find symbol symbol : constructor AbstractGraphPartition(org.cytoscape.work.undo.UndoSupport) location: class org.cytoscape.view.layout.AbstractGraphPartition <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Layout%20impl/ws/trunk/src/main/java/csplugins/layout/algorithms/graphPartition/DegreeSortedCircleLayout.java>:[63,32] cannot find symbol symbol : variable network location: class csplugins.layout.algorithms.graphPartition.DegreeSortedCircleLayout <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Layout%20impl/ws/trunk/src/main/java/csplugins/layout/algorithms/graphPartition/DegreeSortedCircleLayout.java>:[64,30] cannot find symbol symbol : variable network location: class csplugins.layout.algorithms.graphPartition.DegreeSortedCircleLayout <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Layout%20impl/ws/trunk/src/main/java/csplugins/layout/algorithms/graphPartition/DegreeSortedCircleLayout.java>:[76,6] cannot find symbol symbol : variable canceled location: class csplugins.layout.algorithms.graphPartition.DegreeSortedCircleLayout <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Layout%20impl/ws/trunk/src/main/java/csplugins/layout/algorithms/graphPartition/DegreeSortedCircleLayout.java>:[86,20] cannot find symbol symbol: variable network final int d1 = network.getAdjacentEdgeList(node1, CyEdge.Type.ANY).size(); <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Layout%20impl/ws/trunk/src/main/java/csplugins/layout/algorithms/graphPartition/DegreeSortedCircleLayout.java>:[87,20] cannot find symbol symbol: variable network final int d2 = network.getAdjacentEdgeList(node2, CyEdge.Type.ANY).size(); <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Layout%20impl/ws/trunk/src/main/java/csplugins/layout/algorithms/graphPartition/DegreeSortedCircleLayout.java>:[101,6] cannot find symbol symbol : variable canceled location: class csplugins.layout.algorithms.graphPartition.DegreeSortedCircleLayout <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Layout%20impl/ws/trunk/src/main/java/csplugins/layout/algorithms/graphPartition/DegreeSortedCircleLayout.java>:[118,7] cannot find symbol symbol : method construct() location: class org.cytoscape.view.layout.AbstractGraphPartition <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Layout%20impl/ws/trunk/src/main/java/csplugins/layout/algorithms/bioLayout/BioLayoutFRAlgorithm.java>:[445,52] cannot find symbol symbol : variable canceled location: class csplugins.layout.algorithms.bioLayout.BioLayoutFRAlgorithm <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Layout%20impl/ws/trunk/src/main/java/csplugins/layout/algorithms/graphPartition/ISOMLayout.java>:[63,2] cannot find symbol symbol : constructor AbstractGraphPartition(org.cytoscape.work.undo.UndoSupport) location: class org.cytoscape.view.layout.AbstractGraphPartition <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Layout%20impl/ws/trunk/src/main/java/csplugins/layout/algorithms/graphPartition/ISOMLayout.java>:[97,17] cannot find symbol symbol : variable network location: class csplugins.layout.algorithms.graphPartition.ISOMLayout <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Layout%20impl/ws/trunk/src/main/java/csplugins/layout/algorithms/graphPartition/ISOMLayout.java>:[110,7] cannot find symbol symbol : variable canceled location: class csplugins.layout.algorithms.graphPartition.ISOMLayout <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Layout%20impl/ws/trunk/src/main/java/csplugins/layout/algorithms/graphPartition/ISOMLayout.java>:[221,37] cannot find symbol symbol : variable network location: class csplugins.layout.algorithms.graphPartition.ISOMLayout [INFO] ------------------------------------------------------------------------ [INFO] For more information, run Maven with the -e switch [INFO] ------------------------------------------------------------------------ [INFO] Total time: 24 seconds [INFO] Finished at: Fri Sep 24 18:02:11 EDT 2010 [INFO] Final Memory: 44M/492M [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.layout-cytoscape-impl [csplugins.layout] [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://maven.springframework.org/osgi/org/cytoscape/work-api/1.0-SNAPSHOT/work-api-1.0-SNAPSHOT.pom [INFO] Unable to find resource 'org.cytoscape:work-api:pom:1.0-SNAPSHOT' in repository spring-osgified-artifacts (http://maven.springframework.org/osgi) Downloading: http://repository.ops4j.org/maven2//org/cytoscape/work-api/1.0-SNAPSHOT/work-api-1.0-SNAPSHOT.pom [INFO] Unable to find resource 'org.cytoscape:work-api:pom:1.0-SNAPSHOT' in repository ops4j.releases (http://repository.ops4j.org/maven2/) Downloading: http://www.l2fprod.com/maven2//org/cytoscape/work-api/1.0-SNAPSHOT/work-api-1.0-SNAPSHOT.pom [INFO] Unable to find resource 'org.cytoscape:work-api:pom:1.0-SNAPSHOT' in repository l2fprod-maven-repo (http://www.l2fprod.com/maven2/) Downloading: http://maven.springframework.org/osgi/org/cytoscape/work-api/1.0-SNAPSHOT/work-api-1.0-SNAPSHOT.jar [INFO] Unable to find resource 'org.cytoscape:work-api:jar:1.0-SNAPSHOT' in repository spring-osgified-artifacts (http://maven.springframework.org/osgi) Downloading: http://repository.ops4j.org/maven2//org/cytoscape/work-api/1.0-SNAPSHOT/work-api-1.0-SNAPSHOT.jar [INFO] Unable to find resource 'org.cytoscape:work-api:jar:1.0-SNAPSHOT' in repository ops4j.releases (http://repository.ops4j.org/maven2/) Downloading: http://www.l2fprod.com/maven2//org/cytoscape/work-api/1.0-SNAPSHOT/work-api-1.0-SNAPSHOT.jar [INFO] Unable to find resource 'org.cytoscape:work-api:jar:1.0-SNAPSHOT' in repository l2fprod-maven-repo (http://www.l2fprod.com/maven2/) Downloading: http://maven.springframework.org/osgi/org/cytoscape/work-api/1.0-SNAPSHOT/work-api-1.0-SNAPSHOT.jar [INFO] Unable to find resource 'org.cytoscape:work-api:jar:1.0-SNAPSHOT' in repository spring-osgified-artifacts (http://maven.springframework.org/osgi) Downloading: http://repository.ops4j.org/maven2//org/cytoscape/work-api/1.0-SNAPSHOT/work-api-1.0-SNAPSHOT.jar [INFO] Unable to find resource 'org.cytoscape:work-api:jar:1.0-SNAPSHOT' in repository ops4j.releases (http://repository.ops4j.org/maven2/) Downloading: http://www.l2fprod.com/maven2//org/cytoscape/work-api/1.0-SNAPSHOT/work-api-1.0-SNAPSHOT.jar [INFO] Unable to find resource 'org.cytoscape:work-api:jar:1.0-SNAPSHOT' in repository l2fprod-maven-repo (http://www.l2fprod.com/maven2/) [INFO] [sonar-core:internal] [INFO] Database dialect class org.sonar.api.database.dialect.MySql [INFO] ------------- Analyzing org.cytoscape.layout-cytoscape-impl [csplugins.layout] [INFO] Selected quality profile : Cytoscape, language=java [INFO] Configure maven plugins... [INFO] Sensor JavaSourceImporter... [INFO] Sensor JavaSourceImporter done: 432 ms [INFO] Sensor AsynchronousMeasuresSensor... [INFO] Sensor AsynchronousMeasuresSensor done: 33 ms [INFO] Sensor SquidSensor... [INFO] Java AST scan... [INFO] Java AST scan done: 997 ms [INFO] Squid extraction... [INFO] Squid extraction done: 356 ms [INFO] Sensor SquidSensor done: 1444 ms [INFO] Sensor ProfileSensor... [INFO] Sensor ProfileSensor done: 25 ms [INFO] Sensor ProjectLinksSensor... [INFO] Sensor ProjectLinksSensor done: 3 ms [INFO] Sensor VersionEventsSensor... [INFO] Sensor VersionEventsSensor done: 37 ms [INFO] Sensor Maven dependencies... [INFO] Sensor Maven dependencies done: 117 ms [INFO] Execute maven plugin findbugs-maven-plugin... [INFO] ------------------------------------------------------------------------ [INFO] Building org.cytoscape.layout-cytoscape-impl [csplugins.layout] [INFO] task-segment: [org.codehaus.mojo:findbugs-maven-plugin:2.3.1:findbugs] [INFO] ------------------------------------------------------------------------ [INFO] Preparing findbugs:findbugs [INFO] [resources:resources] [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 2 resources Downloading: http://maven.springframework.org/osgi/org/cytoscape/work-api/1.0-SNAPSHOT/work-api-1.0-SNAPSHOT.jar [INFO] Unable to find resource 'org.cytoscape:work-api:jar:1.0-SNAPSHOT' in repository spring-osgified-artifacts (http://maven.springframework.org/osgi) Downloading: http://repository.ops4j.org/maven2//org/cytoscape/work-api/1.0-SNAPSHOT/work-api-1.0-SNAPSHOT.jar [INFO] Unable to find resource 'org.cytoscape:work-api:jar:1.0-SNAPSHOT' in repository ops4j.releases (http://repository.ops4j.org/maven2/) Downloading: http://www.l2fprod.com/maven2//org/cytoscape/work-api/1.0-SNAPSHOT/work-api-1.0-SNAPSHOT.jar [INFO] Unable to find resource 'org.cytoscape:work-api:jar:1.0-SNAPSHOT' in repository l2fprod-maven-repo (http://www.l2fprod.com/maven2/) Downloading: http://maven.springframework.org/osgi/org/cytoscape/work-api/1.0-SNAPSHOT/work-api-1.0-SNAPSHOT.jar [INFO] Unable to find resource 'org.cytoscape:work-api:jar:1.0-SNAPSHOT' in repository spring-osgified-artifacts (http://maven.springframework.org/osgi) Downloading: http://repository.ops4j.org/maven2//org/cytoscape/work-api/1.0-SNAPSHOT/work-api-1.0-SNAPSHOT.jar [INFO] Unable to find resource 'org.cytoscape:work-api:jar:1.0-SNAPSHOT' in repository ops4j.releases (http://repository.ops4j.org/maven2/) Downloading: http://www.l2fprod.com/maven2//org/cytoscape/work-api/1.0-SNAPSHOT/work-api-1.0-SNAPSHOT.jar [INFO] Unable to find resource 'org.cytoscape:work-api:jar:1.0-SNAPSHOT' in repository l2fprod-maven-repo (http://www.l2fprod.com/maven2/) [INFO] [pax:compile] [INFO] Compiling 16 source files to <http://cytoscape.wodaklab.org/hudson/job/Cy3%20Layout%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: 31 seconds [INFO] Finished at: Fri Sep 24 18:02:53 EDT 2010 [INFO] Final Memory: 67M/724M [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.
