Console Output
Started by user David Soergel
Building remotely on i-0404a965 in workspace /media/ephemeral0/workspace/ml
$ hg clone --rev default --noupdate ssh://jenkins@dev.davidsoergel.com//home/hg/ml /media/ephemeral0/workspace/ml
adding changesets
adding manifests
adding file changes
added 594 changesets with 2602 changes to 200 files
[ml] $ hg update --rev default
114 files updated, 0 files merged, 0 files removed, 0 files unresolved
[ml] $ hg log --rev . --template {node}
[ml] $ hg log --rev . --template {rev}
[ml] $ hg log --rev 5834fc9ee78945930ef2be719410b9ceda9c73b3
[ml] $ hg log --template "<changeset node='{node}' author='{author|xmlescape}' rev='{rev}' date='{date}'><msg>{desc|xmlescape}</msg><added>{file_adds|stringify|xmlescape}</added><deleted>{file_dels|stringify|xmlescape}</deleted><files>{files|stringify|xmlescape}</files><parents>{parents}</parents></changeset>\n" --rev default:0 --follow --prune 5834fc9ee78945930ef2be719410b9ceda9c73b3
Parsing POMs
[ml] $ java -Xmx1024M -XX:MaxPermSize=256M -cp /media/ephemeral0/maven3-agent.jar:/media/ephemeral0/tools/hudson.tasks.Maven_MavenInstallation/Maven_3.0.4/boot/plexus-classworlds-2.4.jar org.jvnet.hudson.maven3.agent.Maven3Main /media/ephemeral0/tools/hudson.tasks.Maven_MavenInstallation/Maven_3.0.4 /tmp/slave.jar /media/ephemeral0/maven3-interceptor.jar 35474
<===[JENKINS REMOTING CAPACITY]===> channel started
log4j:WARN No appenders could be found for logger (org.apache.commons.beanutils.converters.BooleanConverter).
log4j:WARN Please initialize the log4j system properly.
Executing Maven: -B -f /media/ephemeral0/workspace/ml/pom.xml -U -e clean source:jar package jar:test-jar
[INFO] Error stacktraces are turned on.
[INFO] Scanning for projects...
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[INFO]
[INFO] ------------------------------------------------------------------------
[INFO] Building ml 0.93-SNAPSHOT
[INFO] ------------------------------------------------------------------------
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[INFO]
[INFO] --- maven-clean-plugin:2.4.1:clean (default-clean) @ ml ---
[INFO]
[INFO] --- cobertura-maven-plugin:2.5.1:clean (clean) @ ml ---
Mar 21, 2013 1:26:17 AM hudson.maven.ExecutedMojo <init>
WARNING: Failed to getClass for org.apache.maven.plugin.source.SourceJarMojo
[INFO]
[INFO] --- maven-source-plugin:2.2.1:jar (default-cli) @ ml ---
[INFO] Building jar: /media/ephemeral0/workspace/ml/target/ml-0.93-SNAPSHOT-sources.jar
[INFO]
[INFO] --- maven-resources-plugin:2.5:resources (default-resources) @ ml ---
[debug] execute contextualize
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] skip non existing resourceDirectory /media/ephemeral0/workspace/ml/src/main/resources
[INFO]
[INFO] --- maven-compiler-plugin:2.4:compile (default-compile) @ ml ---
[INFO] Compiling 103 source files to /media/ephemeral0/workspace/ml/target/classes
[INFO]
[INFO] --- maven-resources-plugin:2.5:testResources (default-testResources) @ ml ---
[debug] execute contextualize
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] skip non existing resourceDirectory /media/ephemeral0/workspace/ml/src/test/resources
[INFO]
[INFO] --- maven-compiler-plugin:2.4:testCompile (default-testCompile) @ ml ---
[INFO] Compiling 5 source files to /media/ephemeral0/workspace/ml/target/test-classes
[INFO]
[INFO] --- maven-surefire-plugin:2.12:test (default-test) @ ml ---
[INFO] Surefire report directory: /media/ephemeral0/workspace/ml/target/surefire-reports
-------------------------------------------------------
T E S T S
-------------------------------------------------------
Running TestSuite
2013-03-21 01:26:57,504 [main] INFO edu.berkeley.compbio.ml.cluster.hierarchical.OnlineAgglomerativeClustering - Batch clustering remaining 6 nodes
2013-03-21 01:26:57,662 [main] INFO edu.berkeley.compbio.ml.cluster.hierarchical.OnlineAverageLinkageTest -
l=nu w=6.00 [Cluster 10] n=6 sd=0.00
| l=29.91 w=1.00 [Cluster 5] n=1 sd=0.00
| l=29.91 w=5.00 [Cluster 9] n=5 sd=0.00
| | l=22.45 w=1.00 [Cluster 4] n=1 sd=0.00
| | l=22.45 w=4.00 [Cluster 8] n=4 sd=0.00
| | | l=15.73 w=1.00 [Cluster 3] n=1 sd=0.00
| | | l=15.73 w=3.00 [Cluster 7] n=3 sd=0.00
| | | | l=10.07 w=1.00 [Cluster 2] n=1 sd=0.00
| | | | l=10.07 w=2.00 [Cluster 6] n=2 sd=0.00
| | | | | l=0.50 w=1.00 [Cluster 0] n=1 sd=0.00
| | | | | l=0.50 w=1.00 [Cluster 1] n=1 sd=0.00
2013-03-21 01:26:57,664 [main] INFO edu.berkeley.compbio.ml.cluster.hierarchical.OnlineAverageLinkageTest - found largestLengthSpan = 108.56383323669434
Tests run: 12, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 6.557 sec
Results :
Tests run: 12, Failures: 0, Errors: 0, Skipped: 0
[JENKINS] Recording test results
[INFO]
[INFO] --- maven-jar-plugin:2.4:jar (default-jar) @ ml ---
[INFO] Building jar: /media/ephemeral0/workspace/ml/target/ml-0.93-SNAPSHOT.jar
[INFO]
[INFO] --- maven-jar-plugin:2.4:test-jar (default) @ ml ---
[INFO] Building jar: /media/ephemeral0/workspace/ml/target/ml-0.93-SNAPSHOT-tests.jar
[INFO]
[INFO] --- maven-jar-plugin:2.4:jar (default) @ ml ---
[INFO]
[INFO] --- maven-jar-plugin:2.4:test-jar (default-cli) @ ml ---
[WARNING] Artifact edu.berkeley.compbio:ml:test-jar:tests:0.93-SNAPSHOT already attached to project, ignoring duplicate
[INFO] ------------------------------------------------------------------------
[INFO] BUILD SUCCESS
[INFO] ------------------------------------------------------------------------
[INFO] Total time: 1:17.601s
[INFO] Finished at: Thu Mar 21 01:27:06 UTC 2013
[INFO] Final Memory: 15M/44M
[INFO] ------------------------------------------------------------------------
[JENKINS] Archiving /media/ephemeral0/workspace/ml/pom.xml to /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/ml/modules/edu.berkeley.compbio$ml/builds/2013-03-20_21-25-35/archive/edu.berkeley.compbio/ml/0.93-SNAPSHOT/ml-0.93-SNAPSHOT.pom
[JENKINS] Archiving /media/ephemeral0/workspace/ml/target/ml-0.93-SNAPSHOT.jar to /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/ml/modules/edu.berkeley.compbio$ml/builds/2013-03-20_21-25-35/archive/edu.berkeley.compbio/ml/0.93-SNAPSHOT/ml-0.93-SNAPSHOT.jar
[JENKINS] Archiving /media/ephemeral0/workspace/ml/target/ml-0.93-SNAPSHOT-sources.jar to /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/ml/modules/edu.berkeley.compbio$ml/builds/2013-03-20_21-25-35/archive/edu.berkeley.compbio/ml/0.93-SNAPSHOT/ml-0.93-SNAPSHOT-sources.jar
[JENKINS] Archiving /media/ephemeral0/workspace/ml/target/ml-0.93-SNAPSHOT-tests.jar to /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/ml/modules/edu.berkeley.compbio$ml/builds/2013-03-20_21-25-35/archive/edu.berkeley.compbio/ml/0.93-SNAPSHOT/ml-0.93-SNAPSHOT-tests.jar
Waiting for Jenkins to finish collecting data
channel stopped
Maven RedeployPublisher use remote i-0404a965 maven settings from : /home/ec2-user/.m2/settings.xml
[ERROR] uniqueVersion == false is not anymore supported in maven 3
[INFO] Deployment in dav:http://dev.davidsoergel.com/nexus/content/repositories/snapshots (id=dev.davidsoergel.com.snapshot,uniqueVersion=false)
Deploying the main artifact ml-0.93-SNAPSHOT.jar
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Deploying the main artifact ml-0.93-SNAPSHOT-sources.jar
Uploading: dav:http://dev.davidsoergel.com/nexus/content/repositories/snapshots/edu/berkeley/compbio/ml/0.93-SNAPSHOT/ml-0.93-20130321.012710-2-sources.jar
Uploaded: dav:http://dev.davidsoergel.com/nexus/content/repositories/snapshots/edu/berkeley/compbio/ml/0.93-SNAPSHOT/ml-0.93-20130321.012710-2-sources.jar (187 KB at 45.7 KB/sec)
Uploading: http://dev.davidsoergel.com/nexus/content/repositories/snapshots/edu/berkeley/compbio/ml/0.93-SNAPSHOT/maven-metadata.xml
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Deploying the main artifact ml-0.93-SNAPSHOT-tests.jar
Uploading: dav:http://dev.davidsoergel.com/nexus/content/repositories/snapshots/edu/berkeley/compbio/ml/0.93-SNAPSHOT/ml-0.93-20130321.012710-2-tests.jar
Uploaded: dav:http://dev.davidsoergel.com/nexus/content/repositories/snapshots/edu/berkeley/compbio/ml/0.93-SNAPSHOT/ml-0.93-20130321.012710-2-tests.jar (17 KB at 124.5 KB/sec)
Uploading: http://dev.davidsoergel.com/nexus/content/repositories/snapshots/edu/berkeley/compbio/ml/0.93-SNAPSHOT/maven-metadata.xml
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[INFO] Deployment done in 24 sec
Sending e-mails to: dev@davidsoergel.com
Finished: SUCCESS
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