SuccessConsole Output

Started by an SCM change
Building remotely on i-b4b502cc in workspace /media/ephemeral0/workspace/sequtils
[sequtils] $ hg showconfig paths.default
[sequtils] $ hg pull --rev default
[sequtils] $ hg update --clean --rev default
1 files updated, 0 files merged, 0 files removed, 0 files unresolved
[sequtils] $ hg --config extensions.purge= clean --all
[sequtils] $ hg log --rev . --template {node}
[sequtils] $ hg log --rev . --template {rev}
[sequtils] $ hg log --rev 07a1923b7d32ce8c450a6377575d5af2856292a3
[sequtils] $ 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 07a1923b7d32ce8c450a6377575d5af2856292a3
 your Apache Maven build is setup to use a config with id org.jenkinsci.plugins.configfiles.maven.MavenSettingsConfig1337980147845 but cannot find the config
Parsing POMs
[sequtils] $ /usr/java/default/bin/java -Xmx1024M -XX:MaxPermSize=256M -cp /media/ephemeral0/maven3-agent.jar:/media/ephemeral0/tools/Maven/Maven_3.0.4/boot/plexus-classworlds-2.4.jar org.jvnet.hudson.maven3.agent.Maven3Main /media/ephemeral0/tools/Maven/Maven_3.0.4 /tmp/slave.jar /media/ephemeral0/maven3-interceptor.jar 47052
<===[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/sequtils/pom.xml -U -e clean source:jar package jar:test-jar
[INFO] Error stacktraces are turned on.
[INFO] Scanning for projects...
Projects to build: [MavenProject: edu.berkeley.compbio:sequtils:0.91-SNAPSHOT @ /media/ephemeral0/workspace/sequtils/pom.xml]
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projectStarted edu.berkeley.compbio:sequtils:0.91-SNAPSHOT
[INFO]                                                                         
[INFO] ------------------------------------------------------------------------
[INFO] Building sequtils 0.91-SNAPSHOT
[INFO] ------------------------------------------------------------------------
mojoStarted org.apache.maven.plugins:maven-clean-plugin:2.4.1(default-clean)
[INFO] 
[INFO] --- maven-clean-plugin:2.4.1:clean (default-clean) @ sequtils ---
mojoSucceeded org.apache.maven.plugins:maven-clean-plugin:2.4.1(default-clean)
mojoStarted org.codehaus.mojo:cobertura-maven-plugin:2.5.1(clean)
[INFO] 
[INFO] --- cobertura-maven-plugin:2.5.1:clean (clean) @ sequtils ---
mojoSucceeded org.codehaus.mojo:cobertura-maven-plugin:2.5.1(clean)
Jul 09, 2012 3:15:00 AM hudson.maven.ExecutedMojo <init>
WARNING: Failed to getClass for org.apache.maven.plugin.source.SourceJarMojo
mojoStarted org.apache.maven.plugins:maven-source-plugin:2.1.2(default-cli)
[INFO] 
[INFO] --- maven-source-plugin:2.1.2:jar (default-cli) @ sequtils ---
[INFO] Building jar: /media/ephemeral0/workspace/sequtils/target/sequtils-0.91-SNAPSHOT-sources.jar
mojoSucceeded org.apache.maven.plugins:maven-source-plugin:2.1.2(default-cli)
mojoStarted org.apache.maven.plugins:maven-resources-plugin:2.5(default-resources)
[INFO] 
[INFO] --- maven-resources-plugin:2.5:resources (default-resources) @ sequtils ---
[debug] execute contextualize
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] skip non existing resourceDirectory /media/ephemeral0/workspace/sequtils/src/main/resources
mojoSucceeded org.apache.maven.plugins:maven-resources-plugin:2.5(default-resources)
mojoStarted org.apache.maven.plugins:maven-compiler-plugin:2.4(default-compile)
[INFO] 
[INFO] --- maven-compiler-plugin:2.4:compile (default-compile) @ sequtils ---
[INFO] Compiling 66 source files to /media/ephemeral0/workspace/sequtils/target/classes
mojoSucceeded org.apache.maven.plugins:maven-compiler-plugin:2.4(default-compile)
[debug] execute contextualize
mojoStarted org.apache.maven.plugins:maven-resources-plugin:2.5(default-testResources)[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] Copying 3 resources

[INFO] 
[INFO] --- maven-resources-plugin:2.5:testResources (default-testResources) @ sequtils ---
mojoSucceeded org.apache.maven.plugins:maven-resources-plugin:2.5(default-testResources)
mojoStarted org.apache.maven.plugins:maven-compiler-plugin:2.4(default-testCompile)
[INFO] 
[INFO] --- maven-compiler-plugin:2.4:testCompile (default-testCompile) @ sequtils ---
[INFO] Compiling 11 source files to /media/ephemeral0/workspace/sequtils/target/test-classes
mojoSucceeded org.apache.maven.plugins:maven-compiler-plugin:2.4(default-testCompile)
mojoStarted org.apache.maven.plugins:maven-surefire-plugin:2.12(default-test)
[INFO] 
[INFO] --- maven-surefire-plugin:2.12:test (default-test) @ sequtils ---
[INFO] Surefire report directory: /media/ephemeral0/workspace/sequtils/target/surefire-reports

-------------------------------------------------------
 T E S T S
-------------------------------------------------------
Running TestSuite
2012-07-09 03:15:54,149 [main] WARN  edu.berkeley.compbio.sequtils.DynamicProgrammingPairwiseAlignerTest - GAATTCAGTTA
2012-07-09 03:15:54,156 [main] WARN  edu.berkeley.compbio.sequtils.DynamicProgrammingPairwiseAlignerTest - GGA-TC---GA
2012-07-09 03:15:54,161 [main] ERROR edu.berkeley.compbio.sequtils.SequenceArrayUtils - Bad char '71' in pattern: AC-GTRS
2012-07-09 03:15:54,175 [main] ERROR edu.berkeley.compbio.sequtils.SequenceArrayUtilsTest - [.-]*A[.-]*C[.-]*G[.-]*T[.-]*[AGR][.-]*[CGS]
2012-07-09 03:15:54,194 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaFileSetTest - Loading test genome: /media/ephemeral0/workspace/sequtils/target/test-classes/Test_Genome true
2012-07-09 03:15:54,261 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaFileSetTest - Got FastaFileSet: 3346
2012-07-09 03:15:54,269 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaFileSetTest - Loading test genome: /media/ephemeral0/workspace/sequtils/target/test-classes/Test_Genome true
2012-07-09 03:15:54,271 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaFileSetTest - Got FastaFileSet: 3346
2012-07-09 03:15:54,279 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaFileSetTest - Loading test genome: /media/ephemeral0/workspace/sequtils/target/test-classes/Test_Genome true
2012-07-09 03:15:54,284 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaFileSetTest - Got FastaFileSet: 3346
2012-07-09 03:15:54,379 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Loading test genome: /media/ephemeral0/workspace/sequtils/target/test-classes/Test_Genome true
2012-07-09 03:15:54,386 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Got FastaParser: 3346
2012-07-09 03:15:54,395 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Loading test genome: /media/ephemeral0/workspace/sequtils/target/test-classes/Test_Genome true
2012-07-09 03:15:54,396 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Got FastaParser: 3346
2012-07-09 03:15:54,399 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Loading test genome: /media/ephemeral0/workspace/sequtils/target/test-classes/Test_Genome true
2012-07-09 03:15:54,400 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Got FastaParser: 3346
2012-07-09 03:15:54,406 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Loading test genome: /media/ephemeral0/workspace/sequtils/target/test-classes/Test_Genome true
2012-07-09 03:15:54,408 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Got FastaParser: 3346
2012-07-09 03:15:54,411 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Loading test genome: /media/ephemeral0/workspace/sequtils/target/test-classes/Test_Genome true
2012-07-09 03:15:54,413 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Got FastaParser: 3346
2012-07-09 03:15:54,418 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Loading test genome: /media/ephemeral0/workspace/sequtils/target/test-classes/Test_Genome true
2012-07-09 03:15:54,420 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Got FastaParser: 3346
2012-07-09 03:15:54,423 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Loading test genome: /media/ephemeral0/workspace/sequtils/target/test-classes/Test_Genome true
2012-07-09 03:15:54,425 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Got FastaParser: 3346
2012-07-09 03:15:54,432 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Loading test genome: /media/ephemeral0/workspace/sequtils/target/test-classes/Test_Genome true
2012-07-09 03:15:54,432 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Got FastaParser: 3346
2012-07-09 03:15:54,499 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Loading test genome: /media/ephemeral0/workspace/sequtils/target/test-classes/Test_Genome true
2012-07-09 03:15:54,499 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Got FastaParser: 3346
2012-07-09 03:15:54,501 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Loading test genome: /media/ephemeral0/workspace/sequtils/target/test-classes/Test_Genome true
2012-07-09 03:15:54,505 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Got FastaParser: 3346
2012-07-09 03:15:54,506 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Loading test genome: /media/ephemeral0/workspace/sequtils/target/test-classes/Test_Genome true
2012-07-09 03:15:54,508 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Got FastaParser: 3346
Tests run: 52, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 33.68 sec

Results :

Tests run: 52, Failures: 0, Errors: 0, Skipped: 0

mojoSucceeded org.apache.maven.plugins:maven-surefire-plugin:2.12(default-test)
[JENKINS] Recording test results
mojoStarted org.apache.maven.plugins:maven-jar-plugin:2.4(default-jar)
[INFO] 
[INFO] --- maven-jar-plugin:2.4:jar (default-jar) @ sequtils ---
[INFO] Building jar: /media/ephemeral0/workspace/sequtils/target/sequtils-0.91-SNAPSHOT.jar
mojoSucceeded org.apache.maven.plugins:maven-jar-plugin:2.4(default-jar)
mojoStarted org.apache.maven.plugins:maven-jar-plugin:2.4(default)
[INFO] 
[INFO] --- maven-jar-plugin:2.4:test-jar (default) @ sequtils ---
[INFO] Building jar: /media/ephemeral0/workspace/sequtils/target/sequtils-0.91-SNAPSHOT-tests.jar
mojoSucceeded org.apache.maven.plugins:maven-jar-plugin:2.4(default)
mojoStarted org.apache.maven.plugins:maven-jar-plugin:2.4(default)
[INFO] 
[INFO] --- maven-jar-plugin:2.4:jar (default) @ sequtils ---
mojoSucceeded org.apache.maven.plugins:maven-jar-plugin:2.4(default)
mojoStarted org.apache.maven.plugins:maven-jar-plugin:2.4(default-cli)
[INFO] 
[INFO] --- maven-jar-plugin:2.4:test-jar (default-cli) @ sequtils ---
[WARNING] Artifact edu.berkeley.compbio:sequtils:test-jar:tests:0.91-SNAPSHOT already attached to project, ignoring duplicate
mojoSucceeded org.apache.maven.plugins:maven-jar-plugin:2.4(default-cli)
projectSucceeded edu.berkeley.compbio:sequtils:0.91-SNAPSHOT
sessionEnded
[INFO] ------------------------------------------------------------------------
[INFO] BUILD SUCCESS
[INFO] ------------------------------------------------------------------------
[INFO] Total time: 2:03.836s
[INFO] Finished at: Mon Jul 09 03:16:31 UTC 2012
[INFO] Final Memory: 19M/49M
[INFO] ------------------------------------------------------------------------
Projects to build: [MavenProject: edu.berkeley.compbio:sequtils:0.91-SNAPSHOT @ /media/ephemeral0/workspace/sequtils/pom.xml]
[JENKINS] Archiving /media/ephemeral0/workspace/sequtils/pom.xml to /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/sequtils/modules/edu.berkeley.compbio$sequtils/builds/2012-07-08_23-14-07/archive/edu.berkeley.compbio/sequtils/0.91-SNAPSHOT/sequtils-0.91-SNAPSHOT.pom
[JENKINS] Archiving /media/ephemeral0/workspace/sequtils/target/sequtils-0.91-SNAPSHOT.jar to /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/sequtils/modules/edu.berkeley.compbio$sequtils/builds/2012-07-08_23-14-07/archive/edu.berkeley.compbio/sequtils/0.91-SNAPSHOT/sequtils-0.91-SNAPSHOT.jar
[JENKINS] Archiving /media/ephemeral0/workspace/sequtils/target/sequtils-0.91-SNAPSHOT-sources.jar to /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/sequtils/modules/edu.berkeley.compbio$sequtils/builds/2012-07-08_23-14-07/archive/edu.berkeley.compbio/sequtils/0.91-SNAPSHOT/sequtils-0.91-SNAPSHOT-sources.jar
[JENKINS] Archiving /media/ephemeral0/workspace/sequtils/target/sequtils-0.91-SNAPSHOT-tests.jar to /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/sequtils/modules/edu.berkeley.compbio$sequtils/builds/2012-07-08_23-14-07/archive/edu.berkeley.compbio/sequtils/0.91-SNAPSHOT/sequtils-0.91-SNAPSHOT-tests.jar
Waiting for Jenkins to finish collecting data
channel stopped
 your Apache Maven build is setup to use a config with id org.jenkinsci.plugins.configfiles.maven.MavenSettingsConfig1337980147845 but cannot find the config
Maven RedeployPublished use remote i-b4b502cc 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 sequtils-0.91-SNAPSHOT.jar
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Uploading: http://dev.davidsoergel.com/nexus/content/repositories/snapshots/edu/berkeley/compbio/sequtils/0.91-SNAPSHOT/sequtils-0.91-20120709.031640-8.jar
Uploaded: http://dev.davidsoergel.com/nexus/content/repositories/snapshots/edu/berkeley/compbio/sequtils/0.91-SNAPSHOT/sequtils-0.91-20120709.031640-8.jar (120 KB at 351.6 KB/sec)
Uploading: http://dev.davidsoergel.com/nexus/content/repositories/snapshots/edu/berkeley/compbio/sequtils/0.91-SNAPSHOT/sequtils-0.91-20120709.031640-8.pom
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Uploaded: http://dev.davidsoergel.com/nexus/content/repositories/snapshots/edu/berkeley/compbio/sequtils/maven-metadata.xml (287 B at 2.0 KB/sec)
Deploying the main artifact sequtils-0.91-SNAPSHOT-sources.jar
Uploading: dav:http://dev.davidsoergel.com/nexus/content/repositories/snapshots/edu/berkeley/compbio/sequtils/0.91-SNAPSHOT/sequtils-0.91-20120709.031640-8-sources.jar
Uploaded: dav:http://dev.davidsoergel.com/nexus/content/repositories/snapshots/edu/berkeley/compbio/sequtils/0.91-SNAPSHOT/sequtils-0.91-20120709.031640-8-sources.jar (151 KB at 367.0 KB/sec)
Uploading: http://dev.davidsoergel.com/nexus/content/repositories/snapshots/edu/berkeley/compbio/sequtils/0.91-SNAPSHOT/maven-metadata.xml
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Deploying the main artifact sequtils-0.91-SNAPSHOT-tests.jar
Uploading: dav:http://dev.davidsoergel.com/nexus/content/repositories/snapshots/edu/berkeley/compbio/sequtils/0.91-SNAPSHOT/sequtils-0.91-20120709.031640-8-tests.jar
Uploaded: dav:http://dev.davidsoergel.com/nexus/content/repositories/snapshots/edu/berkeley/compbio/sequtils/0.91-SNAPSHOT/sequtils-0.91-20120709.031640-8-tests.jar (31 KB at 101.2 KB/sec)
Uploading: http://dev.davidsoergel.com/nexus/content/repositories/snapshots/edu/berkeley/compbio/sequtils/0.91-SNAPSHOT/maven-metadata.xml
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[INFO] Deployment done in 5.2 sec
Sending e-mails to: dev@davidsoergel.com
Triggering a new build of pmax #16
Finished: SUCCESS