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
0 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 bd9f4b72edd5a8a244b18a36380c7283ae37ccdf
[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 bd9f4b72edd5a8a244b18a36380c7283ae37ccdf
 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 37122
<===[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:0.92-SNAPSHOT @ /media/ephemeral0/workspace/sequtils/pom.xml]
Downloading: http://repo.maven.apache.org/maven2/org/apache/maven/plugins/maven-metadata.xml
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projectStarted edu.berkeley.compbio:sequtils:0.92-SNAPSHOT
[INFO]                                                                         
[INFO] ------------------------------------------------------------------------
[INFO] Building sequtils 0.92-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 ---
[INFO] Deleting /media/ephemeral0/workspace/sequtils/target
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)
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 ---
Jul 09, 2012 3:39:54 AM hudson.maven.ExecutedMojo <init>
WARNING: Failed to getClass for org.apache.maven.plugin.source.SourceJarMojo
[INFO] Building jar: /media/ephemeral0/workspace/sequtils/target/sequtils-0.92-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)
mojoStarted org.apache.maven.plugins:maven-resources-plugin:2.5(default-testResources)[debug] execute contextualize
[INFO] Using 'UTF-8' encoding to copy filtered resources.

[INFO] 
[INFO] --- maven-resources-plugin:2.5:testResources (default-testResources) @ sequtils ---
[INFO] Copying 3 resources
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 03:40:22,425 [main] WARN  edu.berkeley.compbio.sequtils.DynamicProgrammingPairwiseAlignerTest - GAATTCAGTTA
2012-07-09 03:40:22,428 [main] WARN  edu.berkeley.compbio.sequtils.DynamicProgrammingPairwiseAlignerTest - GGA-TC---GA
2012-07-09 03:40:22,433 [main] ERROR edu.berkeley.compbio.sequtils.SequenceArrayUtils - Bad char '71' in pattern: AC-GTRS
2012-07-09 03:40:22,443 [main] ERROR edu.berkeley.compbio.sequtils.SequenceArrayUtilsTest - [.-]*A[.-]*C[.-]*G[.-]*T[.-]*[AGR][.-]*[CGS]
2012-07-09 03:40:22,458 [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 03:40:22,460 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaFileSetTest - Got FastaFileSet: 3346
2012-07-09 03:40:22,466 [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 03:40:22,467 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaFileSetTest - Got FastaFileSet: 3346
2012-07-09 03:40:22,474 [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 03:40:22,476 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaFileSetTest - Got FastaFileSet: 3346
2012-07-09 03:40:22,564 [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 03:40:22,565 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Got FastaParser: 3346
2012-07-09 03:40:22,569 [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 03:40:22,570 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Got FastaParser: 3346
2012-07-09 03:40:22,574 [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 03:40:22,575 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Got FastaParser: 3346
2012-07-09 03:40:22,581 [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 03:40:22,584 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Got FastaParser: 3346
2012-07-09 03:40:22,586 [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 03:40:22,586 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Got FastaParser: 3346
2012-07-09 03:40:22,591 [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 03:40:22,592 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Got FastaParser: 3346
2012-07-09 03:40:22,594 [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 03:40:22,596 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Got FastaParser: 3346
2012-07-09 03:40:22,601 [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 03:40:22,601 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Got FastaParser: 3346
2012-07-09 03:40:22,603 [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 03:40:22,665 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Got FastaParser: 3346
2012-07-09 03:40:22,669 [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 03:40:22,670 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Got FastaParser: 3346
2012-07-09 03:40:22,672 [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 03:40:22,675 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Got FastaParser: 3346
Tests run: 52, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 12.444 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-0.92-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] Building jar: /media/ephemeral0/workspace/sequtils/target/sequtils-0.92-SNAPSHOT-tests.jar
[INFO] 
[INFO] --- maven-jar-plugin:2.4:test-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)
[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)
[WARNING] Artifact edu.berkeley.compbio:sequtils:test-jar:tests:0.92-SNAPSHOT already attached to project, ignoring duplicate
[INFO] 
[INFO] --- maven-jar-plugin:2.4:test-jar (default-cli) @ sequtils ---
mojoSucceeded org.apache.maven.plugins:maven-jar-plugin:2.4(default-cli)
projectSucceeded edu.berkeley.compbio:sequtils:0.92-SNAPSHOT
sessionEnded
[INFO] ------------------------------------------------------------------------
[INFO] BUILD SUCCESS
[INFO] ------------------------------------------------------------------------
[INFO] Total time: 1:00.711s
[INFO] Finished at: Mon Jul 09 03:40:39 UTC 2012
[INFO] Final Memory: 19M/46M
[INFO] ------------------------------------------------------------------------
Projects to build: [MavenProject: edu.berkeley.compbio:sequtils:0.92-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$sequtils/builds/2012-07-08_23-39-22/archive/edu.berkeley.compbio/sequtils/0.92-SNAPSHOT/sequtils-0.92-SNAPSHOT.pom
[JENKINS] Archiving /media/ephemeral0/workspace/sequtils/target/sequtils-0.92-SNAPSHOT.jar to /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/sequtils/modules/edu.berkeley.compbio$sequtils/builds/2012-07-08_23-39-22/archive/edu.berkeley.compbio/sequtils/0.92-SNAPSHOT/sequtils-0.92-SNAPSHOT.jar
[JENKINS] Archiving /media/ephemeral0/workspace/sequtils/target/sequtils-0.92-SNAPSHOT-sources.jar to /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/sequtils/modules/edu.berkeley.compbio$sequtils/builds/2012-07-08_23-39-22/archive/edu.berkeley.compbio/sequtils/0.92-SNAPSHOT/sequtils-0.92-SNAPSHOT-sources.jar
[JENKINS] Archiving /media/ephemeral0/workspace/sequtils/target/sequtils-0.92-SNAPSHOT-tests.jar to /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/sequtils/modules/edu.berkeley.compbio$sequtils/builds/2012-07-08_23-39-22/archive/edu.berkeley.compbio/sequtils/0.92-SNAPSHOT/sequtils-0.92-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-0.92-SNAPSHOT.jar
Downloading: dav:http://dev.davidsoergel.com/nexus/content/repositories/snapshots/edu/berkeley/compbio/sequtils/0.92-SNAPSHOT/maven-metadata.xml
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Uploaded: http://dev.davidsoergel.com/nexus/content/repositories/snapshots/edu/berkeley/compbio/sequtils/0.92-SNAPSHOT/sequtils-0.92-20120709.034045-1.pom (5 KB at 27.6 KB/sec)
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Deploying the main artifact sequtils-0.92-SNAPSHOT-sources.jar
Uploading: dav:http://dev.davidsoergel.com/nexus/content/repositories/snapshots/edu/berkeley/compbio/sequtils/0.92-SNAPSHOT/sequtils-0.92-20120709.034045-1-sources.jar
Uploaded: dav:http://dev.davidsoergel.com/nexus/content/repositories/snapshots/edu/berkeley/compbio/sequtils/0.92-SNAPSHOT/sequtils-0.92-20120709.034045-1-sources.jar (151 KB at 318.0 KB/sec)
Uploading: http://dev.davidsoergel.com/nexus/content/repositories/snapshots/edu/berkeley/compbio/sequtils/0.92-SNAPSHOT/maven-metadata.xml
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Deploying the main artifact sequtils-0.92-SNAPSHOT-tests.jar
Uploading: dav:http://dev.davidsoergel.com/nexus/content/repositories/snapshots/edu/berkeley/compbio/sequtils/0.92-SNAPSHOT/sequtils-0.92-20120709.034045-1-tests.jar
Uploaded: dav:http://dev.davidsoergel.com/nexus/content/repositories/snapshots/edu/berkeley/compbio/sequtils/0.92-SNAPSHOT/sequtils-0.92-20120709.034045-1-tests.jar (31 KB at 159.9 KB/sec)
Uploading: http://dev.davidsoergel.com/nexus/content/repositories/snapshots/edu/berkeley/compbio/sequtils/0.92-SNAPSHOT/maven-metadata.xml
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[INFO] Deployment done in 2.5 sec
Triggering a new build of pmax #18
Finished: SUCCESS