SuccessConsole Output

Started by user David Soergel
Building remotely on i-aefcc9c0 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 293ef9a874ad54c6393bf304d9aa370fb3be551f
[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 293ef9a874ad54c6393bf304d9aa370fb3be551f
Parsing POMs
[sequtils] $ 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 51022
<===[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...
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[INFO]                                                                         
[INFO] ------------------------------------------------------------------------
[INFO] Building sequtils 0.92-SNAPSHOT
[INFO] ------------------------------------------------------------------------
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[INFO] 
[INFO] --- maven-clean-plugin:2.4.1:clean (default-clean) @ sequtils ---
[INFO] 
[INFO] --- cobertura-maven-plugin:2.5.1:clean (clean) @ sequtils ---
Mar 21, 2013 2:09:33 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) @ sequtils ---
[INFO] Building jar: /media/ephemeral0/workspace/sequtils/target/sequtils-0.92-SNAPSHOT-sources.jar
[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
[INFO] 
[INFO] --- maven-compiler-plugin:2.4:compile (default-compile) @ sequtils ---
[INFO] Compiling 66 source files to /media/ephemeral0/workspace/sequtils/target/classes
[INFO] [debug] execute contextualize
[INFO] Using 'UTF-8' encoding to copy filtered resources.

[INFO] --- maven-resources-plugin:2.5:testResources (default-testResources) @ sequtils ---
[INFO] Copying 3 resources
[INFO] 
[INFO] --- maven-compiler-plugin:2.4:testCompile (default-testCompile) @ sequtils ---
[INFO] Compiling 11 source files to /media/ephemeral0/workspace/sequtils/target/test-classes
[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
2013-03-21 02:10:05,704 [main] WARN  edu.berkeley.compbio.sequtils.DynamicProgrammingPairwiseAlignerTest - GAATTCAGTTA
2013-03-21 02:10:05,797 [main] WARN  edu.berkeley.compbio.sequtils.DynamicProgrammingPairwiseAlignerTest - GGA-TC---GA
2013-03-21 02:10:05,802 [main] ERROR edu.berkeley.compbio.sequtils.SequenceArrayUtils - Bad char '71' in pattern: AC-GTRS
2013-03-21 02:10:05,807 [main] ERROR edu.berkeley.compbio.sequtils.SequenceArrayUtilsTest - [.-]*A[.-]*C[.-]*G[.-]*T[.-]*[AGR][.-]*[CGS]
2013-03-21 02:10:05,820 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaFileSetTest - Loading test genome: /media/ephemeral0/workspace/sequtils/target/test-classes/Test_Genome true
2013-03-21 02:10:05,821 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaFileSetTest - Got FastaFileSet: 3346
2013-03-21 02:10:05,825 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaFileSetTest - Loading test genome: /media/ephemeral0/workspace/sequtils/target/test-classes/Test_Genome true
2013-03-21 02:10:05,825 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaFileSetTest - Got FastaFileSet: 3346
2013-03-21 02:10:05,889 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaFileSetTest - Loading test genome: /media/ephemeral0/workspace/sequtils/target/test-classes/Test_Genome true
2013-03-21 02:10:05,890 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaFileSetTest - Got FastaFileSet: 3346
2013-03-21 02:10:05,906 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Loading test genome: /media/ephemeral0/workspace/sequtils/target/test-classes/Test_Genome true
2013-03-21 02:10:05,906 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Got FastaParser: 3346
2013-03-21 02:10:05,908 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Loading test genome: /media/ephemeral0/workspace/sequtils/target/test-classes/Test_Genome true
2013-03-21 02:10:05,919 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Got FastaParser: 3346
2013-03-21 02:10:05,921 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Loading test genome: /media/ephemeral0/workspace/sequtils/target/test-classes/Test_Genome true
2013-03-21 02:10:05,921 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Got FastaParser: 3346
2013-03-21 02:10:05,923 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Loading test genome: /media/ephemeral0/workspace/sequtils/target/test-classes/Test_Genome true
2013-03-21 02:10:05,923 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Got FastaParser: 3346
2013-03-21 02:10:05,924 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Loading test genome: /media/ephemeral0/workspace/sequtils/target/test-classes/Test_Genome true
2013-03-21 02:10:05,924 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Got FastaParser: 3346
2013-03-21 02:10:05,928 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Loading test genome: /media/ephemeral0/workspace/sequtils/target/test-classes/Test_Genome true
2013-03-21 02:10:05,929 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Got FastaParser: 3346
2013-03-21 02:10:05,932 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Loading test genome: /media/ephemeral0/workspace/sequtils/target/test-classes/Test_Genome true
2013-03-21 02:10:05,932 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Got FastaParser: 3346
2013-03-21 02:10:05,939 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Loading test genome: /media/ephemeral0/workspace/sequtils/target/test-classes/Test_Genome true
2013-03-21 02:10:05,940 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Got FastaParser: 3346
2013-03-21 02:10:05,944 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Loading test genome: /media/ephemeral0/workspace/sequtils/target/test-classes/Test_Genome true
2013-03-21 02:10:05,945 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Got FastaParser: 3346
2013-03-21 02:10:06,038 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Loading test genome: /media/ephemeral0/workspace/sequtils/target/test-classes/Test_Genome true
2013-03-21 02:10:06,038 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Got FastaParser: 3346
2013-03-21 02:10:06,039 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Loading test genome: /media/ephemeral0/workspace/sequtils/target/test-classes/Test_Genome true
2013-03-21 02:10:06,040 [main] INFO  edu.berkeley.compbio.sequtils.sequencereader.fasta.FastaParserTest - Got FastaParser: 3346
Tests run: 52, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 13.564 sec

Results :

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

[JENKINS] Recording test results
[INFO] 
[INFO] --- maven-jar-plugin:2.4:jar (default-jar) @ sequtils ---
[INFO] Building jar: /media/ephemeral0/workspace/sequtils/target/sequtils-0.92-SNAPSHOT.jar
[INFO] 
[INFO] --- maven-jar-plugin:2.4:test-jar (default) @ sequtils ---
[INFO] 
[INFO] --- maven-jar-plugin:2.4:jar (default) @ sequtils ---
[INFO] Building jar: /media/ephemeral0/workspace/sequtils/target/sequtils-0.92-SNAPSHOT-tests.jar
[INFO] 
[INFO] --- maven-jar-plugin:2.4:test-jar (default-cli) @ sequtils ---
[WARNING] Artifact edu.berkeley.compbio:sequtils:test-jar:tests:0.92-SNAPSHOT already attached to project, ignoring duplicate
[INFO] ------------------------------------------------------------------------
[INFO] BUILD SUCCESS
[INFO] ------------------------------------------------------------------------
[INFO] Total time: 1:12.253s
[INFO] Finished at: Thu Mar 21 02:10:25 UTC 2013
[INFO] Final Memory: 15M/42M
[INFO] ------------------------------------------------------------------------
[JENKINS] Archiving /media/ephemeral0/workspace/sequtils/pom.xml to /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/sequtils/modules/edu.berkeley.compbio$sequtils/builds/2013-03-20_22-09-02/archive/edu.berkeley.compbio/sequtils/0.92-SNAPSHOT/sequtils-0.92-SNAPSHOT.pom
[JENKINS] Archiving /media/ephemeral0/workspace/sequtils/target/sequtils-0.92-SNAPSHOT.jar to /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/sequtils/modules/edu.berkeley.compbio$sequtils/builds/2013-03-20_22-09-02/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$sequtils/builds/2013-03-20_22-09-02/archive/edu.berkeley.compbio/sequtils/0.92-SNAPSHOT/sequtils-0.92-SNAPSHOT-sources.jar
[JENKINS] Archiving /media/ephemeral0/workspace/sequtils/target/sequtils-0.92-SNAPSHOT-tests.jar to /usr/share/apache-tomcat-7.0.22/.jenkins/jobs/sequtils/modules/edu.berkeley.compbio$sequtils/builds/2013-03-20_22-09-02/archive/edu.berkeley.compbio/sequtils/0.92-SNAPSHOT/sequtils-0.92-SNAPSHOT-tests.jar
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Maven RedeployPublisher use remote i-aefcc9c0 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)
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Deploying the main artifact sequtils-0.92-SNAPSHOT-tests.jar
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Triggering a new build of msensr #16
Finished: SUCCESS