SuccessConsole Output

Skipping 241 KB.. Full Log
kDgMEMDIxMFQUlDDI2RQXJOYpFJdU5qTaKoEttlJQNjBwdjEwsFayAwAsE8VZpQAAAA==- create partition from iterator
- get values from iterator-created partition
- correctly fetches data that is initially unsorted
- put some for iterator of intervals and key-values
- get some for iterator of intervals
- selectively getting intervals
- putting differing number of reads into different regions
- putting then getting a region that overlaps 3 regions
- applying a predicate
- applying a map
IntervalArraySuite:
- succeeds in searching empty IntervalArray
- build a IntervalArray with a single item and retrieve data
- build a IntervalArray out of multiple datapoints and retrieve data
- verify get with requireOverlap set to false on IntervalArray retrieves nearest data
- verify IntervalArray fetches all valid ranges
- inserts new elements into IntervalArray
Run completed in 6 seconds, 225 milliseconds.
Total number of tests run: 31
Suites: completed 4, aborted 0
Tests: succeeded 31, failed 0, canceled 0, ignored 0, pending 0
All tests passed.
[INFO] 
[INFO] >>> scoverage-maven-plugin:1.1.1:report (default-cli) > [scoverage]test @ utils-intervalrdd-spark2_2.11 >>>
[INFO] 
[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-versions) @ utils-intervalrdd-spark2_2.11 ---
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[INFO] 
[INFO] --- build-helper-maven-plugin:3.0.0:add-source (add-source) @ utils-intervalrdd-spark2_2.11 ---
[INFO] Source directory: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-intervalrdd/src/main/scala added.
[INFO] 
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[INFO] Modified 0 of 8 .scala files
[INFO] 
[INFO] --- scoverage-maven-plugin:1.1.1:pre-compile (default-cli) @ utils-intervalrdd-spark2_2.11 ---
[INFO] 
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[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] skip non existing resourceDirectory /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-intervalrdd/src/main/resources
[INFO] 
[INFO] --- scala-maven-plugin:3.2.2:compile (scala-compile-first) @ utils-intervalrdd-spark2_2.11 ---
[INFO] /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-intervalrdd/src/main/scala:-1: info: compiling
[INFO] Compiling 5 source files to /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-intervalrdd/target/2.11.12/scoverage-classes at 1575359141663
[INFO] [info] Cleaning datadir [/home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-intervalrdd/target/scoverage-data]
[INFO] [info] Beginning coverage instrumentation
[INFO] [info] Instrumentation completed [361 statements]
[INFO] [info] Wrote instrumentation file [/home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-intervalrdd/target/scoverage-data/scoverage.coverage.xml]
[INFO] [info] Will write measurement data to [/home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-intervalrdd/target/scoverage-data]
[WARNING] warning: there were two deprecation warnings; re-run with -deprecation for details
[WARNING] one warning found
[INFO] prepare-compile in 0 s
[INFO] compile in 6 s
[INFO] 
[INFO] --- maven-compiler-plugin:3.8.0:compile (default-compile) @ utils-intervalrdd-spark2_2.11 ---
[INFO] Nothing to compile - all classes are up to date
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[INFO] 
[INFO] --- build-helper-maven-plugin:3.0.0:add-test-source (add-test-source) @ utils-intervalrdd-spark2_2.11 ---
[INFO] Test Source directory: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-intervalrdd/src/test/scala added.
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[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] skip non existing resourceDirectory /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-intervalrdd/src/test/resources
[INFO] 
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[INFO] Nothing to compile - all classes are up to date
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[INFO] Nothing to compile - all classes are up to date
[INFO] 
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[INFO] Tests are skipped.
[INFO] 
[INFO] --- scalatest-maven-plugin:2.0.0:test (test) @ utils-intervalrdd-spark2_2.11 ---
Discovery starting.
Discovery completed in 251 milliseconds.
Run starting. Expected test count is: 31
IntervalRDDSuite:
2019-12-02 23:45:49 WARN  Utils:66 - Your hostname, research-jenkins-worker-09 resolves to a loopback address: 127.0.1.1; using 192.168.10.31 instead (on interface enp4s0f0)
2019-12-02 23:45:49 WARN  Utils:66 - Set SPARK_LOCAL_IP if you need to bind to another address
2019-12-02 23:45:49 WARN  NativeCodeLoader:62 - Unable to load native-hadoop library for your platform... using builtin-java classes where applicable
- create IntervalRDD from RDD of datatype string
- merge new values into existing IntervalRDD
- call put multiple times on data with same interval
- test filterByInterval
- verify no data is lost in conversion from rdd to intervalrdd
- count data where chromosome partitions overlap
- get data where chromosome partitions overlap
- apply predicate to the RDD
- testing collect
- test before and after toRDD sizes are the same
- testing mapValues
- Attempt to access data from non existing key
- Delete values from rdd
- Repartitions IntervalRDD
IntervalPartitionSuite:
- create new partition
- create partition from iterator
- get values from iterator-created partition
- correctly fetches data that is initially unsorted
- put some for iterator of intervals and key-values
- get some for iterator of intervals
- selectively getting intervals
- putting differing number of reads into different regions
- putting then getting a region that overlaps 3 regions
- applying a predicate
- applying a map
IntervalArraySuite:
- succeeds in searching empty IntervalArray
- build a IntervalArray with a single item and retrieve data
- build a IntervalArray out of multiple datapoints and retrieve data
- verify get with requireOverlap set to false on IntervalArray retrieves nearest data
- verify IntervalArray fetches all valid ranges
- inserts new elements into IntervalArray
Run completed in 6 seconds, 975 milliseconds.
Total number of tests run: 31
Suites: completed 4, aborted 0
Tests: succeeded 31, failed 0, canceled 0, ignored 0, pending 0
All tests passed.
[INFO] 
[INFO] <<< scoverage-maven-plugin:1.1.1:report (default-cli) < [scoverage]test @ utils-intervalrdd-spark2_2.11 <<<
[INFO] 
[INFO] --- scoverage-maven-plugin:1.1.1:report (default-cli) @ utils-intervalrdd-spark2_2.11 ---
[INFO] [scoverage] Generating cobertura XML report...
[INFO] [scoverage] Generating scoverage XML report...
[INFO] [scoverage] Generating scoverage HTML report...
[INFO] [scoverage] Generating aggregated cobertura XML report...
[INFO] [scoverage] Generating aggregated scoverage XML report...
[INFO] [scoverage] Generating aggregated scoverage HTML report...
[INFO]                                                                         
[INFO] ------------------------------------------------------------------------
[INFO] Building utils 0.2.16-SNAPSHOT
[INFO] ------------------------------------------------------------------------
[INFO] 
[INFO] --- coveralls-maven-plugin:4.3.0:report (default-cli) @ utils-parent-spark2_2.11 ---
[INFO] Starting Coveralls job for jenkins (1880 / https://amplab.cs.berkeley.edu/jenkins/job/bdg-utils/HADOOP_VERSION=2.7.5,SCALA_VERSION=2.11,SPARK_VERSION=2.4.0,label=ubuntu/1880/)
[INFO] Using repository token <secret>
[INFO] Git commit c2cce29 in master
[INFO] Writing Coveralls data to /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/target/coveralls.json...
[INFO] Processing coverage report from /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/target/cobertura.xml
[INFO] Successfully wrote Coveralls data in 197ms
[INFO] Gathered code coverage metrics for 50 source files with 6217 lines of code:
[INFO] - 1540 relevant lines
[INFO] - 834 covered lines
[INFO] - 706 missed lines
[INFO] Submitting Coveralls data to API
[INFO] Successfully submitted Coveralls data in 714ms for Job #1880.2
[INFO] https://coveralls.io/jobs/56395630
[INFO] *** It might take hours for Coveralls to update the actual coverage numbers for a job
[INFO]     If you see question marks in the report, please be patient
[INFO] ------------------------------------------------------------------------
[INFO] Reactor Summary:
[INFO] 
[INFO] utils .............................................. SUCCESS [  1.573 s]
[INFO] utils-misc-spark2_2.11: Miscellaneous Spark utility code SUCCESS [ 32.959 s]
[INFO] utils-minhash-spark2_2.11: MinHash-based Jaccard similarity estimator SUCCESS [ 46.025 s]
[INFO] utils-metrics-spark2_2.11: tools for collecting metrics on top of RDDs SUCCESS [ 56.028 s]
[INFO] utils-io-spark2_2.11: I/O utils .................... SUCCESS [ 14.886 s]
[INFO] utils-statistics-spark2_2.11: Spark code for fitting statistical models SUCCESS [ 34.061 s]
[INFO] utils-cli-spark2_2.11: utilities for building command line applications SUCCESS [  9.862 s]
[INFO] utils-serialization-spark2_2.11: tools for serializing data SUCCESS [ 10.241 s]
[INFO] utils-intervalrdd-spark2_2.11: IntervalRDD based on interval tree SUCCESS [ 39.012 s]
[INFO] ------------------------------------------------------------------------
[INFO] BUILD SUCCESS
[INFO] ------------------------------------------------------------------------
[INFO] Total time: 04:09 min
[INFO] Finished at: 2019-12-02T23:45:59-08:00
[INFO] Final Memory: 58M/1453M
[INFO] ------------------------------------------------------------------------

# we are done with maven, so clean up the maven temp dir
find ${UTILS_MVN_TMP_DIR}
+ find /tmp/utilsTestMvnwvU6BZa
/tmp/utilsTestMvnwvU6BZa
/tmp/utilsTestMvnwvU6BZa/LocalFileLocatorSuite4613088049090792982test
/tmp/utilsTestMvnwvU6BZa/LocalFileLocatorSuite989577710761237522test
/tmp/utilsTestMvnwvU6BZa/test.txt738203027872134441.txt
/tmp/utilsTestMvnwvU6BZa/LocalFileLocatorSuite3112935888538730664test
/tmp/utilsTestMvnwvU6BZa/LocalFileLocatorSuite1297860448662136628test
/tmp/utilsTestMvnwvU6BZa/LocalFileLocatorSuite8768816350492454676test
/tmp/utilsTestMvnwvU6BZa/LocalFileLocatorSuite7971051135500891133test
/tmp/utilsTestMvnwvU6BZa/test.txt5292465853538412367.txt
rm -rf ${UTILS_MVN_TMP_DIR}
+ rm -rf /tmp/utilsTestMvnwvU6BZa

echo
+ echo

echo "All the tests passed"
+ echo 'All the tests passed'
All the tests passed
echo
+ echo

+ '[' 2.7.5 == 2.7.5 ']'
+ mvn --settings=/home/jenkins/workspace/settings.xml deploy -DskipTests -Pdistribution
[INFO] Scanning for projects...
[INFO] ------------------------------------------------------------------------
[INFO] Reactor Build Order:
[INFO] 
[INFO] utils
[INFO] utils-misc-spark2_2.11: Miscellaneous Spark utility code
[INFO] utils-minhash-spark2_2.11: MinHash-based Jaccard similarity estimator
[INFO] utils-metrics-spark2_2.11: tools for collecting metrics on top of RDDs
[INFO] utils-io-spark2_2.11: I/O utils
[INFO] utils-statistics-spark2_2.11: Spark code for fitting statistical models
[INFO] utils-cli-spark2_2.11: utilities for building command line applications
[INFO] utils-serialization-spark2_2.11: tools for serializing data
[INFO] utils-intervalrdd-spark2_2.11: IntervalRDD based on interval tree
[INFO]                                                                         
[INFO] ------------------------------------------------------------------------
[INFO] Building utils 0.2.16-SNAPSHOT
[INFO] ------------------------------------------------------------------------
[INFO] 
[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-versions) @ utils-parent-spark2_2.11 ---
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[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-maven) @ utils-parent-spark2_2.11 ---
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[INFO] --- scalariform-maven-plugin:0.1.4:format (default-cli) @ utils-parent-spark2_2.11 ---
[INFO] Modified 0 of 81 .scala files
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[INFO] --- scala-maven-plugin:3.2.2:compile (scala-compile-first) @ utils-parent-spark2_2.11 ---
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[INFO] No sources to compile
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[INFO] >>> scala-maven-plugin:3.2.2:doc-jar (attach-scaladocs) > generate-sources @ utils-parent-spark2_2.11 >>>
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[INFO] 
[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-maven) @ utils-parent-spark2_2.11 ---
[INFO] 
[INFO] <<< scala-maven-plugin:3.2.2:doc-jar (attach-scaladocs) < generate-sources @ utils-parent-spark2_2.11 <<<
[INFO] 
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[INFO] 
[INFO] --- maven-install-plugin:3.0.0-M1:install (default-install) @ utils-parent-spark2_2.11 ---
[INFO] Installing /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/pom.xml to /home/jenkins/.m2/repository/org/bdgenomics/utils/utils-parent-spark2_2.11/0.2.16-SNAPSHOT/utils-parent-spark2_2.11-0.2.16-SNAPSHOT.pom
[INFO] 
[INFO] --- maven-deploy-plugin:3.0.0-M1:deploy (default-deploy) @ utils-parent-spark2_2.11 ---
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Uploading: https://oss.sonatype.org/content/repositories/snapshots/org/bdgenomics/utils/utils-parent-spark2_2.11/0.2.16-SNAPSHOT/utils-parent-spark2_2.11-0.2.16-20191203.074606-128.pom
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[INFO]                                                                         
[INFO] ------------------------------------------------------------------------
[INFO] Building utils-misc-spark2_2.11: Miscellaneous Spark utility code 0.2.16-SNAPSHOT
[INFO] ------------------------------------------------------------------------
[INFO] 
[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-versions) @ utils-misc-spark2_2.11 ---
[INFO] 
[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-maven) @ utils-misc-spark2_2.11 ---
[INFO] 
[INFO] --- build-helper-maven-plugin:3.0.0:add-source (add-source) @ utils-misc-spark2_2.11 ---
[INFO] Source directory: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-misc/src/main/scala added.
[INFO] 
[INFO] --- scalariform-maven-plugin:0.1.4:format (default-cli) @ utils-misc-spark2_2.11 ---
[INFO] Modified 0 of 7 .scala files
[INFO] 
[INFO] --- maven-resources-plugin:3.1.0:resources (default-resources) @ utils-misc-spark2_2.11 ---
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] Copying 1 resource
[INFO] 
[INFO] --- scala-maven-plugin:3.2.2:compile (scala-compile-first) @ utils-misc-spark2_2.11 ---
[INFO] Nothing to compile - all classes are up to date
[INFO] 
[INFO] --- maven-compiler-plugin:3.8.0:compile (default-compile) @ utils-misc-spark2_2.11 ---
[INFO] Nothing to compile - all classes are up to date
[INFO] 
[INFO] --- build-helper-maven-plugin:3.0.0:add-test-source (add-test-source) @ utils-misc-spark2_2.11 ---
[INFO] Test Source directory: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-misc/src/test/scala added.
[INFO] 
[INFO] --- maven-resources-plugin:3.1.0:testResources (default-testResources) @ utils-misc-spark2_2.11 ---
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] Copying 1 resource
[INFO] 
[INFO] --- scala-maven-plugin:3.2.2:testCompile (scala-test-compile-first) @ utils-misc-spark2_2.11 ---
[INFO] Nothing to compile - all classes are up to date
[INFO] 
[INFO] --- maven-compiler-plugin:3.8.0:testCompile (default-testCompile) @ utils-misc-spark2_2.11 ---
[INFO] Nothing to compile - all classes are up to date
[INFO] 
[INFO] --- maven-surefire-plugin:3.0.0-M3:test (default-test) @ utils-misc-spark2_2.11 ---
[INFO] Tests are skipped.
[INFO] 
[INFO] --- scalatest-maven-plugin:2.0.0:test (test) @ utils-misc-spark2_2.11 ---
[INFO] Tests are skipped.
[INFO] 
[INFO] --- maven-jar-plugin:3.1.1:jar (default-jar) @ utils-misc-spark2_2.11 ---
[INFO] Building jar: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-misc/target/utils-misc-spark2_2.11-0.2.16-SNAPSHOT.jar
[INFO] 
[INFO] --- maven-jar-plugin:3.1.1:test-jar (default) @ utils-misc-spark2_2.11 ---
[INFO] Building jar: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-misc/target/utils-misc-spark2_2.11-0.2.16-SNAPSHOT-tests.jar
[INFO] 
[INFO] >>> scala-maven-plugin:3.2.2:doc-jar (attach-scaladocs) > generate-sources @ utils-misc-spark2_2.11 >>>
[INFO] 
[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-versions) @ utils-misc-spark2_2.11 ---
[INFO] 
[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-maven) @ utils-misc-spark2_2.11 ---
[INFO] 
[INFO] --- build-helper-maven-plugin:3.0.0:add-source (add-source) @ utils-misc-spark2_2.11 ---
[INFO] Source directory: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-misc/src/main/scala added.
[INFO] 
[INFO] <<< scala-maven-plugin:3.2.2:doc-jar (attach-scaladocs) < generate-sources @ utils-misc-spark2_2.11 <<<
[INFO] 
[INFO] --- scala-maven-plugin:3.2.2:doc-jar (attach-scaladocs) @ utils-misc-spark2_2.11 ---
model contains 8 documentable templates
[INFO] Building jar: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-misc/target/utils-misc-spark2_2.11-0.2.16-SNAPSHOT-javadoc.jar
[INFO] 
[INFO] --- maven-install-plugin:3.0.0-M1:install (default-install) @ utils-misc-spark2_2.11 ---
[INFO] Installing /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-misc/target/utils-misc-spark2_2.11-0.2.16-SNAPSHOT.jar to /home/jenkins/.m2/repository/org/bdgenomics/utils/utils-misc-spark2_2.11/0.2.16-SNAPSHOT/utils-misc-spark2_2.11-0.2.16-SNAPSHOT.jar
[INFO] Installing /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-misc/pom.xml to /home/jenkins/.m2/repository/org/bdgenomics/utils/utils-misc-spark2_2.11/0.2.16-SNAPSHOT/utils-misc-spark2_2.11-0.2.16-SNAPSHOT.pom
[INFO] Installing /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-misc/target/utils-misc-spark2_2.11-0.2.16-SNAPSHOT-tests.jar to /home/jenkins/.m2/repository/org/bdgenomics/utils/utils-misc-spark2_2.11/0.2.16-SNAPSHOT/utils-misc-spark2_2.11-0.2.16-SNAPSHOT-tests.jar
[INFO] Installing /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-misc/target/utils-misc-spark2_2.11-0.2.16-SNAPSHOT-javadoc.jar to /home/jenkins/.m2/repository/org/bdgenomics/utils/utils-misc-spark2_2.11/0.2.16-SNAPSHOT/utils-misc-spark2_2.11-0.2.16-SNAPSHOT-javadoc.jar
[INFO] 
[INFO] --- maven-deploy-plugin:3.0.0-M1:deploy (default-deploy) @ utils-misc-spark2_2.11 ---
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[INFO]                                                                         
[INFO] ------------------------------------------------------------------------
[INFO] Building utils-minhash-spark2_2.11: MinHash-based Jaccard similarity estimator 0.2.16-SNAPSHOT
[INFO] ------------------------------------------------------------------------
[INFO] 
[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-versions) @ utils-minhash-spark2_2.11 ---
[INFO] 
[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-maven) @ utils-minhash-spark2_2.11 ---
[INFO] 
[INFO] --- build-helper-maven-plugin:3.0.0:add-source (add-source) @ utils-minhash-spark2_2.11 ---
[INFO] Source directory: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-minhash/src/main/scala added.
[INFO] 
[INFO] --- scalariform-maven-plugin:0.1.4:format (default-cli) @ utils-minhash-spark2_2.11 ---
[INFO] Modified 0 of 8 .scala files
[INFO] 
[INFO] --- maven-resources-plugin:3.1.0:resources (default-resources) @ utils-minhash-spark2_2.11 ---
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] skip non existing resourceDirectory /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-minhash/src/main/resources
[INFO] 
[INFO] --- scala-maven-plugin:3.2.2:compile (scala-compile-first) @ utils-minhash-spark2_2.11 ---
[INFO] Nothing to compile - all classes are up to date
[INFO] 
[INFO] --- maven-compiler-plugin:3.8.0:compile (default-compile) @ utils-minhash-spark2_2.11 ---
[INFO] Nothing to compile - all classes are up to date
[INFO] 
[INFO] --- build-helper-maven-plugin:3.0.0:add-test-source (add-test-source) @ utils-minhash-spark2_2.11 ---
[INFO] Test Source directory: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-minhash/src/test/scala added.
[INFO] 
[INFO] --- maven-resources-plugin:3.1.0:testResources (default-testResources) @ utils-minhash-spark2_2.11 ---
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] skip non existing resourceDirectory /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-minhash/src/test/resources
[INFO] 
[INFO] --- scala-maven-plugin:3.2.2:testCompile (scala-test-compile-first) @ utils-minhash-spark2_2.11 ---
[INFO] Nothing to compile - all classes are up to date
[INFO] 
[INFO] --- maven-compiler-plugin:3.8.0:testCompile (default-testCompile) @ utils-minhash-spark2_2.11 ---
[INFO] Nothing to compile - all classes are up to date
[INFO] 
[INFO] --- maven-surefire-plugin:3.0.0-M3:test (default-test) @ utils-minhash-spark2_2.11 ---
[INFO] Tests are skipped.
[INFO] 
[INFO] --- scalatest-maven-plugin:2.0.0:test (test) @ utils-minhash-spark2_2.11 ---
[INFO] Tests are skipped.
[INFO] 
[INFO] --- maven-jar-plugin:3.1.1:jar (default-jar) @ utils-minhash-spark2_2.11 ---
[INFO] Building jar: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-minhash/target/utils-minhash-spark2_2.11-0.2.16-SNAPSHOT.jar
[INFO] 
[INFO] --- maven-jar-plugin:3.1.1:test-jar (default) @ utils-minhash-spark2_2.11 ---
[INFO] Building jar: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-minhash/target/utils-minhash-spark2_2.11-0.2.16-SNAPSHOT-tests.jar
[INFO] 
[INFO] >>> scala-maven-plugin:3.2.2:doc-jar (attach-scaladocs) > generate-sources @ utils-minhash-spark2_2.11 >>>
[INFO] 
[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-versions) @ utils-minhash-spark2_2.11 ---
[INFO] 
[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-maven) @ utils-minhash-spark2_2.11 ---
[INFO] 
[INFO] --- build-helper-maven-plugin:3.0.0:add-source (add-source) @ utils-minhash-spark2_2.11 ---
[INFO] Source directory: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-minhash/src/main/scala added.
[INFO] 
[INFO] <<< scala-maven-plugin:3.2.2:doc-jar (attach-scaladocs) < generate-sources @ utils-minhash-spark2_2.11 <<<
[INFO] 
[INFO] --- scala-maven-plugin:3.2.2:doc-jar (attach-scaladocs) @ utils-minhash-spark2_2.11 ---
model contains 10 documentable templates
/home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-minhash/src/main/scala/org/bdgenomics/utils/minhash/MinHash.scala:72: warning: Could not find any member to link for "IllegalArgumentException".
  /**
  ^
one warning found
[INFO] Building jar: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-minhash/target/utils-minhash-spark2_2.11-0.2.16-SNAPSHOT-javadoc.jar
[INFO] 
[INFO] --- maven-install-plugin:3.0.0-M1:install (default-install) @ utils-minhash-spark2_2.11 ---
[INFO] Installing /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-minhash/target/utils-minhash-spark2_2.11-0.2.16-SNAPSHOT.jar to /home/jenkins/.m2/repository/org/bdgenomics/utils/utils-minhash-spark2_2.11/0.2.16-SNAPSHOT/utils-minhash-spark2_2.11-0.2.16-SNAPSHOT.jar
[INFO] Installing /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-minhash/pom.xml to /home/jenkins/.m2/repository/org/bdgenomics/utils/utils-minhash-spark2_2.11/0.2.16-SNAPSHOT/utils-minhash-spark2_2.11-0.2.16-SNAPSHOT.pom
[INFO] Installing /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-minhash/target/utils-minhash-spark2_2.11-0.2.16-SNAPSHOT-tests.jar to /home/jenkins/.m2/repository/org/bdgenomics/utils/utils-minhash-spark2_2.11/0.2.16-SNAPSHOT/utils-minhash-spark2_2.11-0.2.16-SNAPSHOT-tests.jar
[INFO] Installing /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-minhash/target/utils-minhash-spark2_2.11-0.2.16-SNAPSHOT-javadoc.jar to /home/jenkins/.m2/repository/org/bdgenomics/utils/utils-minhash-spark2_2.11/0.2.16-SNAPSHOT/utils-minhash-spark2_2.11-0.2.16-SNAPSHOT-javadoc.jar
[INFO] 
[INFO] --- maven-deploy-plugin:3.0.0-M1:deploy (default-deploy) @ utils-minhash-spark2_2.11 ---
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Uploaded: https://oss.sonatype.org/content/repositories/snapshots/org/bdgenomics/utils/utils-minhash-spark2_2.11/maven-metadata.xml (531 B at 1.3 KB/sec)
[INFO]                                                                         
[INFO] ------------------------------------------------------------------------
[INFO] Building utils-metrics-spark2_2.11: tools for collecting metrics on top of RDDs 0.2.16-SNAPSHOT
[INFO] ------------------------------------------------------------------------
[INFO] 
[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-versions) @ utils-metrics-spark2_2.11 ---
[INFO] 
[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-maven) @ utils-metrics-spark2_2.11 ---
[INFO] 
[INFO] --- build-helper-maven-plugin:3.0.0:add-source (add-source) @ utils-metrics-spark2_2.11 ---
[INFO] Source directory: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-metrics/src/main/scala added.
[INFO] 
[INFO] --- scalariform-maven-plugin:0.1.4:format (default-cli) @ utils-metrics-spark2_2.11 ---
[INFO] Modified 0 of 39 .scala files
[INFO] 
[INFO] --- maven-resources-plugin:3.1.0:resources (default-resources) @ utils-metrics-spark2_2.11 ---
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] skip non existing resourceDirectory /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-metrics/src/main/resources
[INFO] 
[INFO] --- scala-maven-plugin:3.2.2:compile (scala-compile-first) @ utils-metrics-spark2_2.11 ---
[INFO] Nothing to compile - all classes are up to date
[INFO] 
[INFO] --- maven-compiler-plugin:3.8.0:compile (default-compile) @ utils-metrics-spark2_2.11 ---
[INFO] Nothing to compile - all classes are up to date
[INFO] 
[INFO] --- build-helper-maven-plugin:3.0.0:add-test-source (add-test-source) @ utils-metrics-spark2_2.11 ---
[INFO] Test Source directory: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-metrics/src/test/scala added.
[INFO] 
[INFO] --- maven-resources-plugin:3.1.0:testResources (default-testResources) @ utils-metrics-spark2_2.11 ---
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] skip non existing resourceDirectory /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-metrics/src/test/resources
[INFO] 
[INFO] --- scala-maven-plugin:3.2.2:testCompile (scala-test-compile-first) @ utils-metrics-spark2_2.11 ---
[INFO] Nothing to compile - all classes are up to date
[INFO] 
[INFO] --- maven-compiler-plugin:3.8.0:testCompile (default-testCompile) @ utils-metrics-spark2_2.11 ---
[INFO] Nothing to compile - all classes are up to date
[INFO] 
[INFO] --- maven-surefire-plugin:3.0.0-M3:test (default-test) @ utils-metrics-spark2_2.11 ---
[INFO] Tests are skipped.
[INFO] 
[INFO] --- scalatest-maven-plugin:2.0.0:test (test) @ utils-metrics-spark2_2.11 ---
[INFO] Tests are skipped.
[INFO] 
[INFO] --- maven-jar-plugin:3.1.1:jar (default-jar) @ utils-metrics-spark2_2.11 ---
[INFO] Building jar: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-metrics/target/utils-metrics-spark2_2.11-0.2.16-SNAPSHOT.jar
[INFO] 
[INFO] --- maven-jar-plugin:3.1.1:test-jar (default) @ utils-metrics-spark2_2.11 ---
[INFO] Building jar: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-metrics/target/utils-metrics-spark2_2.11-0.2.16-SNAPSHOT-tests.jar
[INFO] 
[INFO] >>> scala-maven-plugin:3.2.2:doc-jar (attach-scaladocs) > generate-sources @ utils-metrics-spark2_2.11 >>>
[INFO] 
[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-versions) @ utils-metrics-spark2_2.11 ---
[INFO] 
[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-maven) @ utils-metrics-spark2_2.11 ---
[INFO] 
[INFO] --- build-helper-maven-plugin:3.0.0:add-source (add-source) @ utils-metrics-spark2_2.11 ---
[INFO] Source directory: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-metrics/src/main/scala added.
[INFO] 
[INFO] <<< scala-maven-plugin:3.2.2:doc-jar (attach-scaladocs) < generate-sources @ utils-metrics-spark2_2.11 <<<
[INFO] 
[INFO] --- scala-maven-plugin:3.2.2:doc-jar (attach-scaladocs) @ utils-metrics-spark2_2.11 ---
/home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-metrics/src/main/scala/org/bdgenomics/utils/instrumentation/ServoTimer.scala:44: warning: no valid targets for annotation on value tags - it is discarded unused. You may specify targets with meta-annotations, e.g. @(transient @param)
class ServoTimer(name: String, @transient tags: Tag*) extends ConfigurableMonitor(name, tags)
                                ^
/home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-metrics/src/main/scala/org/bdgenomics/utils/instrumentation/ServoTimer.scala:165: warning: no valid targets for annotation on value tags - it is discarded unused. You may specify targets with meta-annotations, e.g. @(transient @param)
  private class LongValueStatMonitor(name: String, @transient tags: Seq[Tag], function: () => Long)
                                                    ^
/home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-metrics/src/main/scala/org/bdgenomics/utils/instrumentation/ServoTimer.scala:175: warning: no valid targets for annotation on value tags - it is discarded unused. You may specify targets with meta-annotations, e.g. @(transient @param)
  private class ConditionalGauge(name: String, @transient tags: Seq[Tag], condition: (Long, Long) => Boolean)
                                                ^
/home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-metrics/src/main/scala/org/bdgenomics/utils/instrumentation/ServoTimer.scala:219: warning: no valid targets for annotation on value tags - it is discarded unused. You may specify targets with meta-annotations, e.g. @(transient @param)
abstract class ConfigurableMonitor(val name: String, @transient tags: Seq[Tag])
                                                      ^
warning: there were three feature warnings; re-run with -feature for details
model contains 63 documentable templates
/home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-metrics/src/main/scala/org/apache/spark/rdd/InstrumentedOrderedRDDFunctions.scala:24: warning: Could not find any member to link for "OrderedRDDFunctions".
/**
^
/home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-metrics/src/main/scala/org/apache/spark/rdd/InstrumentedOutputFormat.scala:23: warning: Could not find any member to link for "org.apache.hadoop.mapreduce.OutputFormat".
/**
^
/home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-metrics/src/main/scala/org/apache/spark/rdd/InstrumentedOutputFormat.scala:23: warning: Could not find any member to link for "RecordWriter".
/**
^
/home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-metrics/src/main/scala/org/apache/spark/rdd/InstrumentedPairRDDFunctions.scala:35: warning: Could not find any member to link for "PairRDDFunctions".
/**
^
/home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-metrics/src/main/scala/org/apache/spark/rdd/Timer.scala:22: warning: Could not find any member to link for "MetricsRecorder".
/**
^
/home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-metrics/src/main/scala/org/apache/spark/rdd/Timer.scala:22: warning: Could not find any member to link for "Metrics.Recorder".
/**
^
/home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-metrics/src/main/scala/org/apache/spark/rdd/MetricsContext.scala:22: warning: Could not find any member to link for "org.apache.spark.SparkContext".
/**
^
/home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-metrics/src/main/scala/org/bdgenomics/utils/instrumentation/MonitorTable.scala:26: warning: Could not find any member to link for "Monitor".
/**
^
/home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-metrics/src/main/scala/org/bdgenomics/utils/instrumentation/MonitorTable.scala:26: warning: Could not find any member to link for "String".
/**
^
/home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-metrics/src/main/scala/org/bdgenomics/utils/instrumentation/ServoTimer.scala:31: warning: Could not find any member to link for "com.netflix.servo.monitor.CompositeMonitor".
/**
^
/home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-metrics/src/main/scala/org/bdgenomics/utils/instrumentation/ServoTimersAccumulableParam.scala:25: warning: Could not find any member to link for "AccumulableParam".
/**
^
/home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-metrics/src/main/scala/org/bdgenomics/utils/instrumentation/MonitorTable.scala:72: warning: Could not find any member to link for "Monitor".
  /**
  ^
/home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-metrics/src/main/scala/org/bdgenomics/utils/instrumentation/MonitorTable.scala:72: warning: Could not find any member to link for "CompositeMonitor".
  /**
  ^
/home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-metrics/src/main/scala/org/bdgenomics/utils/instrumentation/Metrics.scala:90: warning: Could not find any member to link for "None".
  /**
  ^
/home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-metrics/src/main/scala/org/bdgenomics/utils/instrumentation/Metrics.scala:122: warning: Could not find any member to link for "PrintWriter".
  /**
  ^
/home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-metrics/src/main/scala/org/bdgenomics/utils/instrumentation/Metrics.scala:108: warning: Could not find any member to link for "IllegalStateException".
  /**
  ^
21 warnings found
[INFO] Building jar: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-metrics/target/utils-metrics-spark2_2.11-0.2.16-SNAPSHOT-javadoc.jar
[INFO] 
[INFO] --- maven-install-plugin:3.0.0-M1:install (default-install) @ utils-metrics-spark2_2.11 ---
[INFO] Installing /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-metrics/target/utils-metrics-spark2_2.11-0.2.16-SNAPSHOT.jar to /home/jenkins/.m2/repository/org/bdgenomics/utils/utils-metrics-spark2_2.11/0.2.16-SNAPSHOT/utils-metrics-spark2_2.11-0.2.16-SNAPSHOT.jar
[INFO] Installing /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-metrics/pom.xml to /home/jenkins/.m2/repository/org/bdgenomics/utils/utils-metrics-spark2_2.11/0.2.16-SNAPSHOT/utils-metrics-spark2_2.11-0.2.16-SNAPSHOT.pom
[INFO] Installing /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-metrics/target/utils-metrics-spark2_2.11-0.2.16-SNAPSHOT-tests.jar to /home/jenkins/.m2/repository/org/bdgenomics/utils/utils-metrics-spark2_2.11/0.2.16-SNAPSHOT/utils-metrics-spark2_2.11-0.2.16-SNAPSHOT-tests.jar
[INFO] Installing /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-metrics/target/utils-metrics-spark2_2.11-0.2.16-SNAPSHOT-javadoc.jar to /home/jenkins/.m2/repository/org/bdgenomics/utils/utils-metrics-spark2_2.11/0.2.16-SNAPSHOT/utils-metrics-spark2_2.11-0.2.16-SNAPSHOT-javadoc.jar
[INFO] 
[INFO] --- maven-deploy-plugin:3.0.0-M1:deploy (default-deploy) @ utils-metrics-spark2_2.11 ---
Downloading: https://oss.sonatype.org/content/repositories/snapshots/org/bdgenomics/utils/utils-metrics-spark2_2.11/0.2.16-SNAPSHOT/maven-metadata.xml
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Uploading: https://oss.sonatype.org/content/repositories/snapshots/org/bdgenomics/utils/utils-metrics-spark2_2.11/0.2.16-SNAPSHOT/utils-metrics-spark2_2.11-0.2.16-20191203.074641-127.jar
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Uploading: https://oss.sonatype.org/content/repositories/snapshots/org/bdgenomics/utils/utils-metrics-spark2_2.11/0.2.16-SNAPSHOT/utils-metrics-spark2_2.11-0.2.16-20191203.074641-127.pom
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Uploading: https://oss.sonatype.org/content/repositories/snapshots/org/bdgenomics/utils/utils-metrics-spark2_2.11/0.2.16-SNAPSHOT/utils-metrics-spark2_2.11-0.2.16-20191203.074641-127-tests.jar
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[INFO]                                                                         
[INFO] ------------------------------------------------------------------------
[INFO] Building utils-io-spark2_2.11: I/O utils 0.2.16-SNAPSHOT
[INFO] ------------------------------------------------------------------------
[INFO] 
[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-versions) @ utils-io-spark2_2.11 ---
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[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-maven) @ utils-io-spark2_2.11 ---
[INFO] 
[INFO] --- build-helper-maven-plugin:3.0.0:add-source (add-source) @ utils-io-spark2_2.11 ---
[INFO] Source directory: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-io/src/main/scala added.
[INFO] 
[INFO] --- scalariform-maven-plugin:0.1.4:format (default-cli) @ utils-io-spark2_2.11 ---
[INFO] Modified 0 of 9 .scala files
[INFO] 
[INFO] --- maven-resources-plugin:3.1.0:resources (default-resources) @ utils-io-spark2_2.11 ---
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] skip non existing resourceDirectory /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-io/src/main/resources
[INFO] 
[INFO] --- scala-maven-plugin:3.2.2:compile (scala-compile-first) @ utils-io-spark2_2.11 ---
[INFO] Nothing to compile - all classes are up to date
[INFO] 
[INFO] --- maven-compiler-plugin:3.8.0:compile (default-compile) @ utils-io-spark2_2.11 ---
[INFO] Nothing to compile - all classes are up to date
[INFO] 
[INFO] --- build-helper-maven-plugin:3.0.0:add-test-source (add-test-source) @ utils-io-spark2_2.11 ---
[INFO] Test Source directory: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-io/src/test/scala added.
[INFO] 
[INFO] --- maven-resources-plugin:3.1.0:testResources (default-testResources) @ utils-io-spark2_2.11 ---
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] Copying 1 resource
[INFO] 
[INFO] --- scala-maven-plugin:3.2.2:testCompile (scala-test-compile-first) @ utils-io-spark2_2.11 ---
[INFO] Nothing to compile - all classes are up to date
[INFO] 
[INFO] --- maven-compiler-plugin:3.8.0:testCompile (default-testCompile) @ utils-io-spark2_2.11 ---
[INFO] Nothing to compile - all classes are up to date
[INFO] 
[INFO] --- maven-surefire-plugin:3.0.0-M3:test (default-test) @ utils-io-spark2_2.11 ---
[INFO] Tests are skipped.
[INFO] 
[INFO] --- scalatest-maven-plugin:2.0.0:test (test) @ utils-io-spark2_2.11 ---
[INFO] Tests are skipped.
[INFO] 
[INFO] --- maven-jar-plugin:3.1.1:jar (default-jar) @ utils-io-spark2_2.11 ---
[INFO] Building jar: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-io/target/utils-io-spark2_2.11-0.2.16-SNAPSHOT.jar
[INFO] 
[INFO] --- maven-jar-plugin:3.1.1:test-jar (default) @ utils-io-spark2_2.11 ---
[INFO] Building jar: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-io/target/utils-io-spark2_2.11-0.2.16-SNAPSHOT-tests.jar
[INFO] 
[INFO] >>> scala-maven-plugin:3.2.2:doc-jar (attach-scaladocs) > generate-sources @ utils-io-spark2_2.11 >>>
[INFO] 
[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-versions) @ utils-io-spark2_2.11 ---
[INFO] 
[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-maven) @ utils-io-spark2_2.11 ---
[INFO] 
[INFO] --- build-helper-maven-plugin:3.0.0:add-source (add-source) @ utils-io-spark2_2.11 ---
[INFO] Source directory: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-io/src/main/scala added.
[INFO] 
[INFO] <<< scala-maven-plugin:3.2.2:doc-jar (attach-scaladocs) < generate-sources @ utils-io-spark2_2.11 <<<
[INFO] 
[INFO] --- scala-maven-plugin:3.2.2:doc-jar (attach-scaladocs) @ utils-io-spark2_2.11 ---
model contains 14 documentable templates
[INFO] Building jar: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-io/target/utils-io-spark2_2.11-0.2.16-SNAPSHOT-javadoc.jar
[INFO] 
[INFO] --- maven-install-plugin:3.0.0-M1:install (default-install) @ utils-io-spark2_2.11 ---
[INFO] Installing /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-io/target/utils-io-spark2_2.11-0.2.16-SNAPSHOT.jar to /home/jenkins/.m2/repository/org/bdgenomics/utils/utils-io-spark2_2.11/0.2.16-SNAPSHOT/utils-io-spark2_2.11-0.2.16-SNAPSHOT.jar
[INFO] Installing /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-io/pom.xml to /home/jenkins/.m2/repository/org/bdgenomics/utils/utils-io-spark2_2.11/0.2.16-SNAPSHOT/utils-io-spark2_2.11-0.2.16-SNAPSHOT.pom
[INFO] Installing /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-io/target/utils-io-spark2_2.11-0.2.16-SNAPSHOT-tests.jar to /home/jenkins/.m2/repository/org/bdgenomics/utils/utils-io-spark2_2.11/0.2.16-SNAPSHOT/utils-io-spark2_2.11-0.2.16-SNAPSHOT-tests.jar
[INFO] Installing /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-io/target/utils-io-spark2_2.11-0.2.16-SNAPSHOT-javadoc.jar to /home/jenkins/.m2/repository/org/bdgenomics/utils/utils-io-spark2_2.11/0.2.16-SNAPSHOT/utils-io-spark2_2.11-0.2.16-SNAPSHOT-javadoc.jar
[INFO] 
[INFO] --- maven-deploy-plugin:3.0.0-M1:deploy (default-deploy) @ utils-io-spark2_2.11 ---
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Uploading: https://oss.sonatype.org/content/repositories/snapshots/org/bdgenomics/utils/utils-io-spark2_2.11/0.2.16-SNAPSHOT/utils-io-spark2_2.11-0.2.16-20191203.074648-127-tests.jar
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Uploading: https://oss.sonatype.org/content/repositories/snapshots/org/bdgenomics/utils/utils-io-spark2_2.11/0.2.16-SNAPSHOT/utils-io-spark2_2.11-0.2.16-20191203.074648-127-javadoc.jar
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[INFO]                                                                         
[INFO] ------------------------------------------------------------------------
[INFO] Building utils-statistics-spark2_2.11: Spark code for fitting statistical models 0.2.16-SNAPSHOT
[INFO] ------------------------------------------------------------------------
[INFO] 
[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-versions) @ utils-statistics-spark2_2.11 ---
[INFO] 
[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-maven) @ utils-statistics-spark2_2.11 ---
[INFO] 
[INFO] --- build-helper-maven-plugin:3.0.0:add-source (add-source) @ utils-statistics-spark2_2.11 ---
[INFO] Source directory: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-statistics/src/main/scala added.
[INFO] 
[INFO] --- scalariform-maven-plugin:0.1.4:format (default-cli) @ utils-statistics-spark2_2.11 ---
[INFO] Modified 0 of 6 .scala files
[INFO] 
[INFO] --- maven-resources-plugin:3.1.0:resources (default-resources) @ utils-statistics-spark2_2.11 ---
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] skip non existing resourceDirectory /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-statistics/src/main/resources
[INFO] 
[INFO] --- scala-maven-plugin:3.2.2:compile (scala-compile-first) @ utils-statistics-spark2_2.11 ---
[INFO] Nothing to compile - all classes are up to date
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[INFO] --- maven-compiler-plugin:3.8.0:compile (default-compile) @ utils-statistics-spark2_2.11 ---
[INFO] Nothing to compile - all classes are up to date
[INFO] 
[INFO] --- build-helper-maven-plugin:3.0.0:add-test-source (add-test-source) @ utils-statistics-spark2_2.11 ---
[INFO] Test Source directory: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-statistics/src/test/scala added.
[INFO] 
[INFO] --- maven-resources-plugin:3.1.0:testResources (default-testResources) @ utils-statistics-spark2_2.11 ---
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] skip non existing resourceDirectory /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-statistics/src/test/resources
[INFO] 
[INFO] --- scala-maven-plugin:3.2.2:testCompile (scala-test-compile-first) @ utils-statistics-spark2_2.11 ---
[INFO] Nothing to compile - all classes are up to date
[INFO] 
[INFO] --- maven-compiler-plugin:3.8.0:testCompile (default-testCompile) @ utils-statistics-spark2_2.11 ---
[INFO] Nothing to compile - all classes are up to date
[INFO] 
[INFO] --- maven-surefire-plugin:3.0.0-M3:test (default-test) @ utils-statistics-spark2_2.11 ---
[INFO] Tests are skipped.
[INFO] 
[INFO] --- scalatest-maven-plugin:2.0.0:test (test) @ utils-statistics-spark2_2.11 ---
[INFO] Tests are skipped.
[INFO] 
[INFO] --- maven-jar-plugin:3.1.1:jar (default-jar) @ utils-statistics-spark2_2.11 ---
[INFO] Building jar: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-statistics/target/utils-statistics-spark2_2.11-0.2.16-SNAPSHOT.jar
[INFO] 
[INFO] --- maven-jar-plugin:3.1.1:test-jar (default) @ utils-statistics-spark2_2.11 ---
[INFO] Building jar: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-statistics/target/utils-statistics-spark2_2.11-0.2.16-SNAPSHOT-tests.jar
[INFO] 
[INFO] >>> scala-maven-plugin:3.2.2:doc-jar (attach-scaladocs) > generate-sources @ utils-statistics-spark2_2.11 >>>
[INFO] 
[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-versions) @ utils-statistics-spark2_2.11 ---
[INFO] 
[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-maven) @ utils-statistics-spark2_2.11 ---
[INFO] 
[INFO] --- build-helper-maven-plugin:3.0.0:add-source (add-source) @ utils-statistics-spark2_2.11 ---
[INFO] Source directory: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-statistics/src/main/scala added.
[INFO] 
[INFO] <<< scala-maven-plugin:3.2.2:doc-jar (attach-scaladocs) < generate-sources @ utils-statistics-spark2_2.11 <<<
[INFO] 
[INFO] --- scala-maven-plugin:3.2.2:doc-jar (attach-scaladocs) @ utils-statistics-spark2_2.11 ---
model contains 11 documentable templates
[INFO] Building jar: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-statistics/target/utils-statistics-spark2_2.11-0.2.16-SNAPSHOT-javadoc.jar
[INFO] 
[INFO] --- maven-install-plugin:3.0.0-M1:install (default-install) @ utils-statistics-spark2_2.11 ---
[INFO] Installing /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-statistics/target/utils-statistics-spark2_2.11-0.2.16-SNAPSHOT.jar to /home/jenkins/.m2/repository/org/bdgenomics/utils/utils-statistics-spark2_2.11/0.2.16-SNAPSHOT/utils-statistics-spark2_2.11-0.2.16-SNAPSHOT.jar
[INFO] Installing /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-statistics/pom.xml to /home/jenkins/.m2/repository/org/bdgenomics/utils/utils-statistics-spark2_2.11/0.2.16-SNAPSHOT/utils-statistics-spark2_2.11-0.2.16-SNAPSHOT.pom
[INFO] Installing /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-statistics/target/utils-statistics-spark2_2.11-0.2.16-SNAPSHOT-tests.jar to /home/jenkins/.m2/repository/org/bdgenomics/utils/utils-statistics-spark2_2.11/0.2.16-SNAPSHOT/utils-statistics-spark2_2.11-0.2.16-SNAPSHOT-tests.jar
[INFO] Installing /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-statistics/target/utils-statistics-spark2_2.11-0.2.16-SNAPSHOT-javadoc.jar to /home/jenkins/.m2/repository/org/bdgenomics/utils/utils-statistics-spark2_2.11/0.2.16-SNAPSHOT/utils-statistics-spark2_2.11-0.2.16-SNAPSHOT-javadoc.jar
[INFO] 
[INFO] --- maven-deploy-plugin:3.0.0-M1:deploy (default-deploy) @ utils-statistics-spark2_2.11 ---
Downloading: https://oss.sonatype.org/content/repositories/snapshots/org/bdgenomics/utils/utils-statistics-spark2_2.11/0.2.16-SNAPSHOT/maven-metadata.xml
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Uploading: https://oss.sonatype.org/content/repositories/snapshots/org/bdgenomics/utils/utils-statistics-spark2_2.11/0.2.16-SNAPSHOT/utils-statistics-spark2_2.11-0.2.16-20191203.074656-127.jar
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Uploading: https://oss.sonatype.org/content/repositories/snapshots/org/bdgenomics/utils/utils-statistics-spark2_2.11/0.2.16-SNAPSHOT/utils-statistics-spark2_2.11-0.2.16-20191203.074656-127.pom
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[INFO]                                                                         
[INFO] ------------------------------------------------------------------------
[INFO] Building utils-cli-spark2_2.11: utilities for building command line applications 0.2.16-SNAPSHOT
[INFO] ------------------------------------------------------------------------
[INFO] 
[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-versions) @ utils-cli-spark2_2.11 ---
[INFO] 
[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-maven) @ utils-cli-spark2_2.11 ---
[INFO] 
[INFO] --- build-helper-maven-plugin:3.0.0:add-source (add-source) @ utils-cli-spark2_2.11 ---
[INFO] Source directory: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-cli/src/main/scala added.
[INFO] 
[INFO] --- scalariform-maven-plugin:0.1.4:format (default-cli) @ utils-cli-spark2_2.11 ---
[INFO] Modified 0 of 3 .scala files
[INFO] 
[INFO] --- maven-resources-plugin:3.1.0:resources (default-resources) @ utils-cli-spark2_2.11 ---
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] skip non existing resourceDirectory /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-cli/src/main/resources
[INFO] 
[INFO] --- scala-maven-plugin:3.2.2:compile (scala-compile-first) @ utils-cli-spark2_2.11 ---
[INFO] Nothing to compile - all classes are up to date
[INFO] 
[INFO] --- maven-compiler-plugin:3.8.0:compile (default-compile) @ utils-cli-spark2_2.11 ---
[INFO] Nothing to compile - all classes are up to date
[INFO] 
[INFO] --- build-helper-maven-plugin:3.0.0:add-test-source (add-test-source) @ utils-cli-spark2_2.11 ---
[INFO] Test Source directory: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-cli/src/test/scala added.
[INFO] 
[INFO] --- maven-resources-plugin:3.1.0:testResources (default-testResources) @ utils-cli-spark2_2.11 ---
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] skip non existing resourceDirectory /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-cli/src/test/resources
[INFO] 
[INFO] --- scala-maven-plugin:3.2.2:testCompile (scala-test-compile-first) @ utils-cli-spark2_2.11 ---
[INFO] No sources to compile
[INFO] 
[INFO] --- maven-compiler-plugin:3.8.0:testCompile (default-testCompile) @ utils-cli-spark2_2.11 ---
[INFO] No sources to compile
[INFO] 
[INFO] --- maven-surefire-plugin:3.0.0-M3:test (default-test) @ utils-cli-spark2_2.11 ---
[INFO] Tests are skipped.
[INFO] 
[INFO] --- maven-jar-plugin:3.1.1:jar (default-jar) @ utils-cli-spark2_2.11 ---
[INFO] Building jar: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-cli/target/utils-cli-spark2_2.11-0.2.16-SNAPSHOT.jar
[INFO] 
[INFO] >>> scala-maven-plugin:3.2.2:doc-jar (attach-scaladocs) > generate-sources @ utils-cli-spark2_2.11 >>>
[INFO] 
[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-versions) @ utils-cli-spark2_2.11 ---
[INFO] 
[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-maven) @ utils-cli-spark2_2.11 ---
[INFO] 
[INFO] --- build-helper-maven-plugin:3.0.0:add-source (add-source) @ utils-cli-spark2_2.11 ---
[INFO] Source directory: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-cli/src/main/scala added.
[INFO] 
[INFO] <<< scala-maven-plugin:3.2.2:doc-jar (attach-scaladocs) < generate-sources @ utils-cli-spark2_2.11 <<<
[INFO] 
[INFO] --- scala-maven-plugin:3.2.2:doc-jar (attach-scaladocs) @ utils-cli-spark2_2.11 ---
model contains 17 documentable templates
[INFO] Building jar: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-cli/target/utils-cli-spark2_2.11-0.2.16-SNAPSHOT-javadoc.jar
[INFO] 
[INFO] --- maven-install-plugin:3.0.0-M1:install (default-install) @ utils-cli-spark2_2.11 ---
[INFO] Installing /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-cli/target/utils-cli-spark2_2.11-0.2.16-SNAPSHOT.jar to /home/jenkins/.m2/repository/org/bdgenomics/utils/utils-cli-spark2_2.11/0.2.16-SNAPSHOT/utils-cli-spark2_2.11-0.2.16-SNAPSHOT.jar
[INFO] Installing /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-cli/pom.xml to /home/jenkins/.m2/repository/org/bdgenomics/utils/utils-cli-spark2_2.11/0.2.16-SNAPSHOT/utils-cli-spark2_2.11-0.2.16-SNAPSHOT.pom
[INFO] Installing /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-cli/target/utils-cli-spark2_2.11-0.2.16-SNAPSHOT-javadoc.jar to /home/jenkins/.m2/repository/org/bdgenomics/utils/utils-cli-spark2_2.11/0.2.16-SNAPSHOT/utils-cli-spark2_2.11-0.2.16-SNAPSHOT-javadoc.jar
[INFO] 
[INFO] --- maven-deploy-plugin:3.0.0-M1:deploy (default-deploy) @ utils-cli-spark2_2.11 ---
Downloading: https://oss.sonatype.org/content/repositories/snapshots/org/bdgenomics/utils/utils-cli-spark2_2.11/0.2.16-SNAPSHOT/maven-metadata.xml
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Uploading: https://oss.sonatype.org/content/repositories/snapshots/org/bdgenomics/utils/utils-cli-spark2_2.11/0.2.16-SNAPSHOT/utils-cli-spark2_2.11-0.2.16-20191203.074703-127.jar
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Uploading: https://oss.sonatype.org/content/repositories/snapshots/org/bdgenomics/utils/utils-cli-spark2_2.11/0.2.16-SNAPSHOT/utils-cli-spark2_2.11-0.2.16-20191203.074703-127.pom
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Uploading: https://oss.sonatype.org/content/repositories/snapshots/org/bdgenomics/utils/utils-cli-spark2_2.11/0.2.16-SNAPSHOT/utils-cli-spark2_2.11-0.2.16-20191203.074703-127-javadoc.jar
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[INFO]                                                                         
[INFO] ------------------------------------------------------------------------
[INFO] Building utils-serialization-spark2_2.11: tools for serializing data 0.2.16-SNAPSHOT
[INFO] ------------------------------------------------------------------------
[INFO] 
[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-versions) @ utils-serialization-spark2_2.11 ---
[INFO] 
[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-maven) @ utils-serialization-spark2_2.11 ---
[INFO] 
[INFO] --- build-helper-maven-plugin:3.0.0:add-source (add-source) @ utils-serialization-spark2_2.11 ---
[INFO] Source directory: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-serialization/src/main/scala added.
[INFO] 
[INFO] --- scalariform-maven-plugin:0.1.4:format (default-cli) @ utils-serialization-spark2_2.11 ---
[INFO] Modified 0 of 1 .scala files
[INFO] 
[INFO] --- maven-resources-plugin:3.1.0:resources (default-resources) @ utils-serialization-spark2_2.11 ---
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] skip non existing resourceDirectory /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-serialization/src/main/resources
[INFO] 
[INFO] --- scala-maven-plugin:3.2.2:compile (scala-compile-first) @ utils-serialization-spark2_2.11 ---
[INFO] Nothing to compile - all classes are up to date
[INFO] 
[INFO] --- maven-compiler-plugin:3.8.0:compile (default-compile) @ utils-serialization-spark2_2.11 ---
[INFO] Nothing to compile - all classes are up to date
[INFO] 
[INFO] --- build-helper-maven-plugin:3.0.0:add-test-source (add-test-source) @ utils-serialization-spark2_2.11 ---
[INFO] Test Source directory: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-serialization/src/test/scala added.
[INFO] 
[INFO] --- maven-resources-plugin:3.1.0:testResources (default-testResources) @ utils-serialization-spark2_2.11 ---
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] skip non existing resourceDirectory /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-serialization/src/test/resources
[INFO] 
[INFO] --- scala-maven-plugin:3.2.2:testCompile (scala-test-compile-first) @ utils-serialization-spark2_2.11 ---
[INFO] No sources to compile
[INFO] 
[INFO] --- maven-compiler-plugin:3.8.0:testCompile (default-testCompile) @ utils-serialization-spark2_2.11 ---
[INFO] No sources to compile
[INFO] 
[INFO] --- maven-surefire-plugin:3.0.0-M3:test (default-test) @ utils-serialization-spark2_2.11 ---
[INFO] Tests are skipped.
[INFO] 
[INFO] --- scalatest-maven-plugin:2.0.0:test (test) @ utils-serialization-spark2_2.11 ---
[INFO] Tests are skipped.
[INFO] 
[INFO] --- maven-jar-plugin:3.1.1:jar (default-jar) @ utils-serialization-spark2_2.11 ---
[INFO] Building jar: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-serialization/target/utils-serialization-spark2_2.11-0.2.16-SNAPSHOT.jar
[INFO] 
[INFO] --- maven-jar-plugin:3.1.1:test-jar (default) @ utils-serialization-spark2_2.11 ---
[WARNING] JAR will be empty - no content was marked for inclusion!
[INFO] Building jar: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-serialization/target/utils-serialization-spark2_2.11-0.2.16-SNAPSHOT-tests.jar
[INFO] 
[INFO] >>> scala-maven-plugin:3.2.2:doc-jar (attach-scaladocs) > generate-sources @ utils-serialization-spark2_2.11 >>>
[INFO] 
[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-versions) @ utils-serialization-spark2_2.11 ---
[INFO] 
[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-maven) @ utils-serialization-spark2_2.11 ---
[INFO] 
[INFO] --- build-helper-maven-plugin:3.0.0:add-source (add-source) @ utils-serialization-spark2_2.11 ---
[INFO] Source directory: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-serialization/src/main/scala added.
[INFO] 
[INFO] <<< scala-maven-plugin:3.2.2:doc-jar (attach-scaladocs) < generate-sources @ utils-serialization-spark2_2.11 <<<
[INFO] 
[INFO] --- scala-maven-plugin:3.2.2:doc-jar (attach-scaladocs) @ utils-serialization-spark2_2.11 ---
model contains 7 documentable templates
[INFO] Building jar: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-serialization/target/utils-serialization-spark2_2.11-0.2.16-SNAPSHOT-javadoc.jar
[INFO] 
[INFO] --- maven-install-plugin:3.0.0-M1:install (default-install) @ utils-serialization-spark2_2.11 ---
[INFO] Installing /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-serialization/target/utils-serialization-spark2_2.11-0.2.16-SNAPSHOT.jar to /home/jenkins/.m2/repository/org/bdgenomics/utils/utils-serialization-spark2_2.11/0.2.16-SNAPSHOT/utils-serialization-spark2_2.11-0.2.16-SNAPSHOT.jar
[INFO] Installing /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-serialization/pom.xml to /home/jenkins/.m2/repository/org/bdgenomics/utils/utils-serialization-spark2_2.11/0.2.16-SNAPSHOT/utils-serialization-spark2_2.11-0.2.16-SNAPSHOT.pom
[INFO] Installing /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-serialization/target/utils-serialization-spark2_2.11-0.2.16-SNAPSHOT-tests.jar to /home/jenkins/.m2/repository/org/bdgenomics/utils/utils-serialization-spark2_2.11/0.2.16-SNAPSHOT/utils-serialization-spark2_2.11-0.2.16-SNAPSHOT-tests.jar
[INFO] Installing /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-serialization/target/utils-serialization-spark2_2.11-0.2.16-SNAPSHOT-javadoc.jar to /home/jenkins/.m2/repository/org/bdgenomics/utils/utils-serialization-spark2_2.11/0.2.16-SNAPSHOT/utils-serialization-spark2_2.11-0.2.16-SNAPSHOT-javadoc.jar
[INFO] 
[INFO] --- maven-deploy-plugin:3.0.0-M1:deploy (default-deploy) @ utils-serialization-spark2_2.11 ---
Downloading: https://oss.sonatype.org/content/repositories/snapshots/org/bdgenomics/utils/utils-serialization-spark2_2.11/0.2.16-SNAPSHOT/maven-metadata.xml
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Uploading: https://oss.sonatype.org/content/repositories/snapshots/org/bdgenomics/utils/utils-serialization-spark2_2.11/0.2.16-SNAPSHOT/utils-serialization-spark2_2.11-0.2.16-20191203.074711-127.jar
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Uploading: https://oss.sonatype.org/content/repositories/snapshots/org/bdgenomics/utils/utils-serialization-spark2_2.11/0.2.16-SNAPSHOT/utils-serialization-spark2_2.11-0.2.16-20191203.074711-127.pom
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Uploading: https://oss.sonatype.org/content/repositories/snapshots/org/bdgenomics/utils/utils-serialization-spark2_2.11/0.2.16-SNAPSHOT/utils-serialization-spark2_2.11-0.2.16-20191203.074711-127-tests.jar
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Uploading: https://oss.sonatype.org/content/repositories/snapshots/org/bdgenomics/utils/utils-serialization-spark2_2.11/0.2.16-SNAPSHOT/utils-serialization-spark2_2.11-0.2.16-20191203.074711-127-javadoc.jar
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Downloading: https://oss.sonatype.org/content/repositories/snapshots/org/bdgenomics/utils/utils-serialization-spark2_2.11/maven-metadata.xml
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[INFO]                                                                         
[INFO] ------------------------------------------------------------------------
[INFO] Building utils-intervalrdd-spark2_2.11: IntervalRDD based on interval tree 0.2.16-SNAPSHOT
[INFO] ------------------------------------------------------------------------
[INFO] 
[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-versions) @ utils-intervalrdd-spark2_2.11 ---
[INFO] 
[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-maven) @ utils-intervalrdd-spark2_2.11 ---
[INFO] 
[INFO] --- build-helper-maven-plugin:3.0.0:add-source (add-source) @ utils-intervalrdd-spark2_2.11 ---
[INFO] Source directory: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-intervalrdd/src/main/scala added.
[INFO] 
[INFO] --- scalariform-maven-plugin:0.1.4:format (default-cli) @ utils-intervalrdd-spark2_2.11 ---
[INFO] Modified 0 of 8 .scala files
[INFO] 
[INFO] --- maven-resources-plugin:3.1.0:resources (default-resources) @ utils-intervalrdd-spark2_2.11 ---
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] skip non existing resourceDirectory /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-intervalrdd/src/main/resources
[INFO] 
[INFO] --- scala-maven-plugin:3.2.2:compile (scala-compile-first) @ utils-intervalrdd-spark2_2.11 ---
[INFO] Nothing to compile - all classes are up to date
[INFO] 
[INFO] --- maven-compiler-plugin:3.8.0:compile (default-compile) @ utils-intervalrdd-spark2_2.11 ---
[INFO] Nothing to compile - all classes are up to date
[INFO] 
[INFO] --- build-helper-maven-plugin:3.0.0:add-test-source (add-test-source) @ utils-intervalrdd-spark2_2.11 ---
[INFO] Test Source directory: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-intervalrdd/src/test/scala added.
[INFO] 
[INFO] --- maven-resources-plugin:3.1.0:testResources (default-testResources) @ utils-intervalrdd-spark2_2.11 ---
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] skip non existing resourceDirectory /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-intervalrdd/src/test/resources
[INFO] 
[INFO] --- scala-maven-plugin:3.2.2:testCompile (scala-test-compile-first) @ utils-intervalrdd-spark2_2.11 ---
[INFO] Nothing to compile - all classes are up to date
[INFO] 
[INFO] --- maven-compiler-plugin:3.8.0:testCompile (default-testCompile) @ utils-intervalrdd-spark2_2.11 ---
[INFO] Nothing to compile - all classes are up to date
[INFO] 
[INFO] --- maven-surefire-plugin:3.0.0-M3:test (default-test) @ utils-intervalrdd-spark2_2.11 ---
[INFO] Tests are skipped.
[INFO] 
[INFO] --- scalatest-maven-plugin:2.0.0:test (test) @ utils-intervalrdd-spark2_2.11 ---
[INFO] Tests are skipped.
[INFO] 
[INFO] --- maven-jar-plugin:3.1.1:jar (default-jar) @ utils-intervalrdd-spark2_2.11 ---
[INFO] Building jar: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-intervalrdd/target/utils-intervalrdd-spark2_2.11-0.2.16-SNAPSHOT.jar
[INFO] 
[INFO] --- maven-jar-plugin:3.1.1:test-jar (default) @ utils-intervalrdd-spark2_2.11 ---
[INFO] Building jar: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-intervalrdd/target/utils-intervalrdd-spark2_2.11-0.2.16-SNAPSHOT-tests.jar
[INFO] 
[INFO] >>> scala-maven-plugin:3.2.2:doc-jar (attach-scaladocs) > generate-sources @ utils-intervalrdd-spark2_2.11 >>>
[INFO] 
[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-versions) @ utils-intervalrdd-spark2_2.11 ---
[INFO] 
[INFO] --- maven-enforcer-plugin:1.0:enforce (enforce-maven) @ utils-intervalrdd-spark2_2.11 ---
[INFO] 
[INFO] --- build-helper-maven-plugin:3.0.0:add-source (add-source) @ utils-intervalrdd-spark2_2.11 ---
[INFO] Source directory: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-intervalrdd/src/main/scala added.
[INFO] 
[INFO] <<< scala-maven-plugin:3.2.2:doc-jar (attach-scaladocs) < generate-sources @ utils-intervalrdd-spark2_2.11 <<<
[INFO] 
[INFO] --- scala-maven-plugin:3.2.2:doc-jar (attach-scaladocs) @ utils-intervalrdd-spark2_2.11 ---
model contains 17 documentable templates
[INFO] Building jar: /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-intervalrdd/target/utils-intervalrdd-spark2_2.11-0.2.16-SNAPSHOT-javadoc.jar
[INFO] 
[INFO] --- maven-install-plugin:3.0.0-M1:install (default-install) @ utils-intervalrdd-spark2_2.11 ---
[INFO] Installing /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-intervalrdd/target/utils-intervalrdd-spark2_2.11-0.2.16-SNAPSHOT.jar to /home/jenkins/.m2/repository/org/bdgenomics/utils/utils-intervalrdd-spark2_2.11/0.2.16-SNAPSHOT/utils-intervalrdd-spark2_2.11-0.2.16-SNAPSHOT.jar
[INFO] Installing /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-intervalrdd/pom.xml to /home/jenkins/.m2/repository/org/bdgenomics/utils/utils-intervalrdd-spark2_2.11/0.2.16-SNAPSHOT/utils-intervalrdd-spark2_2.11-0.2.16-SNAPSHOT.pom
[INFO] Installing /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-intervalrdd/target/utils-intervalrdd-spark2_2.11-0.2.16-SNAPSHOT-tests.jar to /home/jenkins/.m2/repository/org/bdgenomics/utils/utils-intervalrdd-spark2_2.11/0.2.16-SNAPSHOT/utils-intervalrdd-spark2_2.11-0.2.16-SNAPSHOT-tests.jar
[INFO] Installing /home/jenkins/workspace/bdg-utils/HADOOP_VERSION/2.7.5/SCALA_VERSION/2.11/SPARK_VERSION/2.4.0/label/ubuntu/utils-intervalrdd/target/utils-intervalrdd-spark2_2.11-0.2.16-SNAPSHOT-javadoc.jar to /home/jenkins/.m2/repository/org/bdgenomics/utils/utils-intervalrdd-spark2_2.11/0.2.16-SNAPSHOT/utils-intervalrdd-spark2_2.11-0.2.16-SNAPSHOT-javadoc.jar
[INFO] 
[INFO] --- maven-deploy-plugin:3.0.0-M1:deploy (default-deploy) @ utils-intervalrdd-spark2_2.11 ---
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[INFO] ------------------------------------------------------------------------
[INFO] Reactor Summary:
[INFO] 
[INFO] utils .............................................. SUCCESS [  6.178 s]
[INFO] utils-misc-spark2_2.11: Miscellaneous Spark utility code SUCCESS [ 15.353 s]
[INFO] utils-minhash-spark2_2.11: MinHash-based Jaccard similarity estimator SUCCESS [  7.866 s]
[INFO] utils-metrics-spark2_2.11: tools for collecting metrics on top of RDDs SUCCESS [ 13.672 s]
[INFO] utils-io-spark2_2.11: I/O utils .................... SUCCESS [  6.720 s]
[INFO] utils-statistics-spark2_2.11: Spark code for fitting statistical models SUCCESS [  7.534 s]
[INFO] utils-cli-spark2_2.11: utilities for building command line applications SUCCESS [  6.483 s]
[INFO] utils-serialization-spark2_2.11: tools for serializing data SUCCESS [  8.844 s]
[INFO] utils-intervalrdd-spark2_2.11: IntervalRDD based on interval tree SUCCESS [ 15.993 s]
[INFO] ------------------------------------------------------------------------
[INFO] BUILD SUCCESS
[INFO] ------------------------------------------------------------------------
[INFO] Total time: 01:28 min
[INFO] Finished at: 2019-12-02T23:47:30-08:00
[INFO] Final Memory: 64M/3030M
[INFO] ------------------------------------------------------------------------
[WARNING] The requested profile "distribution" could not be activated because it does not exist.
Recording test results
Finished: SUCCESS