Build #3139

Environment variables

NameValue
ANDROID_HOME/home/android-sdk/
BUILD_CAUSEUPSTREAMTRIGGER
BUILD_CAUSE_UPSTREAMTRIGGERtrue
BUILD_DISPLAY_NAME#3139
BUILD_ID3139
BUILD_NUMBER3139
CLASSPATH$CLASSPATH
EXECUTOR_NUMBER7
GIT_BRANCHunpaired-optimisation
HADOOP_VERSION2.7.5
HOME/home/jenkins
HUDSON_HOME/var/lib/jenkins
HUDSON_SERVER_COOKIE472906e9832aeb79
HUDSON_URLhttps://amplab.cs.berkeley.edu/jenkins/
JAVA_HOME/usr/java/latest
JENKINS_HOME/var/lib/jenkins
JENKINS_SERVER_COOKIE472906e9832aeb79
JENKINS_URLhttps://amplab.cs.berkeley.edu/jenkins/
LANGen_US.UTF-8
LOGNAMEjenkins
MOTD_SHOWNpam
NODE_LABELSresearch-jenkins-worker-03 ubuntu
NODE_NAMEresearch-jenkins-worker-03
OLDPWD/home/jenkins
PATH/home/jenkins/tools/hudson.tasks.Maven_MavenInstallation/Maven_3.6.3/bin/:/home/jenkins/gems/bin:/usr/local/go/bin:/home/jenkins/go-projects/bin:/home/jenkins/anaconda2/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/snap/bin
PWD/home/jenkins
ROOT_BUILD_CAUSEGHPRBCAUSE
ROOT_BUILD_CAUSE_GHPRBCAUSEtrue
SCALA_VERSION2.12
SHELL/bin/bash
SHLVL0
SPARK_VERSION2.4.7
SSH_CLIENT192.168.10.11 56478 22
SSH_CONNECTION192.168.10.11 56478 192.168.10.23 22
USERjenkins
XDG_RUNTIME_DIR/run/user/1001
XDG_SESSION_CLASSuser
XDG_SESSION_ID960
XDG_SESSION_TYPEtty
_/usr/java/latest/bin/java
ghprbActualCommite6332ef5bac0dc6ce37cb840631c62f3e67a8351
ghprbActualCommitAuthorRahamim, Ben
ghprbActualCommitAuthorEmailbrahamim@paypal.com
ghprbAuthorRepoGitUrlhttps://github.com/benraha/adam.git
ghprbCommentBody(i also updated the build config so that the main prb build runs on the workers, and not the primary node)
ghprbCredentialsIdb7d94526-9e9b-435f-9275-d7dbf209f4a3
ghprbGhRepositorybigdatagenomics/adam
ghprbPullAuthorLoginbenraha
ghprbPullAuthorLoginMention@benraha
ghprbPullDescriptionGitHub pull request #2282 of commit e6332ef5bac0dc6ce37cb840631c62f3e67a8351, no merge conflicts.
ghprbPullId2282
ghprbPullLinkhttps://github.com/bigdatagenomics/adam/pull/2282
ghprbPullLongDescriptionThis PR adds an option to avoid shuffling the entire alignment dataset when transforming to FragmentDataset.\r\n\r\nThis adds a boolean parameter to the function toFragments() that, when specified, the FragmentDataset is created with one read per Fragment record.\r\n\r\nThis resolved issue #2281 .
ghprbPullTitleAdded an optimisation to spare not required shuffle of unpaired reads
ghprbSourceBranchunpaired-optimisation
ghprbTargetBranchmaster
ghprbTriggerAuthorshane
ghprbTriggerAuthorLoginshaneknapp
ghprbTriggerAuthorLoginMention@shaneknapp
labelubuntu
sha1origin/pr/2282/merge