Why are psql commands in my script suddenly being killed by jenkins / hudson? Announcing the arrival of Valued Associate #679: Cesar Manara Planned maintenance scheduled April 17/18, 2019 at 00:00UTC (8:00pm US/Eastern) Come Celebrate our 10 Year Anniversary!Why does psql attempt to connect with a different username when run from a Perl scriptWhat are the Jenkins/Hudson key files for?Seeking clean resolution for zombie who caused by git fetch / ubuntu motdWhy the result of same squish test suite are different between running locally and running via Jenkins?Why is Jenkins making temp files that are binaries?Bash commands run at terminal but not in Jenkins/Bash Script

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Why are psql commands in my script suddenly being killed by jenkins / hudson?



Announcing the arrival of Valued Associate #679: Cesar Manara
Planned maintenance scheduled April 17/18, 2019 at 00:00UTC (8:00pm US/Eastern)
Come Celebrate our 10 Year Anniversary!Why does psql attempt to connect with a different username when run from a Perl scriptWhat are the Jenkins/Hudson key files for?Seeking clean resolution for zombie who caused by git fetch / ubuntu motdWhy the result of same squish test suite are different between running locally and running via Jenkins?Why is Jenkins making temp files that are binaries?Bash commands run at terminal but not in Jenkins/Bash Script



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1















I have an existing jenkins job that kicks off a shell script to copy my prod environment into qa.



We added a lot of data to prod (gzip dump went from 2gig to 15gig) and all of the sudden my jenkins jobs started failing.



We are running postgres 9.5 in aws and jenkins 2.171. all jenkins jobs are executed on master which is the same server with 6 executors. There are no memory/cpu/disk space issues



Tried a few things: statement_timeout on the postgres instance is already 0. Switching from bash to sh for some reason helped on some scripts but not others. In particular this one is still having various psql statements Killed. the script works fine when run from an interactive shell.



Also tried disabling Process Tree Killer https://wiki.jenkins.io/display/JENKINS/ProcessTreeKiller. no go.



Here's the code from two of the more innocuous commands that should run pretty quickly. $POSTGRES_HOST_OPTS only has the db name and port:



echo -e "Running POSTGIS command"
psql $POSTGRES_HOST_OPTS -U $POSTGRES_ENV_POSTGRES_USER_PROD -d postgres -c "CREATE EXTENSION postgis;"

echo -e "Creating temporary user dv3_qa_tmp so we can rename the $POSTGRES_ENV_POSTGRES_USER_PROD usern"
psql $POSTGRES_HOST_OPTS -U $POSTGRES_ENV_POSTGRES_USER_PROD -d postgres -c "create role dv3_qa_tmp password '$PGPASSWORD_QA' createdb createrole inherit login;"


Here's the output from jenkins console:



Waiting for new instance to be available...
-e Renaming database dv3_prod to dv3_qa

Killed
-e Running POSTGIS command
Killed
-e Creating temporary user dv3_qa_tmp so we can rename the dv3_prod_user user

Killed
-e Renaming user dv3_prod_user to dv3_qa_user

Killed
Killed
-e
All done


From the jenkins.log there is something on file descriptors but not sure how that is related. I've also tried redirecting stderr which gets rid of this message but doesn't stop the commands being killed.



Apr 10, 2019 4:23:31 PM hudson.Proc$LocalProc join
WARNING: Process leaked file descriptors. See https://jenkins.io/redirect/troubleshooting/process-leaked-file-descriptors for more information
java.lang.Exception
at hudson.Proc$LocalProc.join(Proc.java:334)
at hudson.tasks.CommandInterpreter.join(CommandInterpreter.java:155)
at hudson.tasks.CommandInterpreter.perform(CommandInterpreter.java:109)
at hudson.tasks.CommandInterpreter.perform(CommandInterpreter.java:66)
at hudson.tasks.BuildStepMonitor$1.perform(BuildStepMonitor.java:20)
at hudson.model.AbstractBuild$AbstractBuildExecution.perform(AbstractBuild.java:741)
at hudson.model.Build$BuildExecution.build(Build.java:206)
at hudson.model.Build$BuildExecution.doRun(Build.java:163)
at hudson.model.AbstractBuild$AbstractBuildExecution.run(AbstractBuild.java:504)
at hudson.model.Run.execute(Run.java:1818)
at hudson.model.FreeStyleBuild.run(FreeStyleBuild.java:43)
at hudson.model.ResourceController.execute(ResourceController.java:97)
at hudson.model.Executor.run(Executor.java:429)









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  • Ok I somewhat solved it. looks like the issue is that the jenkins user cannot run perl scripts. when /usr/bin/perl is invoked it immediately gets "Killed". This is relevant because psql is a symlink to a perl script. Now the question is why the jenkins user can't run perl?!?

    – Ted
    Apr 12 at 19:57

















1















I have an existing jenkins job that kicks off a shell script to copy my prod environment into qa.



We added a lot of data to prod (gzip dump went from 2gig to 15gig) and all of the sudden my jenkins jobs started failing.



We are running postgres 9.5 in aws and jenkins 2.171. all jenkins jobs are executed on master which is the same server with 6 executors. There are no memory/cpu/disk space issues



Tried a few things: statement_timeout on the postgres instance is already 0. Switching from bash to sh for some reason helped on some scripts but not others. In particular this one is still having various psql statements Killed. the script works fine when run from an interactive shell.



Also tried disabling Process Tree Killer https://wiki.jenkins.io/display/JENKINS/ProcessTreeKiller. no go.



Here's the code from two of the more innocuous commands that should run pretty quickly. $POSTGRES_HOST_OPTS only has the db name and port:



echo -e "Running POSTGIS command"
psql $POSTGRES_HOST_OPTS -U $POSTGRES_ENV_POSTGRES_USER_PROD -d postgres -c "CREATE EXTENSION postgis;"

echo -e "Creating temporary user dv3_qa_tmp so we can rename the $POSTGRES_ENV_POSTGRES_USER_PROD usern"
psql $POSTGRES_HOST_OPTS -U $POSTGRES_ENV_POSTGRES_USER_PROD -d postgres -c "create role dv3_qa_tmp password '$PGPASSWORD_QA' createdb createrole inherit login;"


Here's the output from jenkins console:



Waiting for new instance to be available...
-e Renaming database dv3_prod to dv3_qa

Killed
-e Running POSTGIS command
Killed
-e Creating temporary user dv3_qa_tmp so we can rename the dv3_prod_user user

Killed
-e Renaming user dv3_prod_user to dv3_qa_user

Killed
Killed
-e
All done


From the jenkins.log there is something on file descriptors but not sure how that is related. I've also tried redirecting stderr which gets rid of this message but doesn't stop the commands being killed.



Apr 10, 2019 4:23:31 PM hudson.Proc$LocalProc join
WARNING: Process leaked file descriptors. See https://jenkins.io/redirect/troubleshooting/process-leaked-file-descriptors for more information
java.lang.Exception
at hudson.Proc$LocalProc.join(Proc.java:334)
at hudson.tasks.CommandInterpreter.join(CommandInterpreter.java:155)
at hudson.tasks.CommandInterpreter.perform(CommandInterpreter.java:109)
at hudson.tasks.CommandInterpreter.perform(CommandInterpreter.java:66)
at hudson.tasks.BuildStepMonitor$1.perform(BuildStepMonitor.java:20)
at hudson.model.AbstractBuild$AbstractBuildExecution.perform(AbstractBuild.java:741)
at hudson.model.Build$BuildExecution.build(Build.java:206)
at hudson.model.Build$BuildExecution.doRun(Build.java:163)
at hudson.model.AbstractBuild$AbstractBuildExecution.run(AbstractBuild.java:504)
at hudson.model.Run.execute(Run.java:1818)
at hudson.model.FreeStyleBuild.run(FreeStyleBuild.java:43)
at hudson.model.ResourceController.execute(ResourceController.java:97)
at hudson.model.Executor.run(Executor.java:429)









share|improve this question







New contributor




Ted is a new contributor to this site. Take care in asking for clarification, commenting, and answering.
Check out our Code of Conduct.




















  • Ok I somewhat solved it. looks like the issue is that the jenkins user cannot run perl scripts. when /usr/bin/perl is invoked it immediately gets "Killed". This is relevant because psql is a symlink to a perl script. Now the question is why the jenkins user can't run perl?!?

    – Ted
    Apr 12 at 19:57













1












1








1








I have an existing jenkins job that kicks off a shell script to copy my prod environment into qa.



We added a lot of data to prod (gzip dump went from 2gig to 15gig) and all of the sudden my jenkins jobs started failing.



We are running postgres 9.5 in aws and jenkins 2.171. all jenkins jobs are executed on master which is the same server with 6 executors. There are no memory/cpu/disk space issues



Tried a few things: statement_timeout on the postgres instance is already 0. Switching from bash to sh for some reason helped on some scripts but not others. In particular this one is still having various psql statements Killed. the script works fine when run from an interactive shell.



Also tried disabling Process Tree Killer https://wiki.jenkins.io/display/JENKINS/ProcessTreeKiller. no go.



Here's the code from two of the more innocuous commands that should run pretty quickly. $POSTGRES_HOST_OPTS only has the db name and port:



echo -e "Running POSTGIS command"
psql $POSTGRES_HOST_OPTS -U $POSTGRES_ENV_POSTGRES_USER_PROD -d postgres -c "CREATE EXTENSION postgis;"

echo -e "Creating temporary user dv3_qa_tmp so we can rename the $POSTGRES_ENV_POSTGRES_USER_PROD usern"
psql $POSTGRES_HOST_OPTS -U $POSTGRES_ENV_POSTGRES_USER_PROD -d postgres -c "create role dv3_qa_tmp password '$PGPASSWORD_QA' createdb createrole inherit login;"


Here's the output from jenkins console:



Waiting for new instance to be available...
-e Renaming database dv3_prod to dv3_qa

Killed
-e Running POSTGIS command
Killed
-e Creating temporary user dv3_qa_tmp so we can rename the dv3_prod_user user

Killed
-e Renaming user dv3_prod_user to dv3_qa_user

Killed
Killed
-e
All done


From the jenkins.log there is something on file descriptors but not sure how that is related. I've also tried redirecting stderr which gets rid of this message but doesn't stop the commands being killed.



Apr 10, 2019 4:23:31 PM hudson.Proc$LocalProc join
WARNING: Process leaked file descriptors. See https://jenkins.io/redirect/troubleshooting/process-leaked-file-descriptors for more information
java.lang.Exception
at hudson.Proc$LocalProc.join(Proc.java:334)
at hudson.tasks.CommandInterpreter.join(CommandInterpreter.java:155)
at hudson.tasks.CommandInterpreter.perform(CommandInterpreter.java:109)
at hudson.tasks.CommandInterpreter.perform(CommandInterpreter.java:66)
at hudson.tasks.BuildStepMonitor$1.perform(BuildStepMonitor.java:20)
at hudson.model.AbstractBuild$AbstractBuildExecution.perform(AbstractBuild.java:741)
at hudson.model.Build$BuildExecution.build(Build.java:206)
at hudson.model.Build$BuildExecution.doRun(Build.java:163)
at hudson.model.AbstractBuild$AbstractBuildExecution.run(AbstractBuild.java:504)
at hudson.model.Run.execute(Run.java:1818)
at hudson.model.FreeStyleBuild.run(FreeStyleBuild.java:43)
at hudson.model.ResourceController.execute(ResourceController.java:97)
at hudson.model.Executor.run(Executor.java:429)









share|improve this question







New contributor




Ted is a new contributor to this site. Take care in asking for clarification, commenting, and answering.
Check out our Code of Conduct.












I have an existing jenkins job that kicks off a shell script to copy my prod environment into qa.



We added a lot of data to prod (gzip dump went from 2gig to 15gig) and all of the sudden my jenkins jobs started failing.



We are running postgres 9.5 in aws and jenkins 2.171. all jenkins jobs are executed on master which is the same server with 6 executors. There are no memory/cpu/disk space issues



Tried a few things: statement_timeout on the postgres instance is already 0. Switching from bash to sh for some reason helped on some scripts but not others. In particular this one is still having various psql statements Killed. the script works fine when run from an interactive shell.



Also tried disabling Process Tree Killer https://wiki.jenkins.io/display/JENKINS/ProcessTreeKiller. no go.



Here's the code from two of the more innocuous commands that should run pretty quickly. $POSTGRES_HOST_OPTS only has the db name and port:



echo -e "Running POSTGIS command"
psql $POSTGRES_HOST_OPTS -U $POSTGRES_ENV_POSTGRES_USER_PROD -d postgres -c "CREATE EXTENSION postgis;"

echo -e "Creating temporary user dv3_qa_tmp so we can rename the $POSTGRES_ENV_POSTGRES_USER_PROD usern"
psql $POSTGRES_HOST_OPTS -U $POSTGRES_ENV_POSTGRES_USER_PROD -d postgres -c "create role dv3_qa_tmp password '$PGPASSWORD_QA' createdb createrole inherit login;"


Here's the output from jenkins console:



Waiting for new instance to be available...
-e Renaming database dv3_prod to dv3_qa

Killed
-e Running POSTGIS command
Killed
-e Creating temporary user dv3_qa_tmp so we can rename the dv3_prod_user user

Killed
-e Renaming user dv3_prod_user to dv3_qa_user

Killed
Killed
-e
All done


From the jenkins.log there is something on file descriptors but not sure how that is related. I've also tried redirecting stderr which gets rid of this message but doesn't stop the commands being killed.



Apr 10, 2019 4:23:31 PM hudson.Proc$LocalProc join
WARNING: Process leaked file descriptors. See https://jenkins.io/redirect/troubleshooting/process-leaked-file-descriptors for more information
java.lang.Exception
at hudson.Proc$LocalProc.join(Proc.java:334)
at hudson.tasks.CommandInterpreter.join(CommandInterpreter.java:155)
at hudson.tasks.CommandInterpreter.perform(CommandInterpreter.java:109)
at hudson.tasks.CommandInterpreter.perform(CommandInterpreter.java:66)
at hudson.tasks.BuildStepMonitor$1.perform(BuildStepMonitor.java:20)
at hudson.model.AbstractBuild$AbstractBuildExecution.perform(AbstractBuild.java:741)
at hudson.model.Build$BuildExecution.build(Build.java:206)
at hudson.model.Build$BuildExecution.doRun(Build.java:163)
at hudson.model.AbstractBuild$AbstractBuildExecution.run(AbstractBuild.java:504)
at hudson.model.Run.execute(Run.java:1818)
at hudson.model.FreeStyleBuild.run(FreeStyleBuild.java:43)
at hudson.model.ResourceController.execute(ResourceController.java:97)
at hudson.model.Executor.run(Executor.java:429)






postgresql jenkins hudson sh psql






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share|improve this question







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share|improve this question




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asked Apr 11 at 14:01









TedTed

61




61




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New contributor





Ted is a new contributor to this site. Take care in asking for clarification, commenting, and answering.
Check out our Code of Conduct.






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Check out our Code of Conduct.












  • Ok I somewhat solved it. looks like the issue is that the jenkins user cannot run perl scripts. when /usr/bin/perl is invoked it immediately gets "Killed". This is relevant because psql is a symlink to a perl script. Now the question is why the jenkins user can't run perl?!?

    – Ted
    Apr 12 at 19:57

















  • Ok I somewhat solved it. looks like the issue is that the jenkins user cannot run perl scripts. when /usr/bin/perl is invoked it immediately gets "Killed". This is relevant because psql is a symlink to a perl script. Now the question is why the jenkins user can't run perl?!?

    – Ted
    Apr 12 at 19:57
















Ok I somewhat solved it. looks like the issue is that the jenkins user cannot run perl scripts. when /usr/bin/perl is invoked it immediately gets "Killed". This is relevant because psql is a symlink to a perl script. Now the question is why the jenkins user can't run perl?!?

– Ted
Apr 12 at 19:57





Ok I somewhat solved it. looks like the issue is that the jenkins user cannot run perl scripts. when /usr/bin/perl is invoked it immediately gets "Killed". This is relevant because psql is a symlink to a perl script. Now the question is why the jenkins user can't run perl?!?

– Ted
Apr 12 at 19:57










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