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SGE is a complex system and value of various tips depend on how you use it. Very few tips are univeral.
Derived from cheat sheet by Indy Siva (Mar 09, 2011) . See also Oliver Wiki SGE
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Use command qconf -msconf
sge_qstat defines the command line switches that will be used by qstat by default. If available, the default sge_qstat file is read and processed by qstat(1).
There is a cluster global and a user private sge_qstat file. The user private file has the highest precedence and is followed by the cluster global sge_qstat file. Command line switches used with qstat(1) override all switches contained in the user private or cluster global sge_qstat file.
The default sge_qstat file may contain an arbitrary number of lines, although it is unclear what is the value of lines after the first. Blank lines and lines with a '#' sign at the first column are skipped. Each line can contain set of qstat(1) options. More than one option per line is allowed.
Here is an example of a sge_qstat default options file (note the leading blank before the first "-"):===================================================== # Just show me my own running and suspended jobs -s rs -u $USER =====================================================Having defined a default sge_qstat file like this and using qstat without parametersqstathas the same effect as if qstat was executed with:qstat -s rs -u <current_user>
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qacct -j 9999 -- get information about finished job 9999
qconf -mhgrp @allhosts edit hostgroup "@allhosts" qstat -f [-q \*@node23] full display info [for node23 only] qconf -sq all.q show "all.q" queue info qconf -mq all.q modify "all.q" queue: update hostlist, #slots qconf -aq all.q create queue named "all.q" qconf -mc qconf -rattr queue slots 0 all.q@node23 #slots -> 0 (== pbsnodes -o) qstat -s r -q all.q@node23 show all running jobs on node23 qhost -h node23,node24 show host info for multiple nodes qhost -q -h node23,node24 ibid, plus queue info qmod -e all.q@node23 enable node23 in queue all.q (-d == disable) qsub -j y -o `pwd` -q all.q test.sh submit test.sh job on queue all.q qping -info node23 6445 execd 1 check status of execd on node23 qstat current user jobs qstat -u "*" all user jobs qstat -g c show available nodes and load qstat -f detailed list of machines and job state qstat -explain c -j job-id specific job status qstat -f -u "*" qdel job-id delete job qsub -l h_vmem=### job.sh mem limit, see queue_conf(5) RESOURCE LIMITS qsub -w v job.00 Troubleshoot problems with queue/scheduling
qconf -ah # gives host administrative privileges
qconf -dh # removes administrative privileges from host
qconf -eh <hostname>
qconf -dq <queuenames...>
qconf -de <hostname>
qconf -dconf <hostname>
qconf -as <hostname> # host is now a submit host
qconf -ds <hostname> # jobs may not be submitted from host
qconf -sh # show current administrative hosts
qconf -ss # show current submit hosts
qconf -sel # show current execution host list
qconf -aq <queuename> # adding a queue
qconf -dq <queuename> # delete a queue
qconf -mq <queuename> # modify a queue
qconf -Aq <filename> # adding a queue from file
qconf -mattr queue ... # change single attributes of more than one queue
qalter -w v <jobid>This command enlists the reasons why a job is not dispatchable in principle.
For this purpose a dry scheduling run is performed.
The special with this dry scheduling run is that all consumable resources
(also slots) are considered to be fully available for this job. Similarly all load values are ignored because they are varying.
Job or queue errors are indicated by an uppercase "E" in the qstat output. A job enters the error state when Grid Engine tried to execute a job in a queue, but it failed for a reason that is specific to the job. A queue enters the error state when Grid Engine tried to execute a job in a queue, but it failed for a reason that is specific to the queue. Grid Engine offers a set of possiblities for users and administrators to get diagnosis information in case of job execution errors. Since both the queue and the job error state result from a failed job execution the diagnosis possibilities are applicable to both types of error states:Since Grid Engine 6.0 for jobs in error state a one-line error reason is available through
qstat -j | grep errorWith a 6.0 this is the recommended first source of diagnosis information for the end user.
qstat -explain EWith a 6.0 this is the recommended first source of diagnosis information for administrators in case of queue errors.
qacct -jto get information about the job error from Grid Engine job accounting.
# as user: qstat | grep neteler | tr -s ' ' ' ' | cut -d' ' -f2 > /tmp/to_suspend.sge cat /tmp/to_suspend.sge # as root (?): su - for i in `cat /tmp/to_suspend.sge` ; do qmod -sj $i ; done qstat# remove crashed blade from list of execution hosts:
qconf -de blade14# delete host from list:
qconf -mhgrp "@allhosts"# apply new list:
qconf -shgrp "@allhosts"# verify queue stats: qstat -f # resubmit jobs to other nodes (as job user!!)
for i in `cat /tmp/to_suspend.sge` ; do qresub $i ; done qstatThis command send a signal to a running job :
qmod -sj | -usf | -cd (suspend | unsuspend | clear error) qmod -sj 3312136 qmod -usj 3312136 root - unsuspended job 3312136
qconf -sp pename Show the configuration for the specified parallel environment. qconf -spl Show a list of all currently configured parallel environments. qconf -ap pename Add a new parallel environment. qconf -Ap filename Add a parallel environment from file filename. qconf -mp pename Modify the specified parallel environment using an editor. qconf -Mp filename Modify a parallel environment from file filename. qconf -dp pename Delete the specified parallel environment.
Based on the status of the job displayed, you can control the job by the following actions:
The Grid Engine software also sometimes lets users set priorities among their own jobs. A user who submits several jobs can specify, for example, that job 3 is the most important and that jobs 1 and 2 are equally important but less important than job 3.
/usr/local/SGE/bin/lx24-amd64/qmod -cq lam mpich2 long short nolimit
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