Portable Batch System (PBS) commands
qsub
Submit one job
Submit multiple similar jobs with 1 qsub script
Obtain an interactive session on the HPC cluster
use of qsub with a for loop
qstat
Find out which node is used for a particular job. Node 34, 33 are slow ones on QIMR HPC. Consider deleting submitted jobs if they are sent to these two nodes.
If you have a bunch of jobs that are similar, please run only one of them, and ask for much more memory than you expect it will need. Please select the one with the largest data set so we know none of the others will use more than it. Then, once the job is complete, you can run qstat -fx [JobID]
, where [JobID] is the job number that you received back when you ran the qsub. From that, you'll see how much memory the job consumed and be able to submit the rest with a similar resource request.Estimate how many CPUs, memory and walltime to request. Resources for running submitted jobs should be less than the requested
qalter
Change walltime of submitted jobs that are on the queue. Only HPC admin is able to change the requested time for jobs that are running. Email Scott Wood for the change.
qdel
Delete submitted jobs