[GE users] relationship between qsub and qstat and queue allocations

reuti reuti at staff.uni-marburg.de
Thu Nov 13 08:52:08 GMT 2008


Hi Margaret,

Am 12.11.2008 um 23:36 schrieb Margaret Doll:

> qsub is not working the way that I thought it should.  Each qsub may
> start several instances of a job, but it will
>
> create only one instance of a running job showing in qmon
> only one instance of a queued job using "qstat -f" and
> seems to count  as only one job on one  of the  compute nodes.
>
> For instance, I am using
>
> qsub -q mem16.q shll
>
> where shll includes:
>
> #!/bin/bash
> #$ -o $HOME/works-1/Out
> #$ -j y
> /opt/openmpi/bin/mpiexec -v -n 17 -machinefile $Home/works-1/
> machinefile $Home/works-1/mad

although Open MPI has a tight integration into SGE built in, you will  
need to define and request a PE (parallel environment), instead of  
supplying your own list of machines.

http://www.open-mpi.org/faq/?category=running#run-n1ge-or-sge

-- Reuti


>
> machinefile includes:
>
> compute-0-10
> compute-0-11
> compute-0-10
> compute-0-11
> compute-0-10
> compute-0-11
> compute-0-10
> compute-0-11
> compute-0-10
> compute-0-11
> compute-0-10
> compute-0-11
> compute-0-10
> compute-0-11
> compute-0-10
> compute-0-11
> compute-0-10
> compute-0-11
>
> I have each of the  compute nodes set to run  only eight queued jobs
> at  a time.
>
> A queued job will show up on compute-0-10 when I run "qstat -f"
>
> compute-0-10 will be running  9 instances of the program; compute-0-11
> will be running 8.
>
> What am I doing incorrectly?
>
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