[GE users] No job scripts - Job submission from cmd line only

sangamesh forum.san at gmail.com
Wed Sep 16 07:53:37 BST 2009

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Thanks Reuti. its working fine

If, there are two commands for single application, then how they can be used on command line
For eg: qsub -b y -cwd -V grompp mdrun
doesn't working.

But in script, these commands can be mentioned in two separate lines which works fine.


On Mon, Sep 14, 2009 at 3:25 PM, reuti <reuti at staff.uni-marburg.de<mailto:reuti at staff.uni-marburg.de>> wrote:

Am 14.09.2009 um 07:48 schrieb sangamesh:

> Dear SGE users,
>      Is it possible to submit serial and parallel jobs to SGE from
> command line only, instead of using a script?
> For eg:
> qsub  -N Prl_Job -cwd -pe mvapi 16 mpirun -machinefile $TMPDIR/
> machines -np $NSLOTS sander.MPI

in principle: yes. But you will need to submit it with "-b y" and
proper quoting, as $TMPDIR isn't known at submission time:

$ qsub -b y -N Prl_Job -cwd -pe mvapi 16 mpirun -machinefile '$TMPDIR/
machines' -np '$NSLOTS' sander.MPI

-- Reuti


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