I have attached the script files. Here is a brief description of what
they
do for me.
I have a compiled code sitting at /home/bdsimmns/bin/evolver
The file sepbs is called and passed the name of the input data file;
sepbs
V3e-5_M5e-5
This value is passed on to the file semake.pbs.
The file semake.pbs is used to create a file surface.pbs
surface pbs has executable permissions added to it.
qsub command is processed with the script file surface.pbs
surface.pbs is removed
and the script exits.
If there is something wrong with this progression, please let me know.
If
there is an easier way to do this, please let me know about that too.
Is there a great advantage to running PBSPro?
Thanks,
Ben Simmons
----- Original Message -----
From: Jeremy Enos <[EMAIL PROTECTED]>
Date: Wednesday, November 13, 2002 4:23 pm
Subject: Re: [Oscar-users] PBS Job Submission
> At 04:32 PM 11/13/2002 -0500, Wendy Lin wrote:
> >>>Is there also a way to assign a particular job to a particular
> node?>>
> >>Yes- resources. Current PBS in OSCAR isn't configured like
> that, but
> >>will be in the future. In the meantime, run:
> >>
> >>for machine in `cat /var/spool/pbs/server_priv/nodes |awk '{
> print $1 }'`
> >>; do qmgr -c "set node $machine properties+=$machine" ; done
> >>
> >>That will add a machine name resource to each of your machines,
> and then
> >>you can modify your qsub line to do something like:
> >>
> >>qsub -l nodes=1:ppn=2:resource=node5 -N my_job_name my_job_script.sh
> >
> >Unless OSCAR provides its own qsub, the syntax for requesting a
> node with
> >a certain property is like this:
> >
> > qsub -l nodes=1:ppn=2:node5 ......
> >
> >(It's "node5", not "resource=node5".)
> >
> >However since the node name is also a property, you can use it
> directly
> >like this:
> >
> > qsub -l nodes=node5:ppn=2 ......
> >
> >There is no need to make it into a property at all.
>
> Wendy is correct here- my mistake. I think the property may be
> necessary
> for grouping specific nodes, unless Wendy has syntax that will
> allow for
> that as well.
> thx Wendy!
>
> Jeremy
>
>
>
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#####Script to execute Surface Evolver code
argva=$1
rerror=""
if [ "$argva" = "$rerror" ]; then
echo 'Wrong number of arguments, correct usage is: sepbs case_name'
exit
fi
echo 'PBS: Now Executing SurfaceEvolver, case=' $argva
semake.pbs $argva > surface.pbs
chmod +x surface.pbs
qsub -l nodes=1:ppn=1:all surface.pbs
#! rm surface.pbs
echo 'Script completed-Your job is running!'
exit
#!/bin/sh
argva=$1
echo '#PBS -N' se_$argva
echo '#PBS -o' $argva.log
echo '#PBS -e' $argva.pbs
echo '#PBS -q' workq
pathname=$PWD
argv=$pathname/$argva
echo pbsdsh ~/bin/evolver $argv
echo '#All done'
begin:vcard
n:Simmons;Benjamin
fn:Benjamin Simmons
tel;work:678-4285
org:The University of Memphis;Mechanical Engineering
version:2.1
email;internet:[EMAIL PROTECTED]
title:Research Associate
end:vcard
