Hmmm...I hadn't thought of that situation. Right now you can only specify one type of "run_command", either specifying a submitted job or a subprocess, but not both in one run, I'm afraid. In your case I'd suggest two options:
1. Set nproc= the smaller of ( the number of nodes on your cluster, the number of omit regions in your composit omit job)
2. Run a separate job for each omit region with omit_box_start and omit_box_end ,specify run-command="csh -f" and nproc=8:
omit_box_start = 0
.help = " To only carry out omit in some of the omit boxes, use"
"omit_box_start and omit_box_end "
.type = int
omit_box_end = 0
.help = " To only carry out omit in some of the omit boxes, use"
"omit_box_start and omit_box_end "
.type = int
I hope that helps!
All the best,
Tom T
On May 26, 2010, at 10:06 AM, Mark A Saper wrote:
Dear Tom and colleagues,
We're running Autobuild composite omit on a large cluster, each node has 8 processors. Autobuild submits jobs with the "run_command". And it appears that each of those jobs submit other jobs. Are the latter jobs necessary? That is, are there situtations where they wouldn't be submitted as separate jobs but run as subprocesses? Currently nodes in our cluster don't have capability of qsubing new jobs, but we are in the process of changing this.
Thanks, Mark
_________________________________
Mark A. Saper, Ph.D.
Associate Professor of Biological Chemistry
University of Michigan
Biophysics, 3040 Chemistry Building
930 N University Ave
Ann Arbor MI 48109-1055 U.S.A.
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