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Unix Batch command, and running jobs in queues.


 
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Old 10-21-2009
Unix Batch command, and running jobs in queues.

Hello all, I have a quick question. I work in a computational science laboratory, and we recently got a few mac pros to do molecular optimizations on. However, on our normal supercomputers, there are queue systems, mainly PBS.

Anyway, the macs obviously don't have PBS, but I've read about the "batch" and "at" commands in unix.

What I want to do is create a batch file, with multiple commands in it (basically multiple job submit commands), and I want the first one to run immediately, and the second one to run as soon as the first one finishes.

I know that there are different queues used with this command. Accessed by the "-q x" where x is the queue you want. So technically I want to have two different queues cause I want two different jobs to run at the same time.

So I've made a batch file containing four lines that submit four different jobs, like so...

g09 model1.txt &
g09 model2.txt &
g09 model3.txt &
g09 model4.txt &
CTRL-d

However, when I submit it, I don't see anything running when I use the top command, like I do when I just submit the job without using batch. The command I used to submit the batch file was.

batch -q b -f batch1.txt

And I'm in the folder that "batch1.txt" is in. What am I doing wrong?

Thanks in advance...
 

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queuedefs(4)							   File Formats 						      queuedefs(4)

NAME
queuedefs - queue description file for at, batch, and cron SYNOPSIS
/etc/cron.d/queuedefs DESCRIPTION
The queuedefs file describes the characteristics of the queues managed by cron(1M). Each non-comment line in this file describes one queue. The format of the lines are as follows: q.[njobj][nicen][nwaitw] The fields in this line are: q The name of the queue. a is the default queue for jobs started by at(1); b is the default queue for jobs started by batch (see at(1)); c is the default queue for jobs run from a crontab(1) file. njob The maximum number of jobs that can be run simultaneously in that queue; if more than njob jobs are ready to run, only the first njob jobs will be run, and the others will be run as jobs that are currently running terminate. The default value is 100. nice The nice(1) value to give to all jobs in that queue that are not run with a user ID of super-user. The default value is 2. nwait The number of seconds to wait before rescheduling a job that was deferred because more than njob jobs were running in that job's queue, or because the system-wide limit of jobs executing has been reached. The default value is 60. Lines beginning with # are comments, and are ignored. EXAMPLES
Example 1: A sample file. # # a.4j1n b.2j2n90w This file specifies that the a queue, for at jobs, can have up to 4 jobs running simultaneously; those jobs will be run with a nice value of 1. As no nwait value was given, if a job cannot be run because too many other jobs are running cron will wait 60 seconds before trying again to run it. The b queue, for batch(1) jobs, can have up to 2 jobs running simultaneously; those jobs will be run with a nice(1) value of 2. If a job cannot be run because too many other jobs are running, cron(1M) will wait 90 seconds before trying again to run it. All other queues can have up to 100 jobs running simultaneously; they will be run with a nice value of 2, and if a job cannot be run because too many other jobs are running cron will wait 60 seconds before trying again to run it. FILES
/etc/cron.d/queuedefs queue description file for at, batch, and cron. SEE ALSO
at(1), crontab(1), nice(1), cron(1M) SunOS 5.10 1 Mar 1994 queuedefs(4)

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