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Re: Octave: Question on running parallel package on linux HPC cluster

From: Imran Azeezullah
Subject: Re: Octave: Question on running parallel package on linux HPC cluster
Date: Tue, 29 Sep 2015 11:02:30 +1000
User-agent: Mozilla/5.0 (X11; Linux x86_64; rv:44.0) Gecko/20100101 Thunderbird/44.0a1

a very slight correction (inline)

On 27/09/15 23:53, Carlo De Falco wrote:
On 25 Sep 2015, at 21:58, Tung Nguyen <address@hidden> wrote:

Thanks a lot for your input Carlo and Olaf! qsub will give me the computed nodes with 
their associated CPUs name. But it's seemed that they all have the same names as in my 
first post. I will have to dig further into this to find out how I can access individual 
CPUs and use them together with "parallel" package


It really depends on what functions you intend to use from the parallel package.
If you want to use "pararrayfun" and/or "parcellfun", for example, those only 
if all processes run on the same multiprocessor machine, so all you need to do 
make sure that the processes you start via qsub are all run on the same machine.

This is usually done in torque by specifying that you request multiple processes
but only one node, for example to run 16 processes on one node you would write
something similar in youre launch script:

#PBS -S /bin/bash
#PBS -l nodes=1:ppn=1
I think you mean

#PBS -l nodes=1:ppn=16

otherwise you will end up with simply launching multiple threads on that single processor you get allocated by PBS.
octave --eval "my_parallel_script"

Thanks again for helping!

-- Tung
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