Hi Murat, Don't think jobs when you're in OpenMOLE. Think of what each of the tasks in the workflow needs to run correctly and as fast as you want.
So if each of your 100 experiment require 1 node and 4 threads, that's how you want to define your PBS environment. Cheers J. On 04/11/15 11:38, Murat Yildizoglu wrote: > Hi Romain, > The zip idea seems good, I will check it. > > Concerning the PBS, what I would like to understand is the following: > > Imagine that I have 100 experiments coming out from the sampling of the > parameters > > How many jobs, each with which demands from cluster resources, OM will > launch in the following two cases : > > nodes=50, > threads=2 > > or nodes=1 > threads=1 > > My current settings were > > nodes=50, > threads=4 > > Hoping that OM would launch 200 jobs in parallel on 50 nodes, but it > seems to give these requirements to each job it generates, which slows > of course their position in the queue. > > I hope that I am clear enough this time :-) > > By the way, I love the new OM. > > Best regards, > > Murat > > 2015-11-04 11:40 GMT+01:00 Romain Reuillon <[email protected] > <mailto:[email protected]>>: > > I don't exactly understand, what is your PBS env definition in > OpenMOLE ? > > > Le 04/11/2015 11:17, Murat Yildizoglu a écrit : >> Hi again, >> >> (I hope that someone will be able go indicate me a trick to save a >> configuration index in the CSV file) >> >> I am testing our PBS based cluster. But, I have the impression >> that I am not setting correctly the node and threadsd parameters. >> For now I have asked 50 nodes with 4 threads for all my >> experiments but when I check the generated jobs has this >> parameters for each job. Since I cannot see exactly the content of >> the job generated by OM, I am not sure that this is the correct >> setting. >> Since I am on a local cluster, probably setting node=1 and >> thread=1 would give a quicker advancement on the jobs queue, and >> quicker execution of the jobs, no? >> >> Best, >> >> Murat >> >> >> -- >> Prof. Murat Yildizoglu >> >> Université Montesquieu Bordeaux IV >> GREThA (UMR CNRS 5113) >> Avenue Léon Duguit >> 33608 Pessac cedex >> France >> >> Bureau : E-331 >> >> mail: yildi-at-u-bordeaux4.fr <http://yildi-at-u-bordeaux4.fr> >> >> web: yildizoglu.info <http://yildizoglu.info> >> >> >> _______________________________________________ >> OpenMOLE-users mailing list >> [email protected] <mailto:[email protected]> >> http://fedex.iscpif.fr/mailman/listinfo/openmole-users > > > _______________________________________________ > OpenMOLE-users mailing list > [email protected] <mailto:[email protected]> > http://fedex.iscpif.fr/mailman/listinfo/openmole-users > > > > > -- > Prof. Murat Yildizoglu > > Note: Please use the following address as such > > UNIVERSITE DE BORDEAUX > GREThA (UMR CNRS 5113) > MURAT YILDIZOGLU > 16 AVENUE LEON DUGUIT > CS 50057 > 33608 PESSAC CEDEX > FRANCE > > Bureau : E-331 > > mail: murat.yildizoglu at u-bordeaux.fr <http://u-bordeaux.fr> > > web: www.yildizoglu.fr <http://www.yildizoglu.fr> > > > _______________________________________________ > OpenMOLE-users mailing list > [email protected] > http://fedex.iscpif.fr/mailman/listinfo/openmole-users > -- Jonathan Passerat-Palmbach, PhD Research Associate Department of Computing Imperial College London South Kensington Campus Huxley Building - room 344 180 Queen's Gate London SW7 2AZ
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