[GE users] Rmpi under SGE

arnuschky arne.brutschy at ulb.ac.be
Wed Dec 22 19:16:22 GMT 2010


> >        start_proc_args    /opt/gridengine/mpi/startmpi.sh -catch_rsh $pe_hostfile
> >        stop_proc_args     /opt/gridengine/mpi/stopmpi.sh
> Aren't you using Open MPI? Then these two entries can be set to NONE.

Yes, I do. I will change these entries then.

> Open MPI on its own is working fine with more than 20 nodes? How is Open MPI called
> by R - just a plain `mpiexec`, or any special arguments?

Yes, I tested with 50 nodes, worked both with $fill_up and $round_robin.

Regarding the mpiexec: I have honestly no idea. I will try to read the
source code - I am not using R and the Rmpi package myself, I am (only)
the admin of the cluster. Maybe someone on this mailing list can answer
this question?

Have some happy holidays, if you have some!
Cheers and Thanks for all the replies,


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