[R-sig-hpc] Error message from MPI

Jim Maas j.maas at uea.ac.uk
Thu Aug 11 13:40:03 CEST 2011

Hi All,

I'm relatively new to this but it has worked well for me previously and
now I'm getting errors.

I'm attempting to run and R job, on a cluster using LSF operating
system, using the packages doMPI and foreach.  In the job file I've
requested 128 slots, and MPI gets that number quite successfully but is
giving this error message

Loading required package: Rmpi
Loading required package: Rmpi
[[51610,1],5]: A high-performance Open MPI point-to-point messaging
was unable to find any relevant network interfaces:

Module: OpenFabrics (openib)
   Host: cn004.private.dns.zone

Another transport will be used instead, although this may result in
lower performance.

As a test I've run the same job with a smaller number of slots, and it
runs fine when I run it on 32 or 64 slots, but when I increase to 128
slots, I get this error?

I guess I'm asking if the R packages doMPI and foreach are scalable, and
to what level?

Thanks for any suggestions.


Dr. Jim Maas
University of East Anglia

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