[GE dev] Rmpi and SGE: issues
cblair at vandals.uidaho.edu
Thu Apr 1 18:04:23 BST 2010
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I am having issues implementing Rmpi (for the R language) with SGE. Our SGE system is up and working well with OpenMPI, and programs compiled in C with mpicc spawn across all nodes after a qsub. So all that seems to be working as expected.
When running R straight off any node (via mpirun R < script.R --no-slave ), Rmpi spawns correctly, but of course only on that one node. When submitting to SGE via qsub with a submit script, the R program hangs on the Rmpi load in the R script (require (Rmpi)).
I was curious if any one can give me insight on why this is happening, and what I might need to do to get Rmpi working correctly with SGE.
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