[R-sig-hpc] mpi_comm_spawn error with Rmpi and snow on SGI Altix

[Gad Abraham]

Ei-ji Nakama wrote:
> Hi,
> 
> Was universe of size specified?
> 
> http://www.techpubs.sgi.com/library/tpl/cgi-bin/getdoc.cgi/linux/bks/SGI_Developer/books/MPT_UG/sgi_html/ch03.html#id5188254
> 


Hi Ei-ji,

I added -up to the script called by qsub:
#!/bin/sh
#$ -cwd
#$ -pe mpi 2
mpirun -up 2 -np 1 /home/gabraham/bin/R --vanilla < testsnow.R

but I still get the same error:
 > cat testsnow.sh.e394520
Error calling job_getjid(): No such file or directory
Error in mpi.comm.spawn(slave = mpitask, slavearg = args, nslaves = 
count,  :
   Error during spawn request
Calls: makeCluster ... switch -> makeMPIcluster -> mpi.comm.spawn -> .Call
Execution halted
MPI: MPI_COMM_WORLD rank 0 has terminated without calling MPI_Finalize()
MPI: aborting job

G.

-- 
Gad Abraham
Dept. CSSE and NICTA
The University of Melbourne
Parkville 3010, Victoria, Australia
email: gabraham at csse.unimelb.edu.au
web: http://www.csse.unimelb.edu.au/~gabraham