launch cluster interactively?
I solved the same problem by modifying system-wide hostfile. Starting the cluster by orterun is fine but not insides R/Rmpi/snow. This is because local settings, such as ~/.openmpi or environment variables, are ignored in Rmpi. Another way is to add host/hostfile into the 'info' object (via mpi.info.add) while you start the cluster. The latter might require openmpi 1.3 because it didn't work for me.
Whit Armstrong wrote:
Is it no longer possible to start a cluster interactively with MPI? I just tried to run an old script interactively, but it now fails. warmstrong at research:~$ R
library(Rmpi) library(snow) cl <- makeCluster(4,"MPI")
[research:08918] [[33202,1],0] routed:binomial: Connection to lifeline [[33202,0],0] lost warmstrong at research:~$ our MPI setup works with slurm and orterun. I just can't seem to start the cluster from an existing R session. R 2.8.1, openMPI 1.3, ubuntu 9.04. Thanks, Whit [[alternative HTML version deleted]]