simple question on R/Rmpi/snow/slurm configuration
I'm attempting to get Dirk's example from the "intro to HCP with R" talk working (http://dirk.eddelbuettel.com/papers/bocDec2008introHPCwithR.pdf). I have slurm working correctly (all the trivial hostname examples complete successfully). I fire up an R sesssion w/ the following command salloc orterun -n 7 R --vanilla and then run suppressMessages(library(Rmpi)) but my console never returns control. it's just frozen until I <control-c> out of it at which point I get this message:
suppressMessages(library(Rmpi))
[linuxsvr.kls.corp:05875] mca: base: component_find: unable to open
osc pt2pt: file not found (ignored)
orterun: killing job...
orterun noticed that job rank 0 with PID 5875 on node node0 exited on
signal 15 (Terminated).
salloc: Relinquishing job allocation 70
[warmstrong at linuxsvr ~]$
meanwhile squeue shows:
[warmstrong at linuxsvr ~]$ squeue
JOBID PARTITION NAME USER ST TIME NODES NODELIST(REASON)
71 prod orterun warmstro R 0:31 1 node0
[warmstrong at linuxsvr ~]$
Have I missed something crucial? Should I only be running these
examples in batch mode or with littler?
Thanks in advance,
Whit