[R] newbie question on snow/Rmpi

[Whit Armstrong]

Does anyone know if these errors can be safely ignored?

[linuxsvr.kls.corp:16242] mca: base: component_find: unable to open
osc pt2pt: file not found (ignored)

this is on RHEL5 w/ openMPI 1.2.7

-Whit




On Mon, Dec 15, 2008 at 6:31 PM, Dirk Eddelbuettel <edd at debian.org> wrote:
> On Mon, Dec 15, 2008 at 01:16:46PM -0500, Whit Armstrong wrote:
>> I have a network of four machines set up.  I'm having trouble spawning
>> my slaves on these machines.
>>
>> All the examples I have found so far use makeCluster with type="MPI",
>> and I guess I'm missing some kind of cluster configuration in my
>> environment variables because all my clusters are formed on the
>> machine where my initial session is running.
>>
>> Can anyone refer me to a link that illustrates how to set up the
>> environment for MPI (listing node names, number of slots, etc) that
>> will allow the makeCluster command take advantage of the other nodes?
>
> It depends on which MPI library you use. I like Open MPI.
>
>> Thanks,
>> Whit
>>
>>
>> simple example:
>>
>> library(Rmpi)
>> library(snow)
>>
>> cl <- makeCluster(2, type = "MPI")
>
> You must call R (or r or Rscript) 'inside' orterun (or mpirun) which
> allows you to set hostnames on that invocation.  See my UseR 2008
> tutorial for some examples.
>
> Dirk
>
> --
> Three out of two people have difficulties with fractions.
>