[R] Multiple CPU HowTo in Linux?

[Johnson, Cedrick W.]

  ?multicore perhaps

On 09/14/2010 10:01 AM, Edwin Groot wrote:
> Hello all,
> I upgraded my R workstation, and to my dismay, only one core appears to
> be used during intensive computation of a bioconductor function.
> What I have now is two dual-core Xeon 5160 CPUs and 10 GB RAM. When I
> fully load it, top reports about 25% user, 75% idle and 0.98 short-term
> load.
> The archives gave nothing helpful besides mention of snow. I thought of
> posting to HPC, but this system is fairly modest WRT processing power.
> Any pointers of where to start?
> ---
> #Not running anything at the moment
>> sessionInfo()
> R version 2.11.1 (2010-05-31)
> x86_64-pc-linux-gnu
>
> locale:
>   [1] LC_CTYPE=en_GB.UTF-8       LC_NUMERIC=C
>   [3] LC_TIME=en_GB.UTF-8        LC_COLLATE=en_GB.UTF-8
>   [5] LC_MONETARY=C              LC_MESSAGES=en_GB.UTF-8
>   [7] LC_PAPER=en_GB.UTF-8       LC_NAME=C
>   [9] LC_ADDRESS=C               LC_TELEPHONE=C
> [11] LC_MEASUREMENT=en_GB.UTF-8 LC_IDENTIFICATION=C
>
> attached base packages:
> [1] stats     graphics  grDevices utils     datasets  methods   base
>
>
> loaded via a namespace (and not attached):
> [1] tools_2.11.1
> ---
> $ uname -a
> Linux laux29 2.6.26-2-amd64 #1 SMP Sun Jun 20 20:16:30 UTC 2010 x86_64
> GNU/Linux
> ---
> Thanks for your help,
> Edwin