[R-sig-hpc] parallel and openblas
armstrong.whit at gmail.com
Mon Apr 23 22:07:41 CEST 2012
I believe you can set an env variable to determine the number of
threads to use. Perhaps search the openblas doc.
Alternatively, execute on 8 different machines...
But for that you might need... rzmq.
On Mon, Apr 23, 2012 at 3:53 PM, Martin Renner <greatauklet at gmail.com> wrote:
> Parallel and openblas don't seem to mix well on my machine. If I link openblas, a job executed through parallel (using either the multicore or snow (local socket cluster) setup), each of my 8 cores only operates at 1/8 of 100% (taking a little longer than serial execution). Linking to the reference blas or to single-threaded atlas does not cause this handicap when running snow or multicore.
> Is this a known problem (My google attempts were fruitless)? If yes, is there a fix for it? Do MKL or multi-threaded atlas have the same issues?
> Thank you for your time.
> Martin Renner
> Post-doctoral Fellow phone: 907-226 4672
> University of Washington or: 907-235 0728
> School of Aquatic and Fishery Sciences Seattle, USA
> debian squeeze on 8-core Xeon
> R version 2.15.0 (2012-03-30)
> Platform: x86_64-unknown-linux-gnu (64-bit)
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>  LC_PAPER=C LC_NAME=C
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> attached base packages:
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