[R-sig-hpc] parallel and openblas (original) (raw)

Dirk Eddelbuettel edd at debian.org
Wed Apr 25 02:37:48 CEST 2012

On 24 April 2012 at 15:45, Stephen Weston wrote: | There's an interesting discussion entitled "all processes run on | one CPU core" at: || https://github.com/ipython/ipython/issues/840 || Someone was experiencing a very similar problem to the one that | Claudia described using GotoBLAS2 with IPython and NumPy. | Apparently it was fixed by recompiling GotoBLAS2 with the | "NOAFFINITY" parameter set to "1" in Makefile.rule, and then | rebuilding "NumPy". || It seems pretty strange, but GotoBLAS2/OpenBLAS may be modifying | the affinity of the R process by calling schedsetaffinity() when | it is initialized, and that is causing the problems that Claudia | and Martin have seen. || So perhaps the solution is to recompile GotoBLAS2/OpenBLAS with | NOAFFINITY=1, and then rebuild R with it.

Good discussion, but one important nit: never a need to rebuild a R (provided you have external / dynamically linked BLAS).

Just restart R.

Dirk

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