[phenixbb] Specifying the number of processors to run phenix with
Samuel.Stampfer at tufts.edu
Mon Aug 31 14:53:25 PDT 2009
Thanks for the info. I ran two instances of phenix which both were able to
run at 100%, but ran out of memory after awhile My guess is the memory is a
bigger limit than the processors so I think I'll just stick to running on
the one processor. Thanks for everyone's help!
PS: I had trouble attempting an installation from source earlier (and don't
have full permissions on this machine). Since you don't think upping the #
of processors will help much, I'm not going to attempt the source
On Mon, Aug 31, 2009 at 5:22 PM, Nathaniel Echols <NEchols at lbl.gov> wrote:
> On Aug 31, 2009, at 1:41 PM, Pavel Afonine wrote:
> > phenix.refine cannot use advantage of multiple CPUs. I think the "--
> > nproc=4" keyword in your example below is a valid keyword for
> > phenix.autobuild, but not for phenix.refine.
> Actually, it's just "nproc=4" without the "--".
> You can use multiple CPUs for the FFTs in phenix.refine if you compile
> from source with OpenMP support (add "--openmp" to the arguments when
> running the install script; this requires GCC 4.2 or better, or
> Intel's compiler, and perhaps others). I think it will automatically
> use as many CPUs as possible. It's probably not going to help much,
> Nathaniel Echols
> Lawrence Berkeley Lab
> NEchols at lbl.gov
> phenixbb mailing list
> phenixbb at phenix-online.org
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