Hi all,
I have successfully run gmx on up to 128 cpus. When I scale to 256 cpus, the
following error occurs. Does it mean that gmx can't be run on 256 nodes?
Fatal error:
could not find a grid spacing with nx and ny divisible by the number of
nodes (256)
Cheers,
Sunny
From: "Sunny" <[EMAIL PROTECTED]>
Reply-To: Discussion list for GROMACS users <gmx-users@gromacs.org>
To: gmx-users@gromacs.org
Subject: Re: [gmx-users] GROMACS Parallel Runs
Date: Tue, 03 Oct 2006 09:57:43 +0000
Hi Carsten,
Setting fourier_nx to a larger number does work.
Thanks.
Sunny
From: Carsten Kutzner <[EMAIL PROTECTED]>
Reply-To: Discussion list for GROMACS users <gmx-users@gromacs.org>
To: Discussion list for GROMACS users <gmx-users@gromacs.org>
Subject: Re: [gmx-users] GROMACS Parallel Runs
Date: Mon, 02 Oct 2006 11:06:49 +0200
Hi,
the current version of gmx requires at least pme_order/2 grid points per
processor
for the x-dimension of the pme grid. With pme_order=4 and fourier_nx=64
you end up with
only one grid point per processor. On 64 CPUs you would have to set
fourier_nx to 128
then (or alternatively choose a smaller fourierspacing). These settings
are not
useful for 32 or less CPUs though, because they would unnecessarily slow
down your
calculation.
Hope that helps,
Carsten
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