[gmx-users] Speeding things up

[Borys Szefczyk]

On Fri, Aug 14, 2009 at 10:50:29AM +0200, Berk Hess wrote:
> 
> Hi,
> 
> For systems with vacuum the automatic domain decomposition setup does
> not do a good job. It currently decomposes based on the box dimensions,
> not on the actual atom distribution in the box.
> I was thinking of improving this a bit for 4.1.
> 
> I would guess -dd 4 2 1 will give the best performance.
> 
> Berk

Thanks, the performance is better indeed. The run time is reduced by 12%
comparing to the default partitioning (8x1x1).

Borys

-- 
                 REQUIMTE,  &  Molecular Modelling & Quantum Chemistry Group,
  Department of Chemistry,  &  Institute of Physical & Theoretical Chemistry,
       Faculty of Science,  &  Wroclaw University of Technology
       University of Porto  &  http://ichfit.ch.pwr.wroc.pl/people/szefczyk