[gmx-users] gromacs-4.0.5 parallel run in 8 cpu: slow speed

[Jussi Lehtola]

On Thu, 2009-06-11 at 14:35 +0800, Thamu wrote:
>         Hi
>         
>         Recently I successfully installed the gromacs-4.0.5 mpi
>         version.
>         I could run in 8 cpu. but the speed is very slow. 
>         Total number of atoms in the system is 78424.
>         while running all 8 cpu showing 95-100% CPU.

That's normal for a system that atoms/cpu ratio.
What's your system and what mdp file are you using?
-- 
------------------------------------------------------
Jussi Lehtola, FM, Tohtorikoulutettava
Fysiikan laitos, Helsingin Yliopisto
jussi.lehtola at helsinki.fi, p. 191 50632
------------------------------------------------------
Mr. Jussi Lehtola, M. Sc., Doctoral Student
Department of Physics, University of Helsinki, Finland
jussi.lehtola at helsinki.fi
------------------------------------------------------