[gmx-users] Beware of your interconnect hardware
Mark.Abraham at anu.edu.au
Tue May 23 21:13:23 CEST 2006
Jason O'Young wrote:
> Hey All,
> Not too long ago I posted about my problems with processes freezing
> (just to refresh, I am running two dual-core nodes for a total of four
> I managed to remedy the problem by removing the Dell PowerConnect 2708
> Gigabit switch and replacing it with a simple crossover cable. Ever
> since then, the system has been running rock solid.
> Are there actually issues with switch hardware with Gromacs? I used to
> think that these things were pretty much fool proof. I spent about a
> month trying to fix what I perceived as a Linux issue.
Please be careful to differentiate a switch hardware problem from a
Linux OS problem from an MPI problem from a GROMACS problem. The
observation of processes freezing could be caused by a failure of any of
those systems, and it is unfair to blame GROMACS for problems at a
Your question above is a bit like someone on a motoring mailing list
asking whether Mercedes-Benz cars have a problem with tires because you
keep skidding off the road in your Merc. The problem could be with your
technique as the driver, the road conditions, the speed you're driving
at, the tires, or various bits of the car.
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