[gmx-users] gigabit scaling, DPPC benchmark
burisch at bph.ruhr-uni-bochum.de
Mon Jun 6 19:47:17 CEST 2005
Diego Enry wrote:
> Jason, I don't know if that's the problem but when I use a P4EE 3Ghz,
> Gromacs runs faster without hyperthreading.
Are you using kernel 2.6 (if you are using Linux at all...)? We are
just now upgrading our cluster, and the effect of HT with kernel 2.6
on Gromacs was one thing I wanted to benchmark. But if you - or anyone
else reading this - have done so already I would be very glad if you
could share the info!
@Jason: Another way to decrease network latency - which is probably
the limiting factor in your case - may be GAMMA (it was mentioned a
long time ago on this list):
We never tried it ourselves since we are using Myrinet in most of our
nodes, but it sounds very interesting!
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