Actually, I have used OpenMosix some time ago in a another life :) All I
remember is that NAMD was performing reasonably well as far as you
didn't ask it to write coordinates every frames. It was handy to
minimize/equilibrate a system or do some small computation like pressure
profile. As far as I remember, I was able to compute something like 0.8
ns/day on 10 proc for a system of 30~20000 atoms.
Nico
Sabuj Pattanayek wrote:
My 0.02. Based on one of Moshe Bar's OpenMosix papers, Mosix increases
the performance of MPI processes by load balancing. However I would have
to say that this only works for compute bound processes. If there's
going to be lots of I/O between nodes Mosix won't do so well and may
very well degrade performance.
Did you run any benchmarks of NAMD + its parallel (CHARM?)
implementation vs NAMD + CHARM + Mosix? Does it help? Last I checked the
Mosix userland tools and some other key functionality still don't work
for 2.6 linux kernels.
Nicolas Sapay wrote:
Hi everybody,
I wonder if someone has some experience with Gromacs and OpenMosix. Has
someone tried recently to run Gromacs in parallel with an OpenMosix
cluster? I have read some messages about that on the mailing-list but
they have been posted several years ago... Things may have changed now.
Additionally, I have already used sucessfully NAMD and OpenMosix (but
NAMD uses its own tool for parallel process).
Thanks
Nico
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[ Nicolas SAPAY, Ph.D. ]
University of Calgary, Dept. of Biological Sciences
2500 University drive NW, Calgary AB, T2N 1N4, Canada
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