Itamar Kass wrote:
Hi,
We have bought new cluster with Myrinet, and I have install GROMACS
3.3.2 and openmpi 1.3.3. Now, in order to run my gromacs I am using
'mpirun -np 32 mdrun_mpi -np 32 ...' (each node has 8 CPUs). my question
is, are there any flags used with openmpi which will make it use Myrinet
better? I am aware to the options '--mca btl sm,self,mx' and '--mca btl
self,sm --mca mtl mx --mca pml cm' but some benchmarks I did show no
improvement, on the contrary. So I will be happy to try some ideas in
order to utilize the system better.
Now, I am quite sure that there is an answer to my question somewhere in
the mailing list, but I can't check it 'cause I can search it. Someone
knows how I can do it?
Sorry I can't help with the above problem, but the old search interface is
indeed still functional:
http://oldwww.gromacs.org/swish-e/search/search2.php
-Justin
All the Best,
Itamar
---
"In theory, there is no difference between theory and practice. But, in
practice, there is." - Jan L.A. van de Snepscheut
===========================================
| Itamar Kass, Ph.D.
| Postdoctoral Research Fellow
|
| Department of Biochemistry and Molecular Biology
| Building 77 Clayton Campus
| Wellington Road
| Monash University,
| Victoria 3800
| Australia
|
| Tel: +61 3 9902 9376
| Fax: +61 3 9902 9500
| E-mail: [email protected]
<mailto:[email protected]>
============================================
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--
========================================
Justin A. Lemkul
Ph.D. Candidate
ICTAS Doctoral Scholar
Department of Biochemistry
Virginia Tech
Blacksburg, VA
jalemkul[at]vt.edu | (540) 231-9080
http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin
========================================
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