On Tue, Jun 25, 2013 at 8:53 AM, Mark Abraham <mark.j.abra...@gmail.com>wrote:
> You're using a real-MPI process per core, and you have six cores per > processor. The recommended procedure is to map cores to OpenMP > threads, and choose the number of MPI processes per processor (and > thus the number of OpenMP threads per MPI process) to maximize > performance. See > > http://www.gromacs.org/Documentation/Acceleration_and_parallelization#Multi-level_parallelization.3a_MPI.2fthread-MPI_.2b_OpenMP The page says: > at the moment, the multi-level parallelization will surpass the > (thread-)MPI-only parallelization only in case of highly parallel runs > and/or with a slow network. What "highly parallel runs" mean? I'm sure it works for Djurre as he has 72 nodes, but how many six-core nodes are considered highly parallel? -- gmx-users mailing list gmx-users@gromacs.org http://lists.gromacs.org/mailman/listinfo/gmx-users * Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/Search before posting! * Please don't post (un)subscribe requests to the list. Use the www interface or send it to gmx-users-requ...@gromacs.org. * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists
