[mvapich-discuss] MVAPICH2 2.2, GROMACS 2016.x, and MV2_ENABLE_AFFINITY

[Ryan Novosielski]

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It's unusual not to get a response on this list, so I wanted to check
to see if there was something else I should do or maybe if it was just
missed.

On 01/18/2018 03:37 PM, Ryan Novosielski wrote:
> Hi all,
> 
> I had reported to me some time ago users seeing an error like the
> following when running GROMACS with MVAPICH2 2.2 (using PMI2 with
> SLURM 16.05.10):
> 
> [novosirj at perceval2 build]$ module load intel/17.0.1  mvapich2/2.2
> gromacs [novosirj at perceval2 build]$ srun --pty -p main -t 20:00
> bash -i [novosirj at node073 build]$ gmx_mpi Warning! : Core id 32525
> does not exist on this architecture! CPU Affinity is undefined 
> Error parsing CPU mapping string INTERNAL ERROR: invalid error code
> ffffffff (Ring Index out of range) in MPIDI_CH3I_set_affinity:2391
> 
> I recently discovered that I can get around this by setting
> MV2_ENABLE_AFFINITY=0. I’m told by one of my users that they don’t
> see this on MVAPICH2 2.1 or 2.3a. Does anyone know what the deal is
> with this and whether there’s something wrong that causes it?
> 
> I see someone else asked about this right around the time of SC16,
> but there doesn’t seem to have been a resolution:
> 
> http://mailman.cse.ohio-state.edu/pipermail/mvapich-discuss/2016-Novem
ber/006253.html
>
>  Thanks!

- -- 
 ____
 || \\UTGERS,     |----------------------*O*------------------------
 ||_// the State  |    Ryan Novosielski - novosirj at rutgers.edu
 || \\ University | Sr. Technologist - 973/972.0922 ~*~ RBHS Campus
 ||  \\    of NJ  | Office of Advanced Res. Comp. - MSB C630, Newark
      `'
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