[slurm-users] problems with slurm and openmpi

[Gilles Gouaillardet]

Rick,


The issue is SLURM can only provide pmi2 support, and it seems Open MPI 
only supports pmix


One option is to rebuild SLURM with PMIx as explained by Daniel, and then

srun --mpi=pmix ...


If you do not want (or cannot) rebuilt SLURM, you can use the older pmi 
or pmi2.

In that case, you have to rebuild Open MPI and pass --with-pmi to the 
configure command line


and then

srun --mpi=pmi2 ...

(or srun --mpi=pmi ...)


Finally, you can

scontrol show config | grep MpiDefault


and have your sysadmin update this so a simple

srun ....

will run without any --mpi=... parameter


Cheers,


Gilles

On 3/13/2019 5:53 AM, Riccardo Veraldi wrote:
> Hello,
> after trynig hard for over 10 days I am forced to write to the list.
> I am not able to have SLURM work with openmpi. Openmpi compiled 
> binaries won't run on slurm, while all non openmpi progs run just fine 
> under "srun". I am using SLURM 18.08.5 building the rpm from the 
> tarball: rpmbuild -ta slurm-18.08.5-2.tar.bz2
> prior to bulid SLURM I installed openmpi 4.0.0 which has built in pmix 
> support. the pmix libraries are in /usr/lib64/pmix/ which is the 
> default installation path.
>
> The problem is that hellompi is not working if I launch in from srun. 
> of course it runs outside slurm.
>
> [psanagpu105:10995] OPAL ERROR: Not initialized in file 
> pmix3x_client.c at line 113
> --------------------------------------------------------------------------
> The application appears to have been direct launched using "srun",
> but OMPI was not built with SLURM's PMI support and therefore cannot
> execute. There are several options for building PMI support under
> SLURM, depending upon the SLURM version you are using:
>
>   version 16.05 or later: you can use SLURM's PMIx support. This
>   requires that you configure and build SLURM --with-pmix.
>
>   Versions earlier than 16.05: you must use either SLURM's PMI-1 or
>   PMI-2 support. SLURM builds PMI-1 by default, or you can manually
>   install PMI-2. You must then build Open MPI using --with-pmi pointing
>   to the SLURM PMI library location.
>
> Please configure as appropriate and try again.
> --------------------------------------------------------------------------
> *** An error occurred in MPI_Init
> *** on a NULL communicator
> *** MPI_ERRORS_ARE_FATAL (processes in this communicator will now abort,
> ***    and potentially your MPI job)
> [psanagpu105:10995] Local abort before MPI_INIT completed completed 
> successfully, but am not able to aggregate error messages, and not 
> able to guarantee that all other processes were killed!
> srun: error: psanagpu105: task 0: Exited with exit code 1
>
> I really have no clue. I even reinstalled openmpi on a specific 
> different path /opt/openmpi/4.0.0
> anyway seems like slurm does not know how to fine the MPI libraries 
> even though they are there and right now in the default path /usr/lib64
>
> even using --mpi=pmi2 or --mpi=openmpi does not fix the problem and 
> the same error message is given to me.
> srun --mpi=list
> srun: MPI types are...
> srun: none
> srun: openmpi
> srun: pmi2
>
>
> Any hint how could I fix this problem ?
> thanks a lot
>
> Rick
>
>