Riccardo,
I am a bit confused by your explanation.
Open MPI does embed PMIx, but only for itself.
An other way to put it is you have to install pmix first (package or
download from pmix.org)
and then build SLURM on top of it.
Then you can build Open MPI with the same (external) PMIx or the
embedded one
(since PMIx offers cross-version compatilibity support)
Cheers,
Gilles
On 3/15/2019 12:24 PM, Riccardo Veraldi wrote:
thanks to all.
the problem is that slurm's configure is not able to find the pmix
includes
configure:20846: checking for pmix installation
configure:21005: result:
configure:21021: WARNING: unable to locate pmix installation
regardless of the path I give.
and the reason is that configure searches for the following includes:
test -f "$d/include/pmix/pmix_common.h"
test -f "$d/include/pmix_server.h"
but neither of the two are installed by openmpi.
one of the two is in the openmpi soure code tarball
./opal/mca/pmix/pmix3x/pmix/include/pmix_server.h
the other one is in a ".h.in" file. and not ".h"
./opal/mca/pmix/pmix3x/pmix/include/pmix_common.h.in
anyway they do not get installed by the rpm.
the last thing I can try is build directly openmpi from sources and
give up with the rpm package build. The openmpi .spec has also errors
which I had to fix manually to allow it to successfully build
On 3/12/19 4:56 PM, Daniel Letai wrote:
Hi.
On 12/03/2019 22:53:36, 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
I would guess (but having the config.log files would verify it) that
you should rebuild Slurm --with-pmix and then you should rebuild
OpenMPI --with Slurm.
Currently there might be a bug in Slurm's configure file building
PMIx support without path, so you might either modify the spec before
building (add --with-pmix=/usr to the configure section) or for
testing purposes ./configure --with-pmix=/usr; make; make install.
It seems your current configuration has built-in mismatch - Slurm
only supports pmi2, while OpenMPI only supports PMIx. you should
build with at least one common PMI: either external PMIx when
building Slurm, or Slurm's PMI2 when building OpenMPI.
However, I would have expected the non-PMI option (srun
--mpi=openmpi) to work even in your env, and Slurm should have built
PMIx support automatically since it's in default search path.
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
--
Regards,
Dani_L.
