Hi Howard and Brian,
Of course. Here's a dropbox link to the full folder:
https://www.dropbox.com/s/raqlcnpgk9wz78b/ompi-output_Sep30_2022.tar.bz2?dl=0
This was the configure and make commands:
./configure \
--prefix=/shared/maylab/mayapps/mpi/openmpi/4.1.4 \
--with-slurm \
--with-lsf=no \
--with-pmi=/cm/shared/apps/slurm/21.08.8/include/slurm \
--with-pmi-libdir=/cm/shared/apps/slurm/21.08.8/lib64 \
--with-hwloc=/cm/shared/apps/hwloc/1.11.11 \
--with-cuda=/gpfs/sharedfs1/admin/hpc2.0/apps/cuda/11.6 \
--enable-shared \
--enable-static &&
make -j 32 &&
make -j 32 check
make install
The output of the make command is in the install_open-mpi_4.1.4_hpc2.log
file.
*Jeffrey D. (JD) Tamucci *
University of Connecticut
Molecular & Cell Biology
RA in Lab of Eric R. May
PhD / MPH Candidate
he/him
On Tue, Oct 4, 2022 at 12:33 PM Pritchard Jr., Howard <howa...@lanl.gov>
wrote:
> *Message sent from a system outside of UConn.*
>
> HI JD,
>
>
>
> Could you post the configure options your script uses to build Open MPI?
>
>
>
> Howard
>
>
>
> *From: *users <users-boun...@lists.open-mpi.org> on behalf of "Jeffrey D.
> (JD) Tamucci via users" <users@lists.open-mpi.org>
> *Reply-To: *Open MPI Users <users@lists.open-mpi.org>
> *Date: *Tuesday, October 4, 2022 at 10:07 AM
> *To: *"users@lists.open-mpi.org" <users@lists.open-mpi.org>
> *Cc: *"Jeffrey D. (JD) Tamucci" <jeffrey.tamu...@uconn.edu>
> *Subject: *[EXTERNAL] [OMPI users] Beginner Troubleshooting OpenMPI
> Installation - pmi.h Error
>
>
>
> Hi,
>
>
>
> I have been trying to install OpenMPI v4.1.4 on a university HPC cluster.
> We use the Bright cluster manager and have SLURM v21.08.8 and RHEL 8.6. I
> used a script to install OpenMPI that a former co-worker had used to
> successfully install OpenMPI v3.0.0 previously. I updated it to include new
> versions of the dependencies and new paths to those installs.
>
>
>
> Each time, it fails in the *make install *step. There is a fatal error
> about finding pmi.h. It specifically says:
>
>
>
> make[2]: Entering directory
> '/shared/maylab/src/openmpi-4.1.4/opal/mca/pmix/s1'
> CC libmca_pmix_s1_la-pmix_s1_component.lo
> CC libmca_pmix_s1_la-pmix_s1.lo
> pmix_s1.c:29:10: fatal error: pmi.h: No such file or directory
> 29 | #include <pmi.h>
>
>
>
> I've looked through the archives and seen others face similar errors in
> years past but I couldn't understand the solutions. One person suggested
> that SLURM may be missing PMI libraries. I think I've verified that SLURM
> has PMI. I include paths to those files and it seems to find them earlier
> in the process.
>
>
>
> I'm not sure what the next step is in troubleshooting this. I have
> included a bz2 file containing my install script, a log file containing the
> script output (from build, make, make install), the config.log, and the
> opal_config.h file. If anyone could provide any guidance, I'd sincerely
> appreciate it.
>
>
>
> Best,
>
> JD
>
