[petsc-users] Compiling 3.3 for Open-MPI on a SLURM system

[Matthew Knepley]

On Wed, Dec 19, 2012 at 4:54 PM, Gunter, David O <dog at lanl.gov> wrote:
> I am trying to compile PETSc on a SLURM-based system using GCC, openmpi-1.6.3.
>
> Here's my configure line:
>
> $ ./configure --prefix=/tmp/dog/petsc-3.3-p5 --with-mpiexec=mpiexec
>
> configure bombs out on this test:
>
> TESTING: configureMPITypes from config.packages.MPI(/usr/aprojects/hpctools/dog/petsc/petsc-3.3-p5/config/BuildSystem/config/packages/MPI.py:230)srun: error: slurm_send_recv_rc_msg_only_one: Connection timed out
> srun: error: slurm_send_recv_rc_msg_only_one: Connection timed out
>
> It should not be trying to srun anything as we use mpiexec with Open-MPI.  Any ideas?

If you can't run anything, you need --with-batch for the configure.

  Thanks,

     Matt

> -david
>
> --
> David Gunter
> HPC-3: Infrastructure Team
> Los Alamos National Laboratory
>
>
>
>



--
What most experimenters take for granted before they begin their
experiments is infinitely more interesting than any results to which
their experiments lead.
-- Norbert Wiener