12:37 a.m.
It looks like mpirun executes podman with extra open file descriptor(s) but they
are not available to the container.
In this Podman GitHub discussion thread
https://github.com/containers/podman/discussions/13254
it was discussed if the option
--preserve-fds
could be used to pass in extra file descriptors from mpirun to the container.
A showstopper was that the file descriptor(s) passed in
were not continuous (sequential).
On Fri, Jun 17, 2022 at 4:37 AM None via Podman <podman(a)lists.podman.io> wrote:
>
> There is also failed.
>
> $ mpirun -np 2 podman run --env-host --env-file envfile --userns=keep-id
--network=host --pid=host --ipc=host -w /exports -v .:/exports:z centos/vasp:5.4.4
/exports/mpitest
> [cli_1]: write_line error; fd=10 buf=:cmd=init pmi_version=1 pmi_subversion=1
> :
> system msg for write_line failure : Bad file descriptor
> [cli_1]: Unable to write to PMI_fd
> [cli_1]: write_line error; fd=10 buf=:cmd=get_appnum
> :
> system msg for write_line failure : Bad file descriptor
> Abort(1090575) on node 0 (rank 0 in comm 0): Fatal error in PMPI_Init: Other MPI
error, error stack:
> MPIR_Init_thread(143):
> MPID_Init(1221)......:
> MPIR_pmi_init(130)...: PMI_Get_appnum returned -1
> [cli_1]: write_line error; fd=10 buf=:cmd=abort exitcode=1090575
> :
> system msg for write_line failure : Bad file descriptor
> Attempting to use an MPI routine before initializing MPICH
> [cli_0]: write_line error; fd=9 buf=:cmd=init pmi_version=1 pmi_subversion=1
> :
> system msg for write_line failure : Bad file descriptor
> [cli_0]: Unable to write to PMI_fd
> [cli_0]: write_line error; fd=9 buf=:cmd=get_appnum
> :
> system msg for write_line failure : Bad file descriptor
> Abort(1090575) on node 0 (rank 0 in comm 0): Fatal error in PMPI_Init: Other MPI
error, error stack:
> MPIR_Init_thread(143):
> MPID_Init(1221)......:
> MPIR_pmi_init(130)...: PMI_Get_appnum returned -1
> [cli_0]: write_line error; fd=9 buf=:cmd=abort exitcode=1090575
> :
> system msg for write_line failure : Bad file descriptor
> Attempting to use an MPI routine before initializing MPICH
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