Thank you for the sanity check and recommendations.
I will post my results here when resolved.
Jeff Squyres (jsquyres) wrote:
We did have some kind of stdout/stderr truncation issue a little while ago, but
I don't remember what version it specifically affected.
I would definitely update to at least Open MPI 1.10.4 (lots of bug fixes since
1.10.0). Better would be to update to Open MPI 2.0.1 -- that's the current
generation and where all of our work is going these days.
On Oct 5, 2016, at 9:23 AM, Emre Brookes <e...@biochem.uthscsa.edu> wrote:
$ cat /etc/redhat-release
CentOS Linux release 7.2.1511 (Core)
$ yum list installed | grep openmpi
openmpi.x86_64 1.10.0-10.el7 @base
openmpi-devel.x86_64 1.10.0-10.el7 @base
(1) When I run
$ mpirun -H myhosts -np myprocs executable
the job runs fine and outputs correctly to stdout
(2) When I run
$ mpirun -H myhosts -np myprocs executable > stdout.log
The stdout.log file prematurely ends (without full output)
... but the mpi executable itself seems to keep running forever until manually terminated
will a "kill".
(3) When I run
$ mpirun -H myhosts -np myprocs executable | cat > stdout.log
the job runs fine and outputs correctly to the stdout.log file
I tried playing with a 'stdbuf' prefix to the command, but this didn't seem to
help
I would like (2) to work, but have resorted to (3).
I tried digging around in the parameters after seeing
https://github.com/open-mpi/ompi/issues/341
and thinking it might be something similar, but didn't see any poll or epoll in
.conf
I am hesitant to try to compile from scratch and get away from the repo release
cycle.
Is this a known bug?
If so, and if it has been fixed, would you recommend I install the latest
stable rpm of 1.10.4-1 from https://www.open-mpi.org/software/ompi/v1.10/ ?
Thanks,
Emre
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