On Sep 1, 2012, at 4:33 AM, Zbigniew Koza <zzkoza@gmail.com> wrote:

Thanks, Ralph,

the new syntax works well (I used "man mpirun", which displayed the old syntax).

Ouch - will have to fix that. Thx

Also, the report displayed by --report-binding is far more human-readable than in previous versions of OpenMPI

Out of curiosity, and also to supress the warning, I installed the libnuma-dev package with libnuma.so and libnuma.a libraries, but the warning remains.
Does it mean I should recompile OpenMPI to get rid of this warning?

I'll have to let Jeff answer that one, but I should think not as it is dynamically loaded. For now, you can turn that warning off by adding

-mca hwloc_base_mem_bind_failure_action silent

Jeff is responsible for the length of that param :-)



Z Koza

 

2012/9/1 Ralph Castain <rhc@open-mpi.org>
You are using cmd line options that no longer exist in the 1.9 release - look at "mpirun -h" for the current list of options.

FWIW: in your example, the correct cmd line would be:

mpirun -np 2 --bind-to core -map-by core --report-bindings uptime

Note the space in "--bind-to core" and the "-map-by" option syntax. The warning means that we didn't find libnuma installed on your machine, so we cannot bind memory allocations (but can bind processes).

On Sep 1, 2012, at 3:41 AM, Zbigniew Koza <zzkoza@gmail.com> wrote:

Hi,

I have one more question.
I wanted to experiment with processor affinity command-line options on my ubuntu PC.
When I use OpenMPI compiled from sourecs a few weeks ago, mpirun returns error messages.
However, the"official" OpenMPI installation on the same machine makes no problem.
Does it mean there's a  bug in OpenMPI-current and I should report a bug?

=======  1. OpneMPI version: ====

mpirun -V
mpirun (Open MPI) 1.9a1r26880

Report bugs to http://www.open-mpi.org/community/help/


==== 2. mpirun "offending" command and error report: ===

zkoza@zbyszek:~$ mpirun -np 2 --bind-to-core -bycore --report-bindings uptime
--------------------------------------------------------------------------
WARNING: a request was made to bind a process. While the system
supports binding the process itself, at least one node does NOT
support binding memory to the process location.

  Node:  zbyszek

This is a warning only; your job will continue, though performance may
be degraded.
--------------------------------------------------------------------------
--------------------------------------------------------------------------
mpirun was unable to find the specified executable file, and therefore
did not launch the job.  This error was first reported for process
rank 0; it may have occurred for other processes as well.

NOTE: A common cause for this error is misspelling a mpirun command
      line parameter option (remember that mpirun interprets the first
      unrecognized command line token as the executable).

Node:       zbyszek
Executable: -bycore
--------------------------------------------------------------------------
2 total processes failed to start


==== 3. the same mpirun command using standard MPI installation ====

LD_LIBRARY_PATH=/usr/lib/openmpi /usr/bin/mpirun --path /usr/lib/openmpi -np 2 --bind-to-core -bycore --report-bindings uptime
[zbyszek:03104] [[7637,0],0] odls:default:fork binding child [[7637,1],0] to cpus 0001
[zbyszek:03104] [[7637,0],0] odls:default:fork binding child [[7637,1],1] to cpus 0002
 12:25:51 up 21:27,  1 user,  load average: 0.00, 0.01, 0.05
 12:25:51 up 21:27,  1 user,  load average: 0.00, 0.01, 0.05


==== 4. version of standard OpenMPI ===

zkoza@zbyszek:~$ LD_LIBRARY_PATH=/usr/lib/openmpi /usr/bin/mpirun --path /usr/lib/openmpi --version
mpirun (Open MPI) 1.4.3



Z Koza
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