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From: Josh Hursey (jjhursey_at_[hidden])
Date: 2006-08-30 09:54:59


forgot this bit in my mail. With the mpirun just hanging out there I
attached GDB and got the following stack trace:
(gdb) bt
#0 0x0000003d1b9bd1af in poll () from /lib64/tls/libc.so.6
#1 0x0000002a956e6389 in opal_poll_dispatch (base=0x5136d0,
arg=0x513730, tv=0x7fbfffee70) at poll.c:191
#2 0x0000002a956e28b6 in opal_event_base_loop (base=0x5136d0,
flags=5) at event.c:584
#3 0x0000002a956e26b7 in opal_event_loop (flags=5) at event.c:514
#4 0x0000002a956db7c7 in opal_progress () at runtime/opal_progress.c:
259
#5 0x000000000040334c in opal_condition_wait (c=0x509650,
m=0x509600) at ../../../opal/threads/condition.h:81
#6 0x0000000000402f52 in orterun (argc=9, argv=0x7fbffff0b8) at
orterun.c:444
#7 0x00000000004028a3 in main (argc=9, argv=0x7fbffff0b8) at main.c:13

Seems that mpirun is waiting for things to complete :/

On Aug 30, 2006, at 9:53 AM, Josh Hursey wrote:

>
> On Aug 30, 2006, at 7:19 AM, Jeff Squyres wrote:
>
>> On 8/29/06 8:57 PM, "Josh Hursey" <jjhursey_at_[hidden]> wrote:
>>
>>>> Does this apply to *all* tests, or only some of the tests (like
>>>> allgather)?
>>>
>>> All of the tests: Trivial and ibm. They all timeout :(
>>
>> Blah. The trivial tests are simply "hello world", so they should
>> take just
>> about no time at all.
>>
>> Is this running under SLURM? I put the code in there to know how
>> many procs
>> to use in SLURM but have not tested it in eons. I doubt that's the
>> problem,
>> but that's one thing to check.
>>
>
> Yep it is in SLURM. and it seems that the 'number of procs' code is
> working fine as it changes with different allocations.
>
>> Can you set a super-long timeout (e.g., a few minutes), and while
>> one of the
>> trivial tests is running, do some ps's on the relevant nodes and
>> see what,
>> if anything, is running? E.g., mpirun, the test executable on the
>> nodes,
>> etc.
>
> Without setting a long timeout. It seems that mpirun is running, but
> nothing else and only on the launching node.
>
> When a test starts you see the mpirun launching properly:
> $ ps aux | grep ...
> USER PID %CPU %MEM VSZ RSS TTY STAT START TIME COMMAND
> mpiteam 15117 0.5 0.8 113024 33680 ? S 09:32 0:06 perl ./
> client/mtt --debug --scratch /u/mpiteam/tmp/mtt-scratch --file /u/
> mpiteam/local/etc/ompi-iu-odin-core.ini --verbose --print-time
> mpiteam 15294 0.0 0.0 0 0 ? Z 09:32 0:00 [sh]
> <defunct>
> mpiteam 28453 0.2 0.0 38072 3536 ? S 09:50 0:00 mpirun
> -mca btl tcp,self -np 32 --prefix /san/homedirs/mpiteam/tmp/mtt-
> scratch/installs/ompi-nightly-trunk/odin_gcc_warnings/1.3a1r11497/
> install collective/allgather_in_place
> mpiteam 28454 0.0 0.0 41716 2040 ? Sl 09:50 0:00 srun --
> nodes=16 --ntasks=16 --
> nodelist=odin022,odin021,odin020,odin019,odin018,odin017,odin016,odin0
> 15
> ,odin014,odin013,odin012,odin011,odin010,odin009,odin008,odin007
> orted --no-daemonize --bootproxy 1 --ns-nds slurm --name 0.0.1 --
> num_procs 16 --vpid_start 0 --universe
> mpiteam_at_[hidden]:default-universe-28453 --nsreplica
> "0.0.0;tcp://129.79.240.107:40904" --gprreplica "0.0.0;tcp://
> 129.79.240.107:40904"
> mpiteam 28455 0.0 0.0 23212 1804 ? Ssl 09:50 0:00 srun --
> nodes=16 --ntasks=16 --
> nodelist=odin022,odin021,odin020,odin019,odin018,odin017,odin016,odin0
> 15
> ,odin014,odin013,odin012,odin011,odin010,odin009,odin008,odin007
> orted --no-daemonize --bootproxy 1 --ns-nds slurm --name 0.0.1 --
> num_procs 16 --vpid_start 0 --universe
> mpiteam_at_[hidden]:default-universe-28453 --nsreplica
> "0.0.0;tcp://129.79.240.107:40904" --gprreplica "0.0.0;tcp://
> 129.79.240.107:40904"
> mpiteam 28472 0.0 0.0 36956 2256 ? S 09:50 0:00 /san/
> homedirs/mpiteam/tmp/mtt-scratch/installs/ompi-nightly-trunk/
> odin_gcc_warnings/1.3a1r11497/install/bin/orted --no-daemonize --
> bootproxy 1 --ns-nds slurm --name 0.0.1 --num_procs 16 --vpid_start 0
> --universe mpiteam_at_[hidden]:default-universe-28453 --
> nsreplica "0.0.0;tcp://129.79.240.107:40904" --gprreplica
> "0.0.0;tcp://129.79.240.107:40904"
> mpiteam 28482 0.1 0.0 64296 3564 ? S 09:50 0:00
> collective/allgather_in_place
> mpiteam 28483 0.1 0.0 64296 3564 ? S 09:50 0:00
> collective/allgather_in_place
>
> But once the test finishes, mpirun seems to just be hanging out.
> $ ps aux | grep ...
> USER PID %CPU %MEM VSZ RSS TTY STAT START TIME COMMAND
> mpiteam 15083 0.0 0.0 52760 1040 ? S 09:31 0:00 /bin/
> bash /var/tmp/slurmd/job148126/script
> root 15086 0.0 0.0 42884 3172 ? Ss 09:31 0:00 sshd:
> mpiteam [priv]
> mpiteam 15088 0.0 0.0 43012 3252 ? S 09:31 0:00 sshd:
> mpiteam_at_pts/1
> mpiteam 15089 0.0 0.0 56680 1912 pts/1 Ss 09:31 0:00 -tcsh
> mpiteam 15117 0.5 0.8 113024 33680 ? S 09:32 0:06 perl ./
> client/mtt --debug --scratch /u/mpiteam/tmp/mtt-scratch --file /u/
> mpiteam/local/etc/ompi-iu-odin-core.ini --verbose --print-time
> mpiteam 15294 0.0 0.0 0 0 ? Z 09:32 0:00 [sh]
> <defunct>
> mpiteam 28453 0.0 0.0 38204 3568 ? S 09:50 0:00 mpirun
> -mca btl tcp,self -np 32 --prefix /san/homedirs/mpiteam/tmp/mtt-
> scratch/installs/ompi-nightly-trunk/odin_gcc_warnings/1.3a1r11497/
> install collective/allgather_in_place
>
> Thoughts?
>
>>
>> --
>> Jeff Squyres
>> Server Virtualization Business Unit
>> Cisco Systems
>
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