Matt --
We were discussing this issue on our weekly OMPI engineering call today.
Can you check one thing for me? With the un-edited 1.8.2 tarball installation,
I see that you're getting no output for commands that you run -- but also no
errors.
Can you verify and see if your commands are actually *running*? E.g, try:
$ cat > script.sh <<EOF
#!/bin/sh
echo hello world
sleep 600
echo goodbye world
EOF
$ chmod +x script.sh
$ setenv OMPI_MCA_shmem_mmap_enable_nfs_warning 0
$ /discover/nobackup/mathomp4/MPI/gcc_4.9.1-openmpi_1.8.2-clean/bin/mpirun -np
8 script.sh
and then go "ps" on the back-end nodes and see if there is an "orted" process
and N "sleep 600" processes running on them.
I'm *assuming* you won't see the "hello world" output.
The purpose of this test is that I want to see if OMPI is just totally erring
out and not even running your job (which is quite unlikely; OMPI should be much
more noisy when this happens), or whether we're simply not seeing the stdout
from the job.
Thanks.
On Sep 2, 2014, at 9:36 AM, Matt Thompson <fort...@gmail.com> wrote:
> On that machine, it would be SLES 11 SP1. I think it's soon transitioning to
> SLES 11 SP3.
>
> I also use Open MPI on an RHEL 6.5 box (possibly soon to be RHEL 7).
>
>
> On Mon, Sep 1, 2014 at 8:41 PM, Ralph Castain <r...@open-mpi.org> wrote:
> Thanks - I expect we'll have to release 1.8.3 soon to fix this in case others
> have similar issues. Out of curiosity, what OS are you using?
>
>
> On Sep 1, 2014, at 9:00 AM, Matt Thompson <fort...@gmail.com> wrote:
>
>> Ralph,
>>
>> Okay that seems to have done it here (well, minus the usual
>> shmem_mmap_enable_nfs_warning that our system always generates):
>>
>> (1033) $ setenv OMPI_MCA_shmem_mmap_enable_nfs_warning 0
>> (1034) $
>> /discover/nobackup/mathomp4/MPI/gcc_4.9.1-openmpi_1.8.2-debug-patch/bin/mpirun
>> -np 8 ./helloWorld.182-debug-patch.x
>> Process 7 of 8 is on borg01w218
>> Process 5 of 8 is on borg01w218
>> Process 1 of 8 is on borg01w218
>> Process 3 of 8 is on borg01w218
>> Process 0 of 8 is on borg01w218
>> Process 2 of 8 is on borg01w218
>> Process 4 of 8 is on borg01w218
>> Process 6 of 8 is on borg01w218
>>
>> I'll ask the admin to apply the patch locally...and wait for 1.8.3, I
>> suppose.
>>
>> Thanks,
>> Matt
>>
>> On Sun, Aug 31, 2014 at 10:08 AM, Ralph Castain <r...@open-mpi.org> wrote:
>> Hmmm....I may see the problem. Would you be so kind as to apply the attached
>> patch to your 1.8.2 code, rebuild, and try again?
>>
>> Much appreciate the help. Everyone's system is slightly different, and I
>> think you've uncovered one of those differences.
>> Ralph
>>
>>
>>
>> On Aug 31, 2014, at 6:25 AM, Matt Thompson <fort...@gmail.com> wrote:
>>
>>> Ralph,
>>>
>>> Sorry it took me a bit of time. Here you go:
>>>
>>> (1002) $
>>> /discover/nobackup/mathomp4/MPI/gcc_4.9.1-openmpi_1.8.2-debug/bin/mpirun
>>> --leave-session-attached --debug-daemons --mca oob_base_verbose 10 -mca
>>> plm_base_verbose 5 -np 8 ./helloWorld.182-debug.x
>>> [borg01w063:03815] mca:base:select:( plm) Querying component [isolated]
>>> [borg01w063:03815] mca:base:select:( plm) Query of component [isolated]
>>> set priority to 0
>>> [borg01w063:03815] mca:base:select:( plm) Querying component [rsh]
>>> [borg01w063:03815] [[INVALID],INVALID] plm:rsh_lookup on agent ssh : rsh
>>> path NULL
>>> [borg01w063:03815] mca:base:select:( plm) Query of component [rsh] set
>>> priority to 10
>>> [borg01w063:03815] mca:base:select:( plm) Querying component [slurm]
>>> [borg01w063:03815] [[INVALID],INVALID] plm:slurm: available for selection
>>> [borg01w063:03815] mca:base:select:( plm) Query of component [slurm] set
>>> priority to 75
>>> [borg01w063:03815] mca:base:select:( plm) Selected component [slurm]
>>> [borg01w063:03815] plm:base:set_hnp_name: initial bias 3815 nodename hash
>>> 1757783593
>>> [borg01w063:03815] plm:base:set_hnp_name: final jobfam 49163
>>> [borg01w063:03815] mca: base: components_register: registering oob
>>> components
>>> [borg01w063:03815] mca: base: components_register: found loaded component
>>> tcp
>>> [borg01w063:03815] mca: base: components_register: component tcp register
>>> function successful
>>> [borg01w063:03815] mca: base: components_open: opening oob components
>>> [borg01w063:03815] mca: base: components_open: found loaded component tcp
>>> [borg01w063:03815] mca: base: components_open: component tcp open function
>>> successful
>>> [borg01w063:03815] mca:oob:select: checking available component tcp
>>> [borg01w063:03815] mca:oob:select: Querying component [tcp]
>>> [borg01w063:03815] oob:tcp: component_available called
>>> [borg01w063:03815] WORKING INTERFACE 1 KERNEL INDEX 1 FAMILY: V4
>>> [borg01w063:03815] WORKING INTERFACE 2 KERNEL INDEX 1 FAMILY: V4
>>> [borg01w063:03815] WORKING INTERFACE 3 KERNEL INDEX 2 FAMILY: V4
>>> [borg01w063:03815] [[49163,0],0] oob:tcp:init adding 10.1.24.63 to our list
>>> of V4 connections
>>> [borg01w063:03815] WORKING INTERFACE 4 KERNEL INDEX 4 FAMILY: V4
>>> [borg01w063:03815] [[49163,0],0] oob:tcp:init adding 172.31.1.254 to our
>>> list of V4 connections
>>> [borg01w063:03815] WORKING INTERFACE 5 KERNEL INDEX 5 FAMILY: V4
>>> [borg01w063:03815] [[49163,0],0] oob:tcp:init adding 10.12.24.63 to our
>>> list of V4 connections
>>> [borg01w063:03815] [[49163,0],0] TCP STARTUP
>>> [borg01w063:03815] [[49163,0],0] attempting to bind to IPv4 port 0
>>> [borg01w063:03815] [[49163,0],0] assigned IPv4 port 41373
>>> [borg01w063:03815] mca:oob:select: Adding component to end
>>> [borg01w063:03815] mca:oob:select: Found 1 active transports
>>> [borg01w063:03815] [[49163,0],0] plm:base:receive start comm
>>> [borg01w063:03815] [[49163,0],0] plm:base:setup_job
>>> [borg01w063:03815] [[49163,0],0] plm:slurm: LAUNCH DAEMONS CALLED
>>> [borg01w063:03815] [[49163,0],0] plm:base:setup_vm
>>> [borg01w063:03815] [[49163,0],0] plm:base:setup_vm creating map
>>> [borg01w063:03815] [[49163,0],0] plm:base:setup_vm add new daemon
>>> [[49163,0],1]
>>> [borg01w063:03815] [[49163,0],0] plm:base:setup_vm assigning new daemon
>>> [[49163,0],1] to node borg01w064
>>> [borg01w063:03815] [[49163,0],0] plm:base:setup_vm add new daemon
>>> [[49163,0],2]
>>> [borg01w063:03815] [[49163,0],0] plm:base:setup_vm assigning new daemon
>>> [[49163,0],2] to node borg01w065
>>> [borg01w063:03815] [[49163,0],0] plm:base:setup_vm add new daemon
>>> [[49163,0],3]
>>> [borg01w063:03815] [[49163,0],0] plm:base:setup_vm assigning new daemon
>>> [[49163,0],3] to node borg01w069
>>> [borg01w063:03815] [[49163,0],0] plm:base:setup_vm add new daemon
>>> [[49163,0],4]
>>> [borg01w063:03815] [[49163,0],0] plm:base:setup_vm assigning new daemon
>>> [[49163,0],4] to node borg01w070
>>> [borg01w063:03815] [[49163,0],0] plm:base:setup_vm add new daemon
>>> [[49163,0],5]
>>> [borg01w063:03815] [[49163,0],0] plm:base:setup_vm assigning new daemon
>>> [[49163,0],5] to node borg01w071
>>> [borg01w063:03815] [[49163,0],0] plm:slurm: launching on nodes
>>> borg01w064,borg01w065,borg01w069,borg01w070,borg01w071
>>> [borg01w063:03815] [[49163,0],0] plm:slurm: Set
>>> prefix:/discover/nobackup/mathomp4/MPI/gcc_4.9.1-openmpi_1.8.2-debug
>>> [borg01w063:03815] [[49163,0],0] plm:slurm: final top-level argv:
>>> srun --ntasks-per-node=1 --kill-on-bad-exit --cpu_bind=none --nodes=5
>>> --nodelist=borg01w064,borg01w065,borg01w069,borg01w070,borg01w071
>>> --ntasks=5 orted -mca orte_debug_daemons 1 -mca orte_leave_session_attached
>>> 1 -mca orte_ess_jobid 3221946368 -mca orte_ess_vpid 1 -mca
>>> orte_ess_num_procs 6 -mca orte_hnp_uri
>>> 3221946368.0;tcp://10.1.24.63,172.31.1.254,10.12.24.63:41373 --mca
>>> oob_base_verbose 10 -mca plm_base_verbose 5
>>> [borg01w063:03815] [[49163,0],0] plm:slurm: reset PATH:
>>> /discover/nobackup/mathomp4/MPI/gcc_4.9.1-openmpi_1.8.2-debug/bin:/usr/local/other/SLES11/gcc/4.9.1/bin:/usr/local/other/SLES11.1/git/1.8.5.2/libexec/git-core:/usr/local/other/SLES11.1/git/1.8.5.2/bin:/usr/local/other/SLES11/svn/1.6.17/bin:/usr/local/other/SLES11/tkcvs/8.2.3/gcc-4.3.2/bin:.:/home/mathomp4/bin:/home/mathomp4/cvstools:/discover/nobackup/projects/gmao/share/dasilva/opengrads/Contents:/usr/local/other/Htop/1.0/bin:/usr/local/other/SLES11/gnuplot/4.6.0/gcc-4.3.2/bin:/usr/local/other/SLES11/xpdf/3.03-gcc-4.3.2/bin:/home/mathomp4/src/pdtoolkit-3.16/x86_64/bin:/discover/nobackup/mathomp4/WavewatchIII-GMAO/bin:/discover/nobackup/mathomp4/WavewatchIII-GMAO/exe:/usr/local/other/pods:/usr/local/other/SLES11.1/R/3.1.0/gcc-4.3.4/lib64/R/bin:.:/home/mathomp4/bin:/home/mathomp4/cvstools:/discover/nobackup/projects/gmao/share/dasilva/opengrads/Contents:/usr/local/other/Htop/1.0/bin:/usr/local/other/SLES11/gnuplot/4.6.0/gcc-4.3.2/bin:/usr/local/other/SLES11/xpdf/3.03-gcc-4.3.2/bin:/home/mathomp4/src/pdtoolkit-3.16/x86_64/bin:/discover/nobackup/mathomp4/WavewatchIII-GMAO/bin:/discover/nobackup/mathomp4/WavewatchIII-GMAO/exe:/usr/local/other/pods:/usr/local/other/SLES11.1/R/3.1.0/gcc-4.3.4/lib64/R/bin:/home/mathomp4/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/bin:/usr/bin/X11:/usr/X11R6/bin:/usr/games:/opt/kde3/bin:/usr/lib/mit/bin:/usr/lib/mit/sbin:/usr/slurm/bin
>>> [borg01w063:03815] [[49163,0],0] plm:slurm: reset LD_LIBRARY_PATH:
>>> /discover/nobackup/mathomp4/MPI/gcc_4.9.1-openmpi_1.8.2-debug/lib:/usr/local/other/SLES11/gcc/4.9.1/lib64:/usr/local/other/SLES11.1/git/1.8.5.2/lib:/usr/local/other/SLES11/svn/1.6.17/lib:/usr/local/other/SLES11/tkcvs/8.2.3/gcc-4.3.2/lib
>>> srun.slurm: cluster configuration lacks support for cpu binding
>>> srun.slurm: cluster configuration lacks support for cpu binding
>>> [borg01w065:15893] mca: base: components_register: registering oob
>>> components
>>> [borg01w065:15893] mca: base: components_register: found loaded component
>>> tcp
>>> [borg01w065:15893] mca: base: components_register: component tcp register
>>> function successful
>>> [borg01w065:15893] mca: base: components_open: opening oob components
>>> [borg01w065:15893] mca: base: components_open: found loaded component tcp
>>> [borg01w065:15893] mca: base: components_open: component tcp open function
>>> successful
>>> [borg01w065:15893] mca:oob:select: checking available component tcp
>>> [borg01w065:15893] mca:oob:select: Querying component [tcp]
>>> [borg01w065:15893] oob:tcp: component_available called
>>> [borg01w065:15893] WORKING INTERFACE 1 KERNEL INDEX 1 FAMILY: V4
>>> [borg01w065:15893] WORKING INTERFACE 2 KERNEL INDEX 1 FAMILY: V4
>>> [borg01w065:15893] WORKING INTERFACE 3 KERNEL INDEX 2 FAMILY: V4
>>> [borg01w065:15893] [[49163,0],2] oob:tcp:init adding 10.1.24.65 to our list
>>> of V4 connections
>>> [borg01w065:15893] WORKING INTERFACE 4 KERNEL INDEX 4 FAMILY: V4
>>> [borg01w065:15893] [[49163,0],2] oob:tcp:init adding 172.31.1.254 to our
>>> list of V4 connections
>>> [borg01w065:15893] WORKING INTERFACE 5 KERNEL INDEX 5 FAMILY: V4
>>> [borg01w065:15893] [[49163,0],2] oob:tcp:init adding 10.12.24.65 to our
>>> list of V4 connections
>>> [borg01w065:15893] [[49163,0],2] TCP STARTUP
>>> [borg01w065:15893] [[49163,0],2] attempting to bind to IPv4 port 0
>>> [borg01w065:15893] [[49163,0],2] assigned IPv4 port 43456
>>> [borg01w065:15893] mca:oob:select: Adding component to end
>>> [borg01w065:15893] mca:oob:select: Found 1 active transports
>>> [borg01w070:12645] mca: base: components_register: registering oob
>>> components
>>> [borg01w070:12645] mca: base: components_register: found loaded component
>>> tcp
>>> [borg01w070:12645] mca: base: components_register: component tcp register
>>> function successful
>>> [borg01w070:12645] mca: base: components_open: opening oob components
>>> [borg01w070:12645] mca: base: components_open: found loaded component tcp
>>> [borg01w070:12645] mca: base: components_open: component tcp open function
>>> successful
>>> [borg01w070:12645] mca:oob:select: checking available component tcp
>>> [borg01w070:12645] mca:oob:select: Querying component [tcp]
>>> [borg01w070:12645] oob:tcp: component_available called
>>> [borg01w070:12645] WORKING INTERFACE 1 KERNEL INDEX 1 FAMILY: V4
>>> [borg01w070:12645] WORKING INTERFACE 2 KERNEL INDEX 1 FAMILY: V4
>>> [borg01w070:12645] WORKING INTERFACE 3 KERNEL INDEX 2 FAMILY: V4
>>> [borg01w070:12645] [[49163,0],4] oob:tcp:init adding 10.1.24.70 to our list
>>> of V4 connections
>>> [borg01w070:12645] WORKING INTERFACE 4 KERNEL INDEX 4 FAMILY: V4
>>> [borg01w070:12645] [[49163,0],4] oob:tcp:init adding 172.31.1.254 to our
>>> list of V4 connections
>>> [borg01w070:12645] WORKING INTERFACE 5 KERNEL INDEX 5 FAMILY: V4
>>> [borg01w070:12645] [[49163,0],4] oob:tcp:init adding 10.12.24.70 to our
>>> list of V4 connections
>>> [borg01w070:12645] [[49163,0],4] TCP STARTUP
>>> [borg01w070:12645] [[49163,0],4] attempting to bind to IPv4 port 0
>>> [borg01w070:12645] [[49163,0],4] assigned IPv4 port 53062
>>> [borg01w070:12645] mca:oob:select: Adding component to end
>>> [borg01w070:12645] mca:oob:select: Found 1 active transports
>>> [borg01w064:16565] mca: base: components_register: registering oob
>>> components
>>> [borg01w064:16565] mca: base: components_register: found loaded component
>>> tcp
>>> [borg01w064:16565] mca: base: components_register: component tcp register
>>> function successful
>>> [borg01w071:14879] mca: base: components_register: registering oob
>>> components
>>> [borg01w071:14879] mca: base: components_register: found loaded component
>>> tcp
>>> [borg01w064:16565] mca: base: components_open: opening oob components
>>> [borg01w064:16565] mca: base: components_open: found loaded component tcp
>>> [borg01w064:16565] mca: base: components_open: component tcp open function
>>> successful
>>> [borg01w064:16565] mca:oob:select: checking available component tcp
>>> [borg01w064:16565] mca:oob:select: Querying component [tcp]
>>> [borg01w064:16565] oob:tcp: component_available called
>>> [borg01w064:16565] WORKING INTERFACE 1 KERNEL INDEX 1 FAMILY: V4
>>> [borg01w064:16565] WORKING INTERFACE 2 KERNEL INDEX 1 FAMILY: V4
>>> [borg01w064:16565] WORKING INTERFACE 3 KERNEL INDEX 2 FAMILY: V4
>>> [borg01w064:16565] [[49163,0],1] oob:tcp:init adding 10.1.24.64 to our list
>>> of V4 connections
>>> [borg01w064:16565] WORKING INTERFACE 4 KERNEL INDEX 4 FAMILY: V4
>>> [borg01w064:16565] [[49163,0],1] oob:tcp:init adding 172.31.1.254 to our
>>> list of V4 connections
>>> [borg01w064:16565] WORKING INTERFACE 5 KERNEL INDEX 5 FAMILY: V4
>>> [borg01w064:16565] [[49163,0],1] oob:tcp:init adding 10.12.24.64 to our
>>> list of V4 connections
>>> [borg01w064:16565] [[49163,0],1] TCP STARTUP
>>> [borg01w064:16565] [[49163,0],1] attempting to bind to IPv4 port 0
>>> [borg01w064:16565] [[49163,0],1] assigned IPv4 port 43828
>>> [borg01w064:16565] mca:oob:select: Adding component to end
>>> [borg01w069:30276] mca: base: components_register: registering oob
>>> components
>>> [borg01w069:30276] mca: base: components_register: found loaded component
>>> tcp
>>> [borg01w071:14879] mca: base: components_register: component tcp register
>>> function successful
>>> [borg01w069:30276] mca: base: components_register: component tcp register
>>> function successful
>>> [borg01w071:14879] mca: base: components_open: opening oob components
>>> [borg01w071:14879] mca: base: components_open: found loaded component tcp
>>> [borg01w071:14879] mca: base: components_open: component tcp open function
>>> successful
>>> [borg01w071:14879] mca:oob:select: checking available component tcp
>>> [borg01w071:14879] mca:oob:select: Querying component [tcp]
>>> [borg01w071:14879] oob:tcp: component_available called
>>> [borg01w069:30276] mca: base: components_open: opening oob components
>>> [borg01w069:30276] mca: base: components_open: found loaded component tcp
>>> [borg01w069:30276] mca: base: components_open: component tcp open function
>>> successful
>>> [borg01w071:14879] WORKING INTERFACE 1 KERNEL INDEX 1 FAMILY: V4
>>> [borg01w071:14879] WORKING INTERFACE 2 KERNEL INDEX 1 FAMILY: V4
>>> [borg01w071:14879] WORKING INTERFACE 3 KERNEL INDEX 2 FAMILY: V4
>>> [borg01w071:14879] [[49163,0],5] oob:tcp:init adding 10.1.24.71 to our list
>>> of V4 connections
>>> [borg01w071:14879] WORKING INTERFACE 4 KERNEL INDEX 4 FAMILY: V4
>>> [borg01w069:30276] mca:oob:select: checking available component tcp
>>> [borg01w069:30276] mca:oob:select: Querying component [tcp]
>>> [borg01w069:30276] oob:tcp: component_available called
>>> [borg01w071:14879] [[49163,0],5] oob:tcp:init adding 172.31.1.254 to our
>>> list of V4 connections
>>> [borg01w071:14879] WORKING INTERFACE 5 KERNEL INDEX 5 FAMILY: V4
>>> [borg01w071:14879] [[49163,0],5] oob:tcp:init adding 10.12.24.71 to our
>>> list of V4 connections
>>> [borg01w071:14879] [[49163,0],5] TCP STARTUP
>>> [borg01w069:30276] WORKING INTERFACE 1 KERNEL INDEX 1 FAMILY: V4
>>> [borg01w069:30276] WORKING INTERFACE 2 KERNEL INDEX 1 FAMILY: V4
>>> [borg01w069:30276] WORKING INTERFACE 3 KERNEL INDEX 2 FAMILY: V4
>>> [borg01w069:30276] [[49163,0],3] oob:tcp:init adding 10.1.24.69 to our list
>>> of V4 connections
>>> [borg01w069:30276] WORKING INTERFACE 4 KERNEL INDEX 4 FAMILY: V4
>>> [borg01w069:30276] [[49163,0],3] oob:tcp:init adding 172.31.1.254 to our
>>> list of V4 connections
>>> [borg01w069:30276] WORKING INTERFACE 5 KERNEL INDEX 5 FAMILY: V4
>>> [borg01w069:30276] [[49163,0],3] oob:tcp:init adding 10.12.24.69 to our
>>> list of V4 connections
>>> [borg01w069:30276] [[49163,0],3] TCP STARTUP
>>> [borg01w071:14879] [[49163,0],5] attempting to bind to IPv4 port 0
>>> [borg01w069:30276] [[49163,0],3] attempting to bind to IPv4 port 0
>>> [borg01w069:30276] [[49163,0],3] assigned IPv4 port 39299
>>> [borg01w064:16565] mca:oob:select: Found 1 active transports
>>> [borg01w069:30276] mca:oob:select: Adding component to end
>>> [borg01w069:30276] mca:oob:select: Found 1 active transports
>>> [borg01w071:14879] [[49163,0],5] assigned IPv4 port 56113
>>> [borg01w071:14879] mca:oob:select: Adding component to end
>>> [borg01w071:14879] mca:oob:select: Found 1 active transports
>>> srun.slurm: error: borg01w064: task 0: Exited with exit code 213
>>> srun.slurm: Terminating job step 2347743.3
>>> srun.slurm: Job step aborted: Waiting up to 2 seconds for job step to
>>> finish.
>>> [borg01w070:12645] [[49163,0],4] ORTE_ERROR_LOG: Bad parameter in file
>>> base/rml_base_contact.c at line 161
>>> [borg01w070:12645] [[49163,0],4] ORTE_ERROR_LOG: Bad parameter in file
>>> routed_binomial.c at line 498
>>> [borg01w070:12645] [[49163,0],4] ORTE_ERROR_LOG: Bad parameter in file
>>> base/ess_base_std_orted.c at line 539
>>> [borg01w065:15893] [[49163,0],2] ORTE_ERROR_LOG: Bad parameter in file
>>> base/rml_base_contact.c at line 161
>>> [borg01w065:15893] [[49163,0],2] ORTE_ERROR_LOG: Bad parameter in file
>>> routed_binomial.c at line 498
>>> [borg01w065:15893] [[49163,0],2] ORTE_ERROR_LOG: Bad parameter in file
>>> base/ess_base_std_orted.c at line 539
>>> slurmd[borg01w065]: *** STEP 2347743.3 KILLED AT 2014-08-31T09:24:17 WITH
>>> SIGNAL 9 ***
>>> slurmd[borg01w070]: *** STEP 2347743.3 KILLED AT 2014-08-31T09:24:17 WITH
>>> SIGNAL 9 ***
>>> [borg01w064:16565] [[49163,0],1] ORTE_ERROR_LOG: Bad parameter in file
>>> base/rml_base_contact.c at line 161
>>> [borg01w064:16565] [[49163,0],1] ORTE_ERROR_LOG: Bad parameter in file
>>> routed_binomial.c at line 498
>>> [borg01w064:16565] [[49163,0],1] ORTE_ERROR_LOG: Bad parameter in file
>>> base/ess_base_std_orted.c at line 539
>>> [borg01w069:30276] [[49163,0],3] ORTE_ERROR_LOG: Bad parameter in file
>>> base/rml_base_contact.c at line 161
>>> [borg01w069:30276] [[49163,0],3] ORTE_ERROR_LOG: Bad parameter in file
>>> routed_binomial.c at line 498
>>> [borg01w069:30276] [[49163,0],3] ORTE_ERROR_LOG: Bad parameter in file
>>> base/ess_base_std_orted.c at line 539
>>> slurmd[borg01w069]: *** STEP 2347743.3 KILLED AT 2014-08-31T09:24:17 WITH
>>> SIGNAL 9 ***
>>> [borg01w071:14879] [[49163,0],5] ORTE_ERROR_LOG: Bad parameter in file
>>> base/rml_base_contact.c at line 161
>>> [borg01w071:14879] [[49163,0],5] ORTE_ERROR_LOG: Bad parameter in file
>>> routed_binomial.c at line 498
>>> [borg01w071:14879] [[49163,0],5] ORTE_ERROR_LOG: Bad parameter in file
>>> base/ess_base_std_orted.c at line 539
>>> slurmd[borg01w071]: *** STEP 2347743.3 KILLED AT 2014-08-31T09:24:17 WITH
>>> SIGNAL 9 ***
>>> slurmd[borg01w065]: *** STEP 2347743.3 KILLED AT 2014-08-31T09:24:17 WITH
>>> SIGNAL 9 ***
>>> slurmd[borg01w069]: *** STEP 2347743.3 KILLED AT 2014-08-31T09:24:17 WITH
>>> SIGNAL 9 ***
>>> slurmd[borg01w070]: *** STEP 2347743.3 KILLED AT 2014-08-31T09:24:17 WITH
>>> SIGNAL 9 ***
>>> slurmd[borg01w071]: *** STEP 2347743.3 KILLED AT 2014-08-31T09:24:17 WITH
>>> SIGNAL 9 ***
>>> srun.slurm: error: borg01w069: task 2: Exited with exit code 213
>>> srun.slurm: error: borg01w065: task 1: Exited with exit code 213
>>> srun.slurm: error: borg01w071: task 4: Exited with exit code 213
>>> srun.slurm: error: borg01w070: task 3: Exited with exit code 213
>>> sh: tcp://10.1.24.63,172.31.1.254,10.12.24.63:41373: No such file or
>>> directory
>>> [borg01w063:03815] [[49163,0],0] plm:slurm: primary daemons complete!
>>> [borg01w063:03815] [[49163,0],0] plm:base:receive stop comm
>>> [borg01w063:03815] [[49163,0],0] TCP SHUTDOWN
>>> [borg01w063:03815] mca: base: close: component tcp closed
>>> [borg01w063:03815] mca: base: close: unloading component tcp
>>>
>>>
>>>
>>> On Fri, Aug 29, 2014 at 3:18 PM, Ralph Castain <r...@open-mpi.org> wrote:
>>> Rats - I also need "-mca plm_base_verbose 5" on there so I can see the cmd
>>> line being executed. Can you add it?
>>>
>>>
>>> On Aug 29, 2014, at 11:16 AM, Matt Thompson <fort...@gmail.com> wrote:
>>>
>>>> Ralph,
>>>>
>>>> Here you go:
>>>>
>>>> (1080) $
>>>> /discover/nobackup/mathomp4/MPI/gcc_4.9.1-openmpi_1.8.2-debug/bin/mpirun
>>>> --leave-session-attached --debug-daemons --mca oob_base_verbose 10 -np 8
>>>> ./helloWorld.182-debug.x
>>>> [borg01x142:29232] mca: base: components_register: registering oob
>>>> components
>>>> [borg01x142:29232] mca: base: components_register: found loaded component
>>>> tcp
>>>> [borg01x142:29232] mca: base: components_register: component tcp register
>>>> function successful
>>>> [borg01x142:29232] mca: base: components_open: opening oob components
>>>> [borg01x142:29232] mca: base: components_open: found loaded component tcp
>>>> [borg01x142:29232] mca: base: components_open: component tcp open function
>>>> successful
>>>> [borg01x142:29232] mca:oob:select: checking available component tcp
>>>> [borg01x142:29232] mca:oob:select: Querying component [tcp]
>>>> [borg01x142:29232] oob:tcp: component_available called
>>>> [borg01x142:29232] WORKING INTERFACE 1 KERNEL INDEX 1 FAMILY: V4
>>>> [borg01x142:29232] WORKING INTERFACE 2 KERNEL INDEX 1 FAMILY: V4
>>>> [borg01x142:29232] WORKING INTERFACE 3 KERNEL INDEX 2 FAMILY: V4
>>>> [borg01x142:29232] [[52298,0],0] oob:tcp:init adding 10.1.25.142 to our
>>>> list of V4 connections
>>>> [borg01x142:29232] WORKING INTERFACE 4 KERNEL INDEX 4 FAMILY: V4
>>>> [borg01x142:29232] [[52298,0],0] oob:tcp:init adding 172.31.1.254 to our
>>>> list of V4 connections
>>>> [borg01x142:29232] WORKING INTERFACE 5 KERNEL INDEX 5 FAMILY: V4
>>>> [borg01x142:29232] [[52298,0],0] oob:tcp:init adding 10.12.25.142 to our
>>>> list of V4 connections
>>>> [borg01x142:29232] [[52298,0],0] TCP STARTUP
>>>> [borg01x142:29232] [[52298,0],0] attempting to bind to IPv4 port 0
>>>> [borg01x142:29232] [[52298,0],0] assigned IPv4 port 41686
>>>> [borg01x142:29232] mca:oob:select: Adding component to end
>>>> [borg01x142:29232] mca:oob:select: Found 1 active transports
>>>> srun.slurm: cluster configuration lacks support for cpu binding
>>>> srun.slurm: cluster configuration lacks support for cpu binding
>>>> [borg01x153:01290] mca: base: components_register: registering oob
>>>> components
>>>> [borg01x153:01290] mca: base: components_register: found loaded component
>>>> tcp
>>>> [borg01x143:13793] mca: base: components_register: registering oob
>>>> components
>>>> [borg01x143:13793] mca: base: components_register: found loaded component
>>>> tcp
>>>> [borg01x153:01290] mca: base: components_register: component tcp register
>>>> function successful
>>>> [borg01x153:01290] mca: base: components_open: opening oob components
>>>> [borg01x153:01290] mca: base: components_open: found loaded component tcp
>>>> [borg01x153:01290] mca: base: components_open: component tcp open function
>>>> successful
>>>> [borg01x153:01290] mca:oob:select: checking available component tcp
>>>> [borg01x153:01290] mca:oob:select: Querying component [tcp]
>>>> [borg01x153:01290] oob:tcp: component_available called
>>>> [borg01x153:01290] WORKING INTERFACE 1 KERNEL INDEX 1 FAMILY: V4
>>>> [borg01x153:01290] WORKING INTERFACE 2 KERNEL INDEX 1 FAMILY: V4
>>>> [borg01x153:01290] WORKING INTERFACE 3 KERNEL INDEX 2 FAMILY: V4
>>>> [borg01x153:01290] [[52298,0],4] oob:tcp:init adding 10.1.25.153 to our
>>>> list of V4 connections
>>>> [borg01x153:01290] WORKING INTERFACE 4 KERNEL INDEX 4 FAMILY: V4
>>>> [borg01x153:01290] [[52298,0],4] oob:tcp:init adding 172.31.1.254 to our
>>>> list of V4 connections
>>>> [borg01x153:01290] WORKING INTERFACE 5 KERNEL INDEX 5 FAMILY: V4
>>>> [borg01x153:01290] [[52298,0],4] oob:tcp:init adding 10.12.25.153 to our
>>>> list of V4 connections
>>>> [borg01x153:01290] [[52298,0],4] TCP STARTUP
>>>> [borg01x153:01290] [[52298,0],4] attempting to bind to IPv4 port 0
>>>> [borg01x143:13793] mca: base: components_register: component tcp register
>>>> function successful
>>>> [borg01x153:01290] [[52298,0],4] assigned IPv4 port 38028
>>>> [borg01x143:13793] mca: base: components_open: opening oob components
>>>> [borg01x143:13793] mca: base: components_open: found loaded component tcp
>>>> [borg01x143:13793] mca: base: components_open: component tcp open function
>>>> successful
>>>> [borg01x143:13793] mca:oob:select: checking available component tcp
>>>> [borg01x143:13793] mca:oob:select: Querying component [tcp]
>>>> [borg01x143:13793] oob:tcp: component_available called
>>>> [borg01x143:13793] WORKING INTERFACE 1 KERNEL INDEX 1 FAMILY: V4
>>>> [borg01x143:13793] WORKING INTERFACE 2 KERNEL INDEX 1 FAMILY: V4
>>>> [borg01x143:13793] WORKING INTERFACE 3 KERNEL INDEX 2 FAMILY: V4
>>>> [borg01x143:13793] [[52298,0],1] oob:tcp:init adding 10.1.25.143 to our
>>>> list of V4 connections
>>>> [borg01x143:13793] WORKING INTERFACE 4 KERNEL INDEX 4 FAMILY: V4
>>>> [borg01x143:13793] [[52298,0],1] oob:tcp:init adding 172.31.1.254 to our
>>>> list of V4 connections
>>>> [borg01x143:13793] WORKING INTERFACE 5 KERNEL INDEX 5 FAMILY: V4
>>>> [borg01x143:13793] [[52298,0],1] oob:tcp:init adding 10.12.25.143 to our
>>>> list of V4 connections
>>>> [borg01x143:13793] [[52298,0],1] TCP STARTUP
>>>> [borg01x143:13793] [[52298,0],1] attempting to bind to IPv4 port 0
>>>> [borg01x153:01290] mca:oob:select: Adding component to end
>>>> [borg01x153:01290] mca:oob:select: Found 1 active transports
>>>> [borg01x143:13793] [[52298,0],1] assigned IPv4 port 44719
>>>> [borg01x143:13793] mca:oob:select: Adding component to end
>>>> [borg01x143:13793] mca:oob:select: Found 1 active transports
>>>> [borg01x144:30878] mca: base: components_register: registering oob
>>>> components
>>>> [borg01x144:30878] mca: base: components_register: found loaded component
>>>> tcp
>>>> [borg01x144:30878] mca: base: components_register: component tcp register
>>>> function successful
>>>> [borg01x144:30878] mca: base: components_open: opening oob components
>>>> [borg01x144:30878] mca: base: components_open: found loaded component tcp
>>>> [borg01x144:30878] mca: base: components_open: component tcp open function
>>>> successful
>>>> [borg01x144:30878] mca:oob:select: checking available component tcp
>>>> [borg01x144:30878] mca:oob:select: Querying component [tcp]
>>>> [borg01x144:30878] oob:tcp: component_available called
>>>> [borg01x144:30878] WORKING INTERFACE 1 KERNEL INDEX 1 FAMILY: V4
>>>> [borg01x144:30878] WORKING INTERFACE 2 KERNEL INDEX 1 FAMILY: V4
>>>> [borg01x144:30878] WORKING INTERFACE 3 KERNEL INDEX 2 FAMILY: V4
>>>> [borg01x144:30878] [[52298,0],2] oob:tcp:init adding 10.1.25.144 to our
>>>> list of V4 connections
>>>> [borg01x144:30878] WORKING INTERFACE 4 KERNEL INDEX 4 FAMILY: V4
>>>> [borg01x144:30878] [[52298,0],2] oob:tcp:init adding 172.31.1.254 to our
>>>> list of V4 connections
>>>> [borg01x144:30878] WORKING INTERFACE 5 KERNEL INDEX 5 FAMILY: V4
>>>> [borg01x144:30878] [[52298,0],2] oob:tcp:init adding 10.12.25.144 to our
>>>> list of V4 connections
>>>> [borg01x144:30878] [[52298,0],2] TCP STARTUP
>>>> [borg01x144:30878] [[52298,0],2] attempting to bind to IPv4 port 0
>>>> [borg01x144:30878] [[52298,0],2] assigned IPv4 port 40700
>>>> [borg01x144:30878] mca:oob:select: Adding component to end
>>>> [borg01x144:30878] mca:oob:select: Found 1 active transports
>>>> [borg01x154:01154] mca: base: components_register: registering oob
>>>> components
>>>> [borg01x154:01154] mca: base: components_register: found loaded component
>>>> tcp
>>>> [borg01x154:01154] mca: base: components_register: component tcp register
>>>> function successful
>>>> [borg01x154:01154] mca: base: components_open: opening oob components
>>>> [borg01x154:01154] mca: base: components_open: found loaded component tcp
>>>> [borg01x154:01154] mca: base: components_open: component tcp open function
>>>> successful
>>>> [borg01x154:01154] mca:oob:select: checking available component tcp
>>>> [borg01x154:01154] mca:oob:select: Querying component [tcp]
>>>> [borg01x154:01154] oob:tcp: component_available called
>>>> [borg01x154:01154] WORKING INTERFACE 1 KERNEL INDEX 1 FAMILY: V4
>>>> [borg01x154:01154] WORKING INTERFACE 2 KERNEL INDEX 1 FAMILY: V4
>>>> [borg01x154:01154] WORKING INTERFACE 3 KERNEL INDEX 2 FAMILY: V4
>>>> [borg01x154:01154] [[52298,0],5] oob:tcp:init adding 10.1.25.154 to our
>>>> list of V4 connections
>>>> [borg01x154:01154] WORKING INTERFACE 4 KERNEL INDEX 4 FAMILY: V4
>>>> [borg01x154:01154] [[52298,0],5] oob:tcp:init adding 172.31.1.254 to our
>>>> list of V4 connections
>>>> [borg01x154:01154] WORKING INTERFACE 5 KERNEL INDEX 5 FAMILY: V4
>>>> [borg01x154:01154] [[52298,0],5] oob:tcp:init adding 10.12.25.154 to our
>>>> list of V4 connections
>>>> [borg01x154:01154] [[52298,0],5] TCP STARTUP
>>>> [borg01x154:01154] [[52298,0],5] attempting to bind to IPv4 port 0
>>>> [borg01x154:01154] [[52298,0],5] assigned IPv4 port 41191
>>>> [borg01x154:01154] mca:oob:select: Adding component to end
>>>> [borg01x154:01154] mca:oob:select: Found 1 active transports
>>>> [borg01x145:02419] mca: base: components_register: registering oob
>>>> components
>>>> [borg01x145:02419] mca: base: components_register: found loaded component
>>>> tcp
>>>> [borg01x145:02419] mca: base: components_register: component tcp register
>>>> function successful
>>>> [borg01x145:02419] mca: base: components_open: opening oob components
>>>> [borg01x145:02419] mca: base: components_open: found loaded component tcp
>>>> [borg01x145:02419] mca: base: components_open: component tcp open function
>>>> successful
>>>> [borg01x145:02419] mca:oob:select: checking available component tcp
>>>> [borg01x145:02419] mca:oob:select: Querying component [tcp]
>>>> [borg01x145:02419] oob:tcp: component_available called
>>>> [borg01x145:02419] WORKING INTERFACE 1 KERNEL INDEX 1 FAMILY: V4
>>>> [borg01x145:02419] WORKING INTERFACE 2 KERNEL INDEX 1 FAMILY: V4
>>>> [borg01x145:02419] WORKING INTERFACE 3 KERNEL INDEX 2 FAMILY: V4
>>>> [borg01x145:02419] [[52298,0],3] oob:tcp:init adding 10.1.25.145 to our
>>>> list of V4 connections
>>>> [borg01x145:02419] WORKING INTERFACE 4 KERNEL INDEX 4 FAMILY: V4
>>>> [borg01x145:02419] [[52298,0],3] oob:tcp:init adding 172.31.1.254 to our
>>>> list of V4 connections
>>>> [borg01x145:02419] WORKING INTERFACE 5 KERNEL INDEX 5 FAMILY: V4
>>>> [borg01x145:02419] [[52298,0],3] oob:tcp:init adding 10.12.25.145 to our
>>>> list of V4 connections
>>>> [borg01x145:02419] [[52298,0],3] TCP STARTUP
>>>> [borg01x145:02419] [[52298,0],3] attempting to bind to IPv4 port 0
>>>> [borg01x145:02419] [[52298,0],3] assigned IPv4 port 51079
>>>> [borg01x145:02419] mca:oob:select: Adding component to end
>>>> [borg01x145:02419] mca:oob:select: Found 1 active transports
>>>> [borg01x144:30878] [[52298,0],2] ORTE_ERROR_LOG: Bad parameter in file
>>>> base/rml_base_contact.c at line 161
>>>> [borg01x144:30878] [[52298,0],2] ORTE_ERROR_LOG: Bad parameter in file
>>>> routed_binomial.c at line 498
>>>> [borg01x144:30878] [[52298,0],2] ORTE_ERROR_LOG: Bad parameter in file
>>>> base/ess_base_std_orted.c at line 539
>>>> srun.slurm: error: borg01x143: task 0: Exited with exit code 213
>>>> srun.slurm: Terminating job step 2332583.24
>>>> slurmd[borg01x144]: *** STEP 2332583.24 KILLED AT 2014-08-29T13:59:30 WITH
>>>> SIGNAL 9 ***
>>>> srun.slurm: Job step aborted: Waiting up to 2 seconds for job step to
>>>> finish.
>>>> srun.slurm: error: borg01x153: task 3: Exited with exit code 213
>>>> [borg01x153:01290] [[52298,0],4] ORTE_ERROR_LOG: Bad parameter in file
>>>> base/rml_base_contact.c at line 161
>>>> [borg01x153:01290] [[52298,0],4] ORTE_ERROR_LOG: Bad parameter in file
>>>> routed_binomial.c at line 498
>>>> [borg01x153:01290] [[52298,0],4] ORTE_ERROR_LOG: Bad parameter in file
>>>> base/ess_base_std_orted.c at line 539
>>>> [borg01x143:13793] [[52298,0],1] ORTE_ERROR_LOG: Bad parameter in file
>>>> base/rml_base_contact.c at line 161
>>>> [borg01x143:13793] [[52298,0],1] ORTE_ERROR_LOG: Bad parameter in file
>>>> routed_binomial.c at line 498
>>>> [borg01x143:13793] [[52298,0],1] ORTE_ERROR_LOG: Bad parameter in file
>>>> base/ess_base_std_orted.c at line 539
>>>> slurmd[borg01x144]: *** STEP 2332583.24 KILLED AT 2014-08-29T13:59:30 WITH
>>>> SIGNAL 9 ***
>>>> srun.slurm: error: borg01x144: task 1: Exited with exit code 213
>>>> [borg01x154:01154] [[52298,0],5] ORTE_ERROR_LOG: Bad parameter in file
>>>> base/rml_base_contact.c at line 161
>>>> [borg01x154:01154] [[52298,0],5] ORTE_ERROR_LOG: Bad parameter in file
>>>> routed_binomial.c at line 498
>>>> [borg01x154:01154] [[52298,0],5] ORTE_ERROR_LOG: Bad parameter in file
>>>> base/ess_base_std_orted.c at line 539
>>>> slurmd[borg01x154]: *** STEP 2332583.24 KILLED AT 2014-08-29T13:59:30 WITH
>>>> SIGNAL 9 ***
>>>> slurmd[borg01x154]: *** STEP 2332583.24 KILLED AT 2014-08-29T13:59:30 WITH
>>>> SIGNAL 9 ***
>>>> srun.slurm: error: borg01x154: task 4: Exited with exit code 213
>>>> srun.slurm: error: borg01x145: task 2: Exited with exit code 213
>>>> [borg01x145:02419] [[52298,0],3] ORTE_ERROR_LOG: Bad parameter in file
>>>> base/rml_base_contact.c at line 161
>>>> [borg01x145:02419] [[52298,0],3] ORTE_ERROR_LOG: Bad parameter in file
>>>> routed_binomial.c at line 498
>>>> [borg01x145:02419] [[52298,0],3] ORTE_ERROR_LOG: Bad parameter in file
>>>> base/ess_base_std_orted.c at line 539
>>>> slurmd[borg01x145]: *** STEP 2332583.24 KILLED AT 2014-08-29T13:59:30 WITH
>>>> SIGNAL 9 ***
>>>> slurmd[borg01x145]: *** STEP 2332583.24 KILLED AT 2014-08-29T13:59:30 WITH
>>>> SIGNAL 9 ***
>>>> sh: tcp://10.1.25.142,172.31.1.254,10.12.25.142:41686: No such file or
>>>> directory
>>>> [borg01x142:29232] [[52298,0],0] TCP SHUTDOWN
>>>> [borg01x142:29232] mca: base: close: component tcp closed
>>>> [borg01x142:29232] mca: base: close: unloading component tcp
>>>>
>>>> Note, if I can get the allocation today, I want to try doing all this on a
>>>> single SandyBridge node, rather than on 6. It might make comparing various
>>>> runs a bit easier!
>>>>
>>>> Matt
>>>>
>>>>
>>>>
>>>> On Fri, Aug 29, 2014 at 12:42 PM, Ralph Castain <r...@open-mpi.org> wrote:
>>>> Okay, something quite weird is happening here. I can't replicate using the
>>>> 1.8.2 release tarball on a slurm machine, so my guess is that something
>>>> else is going on here.
>>>>
>>>> Could you please rebuild the 1.8.2 code with --enable-debug on the
>>>> configure line (assuming you haven't already done so), and then rerun that
>>>> version as before but adding "--mca oob_base_verbose 10" to the cmd line?
>>>>
>>>>
>>>> On Aug 29, 2014, at 4:22 AM, Matt Thompson <fort...@gmail.com> wrote:
>>>>
>>>>> Ralph,
>>>>>
>>>>> For 1.8.2rc4 I get:
>>>>>
>>>>> (1003) $
>>>>> /discover/nobackup/mathomp4/MPI/gcc_4.9.1-openmpi_1.8.2rc4/bin/mpirun
>>>>> --leave-session-attached --debug-daemons -np 8 ./helloWorld.182.x
>>>>> srun.slurm: cluster configuration lacks support for cpu binding
>>>>> srun.slurm: cluster configuration lacks support for cpu binding
>>>>> Daemon [[47143,0],5] checking in as pid 10990 on host borg01x154
>>>>> [borg01x154:10990] [[47143,0],5] orted: up and running - waiting for
>>>>> commands!
>>>>> Daemon [[47143,0],1] checking in as pid 23473 on host borg01x143
>>>>> Daemon [[47143,0],2] checking in as pid 8250 on host borg01x144
>>>>> [borg01x144:08250] [[47143,0],2] orted: up and running - waiting for
>>>>> commands!
>>>>> [borg01x143:23473] [[47143,0],1] orted: up and running - waiting for
>>>>> commands!
>>>>> Daemon [[47143,0],3] checking in as pid 12320 on host borg01x145
>>>>> Daemon [[47143,0],4] checking in as pid 10902 on host borg01x153
>>>>> [borg01x153:10902] [[47143,0],4] orted: up and running - waiting for
>>>>> commands!
>>>>> [borg01x145:12320] [[47143,0],3] orted: up and running - waiting for
>>>>> commands!
>>>>> [borg01x142:01629] [[47143,0],0] orted_cmd: received add_local_procs
>>>>> [borg01x144:08250] [[47143,0],2] orted_cmd: received add_local_procs
>>>>> [borg01x153:10902] [[47143,0],4] orted_cmd: received add_local_procs
>>>>> [borg01x143:23473] [[47143,0],1] orted_cmd: received add_local_procs
>>>>> [borg01x145:12320] [[47143,0],3] orted_cmd: received add_local_procs
>>>>> [borg01x154:10990] [[47143,0],5] orted_cmd: received add_local_procs
>>>>> [borg01x142:01629] [[47143,0],0] orted_recv: received sync+nidmap from
>>>>> local proc [[47143,1],0]
>>>>> [borg01x142:01629] [[47143,0],0] orted_recv: received sync+nidmap from
>>>>> local proc [[47143,1],2]
>>>>> [borg01x142:01629] [[47143,0],0] orted_recv: received sync+nidmap from
>>>>> local proc [[47143,1],3]
>>>>> [borg01x142:01629] [[47143,0],0] orted_recv: received sync+nidmap from
>>>>> local proc [[47143,1],1]
>>>>> [borg01x142:01629] [[47143,0],0] orted_recv: received sync+nidmap from
>>>>> local proc [[47143,1],5]
>>>>> [borg01x142:01629] [[47143,0],0] orted_recv: received sync+nidmap from
>>>>> local proc [[47143,1],4]
>>>>> [borg01x142:01629] [[47143,0],0] orted_recv: received sync+nidmap from
>>>>> local proc [[47143,1],6]
>>>>> [borg01x142:01629] [[47143,0],0] orted_recv: received sync+nidmap from
>>>>> local proc [[47143,1],7]
>>>>> MPIR_being_debugged = 0
>>>>> MPIR_debug_state = 1
>>>>> MPIR_partial_attach_ok = 1
>>>>> MPIR_i_am_starter = 0
>>>>> MPIR_forward_output = 0
>>>>> MPIR_proctable_size = 8
>>>>> MPIR_proctable:
>>>>> (i, host, exe, pid) = (0, borg01x142,
>>>>> /home/mathomp4/HelloWorldTest/./helloWorld.182.x, 1647)
>>>>> (i, host, exe, pid) = (1, borg01x142,
>>>>> /home/mathomp4/HelloWorldTest/./helloWorld.182.x, 1648)
>>>>> (i, host, exe, pid) = (2, borg01x142,
>>>>> /home/mathomp4/HelloWorldTest/./helloWorld.182.x, 1650)
>>>>> (i, host, exe, pid) = (3, borg01x142,
>>>>> /home/mathomp4/HelloWorldTest/./helloWorld.182.x, 1652)
>>>>> (i, host, exe, pid) = (4, borg01x142,
>>>>> /home/mathomp4/HelloWorldTest/./helloWorld.182.x, 1654)
>>>>> (i, host, exe, pid) = (5, borg01x142,
>>>>> /home/mathomp4/HelloWorldTest/./helloWorld.182.x, 1656)
>>>>> (i, host, exe, pid) = (6, borg01x142,
>>>>> /home/mathomp4/HelloWorldTest/./helloWorld.182.x, 1658)
>>>>> (i, host, exe, pid) = (7, borg01x142,
>>>>> /home/mathomp4/HelloWorldTest/./helloWorld.182.x, 1660)
>>>>> MPIR_executable_path: NULL
>>>>> MPIR_server_arguments: NULL
>>>>> [borg01x142:01629] [[47143,0],0] orted_cmd: received message_local_procs
>>>>> [borg01x144:08250] [[47143,0],2] orted_cmd: received message_local_procs
>>>>> [borg01x143:23473] [[47143,0],1] orted_cmd: received message_local_procs
>>>>> [borg01x153:10902] [[47143,0],4] orted_cmd: received message_local_procs
>>>>> [borg01x154:10990] [[47143,0],5] orted_cmd: received message_local_procs
>>>>> [borg01x145:12320] [[47143,0],3] orted_cmd: received message_local_procs
>>>>> [borg01x142:01629] [[47143,0],0] orted_cmd: received message_local_procs
>>>>> [borg01x143:23473] [[47143,0],1] orted_cmd: received message_local_procs
>>>>> [borg01x144:08250] [[47143,0],2] orted_cmd: received message_local_procs
>>>>> [borg01x153:10902] [[47143,0],4] orted_cmd: received message_local_procs
>>>>> [borg01x145:12320] [[47143,0],3] orted_cmd: received message_local_procs
>>>>> Process 2 of 8 is on borg01x142
>>>>> Process 5 of 8 is on borg01x142
>>>>> Process 4 of 8 is on borg01x142
>>>>> Process 1 of 8 is on borg01x142
>>>>> Process 0 of 8 is on borg01x142
>>>>> Process 3 of 8 is on borg01x142
>>>>> Process 6 of 8 is on borg01x142
>>>>> Process 7 of 8 is on borg01x142
>>>>> [borg01x154:10990] [[47143,0],5] orted_cmd: received message_local_procs
>>>>> [borg01x142:01629] [[47143,0],0] orted_cmd: received message_local_procs
>>>>> [borg01x144:08250] [[47143,0],2] orted_cmd: received message_local_procs
>>>>> [borg01x143:23473] [[47143,0],1] orted_cmd: received message_local_procs
>>>>> [borg01x153:10902] [[47143,0],4] orted_cmd: received message_local_procs
>>>>> [borg01x154:10990] [[47143,0],5] orted_cmd: received message_local_procs
>>>>> [borg01x145:12320] [[47143,0],3] orted_cmd: received message_local_procs
>>>>> [borg01x142:01629] [[47143,0],0] orted_recv: received sync from local
>>>>> proc [[47143,1],2]
>>>>> [borg01x142:01629] [[47143,0],0] orted_recv: received sync from local
>>>>> proc [[47143,1],1]
>>>>> [borg01x142:01629] [[47143,0],0] orted_recv: received sync from local
>>>>> proc [[47143,1],3]
>>>>> [borg01x142:01629] [[47143,0],0] orted_recv: received sync from local
>>>>> proc [[47143,1],0]
>>>>> [borg01x142:01629] [[47143,0],0] orted_recv: received sync from local
>>>>> proc [[47143,1],4]
>>>>> [borg01x142:01629] [[47143,0],0] orted_recv: received sync from local
>>>>> proc [[47143,1],6]
>>>>> [borg01x142:01629] [[47143,0],0] orted_recv: received sync from local
>>>>> proc [[47143,1],5]
>>>>> [borg01x142:01629] [[47143,0],0] orted_recv: received sync from local
>>>>> proc [[47143,1],7]
>>>>> [borg01x142:01629] [[47143,0],0] orted_cmd: received exit cmd
>>>>> [borg01x144:08250] [[47143,0],2] orted_cmd: received exit cmd
>>>>> [borg01x144:08250] [[47143,0],2] orted_cmd: all routes and children gone
>>>>> - exiting
>>>>> [borg01x153:10902] [[47143,0],4] orted_cmd: received exit cmd
>>>>> [borg01x153:10902] [[47143,0],4] orted_cmd: all routes and children gone
>>>>> - exiting
>>>>> [borg01x143:23473] [[47143,0],1] orted_cmd: received exit cmd
>>>>> [borg01x154:10990] [[47143,0],5] orted_cmd: received exit cmd
>>>>> [borg01x154:10990] [[47143,0],5] orted_cmd: all routes and children gone
>>>>> - exiting
>>>>> [borg01x145:12320] [[47143,0],3] orted_cmd: received exit cmd
>>>>> [borg01x145:12320] [[47143,0],3] orted_cmd: all routes and children gone
>>>>> - exiting
>>>>>
>>>>> Using the 1.8.2 mpirun:
>>>>>
>>>>> (1004) $
>>>>> /discover/nobackup/mathomp4/MPI/gcc_4.9.1-openmpi_1.8.2/bin/mpirun
>>>>> --leave-session-attached --debug-daemons -np 8 ./helloWorld.182.x
>>>>> srun.slurm: cluster configuration lacks support for cpu binding
>>>>> srun.slurm: cluster configuration lacks support for cpu binding
>>>>> [borg01x143:23494] [[47330,0],1] ORTE_ERROR_LOG: Bad parameter in file
>>>>> base/rml_base_contact.c at line 161
>>>>> [borg01x143:23494] [[47330,0],1] ORTE_ERROR_LOG: Bad parameter in file
>>>>> routed_binomial.c at line 498
>>>>> [borg01x143:23494] [[47330,0],1] ORTE_ERROR_LOG: Bad parameter in file
>>>>> base/ess_base_std_orted.c at line 539
>>>>> srun.slurm: error: borg01x143: task 0: Exited with exit code 213
>>>>> srun.slurm: Terminating job step 2332583.4
>>>>> [borg01x153:10915] [[47330,0],4] ORTE_ERROR_LOG: Bad parameter in file
>>>>> base/rml_base_contact.c at line 161
>>>>> [borg01x153:10915] [[47330,0],4] ORTE_ERROR_LOG: Bad parameter in file
>>>>> routed_binomial.c at line 498
>>>>> [borg01x153:10915] [[47330,0],4] ORTE_ERROR_LOG: Bad parameter in file
>>>>> base/ess_base_std_orted.c at line 539
>>>>> [borg01x144:08263] [[47330,0],2] ORTE_ERROR_LOG: Bad parameter in file
>>>>> base/rml_base_contact.c at line 161
>>>>> [borg01x144:08263] [[47330,0],2] ORTE_ERROR_LOG: Bad parameter in file
>>>>> routed_binomial.c at line 498
>>>>> [borg01x144:08263] [[47330,0],2] ORTE_ERROR_LOG: Bad parameter in file
>>>>> base/ess_base_std_orted.c at line 539
>>>>> srun.slurm: Job step aborted: Waiting up to 2 seconds for job step to
>>>>> finish.
>>>>> slurmd[borg01x145]: *** STEP 2332583.4 KILLED AT 2014-08-29T07:16:20 WITH
>>>>> SIGNAL 9 ***
>>>>> slurmd[borg01x154]: *** STEP 2332583.4 KILLED AT 2014-08-29T07:16:20 WITH
>>>>> SIGNAL 9 ***
>>>>> slurmd[borg01x153]: *** STEP 2332583.4 KILLED AT 2014-08-29T07:16:20 WITH
>>>>> SIGNAL 9 ***
>>>>> slurmd[borg01x153]: *** STEP 2332583.4 KILLED AT 2014-08-29T07:16:20 WITH
>>>>> SIGNAL 9 ***
>>>>> srun.slurm: error: borg01x144: task 1: Exited with exit code 213
>>>>> slurmd[borg01x144]: *** STEP 2332583.4 KILLED AT 2014-08-29T07:16:20 WITH
>>>>> SIGNAL 9 ***
>>>>> slurmd[borg01x144]: *** STEP 2332583.4 KILLED AT 2014-08-29T07:16:20 WITH
>>>>> SIGNAL 9 ***
>>>>> srun.slurm: error: borg01x153: task 3: Exited with exit code 213
>>>>> slurmd[borg01x154]: *** STEP 2332583.4 KILLED AT 2014-08-29T07:16:20 WITH
>>>>> SIGNAL 9 ***
>>>>> slurmd[borg01x145]: *** STEP 2332583.4 KILLED AT 2014-08-29T07:16:20 WITH
>>>>> SIGNAL 9 ***
>>>>> srun.slurm: error: borg01x154: task 4: Killed
>>>>> srun.slurm: error: borg01x145: task 2: Killed
>>>>> sh: tcp://10.1.25.142,172.31.1.254,10.12.25.142:34169: No such file or
>>>>> directory
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> On Thu, Aug 28, 2014 at 7:17 PM, Ralph Castain <r...@open-mpi.org> wrote:
>>>>> I'm unaware of any changes to the Slurm integration between rc4 and final
>>>>> release. It sounds like this might be something else going on - try
>>>>> adding "--leave-session-attached --debug-daemons" to your 1.8.2 command
>>>>> line and let's see if any errors get reported.
>>>>>
>>>>>
>>>>> On Aug 28, 2014, at 12:20 PM, Matt Thompson <fort...@gmail.com> wrote:
>>>>>
>>>>>> Open MPI List,
>>>>>>
>>>>>> I recently encountered an odd bug with Open MPI 1.8.1 and GCC 4.9.1 on
>>>>>> our cluster (reported on this list), and decided to try it with 1.8.2.
>>>>>> However, we seem to be having an issue with Open MPI 1.8.2 and SLURM.
>>>>>> Even weirder, Open MPI 1.8.2rc4 doesn't show the bug. And the bug is: I
>>>>>> get no stdout with Open MPI 1.8.2. That is, HelloWorld doesn't work.
>>>>>>
>>>>>> To wit, our sysadmin has two tarballs:
>>>>>>
>>>>>> (1441) $ sha1sum openmpi-1.8.2rc4.tar.bz2
>>>>>> 7e7496913c949451f546f22a1a159df25f8bb683 openmpi-1.8.2rc4.tar.bz2
>>>>>> (1442) $ sha1sum openmpi-1.8.2.tar.gz
>>>>>> cf2b1e45575896f63367406c6c50574699d8b2e1 openmpi-1.8.2.tar.gz
>>>>>>
>>>>>> I then build each with a script in the method our sysadmin usually does:
>>>>>>
>>>>>> #!/bin/sh
>>>>>> set -x
>>>>>> export PREFIX=/discover/nobackup/mathomp4/MPI/gcc_4.9.1-openmpi_1.8.2
>>>>>> export LD_LIBRARY_PATH=${LD_LIBRARY_PATH}:/usr/nlocal/slurm/2.6.3/lib64
>>>>>> build() {
>>>>>> echo `pwd`
>>>>>> ./configure --with-slurm --disable-wrapper-rpath --enable-shared
>>>>>> --enable-mca-no-build=btl-usnic \
>>>>>> CC=gcc CXX=g++ F77=gfortran FC=gfortran \
>>>>>> CFLAGS="-mtune=generic -fPIC -m64" CXXFLAGS="-mtune=generic -fPIC
>>>>>> -m64" FFLAGS="-mtune=generic -fPIC -m64" \
>>>>>> F77FLAGS="-mtune=generic -fPIC -m64" FCFLAGS="-mtune=generic -fPIC
>>>>>> -m64" F90FLAGS="-mtune=generic -fPIC -m64" \
>>>>>> LDFLAGS="-L/usr/nlocal/slurm/2.6.3/lib64"
>>>>>> CPPFLAGS="-I/usr/nlocal/slurm/2.6.3/include" LIBS="-lpciaccess" \
>>>>>> --prefix=${PREFIX} 2>&1 | tee configure.1.8.2.log
>>>>>> make 2>&1 | tee make.1.8.2.log
>>>>>> make check 2>&1 | tee makecheck.1.8.2.log
>>>>>> make install 2>&1 | tee makeinstall.1.8.2.log
>>>>>> }
>>>>>> echo "calling build"
>>>>>> build
>>>>>> echo "exiting"
>>>>>>
>>>>>> The only difference between the two is '1.8.2' or '1.8.2rc4' in the
>>>>>> PREFIX and log file tees. Now, let us test. First, I grab some nodes
>>>>>> with slurm:
>>>>>>
>>>>>> $ salloc --nodes=6 --ntasks-per-node=16 --constraint=sand
>>>>>> --time=09:00:00 --account=g0620 --mail-type=BEGIN
>>>>>>
>>>>>> Once I get my nodes, I run with 1.8.2rc4:
>>>>>>
>>>>>> (1142) $
>>>>>> /discover/nobackup/mathomp4/MPI/gcc_4.9.1-openmpi_1.8.2rc4/bin/mpifort
>>>>>> -o helloWorld.182rc4.x helloWorld.F90
>>>>>> (1143) $
>>>>>> /discover/nobackup/mathomp4/MPI/gcc_4.9.1-openmpi_1.8.2rc4/bin/mpirun
>>>>>> -np 8 ./helloWorld.182rc4.x
>>>>>> Process 0 of 8 is on borg01w044
>>>>>> Process 5 of 8 is on borg01w044
>>>>>> Process 3 of 8 is on borg01w044
>>>>>> Process 7 of 8 is on borg01w044
>>>>>> Process 1 of 8 is on borg01w044
>>>>>> Process 2 of 8 is on borg01w044
>>>>>> Process 4 of 8 is on borg01w044
>>>>>> Process 6 of 8 is on borg01w044
>>>>>>
>>>>>> Now 1.8.2:
>>>>>>
>>>>>> (1144) $
>>>>>> /discover/nobackup/mathomp4/MPI/gcc_4.9.1-openmpi_1.8.2/bin/mpifort -o
>>>>>> helloWorld.182.x helloWorld.F90
>>>>>> (1145) $
>>>>>> /discover/nobackup/mathomp4/MPI/gcc_4.9.1-openmpi_1.8.2/bin/mpirun -np 8
>>>>>> ./helloWorld.182.x
>>>>>> (1146) $
>>>>>>
>>>>>> No output at all. But, if I take the helloWorld.x from 1.8.2 and run it
>>>>>> with 1.8.2rc4's mpirun:
>>>>>>
>>>>>> (1146) $
>>>>>> /discover/nobackup/mathomp4/MPI/gcc_4.9.1-openmpi_1.8.2rc4/bin/mpirun
>>>>>> -np 8 ./helloWorld.182.x
>>>>>> Process 5 of 8 is on borg01w044
>>>>>> Process 7 of 8 is on borg01w044
>>>>>> Process 2 of 8 is on borg01w044
>>>>>> Process 4 of 8 is on borg01w044
>>>>>> Process 1 of 8 is on borg01w044
>>>>>> Process 3 of 8 is on borg01w044
>>>>>> Process 6 of 8 is on borg01w044
>>>>>> Process 0 of 8 is on borg01w044
>>>>>>
>>>>>> So...any idea what is happening here? There did seem to be a few SLURM
>>>>>> related changes between the two tarballs involving /dev/null but it's a
>>>>>> bit above me to decipher.
>>>>>>
>>>>>> You can find the ompi_info, build, make, config, etc logs at these links
>>>>>> (they are ~300kB which is over the mailing list limit according to the
>>>>>> Open MPI web page):
>>>>>>
>>>>>> https://dl.dropboxusercontent.com/u/61696/OMPI-1.8.2rc4-Output.tar.bz2
>>>>>> https://dl.dropboxusercontent.com/u/61696/OMPI-1.8.2-Output.tar.bz2
>>>>>>
>>>>>> Thank you for any help and please let me know if you need more
>>>>>> information,
>>>>>> Matt
>>>>>>
>>>>>> --
>>>>>> "And, isn't sanity really just a one-trick pony anyway? I mean all you
>>>>>> get is one trick: rational thinking. But when you're good and crazy,
>>>>>> oooh, oooh, oooh, the sky is the limit!" -- The Tick
>>>>>>
>>>>>> _______________________________________________
>>>>>> users mailing list
>>>>>> us...@open-mpi.org
>>>>>> Subscription: http://www.open-mpi.org/mailman/listinfo.cgi/users
>>>>>> Link to this post:
>>>>>> http://www.open-mpi.org/community/lists/users/2014/08/25182.php
>>>>>
>>>>>
>>>>> _______________________________________________
>>>>> users mailing list
>>>>> us...@open-mpi.org
>>>>> Subscription: http://www.open-mpi.org/mailman/listinfo.cgi/users
>>>>> Link to this post:
>>>>> http://www.open-mpi.org/community/lists/users/2014/08/25184.php
>>>>>
>>>>>
>>>>>
>>>>> --
>>>>> "And, isn't sanity really just a one-trick pony anyway? I mean all you
>>>>> get is one trick: rational thinking. But when you're good and crazy,
>>>>> oooh, oooh, oooh, the sky is the limit!" -- The Tick
>>>>>
>>>>> _______________________________________________
>>>>> users mailing list
>>>>> us...@open-mpi.org
>>>>> Subscription: http://www.open-mpi.org/mailman/listinfo.cgi/users
>>>>> Link to this post:
>>>>> http://www.open-mpi.org/community/lists/users/2014/08/25187.php
>>>>
>>>>
>>>> _______________________________________________
>>>> users mailing list
>>>> us...@open-mpi.org
>>>> Subscription: http://www.open-mpi.org/mailman/listinfo.cgi/users
>>>> Link to this post:
>>>> http://www.open-mpi.org/community/lists/users/2014/08/25193.php
>>>>
>>>>
>>>>
>>>> --
>>>> "And, isn't sanity really just a one-trick pony anyway? I mean all you
>>>> get is one trick: rational thinking. But when you're good and crazy,
>>>> oooh, oooh, oooh, the sky is the limit!" -- The Tick
>>>>
>>>> _______________________________________________
>>>> users mailing list
>>>> us...@open-mpi.org
>>>> Subscription: http://www.open-mpi.org/mailman/listinfo.cgi/users
>>>> Link to this post:
>>>> http://www.open-mpi.org/community/lists/users/2014/08/25196.php
>>>
>>>
>>> _______________________________________________
>>> users mailing list
>>> us...@open-mpi.org
>>> Subscription: http://www.open-mpi.org/mailman/listinfo.cgi/users
>>> Link to this post:
>>> http://www.open-mpi.org/community/lists/users/2014/08/25197.php
>>>
>>>
>>>
>>> --
>>> "And, isn't sanity really just a one-trick pony anyway? I mean all you
>>> get is one trick: rational thinking. But when you're good and crazy,
>>> oooh, oooh, oooh, the sky is the limit!" -- The Tick
>>>
>>> _______________________________________________
>>> users mailing list
>>> us...@open-mpi.org
>>> Subscription: http://www.open-mpi.org/mailman/listinfo.cgi/users
>>> Link to this post:
>>> http://www.open-mpi.org/community/lists/users/2014/08/25204.php
>>
>>
>> _______________________________________________
>> users mailing list
>> us...@open-mpi.org
>> Subscription: http://www.open-mpi.org/mailman/listinfo.cgi/users
>> Link to this post:
>> http://www.open-mpi.org/community/lists/users/2014/08/25205.php
>>
>>
>>
>> --
>> "And, isn't sanity really just a one-trick pony anyway? I mean all you
>> get is one trick: rational thinking. But when you're good and crazy,
>> oooh, oooh, oooh, the sky is the limit!" -- The Tick
>>
>> _______________________________________________
>> users mailing list
>> us...@open-mpi.org
>> Subscription: http://www.open-mpi.org/mailman/listinfo.cgi/users
>> Link to this post:
>> http://www.open-mpi.org/community/lists/users/2014/09/25210.php
>
>
> _______________________________________________
> users mailing list
> us...@open-mpi.org
> Subscription: http://www.open-mpi.org/mailman/listinfo.cgi/users
> Link to this post:
> http://www.open-mpi.org/community/lists/users/2014/09/25211.php
>
>
>
> --
> "And, isn't sanity really just a one-trick pony anyway? I mean all you
> get is one trick: rational thinking. But when you're good and crazy,
> oooh, oooh, oooh, the sky is the limit!" -- The Tick
>
> _______________________________________________
> users mailing list
> us...@open-mpi.org
> Subscription: http://www.open-mpi.org/mailman/listinfo.cgi/users
> Link to this post:
> http://www.open-mpi.org/community/lists/users/2014/09/25219.php
--
Jeff Squyres
jsquy...@cisco.com
For corporate legal information go to:
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