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
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>>>> 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
