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