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Subject: Re: [OMPI users] LAMA of openmpi-1.7.3 is unstable
From: tmishima_at_[hidden]
Date: 2013-11-07 19:37:12


Thanks, Ralph.

This is an additional information.

Just execute directly on the node without Torque:
mpirun -np 8 -report-bindings -mca rmaps lama -mca rmaps_lama_bind 1c
Myprog

Then it also works, which means the combination of LAMA and Torque would
case
the problem.

Tetsuya Mishima

> Okay, so the problem is a bug in LAMA itself. I'll file a ticket and let
the LAMA folks look into it.
>
> On Nov 7, 2013, at 4:18 PM, tmishima_at_[hidden] wrote:
>
> >
> >
> > Hi Ralph,
> >
> > I quickly tried 2 runs:
> >
> > mpirun -report-bindings -bind-to core Myprog
> > mpirun -machinefile pbs_hosts -np ${NPROCS} -report-bindings -bind-to
core
> > Myprog
> >
> > It works fine in both cases on node03 and node08.
> >
> > Regards,
> > Tetsuya Mishima
> >
> >> What happens if you drop the LAMA request and instead run
> >>
> >> mpirun -report-bindings -bind-to core Myprog
> >>
> >> This would do the same thing - does it work? If so, then we know it is
a
> > problem in the LAMA mapper. If not, then it is likely a problem in a
> > different section of the code.
> >>
> >>
> >>
> >> On Nov 7, 2013, at 3:43 PM, tmishima_at_[hidden] wrote:
> >>
> >>>
> >>>
> >>> Dear openmpi developers,
> >>>
> >>> I tried the new function LAMA of openmpi-1.7.3 and
> >>> unfortunately it is not stable under my environment, which
> >>> is built with torque.
> >>>
> >>> (1) I used 4 scripts as shown below to clarify the problem:
> >>>
> >>> (COMMON PART)
> >>> #!/bin/sh
> >>> #PBS -l nodes=node03:ppn=8 / nodes=node08:ppn=8
> >>> export OMP_NUM_THREADS=1
> >>> cd $PBS_O_WORKDIR
> >>> cp $PBS_NODEFILE pbs_hosts
> >>> NPROCS=`wc -l < pbs_hosts`
> >>>
> >>> (SCRIPT1)
> >>> mpirun -report-bindings -mca rmaps lama -mca rmaps_lama_bind 1c
Myprog
> >>> (SCRIPT2)
> >>> mpirun -oversubscribe -report-bindings -mca rmaps lama \
> >>> -mca rmaps_lama_bind 1c Myprog
> >>> (SCRITP3)
> >>> mpirun -machinefile pbs_hosts -np ${NPROCS} -oversubscribe \
> >>> -report-bindings -mca rmaps lama -mca rmaps_lama_bind 1c Myprog
> >>> (SCRIPT4)
> >>> mpirun -machinefile pbs_hosts -np ${NPROCS} -oversubscribe \
> >>> -report-bindings -mca rmaps lama -mca rmaps_lama_bind 1c \
> >>> -mca rmaps_lama_map Nsbnch \
> >>> -mca ess ^tm -mca plm ^tm -mca ras ^tm Myprog
> >>>
> >>> (2) The results are as follows:
> >>>
> >>> NODE03(32cores) NODE08(8cores)
> >>> SCRIPT1 *ERROR1 *ERROR1
> >>> SCRIPT2 OK OK
> >>> SCRIPT3 **ABORT OK
> >>> SCRIPT4 **ABORT **ABORT
> >>>
> >>> (*)ERROR1 means:
> >>>
> >
--------------------------------------------------------------------------
> >>> RMaps LAMA detected oversubscription after mapping 1 of 8 processes.
> >>> Since you have asked not to oversubscribe the resources the job will
> > not
> >>> be launched. If you would instead like to oversubscribe the resources
> >>> try using the --oversubscribe option to mpirun.
> >>>
> >
--------------------------------------------------------------------------
> >>> [node08.cluster:28849] [[50428,0],0] ORTE_ERROR_LOG: Error in file
> >>> rmaps_lama_module.c at line 310
> >>> [node08.cluster:28849] [[50428,0],0] ORTE_ERROR_LOG: Error in file
> >>> base/rmaps_base_map_job.c at line 166
> >>>
> >>> (**)ABORT means "stuck and no answer" until forced termination.
> >>>
> >>>
> >>> (3) openmpi-1.7.3 configuration (with PGI compiler)
> >>>
> >>> ./configure \
> >>> --with-tm \
> >>> --with-verbs \
> >>> --disable-ipv6 \
> >>> CC=pgcc CFLAGS="-fast -tp k8-64e" \
> >>> CXX=pgCC CXXFLAGS="-fast -tp k8-64e" \
> >>> F77=pgfortran FFLAGS="-fast -tp k8-64e" \
> >>> FC=pgfortran FCFLAGS="-fast -tp k8-64e"
> >>>
> >>>
> >>> (4) Cluster information:
> >>>
> >>> 32 cores AMD based node(node03):
> >>> Machine (126GB)
> >>> Socket L#0 (32GB)
> >>> NUMANode L#0 (P#0 16GB) + L3 L#0 (5118KB)
> >>> L2 L#0 (512KB) + L1d L#0 (64KB) + L1i L#0 (64KB) + Core L#0 + PU
> > L#0
> >>> (P#0)
> >>> L2 L#1 (512KB) + L1d L#1 (64KB) + L1i L#1 (64KB) + Core L#1 + PU
> > L#1
> >>> (P#1)
> >>> L2 L#2 (512KB) + L1d L#2 (64KB) + L1i L#2 (64KB) + Core L#2 + PU
> > L#2
> >>> (P#2)
> >>> L2 L#3 (512KB) + L1d L#3 (64KB) + L1i L#3 (64KB) + Core L#3 + PU
> > L#3
> >>> (P#3)
> >>> NUMANode L#1 (P#1 16GB) + L3 L#1 (5118KB)
> >>> L2 L#4 (512KB) + L1d L#4 (64KB) + L1i L#4 (64KB) + Core L#4 + PU
> > L#4
> >>> (P#4)
> >>> L2 L#5 (512KB) + L1d L#5 (64KB) + L1i L#5 (64KB) + Core L#5 + PU
> > L#5
> >>> (P#5)
> >>> L2 L#6 (512KB) + L1d L#6 (64KB) + L1i L#6 (64KB) + Core L#6 + PU
> > L#6
> >>> (P#6)
> >>> L2 L#7 (512KB) + L1d L#7 (64KB) + L1i L#7 (64KB) + Core L#7 + PU
> > L#7
> >>> (P#7)
> >>> Socket L#1 (32GB)
> >>> NUMANode L#2 (P#6 16GB) + L3 L#2 (5118KB)
> >>> L2 L#8 (512KB) + L1d L#8 (64KB) + L1i L#8 (64KB) + Core L#8 + PU
> > L#8
> >>> (P#8)
> >>> L2 L#9 (512KB) + L1d L#9 (64KB) + L1i L#9 (64KB) + Core L#9 + PU
> > L#9
> >>> (P#9)
> >>> L2 L#10 (512KB) + L1d L#10 (64KB) + L1i L#10 (64KB) + Core L#10 +
> > PU
> >>> L#10 (P#10)
> >>> L2 L#11 (512KB) + L1d L#11 (64KB) + L1i L#11 (64KB) + Core L#11 +
> > PU
> >>> L#11 (P#11)
> >>> NUMANode L#3 (P#7 16GB) + L3 L#3 (5118KB)
> >>> L2 L#12 (512KB) + L1d L#12 (64KB) + L1i L#12 (64KB) + Core L#12 +
> > PU
> >>> L#12 (P#12)
> >>> L2 L#13 (512KB) + L1d L#13 (64KB) + L1i L#13 (64KB) + Core L#13 +
> > PU
> >>> L#13 (P#13)
> >>> L2 L#14 (512KB) + L1d L#14 (64KB) + L1i L#14 (64KB) + Core L#14 +
> > PU
> >>> L#14 (P#14)
> >>> L2 L#15 (512KB) + L1d L#15 (64KB) + L1i L#15 (64KB) + Core L#15 +
> > PU
> >>> L#15 (P#15)
> >>> Socket L#2 (32GB)
> >>> NUMANode L#4 (P#4 16GB) + L3 L#4 (5118KB)
> >>> L2 L#16 (512KB) + L1d L#16 (64KB) + L1i L#16 (64KB) + Core L#16 +
> > PU
> >>> L#16 (P#16)
> >>> L2 L#17 (512KB) + L1d L#17 (64KB) + L1i L#17 (64KB) + Core L#17 +
> > PU
> >>> L#17 (P#17)
> >>> L2 L#18 (512KB) + L1d L#18 (64KB) + L1i L#18 (64KB) + Core L#18 +
> > PU
> >>> L#18 (P#18)
> >>> L2 L#19 (512KB) + L1d L#19 (64KB) + L1i L#19 (64KB) + Core L#19 +
> > PU
> >>> L#19 (P#19)
> >>> NUMANode L#5 (P#5 16GB) + L3 L#5 (5118KB)
> >>> L2 L#20 (512KB) + L1d L#20 (64KB) + L1i L#20 (64KB) + Core L#20 +
> > PU
> >>> L#20 (P#20)
> >>> L2 L#21 (512KB) + L1d L#21 (64KB) + L1i L#21 (64KB) + Core L#21 +
> > PU
> >>> L#21 (P#21)
> >>> L2 L#22 (512KB) + L1d L#22 (64KB) + L1i L#22 (64KB) + Core L#22 +
> > PU
> >>> L#22 (P#22)
> >>> L2 L#23 (512KB) + L1d L#23 (64KB) + L1i L#23 (64KB) + Core L#23 +
> > PU
> >>> L#23 (P#23)
> >>> Socket L#3 (32GB)
> >>> NUMANode L#6 (P#2 16GB) + L3 L#6 (5118KB)
> >>> L2 L#24 (512KB) + L1d L#24 (64KB) + L1i L#24 (64KB) + Core L#24 +
> > PU
> >>> L#24 (P#24)
> >>> L2 L#25 (512KB) + L1d L#25 (64KB) + L1i L#25 (64KB) + Core L#25 +
> > PU
> >>> L#25 (P#25)
> >>> L2 L#26 (512KB) + L1d L#26 (64KB) + L1i L#26 (64KB) + Core L#26 +
> > PU
> >>> L#26 (P#26)
> >>> L2 L#27 (512KB) + L1d L#27 (64KB) + L1i L#27 (64KB) + Core L#27 +
> > PU
> >>> L#27 (P#27)
> >>> NUMANode L#7 (P#3 16GB) + L3 L#7 (5118KB)
> >>> L2 L#28 (512KB) + L1d L#28 (64KB) + L1i L#28 (64KB) + Core L#28 +
> > PU
> >>> L#28 (P#28)
> >>> L2 L#29 (512KB) + L1d L#29 (64KB) + L1i L#29 (64KB) + Core L#29 +
> > PU
> >>> L#29 (P#29)
> >>> L2 L#30 (512KB) + L1d L#30 (64KB) + L1i L#30 (64KB) + Core L#30 +
> > PU
> >>> L#30 (P#30)
> >>> L2 L#31 (512KB) + L1d L#31 (64KB) + L1i L#31 (64KB) + Core L#31 +
> > PU
> >>> L#31 (P#31)
> >>> HostBridge L#0
> >>> PCIBridge
> >>> PCI 14e4:1639
> >>> Net L#0 "eth0"
> >>> PCI 14e4:1639
> >>> Net L#1 "eth1"
> >>> PCIBridge
> >>> PCI 14e4:1639
> >>> Net L#2 "eth2"
> >>> PCI 14e4:1639
> >>> Net L#3 "eth3"
> >>> PCIBridge
> >>> PCIBridge
> >>> PCIBridge
> >>> PCI 1000:0072
> >>> Block L#4 "sdb"
> >>> Block L#5 "sda"
> >>> PCI 1002:4390
> >>> Block L#6 "sr0"
> >>> PCIBridge
> >>> PCI 102b:0532
> >>> HostBridge L#7
> >>> PCIBridge
> >>> PCI 15b3:6274
> >>> Net L#7 "ib0"
> >>> OpenFabrics L#8 "mthca0"
> >>>
> >>> 8 cores AMD based node(node08):
> >>> Machine (32GB)
> >>> NUMANode L#0 (P#0 16GB) + Socket L#0 + L3 L#0 (6144KB)
> >>> L2 L#0 (512KB) + L1d L#0 (64KB) + L1i L#0 (64KB) + Core L#0 + PU
L#0
> >>> (P#0)
> >>> L2 L#1 (512KB) + L1d L#1 (64KB) + L1i L#1 (64KB) + Core L#1 + PU
L#1
> >>> (P#1)
> >>> L2 L#2 (512KB) + L1d L#2 (64KB) + L1i L#2 (64KB) + Core L#2 + PU
L#2
> >>> (P#2)
> >>> L2 L#3 (512KB) + L1d L#3 (64KB) + L1i L#3 (64KB) + Core L#3 + PU
L#3
> >>> (P#3)
> >>> NUMANode L#1 (P#1 16GB) + Socket L#1 + L3 L#1 (6144KB)
> >>> L2 L#4 (512KB) + L1d L#4 (64KB) + L1i L#4 (64KB) + Core L#4 + PU
L#4
> >>> (P#4)
> >>> L2 L#5 (512KB) + L1d L#5 (64KB) + L1i L#5 (64KB) + Core L#5 + PU
L#5
> >>> (P#5)
> >>> L2 L#6 (512KB) + L1d L#6 (64KB) + L1i L#6 (64KB) + Core L#6 + PU
L#6
> >>> (P#6)
> >>> L2 L#7 (512KB) + L1d L#7 (64KB) + L1i L#7 (64KB) + Core L#7 + PU
L#7
> >>> (P#7)
> >>> HostBridge L#0
> >>> PCI 10de:036e
> >>> PCI 10de:037f
> >>> Block L#0 "sda"
> >>> PCI 10de:037f
> >>> PCI 10de:037f
> >>> PCIBridge
> >>> PCI 18ca:0020
> >>> PCIBridge
> >>> PCI 15b3:6274
> >>> Net L#1 "ib0"
> >>> OpenFabrics L#2 "mthca0"
> >>>
> >>> Regards,
> >>> Tetsuya Mishima
> >>>
> >>> _______________________________________________
> >>> users mailing list
> >>> users_at_[hidden]
> >>> http://www.open-mpi.org/mailman/listinfo.cgi/users
> >>
> >> _______________________________________________
> >> users mailing list
> >> users_at_[hidden]
> >> http://www.open-mpi.org/mailman/listinfo.cgi/users
> >
> > _______________________________________________
> > users mailing list
> > users_at_[hidden]
> > http://www.open-mpi.org/mailman/listinfo.cgi/users
>
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