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Subject: [OMPI users] "-bind-to numa" of openmpi-1.7.4rc1 dosen't work for our magny cours based 32 core node
From: tmishima_at_[hidden]
Date: 2013-12-18 21:55:23


Hi, I report one more problem with openmpi-1.7.4rc1,
which is more serious.

For our 32 core nodes(AMD magny cours based) which has
8 numa-nodes, "-bind-to numa" does not work. Without
this option, it works. For your infomation, at the
bottom of this mail, I added the lstopo information
of the node.

Regards,
Tetsuya Mishima

[mishima_at_manage ~]$ qsub -I -l nodes=1:ppn=32
qsub: waiting for job 8352.manage.cluster to start
qsub: job 8352.manage.cluster ready

[mishima_at_node03 demos]$ mpirun -np 8 -report-bindings -bind-to numa myprog
[node03.cluster:15316] [[37582,0],0] bind:upward target NUMANode type
Machine
--------------------------------------------------------------------------
A request was made to bind to NUMA, but an appropriate target could not
be found on node node03.
--------------------------------------------------------------------------
[mishima_at_node03 ~]$ cd ~/Desktop/openmpi-1.7/demos/
[mishima_at_node03 demos]$ mpirun -np 8 -report-bindings myprog
[node03.cluster:15282] MCW rank 2 bound to socket 1[core 8[hwt 0]]:
[./././././././.][B/././././././.][./././././././.][
./././././././.]
[node03.cluster:15282] MCW rank 3 bound to socket 1[core 9[hwt 0]]:
[./././././././.][./B/./././././.][./././././././.][
./././././././.]
[node03.cluster:15282] MCW rank 4 bound to socket 2[core 16[hwt 0]]:
[./././././././.][./././././././.][B/././././././.]
[./././././././.]
[node03.cluster:15282] MCW rank 5 bound to socket 2[core 17[hwt 0]]:
[./././././././.][./././././././.][./B/./././././.]
[./././././././.]
[node03.cluster:15282] MCW rank 6 bound to socket 3[core 24[hwt 0]]:
[./././././././.][./././././././.][./././././././.]
[B/././././././.]
[node03.cluster:15282] MCW rank 7 bound to socket 3[core 25[hwt 0]]:
[./././././././.][./././././././.][./././././././.]
[./B/./././././.]
[node03.cluster:15282] MCW rank 0 bound to socket 0[core 0[hwt 0]]:
[B/././././././.][./././././././.][./././././././.][
./././././././.]
[node03.cluster:15282] MCW rank 1 bound to socket 0[core 1[hwt 0]]:
[./B/./././././.][./././././././.][./././././././.][
./././././././.]
Hello world from process 2 of 8
Hello world from process 5 of 8
Hello world from process 4 of 8
Hello world from process 3 of 8
Hello world from process 1 of 8
Hello world from process 7 of 8
Hello world from process 6 of 8
Hello world from process 0 of 8
[mishima_at_node03 demos]$ ~/opt/hwloc/bin/lstopo-no-graphics
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"