[Beowulf] NUMA zone weirdness

John Hearns hearnsj at googlemail.com
Fri Dec 16 06:51:13 PST 2016 

hwloc is finding weirdness also.
I am going to find I have done something stupid, right?



[johnh at comp006 ~]$ lstopo
****************************************************************************
* hwloc 1.11.3 has encountered what looks like an error from the operating
system.
*
* Package (P#1 cpuset 0x00fff000) intersects with NUMANode (P#0 cpuset
0x00fc0fff) without inclusion!
* Error occurred in topology.c line 1046
*
* The following FAQ entry in the hwloc documentation may help:
*   What should I do when hwloc reports "operating system" warnings?
* Otherwise please report this error message to the hwloc user's mailing
list,
* along with the output+tarball generated by the hwloc-gather-topology
script.
****************************************************************************
Machine (64GB total)
  NUMANode L#0 (P#0 32GB)
    Package L#0
      L3 L#0 (15MB)
        L2 L#0 (256KB) + L1d L#0 (32KB) + L1i L#0 (32KB) + Core L#0 + PU
L#0 (P#0)
        L2 L#1 (256KB) + L1d L#1 (32KB) + L1i L#1 (32KB) + Core L#1 + PU
L#1 (P#1)
        L2 L#2 (256KB) + L1d L#2 (32KB) + L1i L#2 (32KB) + Core L#2 + PU
L#2 (P#2)
        L2 L#3 (256KB) + L1d L#3 (32KB) + L1i L#3 (32KB) + Core L#3 + PU
L#3 (P#3)
        L2 L#4 (256KB) + L1d L#4 (32KB) + L1i L#4 (32KB) + Core L#4 + PU
L#4 (P#4)
        L2 L#5 (256KB) + L1d L#5 (32KB) + L1i L#5 (32KB) + Core L#5 + PU
L#5 (P#5)
      L3 L#1 (15MB)
        L2 L#6 (256KB) + L1d L#6 (32KB) + L1i L#6 (32KB) + Core L#6 + PU
L#6 (P#6)
        L2 L#7 (256KB) + L1d L#7 (32KB) + L1i L#7 (32KB) + Core L#7 + PU
L#7 (P#7)
        L2 L#8 (256KB) + L1d L#8 (32KB) + L1i L#8 (32KB) + Core L#8 + PU
L#8 (P#8)
        L2 L#9 (256KB) + L1d L#9 (32KB) + L1i L#9 (32KB) + Core L#9 + PU
L#9 (P#9)
        L2 L#10 (256KB) + L1d L#10 (32KB) + L1i L#10 (32KB) + Core L#10 +
PU L#10 (P#10)
        L2 L#11 (256KB) + L1d L#11 (32KB) + L1i L#11 (32KB) + Core L#11 +
PU L#11 (P#11)
    L3 L#2 (15MB)
      L2 L#12 (256KB) + L1d L#12 (32KB) + L1i L#12 (32KB) + Core L#12 + PU
L#12 (P#18)
      L2 L#13 (256KB) + L1d L#13 (32KB) + L1i L#13 (32KB) + Core L#13 + PU
L#13 (P#19)
      L2 L#14 (256KB) + L1d L#14 (32KB) + L1i L#14 (32KB) + Core L#14 + PU
L#14 (P#20)
      L2 L#15 (256KB) + L1d L#15 (32KB) + L1i L#15 (32KB) + Core L#15 + PU
L#15 (P#21)
      L2 L#16 (256KB) + L1d L#16 (32KB) + L1i L#16 (32KB) + Core L#16 + PU
L#16 (P#22)
      L2 L#17 (256KB) + L1d L#17 (32KB) + L1i L#17 (32KB) + Core L#17 + PU
L#17 (P#23)
    HostBridge L#0
      PCIBridge
        PCI 8086:24f0
      PCI 8086:8d62
      PCIBridge
        PCI 102b:0522
          GPU L#0 "card0"
          GPU L#1 "controlD64"
      PCIBridge
        PCI 8086:1521
          Net L#2 "enp7s0f0"
        PCI 8086:1521
          Net L#3 "enp7s0f1"
      PCI 8086:8d02
        Block(Disk) L#4 "sda"
  NUMANode L#1 (P#2 32GB) + L3 L#3 (15MB)
    L2 L#18 (256KB) + L1d L#18 (32KB) + L1i L#18 (32KB) + Core L#18 + PU
L#18 (P#12)
    L2 L#19 (256KB) + L1d L#19 (32KB) + L1i L#19 (32KB) + Core L#19 + PU
L#19 (P#13)
    L2 L#20 (256KB) + L1d L#20 (32KB) + L1i L#20 (32KB) + Core L#20 + PU
L#20 (P#14)
    L2 L#21 (256KB) + L1d L#21 (32KB) + L1i L#21 (32KB) + Core L#21 + PU
L#21 (P#15)
    L2 L#22 (256KB) + L1d L#22 (32KB) + L1i L#22 (32KB) + Core L#22 + PU
L#22 (P#16)
    L2 L#23 (256KB) + L1d L#23 (32KB) + L1i L#23 (32KB) + Core L#23 + PU
L#23 (P#17)


On 16 December 2016 at 14:36, John Hearns <hearnsj at googlemail.com> wrote:

> This is in the context of Ominpath cards and the hfi1 driver.
> In the file pio.c there is a check on the NUMA zones being online
>
>
>
> *      num_numa = num_online_nodes
> <http://lxr.free-electrons.com/ident?v=4.4;i=num_online_nodes>();*
>
> *1711*
> <http://lxr.free-electrons.com/source/drivers/staging/rdma/hfi1/pio.c?v=4.4#L1711>*
> /* enforce the expectation that the numas are compact */*
>
> *1712*
> <http://lxr.free-electrons.com/source/drivers/staging/rdma/hfi1/pio.c?v=4.4#L1712>*
> for (i <http://lxr.free-electrons.com/ident?v=4.4;i=i> = 0; i
> <http://lxr.free-electrons.com/ident?v=4.4;i=i> < num_numa; i
> <http://lxr.free-electrons.com/ident?v=4.4;i=i>++) {*
>
> *1713*
> <http://lxr.free-electrons.com/source/drivers/staging/rdma/hfi1/pio.c?v=4.4#L1713>*
> if (!node_online
> <http://lxr.free-electrons.com/ident?v=4.4;i=node_online>(i
> <http://lxr.free-electrons.com/ident?v=4.4;i=i>)) {*
>
> *1714*
> <http://lxr.free-electrons.com/source/drivers/staging/rdma/hfi1/pio.c?v=4.4#L1714>*
> dd_dev_err <http://lxr.free-electrons.com/ident?v=4.4;i=dd_dev_err>(dd
> <http://lxr.free-electrons.com/ident?v=4.4;i=dd>, "NUMA nodes are not
> compact\n");*
>
> *1715*
> <http://lxr.free-electrons.com/source/drivers/staging/rdma/hfi1/pio.c?v=4.4#L1715>*
> ret <http://lxr.free-electrons.com/ident?v=4.4;i=ret> = -EINVAL
> <http://lxr.free-electrons.com/ident?v=4.4;i=EINVAL>;*
>
> *1716*
> <http://lxr.free-electrons.com/source/drivers/staging/rdma/hfi1/pio.c?v=4.4#L1716>*
> goto done <http://lxr.free-electrons.com/ident?v=4.4;i=done>;*
>
> *1717*
> <http://lxr.free-electrons.com/source/drivers/staging/rdma/hfi1/pio.c?v=4.4#L1717>*
> }*
>
> *1718*
> <http://lxr.free-electrons.com/source/drivers/staging/rdma/hfi1/pio.c?v=4.4#L1718>*
> }*
>
>
>
>
> On some servers I have I see this weirdness with the NUMA zones:
>
> (2650-v4 processors, HT is off)
>
> [root at comp006 ~]# numactl --hardware
>
> available: 2 nodes (0,2)
>
> node 0 cpus: 0 1 2 3 4 5 6 7 8 9 10 11 18 19 20 21 22 23
>
> node 0 size: 32673 MB
>
> node 0 free: 29840 MB
>
> node 2 cpus: 12 13 14 15 16 17
>
> node 2 size: 32768 MB
>
> node 2 free: 31753 MB
>
> node distances:
>
> node   0   2
>
>   0:  10  20
>
>   2:  20  10
>
>
>
> Someone will be along in a minute to explain why.
>
> I am sure this is a BISO Setting, but which oen is not makign itself clear
> to me.
>
>
>
>
>
>
>
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