Hello We've seen this issue many times (it's specific to 12-core opterons), but I am surprised it still occurs with such a recent kernel. AMD was supposed to fix the kernel in early 2016 but I forgot checking whether something was actually pushed.
Anyway, you can likely ignore the issue as documented in the FAQ https://www.open-mpi.org/projects/hwloc/doc/v1.11.7/a00305.php unless you care about L3 affinity for binding. Otherwise, you can workaround the issue by passing HWLOC_COMPONENTS=x86 in the environment so that hwloc uses cpuid before of Linux sysfs files for discovery the topology. Brice Le 29/06/2017 02:17, Julio Figueroa a écrit : > Hi > > I am experincing the following issues when using pnetcdf version 1.8.1 > The machine is a Supermicro (H8DGi) dual socket AMD Opteron 6238 > (patch_level=0x0600063d) > The BIOS is the lates from Supermicro (v3.5c 03/18/2016) > OS: Debian 9.0 Kernel: 4.9.0-3-amd64 #1 SMP Debian 4.9.30-2+deb9u1 > (2017-06-18) x86_64 GNU/Linux > **************************************************************************** > * hwloc 1.11.5 has encountered what looks like an error from the > operating system. > * > * L3 (cpuset 0x000003f0) intersects with NUMANode (P#0 cpuset > 0x0000003f) without inclusion! > * Error occurred in topology.c line 1074 > * > * 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. > **************************************************************************** > > As suggested by the error message, here is the hwloc-gather-topology > attached. > > Please let me know if you need more information. > > Julio Figueroa > Oceanographer > > > > _______________________________________________ > hwloc-users mailing list > hwloc-users@lists.open-mpi.org > https://rfd.newmexicoconsortium.org/mailman/listinfo/hwloc-users
_______________________________________________ hwloc-users mailing list hwloc-users@lists.open-mpi.org https://rfd.newmexicoconsortium.org/mailman/listinfo/hwloc-users
