diff --git a/faq/slurm.inc b/faq/slurm.inc index 891bc45dfb..cfa791c646 100644 --- a/faq/slurm.inc +++ b/faq/slurm.inc @@ -12,11 +12,13 @@ your application using srun if OMPI is configured per href=\"?category=slurm#slurm-direct-srun-mpi-apps\">this FAQ entry. The longer answer is that Open MPI supports launching parallel jobs in -all three methods that Slurm supports: +all three methods that Slurm supports (you can find more info about +Slurm specific recommendations on the SchedMD web page:
    -
  1. Launching via \"[salloc ...]\": supported (older versions of Slurm used \"[srun -A ...]\")
    2. -
  2. Launching via \"[sbatch ...]\": supported (older versions of Slurm used \"[srun -B ...]\")
    3. +
  3. Launching via \"[salloc ...]\"
    4. +
  4. Launching via \"[sbatch ...]\"
  5. Launching via \"[srun -n X my_mpi_application]\"
@@ -91,15 +93,58 @@ href=\"?category=openfabrics#ib-locked-pages-more\">this FAQ entry for references about Slurm."; ///////////////////////////////////////////////////////////////////////// +$q[] = "My job fails / performs poorly when using mpirun under Slurm 20.11"; -$q[] = "Any issues with Slurm 2.6.3?"; +$anchor[] = "slurm-20.11-mpirun"; -$anchor[] = "slurm-2.6.3-issue"; +$a[] = "Slurm 20.11 changed its default behavior that will affect [mpirun]'s behavior in all versions of Open MPI prior to v4.0.6. -$a[] = "Yes. The Slurm 2.6.3, 14.03 releases have a bug in their PMI-2 -support. +*NOTE:* As of January 2021, the situation regarding Slurm's change to + its default behavior remains somewhat in flux. The following + description represents a point-in-time explanation of the impact of + the change on OMPI and how one can compensate for the problems. Those + interested in keeping up-to-date on the situation are referred to the + SchedMD bug tracker (e.g., Issue + 10383, Issue + 10413, and Issue + 10489). This FAQ entry will be updated if/when a final resolution + within the Slurm community is achieved. -For the slurm-2.6 branch, it is recommended to use the latest version -(2.6.9 as of 2014/4), which is known to work properly with pmi2. +When you use [mpirun] to launch an Open MPI application inside of a +Slurm job (e.g., inside of an [salloc] or [sbatch]), [mpirun] actually +uses [srun] under the covers to launch Open MPI helper daemons on the +nodes in your Slurm allocation. Those helper daemons are then used to +launch the individual MPI processes. -For the slurm-14.03 branch, the fix will be in 14.03.1."; +Starting with Slurm 20.11, by default, [srun] will associate a single +Linux virtual processor with each Slurm task. + +More concretely: the Slurm daemon on each node in the Slurm allocation will create a Linux cgroup containing a single Linux virtual processor, and will launch the Open MPI helper daemon into that cgroup. Consequently, the Open MPI helper daemon _and all MPI processes that are subsequently launched by that Open MPI helper daemon_ will be restricted to running on the single Linux virtual processor contained in the Slurm-created cgroup. + +Put simply: in a given Slurm job, the Open MPI helper daemon and all MPI processes on the same node will be restricted to running on a single core (or hardware thread). + +Starting with Open MPI v4.0.6, [mpirun] will automatically set the environment variable [SLURM_WHOLE] to [1] before invoking [srun], which will tell Slurm to return to its prior behavior of creating a cgroup that contains all the Linux virtual processors that were allocated to the Slurm job. This allows the Open MPI helper daemon and all of the MPI processes to spread out across the cores / hardware threads that were allocated to the Slurm job (vs. clumping them all together on a single core / hardware thread) in accordance with whatever binding directives you passed to [mpirun]. + +If you are using a version of Open MPI before v4.0.6 and SLURM 20.11 +or later, you should set the [SLURM_WHOLE] environment variable to [1] +before invoking [mpirun]. For example: + + +shell$ export SLURM_WHOLE=1 +shell$ mpirun my_mpi_application +"; + +$q[] = "My job fails / performs poorly when using srun under Slurm 20.11 (and later)"; + +$anchor[] = "slurm-20.11-srun"; + +$a[] = "Similar to the Slurm 20.11 issue with [mpirun], applications that use [srun] to directly launch Open MPI applications _may_ experience a change in behavior compared to prior versions of Slurm. + +The consequence of the change in Slurm's default behavior is that if your MPI job requires more than one Linux virtual processor (i.e., more than one core and/or hardware thread), you _may_ need to use additional CLI parameters (e.g., adding [--cpus-per-task=N] to [srun]) to tell Slurm to allocate additional resources to each task in your Slurm job. For example, if you have a multi-threaded MPI application that benefits from utilizing multiple hardware cores and/or threads, you may need to tell [srun] to allocate more than one Linux virtual processor to each MPI process. + +*NOTE:* The actual behavior you encounter is determined by a complex combination of Slurm defaults, defaults set by your system administrator in the Slurm configuration file, and your environment. Fully explaining all the details of these interactions is beyond the scope of the OMPI FAQ - our purpose here is to simply provide users with a high-level explanation should they encounter the problem, and hopefully point them in the direction of potential solutions. + +Consult your system administrator, the Slurm bug reports referenced above, and/or the Slurm documentation for more details.";