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mpiopenmpihpc
James Smith
James Smith

Reputation: 356

Unable to use all cores with mpirun

I'm testing a simple MPI program on my desktop (Ubuntu LTS 16.04/ Intel® Core™ i3-6100U CPU @ 2.30GHz × 4/ gcc 4.8.5 /OpenMPI 3.0.0) and mpirun won't let me use all of the cores on my machine (4). When I run:

$ mpirun -n 4 ./test2

I get the following error:

--------------------------------------------------------------------------
There are not enough slots available in the system to satisfy the 4 slots
that were requested by the application:
  ./test2

Either request fewer slots for your application, or make more slots available
for use.
--------------------------------------------------------------------------

But if I run with:

$ mpirun -n 2 ./test2

everything works fine.

I've seen from other answers that I can check the number of processors with

cat /proc/cpuinfo | grep processor | wc -l

and this tells me that I have 4 processors. I'm not interested in oversubscribing, I'd just like to be able to use all my processors. Can anyone help?

Upvotes: 16

Views: 20415

Answers (3)

Maxim Masiutin
Maxim Masiutin

Reputation: 4782

To resolve your problem, you can use the --use-hwthread-cpus command line arguments for mpirun, as already pointed out by Gilles Gouaillardet. In this case, Open MPI will treat the thread provided by hyperthreading as the Open MPI processor. Otherwise, it will treat a CPU core as an Open MPI processor, which is the default behavior. When using --use-hwthread-cpus, it will correctly determine the total number of processors available to you, that is, all processors available on all hosts specified in the Open MPI host file. Therefore, you do not need to specify the "-n" parameter. In addition, when using the --use-hwthread-cpus command line parameter, Open MPI refers to the threads provided by hyperthreading as "hardware threads". With this technique, you will not oversubscribe, and if some Open MPI processor will run on a virtual machine, it will use the correct number of threads assigned to that virtual machine. And if your processor has more than two threads per core, as a Xeon Phi (Knights Mill, Knights Landing, etc.), it will take all four threads per core as an Open MPI processor.

Upvotes: 4

Paramjeet Desai
Paramjeet Desai

Reputation: 11

Use $ lscpu the number of cores per socket * number of sockets would give you number of physical cores(the ones that you can use for mpi) where as number of cores per socket * number of sockets * threads per core will give you number of logical cores(the one that you get by using the command $ cat /proc/cpuinfo | grep processor | wc -l)

Upvotes: 1

Gilles Gouaillardet
Gilles Gouaillardet

Reputation: 8380

Your processor has 4 hyperthreads but only 2 cores (see the specs here).

By default, Open MPI does not run more than one MPI task per core. You can have Open MPI run up to one MPI task per hyperthread with the following option

mpirun --use-hwthread-cpus ...

FWIW

The command you mentioned reports the number of hyperthreads.

A better way to figure out the topology of a machine is via the lstopo command from the hwloc package.

MPI tasks are not bound on cores nor threads on OS X, so if you are running on a Mac, the --oversubscribe -np 4 would lead to the same result.

Upvotes: 33

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