``GMX_PME_NUM_THREADS``
set the number of OpenMP or PME threads; overrides the default set by
- :ref:`gmx mdrun`; can be used instead of the `-npme` command line option,
+ :ref:`gmx mdrun`; can be used instead of the ``-npme`` command line option,
also useful to set heterogeneous per-process/-node thread count.
``GMX_PME_P3M``
``GMX_PME_THREAD_DIVISION``
PME thread division in the format "x y z" for all three dimensions. The
sum of the threads in each dimension must equal the total number of PME threads (set in
- `GMX_PME_NTHREADS`).
+ :envvar:`GMX_PME_NTHREADS`).
``GMX_PMEONEDD``
if the number of domain decomposition cells is set to 1 for both x and y,
``HWLOC_XMLFILE``
Not strictly a |Gromacs| environment variable, but on large machines
the hwloc detection can take a few seconds if you have lots of MPI processes.
- If you run the hwloc command `lstopo out.xml` and set this environment
+ If you run the hwloc command :command:`lstopo out.xml` and set this environment
variable to point to the location of this file, the hwloc library will use
the cached information instead, which can be faster.