...
Load the same modules that a full E3SM case would load: (should be done once each time you loginput in your .login or .bashrc )
E3SM’s CIME provides a script which will give the csh output needed to load the correct modules and other configuration settings:
eval `$e3sm/cime/scripts/Tools/get_case_env`
Most users will be using the bash shell, in which case examine the output of
$e3sm/cime/script/Tools/get_case_env
and modify to work with bash
Run
cmake
from your$wdir
. (only done once for each git checkout)Code Block language bash cd $wdir cmake -C $mach $homme make -j4 theta-l # optional step to see if code will compile
(optional step to see if code will compile)Should only need to be redone if source code dependencies or compiler options change. To rerun from an existing $wdir (keeping the cmake cache file), run “cmake .”
For additional CMAKE options, see
$homme/README.cmake
. Options include number of vertical levels (default 26), type of output, native or lat/lon or disabled, ability to enable/disable energy diagnostics, ability to disable kokkos components (SL transport).
After step 2 is complete, one can build many different targets. The generic targets are:
preqx
,preqx_kokkos.
E3SM v1 hydrostatic dycore (Fortran and C++ version)theta-l
,theta-l_kokkos
. E3SM v2 NH dycoresweqx
. shallow water versionThen there are a host of specific targets such as
theta-l-nlev20-native
that are used by various test cases.
Run DCMIP2012 Test 3-1 (simple gravity wave)
Code Block language bash cd $wdir/dcmip_tests/dcmip2012_test3.1_nh_gravity_waves/theta-l make install # Copies test case related files from $homme ./build.sh # Build the correct executable with correct compile time options for this test
Look for a suitable jobscript for your machine with
ls jobscript-sh*
. Most test cases includejobscript-snl.sh
which runs on E3SM institutional clusters, andjobscript-knl.sh
for NERSC Cori. Some editing may be necessary.The jobscript usually runs included NCL scripts for creating standard test case plots from the output. This may require the user to load an
ncl
module.
All the DCMIP2012 and DCMIP2016 test cases can be run similar to the above example for Test 3-1.
Other standalone HOMME test cases of interest. These usually contain a single script that will configure and build the model (assuming step1 above is done)
Held-Suarez: see
$homme/test/held_suarez0
and the scripths.job
.NGGPS and V1 benchmarks: see
$homme/test/benchmark
and associated scripts.
HOMME doubly periodic test cases
...
Code Block | ||
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| ||
#!/bin/bash # # Jobscript for launching dcmip2012 test3-1 on Cori KNL # #SBATCH --job-name=d31-theta #SBATCH --output=%j.out #SBATCH --error=%j.err #SBATCH --qos=debug #SBATCH --nodes=4 #SBATCH --constraint=knl #SBATCH --account=e3sm #SBATCH --mail-user=jason.torchinsky@wisc.edu #SBATCH --mail-type=all #SBATCH --time=0-00:30:00 # Set variables, load modules OMP_NUM_THREADS=1 EXEC=../../../test_execs/theta-l-nlev20/theta-l-nlev20 module load ncl ############################################################################# # theta (hydrostatic) ############################################################################# namelist=./namelist-h.nl cp -f $namelist input.nl srun -K -c 1 -N $SLURM_NNODES $EXEC < input.nl ncl plot_omega.ncl ncl plot_theta.ncl mv -f test31_omega.pdf hydro_test31_omega.pdf mv -f dcmip2012_test3_theta_diff.pdf hydro_test3_theta_diff.pdf mv -f dcmip2012_test3_theta_diff_last.pdf hydro_test3_theta_diff_last.pdf mv -f movies/dcmip2012_test31.nc movies/hydro_dcmip2012_test31.nc ############################################################################# # theta-nh (non-hydrostatic) ############################################################################# namelist=./namelist-nh.nl cp -f $namelist input.nl srun -K -c 1 -N $SLURM_NNODES $EXEC < input.nl ncl plot_omega.ncl ncl plot_theta.ncl mv -f test31_omega.pdf nonhydro_test31_omega.pdf mv -f dcmip2012_test3_theta_diff.pdf nonhydro_test3_theta_diff.pdf mv -f dcmip2012_test3_theta_diff_last.pdf nonhydro_test3_theta_diff_last.pdf mv -f movies/dcmip2012_test31.nc movies/nonhydro_dcmip2012_test31.nc |
Note: The time limit on jobscript-coriknl.sh
may need to be adjusted (2021/05/12).