MPAS-A Notes

Notes for building everything MPAS from this tutorial.

Start:

0) Activate env & go to your run dir

source activate mpas_toolchain

cd /net/flood/data2/users/x_yan/mpas/MPAS-Model

1) Always remember to download input grids and files

Get the right mpas_static dir:

2) make -j4 gfortran CORE=init_atmosphere PRECISION=single AUTOCLEAN=true

1-1) Always set autoclean! # Good minimal incantation (equivalent to what worked) make -j$(nproc) gfortran CORE=init_atmosphere AUTOCLEAN=true
FC=mpif90 CC=mpicc CXX=mpicxx
FFLAGS=”-O3 -ffree-line-length-none -fconvert=big-endian -ffree-form -mcmodel=large”
CFLAGS=”-O3 -mcmodel=large”
CXXFLAGS=”-O3 -mcmodel=large”
LDFLAGS=”-O3 -mcmodel=large”

2) make clean CORE=atmosphere

3) make -j4 gfortran CORE=atmosphere PRECISION=single

3-1) make -j$(nproc) gfortran CORE=atmosphere PRECISION=single
FC=mpif90 CC=mpicc CXX=mpicxx
FFLAGS=”-O3 -ffree-line-length-none -fconvert=big-endian -ffree-form -mcmodel=large”
CFLAGS=”-O3 -mcmodel=large”
CXXFLAGS=”-O3 -mcmodel=large”
LDFLAGS=”-O3 -mcmodel=large”

4) ./init_atmosphere_model

Takes a while!

5) mpiexec -n 32 ./atmosphere_model 6) ncl supercell.ncl 7) cd /net/flood/data2/users/x_yan/mpas/MPAS-Model/convert_mpas

export LD_LIBRARY_PATH=”$CONDA_PREFIX/lib:${LD_LIBRARY_PATH:-}”

chmod +x ./convert_mpas

./convert_mpas /net/flood/data2/users/x_yan/mpas/MPAS-Model/x1.10242.grid.nc /net/flood/data2/users/x_yan/mpas/MPAS-Model/diag.2010-10-28_00.00.00.nc

8) (mpas_toolchain) x_yan@dolma:/net/flood/data2/users/x_yan/mpas/MPAS-Model/convert_mpas$ ./convert_mpas /net/flood/data2/users/x_yan/mpas/MPAS-Model/x1.10242.grid.nc /net/flood/data2/users/x_yan/mpas/MPAS-Model/history.*.nc

Visualize

1. cp /net/flood/data2/users/x_yan/mpas/mpas_tutorial_anamitra/ncl_scripts/plot_terrain.ncl .
2. setenv FNAME x1.10242.static.nc
3. ncl plot_terrain.ncl

Some One-Click Checks for Debuggings

1) Sanity env (same as before) ./smoke.sh download here

2) Run mpirun -n 1 ./init_atmosphere_model |& tee run.log

3) Quick skim for issues grep -E “Bootstrapping|filename template|CFSR|CRITICAL|ERROR” log.init_atmosphere.0000.out

4) Original Settings to namelist.init_atmosphere