Install your own WRF-Chem preprocessing tools

Updated: 18 October 2023

1 I. WRF-Chem tools
- 1.1 1. Installation
- 1.2 2. Example: Job submission script
2 II. Prep_Chem_Sources
- 2.1 1. Download
- 2.2 2. Load modules
- 2.3 3. Edit source codes
- 2.4 4. Compile prep_chem_sources
- 2.5 5. Example: Job submission script

I. WRF-Chem tools

(https://www2.acom.ucar.edu/wrf-chem/wrf-chem-tools-community)

1. Installation

Paste the whole recipe into your terminal

module purge
module load cpeIntel/23.09
module load cray-hdf5-parallel/1.12.2.7
module load cray-netcdf-hdf5parallel/4.9.0.7

export FC=ftn
export NETCDF_DIR=${CRAY_NETCDF_HDF5PARALLEL_PREFIX}
export LD_LIBRARY_PATH=${CRAY_LD_LIBRARY_PATH}:${LD_LIBRARY_PATH}

# GNU 
# module load cpeGNU/23.03
# export FC='ftn -fallow-argument-mismatch'

tar xzf /project/common/WPS_Static/WRFprechem_Oct2023.tar.gz

# ANTHRO
cd ./WRFchem_pre/anthro/src/
csh make_anthro  
cd ../
ln -s ./src/anthro_emis .
cd ../../

# BIO
cd ./WRFchem_pre/bio/src/
csh make_util megan_bio_emiss 
cd ../
ln -s ./src/megan_bio_emiss .
cd ../../    

# MOZBC
cd ./WRFchem_pre/mozbc/src/
csh make_mozbc  
cd ../
ln -s ./src/mozbc .
cd ../../

# FIRE
cd ./WRFchem_pre/fire/src/
csh make_fire_emis   
cd ../
ln -s ./src/fire_emis .
cd ../../

# OXYGEN
cd ./WRFchem_pre/oxygen/src/
csh make_util wesely
csh make_util exo_coldens
cd ../
ln -s ./src/exo_coldens .
ln -s ./src/wesely .
cd ../../

Official mozbc have NOT yet support the hybrid sigma-pressure vertical coordinate presented in WRF V3.9 and later. Although there seem to be a workaround (https://groups.google.com/a/ucar.edu/g/wrf-chem-mozbc/c/5nw6cqLRdxw), please proceed with caution.

2. Example: Job submission script

#!/bin/bash
#SBATCH -p memory               # Partition
#SBATCH -N 1                    # Number of nodes
#SBATCH --ntasks-per-node=1     # Number of MPI processes per node
#SBATCH -t 5-00:00:00           # Job runtime limit
#SBATCH -J WRFprechem           # Job name
#SBATCH -A ltxxxxxx             # Account *** {USER EDIT} ***

module purge
module load cpeIntel/23.09
module load cray-hdf5-parallel/1.12.2.7
module load cray-netcdf-hdf5parallel/4.9.0.7

export OMP_NUM_THREADS=1

ulimit -s unlimited

./megan_bio_emiss < megan_bio_emiss.inp > megan_bio_emiss.log
./anthro_emis     < anthro_emis.inp     > anthro_emis.log
./fire_emis       < fire_emis.inp       > fire_emis.log
./wesely          < wesely.inp          > wesely.log
./exo_coldens     < exo_coldens.inp     > exo_coldens.log

#./mozbc_hybridcoord < mozbc_ic.inp > mozbc_ic.log
#./mozbc_hybridcoord < mozbc_bc.inp > mozbc_bc.log

For more information, please explore /project/common/WRF/Example2/ on LANTA.

II. Prep_Chem_Sources

The standard dataset for the tool (global_emissions_v3_24aug2015.tar.gz) is available on LANTA at /project/common/WPS_Static/Global_emissions_v3.

1. Download

wget ftp://aftp.fsl.noaa.gov/divisions/taq/global_emissions/prep_chem_sources_v1.5_24aug2015.tar.gz
tar -xzf prep_chem_sources_v1.5_24aug2015.tar.gz

2. Load modules

3. Edit source codes

Edit the file, edgar_emissions.f90, to be compatible with the new gfortran standard (see)

4. Compile prep_chem_sources

5. Example: Job submission script

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