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Scripts for processing of WRF-CHEM files to PALM dynamic driver.
Version: v.1.0
The scripts are based on the wrf-CAMx interface:
https://palm.muk.uni-hannover.de/trac/wiki/doc/app/iofiles/wrf_interface
Usage: palm_dynamic -c <config_name> [-w]
The script requires name of the case configuration on the command line.
The corresponding configuration files are placed in subdirectory
"configuration" and they are named <config_name>.conf. An example of
the config file is supplied with the scripts, all configuration
options with are in the file palm_dynamic_defaults.py as well as
at the end of this readme file. The values which agree with defaults
need not be present in the user config. The file palm_dynamic_init.py
contains setting and calculation of standard initialization values
for particular system and can be adjusted. The optional parameter -w
allows to skip horizontal and vertical interpolation in case it is
already done.
The scripts were implemented with regards to good portability and they
only depend on standard and well-known Python libraries.
Needed modules are:
- numpy (https://pypi.org/project/numpy)
- scipy (https://pypi.org/project/scipy)
- pyproj (https://pypi.org/project/pyproj)
- netCDF4 (https://pypi.org/project/netCDF4)
- metpy (https://unidata.github.io/MetPy)
First four modules are included in all major linux distributions. In other cases,
they can be installed via pip (e.g. "pip3 install netCDF4").
The MetPy module is a well-known and widely used project for meteorological
calculations in Python maintained by Unidata. It can also be installed using
pip ("pip3 install MetPy").
In the current version, the only supported projection in WRF-CHEM is
Lambertiam conformal conic, which is WRF default and recommended projection for
mid-latitudes.
The scripts support both variants of WRF-CHEM vertical levels - the sigma levels
(default until WRF version 3.*) and the hybrid levels (default since WRF 4.*).
However, it is necessary to correctly configure this option via the setting
"wrf_hybrid_levs = True/False".
CONFIGURATION
Configuration files have syntax:
<parameter1> = <value1>
<parameter2> = <value2>
...
Parameters can be string, integer, float, logical or list of these values.
The <value> terms have Python syntax, the config file needs to contain only
parameters which differ from default.
Description of the particular configuration options are (defaults are in parenthesis):
# 1. Domain and case related config
domain name of the simulation case ("")
resolution name of the particular domain resolution scenario ("")
scenario name of the individual scenario in the case ("")
nested_domain False indicates parent and True nested domain. (False)
dynamic_driver_file file name of output dynamic driver (""). The default value
"" means the standard name assigned in the palm_dynamic_init.
grid_from_static value True - the grid parameters are imported from the static
driver, False - they are prescribed in the config (True)
static_driver_file file name of the static driver in case of grid_from_static ("").
The default value "" means the standard name assigned in init.
proj_palm reference coordinate system of PALM simulation ("EPSG:32633")
proj_wgs84 reference coordinate system of lon-lat projection ("EPSG:4326")
dz height of the PALM vertical grid layer (0.0). The default
value dz = 0.0 means dz is assigned from dx.
nz number of vertical layers of PALM domain (200)
dz_stretch_level height in meters from which stretching of vertical levels
starts in PALM (5000.0)
dz_stretch_factor coefficient of the stretching of the vertical layers in PALM (1.0)
dz_max max height of the stretched vertical layers (100.0)
origin_time origin time of the PALM simulation in the format
YYYY-MM-DD hh:mm:ss (""). The default value "" means that
the value is read from the global attribute of the static driver.
simulation_hours extent of the simulation in hours (24)
# 2. WRF-CHEM related configurations
wrf_hybrid_levs True means hybrid levels in WRF files, False means sigma levels (True).
vinterp_terrain_smoothing
the standard deviation for Gaussian kernel of smoothing method
of the PALM terrain for WRF vertical interpolation to avoid sharp
horizontal gradients. Value None disables the smoothing. (None)
wrf_dir_name files path of the wrf and camx input files (""). The default value ""
means that the standard path will be calculated in the init.
wrf_file_mask file mask of the wrf input files ("wrfout_*.e000")
radiation_from_wrf enable or disable processing of radiation from WRF files (True).
wrf_rad_file_mask file mask of the wrf radiation input files ("auxhist6_*").
The default setting reads radiation from WRF auxiliary
history files. This setting allows to use finer time step for WRF
radiation outputs than for other values.
radiation_smoothing_distance
smoothing distance for radiation values in m (10000.0).
species_names PALM names of the chemical species (['NO','NO2','O3','PM10','PM25']).
The default value can be used for phstatp and phstatp2 chemical
mechanisms in PALM. The mapping and recalculation from the WRF-CHEM
species to PALM species is defined in the variable camx_conversions
(see palm_dynamic_init.py).Additonal species can be included by making
suitable adjusts to the configuration file (.conf), palm_dynamic_init.py,
palm_dynamic_output.py, palm_dynamic.py and palm_wrf_utils.py
# 3. Horizontal parameters of the PALM domain which have to be set in case
# of grid_from_static = False
nx, ny number of horizontal grids of the domain in x and y directions
dx, dy grid cell size of the domain in x and y directions
origin_x, origin_y origin x and y of the domain
origin_z origin of the domain in the vertical direction
# Changes from wrf + CAMx scripts made to wrf_chem_for_palm
-Proj future warning resolved
-Chemical species are read from wrf-chem files and interpolated at the same time as the dynamic variables
-interpolated files are saved to a different directory than the wrf-chem data files
# Latest update (Feb 2022)
-any chemical specie from wrf-chem can be selected in the configuration file and will be included in the dynamic driver
-extensive changes were made to palm_dynamic_output and palm_dynamic_config to accomdate the changes above