wrfchem/std wrfchem/std

Description

VERSION HISTORY

2021-10-06 freum Moved copying namelist to native2inputs 2021-09-20 freum Removed CTDAS’ flux_optim etc. (now handled by CIF yml) 2021-09-09 freum Misc updates

• Adapted ini_data to run WRF with preprocessed input data

• Replaced input argument run_dir with plugin’s workdir

2021-08-17 freum Initial version

• Based on LMDZ and TM5 plugins and CTDAS-WRF obsoper_wrfchem.rc

• Some behavior is preliminary, e.g.: - Mandatory to fill ensemble member variables in wrfinput_d<nn> and wrfbdy_d01 in preprocessing instead of in cif - Mandatory to create wrfchemi-files in preprocessing

• input_arguments that might need to be added (as in CTDAS’ obsoper_wrfchem.rc): - obs.column.footprint_samples_dim - no_rerun_wrf - save_wrf_step

YAML arguments

The following arguments are used to configure the plugin. pyCIF will return an exception at the initialization if mandatory arguments are not specified, or if any argument does not fit accepted values or type:

Mandatory arguments

source_dir : str, mandatory

Directory like WRF/run/, including output of real.exe, i.e. wrfbdy_d01 and wrfinput_d%02d, both already containing tracer values.

Necessary files are linked/copied (as needed) from source_dir at the start of running CIF. Files that are already present in run_dir are skipped.

namelist.input is copied separately from path specified in argument namelist_input_file. Flux files are handled by the flux plugin.

namelist_input_file : str, mandatory

Path to namelist.input. Namelist settings that are controlled (overwritten) by CIF:

• run period (start_year, …, end_second)

• restart flag / interval (restart, restart_interval)

Namelist settings necessary to run with CIF:

• io_style_emissions = 2 # explicit fluxes per timestep

• io_form_auxinput5 = 2 # netCDF

• auxinput5_inname = wrfchemi_d<domain>_<date>

• write_hist_at_0h_rst = .true.

• chem_opt = 17

• emiss_opt = 17

Recommended namelist settings:

• Consider quilting to speed up i/o of history files

• I only tested frames_per_auxinput5 = 1. The code is written to handle other cases as well, but this would have to be tested.

• Use nudging to keep WRF meteorology close to the driving meteorology (e.g. spectral nudging)

Optional arguments

autoflush : bool, optional, default False

Cleans big temporary files when the simulation is done. Triggers the function flushrun of the model if available

periods : str, optional

Frequency for sub-simulations

mpirun : str, optional, default “”

Command that calls ./wrf.exe. Default is empty string, which is useful e.g. for interactive runs of small testcases. For using slurm inside a cif job, not sure about the format yet. Ultimately want something in the format srun -n 72 -t 10:00:00 - but need to read the resources the cif job has.

Requirements

The current plugin requires the present plugins to run properly:

Requirement name	Requirement type	Explicit definition	Any valid	Default name	Default version
domain	Domain	False	False	wrfchem	std
chemistry	Chemistry	True	True	None	None
flux	DataStream	True	False	wrfchem	std
latcond	DataStream	True	False	wrfchem	icbc
inicond	DataStream	True	False	wrfchem	icbc

YAML template

Please find below a template for a YAML configuration:

model:
  plugin:
    name: wrfchem
    version: std
    type: model

    # Mandatory arguments
    source_dir: XXXXX  # str
    namelist_input_file: XXXXX  # str

    # Optional arguments
    autoflush: XXXXX  # bool
    periods: XXXXX  # str
    mpirun: XXXXX  # str