Chlorophyll

MOM6 can take chlorophyll data as a file in the regional domain. It impacts shortwave penetration. MOM6 parameters that are impacted by it CHL_FROM_FILE, CHL_FILE, VAR_PEN_SW, and PEN_SW_NBANDS. In our workflow, we take raw data from SeaWIFS, process it globally, and subset to our regional domain.

Caution

This method does not do a great job of resolving chlorophyll in estuaries and similar features, if possible, the generated chlorophyll file should be replaced with a better product (which can be done by replacing the file in CHL_FILE)

The global processed chlorophyll file is hosted on the CESM inputdata svn server under ocn/mom/croc/chl/data and can be accessed through the CrocoDash raw_data_access module like below:

from CrocoDash.raw_data_access.datasets import seawifs as sw
sw.get_processed_global_seawifs_script_for_cli(
    output_dir="<insert_dir>",
    output_file="get_seawifs_data.sh"
)

The file path of the global file (after running the script from the code block) can be passed into configure forcings as shown in the CrocoGallery “Add CHL” demo.

Check out the demo here.