From b8946bab565406b8f69c8234c1bcac8d588cecdb Mon Sep 17 00:00:00 2001 From: Stefano Piani Date: Wed, 24 Jun 2026 11:06:18 +0200 Subject: [PATCH 1/3] Adding script for computing exf_albedo --- src/mitgcm_inputs/__main__.py | 5 ++ src/mitgcm_inputs/exf_albedo/__init__.py | 65 ++++++++++++++++++++++++ 2 files changed, 70 insertions(+) create mode 100644 src/mitgcm_inputs/exf_albedo/__init__.py diff --git a/src/mitgcm_inputs/__main__.py b/src/mitgcm_inputs/__main__.py index 62d78ea..323e730 100644 --- a/src/mitgcm_inputs/__main__.py +++ b/src/mitgcm_inputs/__main__.py @@ -17,6 +17,9 @@ from mitgcm_inputs.cosmetic_mask import COMMAND_NAME as CMASK_COMMAND_NAME from mitgcm_inputs.cosmetic_mask import main as cosmetic_mask_main from mitgcm_inputs.cosmetic_mask import sub_arguments as cmask_sub_arguments +from mitgcm_inputs.exf_albedo import COMMAND_NAME as EXF_ALBEDO_COMMAND_NAME +from mitgcm_inputs.exf_albedo import main as exf_albedo_main +from mitgcm_inputs.exf_albedo import sub_arguments as exf_albedo_sub_arguments from mitgcm_inputs.k_extinction import COMMAND_NAME as KEXT_COMMAND_NAME from mitgcm_inputs.k_extinction import main as kext_main from mitgcm_inputs.k_extinction import sub_arguments as kext_sub_arguments @@ -81,6 +84,7 @@ def argument(sys_argv=None): rbcs_sub_arguments(subparsers) ob_indices_sub_arguments(subparsers) cmask_sub_arguments(subparsers) + exf_albedo_sub_arguments(subparsers) subparser = subparsers.add_parser( "FLUXES", @@ -193,6 +197,7 @@ def execute_flux_commands(args: argparse.Namespace): KEXT_COMMAND_NAME: kext_main, RBCS_COMMAND_NAME: rbcs_main, OB_INDICES_COMMAND_NAME: ob_indices_main, + EXF_ALBEDO_COMMAND_NAME: exf_albedo_main, "FLUXES": execute_flux_commands, } diff --git a/src/mitgcm_inputs/exf_albedo/__init__.py b/src/mitgcm_inputs/exf_albedo/__init__.py new file mode 100644 index 0000000..c348079 --- /dev/null +++ b/src/mitgcm_inputs/exf_albedo/__init__.py @@ -0,0 +1,65 @@ +import argparse +import logging + +import xarray as xr +from bitsea.utilities.argparse_types import existing_file_path +from bitsea.utilities.argparse_types import path_inside_an_existing_dir + +if __name__ == "__main__": + LOGGER = logging.getLogger() +else: + LOGGER = logging.getLogger(__name__) + + +COMMAND_NAME = "exf_albedo" + + +def sub_arguments(subparser): + parser = subparser.add_parser( + COMMAND_NAME, help="Compute the EXF albedo for a specific domain" + ) + + parser.add_argument( + "-m", + "--mask", + required=True, + type=existing_file_path, + help="The meshmask file that defines the domain", + ) + + parser.add_argument( + "-o", + "--output", + required=True, + type=path_inside_an_existing_dir, + help="Path of the output file", + ) + + +def compute_albedo(average_lat: float) -> float: + return 0.06 + 0.0022 * (average_lat - 37) + + +def main(args: argparse.Namespace) -> int: + if args.cmd != COMMAND_NAME: + LOGGER.error( + "EXF albedo command has been invoked with command: %s", args.cmd + ) + return 1 + + LOGGER.debug("Opening file %s", args.mask) + with xr.open_dataset(args.mask) as ds: + min_lat = float(ds.attrs["domain_minimum_latitude"]) + max_lat = float(ds.attrs["domain_maximum_latitude"]) + LOGGER.debug("Domain latitude range: %s - %s", min_lat, max_lat) + + average_lat = (min_lat + max_lat) / 2 + albedo = compute_albedo(average_lat) + + LOGGER.debug("Writing output to file %s", args.output) + with open(args.output, "w") as f: + f.write(f"exf_albedo={albedo:.3f}\n") + + LOGGER.info("Execution completed!") + + return 0 From 0e39f9b2e7fd3ce433711d775d39dd21d3f7336d Mon Sep 17 00:00:00 2001 From: Stefano Piani Date: Wed, 24 Jun 2026 14:16:43 +0200 Subject: [PATCH 2/3] Updating poetry.lock --- poetry.lock | 1234 ++++++++++++++++++++++++++++----------------------- 1 file changed, 676 insertions(+), 558 deletions(-) diff --git a/poetry.lock b/poetry.lock index a9dd031..ac3b791 100644 --- a/poetry.lock +++ b/poetry.lock @@ -2,14 +2,14 @@ [[package]] name = "aiofiles" -version = "24.1.0" +version = "25.1.0" 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-check = ["pytest-checkdocs (>=2.4)", "pytest-ruff (>=0.2.1) ; sys_platform != \"cygwin\""] +check = ["pytest-checkdocs (>=2.14)", "pytest-ruff (>=0.2.1) ; sys_platform != \"cygwin\""] cover = ["pytest-cov"] doc = ["furo", "jaraco.packaging (>=9.3)", "jaraco.tidelift (>=1.4)", "rst.linker (>=1.9)", "sphinx (>=3.5)", "sphinx-lint"] -enabler = ["pytest-enabler (>=2.2)"] +enabler = ["pytest-enabler (>=3.4)"] test = ["big-O", "jaraco.functools", "jaraco.itertools", "jaraco.test", "more_itertools", "pytest (>=6,!=8.1.*)", "pytest-ignore-flaky"] -type = ["pytest-mypy"] +type = ["pytest-mypy (>=1.0.1) ; platform_python_implementation != \"PyPy\""] [metadata] lock-version = "2.1" From eb2177982aadbf0339dd32c3d7710847bcaf3389 Mon Sep 17 00:00:00 2001 From: Stefano Piani Date: Wed, 24 Jun 2026 14:41:48 +0200 Subject: [PATCH 3/3] Preventing warnings by explicitly declaring xarray engine --- src/mitgcm_inputs/cosmetic_mask/__init__.py | 2 +- src/mitgcm_inputs/exf_albedo/__init__.py | 2 +- src/mitgcm_inputs/k_extinction/k_extinction.py | 2 +- src/mitgcm_inputs/ob_indices/__init__.py | 2 +- src/mitgcm_inputs/rbcs/rbcs_gen.py | 2 +- src/mitgcm_inputs/tools/read_mesh_mask.py | 2 +- 6 files changed, 6 insertions(+), 6 deletions(-) diff --git a/src/mitgcm_inputs/cosmetic_mask/__init__.py b/src/mitgcm_inputs/cosmetic_mask/__init__.py index 339b371..3f10659 100644 --- a/src/mitgcm_inputs/cosmetic_mask/__init__.py +++ b/src/mitgcm_inputs/cosmetic_mask/__init__.py @@ -83,7 +83,7 @@ def main(args: argparse.Namespace) -> int: else: file_with_river = args.mask - with xr.open_dataset(file_with_river) as river_ds: + with xr.open_dataset(file_with_river, engine="netcdf4") as river_ds: river_map = river_ds["rivers"].load() river_mask = MaskWithRivers( diff --git a/src/mitgcm_inputs/exf_albedo/__init__.py b/src/mitgcm_inputs/exf_albedo/__init__.py index c348079..f14652c 100644 --- a/src/mitgcm_inputs/exf_albedo/__init__.py +++ b/src/mitgcm_inputs/exf_albedo/__init__.py @@ -48,7 +48,7 @@ def main(args: argparse.Namespace) -> int: return 1 LOGGER.debug("Opening file %s", args.mask) - with xr.open_dataset(args.mask) as ds: + with xr.open_dataset(args.mask, engine="netcdf4") as ds: min_lat = float(ds.attrs["domain_minimum_latitude"]) max_lat = float(ds.attrs["domain_maximum_latitude"]) LOGGER.debug("Domain latitude range: %s - %s", min_lat, max_lat) diff --git a/src/mitgcm_inputs/k_extinction/k_extinction.py b/src/mitgcm_inputs/k_extinction/k_extinction.py index f4d3145..1d0da41 100644 --- a/src/mitgcm_inputs/k_extinction/k_extinction.py +++ b/src/mitgcm_inputs/k_extinction/k_extinction.py @@ -34,7 +34,7 @@ def compute_k_extinction( LOGGER.debug("Meshmask shape: %s", meshmask.shape) LOGGER.debug("Reading data file: %s", data_file) - climatological_data = xr.load_dataset(data_file) + climatological_data = xr.load_dataset(data_file, engine="netcdf4") data_lon_min = np.min(climatological_data.longitude.values) data_lon_max = np.max(climatological_data.longitude.values) diff --git a/src/mitgcm_inputs/ob_indices/__init__.py b/src/mitgcm_inputs/ob_indices/__init__.py index b3894ce..d5fc460 100644 --- a/src/mitgcm_inputs/ob_indices/__init__.py +++ b/src/mitgcm_inputs/ob_indices/__init__.py @@ -114,7 +114,7 @@ def main(args: argparse.Namespace) -> int: # If there are rivers in this domain if args.rivers_positions is not None: with xr.open_dataset( - file_with_river, mask_and_scale=False + file_with_river, mask_and_scale=False, engine="netcdf4" ) as river_ds: river_map = river_ds["rivers"].load() diff --git a/src/mitgcm_inputs/rbcs/rbcs_gen.py b/src/mitgcm_inputs/rbcs/rbcs_gen.py index 953424b..4303ee8 100644 --- a/src/mitgcm_inputs/rbcs/rbcs_gen.py +++ b/src/mitgcm_inputs/rbcs/rbcs_gen.py @@ -107,7 +107,7 @@ def get_spatial_description_from_mit_static(input_file: Path) -> xr.Dataset: Returns: A spatial description of our domain """ - with xr.open_dataset(input_file) as ds: + with xr.open_dataset(input_file, engine="netcdf4") as ds: spatial_description = xr.Dataset( data_vars={ "bathymetry": (("latitude", "longitude"), ds.Depth.values), diff --git a/src/mitgcm_inputs/tools/read_mesh_mask.py b/src/mitgcm_inputs/tools/read_mesh_mask.py index 693a233..f57dfdc 100644 --- a/src/mitgcm_inputs/tools/read_mesh_mask.py +++ b/src/mitgcm_inputs/tools/read_mesh_mask.py @@ -6,7 +6,7 @@ def read_mesh_mask(mask_file_path: Path): - with xr.open_dataset(mask_file_path) as ds: + with xr.open_dataset(mask_file_path, engine="netcdf4") as ds: if "mer_mesh_mask_version" not in ds.attrs: return Mask.from_file(mask_file_path) latitude = ds.latitude.values