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ucrt >=10.0.20348.0 + - vc >=14.2,<15 + - vc14_runtime >=14.29.30139 + license: Zlib + license_family: Other + size: 108763 + timestamp: 1726591296481 - kind: conda name: zstandard version: 0.23.0 diff --git a/pixi.toml b/pixi.toml index fe40a9b4..c117bc68 100644 --- a/pixi.toml +++ b/pixi.toml @@ -20,7 +20,6 @@ build-imod-coupler = "rm -rf dist && pyinstaller imod_coupler/__main__.py --name netCDF4 = "*" loguru = "*" numpy = "<2.0" -imod = "*" pip = "*" pydantic = "2.*" pyinstaller = "*" @@ -29,6 +28,11 @@ scipy = "*" tomli = "*" tomli-w = "*" xmipy = "*" +filelock = "*" +geopandas = "*" +pandamesh = "*" +rioxarray = "*" +xugrid = ">=0.11.0" #[pypi-dependencies] #ribasim = {git = "https://github.com/Deltares/Ribasim.git/#subdirectory=python/ribasim"} @@ -39,10 +43,12 @@ install-ribasim-python = "pip install git+https://github.com/Deltares/Ribasim.gi install-ribasim-testmodels = "pip install git+https://github.com/Deltares/Ribasim.git/#subdirectory=python/ribasim_testmodels" install-primod = "pip install --no-deps --editable pre-processing" install-metaswap-testmodels = "svn checkout https://repos.deltares.nl/repos/DSCTestbench/trunk/cases/e150_metaswap/f00_common/c00_common/LHM2016_v01vrz .imod_collector/e150_metaswap" +install-imod = "pip install git+https://github.com/Deltares/imod-python.git@msw_refactoring_feature_branch" install-imod-collector = "python scripts/download_imod_collector.py" install-imod-collector-regression = "python scripts/download_imod_collector.py regression" generate-env-file = "python scripts/generate_env_file.py" install = { depends_on = [ + "install-imod", "install-minimal", "install-ribasim-testmodels", "install-primod", From cf68f4c5d894bdcb48f1a98b4d002b2a3193efff Mon Sep 17 00:00:00 2001 From: Joeri van Engelen Date: Mon, 28 Oct 2024 16:41:36 +0100 Subject: [PATCH 2/4] Use Mf6Wel object instead of WellDisStructuredDis --- .../primod/mapping/wel_svat_mapping.py | 18 ++++---- tests/fixtures/common.py | 16 ++++--- tests/fixtures/fixture_metaswap.py | 3 +- tests/test_imod_coupler/test_metamod.py | 1 + tests/test_primod/test_wel_svat_mapping.py | 44 ++++++++----------- 5 files changed, 41 insertions(+), 41 deletions(-) diff --git a/pre-processing/primod/mapping/wel_svat_mapping.py b/pre-processing/primod/mapping/wel_svat_mapping.py index 5cfd6466..bfe19f05 100644 --- a/pre-processing/primod/mapping/wel_svat_mapping.py +++ b/pre-processing/primod/mapping/wel_svat_mapping.py @@ -4,7 +4,7 @@ import numpy as np import pandas as pd import xarray as xr -from imod import mf6 +from imod.mf6.mf6_wel_adapter import Mf6Wel from imod.msw.fixed_format import VariableMetaData from numpy.typing import NDArray @@ -38,9 +38,7 @@ class WellSvatMapping(MetaModMapping): _with_subunit = ("wel_id", "svat", "layer") _to_fill = ("free",) - def __init__( - self, svat: xr.DataArray, well: mf6.WellDisStructured, index: NDArray[Int] - ): + def __init__(self, svat: xr.DataArray, well: Mf6Wel, index: NDArray[Int]): super().__init__() self.index = index self.well = well @@ -55,10 +53,14 @@ def _create_well_id( """ Get modflow indices, svats, and layer number for the wells """ + well_cellid = self.well["cellid"] + if len(well_cellid.coords["dim_cellid"]) != 3: + raise TypeError("Coupling to unstructured grids is not supported.") + # Convert to Python's 0-based index - well_row = self.well["row"] - 1 - well_column = self.well["column"] - 1 - well_layer = self.well["layer"] + well_layer = well_cellid.sel(dim_cellid="layer").data + well_row = well_cellid.sel(dim_cellid="row").data - 1 + well_column = well_cellid.sel(dim_cellid="column").data - 1 n_subunit = svat["subunit"].size @@ -71,7 +73,7 @@ def _create_well_id( layer = np.tile(well_layer, (n_subunit, 1)) layer_1d = layer[well_active] - well_id = self.well.dataset.coords["index"] + 1 + well_id = well_cellid.coords["ncellid"] + 1 well_id_1d = np.tile(well_id, (n_subunit, 1))[well_active] return (well_id_1d, well_svat_1d, layer_1d) diff --git a/tests/fixtures/common.py b/tests/fixtures/common.py index f74c0aa5..f59c488d 100644 --- a/tests/fixtures/common.py +++ b/tests/fixtures/common.py @@ -1,7 +1,7 @@ import numpy as np import pandas as pd import xarray as xr -from imod import mf6 +from imod.mf6.mf6_wel_adapter import Mf6Wel, cellid_from_arrays__structured from numpy import float64, int_ from numpy.typing import NDArray @@ -34,7 +34,7 @@ def get_times() -> pd.DatetimeIndex: def create_wells( nrow: int, ncol: int, idomain: xr.DataArray, wel_layer: int | None = None -) -> mf6.WellDisStructured: +) -> Mf6Wel: """ Create wells, deactivate inactive cells. This function wouldn't be necessary if iMOD Python had a package to specify wells based on grids. @@ -59,15 +59,17 @@ def create_wells( rate = np.zeros(ix_active.shape) layer = np.full_like(ix_active, wel_layer) + index = np.arange(ncol * nrow)[~to_deactivate] - return mf6.WellDisStructured( - layer=layer, row=iy_active, column=ix_active, rate=rate + cellid = cellid_from_arrays__structured( + layer=layer, row=iy_active, column=ix_active ) + rate_da = xr.DataArray(rate, coords={"index": index}, dims=("index",)) + return Mf6Wel(cellid=cellid, rate=rate_da) -def create_wells_max_layer( - nrow: int, ncol: int, idomain: xr.DataArray -) -> mf6.WellDisStructured: + +def create_wells_max_layer(nrow: int, ncol: int, idomain: xr.DataArray) -> Mf6Wel: """ Create wells in deepest layer of MODFLOW 6 model """ diff --git a/tests/fixtures/fixture_metaswap.py b/tests/fixtures/fixture_metaswap.py index 42c14101..c65c991a 100644 --- a/tests/fixtures/fixture_metaswap.py +++ b/tests/fixtures/fixture_metaswap.py @@ -5,6 +5,7 @@ import pytest_cases import xarray as xr from imod import mf6, msw +from imod.mf6.mf6_wel_adapter import Mf6Wel from numpy import nan from .common import create_wells, get_times, grid_sizes @@ -14,7 +15,7 @@ def metaswap_model( times: list[pd.date_range], area: xr.DataArray, active: xr.DataArray, - well: mf6.WellDisStructured, + well: Mf6Wel, dis: mf6.StructuredDiscretization, unsaturated_database: str, ) -> msw.MetaSwapModel: diff --git a/tests/test_imod_coupler/test_metamod.py b/tests/test_imod_coupler/test_metamod.py index ac7d343b..181d0e08 100644 --- a/tests/test_imod_coupler/test_metamod.py +++ b/tests/test_imod_coupler/test_metamod.py @@ -209,6 +209,7 @@ def test_metamod_regression( subprocess.run( [imod_coupler_exec_regression, tmp_path_reg / metamod_model._toml_name], check=True, + capture_output=True, ) # Read Modflow 6 output diff --git a/tests/test_primod/test_wel_svat_mapping.py b/tests/test_primod/test_wel_svat_mapping.py index 65f673a9..fffc9cba 100644 --- a/tests/test_primod/test_wel_svat_mapping.py +++ b/tests/test_primod/test_wel_svat_mapping.py @@ -3,7 +3,7 @@ import numpy as np import xarray as xr -from imod import mf6 +from imod.mf6.mf6_wel_adapter import Mf6Wel, cellid_from_arrays__structured from numpy.testing import assert_equal from primod.mapping.wel_svat_mapping import WellSvatMapping @@ -34,14 +34,12 @@ def test_simple_model(fixed_format_parser): index = (svat != 0).to_numpy().ravel() # Well - well_layer = [3, 2, 1] - well_row = [1, 2, 3] - well_column = [2, 2, 2] - well_rate = [-5.0] * 3 - well = mf6.WellDisStructured( - layer=well_layer, - row=well_row, - column=well_column, + cellid = cellid_from_arrays__structured( + layer=[3, 2, 1], row=[1, 2, 3], column=[2, 2, 2] + ) + well_rate = xr.DataArray([-5.0] * 3, coords={"index": [0, 1, 2]}, dims=("index",)) + well = Mf6Wel( + cellid=cellid, rate=well_rate, ) @@ -83,14 +81,10 @@ def test_simple_model_1_subunit(fixed_format_parser): index = (svat != 0).to_numpy().ravel() # Well - well_layer = [3, 2] - well_row = [1, 3] - well_column = [2, 2] - well_rate = [-5.0] * 2 - well = mf6.WellDisStructured( - layer=well_layer, - row=well_row, - column=well_column, + cellid = cellid_from_arrays__structured(layer=[3, 2], row=[1, 3], column=[2, 2]) + well_rate = xr.DataArray([-5.0] * 2, coords={"index": [0, 1]}, dims=("index",)) + well = Mf6Wel( + cellid=cellid, rate=well_rate, ) @@ -141,14 +135,14 @@ def test_simple_model_inactive(fixed_format_parser): index = (svat != 0).to_numpy().ravel() # Well - well_layer = [1, 3, 2, 1] - well_row = [1, 1, 2, 3] - well_column = [1, 2, 2, 2] - well_rate = [-5.0] * 4 - well = mf6.WellDisStructured( - layer=well_layer, - row=well_row, - column=well_column, + cellid = cellid_from_arrays__structured( + layer=[1, 3, 2, 1], row=[1, 1, 2, 3], column=[1, 2, 2, 2] + ) + well_rate = xr.DataArray( + [-5.0] * 4, coords={"index": [0, 1, 2, 3]}, dims=("index",) + ) + well = Mf6Wel( + cellid=cellid, rate=well_rate, ) From 6292eb008d3852f8509fd4acee89751130a3d2d6 Mon Sep 17 00:00:00 2001 From: Joeri van Engelen Date: Mon, 28 Oct 2024 17:06:10 +0100 Subject: [PATCH 3/4] Drop unused "layer" coord that was causing trouble --- tests/fixtures/fixture_ribametamod.py | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/tests/fixtures/fixture_ribametamod.py b/tests/fixtures/fixture_ribametamod.py index f432b0b3..5c3c8e01 100644 --- a/tests/fixtures/fixture_ribametamod.py +++ b/tests/fixtures/fixture_ribametamod.py @@ -17,7 +17,7 @@ def make_msw_model( idomain = gwf["GWF_1"]["dis"]["idomain"] if "layer" in idomain.dims: - idomain_layer1 = idomain.sel(layer=1) + idomain_layer1 = idomain.sel(layer=1, drop=True) if nsubunits is None: nsubunits = xr.ones_like(idomain) From 824974a9931f9302669c5b9d8ab3c34c9854f48f Mon Sep 17 00:00:00 2001 From: Joeri van Engelen Date: Mon, 28 Oct 2024 17:08:48 +0100 Subject: [PATCH 4/4] Set fill value to -1 for rasterio >=1.3.10 --- pre-processing/primod/driver_coupling/ribameta.py | 2 ++ pre-processing/primod/driver_coupling/ribamod.py | 1 + 2 files changed, 3 insertions(+) diff --git a/pre-processing/primod/driver_coupling/ribameta.py b/pre-processing/primod/driver_coupling/ribameta.py index 3fadbb6d..8deea6f1 100644 --- a/pre-processing/primod/driver_coupling/ribameta.py +++ b/pre-processing/primod/driver_coupling/ribameta.py @@ -64,6 +64,7 @@ def derive_mapping( self.ribasim_basin_definition, like=svat.isel(subunit=0, drop=True), column="node_id", + fill=-1, ) svat_basin_mapping = SvatBasinMapping( name="msw_ponding", @@ -81,6 +82,7 @@ def derive_mapping( self.ribasim_user_demand_definition, like=svat.isel(subunit=0, drop=True), column="node_id", + fill=-1, ) # sprinkling surface water for subsection of svats determined in 'sprinkling' swspr_grid_data = copy.deepcopy(msw_model[grid_data_key]) diff --git a/pre-processing/primod/driver_coupling/ribamod.py b/pre-processing/primod/driver_coupling/ribamod.py index a79804ee..c34f94f9 100644 --- a/pre-processing/primod/driver_coupling/ribamod.py +++ b/pre-processing/primod/driver_coupling/ribamod.py @@ -77,6 +77,7 @@ def write_exchanges( basin_definition, like=dis["idomain"].isel(layer=0, drop=True), column="node_id", + fill=-1, ) # Collect which Ribasim basins are coupled, so that we can set their