diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml index 868fad2..d7b7557 100644 --- a/.github/workflows/tests.yml +++ b/.github/workflows/tests.yml @@ -2,12 +2,9 @@ name: CI Tests on: push: - branches: - - master + branches: [master] pull_request: - branches: - - master - types: [opened, synchronize, reopened] + workflow_dispatch: jobs: test: diff --git a/dggrid4py/dggrid_runner.py b/dggrid4py/dggrid_runner.py index 654bc63..f22050c 100644 --- a/dggrid4py/dggrid_runner.py +++ b/dggrid4py/dggrid_runner.py @@ -25,7 +25,7 @@ import numpy as np import pandas as pd -import fiona +import pyogrio import geopandas as gpd from .interrupt import crosses_interruption, interrupt_cell, get_geom_coords @@ -36,7 +36,8 @@ AnyGeometry = BaseGeometry | GeometryArray -fiona_drivers = fiona.supported_drivers +# Cache pyogrio drivers for get_geo_out() function +_geo_drivers = pyogrio.list_drivers() # SHAPEFILE is included more natively in DGGRID than GeoJSON (esp. as clip_subset_type) def get_geo_out(legacy=True, has_gdal=True): @@ -51,7 +52,7 @@ def get_geo_out(legacy=True, has_gdal=True): return { "driver": "ESRI Shapefile", "legacy_driver": "Shapefile", "ext": "shp"} if legacy is False and has_gdal is True: - if "FlatGeobuf" in fiona_drivers.keys() and "w" in fiona_drivers["FlatGeobuf"]: + if "FlatGeobuf" in _geo_drivers.keys() and "w" in _geo_drivers["FlatGeobuf"]: return { "driver": "FlatGeobuf", "legacy_driver": "FlatGeobuf", "ext": "fgb"} return { "driver": "GPKG", "legacy_driver": "GPKG", "ext": "gpgk"} @@ -701,7 +702,7 @@ def check_gdal_support(self): if self.has_gdal: print(f"GDAL types should be possible: has GDAL={self.has_gdal}") print("check your dggrid binary | mac: otool -L | Linux ldd ") - print(fiona_drivers) + print(_geo_drivers) else: print(f"GDAL types should not be used: has GDAL={self.has_gdal}") @@ -1362,7 +1363,7 @@ def grid_cell_polygons_for_extent( print(dggs_ops) path = Path(tmp_dir) / f"temp_{dggs_type}_{resolution}_out_{tmp_id}.{self.tmp_geo_out['ext']}" - gdf = gpd.read_file(path.resolve(), driver=self.tmp_geo_out['driver']) + gdf = gpd.read_file(path.resolve(), engine="pyogrio") if not self.debug: try: @@ -1446,7 +1447,7 @@ def grid_cell_centroids_for_extent( if self.debug: print(dggs_ops) - gdf = gpd.read_file( Path(tmp_dir) / f"temp_{dggs_type}_{resolution}_out_{tmp_id}.{self.tmp_geo_out['ext']}", driver=self.tmp_geo_out['driver'] ) + gdf = gpd.read_file( Path(tmp_dir) / f"temp_{dggs_type}_{resolution}_out_{tmp_id}.{self.tmp_geo_out['ext']}", engine="pyogrio" ) if not self.debug: try: @@ -1533,7 +1534,7 @@ def grid_cell_polygons_from_cellids( if self.debug: print(dggs_ops) - gdf = gpd.read_file( Path(tmp_dir) / f"temp_{dggs_type}_{resolution}_out_{tmp_id}.{self.tmp_geo_out['ext']}", driver=self.tmp_geo_out['driver'] ) + gdf = gpd.read_file( Path(tmp_dir) / f"temp_{dggs_type}_{resolution}_out_{tmp_id}.{self.tmp_geo_out['ext']}", engine="pyogrio" ) if not cell_id_list is None and len(cell_id_list) > 0 and not seq_df is None: # we have to adjust the columns formats for the IDs/Seqnums/Name field to ensure they are comparable for the join @@ -1643,7 +1644,7 @@ def grid_cell_centroids_from_cellids( if self.debug: print(dggs_ops) - gdf = gpd.read_file( Path(tmp_dir) / f"temp_{dggs_type}_{resolution}_out_{tmp_id}.{self.tmp_geo_out['ext']}", driver=self.tmp_geo_out['driver'] ) + gdf = gpd.read_file( Path(tmp_dir) / f"temp_{dggs_type}_{resolution}_out_{tmp_id}.{self.tmp_geo_out['ext']}", engine="pyogrio" ) if not cell_id_list is None and len(cell_id_list) > 0 and not seq_df is None: # we have to adjust the columns formats for the IDs/Seqnums/Name field to ensure they are comparable for the join @@ -2177,7 +2178,7 @@ def specify_clip_settings( clip_metafile_settings.update({'clip_subset_type': cast(DggsClipSubsetTypeT, tmp_geo_out['legacy_driver'].upper())}) clip_gdf = gpd.GeoDataFrame(pd.DataFrame({'id': [1], 'geometry': [clip_geom]}), geometry='geometry', crs=4326) clip_path = Path(tmp_dir) / f"temp_clip_{tmp_id}.{tmp_geo_out['ext']}" - clip_gdf.to_file(str(clip_path), driver=tmp_geo_out['driver']) + clip_gdf.to_file(str(clip_path), engine="pyogrio") clip_metafile_settings.update({'clip_region_files': str((Path(tmp_dir) / f"temp_clip_{tmp_id}.{tmp_geo_out['ext']}").resolve())}) if "clipper_scale_factor" in conf_extra: diff --git a/docs/requirements.txt b/docs/requirements.txt index 24e4804..d87c864 100644 --- a/docs/requirements.txt +++ b/docs/requirements.txt @@ -3,8 +3,8 @@ sphinx-rtd-theme==3 myst-parser==4 numpy pandas -fiona shapely geopandas +pyogrio dggrid4py diff --git a/poetry.lock b/poetry.lock index d90dfe4..cfe1a3f 100644 --- a/poetry.lock +++ b/poetry.lock @@ -13,19 +13,6 @@ files = [ {file = "alabaster-1.0.0.tar.gz", hash = "sha256:c00dca57bca26fa62a6d7d0a9fcce65f3e026e9bfe33e9c538fd3fbb2144fd9e"}, ] -[[package]] -name = "attrs" -version = "25.4.0" -description = "Classes Without Boilerplate" -optional = false -python-versions = ">=3.9" -groups = ["main"] -markers = "python_version <= \"3.11\" or python_version >= \"3.12\"" -files = [ - 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assert meta_args["clip_region_files"].startswith("/tmp/dggrid") - assert meta_args["cell_output_file_name"].startswith("/tmp/dggrid") + assert "dggrid" in meta_args["clip_region_files"] + assert "dggrid" in meta_args["cell_output_file_name"] meta_args.pop("clip_region_files") meta_args.pop("cell_output_file_name") metafile_patched = [f"{key} {val}" for key, val in meta_args.items()] @@ -112,8 +112,8 @@ def mock_dggrid_grid_gen_run(__metafile): # pre-check temp file paths to ignore in check of specific values meta_args = dict([line.split(" ") for line in metafile]) - assert meta_args["clip_region_files"].startswith("/tmp/dggrid") - assert meta_args["cell_output_file_name"].startswith("/tmp/dggrid") + assert "dggrid" in meta_args["clip_region_files"] + assert "dggrid" in meta_args["cell_output_file_name"] meta_args.pop("clip_region_files") meta_args.pop("cell_output_file_name") metafile_patched = [f"{key} {val}" for key, val in meta_args.items()] diff --git a/tests/test_dggrid.py b/tests/test_dggrid.py index 084b737..1ebf270 100644 --- a/tests/test_dggrid.py +++ b/tests/test_dggrid.py @@ -274,8 +274,8 @@ def mock_dggrid_grid_gen_run(__metafile): # pre-check temp file paths to ignore in check of specific values meta_args = dict([line.split(" ") for line in metafile]) - assert meta_args["clip_region_files"].startswith("/tmp/dggrid") - assert meta_args["cell_output_file_name"].startswith("/tmp/dggrid") + assert "dggrid" in meta_args["clip_region_files"] + assert "dggrid" in meta_args["cell_output_file_name"] meta_args.pop("clip_region_files") meta_args.pop("cell_output_file_name") metafile_patched = [f"{key} {val}" for key, val in meta_args.items()] @@ -341,8 +341,8 @@ def mock_dggrid_grid_gen_run(__metafile): # pre-check temp file paths to ignore in check of specific values meta_args = dict([line.split(" ") for line in metafile]) - assert meta_args["clip_region_files"].startswith("/tmp/dggrid") - assert meta_args["cell_output_file_name"].startswith("/tmp/dggrid") + assert "dggrid" in meta_args["clip_region_files"] + assert "dggrid" in meta_args["cell_output_file_name"] meta_args.pop("clip_region_files") meta_args.pop("cell_output_file_name") metafile_patched = [f"{key} {val}" for key, val in meta_args.items()] @@ -422,15 +422,15 @@ def mock_dgapi_grid_gen(*args, **kwargs): meta_args = dict([line.split(" ", 1) for line in dgapi_grid_transform_metafile]) dgapi_grid_transform_input_file_name = meta_args.pop("input_file_name") dgapi_grid_transform_output_file_name = meta_args.pop("output_file_name") - assert dgapi_grid_transform_input_file_name.startswith("/tmp/dggrid") - assert dgapi_grid_transform_output_file_name.startswith("/tmp/dggrid") + assert "dggrid" in dgapi_grid_transform_input_file_name + assert "dggrid" in dgapi_grid_transform_output_file_name dgapi_grid_transform_metafile_patched = [f"{key} {val}" for key, val in meta_args.items()] meta_args = dict([line.split(" ", 1) for line in dgapi_grid_gen_metafile]) dgapi_grid_gen_cell_output_file_name = meta_args.pop("cell_output_file_name") dgapi_grid_gen_clip_region_files = meta_args.pop("clip_region_files") - assert dgapi_grid_gen_cell_output_file_name.startswith("/tmp/dggrid") - assert dgapi_grid_gen_clip_region_files.startswith("/tmp/dggrid") + assert "dggrid" in dgapi_grid_gen_cell_output_file_name + assert "dggrid" in dgapi_grid_gen_clip_region_files dgapi_grid_gen_metafile_patched = [f"{key} {val}" for key, val in meta_args.items()] assert dgapi_grid_transform_output_file_name != dgapi_grid_gen_cell_output_file_name @@ -524,4 +524,4 @@ def mock_dgapi_grid_gen(*args, **kwargs): ], columns=result.columns, # ensure ordering matches to allow compare ) - assert_geodataframe_equal(result, expect) + assert_geodataframe_equal(result, expect, check_less_precise=True)