diff --git a/.github/workflows/ci-cd.yml b/.github/workflows/ci-cd.yml index f543d4e..76f86d6 100644 --- a/.github/workflows/ci-cd.yml +++ b/.github/workflows/ci-cd.yml @@ -12,13 +12,13 @@ jobs: runs-on: ubuntu-latest strategy: - # If either the tests for 3.9 or 3.12 fail, all workflows + # If either the tests for 3.11 or 3.12 fail, all workflows # are terminated to save computing resources. fail-fast: true # To safe runtime least and latest version supported are # chosen. For more info see the pyproject.toml matrix: - python-version: ["3.9", "3.12"] + python-version: ["3.11", "3.12"] steps: - uses: actions/checkout@v3 diff --git a/.python-version b/.python-version deleted file mode 100644 index bd28b9c..0000000 --- a/.python-version +++ /dev/null @@ -1 +0,0 @@ -3.9 diff --git a/pyproject.toml b/pyproject.toml index bf3e59b..54b2e78 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -13,22 +13,20 @@ classifiers = [ "Operating System :: Microsoft :: Windows", "Operating System :: POSIX :: Linux", "Programming Language :: Python :: 3", - "Programming Language :: Python :: 3.9", - "Programming Language :: Python :: 3.10", "Programming Language :: Python :: 3.11", "Programming Language :: Python :: 3.12", ] -requires-python = ">=3.9" +requires-python = ">=3.11" dependencies = [ "h5py==3.*", "scipy==1.*", - "numpy==1.*", + "numpy>2.2", "plotly==5.*", "psutil==5.*", "rich==13.*", "pandas==2.*", - "scikit_learn==1.*" + "scikit_learn==1.*", ] [tool.setuptools] @@ -89,6 +87,7 @@ select = [ "YTT", # flake8-2020 (Detects outdated Python 2/3 compatibility issues) "FLY", # flynt (Converts old-style string formatting to f-strings) "PIE", # flake8-pie + "NPY201", # numpy2-deprecations # "PL", # pylint # "RUF", # Ruff-specific rules (Additional optimizations and best practices) ] @@ -99,6 +98,7 @@ ignore = [ "S311", # [suspicious-non-cryptographic-random-usage](https://docs.astral.sh/ruff/rules/suspicious-non-cryptographic-random-usage/) "S404", # [suspicious-subprocess-import](https://docs.astral.sh/ruff/rules/suspicious-subprocess-import/) "S603", # [subprocess-without-shell-equals-true](https://docs.astral.sh/ruff/rules/subprocess-without-shell-equals-true/) + "UP007", # [non-pep604-annotation-union](https://docs.astral.sh/ruff/rules/non-pep604-annotation-union/#non-pep604-annotation-union-up007) ] [tool.ruff.lint.per-file-ignores] diff --git a/src/lasso/dimred/graph_laplacian.py b/src/lasso/dimred/graph_laplacian.py index 3169ad5..21a04c3 100644 --- a/src/lasso/dimred/graph_laplacian.py +++ b/src/lasso/dimred/graph_laplacian.py @@ -97,7 +97,7 @@ def _laplacian_gauss_idw( for i, (j, d, e, k) in enumerate( zip( *tree.query_radius(points, return_distance=True, r=search_radius), - *tree.query(points, return_distance=True, k=1 + min_neighbors), + *tree.query(points, return_distance=True, k=1 + min_neighbors), strict=False, ) ): # Always search for k neighbors, this prevents strongly connected local areas diff --git a/src/lasso/dimred/hashing.py b/src/lasso/dimred/hashing.py index 66df89b..a800455 100644 --- a/src/lasso/dimred/hashing.py +++ b/src/lasso/dimred/hashing.py @@ -211,7 +211,7 @@ def _join_hash_comparison_thread_files( thread_weights = thread_file["weights"] for (i_row, i_col), values, matches in zip( - matrix_indexes, matrix_similarities, matrix_matches + matrix_indexes, matrix_similarities, matrix_matches, strict=False ): smatrix[i_row, i_col] = values ds_matches[i_row, i_col] = matches diff --git a/src/lasso/dyna/binout.py b/src/lasso/dyna/binout.py index d85b983..02a6300 100644 --- a/src/lasso/dyna/binout.py +++ b/src/lasso/dyna/binout.py @@ -200,7 +200,9 @@ def as_df(self, *args) -> pd.DataFrame: if args[0] == "rcforc": ids = [ (str(i) + "m") if j else (str(i) + "s") - for i, j in zip(self.read("rcforc", "ids"), self.read("rcforc", "side")) + for i, j in zip( + self.read("rcforc", "ids"), self.read("rcforc", "side"), strict=False + ) ] else: ids = self.read(*args[:-1], "ids") diff --git a/src/lasso/dyna/d3plot.py b/src/lasso/dyna/d3plot.py index c0d68f6..c491006 100644 --- a/src/lasso/dyna/d3plot.py +++ b/src/lasso/dyna/d3plot.py @@ -7162,7 +7162,9 @@ def _write_geom_rigid_road_surface( rigid_road_segment_road_id = self.arrays[ArrayType.rigid_road_segment_road_id] rigid_road_segment_node_ids = self.arrays[ArrayType.rigid_road_segment_node_ids] - for segment_id, node_ids in zip(rigid_road_segment_road_id, rigid_road_segment_node_ids): + for segment_id, node_ids in zip( + rigid_road_segment_road_id, rigid_road_segment_node_ids, strict=False + ): n_bytes_written += fp.write(settings.pack(segment_id)) n_bytes_written += fp.write(settings.pack(len(node_ids))) n_bytes_written += fp.write(settings.pack(node_ids, dtype_hint=np.integer)) @@ -7347,7 +7349,7 @@ def _write_header_part_contact_interface_titles( title_wordsize = 4 max_len = 18 * title_wordsize fmt_name = "{0:" + str(max_len) + "}" - for pid, title in zip(part_titles_ids, part_titles): + for pid, title in zip(part_titles_ids, part_titles, strict=False): title = title.decode("utf-8") n_bytes_written += fp.write(settings.pack(pid)) @@ -7387,7 +7389,7 @@ def _write_header_part_contact_interface_titles( max_len = 18 * self.header.wordsize fmt_name = "{0:" + str(max_len) + "}" - for pid, title in zip(titles_ids, titles): + for pid, title in zip(titles_ids, titles, strict=False): n_bytes_written += fp.write(settings.pack(pid)) formatted_title = fmt_name.format(title[:max_len]) diff --git 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