[pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

src/rapids_singlecell/get/_aggregated.py

@@ -1,9 +1,8 @@
 from __future__ import annotations
 
+from collections.abc import Collection, Iterable
 from typing import (
     TYPE_CHECKING,
-    Collection,
-    Iterable,
     Literal,
     Union,
     get_args,

src/rapids_singlecell/preprocessing/_neighbors.py

@@ -1,8 +1,9 @@
 from __future__ import annotations
 
 import math
+from collections.abc import Mapping
 from types import MappingProxyType
-from typing import TYPE_CHECKING, Any, Literal, Mapping, Union
+from typing import TYPE_CHECKING, Any, Literal, Union
 
 import cupy as cp
 import numpy as np

src/rapids_singlecell/squidpy_gpu/_autocorr.py

@@ -1,9 +1,9 @@
 from __future__ import annotations
 
+from collections.abc import Sequence
 from typing import (
     TYPE_CHECKING,
-    Literal,  # < 3.8
-    Sequence,
+    Literal,
 )
 
 import cupy as cp

src/rapids_singlecell/squidpy_gpu/_ligrec.py

@@ -1,12 +1,10 @@
 from __future__ import annotations
 
 import math
+from collections.abc import Iterable, Mapping, Sequence
 from itertools import product
 from typing import (
-    Iterable,
     Literal,
-    Mapping,
-    Sequence,
 )
 
 import cupy as cp

src/rapids_singlecell/tools/_clustering.py

@@ -1,7 +1,8 @@
 from __future__ import annotations
 
 import warnings
-from typing import TYPE_CHECKING, Sequence
+from collections.abc import Sequence
+from typing import TYPE_CHECKING
 
 import cudf
 import numpy as np

src/rapids_singlecell/tools/_embedding_density.py

@@ -1,7 +1,8 @@
 from __future__ import annotations
 
 import math
-from typing import TYPE_CHECKING, Sequence
+from collections.abc import Sequence
+from typing import TYPE_CHECKING
 
 import cupy as cp
 import numpy as np

src/rapids_singlecell/tools/_rank_gene_groups.py

@@ -1,6 +1,7 @@
 from __future__ import annotations
 
-from typing import TYPE_CHECKING, Iterable, Literal
+from collections.abc import Iterable
+from typing import TYPE_CHECKING, Literal
 
 import cupy as cp
 import numpy as np

src/rapids_singlecell/tools/_score_genes.py

@@ -13,8 +13,7 @@
 from ._utils import _nan_mean
 
 if TYPE_CHECKING:
-    from collections.abc import Generator
-    from typing import Sequence
+    from collections.abc import Generator, Sequence
 
     from anndata import AnnData
 

tests/test_ligrec.py

@@ -1,9 +1,10 @@
 from __future__ import annotations
 
 import pickle
+from collections.abc import Sequence
 from itertools import product
 from pathlib import Path
-from typing import TYPE_CHECKING, Sequence, Tuple
+from typing import TYPE_CHECKING
 
 import numpy as np
 import pandas as pd
@@ -16,8 +17,8 @@
 HERE = Path(__file__).parent
 
 _CK = "leiden"
-Interactions_t = Tuple[Sequence[str], Sequence[str]]
-Complexes_t = Sequence[Tuple[str, str]]
+Interactions_t = tuple[Sequence[str], Sequence[str]]
+Complexes_t = Sequence[tuple[str, str]]
 
 
 @pytest.fixture()