[pre-commit.ci] pre-commit autoupdate (#310)

Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>
Co-authored-by: Luca Marconato <[email protected]>

.pre-commit-config.yaml

@@ -13,21 +13,21 @@ repos:
       hooks:
           - id: black
     - repo: https://github.com/pre-commit/mirrors-prettier
-      rev: v3.0.0-alpha.9-for-vscode
+      rev: v3.0.0
       hooks:
           - id: prettier
     - repo: https://github.com/asottile/blacken-docs
-      rev: 1.14.0
+      rev: 1.15.0
       hooks:
           - id: blacken-docs
     - repo: https://github.com/pre-commit/mirrors-mypy
-      rev: v1.3.0
+      rev: v1.4.1
       hooks:
           - id: mypy
             additional_dependencies: [numpy, types-requests]
             exclude: tests/|docs/
-    - repo: https://github.com/charliermarsh/ruff-pre-commit
-      rev: v0.0.272
+    - repo: https://github.com/astral-sh/ruff-pre-commit
+      rev: v0.0.277
       hooks:
           - id: ruff
             args: [--fix, --exit-non-zero-on-fix]

src/spatialdata/_core/query/spatial_query.py

@@ -700,6 +700,7 @@ def polygon_query(
         Whether to filter shapes
     points
         Whether to filter points
+
     Returns
     -------
     The queried SpatialData object with filtered shapes and points.

src/spatialdata/_utils.py

@@ -151,8 +151,7 @@ def _compute_paddings(data: DataArray, axis: str) -> tuple[int, int]:
         assert old_transform is not None
         sequence = Sequence([translation, old_transform])
         set_transformation(element=unpadded, transformation=sequence, to_coordinate_system=target_cs)
-    unpadded = compute_coordinates(unpadded)
-    return unpadded
+    return compute_coordinates(unpadded)
 
 
 # TODO: probably we want this method to live in multiscale_spatial_image

src/spatialdata/datasets.py

@@ -226,6 +226,7 @@ def _generate_blobs(self, length: int = 512, seed: Optional[int] = None) -> Arra
         points = (length * rng.random((2, n_pts))).astype(int)
         mask[tuple(indices for indices in points)] = 1
         mask = gaussian_filter(mask, sigma=0.25 * length * 0.1)
+        assert isinstance(mask, np.ndarray)
         return mask
 
     def _points_blobs(

src/spatialdata/models/models.py

@@ -191,8 +191,7 @@ def parse(
             )
             _parse_transformations(data, parsed_transform)
         # recompute coordinates for (multiscale) spatial image
-        data = compute_coordinates(data)
-        return data
+        return compute_coordinates(data)
 
     @singledispatchmethod
     def validate(self, data: Any) -> None: