[pre-commit.ci] pre-commit autoupdate

.pre-commit-config.yaml

@@ -33,7 +33,7 @@ repos:
 
 - repo: https://github.com/astral-sh/ruff-pre-commit
   # Ruff version.
-  rev: v0.15.6
+  rev: v0.16.0
   hooks:
     - id: ruff
       args: [--fix, --exit-non-zero-on-fix]

setup.py

@@ -10,7 +10,7 @@
 if __name__ == "__main__":
     try:
         setup(use_scm_version={"version_scheme": "no-guess-dev"})
-    except:  # noqa
+    except:
         print(
             "\n\nAn error occurred while building the project, "
             "please ensure you have the most updated version of setuptools, "

src/singlecellexperiment/__init__.py

@@ -15,5 +15,5 @@
 finally:
     del version, PackageNotFoundError
 
-from .io import read_h5ad, read_tenx_mtx, read_tenx_h5
+from .io import read_h5ad, read_tenx_h5, read_tenx_mtx
 from .SingleCellExperiment import SingleCellExperiment

tests/conftest.py

@@ -6,8 +6,8 @@
 - https://docs.pytest.org/en/stable/writing_plugins.html
 """
 
-import pytest
 import data.mocks as sce
+import pytest
 
 
 @pytest.fixture

tests/test_sce.py

@@ -36,7 +36,7 @@
         "starts": range(100, 300),
         "ends": range(110, 310),
         "strand": ["-", "+", "+", "*", "*", "+", "+", "+", "-", "-"] * 20,
-        "score": range(0, 200),
+        "score": range(200),
         "GC": [random() for _ in range(10)] * 20,
     }
 )
@@ -93,7 +93,7 @@ def test_SCE_creation_with_alts_should_fail():
             "starts": range(100, 300),
             "ends": range(110, 310),
             "strand": ["-", "+", "+", "*", "*", "+", "+", "+", "-", "-"] * 20,
-            "score": range(0, 200),
+            "score": range(200),
             "GC": [random() for _ in range(10)] * 20,
         }
     )

tests/test_sce_combine_rows.py

@@ -1,10 +1,9 @@
 import biocutils
 import numpy as np
+import pytest
 
 from singlecellexperiment.SingleCellExperiment import SingleCellExperiment
 
-import pytest
-
 __author__ = "jkanche"
 __copyright__ = "jkanche"
 __license__ = "MIT"

tests/test_sce_io.py

@@ -39,7 +39,7 @@
         "starts": range(100, 300),
         "ends": range(110, 310),
         "strand": ["-", "+", "+", "*", "*", "+", "+", "+", "-", "-"] * 20,
-        "score": range(0, 200),
+        "score": range(200),
         "GC": [random() for _ in range(10)] * 20,
     }
 )

tests/test_sce_methods.py

@@ -36,7 +36,7 @@
         "starts": range(100, 300),
         "ends": range(110, 310),
         "strand": ["-", "+", "+", "*", "*", "+", "+", "+", "-", "-"] * 20,
-        "score": range(0, 200),
+        "score": range(200),
         "GC": [random() for _ in range(10)] * 20,
     }
 )

tests/test_sce_slice.py

@@ -35,7 +35,7 @@
         "starts": range(100, 300),
         "ends": range(110, 310),
         "strand": ["-", "+", "+", "*", "*", "+", "+", "+", "-", "-"] * 20,
-        "score": range(0, 200),
+        "score": range(200),
         "GC": [random() for _ in range(10)] * 20,
     }
 )