spruce up linting workflow

Author: d-v-b

.codespellrc

@@ -20,38 +20,17 @@ repos:
   rev: v2.4.1
   hooks:
     - id: codespell
-- repo: https://github.com/pycqa/isort
-  rev: 6.0.1  # Use the latest stable version
+      args: [--toml, pyproject.toml]
+- repo: https://github.com/astral-sh/ruff-pre-commit
+  rev: v0.8.4
   hooks:
-    - id: isort
-      args:
-        - --profile=black  # Optional, makes isort compatible with Black
-- repo: https://github.com/psf/black
-  rev: 25.1.0 # matching versions in pyproject.toml and github actions
-  hooks:
-  - id: black
-    args: ["--check", "-v", "datajoint", "tests", "--diff"] # --required-version is conflicting with pre-commit
-- repo: https://github.com/PyCQA/flake8
-  rev: 7.3.0
-  hooks:
-  # syntax tests
-  - id: flake8
-    args:
-      - --select=E9,F63,F7,F82
-      - --count
-      - --show-source
-      - --statistics
-    files: datajoint # a lot of files in tests are not compliant
-  # style tests
-  - id: flake8
-    args:
-      - --ignore=E203,E722,W503
-      - --count
-      - --max-complexity=62
-      - --max-line-length=127
-      - --statistics
-      - --per-file-ignores=datajoint/diagram.py:C901
-    files: datajoint # a lot of files in tests are not compliant
+    # Run the linter
+    - id: ruff
+      args: [--fix]
+      files: ^(src/|tests/)
+    # Run the formatter
+    - id: ruff-format
+      files: ^(src/|tests/)
 - repo: https://github.com/rhysd/actionlint
   rev: v1.7.7
   hooks:

.pre-commit-config.yaml

@@ -85,21 +85,57 @@ test = [
 ]
 dev = [
   "pre-commit",
-  "black==24.2.0",
-  "flake8",
-  "isort",
+  "ruff",
   "codespell",
   # including test
   "pytest",
   "pytest-cov",
 ]
 
-[tool.isort]
-profile = "black"
+[tool.ruff]
+# Equivalent to flake8 configuration
+line-length = 127
+target-version = "py39"
+
+[tool.ruff.lint]
+# Enable specific rule sets equivalent to flake8 configuration
+select = [
+    "E",  # pycodestyle errors
+    "W",  # pycodestyle warnings
+    "F",  # pyflakes
+    "C90", # mccabe complexity
+]
+
+# Ignore specific rules (equivalent to flake8 --ignore)
+ignore = [
+    "E203",  # whitespace before ':'
+    "E722",  # bare except
+]
+
+# Per-file ignores (equivalent to flake8 --per-file-ignores)
+[tool.ruff.lint.per-file-ignores]
+"datajoint/diagram.py" = ["C901"]  # function too complex
+
+[tool.ruff.lint.mccabe]
+# Maximum complexity (equivalent to flake8 --max-complexity)
+max-complexity = 62
+
+[tool.ruff.format]
+# Use black-compatible formatting
+quote-style = "double"
+indent-style = "space"
+line-ending = "auto"
 
 [tool.setuptools]
 packages = ["datajoint"]
 package-dir = {"" = "src"}
 
 [tool.setuptools.dynamic]
 version = { attr = "datajoint.version.__version__"}
+
+[tool.codespell]
+skip = ".git,*.pdf,*.svg,*.csv,*.ipynb,*.drawio"
+# Rever -- nobody knows
+# numer -- numerator variable
+# astroid -- Python library name (not "asteroid")
+ignore-words-list = "rever,numer,astroid"