Replace several linters and fixers (flake8, isort etc.) with ruff

.pre-commit-config.yaml

@@ -23,10 +23,11 @@ repos:
     - id: trailing-whitespace
       args: [--markdown-linebreak-ext=md]
 
-  - repo: https://github.com/pycqa/flake8
-    rev: '6.0.0'
+  - repo: https://github.com/charliermarsh/ruff-pre-commit
+    rev: 'v0.0.247'
     hooks:
-    - id: flake8
+    - id: ruff
+      args: [--fix]
 
   - repo: local
     hooks:
@@ -50,9 +51,3 @@ repos:
       - id: mypy
         name: "MyPy"
         additional_dependencies: ["types-all", "pydantic~=1.10"]
-
-  - repo: https://github.com/PyCQA/isort
-    rev: 5.12.0
-    hooks:
-      - id: isort
-        name: "isort"

Dockerfile

@@ -8,13 +8,13 @@ ENV PYTHONUNBUFFERED 1
 WORKDIR /app
 
 # Copy repo contents
-COPY setup.py setup.cfg requirements.txt LICENSE MANIFEST.in README.md .docker/run.sh ./
+COPY setup.py pyproject.toml requirements.txt requirements-server.txt LICENSE MANIFEST.in README.md .docker/run.sh ./
 COPY optimade ./optimade
 COPY providers/src/links/v1/providers.json ./optimade/server/data/
 RUN apt-get purge -y --auto-remove \
     && rm -rf /var/lib/apt/lists/* \
     && pip install --no-cache-dir --trusted-host pypi.org --trusted-host files.pythonhosted.org -U pip setuptools wheel flit \
-    && pip install --trusted-host pypi.org --trusted-host files.pythonhosted.org -r requirements.txt \
+    && pip install --trusted-host pypi.org --trusted-host files.pythonhosted.org -r requirements.txt -r requirements-server.txt \
     && pip install --trusted-host pypi.org --trusted-host files.pythonhosted.org .[server]
 
 # Setup server configuration

pyproject.toml

@@ -0,0 +1,38 @@
+[tool.ruff]
+select = ["E", "F", "I", "W", "Q"]
+ignore = ["E501", "E402"]
+fixable = ["A", "B", "C", "D", "E", "F", "I"]
+unfixable = []
+extend-exclude = [
+    "providers",
+]
+target-version = "py310"
+per-file-ignores = {}
+# Allow unused variables when underscore-prefixed.
+dummy-variable-rgx = "^(_+|(_+[a-zA-Z0-9_]*[a-zA-Z0-9]+?))$"
+
+[tool.mypy]
+plugins = "pydantic.mypy"
+ignore_missing_imports = true
+follow_imports = "skip"
+
+[tool.pytest.ini_options]
+filterwarnings = [
+    "error",
+    "ignore:.*parameter is deprecated for the.*:DeprecationWarning",
+    "ignore:.*read_text is deprecated.*:DeprecationWarning",
+    "ignore:.*open_text is deprecated.*:DeprecationWarning",
+    "ignore:.*SixMetaPathImporter.*:ImportWarning",
+    "ignore:.*PY_SSIZE_T_CLEAN will be required for.*:DeprecationWarning",
+    "ignore:.*not found, cannot convert structure.*:",
+    "ignore:.*will default to setting mass to 1.0.:",
+    "ignore:.*is missing fields.*which are required if.*:",
+    "ignore:.*the imp module is deprecated in favour of importlib.*:DeprecationWarning",
+    "ignore:.*has an unrecognised prefix.*:",
+]
+testpaths = "tests"
+addopts = "-rs"
+
+[tool.isort]
+known_first_party = "optimade"
+profile = "black"

requirements-dev.txt

@@ -10,4 +10,5 @@ pre-commit==3.0.4
 pylint==2.16.2
 pytest==7.2.1
 pytest-cov==4.0.0
+ruff==0.0.247
 types-all==1.0.0

setup.py

@@ -63,6 +63,7 @@
         "pre-commit~=3.0",
         "invoke~=2.0",
         "types-all==1.0.0",
+        "ruff==0.0.247",
     ]
     + docs_deps
     + testing_deps