update: linting to be consitent with precommit

Author: geemi725

.github/workflows/tests.yml

@@ -15,24 +15,67 @@ jobs:
     steps:
       - name: Check out Git repository
         uses: actions/checkout@v4
+
       - name: Set up Python ${{ matrix.python-version }}
         uses: actions/setup-python@v5
         with:
           python-version: ${{ matrix.python-version }}
+
       - name: Install dependencies
         run: |
           python -m pip install --upgrade pip
-          pip install ruff pytest numpy setuptools>=66 wheel>=0.36 build
+          # Install linting tools from pre-commit config
+          pip install ruff black codespell toml-sort validate-pyproject-schema-store blacken-docs
+          # Install project dependencies
+          pip install pytest numpy setuptools>=66 wheel>=0.36 build
           if [ -f requirements.txt ]; then pip install -r requirements.txt; fi
           if [ -f pyproject.toml ]; then pip install -e .; fi
 
-      - name: Run Lint
+      - name: Run Ruff (linting)
+        run: |
+          # Check for linting issues (matching pre-commit args)
+          ruff check . --fix --exit-non-zero-on-fix
+
+      - name: Run Black (formatting)
+        run: |
+          # Check for formatting issues
+          black --check .
+
+      - name: Run Codespell
+        run: |
+          # Check for spelling mistakes
+          codespell
+
+      - name: Validate pyproject.toml
+        run: |
+          # Validate pyproject.toml if it exists
+          if [ -f pyproject.toml ]; then
+            validate-pyproject pyproject.toml
+          fi
+
+      - name: Check TOML files
         run: |
-          # Check for linting issues
-          ruff check .
-          # Check for formatting issues (will fail if code needs formatting)
-          ruff format --check .
+          # Check and sort TOML files
+          find . -name "*.toml" -type f -exec toml-sort --check {} \;
+
+      - name: Run Blacken-docs
+        run: |
+          # Check Python code blocks in documentation
+          blacken-docs --check **/*.md **/*.rst || true  # Allow failure for now
+
+  pre-commit:
+    runs-on: ubuntu-latest
+    steps:
+      - name: Check out Git repository
+        uses: actions/checkout@v4
+
+      - name: Set up Python
+        uses: actions/setup-python@v5
+        with:
+          python-version: "3.12"
 
+      - name: Run pre-commit
+        uses: pre-commit/action@v3.0.1
   test:
     runs-on: ubuntu-latest
     strategy:

pyproject.toml

@@ -185,8 +185,6 @@ extend-select = [
   "RUF032",
   "RUF033",
   "RUF034",
-  #"RUF035",
-  "S704",
   "RUF036",
   "RUF038",
   "RUF039",