Align standards with the rest of the codebase

.github/workflows/deptry.yml

@@ -0,0 +1,20 @@
+name: Deptry Dependency Check
+
+on: [pull_request]
+
+jobs:
+  dependencies:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v4
+      # Setup the minimum required python distribution
+      - uses: actions/setup-python@v5
+        with:
+          python-version: "3.13"
+      - name: Setup uv
+        uses: astral-sh/setup-uv@v5
+      - run: uv sync --dev --all-extras
+      # Install deptry
+      - run: uv pip install deptry
+      # Run deptry to check that all dependencies are present.
+      - run: uv run deptry . -ddg test,dev,types

.github/workflows/git-extension.yml

@@ -1,18 +1,51 @@
-name: Check requirements.txt git URLs are properly formatted
-
-on: pull_request
-
-permissions:
-  contents: read
-  pull-requests: write
+name: Check Git Dependencies
 
+on:
+  push:
+    branches:
+      - master
+  pull_request:
+    branches:
+      - master
 jobs:
-  test:
+  check-git-deps:
     runs-on: ubuntu-latest
+
     steps:
-      - uses: actions/checkout@v4
-      - run: sed -i '/git\+/ { /\.git$/! s/$/.git/ }' requirements.txt
-      - uses: parkerbxyz/suggest-changes@v2
-        with:
-          comment: 'Please change the following dependencies for consistency.'
-          event: 'REQUEST_CHANGES'
+      - name: Checkout repository
+        uses: actions/checkout@v4
+
+
+      - name: Set up Python
+        uses: actions/setup-python@v4
+
+      - name: Run Git dependency check
+        run: |
+            import tomllib
+            from pathlib import Path
+            import sys
+
+            pyproject_path = Path("pyproject.toml")
+            if not pyproject_path.exists():
+                print("Error: pyproject.toml not found in the current directory.")
+                sys.exit(1)
+
+            with open(pyproject_path, "rb") as f:
+                config = tomllib.load(f)
+
+            issues = []
+            for section in ["project", "project.optional-dependencies"]:
+                if section in config and "dependencies" in config[section]:
+                    deps = config[section]["dependencies"]
+                    for dep in deps:
+                        if "git+https://" in dep and not dep.endswith(".git"):
+                            issues.append(dep)
+
+            if issues:
+                print("The following git dependencies are missing the .git extension:")
+                for issue in issues:
+                    print(f"  - {issue}")
+                sys.exit(1)
+            else:
+                print("All git dependencies are correctly formatted.")
+        shell: python

.github/workflows/numpydoc.yml

@@ -0,0 +1,36 @@
+name: Numpydoc Lint
+
+on:
+  push:
+    branches:
+      - master
+  pull_request:
+    branches:
+      - master
+
+jobs:
+  numpydoc-lint:
+    runs-on: ubuntu-latest
+
+    steps:
+      - name: Checkout repository
+        uses: actions/checkout@v4
+
+      - uses: awalsh128/cache-apt-pkgs-action@latest
+        with:
+          packages: fd-find
+          version: 1.0
+
+      - name: Set up Python
+        uses: actions/setup-python@v4
+        with:
+          python-version: '3.13'  # Adjust version as needed
+
+      - name: Install dependencies
+        run: |
+          pip install numpydoc
+          sudo apt-get install
+
+      - name: Run Numpydoc Lint
+        run: |
+          fdfind . qcore/ -E "__init__.py" --extension py | xargs numpydoc lint

.github/workflows/pytest.yml

@@ -0,0 +1,77 @@
+name: Pytest Check
+
+on: [pull_request]
+
+jobs:
+  test:
+    runs-on: ubuntu-latest
+
+    steps:
+      - name: Checkout code
+        uses: actions/checkout@v4
+
+      - name: Set up Python
+        uses: actions/setup-python@v5
+        with:
+          python-version: "3.13"
+      - name: Define a cache dependency glob
+        uses: astral-sh/setup-uv@v5
+        with:
+          enable-cache: true
+
+      - name: Install the project
+        run: uv sync --all-extras --dev
+
+      - name: Run tests
+        run: |
+          source .venv/bin/activate
+          pytest --cov=qcore --cov-report=html tests
+
+      - name: Upload coverage data
+        uses: actions/upload-artifact@v4
+        with:
+          name: coverage-data
+          path: .coverage
+          include-hidden-files: true
+          if-no-files-found: ignore
+
+  coverage:
+    needs: test
+    runs-on: ubuntu-latest
+
+    steps:
+      - name: Check out the repo
+        uses: actions/checkout@v4
+
+      - name: Set up Python
+        uses: actions/setup-python@v5
+        with:
+          python-version: 3.12
+
+      - name: Install dependencies
+        run: |
+          python -m pip install --upgrade coverage[toml]
+
+      - name: Download coverage data
+        uses: actions/download-artifact@v4
+        with:
+          name: coverage-data
+
+      - name: Combine coverage and fail it it’s under 100 %
+        run: |
+          python -m coverage html --skip-covered --skip-empty
+
+          # Report and write to summary.
+          python -m coverage report | sed 's/^/    /' >> $GITHUB_STEP_SUMMARY
+
+          # Report again and fail if under 95%.
+          python -Im coverage report --fail-under=95
+
+      - name: Upload HTML report if check failed
+        uses: actions/upload-artifact@v4
+
+        with:
+          name: html-report
+          path: htmlcov
+
+        if: ${{ failure() }}

.github/workflows/ruff.yml

@@ -0,0 +1,8 @@
+name: Ruff
+on: [pull_request]
+jobs:
+  ruff:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v4
+      - uses: chartboost/ruff-action@v1

.github/workflows/types.yml

@@ -0,0 +1,32 @@
+name: Type Check
+
+on:
+  push:
+    branches: [master]
+  pull_request:
+    branches: [master]
+
+jobs:
+  typecheck:
+    runs-on: ubuntu-latest
+
+    steps:
+      - name: Checkout code
+        uses: actions/checkout@v4
+
+      - name: Set up Python
+        uses: actions/setup-python@v5
+        with:
+          python-version: "3.13"
+
+
+      - name: Install uv
+        uses: astral-sh/setup-uv@v5
+        with:
+          enable-cache: true
+
+      - name: Install project with types
+        run: uv sync --all-extras --dev
+
+      - name: Run type checking with ty
+        run: uv run ty check