CI pipeline

Author: alex-omophub

.github/workflows/ci.yml

@@ -0,0 +1,68 @@
+name: CI
+
+on:
+  push:
+    branches: [main]
+  pull_request:
+    branches: [main]
+
+jobs:
+  lint:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v4
+      - uses: actions/setup-python@v5
+        with:
+          python-version: "3.12"
+      - name: Install dependencies
+        run: |
+          python -m pip install --upgrade pip
+          pip install ruff mypy
+          pip install -e ".[dev]"
+      - name: Run Ruff linter
+        run: ruff check src/
+      - name: Run Ruff formatter check
+        run: ruff format --check src/
+      - name: Run MyPy
+        run: mypy src/omophub
+
+  test:
+    runs-on: ubuntu-latest
+    strategy:
+      matrix:
+        python-version: ["3.10", "3.11", "3.12", "3.13"]
+    steps:
+      - uses: actions/checkout@v4
+      - uses: actions/setup-python@v5
+        with:
+          python-version: ${{ matrix.python-version }}
+      - name: Install dependencies
+        run: |
+          python -m pip install --upgrade pip
+          pip install -e ".[dev]"
+      - name: Run unit tests with coverage
+        run: |
+          pytest tests/unit --cov=omophub --cov-report=xml --cov-report=term-missing
+      - name: Upload coverage to Codecov
+        if: matrix.python-version == '3.12'
+        uses: codecov/codecov-action@v4
+        with:
+          files: ./coverage.xml
+          fail_ci_if_error: false
+
+  integration:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v4
+      - uses: actions/setup-python@v5
+        with:
+          python-version: "3.12"
+      - name: Install dependencies
+        run: |
+          python -m pip install --upgrade pip
+          pip install -e ".[dev]"
+      - name: Run integration tests
+        env:
+          TEST_API_KEY: ${{ secrets.TEST_API_KEY }}
+        run: |
+          pytest tests/integration -v