Continuous testing

.github/workflows/pytest.yml

@@ -0,0 +1,41 @@
+name: Tests
+
+on:
+  push:
+    branches: [ master ]
+  pull_request:
+    branches: [ master ]
+
+jobs:
+  test:
+    runs-on: ubuntu-latest
+    strategy:
+      matrix:
+        python-version: ["3.13"]
+
+    steps:
+    - uses: actions/checkout@v4
+
+    - name: Install uv
+      uses: astral-sh/setup-uv@v4
+
+    - name: Set up Python ${{ matrix.python-version }}
+      uses: actions/setup-python@v5
+      with:
+        python-version: ${{ matrix.python-version }}
+
+    - name: Install dependencies
+      run: uv sync --all-extras --dev
+
+    - name: Run linting (ruff check)
+      run: uv run ruff check .
+      shell: bash
+
+    - name: Run type checking (mypy)
+      run: uv run mypy .
+      shell: bash
+      continue-on-error: true
+
+    - name: Run tests with pytest
+      run: uv run pytest
+      shell: bash

README.md

@@ -18,7 +18,7 @@ CyteOnto helps researchers benchmark cell type annotation algorithms by measurin
 ### Install
 ```bash
 # Clone the repository
-git clone <repository-url>
+git clone https://github.com/NygenAnalytics/CyteOnto.git
 cd CyteOnto
 
 # Setup environment
@@ -149,7 +149,7 @@ We welcome contributions! Please see our contribution guidelines for details.
 
 ### Development Setup
 ```bash
-git clone <repository-url>
+git clone https://github.com/NygenAnalytics/CyteOnto.git
 cd CyteOnto
 uv sync --dev
 ```