Use tox-uv for tests

.github/workflows/tests.yml

@@ -1,4 +1,4 @@
-name: Tests
+name: Checks
 
 on:
  push:
@@ -13,58 +13,65 @@ jobs:
  name: Unit tests
  strategy:
  matrix:
- os: [ubuntu-latest, macos-latest, windows-latest]
- python-version: ['3.8', '3.9', '3.10', '3.11', '3.12']
- exclude: # run only latest Python on Windows and macOS
- - os: macos-latest
- python-version: '3.8'
- - os: macos-latest
- python-version: '3.9'
- - os: macos-latest
- python-version: '3.10'
- - os: macos-latest
- python-version: '3.11'
-
- - os: windows-latest
- python-version: '3.8'
- - os: windows-latest
- python-version: '3.9'
- - os: windows-latest
- python-version: '3.10'
- - os: windows-latest
- python-version: '3.11'
+ os: [
+ ubuntu-latest,
+ macos-latest,
+ windows-latest,
+ ]
+ python: [
+ '3.8',
+ '3.9',
+ '3.10',
+ '3.11',
+ '3.12',
+ ]
  fail-fast: false
 
  runs-on: ${{ matrix.os }}
  env:
  OS: ${{ matrix.os }}
 
  steps:
- - name: Set up Python ${{ matrix.python-version }}
- uses: actions/setup-python@v5
- with:
- python-version: ${{ matrix.python-version }}
-
  - name: Checkout repository
  uses: actions/checkout@v4
  with:
  fetch-depth: 0
 
+ - name: Install the latest version of uv
+ uses: astral-sh/setup-uv@v3
+ with:
+ enable-cache: true
+ cache-dependency-glob: "pyproject.toml"
+ github-token: ${{ secrets.GITHUB_TOKEN }}
+
+ - name: Install Python
+ run: uv python install ${{ matrix.python }}
+
  - name: Install tox
- run: pip install tox
+ run: uv tool install tox --with tox-uv
+
+ - name: Add local bin to path on Windows
+ if: runner.os == 'Windows'
+ run: echo "C:/Users/runneradmin/.local/bin" >> $GITHUB_PATH
+ shell: bash
+
+ - run: tox --help
+
+ - name: Setup test suite
+ run: tox run -v --notest --skip-missing-interpreters false -e ${{ matrix.python }}
 
  # Run all tests on schedule, but only non-slow tests on push
- - name: Run unit tests
+ - name: Run pytest
  run: |
  if [ "${{ github.event_name }}" == "schedule" ]; then
- tox -e py
+ tox -e pytest
  else
- tox -e py -- -m "not slow"
+ tox -e pytest -- -m "not slow"
  fi
- shell: bash # so it doesn't fail on Windows
+ shell: bash # this wouldn't work on Powershell
 
  - name: Upload coverage reports to Codecov
- if: ${{ matrix.os == 'ubuntu-latest' && matrix.python-version == '3.12' }}
+ if: ${{ matrix.os == 'ubuntu-latest' && matrix.python == '3.12' }}
  run: |
  OS_LOWERCASE=$(echo $RUNNER_OS | tr '[:upper:]' '[:lower:]')
  curl -Os https://uploader.codecov.io/latest/${OS_LOWERCASE}/codecov
@@ -78,18 +85,23 @@ jobs:
  PYTHON_VERSION: '3.12'
 
  steps:
- - name: Set up Python
- uses: actions/setup-python@v5
- with:
- python-version: ${{ env.PYTHON_VERSION }}
-
  - name: Checkout repository
  uses: actions/checkout@v4
  with:
  fetch-depth: 0
 
- - name: Install project
- run: pip install .
+ - name: Install the latest version of uv
+ uses: astral-sh/setup-uv@v3
+ with:
+ enable-cache: true
+ cache-dependency-glob: "pyproject.toml"
+ github-token: ${{ secrets.GITHUB_TOKEN }}
+
+ - name: Install Python
+ run: uv python install ${{ env.PYTHON_VERSION }}
+
+ - name: Install CLI tools
+ run: uv tool install "torchio@."
 
  - name: Test transforms CLI tool
  run: tiotr --help

tox.ini

@@ -1,9 +1,13 @@
 [tox]
-envlist = py, mypy, pre-commit
-isolated_build = True
+envlist = pytest, mypy, lint, format
 
-[testenv]
-extras = dev
+[testenv:pytest]
+deps =
+ parameterized
+ Pillow
+ pytest
+ pytest-cov
+ pytest-sugar
 commands =
  pytest \
  --durations=0 \
@@ -12,9 +16,10 @@ commands =
  {posargs}
 
 [testenv:mypy]
-deps = mypy
+deps =
+ mypy
+ pandas-stubs
 commands =
- pip install pandas-stubs
  mypy \
  --install-types \
  --non-interactive \