TYP: Address some recent numpy/mypy type complaints #399
Workflow file for this run
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name: Build and test | |
# This file tests the claimed support range of NiBabel including | |
# | |
# * Operating systems: Linux, Windows (x64 & x86), OSX | |
# * Dependencies: minimum requirements, optional requirements | |
# * Installation methods: setup.py, sdist, wheel, archive | |
on: | |
push: | |
branches: | |
- master | |
- maint/* | |
tags: | |
- "*" | |
pull_request: | |
branches: | |
- master | |
- maint/* | |
schedule: | |
- cron: '0 0 * * 1' | |
# Allow job to be triggered manually from GitHub interface | |
workflow_dispatch: | |
defaults: | |
run: | |
shell: bash | |
# Force tox and pytest to use color | |
env: | |
FORCE_COLOR: true | |
concurrency: | |
group: ${{ github.workflow }}-${{ github.ref }} | |
cancel-in-progress: true | |
permissions: | |
contents: read | |
jobs: | |
build: | |
runs-on: ubuntu-latest | |
steps: | |
- uses: actions/checkout@v4 | |
with: | |
fetch-depth: 0 | |
- uses: actions/setup-python@v5 | |
with: | |
python-version: 3 | |
- run: pip install --upgrade build twine | |
- name: Build sdist and wheel | |
run: python -m build | |
- run: twine check dist/* | |
- name: Build git archive | |
run: mkdir archive && git archive -v -o archive/nibabel-archive.tgz HEAD | |
- name: Upload sdist and wheel artifacts | |
uses: actions/upload-artifact@v4 | |
with: | |
name: dist | |
path: dist/ | |
- name: Upload git archive artifact | |
uses: actions/upload-artifact@v4 | |
with: | |
name: archive | |
path: archive/ | |
test-package: | |
runs-on: ubuntu-latest | |
needs: [build] | |
strategy: | |
matrix: | |
package: ['wheel', 'sdist', 'archive'] | |
steps: | |
- name: Download sdist and wheel artifacts | |
if: matrix.package != 'archive' | |
uses: actions/download-artifact@v4 | |
with: | |
name: dist | |
path: dist/ | |
- name: Download git archive artifact | |
if: matrix.package == 'archive' | |
uses: actions/download-artifact@v4 | |
with: | |
name: archive | |
path: archive/ | |
- uses: actions/setup-python@v5 | |
with: | |
python-version: 3 | |
- name: Display Python version | |
run: python -c "import sys; print(sys.version)" | |
- name: Update pip | |
run: pip install --upgrade pip | |
- name: Install wheel | |
if: matrix.package == 'wheel' | |
run: pip install dist/nibabel-*.whl | |
- name: Install sdist | |
if: matrix.package == 'sdist' | |
run: pip install dist/nibabel-*.tar.gz | |
- name: Install archive | |
if: matrix.package == 'archive' | |
run: pip install archive/nibabel-archive.tgz | |
- run: python -c 'import nibabel; print(nibabel.__version__)' | |
- name: Install minimum test dependencies | |
run: pip install nibabel[test] | |
- name: Run tests | |
run: pytest --doctest-modules --doctest-plus -v --pyargs nibabel -n auto | |
test: | |
# Check each OS, all supported Python, minimum versions and latest releases | |
runs-on: ${{ matrix.os }} | |
continue-on-error: ${{ matrix.dependencies == 'pre' }} | |
strategy: | |
fail-fast: false | |
matrix: | |
os: ['ubuntu-latest', 'windows-latest', 'macos-13', 'macos-latest'] | |
python-version: ["3.8", "3.9", "3.10", "3.11", "3.12"] | |
architecture: ['x64', 'x86', 'arm64'] | |
dependencies: ['full', 'pre'] | |
include: | |
# Basic dependencies only | |
- os: ubuntu-latest | |
python-version: 3.8 | |
dependencies: 'none' | |
# Absolute minimum dependencies | |
- os: ubuntu-latest | |
python-version: 3.8 | |
dependencies: 'min' | |
# NoGIL | |
- os: ubuntu-latest | |
python-version: '3.13-dev' | |
dependencies: 'dev' | |
exclude: | |
# x86 for Windows + Python<3.12 | |
- os: ubuntu-latest | |
architecture: x86 | |
- os: macos-13 | |
architecture: x86 | |
- os: macos-latest | |
architecture: x86 | |
- python-version: '3.12' | |
architecture: x86 | |
# arm64 is available for macos-14+ | |
- os: ubuntu-latest | |
architecture: arm64 | |
- os: windows-latest | |
architecture: arm64 | |
- os: macos-13 | |
architecture: arm64 | |
# x64 is not available for macos-14+ | |
- os: macos-latest | |
architecture: x64 | |
# Drop pre tests for macos-13 | |
- os: macos-13 | |
dependencies: pre | |
# Drop pre tests for SPEC-0-unsupported Python versions | |
- python-version: '3.8' | |
dependencies: pre | |
- python-version: '3.9' | |
dependencies: pre | |
env: | |
DEPENDS: ${{ matrix.dependencies }} | |
ARCH: ${{ !contains(fromJSON('["none", "min"]'), matrix.dependencies) && matrix.architecture }} | |
steps: | |
- uses: actions/checkout@v4 | |
with: | |
submodules: recursive | |
fetch-depth: 0 | |
- name: Set up Python ${{ matrix.python-version }} | |
if: "!endsWith(matrix.python-version, '-dev')" | |
uses: actions/setup-python@v5 | |
with: | |
python-version: ${{ matrix.python-version }} | |
architecture: ${{ matrix.architecture }} | |
allow-prereleases: true | |
- name: Set up Python ${{ matrix.python-version }} | |
if: endsWith(matrix.python-version, '-dev') | |
uses: deadsnakes/[email protected] | |
with: | |
python-version: ${{ matrix.python-version }} | |
nogil: true | |
- name: Display Python version | |
run: python -c "import sys; print(sys.version)" | |
- name: Install tox | |
run: | | |
python -m pip install --upgrade pip | |
python -m pip install tox tox-gh-actions | |
- name: Show tox config | |
run: tox c | |
- name: Run tox | |
run: tox -vv --exit-and-dump-after 1200 | |
- uses: codecov/codecov-action@v4 | |
if: ${{ always() }} | |
with: | |
files: cov.xml | |
token: ${{ secrets.CODECOV_TOKEN }} | |
- name: Upload pytest test results | |
uses: actions/upload-artifact@v4 | |
with: | |
name: pytest-results-${{ matrix.os }}-${{ matrix.python-version }}-${{ matrix.dependencies }}-${{ matrix.architecture }} | |
path: test-results.xml | |
if: ${{ always() }} | |
checks: | |
runs-on: 'ubuntu-latest' | |
continue-on-error: true | |
strategy: | |
matrix: | |
check: ['style', 'doctest', 'typecheck', 'spellcheck'] | |
steps: | |
- uses: actions/checkout@v4 | |
- name: Set up Python ${{ matrix.python-version }} | |
uses: actions/setup-python@v5 | |
with: | |
python-version: 3 | |
- name: Display Python version | |
run: python -c "import sys; print(sys.version)" | |
- name: Show tox config | |
run: pipx run tox c | |
- name: Show tox config (this call) | |
run: pipx run tox c -e ${{ matrix.check }} | |
- name: Run check | |
run: pipx run tox -e ${{ matrix.check }} | |
publish: | |
runs-on: ubuntu-latest | |
environment: "Package deployment" | |
needs: [test, test-package] | |
permissions: | |
# Required for trusted publishing | |
id-token: write | |
if: github.event_name == 'push' && startsWith(github.ref, 'refs/tags/') | |
steps: | |
- uses: actions/download-artifact@v4 | |
with: | |
name: dist | |
path: dist/ | |
- uses: pypa/gh-action-pypi-publish@release/v1 |