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test.yml
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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: ["3.9", "3.10", "3.11", "3.12", "3.13", "3.13t"]
architecture: ['x86', 'x64', 'arm64']
dependencies: ['full', 'pre']
include:
# Basic dependencies only
- os: ubuntu-latest
python-version: "3.9"
architecture: 'x64'
dependencies: 'none'
# Absolute minimum dependencies
- os: ubuntu-latest
python-version: "3.9"
architecture: 'x64'
dependencies: 'min'
exclude:
# Use ubuntu-latest to cover the whole range of Python. For Windows
# and OSX, checking oldest and newest should be sufficient.
- os: windows-latest
python-version: "3.10"
- os: windows-latest
python-version: "3.11"
- os: windows-latest
python-version: "3.12"
- os: macos-13
python-version: "3.10"
- os: macos-13
python-version: "3.11"
- os: macos-13
python-version: "3.12"
- os: macos-latest
python-version: "3.10"
- os: macos-latest
python-version: "3.11"
- os: macos-latest
python-version: "3.12"
## Unavailable architectures
# x86 is available for Windows
- os: ubuntu-latest
architecture: x86
- os: macos-latest
architecture: x86
- os: macos-13
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
## Reduced support
# Drop pre tests for macos-13
- os: macos-13
dependencies: pre
# Drop pre tests for SPEC-0-unsupported Python versions
- python-version: '3.9'
dependencies: pre
- python-version: '3.10'
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: Install the latest version of uv
uses: astral-sh/setup-uv@v4
- name: Set up Python ${{ matrix.python-version }}
if: "!endsWith(matrix.python-version, 't')"
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, 't')
run: |
uv python install ${IMPL}-${VERSION}-${OS%-*}-${ARCH}-${LIBC}
env:
IMPL: cpython
VERSION: ${{ matrix.python-version }}
# uv expects linux|macos|windows, we can drop the -* but need to rename ubuntu
OS: ${{ matrix.os == 'ubuntu-latest' && 'linux' || matrix.os }}
# uv expects x86, x86_64, aarch64 (among others)
ARCH: ${{ matrix.architecture == 'x64' && 'x86_64' || \
matrix.architecture == 'arm64' && 'aarch64' || \
matrix.architecture }}
# windows and macos have no options, gnu is the only option for the archs
LIBC: ${{ matrix.os == 'ubuntu-latest' && 'gnu' || 'none' }}
- name: Display Python version
run: python -c "import sys; print(sys.version)"
- name: Install tox
run: |
uv tool install tox --with=git+https://github.com/effigies/tox-gh-actions@abiflags --with=tox-uv
env:
UV_PYTHON: ${{ matrix.python-version }}
- name: Show tox config
run: tox c
- name: Run tox
run: tox -vv --exit-and-dump-after 1200
- uses: codecov/codecov-action@v5
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