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tidy fixed_nodes|links_exist #72

tidy fixed_nodes|links_exist

tidy fixed_nodes|links_exist #72

Workflow file for this run

name: Test
on:
- push
- pull_request
concurrency:
group: ${{ github.ref }}-${{ github.workflow }}
cancel-in-progress: true
jobs:
check-tag:
# Run on external PRs, but not on internal PRs, to avoid duplicate runs
if: |
github.event_name == 'push' ||
github.event.pull_request.head.repo.full_name != github.repository
runs-on: ubuntu-latest
outputs:
publish_url: ${{ steps.check-publish.outputs.publish_url }}
steps:
- name: Check if this is a release/prerelease
id: check-publish
run: |
tag_name="${GITHUB_REF#refs/tags/}"
if [[ "$tag_name" =~ ^v[0-9]+\.[0-9]+\.[0-9]+[ab][0-9]+$ ]]; then
publish_url="https://test.pypi.org/legacy/"
elif [[ "$tag_name" =~ ^v[0-9]+\.[0-9]+\.[0-9]+$ ]]; then
publish_url="https://upload.pypi.org/legacy/"
else
publish_url="none"
fi
echo "publish_url=$publish_url" >> "$GITHUB_OUTPUT"
echo "tag_name=$tag_name"
echo "publish_url=$publish_url"
build-sdist:
name: Build source distribution
needs: check-tag
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@v4
- name: Build sdist
run: pipx run build --sdist
- uses: actions/upload-artifact@v4
with:
name: build-sdist
path: ${{ github.workspace }}/dist/*.tar.gz
# Until GA has native aarch64 runners, this step is extremely
# slow so we run it as a separate job and hope if finishes
# around the same time as everything else.
build-aarch64:
needs: check-tag
name: Build aarch64 wheels on ${{ matrix.cibw-only }}
runs-on: ${{ matrix.os }}
strategy:
fail-fast: false
matrix:
include:
- cibw-only: "cp310-manylinux_aarch64"
os: "ubuntu-latest"
- cibw-only: "cp311-manylinux_aarch64"
os: "ubuntu-latest"
- cibw-only: "cp312-manylinux_aarch64"
os: "ubuntu-latest"
steps:
- uses: actions/checkout@v4
- name: Use Python 3.12
uses: actions/setup-python@v5
with:
python-version: '3.12'
# Needed to build aarch64 wheels
- name: Set up QEMU
if: runner.os == 'Linux'
uses: docker/setup-qemu-action@v3
with:
platforms: all
- name: Print build identifiers
run: |
python -m pip install cibuildwheel
python -m cibuildwheel --only ${{ matrix.cibw-only }} --print-build-identifiers
- name: Build wheels
if: ${{ startsWith(needs.check-tag.outputs.publish_url, 'http') }}
uses: pypa/[email protected]
with:
only: ${{ matrix.cibw-only }}
- uses: actions/upload-artifact@v4
with:
name: build-wheels-${{ matrix.os }}-${{ matrix.cibw-only }}
path: ${{ github.workspace }}/wheelhouse/*.whl
if-no-files-found: ignore
build-wheels:
name: Build wheels on ${{ matrix.cibw-only }}
needs: check-tag
runs-on: ${{ matrix.os }}
strategy:
fail-fast: false
matrix:
include:
# Linux x86_64
- cibw-only: "cp310-manylinux_x86_64"
os: "ubuntu-latest"
- cibw-only: "cp311-manylinux_x86_64"
os: "ubuntu-latest"
- cibw-only: "cp312-manylinux_x86_64"
os: "ubuntu-latest"
# Mac x86_64
- cibw-only: "cp310-macosx_x86_64"
os: "macos-13"
- cibw-only: "cp311-macosx_x86_64"
os: "macos-13"
- cibw-only: "cp312-macosx_x86_64"
os: "macos-13"
# Mac arm64
- cibw-only: "cp310-macosx_arm64"
os: "macos-14"
- cibw-only: "cp311-macosx_arm64"
os: "macos-14"
- cibw-only: "cp312-macosx_arm64"
os: "macos-14"
# Windows 64bit
- cibw-only: "cp310-win_amd64"
os: "windows-latest"
- cibw-only: "cp311-win_amd64"
os: "windows-latest"
- cibw-only: "cp312-win_amd64"
os: "windows-latest"
steps:
- uses: actions/checkout@v4
- name: Use Python 3.12
uses: actions/setup-python@v5
with:
python-version: '3.12'
- name: Print build identifiers
run: |
python -m pip install cibuildwheel
python -m cibuildwheel --only ${{ matrix.cibw-only }} --print-build-identifiers
- name: Install openmp
if: runner.os == 'macOS'
run: |
curl -O https://mac.r-project.org/openmp/openmp-13.0.0-darwin21-Release.tar.gz
sudo tar fvxz openmp-13.0.0-darwin21-Release.tar.gz -C /
- name: Build wheels
uses: pypa/[email protected]
with:
only: ${{ matrix.cibw-only }}
- uses: actions/upload-artifact@v4
with:
name: build-wheels-${{ matrix.os }}-${{ matrix.cibw-only }}
path: ${{ github.workspace }}/wheelhouse/*.whl
test-landlab:
needs: build-wheels
name: Run the tests
strategy:
fail-fast: false
matrix:
os: [ubuntu-latest, macos-latest, windows-latest]
python-version: ["3.10", "3.11", "3.12"]
pytest-marker: ["slow", "not slow"]
runs-on: ${{ matrix.os }}
defaults:
run:
shell: bash -l {0}
steps:
- uses: actions/checkout@v4
- uses: conda-incubator/setup-miniconda@v3
with:
python-version: ${{ matrix.python-version }}
miniforge-variant: Miniforge3
miniforge-version: latest
auto-update-conda: true
- uses: actions/download-artifact@v4
name: Download build artifacts
with:
pattern: "build-*"
merge-multiple: true
path: ${{ github.workspace }}/dist
- name: Test
env:
HYPOTHESIS_PROFILE: "ci"
MPLBACKEND: "Agg"
run: |
pip install nox
nox --verbose -s test \
--force-pythons=${{ matrix.python-version }} \
-- -m '${{ matrix.pytest-marker }}' --path=dist
- name: Coveralls
if: ${{ matrix.os == 'ubuntu-latest' }}
uses: AndreMiras/coveralls-python-action@develop
with:
parallel: true
flag-name: py${{ matrix.python-version }}-${{ matrix.os }}-${{ matrix.pytest-marker }}
debug: true
test-notebooks:
needs: build-wheels
name: Run the notebook tests
strategy:
fail-fast: false
matrix:
os: [macos-latest, windows-latest]
python-version: ["3.12"]
pytest-marker: ["slow", "not slow"]
runs-on: ${{ matrix.os }}
defaults:
run:
shell: bash -l {0}
steps:
- uses: actions/checkout@v4
- uses: conda-incubator/setup-miniconda@v3
with:
python-version: ${{ matrix.python-version }}
miniforge-variant: Miniforge3
miniforge-version: latest
auto-update-conda: true
- uses: actions/download-artifact@v4
name: Download build artifacts
with:
pattern: "build-*"
merge-multiple: true
path: ${{ github.workspace }}/dist
- name: Test
env:
OPENTOPOGRAPHY_API_KEY: ${{ secrets.OPENTOPOGRAPHY_API_KEY }}
MPLBACKEND: "module://matplotlib_inline.backend_inline"
PYTEST_ADDOPTS: "--overwrite"
run: |
pip install matplotlib_inline
pip install nox
nox --verbose -s test-notebooks \
--force-pythons=${{ matrix.python-version }} \
-- -m '${{ matrix.pytest-marker }}' --path=dist
- name: Find executed notebooks
run: |
for f in $(git diff --name-only); do
mkdir -p executed/$(dirname $f);
cp $f executed/$(dirname $f);
done
ls -R executed/
- name: Upload executed notebooks
if: ${{ matrix.os == 'macos-latest' }}
uses: actions/upload-artifact@v4
with:
name: notebooks-${{ matrix.os }}-${{ matrix.python-version }}-${{ matrix.pytest-marker }}
path: executed/
overwrite: true
docs:
needs: test-notebooks
strategy:
matrix:
os: [macos-latest]
python-version: ["3.12"]
runs-on: ${{ matrix.os }}
defaults:
run:
shell: bash -l {0}
steps:
- uses: actions/checkout@v4
- uses: conda-incubator/setup-miniconda@v3
with:
python-version: ${{ matrix.python-version }}
miniforge-variant: Miniforge3
miniforge-version: latest
auto-update-conda: true
- uses: actions/download-artifact@v4
name: Download build artifact
with:
pattern: notebooks-*
merge-multiple: true
- name: Display structure of downloaded files
run: ls -R
- name: install and check pandoc
run: |
conda install pandoc -c conda-forge
pandoc --help
pandoc --version
- name: Build documentation
run: |
pip install nox
pip install -r requirements/docs.txt
nox -s docs-build --no-venv
- name: Create zip
run: zip -r docs.zip build/html
- name: Upload docs
uses: actions/upload-artifact@v4
with:
name: docs-${{ matrix.os }}-${{ matrix.python-version }}
path: docs.zip
coveralls_finish:
needs: test-landlab
runs-on: ubuntu-latest
steps:
- name: Coveralls Finished
uses: AndreMiras/coveralls-python-action@develop
with:
parallel-finished: true
debug: true
publish:
needs:
- check-tag
- test-landlab
- test-notebooks
- build-sdist
- build-aarch64
name: "Publish to PyPI/TestPyPI"
runs-on: ubuntu-latest
permissions:
id-token: write
steps:
- uses: actions/download-artifact@v4
with:
pattern: "build-*"
merge-multiple: true
path: ${{ github.workspace }}/dist
- uses: pypa/gh-action-pypi-publish@release/v1
if: ${{ startsWith(needs.check-tag.outputs.publish_url, 'http') }}
with:
repository-url: ${{ needs.check-tag.outputs.publish_url }}
skip-existing: true
print-hash: true
verify-metadata: false