Add NWBZarrIO.read_nwb convenience function #934
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name: Run tests | |
on: | |
push: | |
branches: | |
- dev | |
tags-ignore: # exclude tags created by "ci_addons publish_github_release" | |
- 'latest' | |
- 'latest-tmp' | |
pull_request: | |
jobs: | |
run-tests: | |
name: ${{ matrix.name }} | |
runs-on: ${{ matrix.os }} | |
defaults: | |
run: | |
shell: bash | |
strategy: | |
fail-fast: false | |
matrix: | |
include: | |
- { name: linux-python3.8-minimum , test-tox-env: py38-minimum , build-tox-env: build-py38-minimum , python-ver: "3.8" , os: ubuntu-latest } | |
- { name: linux-python3.12 , test-tox-env: py312 , build-tox-env: build-py312 , python-ver: "3.12", os: ubuntu-latest } | |
# NOTE config below with "upload-wheels: true" specifies that wheels should be uploaded as an artifact | |
- { name: linux-python3.12-upgraded , test-tox-env: py312-upgraded , build-tox-env: build-py312-upgraded , python-ver: "3.12", os: ubuntu-latest , upload-wheels: true } | |
- { name: windows-python3.8-minimum , test-tox-env: py38-minimum , build-tox-env: build-py38-minimum , python-ver: "3.8" , os: windows-latest } | |
- { name: windows-python3.12-upgraded , test-tox-env: py312-upgraded , build-tox-env: build-py312-upgraded , python-ver: "3.12", os: windows-latest } | |
- { name: macos-python3.8-minimum , test-tox-env: py38-minimum , build-tox-env: build-py38-minimum , python-ver: "3.8" , os: macos-latest } | |
- { name: macos-python3.12-upgraded , test-tox-env: py312-upgraded , build-tox-env: build-py312-upgraded , python-ver: "3.12", os: macos-latest } | |
steps: | |
- name: Cancel non-latest runs | |
uses: styfle/[email protected] | |
with: | |
all_but_latest: true | |
access_token: ${{ github.token }} | |
- uses: actions/checkout@v4 | |
with: | |
submodules: 'recursive' | |
fetch-depth: 0 # tags are required for versioneer to determine the version | |
- name: Set up Python | |
uses: actions/setup-python@v5 | |
with: | |
python-version: ${{ matrix.python-ver }} | |
- name: Install build dependencies | |
run: | | |
python -m pip install --upgrade pip | |
python -m pip install tox | |
python -m pip list | |
- name: Run tox tests | |
run: | | |
tox -e ${{ matrix.test-tox-env }} | |
- name: Build wheel and source distribution | |
run: | | |
tox -e ${{ matrix.build-tox-env }} | |
ls -1 dist | |
- name: Test installation from a wheel | |
run: | | |
tox -e wheelinstall --recreate --installpkg dist/*-none-any.whl | |
- name: Upload distribution as a workspace artifact | |
if: ${{ matrix.upload-wheels }} | |
uses: actions/upload-artifact@v4 | |
with: | |
name: distributions | |
path: dist | |
run-gallery-tests: | |
name: ${{ matrix.name }} | |
runs-on: ${{ matrix.os }} | |
defaults: | |
run: | |
shell: bash | |
strategy: | |
fail-fast: false | |
matrix: | |
include: | |
- { name: linux-gallery-python3.8-minimum , test-tox-env: gallery-py38-minimum , python-ver: "3.8" , os: ubuntu-latest } | |
- { name: linux-gallery-python3.12-upgraded , test-tox-env: gallery-py312-upgraded, python-ver: "3.12", os: ubuntu-latest } | |
- { name: windows-gallery-python3.8-minimum , test-tox-env: gallery-py38-minimum , python-ver: "3.8" , os: windows-latest } | |
- { name: windows-gallery-python3.12-upgraded, test-tox-env: gallery-py312-upgraded, python-ver: "3.12", os: windows-latest } | |
steps: | |
- name: Cancel non-latest runs | |
uses: styfle/[email protected] | |
with: | |
all_but_latest: true | |
access_token: ${{ github.token }} | |
- uses: actions/checkout@v4 | |
with: | |
submodules: 'recursive' | |
- name: Set up Python | |
uses: actions/setup-python@v5 | |
with: | |
python-version: ${{ matrix.python-ver }} | |
- name: Install build dependencies | |
run: | | |
python -m pip install --upgrade pip | |
python -m pip install tox | |
python -m pip list | |
- name: Run tox tests | |
run: | | |
tox -e ${{ matrix.test-tox-env }} | |
run-tests-on-conda: | |
name: ${{ matrix.name }} | |
runs-on: ubuntu-latest | |
defaults: | |
run: | |
shell: bash -l {0} | |
strategy: | |
fail-fast: false | |
matrix: | |
include: | |
- { name: conda-linux-python3.8-minimum , test-tox-env: py38-minimum , build-tox-env: build-py38-minimum , python-ver: "3.8" , os: ubuntu-latest } | |
- { name: conda-linux-python3.12-upgraded , test-tox-env: py312-upgraded , build-tox-env: build-py312-upgraded , python-ver: "3.12", os: ubuntu-latest } | |
steps: | |
- name: Cancel non-latest runs | |
uses: styfle/[email protected] | |
with: | |
all_but_latest: true | |
access_token: ${{ github.token }} | |
- uses: actions/checkout@v4 | |
with: | |
submodules: 'recursive' | |
fetch-depth: 0 # tags are required for versioneer to determine the version | |
- name: Set up Conda | |
uses: conda-incubator/setup-miniconda@v2 | |
with: | |
auto-update-conda: true | |
auto-activate-base: true | |
activate-environment: true | |
python-version: ${{ matrix.python-ver }} | |
- name: Install build dependencies | |
run: | | |
conda config --set always_yes yes --set changeps1 no | |
conda info | |
conda install -c conda-forge tox | |
conda list | |
- name: Run tox tests | |
run: | | |
tox -e ${{ matrix.test-tox-env }} | |
- name: Build wheel and source distribution | |
run: | | |
tox -e ${{ matrix.build-tox-env }} | |
ls -1 dist | |
- name: Test installation from a wheel | |
run: | | |
tox -e wheelinstall --recreate --installpkg dist/*-none-any.whl | |
deploy-dev: | |
name: Deploy pre-release from dev | |
needs: [run-tests, run-gallery-tests, run-tests-on-conda] | |
if: ${{ github.event_name == 'push' }} | |
runs-on: ubuntu-latest | |
steps: | |
- name: Cancel non-latest runs | |
uses: styfle/[email protected] | |
with: | |
all_but_latest: true | |
access_token: ${{ github.token }} | |
- name: Checkout repo with submodules | |
uses: actions/checkout@v4 | |
with: | |
submodules: 'recursive' | |
- name: Set up Python | |
uses: actions/setup-python@v5 | |
with: | |
python-version: '3.11' | |
- name: Download wheel and source distributions from artifact | |
uses: actions/download-artifact@v4 | |
with: | |
name: distributions | |
path: dist | |
- name: Publish wheel and source distributions as a GitHub release | |
run: | | |
python -m pip install --upgrade pip | |
python -m pip install scikit-ci-addons | |
ci_addons publish_github_release hdmf-dev/hdmf-zarr \ | |
--prerelease-packages "dist/*" \ | |
--prerelease-sha $GITHUB_SHA \ | |
--prerelease-packages-clear-pattern "*" \ | |
--prerelease-packages-keep-pattern "*dev<COMMIT_DISTANCE>*" \ | |
--token ${{ secrets.BOT_GITHUB_TOKEN }} \ | |
--re-upload |