ENH: Serialize+parallelize 4D apply() into 3D+t and add 'low memory' loading
#436
Workflow file for this run
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| # This workflow will install Python dependencies, run tests and lint with a variety of Python versions | |
| # For more information see: https://help.github.com/actions/language-and-framework-guides/using-python-with-github-actions | |
| name: Python package | |
| on: | |
| push: | |
| branches: [ '*' ] | |
| tags: [ '*' ] | |
| pull_request: | |
| branches: [ master, 'maint/*' ] | |
| jobs: | |
| build: | |
| if: "!contains(github.event.head_commit.message, '[skip ci]')" | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| python-version: ['3.8', '3.9', '3.10', '3.11', '3.12'] | |
| steps: | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - uses: actions/checkout@v3 | |
| with: | |
| fetch-depth: 0 | |
| - name: Build package | |
| run: | | |
| pipx run build | |
| - name: Determine expected version | |
| run: | | |
| python -m venv /tmp/getversion | |
| source /tmp/getversion/bin/activate | |
| python -m pip install setuptools_scm | |
| # Interpolate version | |
| if [[ "$GITHUB_REF" == refs/tags/* ]]; then | |
| TAG=${GITHUB_REF##*/} | |
| fi | |
| THISVERSION=$( python -m setuptools_scm ) | |
| THISVERSION=${TAG:-$THISVERSION} | |
| echo "Expected VERSION: \"${THISVERSION}\"" | |
| echo "THISVERSION=${THISVERSION}" >> ${GITHUB_ENV} | |
| - name: Install in confined environment [sdist] | |
| run: | | |
| python -m venv /tmp/install_sdist | |
| source /tmp/install_sdist/bin/activate | |
| python -m pip install --upgrade pip | |
| python -m pip install dist/nitransforms*.tar.gz | |
| INSTALLED_VERSION=$(python -c 'import nitransforms; print(nitransforms.__version__, end="")') | |
| echo "VERSION: \"${THISVERSION}\"" | |
| echo "INSTALLED: \"${INSTALLED_VERSION}\"" | |
| test "${INSTALLED_VERSION}" = "${THISVERSION}" | |
| - name: Install in confined environment [wheel] | |
| run: | | |
| python -m venv /tmp/install_wheel | |
| source /tmp/install_wheel/bin/activate | |
| python -m pip install --upgrade pip | |
| python -m pip install dist/nitransforms*.whl | |
| INSTALLED_VERSION=$(python -c 'import nitransforms; print(nitransforms.__version__, end="")') | |
| echo "INSTALLED: \"${INSTALLED_VERSION}\"" | |
| test "${INSTALLED_VERSION}" = "${THISVERSION}" | |
| - name: Install in confined environment [pip install .] | |
| run: | | |
| python -m venv /tmp/setup_install | |
| source /tmp/setup_install/bin/activate | |
| python -m pip install --upgrade pip wheel | |
| python -m pip install . | |
| INSTALLED_VERSION=$(python -c 'import nitransforms; print(nitransforms.__version__, end="")') | |
| echo "INSTALLED: \"${INSTALLED_VERSION}\"" | |
| test "${INSTALLED_VERSION}" = "${THISVERSION}" | |
| - name: Install in confined environment [pip install -e .] | |
| run: | | |
| python -m venv /tmp/setup_develop | |
| source /tmp/setup_develop/bin/activate | |
| python -m pip install pip | |
| python -m pip install --upgrade pip wheel | |
| python -m pip install -e . | |
| INSTALLED_VERSION=$(python -c 'import nitransforms; print(nitransforms.__version__, end="")') | |
| echo "INSTALLED: \"${INSTALLED_VERSION}\"" | |
| test "${INSTALLED_VERSION}" = "${THISVERSION}" | |
| flake8: | |
| if: "!contains(github.event.head_commit.message, '[skip ci]')" | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - name: Set up Python 3 | |
| uses: actions/setup-python@v4 | |
| - run: pipx run flake8 nitransforms |