run nipype.spm path init from a temp dir in order to avoid writing py… #1
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| # This is a basic workflow to help you get started with Actions | |
| name: tests | |
| # Controls when the workflow will run | |
| on: | |
| # Triggers the workflow on push or pull request events but only for the master branch | |
| push: | |
| branches: [ master ] | |
| pull_request: | |
| branches: [ master ] | |
| # Allows you to run this workflow manually from the Actions tab | |
| workflow_dispatch: | |
| # A workflow run is made up of one or more jobs that can run sequentially or in parallel | |
| jobs: | |
| tests: | |
| # The type of runner that the job will run on | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| os: [ubuntu-latest, macos-latest, windows-latest] | |
| # Run in all these versions of Python | |
| python-version: ["3.9", "3.10", "3.11"] | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - name: "Set up Python ${{ matrix.python-version }}" | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: "${{ matrix.python-version }}" | |
| - name: "Install dependencies" | |
| run: | | |
| python -m pip install --upgrade pip | |
| pip install numpy | |
| pip install six>=1.13 | |
| pip install traits | |
| pip install python-dateutil | |
| pip install nipype | |
| pip install git+https://github.com/populse/soma-base.git | |
| pip install git+https://github.com/populse/soma-workflow.git | |
| pip install git+https://github.com/populse/populse_db.git | |
| python setup.py install | |
| - name: "Run tests" | |
| run: | | |
| python -m capsul.test | |
| documentation: | |
| # The type of runner that the job will run on | |
| runs-on: ubuntu-latest | |
| steps: | |
| # Checks-out your repository under $GITHUB_WORKSPACE, so your job can access it | |
| - uses: actions/checkout@v3 | |
| - name: "Set up Python 3.9" | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: "3.9" | |
| - name: "Install Python dependencies" | |
| run: | | |
| pip3 install setuptools | |
| pip3 install numpy 'six>=1.13' 'argparse' 'traits>=4.0' 'populse-db>=2.2' 'PyYAML' 'PyQt5' # 'soma-base>=5.1' 'soma-workflow>=3.3' | |
| # for docs only | |
| sudo apt-get install -y pandoc graphviz | |
| pip install sphinx sphinx-gallery pandoc nbsphinx ipykernel | |
| python -m ipykernel install --user --name python3 | |
| # while soma-base 5.1 is not in pip yet | |
| pushd .. | |
| git clone https://github.com/populse/soma-base.git | |
| cd soma-base | |
| python setup.py install | |
| popd | |
| # while soma-workflow 3.3 is not in pip yet | |
| pushd .. | |
| git clone https://github.com/populse/soma-workflow.git | |
| cd soma-workflow | |
| python setup.py install | |
| popd | |
| - name: "Build Sphinx Doc" | |
| run: | | |
| export PYTHONPATH=$PWD | |
| export CAPSUL_SOURCE_DIR=$PWD | |
| cd doc | |
| export SOMABASE_INTERSPHINX_URL=https://populse.github.io/soma-base | |
| export SOMAWORKFLOW_INTERSPHINX_URL=http://populse.github.io/soma-workflow | |
| export QT_API=pyqt5 | |
| python -m sphinx -b html source build/html | |
| touch build/html/.nojekyll | |
| cd .. | |
| - name: "Deploy Github Pages" | |
| uses: JamesIves/[email protected] | |
| with: | |
| # GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| BRANCH: gh-pages | |
| FOLDER: doc/build/html/ |