ENH: Add GP estimation notebook #210
Workflow file for this run
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| name: Unit and integration tests | |
| on: | |
| push: | |
| branches: | |
| - main | |
| - maint/* | |
| pull_request: | |
| branches: | |
| - main | |
| - maint/* | |
| # 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 | |
| TEST_DATA_HOME: /home/runner/eddymotion-tests/ | |
| ITK_GLOBAL_DEFAULT_NUMBER_OF_THREADS: 4 | |
| ANTSPATH: /usr/share/miniconda/bin/ | |
| concurrency: | |
| group: ${{ github.workflow }}-${{ github.ref }} | |
| cancel-in-progress: true | |
| permissions: | |
| contents: read | |
| jobs: | |
| stable: | |
| # Unit tests only on Linux/Python 3.12 | |
| runs-on: 'ubuntu-latest' | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| submodules: recursive | |
| fetch-depth: 0 | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: '3.12' | |
| - name: Install ANTs | |
| run: | | |
| conda install -c conda-forge ants=2.5 | |
| - name: Install datalad | |
| run: | | |
| python -m pip install datalad-installer | |
| datalad-installer --sudo ok git-annex | |
| python -m pip install datalad datalad-osf | |
| datalad wtf | |
| - uses: actions/cache/restore@v4 | |
| with: | |
| path: /home/runner/eddymotion-tests/ | |
| key: data-v0 | |
| - name: Get test data with DataLad | |
| run: | | |
| if [[ ! -d "${TEST_DATA_HOME}" ]]; then | |
| datalad install -rg --source=https://gin.g-node.org/nipreps-data/tests-eddymotion.git ${TEST_DATA_HOME} | |
| else | |
| cd ${TEST_DATA_HOME} | |
| datalad update --merge -r . | |
| datalad get -r -J4 * | |
| fi | |
| - uses: actions/cache/save@v4 | |
| with: | |
| path: /home/runner/eddymotion-tests/ | |
| key: data-v0 | |
| - name: Install tox | |
| run: | | |
| python -m pip install --upgrade pip | |
| python -m pip install tox tox-gh-actions | |
| - name: Show tox config | |
| run: tox c | |
| - name: Run tox | |
| run: | | |
| export PATH=$ANTSPATH:$PATH | |
| tox -v --exit-and-dump-after 1200 | |
| - uses: codecov/codecov-action@v4 | |
| if: ${{ always() }} | |
| with: | |
| files: cov.xml | |
| token: ${{ secrets.CODECOV_TOKEN }} |