added README; running only notebooks in CI #2
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| name: CI | |
| on: | |
| push: | |
| branches: [ main, develop, vb/deepforest ] | |
| pull_request: | |
| branches: [ main, develop ] | |
| jobs: | |
| ci: | |
| strategy: | |
| matrix: | |
| os: [ubuntu-latest] | |
| python: ["3.9"] | |
| fail-fast: false | |
| runs-on: ${{ matrix.os }} | |
| defaults: | |
| run: | |
| # Required when using an activated conda environment in steps | |
| # See https://github.com/conda-incubator/setup-miniconda#IMPORTANT | |
| shell: bash -l {0} | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - name: Upgrade setuptools | |
| run: | | |
| pip3 install wheel --upgrade | |
| pip3 install setuptools --upgrade | |
| - name: Set up conda | |
| uses: conda-incubator/setup-miniconda@v2 | |
| with: | |
| auto-update-conda: true | |
| auto-activate-base: false | |
| activate-environment: deepmap | |
| environment-file: environment.yml | |
| - name: Conda Info | |
| run: | | |
| conda info | |
| conda list | |
| - name: Cache large files | |
| run: | | |
| python -c "from deepmap.data.ondemand import get_all; get_all()" | |
| - name: Run all notebooks | |
| run: | | |
| jupyter nbconvert --to script *.ipynb --output-dir . | |
| for f in *.py; do python "$f"; done | |
| working-directory: ./notebooks |