DOC: polish up tutorial #49
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| # Based on | |
| # https://github.com/fedarko/strainFlye/blob/main/.github/workflows/main.yml, | |
| # which was in turn "[based] roughly on the main.yml and standalone.yml | |
| # workflows in | |
| # https://github.com/biocore/empress/blob/master/.github/workflows/, | |
| # and on https://docs.github.com/en/actions/quickstart". It's copy-and-paste | |
| # all the way down baybee | |
| name: wotplot CI | |
| on: [push, pull_request] | |
| jobs: | |
| build: | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| python-version: ["3.6", "3.7", "3.8", "3.9", "3.10", "3.11"] | |
| steps: | |
| # Updating from v2 to v3 to match, as of writing, | |
| # https://docs.github.com/en/actions/automating-builds-and-tests/building-and-testing-python | |
| - name: Check out code | |
| uses: actions/checkout@v3 | |
| # Set up a conda env using mamba (which is much faster than conda). | |
| # We can use "create-args" to adjust the python version; based on | |
| # https://github.com/mamba-org/setup-micromamba/issues/51#issue-1688507017 | |
| - name: Install conda dependencies | |
| uses: mamba-org/setup-micromamba@v1 | |
| with: | |
| environment-file: environment.yml | |
| create-args: python=${{ matrix.python-version }} | |
| init-shell: bash | |
| # We've gotta use "bash -el {0}" in order to actually use the shell that | |
| # has the environment activated. I am not 100% clear on why this is the | |
| # case (I'm just following what github.com/mamba-org/setup-micromamba | |
| # says), but if you take out the "-el {0}" part and just say | |
| # "shell: bash" here then all of this stuff doesn't run in the conda | |
| # environment we just created. | |
| - name: Sanity check echo python version | |
| run: python --version | |
| shell: bash -el {0} | |
| - name: Sanity check echo python location | |
| run: which python | |
| shell: bash -el {0} | |
| - name: Sanity check echo pip version | |
| run: pip --version | |
| shell: bash -el {0} | |
| - name: Sanity check echo pip location | |
| run: which pip | |
| shell: bash -el {0} | |
| - name: Install wotplot and pip dependencies | |
| run: pip install -e .[dev] | |
| shell: bash -el {0} | |
| - name: Lint and stylecheck | |
| run: make stylecheck | |
| shell: bash -el {0} | |
| - name: Run tests | |
| run: make test | |
| shell: bash -el {0} | |
| - name: Upload code coverage information to Codecov | |
| uses: codecov/codecov-action@v2 |