Update table of contents to match headings #29
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| name: Fetch and compile MAG workflow documentation | |
| on: | |
| push: { branches: [ main ] } | |
| workflow_dispatch: { } | |
| # Allow this workflow to be called by other workflows. | |
| # Reference: https://docs.github.com/en/actions/using-workflows/reusing-workflows | |
| workflow_call: { } | |
| jobs: | |
| compile: | |
| name: Compile | |
| runs-on: ubuntu-latest | |
| steps: | |
| # Docs: https://github.com/actions/checkout | |
| - name: Check out commit | |
| uses: actions/checkout@v4 | |
| # Note: The default branch of the `metaMAGs` repository is named "master" | |
| - name: Check out commit from `metaMAGs/master` | |
| uses: actions/checkout@v4 | |
| with: | |
| # Notes: | |
| # - `repository` format is: "{owner_name}/{repo_name}" | |
| # - The default branch of the `metaMAGs` repository is named "master" | |
| repository: microbiomedata/metaMAGs # format is "{owner_name}/{repo_name}" | |
| ref: master | |
| sparse-checkout: | | |
| docs | |
| path: _clones/microbiomedata/metaMAGs # where, locally, to create the clone | |
| # Docs: https://github.com/actions/setup-python | |
| - name: Set up Python | |
| uses: actions/setup-python@v5 | |
| with: { python-version: '3.12' } | |
| - name: Install dependencies of `metaMAGs` docs | |
| run: python -m pip install sphinx sphinx_rtd_theme | |
| # Docs: https://www.sphinx-doc.org/en/master/man/sphinx-build.html | |
| # | |
| # Notes: | |
| # - We use the "spinx_rtd_theme" because that's what the legacy "workflow_documentation" repo uses. | |
| # - The `--define` option overrides the corresponding parameter in the `conf.py` file. | |
| # - The `--builder` option is an alias for the `-b` option. | |
| # | |
| - name: Compile source documents into HTML | |
| working-directory: _clones/microbiomedata/metaMAGs | |
| run: sphinx-build --define html_theme='sphinx_rtd_theme' --builder html docs ${{ github.workspace }}/_dist | |
| # Upload the result as an "artifact" so it can then be downloaded and used by another job. | |
| - name: Save the HTML for publishing later # Docs: https://github.com/actions/upload-artifact | |
| uses: actions/upload-artifact@v4 | |
| with: | |
| name: mag-workflow-documentation-as-html | |
| # Note: Relative `path` values here are relative to the _workspace_, not to the current working directory. | |
| # Reference: https://github.com/actions/upload-artifact/pull/477#issue-2044900649 | |
| path: _dist | |
| if-no-files-found: error | |
| retention-days: 1 # Note: 1 day is the shortest period possible |