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doc: add fulcrum genomics branding to README (#63)
* doc: add fulcrum genomics branding to README * ci: pin GitHub Actions to full-length commit SHAs Required by fg-labs org policy: all actions must be pinned to a full-length commit SHA rather than a tag.
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‎.github/logos/fulcrumgenomics-dark.svg‎

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‎.github/logos/fulcrumgenomics-light.svg‎

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‎.github/workflows/integration-tests.yml‎

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SNAKEMAKE_VERSION: ["8.30.0", "9.14.0"]
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steps:
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- name: Checkout
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uses: actions/checkout@v4
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uses: actions/checkout@34e114876b0b11c390a56381ad16ebd13914f8d5 # v4
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- name: Install uv
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uses: astral-sh/setup-uv@v7
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uses: astral-sh/setup-uv@37802adc94f370d6bfd71619e3f0bf239e1f3b78 # v7
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with:
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version: "${{ env.UV_VERSION }}"
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python-version: "${{ matrix.PYTHON_VERSION }}"

‎.github/workflows/publish-logger-plugin.yml‎

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- name: git config --global remote.origin.followRemoteHEAD never
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run: git config --global remote.origin.followRemoteHEAD never
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- uses: actions/checkout@v4
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- uses: actions/checkout@34e114876b0b11c390a56381ad16ebd13914f8d5 # v4
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with:
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fetch-depth: 0
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- uses: rickstaa/action-contains-tag@v1
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- uses: rickstaa/action-contains-tag@a9ff27d505ba2bf074a2ebb48b208e76d35ff308 # v1
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id: contains_tag
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with:
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reference: "main"
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matrix:
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PYTHON_VERSION: ["3.11", "3.12", "3.13"]
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steps:
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- uses: actions/checkout@v4
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- uses: actions/checkout@34e114876b0b11c390a56381ad16ebd13914f8d5 # v4
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- name: Install uv
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uses: astral-sh/setup-uv@v7
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uses: astral-sh/setup-uv@37802adc94f370d6bfd71619e3f0bf239e1f3b78 # v7
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with:
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version: "${{ env.UV_VERSION }}"
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python-version: "${{ matrix.PYTHON_VERSION }}"
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needs: tests
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runs-on: ubuntu-latest
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steps:
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- uses: actions/checkout@v4
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- uses: actions/checkout@34e114876b0b11c390a56381ad16ebd13914f8d5 # v4
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with:
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fetch-depth: 0
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- name: Install uv
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uses: astral-sh/setup-uv@v7
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uses: astral-sh/setup-uv@37802adc94f370d6bfd71619e3f0bf239e1f3b78 # v7
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with:
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version: "${{ env.UV_VERSION }}"
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python-version: "3.12"
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working-directory: snakemake-logger-plugin-snakesee
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run: uv build --sdist
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- uses: actions/upload-artifact@v4
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- uses: actions/upload-artifact@ea165f8d65b6e75b540449e92b4886f43607fa02 # v4
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with:
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name: logger-plugin-sdist
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path: snakemake-logger-plugin-snakesee/dist/*.tar.gz
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permissions:
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id-token: write
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steps:
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- uses: actions/download-artifact@v4
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- uses: actions/download-artifact@d3f86a106a0bac45b974a628896c90dbdf5c8093 # v4
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with:
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path: packages
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pattern: 'logger-plugin-*'
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merge-multiple: true
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- uses: pypa/gh-action-pypi-publish@release/v1
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- uses: pypa/gh-action-pypi-publish@cef221092ed1bacb1cc03d23a2d87d1d172e277b # release/v1
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with:
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packages-dir: packages/
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skip-existing: true
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needs: publish-to-pypi
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steps:
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- name: Create GitHub Release
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uses: softprops/action-gh-release@v2
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uses: softprops/action-gh-release@153bb8e04406b158c6c84fc1615b65b24149a1fe # v2
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with:
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name: "snakemake-logger-plugin-snakesee ${{ github.ref_name }}"
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body: |

‎.github/workflows/publish.yml‎

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- name: git config --global remote.origin.followRemoteHEAD never
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run: git config --global remote.origin.followRemoteHEAD never
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- uses: actions/checkout@v4
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- uses: actions/checkout@34e114876b0b11c390a56381ad16ebd13914f8d5 # v4
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with:
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fetch-depth: 0
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- uses: rickstaa/action-contains-tag@v1
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- uses: rickstaa/action-contains-tag@a9ff27d505ba2bf074a2ebb48b208e76d35ff308 # v1
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id: contains_tag
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with:
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reference: "main"
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needs: tests
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runs-on: ubuntu-latest
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steps:
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- uses: actions/checkout@v4
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- uses: actions/checkout@34e114876b0b11c390a56381ad16ebd13914f8d5 # v4
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with:
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fetch-depth: 0
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- name: Install uv
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uses: astral-sh/setup-uv@v7
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uses: astral-sh/setup-uv@37802adc94f370d6bfd71619e3f0bf239e1f3b78 # v7
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with:
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version: "${{ env.UV_VERSION }}"
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python-version: "3.12"
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- name: Build package
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run: uv build --sdist
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- uses: actions/upload-artifact@v4
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- uses: actions/upload-artifact@ea165f8d65b6e75b540449e92b4886f43607fa02 # v4
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with:
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name: snakesee-sdist
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path: dist/*.tar.gz
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permissions:
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id-token: write
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steps:
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- uses: actions/download-artifact@v4
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- uses: actions/download-artifact@d3f86a106a0bac45b974a628896c90dbdf5c8093 # v4
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with:
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path: packages
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pattern: 'snakesee-*'
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merge-multiple: true
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- uses: pypa/gh-action-pypi-publish@release/v1
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- uses: pypa/gh-action-pypi-publish@cef221092ed1bacb1cc03d23a2d87d1d172e277b # release/v1
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with:
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packages-dir: packages/
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skip-existing: true
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release_body: ${{ steps.git-cliff.outputs.content }}
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steps:
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- name: Checkout the Repository at the Tagged Commit
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uses: actions/checkout@v4
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uses: actions/checkout@34e114876b0b11c390a56381ad16ebd13914f8d5 # v4
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with:
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fetch-depth: 0
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ref: ${{ github.ref_name }}
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- name: Generate a Changelog
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uses: orhun/git-cliff-action@v4
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uses: orhun/git-cliff-action@c93ef52f3d0ddcdcc9bd5447d98d458a11cd4f72 # v4
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id: git-cliff
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with:
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config: pyproject.toml
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needs: make-changelog
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steps:
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- name: Download the sdist
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uses: actions/download-artifact@v4
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uses: actions/download-artifact@d3f86a106a0bac45b974a628896c90dbdf5c8093 # v4
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- name: Create GitHub Release
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id: create_release
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uses: softprops/action-gh-release@v2
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uses: softprops/action-gh-release@153bb8e04406b158c6c84fc1615b65b24149a1fe # v2
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with:
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name: ${{ github.ref_name }}
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body: ${{ needs.make-changelog.outputs.release_body }}

‎.github/workflows/tests.yml‎

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PYTHON_VERSION: ["3.11", "3.12", "3.13"]
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steps:
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- name: Checkout
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uses: actions/checkout@v4
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uses: actions/checkout@34e114876b0b11c390a56381ad16ebd13914f8d5 # v4
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- name: Install uv
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uses: astral-sh/setup-uv@v7
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uses: astral-sh/setup-uv@37802adc94f370d6bfd71619e3f0bf239e1f3b78 # v7
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with:
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version: "${{ env.UV_VERSION }}"
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python-version: "${{ matrix.PYTHON_VERSION }}"
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uv run poe build-docs
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- name: Upload code coverage
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uses: codecov/codecov-action@v5
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uses: codecov/codecov-action@75cd11691c0faa626561e295848008c8a7dddffe # v5
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with:
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token: ${{ secrets.CODECOV_TOKEN }}
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slug: nh13/snakesee

‎README.md‎

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snakesee provides a rich TUI dashboard for passively monitoring Snakemake workflows. It reads directly from the `.snakemake/` directory, requiring no special flags or configuration when running Snakemake.
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<p>
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<a href="https://fulcrumgenomics.com">
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<picture>
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<source media="(prefers-color-scheme: dark)" srcset=".github/logos/fulcrumgenomics-dark.svg">
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<source media="(prefers-color-scheme: light)" srcset=".github/logos/fulcrumgenomics-light.svg">
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<img alt="Fulcrum Genomics" src=".github/logos/fulcrumgenomics-light.svg" height="100">
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</picture>
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</a>
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</p>
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[Visit us at Fulcrum Genomics](https://www.fulcrumgenomics.com) to learn more about how we can power your Bioinformatics with snakesee and beyond.
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<a href="mailto:contact@fulcrumgenomics.com?subject=[GitHub inquiry]"><img src="https://img.shields.io/badge/Email_us-%2338b44a.svg?&style=for-the-badge&logo=gmail&logoColor=white"/></a>
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<a href="https://www.fulcrumgenomics.com"><img src="https://img.shields.io/badge/Visit_Us-%2326a8e0.svg?&style=for-the-badge&logo=wordpress&logoColor=white"/></a>
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## Features
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- **Zero configuration** - Works on any existing workflow without modification

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