Merge pull request #40 from seqan/dependabot/github_actions/actions/c… #36
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| name: Deploy Pages | |
| on: | |
| push: | |
| branches: | |
| - 'main' | |
| workflow_dispatch: | |
| permissions: | |
| contents: read | |
| pages: write | |
| id-token: write | |
| concurrency: | |
| group: paged-${{ github.ref }} | |
| cancel-in-progress: false | |
| defaults: | |
| run: | |
| shell: bash -el {0} | |
| jobs: | |
| build: | |
| runs-on: ubuntu-latest | |
| if: github.repository_owner == 'seqan' | |
| steps: | |
| - name: Checkout | |
| uses: actions/checkout@v5 | |
| - name: Setup conda | |
| uses: conda-incubator/setup-miniconda@v3 | |
| with: | |
| activate-environment: snakemake | |
| auto-activate-base: false | |
| auto-update-conda: false | |
| channels: conda-forge | |
| channel-priority: strict | |
| environment-file: workflow/envs/snakemake.yml | |
| miniforge-version: latest | |
| use-mamba: true | |
| - name: Extract data | |
| run: | | |
| mkdir -p ${{ github.workspace }}/results/raw_data | |
| tar xf ${{ github.workspace }}/.github/data/data.tar.zst -C ${{ github.workspace }}/results/raw_data | |
| - name: Run snakemake | |
| run: snakemake --use-conda --cores $(nproc) | |
| - name: Upload artifact | |
| uses: actions/upload-pages-artifact@v4 | |
| with: | |
| path: './results/html' | |
| deploy: | |
| needs: build | |
| environment: | |
| name: github-pages | |
| url: ${{ steps.deployment.outputs.page_url }} | |
| runs-on: ubuntu-22.04 | |
| steps: | |
| - name: Deploy to GitHub Pages | |
| id: deployment | |
| uses: actions/deploy-pages@v4 |