build-and-deploy #72
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| name: build-and-deploy | |
| on: | |
| schedule: | |
| - cron: '0 18 * * *' | |
| push: | |
| branches: | |
| - main | |
| workflow_dispatch: | |
| permissions: | |
| contents: read | |
| pages: write | |
| id-token: write | |
| jobs: | |
| build-and-deploy: | |
| environment: | |
| name: github-pages | |
| url: ${{ steps.deployment.outputs.page_url }} | |
| defaults: | |
| run: | |
| shell: bash -el {0} | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Checkout | |
| uses: actions/checkout@v4 | |
| - name: Install stable toolchain | |
| uses: actions-rs/toolchain@v1 | |
| with: | |
| toolchain: stable | |
| - name: Install alignoth | |
| run: cargo install alignoth | |
| - name: Checkout alignoth repo | |
| uses: actions/checkout@v4 | |
| with: | |
| repository: alignoth/alignoth | |
| path: alignoth | |
| - name: Build preview html | |
| run: alignoth -b alignoth/tests/sample_3/NA12878.bam -r alignoth/tests/sample_3/ref.fa -g 1:250-500 --html --max-read-depth 40 > src/preview.html | |
| - name: locosopa | |
| uses: koesterlab/locosopa@main | |
| with: | |
| config: src/config.yaml | |
| path: build |