Add CI to build mulled containers with Wave #43
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| name: Build containers | |
| # When environment.yml is changed | |
| on: | |
| pull_request: | |
| paths: | |
| - "**/Dockerfile" | |
| - "**/environment.yml" | |
| env: | |
| WAVE_VER: "1.1.0" | |
| jobs: | |
| gen-matrix: | |
| name: generate-matrix | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Checkout | |
| uses: actions/checkout@v3 | |
| - name: Calculate file differences | |
| id: diff | |
| uses: tj-actions/changed-files@v35 | |
| with: | |
| json: true | |
| quotepath: false | |
| # TODO Add Dockerfiles | |
| files: | | |
| modules/**/environment.yml | |
| - name: Debug | |
| run: echo ${{ steps.diff.outputs.all_changed_files }} | |
| - id: set-matrix | |
| run: echo "matrix={\"profile\":[\"docker\", \"singularity\"],\"files\":${{ steps.diff.outputs.all_changed_files }} }" >> "$GITHUB_OUTPUT" | |
| outputs: | |
| matrix: ${{ steps.set-matrix.outputs.matrix }} | |
| build: | |
| if: "${{ fromJson(needs.gen-matrix.outputs.matrix) }}" | |
| needs: gen-matrix | |
| name: build | |
| runs-on: ubuntu-latest | |
| timeout-minutes: 60 | |
| strategy: | |
| fail-fast: false | |
| matrix: "${{ fromJson(needs.gen-matrix.outputs.matrix) }}" | |
| steps: | |
| # Use the @nf-core-bot token to check out so we can push later | |
| - uses: actions/checkout@v3 | |
| - name: Install wave-cli | |
| run: | | |
| wget -q https://github.com/seqeralabs/wave-cli/releases/download/v${WAVE_VER}/wave-${WAVE_VER}-linux-x86_64 | |
| sudo mv wave-${WAVE_VER}-linux-x86_64 /usr/local/bin/wave | |
| chmod +x /usr/local/bin/wave | |
| - name: Build container | |
| if: matrix.profile == 'docker' | |
| run: | | |
| wave --conda-file "${{ matrix.files }}" \ | |
| --freeze \ | |
| --await \ | |
| --build-repo quay.io/nf-core/modules/bowtie \ | |
| --tower-token ${{ secrets.TOWER_ACCESS_TOKEN }} \ | |
| --tower-workspace-id ${{ secrets.TOWER_WORKSPACE_ID }} | |
| - name: Build Singularity | |
| if: matrix.profile == 'singularity' | |
| run: | | |
| wave --conda-file "${{ matrix.files }}" \ | |
| --freeze \ | |
| --await \ | |
| --build-repo quay.io/nf-core/modules/bowtie \ | |
| --tower-token ${{ secrets.TOWER_ACCESS_TOKEN }} \ | |
| --tower-workspace-id ${{ secrets.TOWER_WORKSPACE_ID }} \ | |
| --singularity | |
| # TODO Build from Dockerfiles |