nf-core AWS test #2
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| name: nf-core AWS test | |
| # This workflow can be triggered manually with the GitHub actions workflow dispatch button. | |
| # It runs the -profile 'test' on AWS batch | |
| on: | |
| workflow_dispatch: | |
| jobs: | |
| run-platform: | |
| name: Run AWS tests | |
| if: github.repository == 'nf-core/methylseq' | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| aligner: ["bismark", "bismark_hisat", "bwameth"] | |
| steps: | |
| # Launch workflow using Seqera Platform CLI tool action | |
| - name: Launch workflow via Seqera Platform | |
| uses: seqeralabs/action-tower-launch@v2 | |
| with: | |
| workspace_id: ${{ secrets.TOWER_WORKSPACE_ID }} | |
| access_token: ${{ secrets.TOWER_ACCESS_TOKEN }} | |
| compute_env: ${{ secrets.TOWER_COMPUTE_ENV }} | |
| revision: ${{ github.sha }} | |
| workdir: s3://${{ secrets.AWS_S3_BUCKET }}/work/methylseq/work-${{ github.sha }} | |
| parameters: | | |
| { | |
| "aligner": "${{ matrix.aligner }}", | |
| "outdir": "s3://${{ secrets.AWS_S3_BUCKET }}/methylseq/results-test-${{ github.sha }}/${{matrix.aligner}}" | |
| } | |
| profiles: test | |
| - uses: actions/upload-artifact@v4 | |
| with: | |
| name: Seqera Platform debug log file | |
| path: | | |
| seqera_platform_action_*.log | |
| seqera_platform_action_*.json |