Submitting workflow to all cloud providers using full sized data #20
Workflow file for this run
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| name: nf-core cloud full size tests | |
| # This workflow is triggered on PRs opened against the master branch. | |
| # It can be additionally triggered manually with GitHub actions workflow dispatch button. | |
| # It runs the -profile 'test_full' on Cloud | |
| run-name: Submitting workflow to all cloud providers using full sized data | |
| on: | |
| pull_request: | |
| branches: | |
| - master | |
| pull_request_review: | |
| types: [submitted] | |
| workflow_dispatch: | |
| inputs: | |
| platform: | |
| description: "Platform to run test" | |
| required: true | |
| default: "all" | |
| type: choice | |
| options: | |
| - all | |
| - aws | |
| - azure | |
| - gcp | |
| jobs: | |
| run-full-tests-on-aws: | |
| name: Run AWS full tests | |
| if: ${{ github.event.inputs.platform == 'all' || github.event.inputs.platform == 'aws' || !github.event.inputs }} | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| download_method: ["aspera", "ftp", "sratools"] | |
| steps: | |
| - uses: octokit/request-action@v2.x | |
| id: check_approvals | |
| with: | |
| route: GET /repos/${{ github.repository }}/pulls/${{ github.event.pull_request.number }}/reviews | |
| env: | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| - id: test_variables | |
| if: github.event_name != 'workflow_dispatch' | |
| run: | | |
| JSON_RESPONSE='${{ steps.check_approvals.outputs.data }}' | |
| CURRENT_APPROVALS_COUNT=$(echo $JSON_RESPONSE | jq -c '[.[] | select(.state | contains("APPROVED")) ] | length') | |
| test $CURRENT_APPROVALS_COUNT -ge 2 || exit 1 # At least 2 approvals are required | |
| - 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: ${{ secrets.TOWER_CE_AWS_CPU }} | |
| workdir: "${{ secrets.TOWER_BUCKET_AWS }}/work/fetchngs/work-${{ github.sha }}" | |
| run_name: "aws_fetchngs_full_${{ matrix.download_method }}" | |
| revision: ${{ github.sha }} | |
| profiles: test_full | |
| parameters: | | |
| { | |
| "hook_url": "${{ secrets.MEGATESTS_ALERTS_SLACK_HOOK_URL }}", | |
| "download_method": "${{ matrix.download_method }}", | |
| "outdir": "${{ secrets.TOWER_BUCKET_AWS }}/fetchngs/results-${{ github.sha }}/download_method_${{ matrix.download_method }}/" | |
| } | |
| - uses: actions/upload-artifact@v3 | |
| with: | |
| name: Tower debug log file | |
| path: tower_action_*.log | |
| run-full-tests-on-azure: | |
| name: Run Azure full tests | |
| if: ${{ github.event.inputs.platform == 'all' || github.event.inputs.platform == 'azure' || !github.event.inputs }} | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| download_method: ["aspera", "ftp", "sratools"] | |
| steps: | |
| - uses: octokit/request-action@v2.x | |
| id: check_approvals | |
| with: | |
| route: GET /repos/${{ github.repository }}/pulls/${{ github.event.pull_request.number }}/reviews | |
| env: | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| - id: test_variables | |
| if: github.event_name != 'workflow_dispatch' | |
| run: | | |
| JSON_RESPONSE='${{ steps.check_approvals.outputs.data }}' | |
| CURRENT_APPROVALS_COUNT=$(echo $JSON_RESPONSE | jq -c '[.[] | select(.state | contains("APPROVED")) ] | length') | |
| test $CURRENT_APPROVALS_COUNT -ge 2 || exit 1 # At least 2 approvals are required | |
| - 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: ${{ secrets.TOWER_CE_AZURE_CPU }} | |
| workdir: "${{ secrets.TOWER_BUCKET_AZURE }}/work/fetchngs/work-${{ github.sha }}" | |
| run_name: "azure_fetchngs_full_${{ matrix.download_method }}" | |
| revision: ${{ github.sha }} | |
| profiles: test_full | |
| parameters: | | |
| { | |
| "hook_url": "${{ secrets.MEGATESTS_ALERTS_SLACK_HOOK_URL }}", | |
| "download_method": "${{ matrix.download_method }}", | |
| "outdir": "${{ secrets.TOWER_BUCKET_AZURE }}/fetchngs/results-${{ github.sha }}/download_method_${{ matrix.download_method }}/" | |
| } | |
| - uses: actions/upload-artifact@v3 | |
| with: | |
| name: Tower debug log file | |
| path: tower_action_*.log | |
| run-full-tests-on-gcp: | |
| name: Run GCP full tests | |
| if: ${{ github.event.inputs.platform == 'gcp' || !github.event.inputs }} | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| download_method: ["aspera", "ftp", "sratools"] | |
| steps: | |
| - uses: octokit/request-action@v2.x | |
| id: check_approvals | |
| with: | |
| route: GET /repos/${{ github.repository }}/pulls/${{ github.event.pull_request.number }}/reviews | |
| env: | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| - id: test_variables | |
| if: github.event_name != 'workflow_dispatch' | |
| run: | | |
| JSON_RESPONSE='${{ steps.check_approvals.outputs.data }}' | |
| CURRENT_APPROVALS_COUNT=$(echo $JSON_RESPONSE | jq -c '[.[] | select(.state | contains("APPROVED")) ] | length') | |
| test $CURRENT_APPROVALS_COUNT -ge 2 || exit 1 # At least 2 approvals are required | |
| - 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: ${{ secrets.TOWER_CE_GCP_CPU }} | |
| workdir: "${{ secrets.TOWER_BUCKET_GCP }}/work/fetchngs/work-${{ github.sha }}" | |
| run_name: "gcp_fetchngs_full_${{ matrix.download_method }}" | |
| revision: ${{ github.sha }} | |
| profiles: test_full | |
| parameters: | | |
| { | |
| "hook_url": "${{ secrets.MEGATESTS_ALERTS_SLACK_HOOK_URL }}", | |
| "download_method": "${{ matrix.download_method }}", | |
| "outdir": "${{ secrets.TOWER_BUCKET_GCP }}/fetchngs/results-${{ github.sha }}/download_method_${{ matrix.download_method }}/" | |
| } | |
| - uses: actions/upload-artifact@v3 | |
| with: | |
| name: Tower debug log file | |
| path: tower_action_*.log |