Submitting workflow to all cloud providers using full sized data #7
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| name: full-sized tests on cloud providers | |
| run-name: Submitting workflow to all cloud providers using full sized data | |
| on: | |
| release: | |
| types: [published] | |
| workflow_dispatch: | |
| inputs: | |
| test: | |
| description: "Test profile (smaller)" | |
| type: boolean | |
| default: true | |
| test_full: | |
| description: "Full sized test" | |
| type: boolean | |
| default: false | |
| aws: | |
| description: "AWS Batch" | |
| type: boolean | |
| default: true | |
| azure: | |
| description: "Azure Batch" | |
| type: boolean | |
| default: true | |
| aspera: | |
| description: "Use Aspera to download" | |
| type: boolean | |
| default: true | |
| ftp: | |
| description: "Use FTP to download" | |
| type: boolean | |
| default: true | |
| sratools: | |
| description: "Use SRA tools to download" | |
| type: boolean | |
| default: true | |
| jobs: | |
| run-tests: | |
| if: ${{ github.repository == 'nf-core/fetchngs' }} | |
| runs-on: ubuntu-latest | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| profile: | |
| - test | |
| - test_full | |
| method: | |
| - aspera | |
| - ftp | |
| - sratools | |
| include: | |
| - cloud: aws | |
| compute_env: TOWER_COMPUTE_ENV | |
| workdir: TOWER_BUCKET_AWS | |
| - cloud: azure | |
| compute_env: TOWER_CE_AZURE_CPU | |
| workdir: TOWER_BUCKET_AZURE | |
| - cloud: aws | |
| compute_env: TOWER_COMPUTE_ENV | |
| workdir: TOWER_BUCKET_AWS | |
| - cloud: azure | |
| compute_env: TOWER_CE_AZURE_CPU | |
| workdir: TOWER_BUCKET_AZURE | |
| steps: | |
| - name: Launch | |
| uses: seqeralabs/action-tower-launch@v2 | |
| # If inputs item contains the enabled profile (test or test_full) | |
| # If inputs item contains the cloud provider (aws or azure) | |
| # If is false, we negate and run the job | |
| if: ( !contains(inputs[matrix.profile], 'false') && !contains(inputs[matrix.cloud], 'false') ) | |
| with: | |
| run_name: "fetchngs_${{ matrix.profile }}_${{ matrix.method }}-${{ matrix.cloud}}" | |
| profiles: ${{ matrix.profile }} | |
| revision: ${{ github.sha }} | |
| workspace_id: ${{ secrets.TOWER_WORKSPACE_ID }} | |
| compute_env: ${{ secrets[matrix.compute_env] }} | |
| workdir: ${{ secrets[matrix.workdir] }}/work/fetchngs/work-${{ github.sha }}/${{ matrix.profile }} | |
| parameters: | | |
| { | |
| "hook_url": "${{ secrets.MEGATESTS_ALERTS_SLACK_HOOK_URL }}", | |
| "outdir": "${{ secrets[matrix.workdir] }}/fetchngs/results-${{ github.sha }}/${{ matrix.profile }}/" | |
| } | |
| access_token: ${{ secrets.TOWER_ACCESS_TOKEN }} | |
| - uses: actions/upload-artifact@v3 | |
| name: Save Logs | |
| if: success() || failure() | |
| with: | |
| name: tower-${{ matrix.profile }}-${{ matrix.cloud }}-${{ matrix.method }}-log | |
| path: | | |
| tower_action_*.log | |
| tower_action_*.json |