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Merge pull request #323 from nf-core/nf-core-template-merge-3.0.2
Important! Template update for nf-core/tools v3.0.2
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,8 +1,14 @@ | ||
| name: full-sized tests on cloud providers | ||
| 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: | ||
| release: | ||
| types: [published] | ||
| pull_request: | ||
| branches: | ||
| - master | ||
| pull_request_review: | ||
| types: [submitted] | ||
| workflow_dispatch: | ||
| inputs: | ||
| platform: | ||
|
|
@@ -17,13 +23,27 @@ on: | |
| - gcp | ||
| jobs: | ||
| run-full-tests-on-aws: | ||
| if: ${{ github.event.inputs.platform == 'all' || github.event.inputs.platform == 'aws' || !github.event.inputs }} | ||
| name: Run AWS full tests | ||
| if: ${{ github.event.inputs.platform == 'all' || github.event.inputs.platform == 'aws' || !github.event.inputs }} || github.repository == 'nf-core/fetchngs' && github.event.review.state == 'approved' && github.event.pull_request.base.ref == 'master' || github.event_name == 'workflow_dispatch' | ||
| runs-on: ubuntu-latest | ||
| strategy: | ||
| matrix: | ||
| download_method: ["aspera", "ftp", "sratools"] | ||
| steps: | ||
| - uses: seqeralabs/action-tower-launch@v2 | ||
| - uses: octokit/[email protected] | ||
| id: check_approvals | ||
| with: | ||
| route: GET /repos/${{ 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 }} | ||
|
|
@@ -44,13 +64,27 @@ jobs: | |
| path: tower_action_*.log | ||
|
|
||
| run-full-tests-on-azure: | ||
| if: ${{ github.event.inputs.platform == 'all' || github.event.inputs.platform == 'azure' || !github.event.inputs }} | ||
| name: Run Azure full tests | ||
| if: ${{ github.event.inputs.platform == 'all' || github.event.inputs.platform == 'azure' || !github.event.inputs }} || github.repository == 'nf-core/fetchngs' && github.event.review.state == 'approved' && github.event.pull_request.base.ref == 'master' || github.event_name == 'workflow_dispatch' | ||
| runs-on: ubuntu-latest | ||
| strategy: | ||
| matrix: | ||
| download_method: ["aspera", "ftp", "sratools"] | ||
| steps: | ||
| - uses: seqeralabs/action-tower-launch@v2 | ||
| - uses: octokit/[email protected] | ||
| id: check_approvals | ||
| with: | ||
| route: GET /repos/${{ 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 }} | ||
|
|
@@ -71,13 +105,27 @@ jobs: | |
| path: tower_action_*.log | ||
|
|
||
| run-full-tests-on-gcp: | ||
| if: ${{ github.event.inputs.platform == 'gcp' || !github.event.inputs }} | ||
| name: Run GCP full tests | ||
| if: ${{ github.event.inputs.platform == 'gcp' || !github.event.inputs }} || github.repository == 'nf-core/fetchngs' && github.event.review.state == 'approved' && github.event.pull_request.base.ref == 'master' || github.event_name == 'workflow_dispatch' | ||
| runs-on: ubuntu-latest | ||
| strategy: | ||
| matrix: | ||
| download_method: ["aspera", "ftp", "sratools"] | ||
| steps: | ||
| - uses: seqeralabs/action-tower-launch@v2 | ||
| - uses: octokit/[email protected] | ||
| id: check_approvals | ||
| with: | ||
| route: GET /repos/${{ 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 }} | ||
|
|
||
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