fix if clause #2
Workflow file for this run
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| name: Clone and Upload to S3 | ||
| on: | ||
| schedule: | ||
| # Runs at 00:00 UTC every Sunday | ||
| # - cron: '0 0 * * 0' # TODO: Uncomment this after testing | ||
| workflow_dispatch: | ||
| inputs: | ||
| pipeline: | ||
| description: 'Pipeline to backup' | ||
| required: true | ||
| default: 'all' | ||
| jobs: | ||
| get-pipelines: | ||
| runs-on: "ubuntu-latest" | ||
| outputs: | ||
| matrix: ${{ steps.set-matrix.outputs.matrix }} | ||
| steps: | ||
| - id: set-matrix | ||
| run: | | ||
| matrix=$(curl https://nf-co.re/pipeline_names.json) | ||
| if [ -n "${{ inputs.pipeline }}" ] && [ "${{ inputs.pipeline }}" != "all" ]; then | ||
| matrix=$(echo $matrix | jq --arg pipeline "${{ inputs.pipeline }}" '[.[] | select(.name == $pipeline)]') | ||
| fi | ||
| echo "matrix=${matrix}" >> $GITHUB_OUTPUT | ||
| backup: | ||
| needs: get-pipelines | ||
| runs-on: ubuntu-latest | ||
| strategy: | ||
| matrix: ${{fromJson(needs.get-pipelines.outputs.matrix)}} | ||
| fail-fast: false | ||
| env: | ||
| TARBALL_FILENAME: ${{ matrix.pipeline }}_$(date +%Y-%m-%d_%H-%M).tar.gz | ||
| steps: | ||
| - name: Clone the repository | ||
| run: git clone --mirror https://github.com/nf-core/${{ matrix.pipeline }}.git | ||
| - name: Make a tarball | ||
| run: tar czf $TARBALL_FILENAME ${{ matrix.pipeline }}.git | ||
| - name: setup aws cli | ||
| uses: aws-actions/configure-aws-credentials@v1 | ||
| with: | ||
| role-to-assume: ${{ secrets.AWS_BACKUP_ROLE }} | ||
| aws-region: eu-west-1 | ||
| - name: Upload repository to S3 | ||
| run: | | ||
| aws s3 cp $TARBALL_FILENAME s3express://nf-core-repos-backup--euw1-az1--x-s3/$TARBALL_FILENAME | ||
