Avoid overwrite existing files error with BUSCO when resuming
#81
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: Testing hybrid / docker from PR | |
| on: | |
| pull_request: | |
| branches: [master, dev] | |
| types: [opened, synchronize, reopened] | |
| jobs: | |
| run_nextflow: | |
| name: Run pipeline for the upcoming PR | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Check out pipeline code | |
| uses: actions/checkout@v2 | |
| - name: Install Nextflow | |
| env: | |
| CAPSULE_LOG: none | |
| run: | | |
| wget -qO- get.nextflow.io | bash | |
| sudo mv nextflow /usr/local/bin/ | |
| - name: Clean environment | |
| run: | | |
| sudo rm -rf /usr/local/lib/android # will release about 10 GB if you don't need Android | |
| sudo rm -rf /usr/share/dotnet # will release about 20GB if you don't need .NET | |
| - name: Run tests for hybrid | |
| run: | | |
| nextflow run main.nf -profile docker,test,hybrid,pacbio --skip_haslr | |
| rm -r work .nextflow* | |
| - name: View results | |
| run: | | |
| sudo apt-get install -y tree | |
| tree hybrid_test_pacbio |