scorreard is testing the Canafian Biogenome Project pipeline #85
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| name: test CBP nextflow pipeline | |
| run-name: ${{ github.actor }} is testing the Canafian Biogenome Project pipeline | |
| on: [push] | |
| jobs: | |
| Explore-GitHub-Actions: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: install mamba | |
| run: | | |
| mkdir -p /workspace/ | |
| cd /workspace/ | |
| curl -L -O "https://github.com/conda-forge/miniforge/releases/latest/download/Mambaforge-$(uname)-$(uname -m).sh" | |
| bash Mambaforge-$(uname)-$(uname -m).sh -b -p /workspace/conda && rm Mambaforge-$(uname)-$(uname -m).sh | |
| /workspace/conda/bin/mamba init bash | |
| source ${HOME}/.bashrc | |
| - run: echo "🎉 The job was automatically triggered by a ${{ github.event_name }} event." | |
| - run: echo "🐧 This job is now running on a ${{ runner.os }} server hosted by GitHub!" | |
| - run: echo "🔎 The name of your branch is ${{ github.ref }} and your repository is ${{ github.repository }}." | |
| - name: List files in the repository | |
| run: | | |
| ls ${{ github.workspace }} | |
| - uses: actions/checkout@v3 | |
| - uses: nf-core/setup-nextflow@v1 | |
| - run: nextflow run bcgsc/Canadian_Biogenome_Project -latest -r V2 -profile conda | |
| - run: echo "🍏 This job's status is ${{ job.status }}." |