Merge pull request #45 from zavolanlab/aleksei/strand_tags_and_isoforms #99
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| name: CI | |
| on: | |
| push: | |
| pull_request: | |
| jobs: | |
| build: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Checkout repo | |
| uses: actions/checkout@v4 | |
| - name: Set up Miniconda | |
| uses: conda-incubator/setup-miniconda@v3 | |
| with: | |
| auto-update-conda: true | |
| activate-environment: nanopore | |
| environment-file: environment.yml | |
| auto-activate-base: false | |
| - name: Verify environment | |
| shell: bash -l {0} | |
| run: | | |
| conda info --envs | |
| which python | |
| python - << 'EOF' | |
| import pandas, scipy, seaborn, sklearn | |
| import pysam, HTSeq, pod5 | |
| print("All imports OK") | |
| EOF | |
| - name: Verify bio tools | |
| shell: bash -l {0} | |
| run: | | |
| samtools --version | |
| bedtools --version |