escape regex special chars in guess_prefix. Resolves #411 (#412) #7
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| name: CI | |
| on: | |
| push: | |
| branches: [ master ] | |
| pull_request: | |
| branches: [ master ] | |
| jobs: | |
| build: | |
| runs-on: ubuntu-latest | |
| defaults: | |
| run: | |
| shell: bash -el {0} | |
| steps: | |
| - name: Pull code | |
| uses: actions/checkout@v5 | |
| - name: Setup conda | |
| uses: conda-incubator/setup-miniconda@v3 | |
| with: | |
| environment-file: environment.yml | |
| # python-version: 3.11 | |
| miniforge-version: latest | |
| channels: conda-forge,bioconda | |
| channel-priority: strict | |
| activate-environment: snippy | |
| auto-update-conda: true | |
| - name: Set PATH | |
| run: | | |
| echo "$GITHUB_WORKSPACE/bin" >> $GITHUB_PATH | |
| - name: Perl setup | |
| run: | | |
| conda info | |
| which snippy | |
| which perl | |
| perl -V | |
| find $CONDA_PREFIX -name SeaIO.pm | |
| - name: Basic tests | |
| run: | | |
| snippy --version | |
| snippy --check | |
| snippy-core --version | |
| snippy-core --check | |
| - name: Big test | |
| run: make -C test |