mrbayes.yml

name: mrbayes

on: [push]
jobs:
  build:
    runs-on: ubuntu-latest
    strategy:
      fail-fast: false
      matrix:
        python-version: ["3.10"]
    steps:
    - uses: actions/checkout@v3
    - name: Install poetry
      run: pipx install poetry
    - name: Install dependencies for Python ${{ matrix.python-version }}
      uses: actions/setup-python@v3
      with:
        python-version: ${{ matrix.python-version }}
        cache: 'poetry'
    - run: poetry install
    - name: Testing
      run: |
        poetry run teiphy -t reconstructed -t defective -t orthographic -m overlap -m lac -s"*" -s T --fill-correctors --no-labels --mrbayes --clock strict example/ubs_ephesians.xml mrbayes_strict_example.nexus
        poetry run teiphy -t reconstructed -t defective -t orthographic -m overlap -m lac -s"*" -s T --fill-correctors --no-labels --mrbayes --clock uncorrelated example/ubs_ephesians.xml mrbayes_uncorrelated_example.nexus
    - name: Install Phylogenetics Package
      run: |
        git clone --depth 1 https://github.com/NBISweden/MrBayes.git
        cd MrBayes
        ./configure
        make && sudo make install
    - name: Phylogenetics Run
      run: |
        mb mrbayes_strict_example.nexus
        mb mrbayes_uncorrelated_example.nexus