adding bandage as the default tool for sequence alignment #11
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| #name: test_package | |
| # | |
| #on: | |
| # push: | |
| # branches: [ master ] | |
| # pull_request: | |
| # branches: [ master ] | |
| # | |
| #jobs: | |
| # build: | |
| # runs-on: "ubuntu-latest" | |
| # steps: | |
| # - uses: actions/checkout@v2 | |
| # - name: "Install Conda environment with Micromamba" | |
| # uses: mamba-org/provision-with-micromamba@main | |
| # with: | |
| # environment-file: conda_env.yaml | |
| # environment-name: sarand | |
| # cache-env: true | |
| # - name: "Install bandage 0.9.0" | |
| # shell: bash -l {0} | |
| # run: wget https://github.com/rrwick/Bandage/releases/download/v0.9.0/Bandage_Ubuntu-x86-64_v0.9.0_AppDir.zip && unzip Bandage_Ubuntu-x86-64_v0.9.0_AppDir.zip && cp Bandage_Ubuntu-x86-64_v0.9.0/usr/bin/bandage Bandage_Ubuntu-x86-64_v0.9.0/usr/bin/Bandage | |
| # - name: "Install sarand" | |
| # shell: bash -l {0} | |
| # run: pip install . | |
| # - name: "Run test" | |
| # shell: bash -l {0} | |
| # run: echo "$GITHUB_WORKSPACE/Bandage_Ubuntu-x86-64_v0.9.0/usr/bin:$GITHUB_PATH" > $GITHUB_PATH && bash test/test.sh |