MACS3 v3.0.2 #12
Workflow file for this run
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| # This workflows will upload a Python Package using Twine when a release is created | |
| # For more information see: https://help.github.com/en/actions/language-and-framework-guides/using-python-with-github-actions#publishing-to-package-registries | |
| name: MACS3 Publish to Anaconda/macs3 | |
| on: | |
| workflow_dispatch: | |
| release: | |
| types: [published] | |
| jobs: | |
| deploy: | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| python-version: ['3.11'] | |
| arch: ['x64'] | |
| name: Build conda package in x64 under Python ${{ matrix.python-version }} | |
| steps: | |
| - name: Check out MACS3 with submodules | |
| uses: actions/checkout@v4 | |
| with: | |
| submodules: 'true' | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Add conda to system path | |
| run: | | |
| # $CONDA is an environment variable pointing to the root of the miniconda directory | |
| echo $CONDA/bin >> $GITHUB_PATH | |
| - name: Install conda dependencies | |
| run: | | |
| conda config --set always_yes yes --set changeps1 no | |
| # need conda-build/verify to test building conda package | |
| conda install -q conda-build | |
| conda install -q conda-verify | |
| conda update -q conda | |
| # Useful for debugging any issues with conda | |
| conda info -a | |
| # configure the channels | |
| conda config --add channels defaults | |
| conda config --add channels conda-forge | |
| conda config --add channels macs3 | |
| conda install -q mamba -c conda-forge | |
| - name: Build conda package | |
| run: | | |
| mkdir bld-dir | |
| conda build -q conda/macs3 --output-folder bld-dir | |
| - name: Test installing conda package | |
| run: | | |
| # Now add this folder as a highest priority channel | |
| conda config --add channels "file://`pwd`/bld-dir" | |
| # install MACS3 from local repo | |
| mamba create -q -n MACS3 macs3 | |
| # Activate this environment | |
| source /usr/share/miniconda/etc/profile.d/conda.sh | |
| conda activate MACS3 | |
| # list conda env packages for reference | |
| conda list | |
| - name: Test installed MACS3 package (cmdline) | |
| run: | | |
| source /usr/share/miniconda/etc/profile.d/conda.sh | |
| conda activate MACS3 | |
| conda install -q pytest | |
| pytest --runxfail | |
| cd test | |
| ./cmdlinetest macs3 | |
| cd .. | |
| - name: Publish | |
| env: | |
| ANACONDA_API_TOKEN: ${{ secrets.ANACONDA_TOKEN }} | |
| run: | | |
| mamba install anaconda-client | |
| anaconda upload bld-dir/**/macs3-*.tar.bz2 | |