fix bug; support Proteinortho6 #11
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| # This is a basic workflow to help you get started with Actions | |
| name: CI | |
| # Controls when the action will run. Triggers the workflow on push or pull request | |
| # events but only for the master branch | |
| on: | |
| push: | |
| branches: [ master ] | |
| pull_request: | |
| branches: [ master ] | |
| # A workflow run is made up of one or more jobs that can run sequentially or in parallel | |
| jobs: | |
| # This workflow contains a single job called "build" | |
| build: | |
| # The type of runner that the job will run on | |
| runs-on: ubuntu-latest | |
| # Steps represent a sequence of tasks that will be executed as part of the job | |
| steps: | |
| - name: Install dependencies | |
| # set up conda | |
| uses: s-weigand/[email protected] | |
| # with: | |
| # conda-channels: bioconda | |
| - uses: actions/checkout@v2 | |
| # install dependencies | |
| - run: conda env create -f OrthoIndex.yaml | |
| # - name: activate | |
| # run: conda init bash | |
| # - run: cat /home/runner/.bashrc | |
| - run: conda env list | |
| - run: export PATH=/usr/share/miniconda/envs/OrthoIndex/bin:$PATH | |
| # - run: . "/usr/share/miniconda/etc/profile.d/conda.sh" | |
| - run: ls -al /usr/share/miniconda/envs/OrthoIndex/bin | |
| - run: which python | |
| # - run: conda activate SubPhaser | |
| - name: Install OrthoIndex | |
| # Checks-out your repository under $GITHUB_WORKSPACE, so your job can access it | |
| run: export PATH=/usr/share/miniconda/envs/OrthoIndex/bin:$PATH && python setup.py install | |
| # - name: run test | |
| # run test | |
| # run: cd example_data | |
| - run: ls -al | |
| - run: pwd | |
| - run: cd example_data && export PATH=/usr/share/miniconda/envs/OrthoIndex/bin:$PATH && bash example.sh | |