test conda #2
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| # This is a basic workflow to help you get started with Actions | ||
| name: CI-Linux | ||
| # 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 | ||
| # runs-on: ubuntu-20.04 | ||
| # Steps represent a sequence of tasks that will be executed as part of the job | ||
| steps: | ||
| - uses: actions/checkout@v4 | ||
| # set up conda | ||
| - name: Setup conda | ||
| uses: s-weigand/setup-conda@v1.0.5 | ||
| with: | ||
| python-version: '3.10' | ||
| - name: Install | ||
| # install dependencies | ||
| run: | | ||
| git clone --recurse-submodules https://github.com/zhangrengang/Centromics | ||
| cd Centromics | ||
| # install | ||
| conda env create -f Centromics.yaml | ||
| export PATH=/usr/share/miniconda/envs/RepCent/bin:$PATH | ||
| # conda activate RepCent | ||
| ./install.sh | ||
| - name: Test | ||
| run: | | ||
| ls -al | ||
| pwd | ||
| # - run: cd example_data && bash example.sh | ||
