test centos x2 #204
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| name: BLOOM CentOS | |
| on: | |
| push: | |
| branches: | |
| - 'main' | |
| tags: | |
| - '*' | |
| pull_request: | |
| branches: | |
| - '**' | |
| jobs: | |
| centos9-job: | |
| runs-on: ubuntu-latest # We use the default GitHub runner to start a Docker container | |
| steps: | |
| - name: Check out repository | |
| uses: actions/checkout@v4 | |
| - name: Set up Docker | |
| uses: docker/setup-buildx-action@v2 | |
| - name: Build and run CentOS 9 compatible container | |
| run: | | |
| docker run --name rocky9-container -d rockylinux:9 sleep infinity | |
| docker exec rocky9-container yum install -y python3 python3-pip wget | |
| docker exec rocky9-container python3 -m pip install --upgrade pip | |
| # Create a user named 'bloom' and switch to this user | |
| docker exec rocky9-container useradd -m bloom | |
| # Install Miniconda for user 'bloom' | |
| docker exec rocky9-container su - bloom -c "wget https://repo.anaconda.com/miniconda/Miniconda3-latest-Linux-x86_64.sh -O /tmp/miniconda.sh" | |
| docker exec rocky9-container su - bloom -c "bash /tmp/miniconda.sh -b -p /home/bloom/miniconda" | |
| docker exec rocky9-container su - bloom -c "echo 'export PATH=/home/bloom/miniconda/bin:$PATH' >> /home/bloom/.bashrc" | |
| docker exec rocky9-container su - bloom -c "/home/bloom/miniconda/bin/conda init" | |
| # Source the conda script and create conda environment | |
| docker exec rocky9-container su - bloom -c "source /home/bloom/.bashrc && conda create -n BLOOM2 python=3.12.0 pip -y" | |
| # Copy repository content to container | |
| docker cp . rocky9-container:/home/bloom/workspace | |
| docker exec rocky9-container chown -R bloom:bloom /home/bloom/workspace | |
| # Run the setup script and tests | |
| docker exec rocky9-container su - bloom -c "cd /home/bloom/workspace && source /home/bloom/.bashrc && source bloom_lims/env/install_postgres.sh && pytest" | |
| - name: Clean up Docker container | |
| run: docker rm -f rocky9-container |