new analyze.cc file #305
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| name: ubuntu-ci | |
| on: | |
| schedule: | |
| # Every Monday at 3 am | |
| - cron: '0 3 * * 1' | |
| push: | |
| pull_request: | |
| branches: [ master ] | |
| jobs: | |
| build: | |
| strategy: | |
| matrix: | |
| os: [ubuntu-20.04] | |
| runs-on: ${{ matrix.os }} | |
| timeout-minutes: 20 | |
| steps: | |
| - name: Checkout HIV_malawi repository | |
| uses: actions/checkout@v2 | |
| - name: Install BioDynaMo dependencies | |
| run: | | |
| sudo apt-get update | |
| sudo apt-get install -y libopenmpi-dev libomp5 libomp-dev libnuma-dev freeglut3-dev \ | |
| libreadline-dev libsqlite3-dev tk-dev python-openssl ninja-build | |
| curl -L -O https://github.com/Kitware/CMake/releases/download/v3.19.3/cmake-3.19.3-Linux-x86_64.sh | |
| chmod +x cmake-3.19.3-Linux-x86_64.sh | |
| sudo ./cmake-3.19.3-Linux-x86_64.sh --skip-license --prefix=/usr/local | |
| - name: Install BioDynaMo | |
| run: | | |
| if [ ! -f "$HOME/.pyenv/bin/pyenv" ]; then | |
| curl https://pyenv.run | bash | |
| fi | |
| export PATH="$HOME/.pyenv/bin:$PATH" | |
| eval "$(pyenv init --path)" | |
| eval "$(pyenv init -)" | |
| PYTHON_CONFIGURE_OPTS="--enable-shared" pyenv install 3.9.1 | |
| pyenv shell 3.9.1 | |
| cd .. | |
| git clone https://github.com/BioDynaMo/biodynamo.git | |
| cd biodynamo | |
| cmake -G Ninja \ | |
| -Dparaview=off \ | |
| -DCMAKE_BUILD_TYPE=Release \ | |
| -B build | |
| cmake --build build --parallel --config Release | |
| - name: Build hiv_malawi and run small simulation; an execute unit tests | |
| run: | | |
| sed -i 's/uint64_t number_of_iterations = 60/uint64_t number_of_iterations = 3/g' src/sim-param.h | |
| . ../biodynamo/build/bin/thisbdm.sh | |
| bdm run | |
| bdm test |