ubuntu-ci.yml

## -----------------------------------------------------------------------------
##
## Copyright (C) 2022 CERN, TUM, and UT Austin. All Rights Reserved.
##
## Licensed under the Apache License, Version 2.0 (the "License");
## you may not use this file except in compliance with the License.
##
## See the LICENSE file distributed with this work for details.
## See the NOTICE file distributed with this work for additional information
## regarding copyright ownership.
##
## Authored by: Tobias Duswald, CERN, TUM
##
## -----------------------------------------------------------------------------

name: ubuntu-ci

on:
  push:
    branches:
      - master
  pull_request:
    types: [opened, synchronize, reopened, edited]

jobs:
  build:
    name: Build simulation, run it, and run unit tests
    strategy:
      matrix:
        os: [ubuntu-20.04]
    runs-on: ${{ matrix.os }}
    timeout-minutes: 20

    steps:

    - name: Checkout this 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
        sudo apt-get install -y libssl-dev zlib1g-dev libbz2-dev libreadline-dev \
          libsqlite3-dev xz-utils tk-dev libffi-dev liblzma-dev python-openssl libblas-dev liblapack-dev
    
    - name: Start Xvfb
      run: |
        set -e
        sudo apt update
        sudo apt-get -y install xvfb
        XVFBARGS=":99 -ac -screen 0 2560x1440x24"
        /usr/bin/Xvfb $XVFBARGS >> /tmp/Xvfb.out 2>&1 &
        disown -ar
        sleep 3

    - 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 \
          -Dbenchmark=off \
          -Dnotebooks=off \
          -Dvalgrind=off \
          -DCMAKE_BUILD_TYPE=Release \
          -B build
        cmake --build build --parallel --config Release

    - name: Build angiogenesis simulation and run small simulation
      run: |
        . ../biodynamo/build/bin/thisbdm.sh
        export DISPLAY=:99.0
        sed -i 's/"total_sim_time": 100000/"total_sim_time": 500/' bdm.json
        bdm run

    - name: Test angiogenesis simulation with unit tests
      run: |
        . ../biodynamo/build/bin/thisbdm.sh
        export DISPLAY=:99.0
        bdm test