ci.yml

name: GW3099 continuous integration
on:
  # run at 6 AM UTC every day
  schedule:
    - cron: '0 6 * * *' 
  push:
    branches:
      - main
    paths-ignore:
      - '**.md'
  pull_request:
    branches:
      - main
    paths-ignore:
      - '**.md'
concurrency:
  group: ${{ github.workflow }}-${{ github.ref }}
  cancel-in-progress: true
jobs:
  lint:
    name: Lint
    runs-on: ubuntu-latest
    defaults:
      run:
        shell: bash
    steps:
      - name: Checkout repo
        uses: actions/checkout@v4

      - name: Setup python
        uses: actions/setup-python@v5
        with:
          python-version: '3.10' 
      
      - name: Install ruff
        run: pip install ruff

      - name: Lint
        run: ruff check .
  
      - name: Check format
        run: ruff format . --check

  install_env_linux:
    name: Install gw3099 environment on linux
    needs: lint
    runs-on: ubuntu-latest
    strategy:
      fail-fast: false
      matrix:
        python-version: ["3.9", "3.10", "3.11"]
    defaults:
      run:
        shell: bash -el {0}
    steps:
      - name: Checkout repo
        uses: actions/checkout@v4

      - name: apt install
        run: |
          sudo apt install build-essential
          sudo apt-get install -y petsc-dev netcdf-bin libnetcdf-dev libnetcdff-dev openmpi-bin libopenmpi-dev
  
      - name: Update package config files
        working-directory: .scripts
        run: |
          python update_pc_files.py

      - name: netcdf-fortran settings
        run: |
          pkg-config --libs-only-L netcdf-fortran
          pkg-config --cflags-only-I netcdf-fortran
          nf-config --all

      - name: Update environment file
        working-directory: .scripts
        run: |
          python update_env_file.py
          cat ../environment.yml
  
      - name: Install miniconda
        uses: conda-incubator/setup-miniconda@v3
        with:
          python-version: ${{ matrix.python-version }}
          environment-file: "environment.yml"
          activate-environment: "gw3099"
          auto-activate-base: false

      - name: Update flopy mf6 classes
        run: |
          python -m flopy.mf6.utils.generate_classes --ref 'develop'
        env:
          GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
  
      - name: Clone MODFLOW repo
        run: |
          git clone --depth 1  --branch develop https://github.com/MODFLOW-USGS/modflow6.git 

      - name: Build extended version of MODFLOW
        if: runner.os != 'Windows'
        working-directory: modflow6
        run: |
          FC=mpifort CC=mpicc meson setup builddir -Ddebug=true -Doptimization=0 -Dextended=true --prefix=$CONDA_PREFIX --libdir=bin
          meson install -C builddir
          meson test --verbose --no-rebuild -C builddir
        
      - name: Test notebooks
        working-directory: .scripts
        run: |
          python test_notebooks.py --script
        env:
          GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}


  install_env:
    name: Install gw3099 environment
    needs: lint
    runs-on: ${{ matrix.os }}
    strategy:
      fail-fast: false
      matrix:
        os: ["macos-latest", "windows-latest"]
        python-version: ["3.9", "3.10", "3.11"]
    defaults:
      run:
        shell: bash -el {0}
    steps:
      - name: Checkout repo
        uses: actions/checkout@v4

      - name: Update environment file
        working-directory: .scripts
        run: |
          python update_env_file.py --conda
          cat ../environment.yml

      - name: Install miniconda
        uses: conda-incubator/setup-miniconda@v3
        with:
          python-version: ${{ matrix.python-version }}
          environment-file: "environment.yml"
          activate-environment: "gw3099"
          auto-activate-base: false
   
      - name: Update flopy mf6 classes
        run: |
          python -m flopy.mf6.utils.generate_classes --ref 'develop'
        env:
          GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}

      - name: netcdf-fortran settings
        if: runner.os != 'Windows'
        run: |
          pkg-config --libs-only-L netcdf-fortran
          pkg-config --cflags-only-I netcdf-fortran
          nf-config --help

      - name: Update package config files
        if: (runner.os != 'Windows')
        working-directory: .scripts
        run: |
          python update_pc_files.py
  
      - name: Clone MODFLOW repo
        run: |
          git clone --depth 1  --branch develop https://github.com/MODFLOW-USGS/modflow6.git 

      - name: Build extended version of MODFLOW
        if: runner.os != 'Windows'
        working-directory: modflow6
        run: |
          meson setup builddir -Ddebug=true -Doptimization=0 -Dextended=true --prefix=$CONDA_PREFIX --libdir=bin
          meson install -C builddir
          meson test --verbose --no-rebuild -C builddir
  
      - name: Get and test parallel MODFLOW on Windows
        if: runner.os == 'Windows'
        working-directory: modflow6/.mf6minsim
        run: |
          get-modflow --repo modflow6-nightly-build --ostag win64par :python
          mpiexec -n 1 mf6 -p
          mpiexec -n 2 mf6 -p
        
      - name: Test notebooks
        working-directory: .scripts
        run: |
          python test_notebooks.py --script
        env:
          GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
  

  install_vizenv:
    name: Install viz environment
    needs: lint
    runs-on: ${{ matrix.os }}
    strategy:
      fail-fast: false
      matrix:
        os: ["ubuntu-latest", "macos-latest", "windows-latest"]
        python-version: ["3.9", "3.10", "3.11"]
    defaults:
      run:
        shell: bash -el {0}
    steps:
      - name: Checkout repo
        uses: actions/checkout@v4

      - name: Install miniconda
        uses: conda-incubator/setup-miniconda@v3
        with:
          python-version: ${{ matrix.python-version }}
          environment-file: 'environment-viz.yml'
          activate-environment: 'gw3099viz'
          auto-activate-base: false