test-vtk.yml

name: test-vtk

on:
  workflow_dispatch:
  pull_request:
    branches:
      - "**"

jobs:
  test-conda:
    runs-on: ubuntu-latest

    strategy:
      fail-fast: false
      matrix:
        vtk-version: ["7.1", "8.2", "9.2"]

    steps:
      - name: checkout chaste
        uses: actions/checkout@v4
        with:
          repository: Chaste/Chaste
          ref: develop
          path: Chaste
          submodules: recursive

      - name: checkout pychaste
        uses: actions/checkout@v4
        with:
          path: Chaste/projects/PyChaste
          submodules: recursive

      - name: install system dependencies
        run: |
          sudo apt-get update
          sudo apt-get install -y cmake g++ xvfb

      - name: setup conda environment
        uses: mamba-org/setup-micromamba@v1
        with:
          micromamba-version: latest
          generate-run-shell: false
          init-shell: bash
          condarc: |
            channels:
              - conda-forge
              - pychaste
          environment-name: test-env
          create-args: >-
            boost-cpp
            fftw
            hdf5=[build=*mpi_mpich*]
            matplotlib
            metis
            mpich
            notebook
            numpy
            parmetis
            petsc<3.19
            petsc4py<3.19
            pip
            setuptools
            six
            sundials<7.0
            tbb-devel
            vtk=${{ matrix.vtk-version }}
            wheel
            xerces-c
            xsd
            xvfbwrapper
            xorg-libxext
          cache-environment: true
          post-cleanup: 'all'

      - name: fix cmake paths
        run: |
          find $CONDA_PREFIX \
            -type f \
            -name '*.cmake' \
            -exec sed -i.bak 's|/usr/lib64/libXext.so|libXext.so|g' {} \;
        shell: bash -el {0}

      - name: make build directory
        run: |
          mkdir -p build

      - name: configure pychaste
        run: |
          export PETSC_DIR=$CONDA_PREFIX
          export HDF5_ROOT=$CONDA_PREFIX

          cmake \
            -DCMAKE_BUILD_TYPE=Release \
            -DPython3_EXECUTABLE=$(which python3) \
            -DCMAKE_LIBRARY_PATH="${CONDA_PREFIX}/lib" \
            -DCMAKE_PREFIX_PATH="${CONDA_PREFIX}" \
            -DCMAKE_INSTALL_PREFIX="${CONDA_PREFIX}" \
            -DBUILD_SHARED_LIBS=ON \
            -DBOOST_ROOT="${CONDA_PREFIX}" \
            -DHDF5_C_COMPILER_EXECUTABLE="${CONDA_PREFIX}/bin/h5pcc" \
            -DVTK_DIR=${CONDA_PREFIX} \
            -DXERCESC_INCLUDE="${CONDA_PREFIX}/include" \
            -DXERCESC_LIBRARY="${CONDA_PREFIX}/lib/libxerces-c.so" \
            -DXSD_EXECUTABLE="${CONDA_PREFIX}/bin/xsd" \
            ../Chaste/
        working-directory: build
        shell: bash -el {0}

      - name: build pychaste
        run: |
          cmake --build . --parallel $(nproc) --target project_PyChaste
        working-directory: build
        shell: bash -el {0}

      - name: build pychaste python module
        run: |
          cmake --build . --parallel $(nproc) --target project_PyChaste_Python
        working-directory: build
        shell: bash -el {0}

      - name: install pychaste
        run: |
          pip install .
        working-directory: build/projects/PyChaste/python
        shell: bash -el {0}

      - name: run tests
        run: |
          xvfb-run \
            --server-args="-screen 0 1024x768x24" \
            ctest -j $(nproc) -L PyChaste --output-on-failure
        working-directory: build
        shell: bash -el {0}