Continuous Integration #450
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# This workflow will install Python dependencies, run tests and lint with a variety of Python versions | |
# For more information see: https://help.github.com/actions/language-and-framework-guides/using-python-with-github-actions | |
name: Continuous Integration | |
on: | |
workflow_dispatch: | |
push: | |
branches: [ main ] | |
pull_request: | |
branches: [ main ] | |
schedule: | |
# run this every week at 12 noon on Monday | |
- cron: '0 12 * * 1' | |
jobs: | |
build-and-test: | |
runs-on: ${{ matrix.os }} | |
strategy: | |
fail-fast: false | |
matrix: | |
python-version: [3.7, 3.8, 3.9, "3.10", 3.11, 3.12] | |
# macos13 runs on until and macos14 now runs on arm64 | |
os: [ubuntu-20.04, macos-latest, macos-13] | |
exclude: | |
# Python 3.7 is not available on M1 Mac homebrew | |
- os: macos-latest | |
python-version: 3.7 | |
include: | |
- os: ubuntu-20.04 | |
INSTALL_DEPS: sudo apt-get update && sudo apt-get -y install gfortran-7 swig libopenmpi-dev openmpi-bin libopenblas-dev && sudo ln -s `which gfortran-7` /usr/local/bin/gfortran | |
- os: macos-latest | |
# Different versions of homebrew put the gfortran in different | |
INSTALL_DEPS: > | |
brew update-reset | |
&& HOMEBREW_NO_AUTO_UPDATE=1 HOMEBREW_NO_INSTALLED_DEPENDENTS_CHECK=1 brew install gcc swig libomp open-mpi openblas | |
&& COSMOSIS_GCC_VER=$(brew list --versions gcc | awk '{print $2}' | cut -d. -f1) | |
&& GFORTRAN_PATH1=/usr/local/bin/gfortran | |
&& GFORTRAN_PATH2=/usr/local/bin/gfortran-${COSMOSIS_GCC_VER} | |
&& GFORTRAN_PATH3=/opt/homebrew/bin/gfortran | |
&& GFORTRAN_PATH4=/opt/homebrew/bin/gfortran-${COSMOSIS_GCC_VER} | |
&& if ! which -s gfortran | |
; then if [ -f $GFORTRAN_PATH2 ]; then ln -s $GFORTRAN_PATH2 $GFORTRAN_PATH1; echo Linking gfortran from /usr/local | |
; elif [ -f $GFORTRAN_PATH4 ]; then ln -s $GFORTRAN_PATH4 $GFORTRAN_PATH3; echo Linking gfortran from /opt/homebrew | |
; else echo "gfortran not found" && exit 1 | |
; fi | |
; fi | |
&& echo "gfortran now at $(which -a gfortran)" | |
- os: macos-13 | |
# Different versions of homebrew put the gfortran in different | |
INSTALL_DEPS: > | |
brew update-reset | |
&& HOMEBREW_NO_AUTO_UPDATE=1 HOMEBREW_NO_INSTALLED_DEPENDENTS_CHECK=1 brew install gcc swig libomp open-mpi openblas | |
&& COSMOSIS_GCC_VER=$(brew list --versions gcc | awk '{print $2}' | cut -d. -f1) | |
&& GFORTRAN_PATH1=/usr/local/bin/gfortran | |
&& GFORTRAN_PATH2=/usr/local/bin/gfortran-${COSMOSIS_GCC_VER} | |
&& GFORTRAN_PATH3=/opt/homebrew/bin/gfortran | |
&& GFORTRAN_PATH4=/opt/homebrew/bin/gfortran-${COSMOSIS_GCC_VER} | |
&& if ! which -s gfortran | |
; then if [ -f $GFORTRAN_PATH2 ]; then ln -s $GFORTRAN_PATH2 $GFORTRAN_PATH1; echo Linking gfortran from /usr/local | |
; elif [ -f $GFORTRAN_PATH4 ]; then ln -s $GFORTRAN_PATH4 $GFORTRAN_PATH3; echo Linking gfortran from /opt/homebrew | |
; else echo "gfortran not found" && exit 1 | |
; fi | |
; fi | |
&& echo "gfortran now at $(which -a gfortran)" | |
steps: | |
- name: Checkout repository | |
uses: actions/checkout@v3 | |
with: | |
submodules: true | |
- name: Set up Python ${{ matrix.python-version }} | |
uses: actions/setup-python@v5 | |
with: | |
python-version: ${{ matrix.python-version }} | |
cache: 'pip' # caching pip dependencies | |
cache-dependency-path: 'setup.py' | |
- name: Install dependencies | |
run: ${{ matrix.INSTALL_DEPS }} | |
- name: Install python dependencies | |
run: | | |
python -m pip install --upgrade pip | |
pip install -v . | |
pip install --no-binary=mpi4py mpi4py astropy pytest pytest-cov getdist | |
- name: Install PocoMC | |
if: matrix.python-version != '3.7' | |
run: | | |
pip install pocomc==1.2.2 | |
- name: Test nautilus alone | |
if: (matrix.python-version == '3.12' || matrix.python-version == '3.11' || matrix.python-version =='3.10') && (matrix.os == 'macos-13') | |
run: | | |
# On some systems it seems like nautilus runs out of | |
# memory when run with the full test suite. | |
python cosmosis/test/test_samplers.py test_nautilus | |
- name: Test with pytest | |
run: | | |
cosmosis --version | |
if [[ "${{ matrix.os }}" == 'macos-13' && ("${{ matrix.python-version }}" == '3.10' || "${{ matrix.python-version }}" == '3.11' || "${{ matrix.python-version }}" == '3.12' ) ]]; then | |
export SKIP_NAUTILUS=1 | |
fi | |
mkdir tmp && cd tmp && pytest --pyargs cosmosis --cov cosmosis --cov-report=xml | |
- name: Upload coverage reports to Codecov | |
uses: codecov/codecov-action@v3 | |
if: matrix.python-version == '3.9' && matrix.os == 'ubuntu-20.04' | |
env: | |
CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }} | |