CI.yml

# Author - Stuart McAlpine - stuart.mcalpine@fysik.su.se - Jan 2023
name: DESC Legacy Blinding for Cosmosis

# How does the workflow get triggered?
on:
  # Triggers when push/pull-request made to the main branch.
  pull_request:
    branches:
      - main
  push:
    branches:
      - main
      - develop

# List of jobs for this workflow.

jobs:
  # Our pytest job.
  legacy_blinding-pytest:
    # Our strategy lists the OS and Python versions we want to test on.
        # Needed to activate miniconda environment.
    defaults:
      run:
        shell: bash -l {0}

    strategy:
      # Don't quit all jobs if only one job fails.
      fail-fast: false
      matrix:
        python-version: ["3.9"]
        os: [ubuntu-20.04, macos-latest]
        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
            INSTALL_DEPS: brew update-reset && HOMEBREW_NO_AUTO_UPDATE=1  HOMEBREW_NO_INSTALLED_DEPENDENTS_CHECK=1 brew install gcc swig libomp open-mpi openblas && if [ ! -f /usr/local/bin/gfortran ]; then ln -s /usr/local/bin/gfortran-$(brew list --versions gcc | awk '{print $2}' | cut -d. -f1) /usr/local/bin/gfortran; fi
    
    # What operating system is this job running on?
    runs-on: ${{ matrix.os }}

    # Our CI steps for this job.
    steps:
      # Check out this repository code.
      - name: Check out repository code
        uses: actions/checkout@v3
    
      - uses: conda-incubator/setup-miniconda@v2
        with:
          activate-environment: cosmosis-env
          channels: conda-forge
          miniforge-variant: Mambaforge
          miniforge-version: latest
          python-version: ${{ matrix.pyversion }}

      - name: Install dependencies with conda
        shell: bash -l {0}
        run: mamba install -c conda-forge "cosmosis>=2.5" cosmosis-build-standard-library pytest

      # - name: Source cosmosis 
        

      # # Install Python.
      # - name: Set up Python ${{ matrix.python-version }}
      #   uses: actions/setup-python@v4
      #   with:
      #     python-version: ${{ matrix.python-version }}

      # - name: Install dependencies
      #   run: ${{ matrix.INSTALL_DEPS }}

      - name: Setup cosmosis standard library
        shell: bash -l {0}
        run: |
          source cosmosis-configure
          cosmosis-build-standard-library -i

      # Install our package.
      - name: Install legacy_blinding
        shell: bash -l {0}
        run: |
          python -m pip install --upgrade pip
          python -m pip install pytest
          python -m pip install .

      # Perform the unit test and outputs a coverage report
      - name: Test with pytest
        shell: bash -l {0}
        run: |
          source cosmosis-configure
          pytest --cov=blind_2pt_cosmosis --cov-report=xml ./tests

      - name: Upload coverage reports to Codecov
        uses: codecov/codecov-action@v3
        env:
          CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }}