lint_and_test.yml

# This workflow will install Python dependencies using conda, 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: Tests

on:
  #  push:
  #    branches:
  #      - main
  pull_request:
    branches:
      - test
  workflow_dispatch:
    inputs:
      debug_enabled:
        description: 'Run the build with tmate debugging enabled (https://github.com/marketplace/actions/debugging-with-tmate)'
        required: false
        default: false

jobs:
  test1:
    name:  Test1 (${{ matrix.python-version }}, ${{ matrix.os }})
    runs-on: ${{ matrix.os }}
    strategy:
      fail-fast: true
      matrix:
        os: [ubuntu-latest, macOS-latest, windows-latest]
        python-version: [3.8, 3.9]
    env:
      GDESS_REPO: ${{ github.workspace }}
      GDESS_CMIP_DATA: ${{ github.workspace }}/tests/test_data/cmip/
      GDESS_GLOBALVIEW_DATA: ${{ github.workspace }}/tests/test_data/globalview/
      GDESS_SAVEPATH: ${{ github.workspace }}/outputs/
    steps:
      - name: Checkout source
        uses: actions/checkout@v2
        with:
          repository: ${{ github.event.pull_request.head.repo.full_name }}
          ref: ${{ github.event.pull_request.head.ref }}
          lfs: true
        #      - name: Set up Python ${{ matrix.python-version }}
        #        uses: actions/setup-python@v2
        #        with:
        #          python-version: ${{ matrix.python-version }}

      - name: Checkout LFS objects
        run: git lfs checkout

      - name: Cache conda
        uses: actions/cache@v1
        env:
          # Increase this value to reset cache if environment.yml has not changed
          CACHE_NUMBER: 0
        with:
          path: ~/conda_pkgs_dir
          key: ${{ runner.os }}-python${{ matrix.python-version }}-conda-${{ env.CACHE_NUMBER }}-${{ hashFiles('environment.yml') }}

      - name: Setup conda dependencies
        uses: conda-incubator/setup-miniconda@v2
        with:
          miniconda-version: "latest"
          auto-update-conda: true
          python-version: ${{ matrix.python-version }}
          environment-file: ci/environment.yml
          activate-environment: testing
          auto-activate-base: false
          #      - name: Add conda to system path
          #        run: |
          #          # $CONDA is an environment variable pointing to the root of the miniconda directory
          #          echo $CONDA/bin >> $GITHUB_PATH
          #      - name: Install dependencies
          #        run: |
          #          conda env update --file ci/environment.yml --name base

      - name: Conda info
        shell: bash -l {0}
        run: |
          conda info
          conda list

      - name: Lint with flake8
        shell: bash -l {0}
        run: |
          conda info
          conda install flake8
          # stop the build if there are Python syntax errors or undefined names
          flake8 . --count --select=E9,F63,F7,F82 --show-source --statistics
          # exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide
          flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics

      - name: Install package
        shell: bash -l {0}
        run: |
          pip install -e .

      # Enable tmate debugging of manually-triggered workflows if the input option was provided
      - name: Setup tmate session
        uses: mxschmitt/action-tmate@v3
        if: ${{ github.event_name == 'workflow_dispatch' && github.event.inputs.debug_enabled }}

      - name: Test and generate coverage report
        shell: bash -l {0}
        run: |
          conda install pytest
          conda install pytest-cov
          pytest --cov=./ --cov-report=xml

      - name: Send coverage report to codecov
        uses: codecov/codecov-action@v1
        with:
          env_vars: OS,PYTHON
          fail_ci_if_error: false
          verbose: true # optional (default = false)

      - name: Update demo notebooks
        if: (matrix.os == 'ubuntu-latest') && (matrix.python-version == '3.9')
        shell: bash -l {0}
        run: |
          python -m pip install jupyter nbconvert nbformat
          for i in notebooks/templates/*recipe_template.ipynb; do filename=${i##*/}; python -m nbconvert --to notebook --ExecutePreprocessor.kernel_name=python3 --execute $i --output-dir notebooks/demo --output ${filename%_template.ipynb}.ipynb; done;

      - name: Commit updated notebooks
        if: (matrix.os == 'ubuntu-latest') && (matrix.python-version == '3.9')
        uses: EndBug/add-and-commit@v9
        with:
          author_name: Plot update bot
          message: "Update Notebooks"
          add: "['notebooks/demo/meridional_recipe.ipynb', 'notebooks/demo/seasonal_cycle_recipe.ipynb', 'notebooks/demo/trends_recipe.ipynb']"