cleanup the test and add assertions #277
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| name: Test and deploy code | |
| on: [push] | |
| jobs: | |
| test: | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: [ | |
| "ubuntu-latest", | |
| # "macos-latest", | |
| "macos-latest-large", | |
| "windows-latest", | |
| ] | |
| python-version: ["3.8", "3.9", "3.10"] | |
| defaults: # Needed for conda | |
| run: | |
| shell: bash -l {0} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| lfs: true | |
| submodules: true | |
| - uses: conda-incubator/setup-miniconda@v3 | |
| with: | |
| auto-update-conda: true | |
| python-version: ${{ matrix.python-version }} | |
| mamba-version: "*" | |
| miniforge-variant: Mambaforge | |
| channels: acellera,conda-forge,defaults | |
| - name: Install Linux HTMD conda deps | |
| if: matrix.os == 'ubuntu-latest' | |
| run: | | |
| mamba install --file package/htmd/DEPENDENCIES python=${{ matrix.python-version }} -y | |
| - name: Install MacOS HTMD conda deps | |
| if: matrix.os == 'macos-latest' | |
| run: | | |
| mamba install --file package/htmd/DEPENDENCIES_MAC python=${{ matrix.python-version }} -y | |
| - name: Install MacOS HTMD conda deps | |
| if: matrix.os == 'macos-latest-large' | |
| run: | | |
| mamba install --file package/htmd/DEPENDENCIES_MAC python=${{ matrix.python-version }} -y | |
| - name: Install Windows HTMD conda deps | |
| if: matrix.os == 'windows-latest' | |
| run: | | |
| mamba install --file package/htmd/DEPENDENCIES_WIN python=${{ matrix.python-version }} -y | |
| - name: Install pip dependencies | |
| run: | | |
| pip install flake8 pytest | |
| pip install . | |
| - name: Lint with flake8 | |
| run: | | |
| # 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: Test | |
| run: | | |
| export HTMD_NONINTERACTIVE=1 | |
| pytest --verbose --durations=10 ./htmd/ | |
| deploy: | |
| if: startsWith(github.event.ref, 'refs/tags/') | |
| needs: test | |
| runs-on: ${{ matrix.os }} | |
| defaults: # Needed for conda | |
| run: | |
| shell: bash -l {0} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: [ | |
| "ubuntu-latest", | |
| # "macos-latest", | |
| "macos-latest-large", | |
| "windows-latest", | |
| ] | |
| python-version: ["3.8", "3.9", "3.10"] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: conda-incubator/setup-miniconda@v3 | |
| with: | |
| activate-environment: writedeps | |
| auto-update-conda: true | |
| python-version: ${{ matrix.python-version }} | |
| mamba-version: "*" | |
| miniforge-variant: Mambaforge | |
| channels: acellera,conda-forge,defaults | |
| - name: Dump Linux dependencies yaml file | |
| if: matrix.os == 'ubuntu-latest' | |
| run: | | |
| pip install versioneer==0.28 | |
| python package/htmd/insert_placeholder_values.py package/htmd/DEPENDENCIES | |
| - name: Dump MacOS dependencies yaml file | |
| if: matrix.os == 'macos-latest' | |
| run: | | |
| pip install versioneer==0.28 | |
| python package/htmd/insert_placeholder_values.py package/htmd/DEPENDENCIES_MAC | |
| - name: Dump MacOS dependencies yaml file | |
| if: matrix.os == 'macos-latest-large' | |
| run: | | |
| pip install versioneer==0.28 | |
| python package/htmd/insert_placeholder_values.py package/htmd/DEPENDENCIES_MAC | |
| - name: Dump Windows dependencies yaml file | |
| if: matrix.os == 'windows-latest' | |
| run: | | |
| pip install versioneer==0.28 | |
| python package/htmd/insert_placeholder_values.py package/htmd/DEPENDENCIES_WIN | |
| - name: Build htmd conda package | |
| run: | | |
| mamba install anaconda-client conda-build python=${{ matrix.python-version }} boa | |
| conda mambabuild --python ${{ matrix.python-version }} package/htmd --output-folder ./pkg/ --no-include-recipe --no-anaconda-upload -c acellera -c conda-forge | |
| - name: Upload to conda | |
| run: | | |
| anaconda -t ${{ secrets.ANACONDA_TOKEN_BASIC }} upload -u acellera ./pkg/*/htmd-*.tar.bz2 |