Fix Max lookback issue #166
Workflow file for this run
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| # ----------------------- | |
| # | |
| # Run a full build-and-test from the git repo | |
| # using a combination of conda and pip to install | |
| # all optional dependencies. | |
| # | |
| # This is the 'full' test suite. | |
| # | |
| # ----------------------- | |
| name: Build and test | |
| on: | |
| push: | |
| branches: | |
| - main | |
| - master | |
| - release/** | |
| pull_request: | |
| branches: | |
| - main | |
| - master | |
| - release/** | |
| concurrency: | |
| group: ${{ github.workflow }}-${{ github.ref }} | |
| cancel-in-progress: true | |
| jobs: | |
| conda: | |
| name: Python ${{ matrix.python-version }} (${{ matrix.os }}) | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: | |
| - macOS | |
| - Ubuntu | |
| python-version: | |
| - "3.9" | |
| - "3.10" | |
| - "3.11" | |
| runs-on: ${{ matrix.os }}-latest | |
| # this is needed for conda environments to activate automatically | |
| defaults: | |
| run: | |
| shell: bash -el {0} | |
| steps: | |
| - name: Get source code | |
| uses: actions/checkout@v2 | |
| with: | |
| fetch-depth: 0 | |
| - name: Cache conda packages | |
| uses: actions/cache@v2 | |
| env: | |
| # increment to reset cache | |
| CACHE_NUMBER: 0 | |
| with: | |
| path: ~/conda_pkgs_dir | |
| key: ${{ runner.os }}-conda-${{ matrix.python-version }}-${{ env.CACHE_NUMBER }} | |
| restore-keys: ${{ runner.os }}-conda-${{ matrix.python-version }}- | |
| - name: Configure conda | |
| uses: conda-incubator/setup-miniconda@v2 | |
| with: | |
| activate-environment: test | |
| miniforge-variant: Mambaforge | |
| python-version: ${{ matrix.python-version }} | |
| use-mamba: true | |
| - name: Conda info | |
| run: conda info --all | |
| - name: Install dependencies | |
| run: | | |
| # parse requirements to install as much as possible with conda | |
| mamba create --name pip2conda pip2conda | |
| mamba run --name pip2conda pip2conda \ | |
| --all \ | |
| --output environment.txt \ | |
| --python-version ${{ matrix.python-version }} | |
| echo "-----------------" | |
| cat environment.txt | |
| echo "-----------------" | |
| mamba install --quiet --yes --name test --file environment.txt | |
| - name: Install PyOmicron | |
| run: python -m pip install --editable . --no-build-isolation -vv | |
| - name: Package list | |
| run: conda list --name test | |
| - name: Run test suite | |
| run: python -m pytest -ra --color yes --cov omicron --pyargs omicron --junitxml=pytest.xml | |
| - name: Test command-line interfaces | |
| run: | | |
| python -m coverage run -a $(which omicron-show) --help | |
| python -m coverage run -a $(which omicron-process) --help | |
| python -m coverage run -a $(which omicron-status) --help | |
| python -m coverage run -a $(which omicron-hdf5-merge) --help | |
| python -m coverage run -a $(which omicron-root-merge) --help | |
| - name: Coverage report | |
| run: python -m coverage report --show-missing | |
| - name: Prepare codecov upload | |
| run: python -m coverage xml | |
| - name: Publish coverage to Codecov | |
| uses: codecov/codecov-action@v3 | |
| with: | |
| files: coverage.xml | |
| flags: Conda,${{ runner.os }},python${{ matrix.python-version }} | |
| - name: Upload test results | |
| if: always() | |
| uses: actions/upload-artifact@v2 | |
| with: | |
| name: pytest-conda-${{ matrix.os }}-${{ matrix.python-version }} | |
| path: pytest.xml |