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+ add GH action - drop Travis * fix tests
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| name: CI testing | ||
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| # see: https://help.github.com/en/actions/reference/events-that-trigger-workflows | ||
| on: # Trigger the workflow on push or pull request, but only for the master branch | ||
| - push | ||
| - pull_request | ||
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| jobs: | ||
| pytest: | ||
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| runs-on: ${{ matrix.os }} | ||
| strategy: | ||
| fail-fast: false | ||
| matrix: | ||
| os: [ubuntu-18.04] # , macOS-10.15 | ||
| python-version: [2.7, 3.6, 3.8] | ||
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|
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| # Timeout: https://stackoverflow.com/a/59076067/4521646 | ||
| timeout-minutes: 15 | ||
| env: | ||
| CC_TEST_REPORTER_ID: ${{ secrets.CC_TEST_REPORTER_ID }} | ||
| CODACY_PROJECT_TOKEN: ${{ secrets.CODACY_PROJECT_TOKEN }} | ||
| steps: | ||
| - uses: actions/checkout@v2 | ||
| - name: Set up Python ${{ matrix.python-version }} | ||
| uses: actions/setup-python@v2 | ||
| with: | ||
| python-version: ${{ matrix.python-version }} | ||
|
|
||
| # Note: This uses an internal pip API and may not always work | ||
| # https://github.com/actions/cache/blob/master/examples.md#multiple-oss-in-a-workflow | ||
| - name: Get pip cache | ||
| id: pip-cache | ||
| run: | | ||
| python -c "from pip._internal.locations import USER_CACHE_DIR; print('::set-output name=dir::' + USER_CACHE_DIR)" | ||
| - name: Cache pip | ||
| uses: actions/cache@v2 | ||
| with: | ||
| path: ${{ steps.pip-cache.outputs.dir }} | ||
| key: ${{ runner.os }}-pip-py${{ matrix.python-version }}-${{ matrix.requires }}-${{ hashFiles('requirements.txt') }} | ||
| restore-keys: | | ||
| ${{ runner.os }}-pip-py${{ matrix.python-version }}-${{ matrix.requires }}- | ||
| - name: Install dependencies | ||
| run: | | ||
| # sudo apt-get install python-opencv | ||
| pip install "setuptools<46" -U # v46 crashes openslide-python install | ||
| pip install -r requirements.txt | ||
| pip install -U check-manifest coverage pytest codecov codacy-coverage flake8 | ||
| # code coverage tool | ||
| curl -L https://codeclimate.com/downloads/test-reporter/test-reporter-latest-linux-amd64 > ./cc-test-reporter | ||
| chmod +x ./cc-test-reporter | ||
| shell: bash | ||
|
|
||
| - name: Preparation | ||
| run: | | ||
| mkdir output | ||
| python --version | ||
| pwd ; ls -l | ||
| ./cc-test-reporter before-build | ||
| pip --version | ||
| pip list | ||
| - name: Tests | ||
| env: | ||
| DISPLAY: "" | ||
| run: | | ||
| coverage run --source handlers -m pytest handlers -v --doctest-modules --junitxml=junit/test-results-${{ runner.os }}-${{ matrix.python-version }}-${{ matrix.requires }}.xml | ||
| - name: Formatting | ||
| run: | | ||
| flake8 . --ignore=E402 --max-line-length=120 | ||
| - name: Run scripts | ||
| run: | | ||
| python handlers/run_evaluate_landmarks.py -a ./annotations -o ./output --visual | ||
| python handlers/run_generate_landmarks.py -a ./annotations -d ./dataset --scales 5 | ||
| python handlers/run_visualise_landmarks.py -l ./dataset -i ./dataset -o ./output | ||
| - name: Upload pytest test results | ||
| uses: actions/upload-artifact@master | ||
| with: | ||
| name: pytest-results-${{ runner.os }}-${{ matrix.python-version }}-${{ matrix.requires }} | ||
| path: junit/test-results-${{ runner.os }}-${{ matrix.python-version }}-${{ matrix.requires }}.xml | ||
| # Use always() to always run this step to publish test results when there are test failures | ||
| if: always() | ||
|
|
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| - name: Statistics | ||
| if: success() | ||
| run: | | ||
| coverage report | ||
| coverage xml | ||
| # upload to ... | ||
| python-codacy-coverage -r coverage.xml | ||
| ./cc-test-reporter after-build | ||
| - name: Upload coverage to Codecov | ||
| uses: codecov/codecov-action@v1 | ||
| if: success() | ||
| with: | ||
| token: ${{ secrets.CODECOV_TOKEN }} | ||
| file: coverage.xml | ||
| fail_ci_if_error: false |
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