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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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# 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 }} | ||
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# 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 }}-${{ matrix.requires }}- | ||
- name: Install dependencies | ||
run: | | ||
# sudo apt-get install python-opencv | ||
pip install "setuptools<46" -U # v46 crashes openslide-python install | ||
pip install -r requirements.txt | ||
pip install -U check-manifest coverage pytest codecov codacy-coverage flake8 | ||
# code coverage tool | ||
curl -L https://codeclimate.com/downloads/test-reporter/test-reporter-latest-linux-amd64 > ./cc-test-reporter | ||
chmod +x ./cc-test-reporter | ||
shell: bash | ||
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- name: Preparation | ||
run: | | ||
mkdir output | ||
python --version | ||
pwd ; ls -l | ||
./cc-test-reporter before-build | ||
pip --version | ||
pip list | ||
- name: Tests | ||
env: | ||
DISPLAY: "" | ||
run: | | ||
coverage run --source handlers -m pytest handlers -v --doctest-modules --junitxml=junit/test-results-${{ 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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