Merge pull request #1548 from kabilar/docs #6032
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name: Tests | |
on: | |
push: | |
branches: | |
- master | |
pull_request: | |
schedule: | |
- cron: '0 6 * * *' | |
concurrency: | |
group: ${{ github.workflow }}-${{ github.event_name }}-${{ github.ref_name }} | |
cancel-in-progress: true | |
defaults: | |
run: | |
shell: bash | |
jobs: | |
test: | |
runs-on: ${{ matrix.os }} | |
env: | |
NO_ET: 1 | |
DANDI_ALLOW_LOCALHOST_URLS: "1" | |
DANDI_PAGINATION_DISABLE_FALLBACK: "1" | |
DANDI_TESTS_PERSIST_DOCKER_COMPOSE: "1" | |
strategy: | |
fail-fast: false | |
matrix: | |
os: | |
- windows-2019 | |
- ubuntu-latest | |
- macos-latest | |
python: | |
- 3.9 | |
- '3.10' # Needs quotes so YAML doesn't think it's 3.1 | |
- '3.11' | |
- '3.12' | |
mode: | |
- normal | |
include: | |
- os: ubuntu-latest | |
python: 3.9 | |
mode: dandi-api | |
- os: ubuntu-latest | |
python: 3.9 | |
mode: dev-deps | |
- os: ubuntu-latest | |
python: 3.12 | |
mode: dev-deps | |
- os: ubuntu-latest | |
python: 3.9 | |
mode: nfs | |
steps: | |
- name: Set up environment | |
uses: actions/checkout@v4 | |
with: | |
# Fetch all commits so that versioneer will return something compatible | |
# with semantic-version | |
fetch-depth: 0 | |
- name: Set up Python ${{ matrix.python }} | |
uses: actions/setup-python@v5 | |
with: | |
python-version: ${{ matrix.python }} | |
- name: Install dependencies | |
run: | | |
python -m pip install --upgrade pip wheel | |
pip install ".[extras,test]" | |
- name: Install dev versions of select dependencies | |
if: matrix.mode == 'dev-deps' | |
run: | | |
pip install git+https://github.com/jaraco/keyring | |
pip install git+https://github.com/NeurodataWithoutBorders/nwbinspector | |
pip install git+https://github.com/NeurodataWithoutBorders/pynwb \ | |
git+https://github.com/hdmf-dev/hdmf \ | |
git+https://github.com/hdmf-dev/hdmf-zarr | |
- name: Create NFS filesystem | |
if: matrix.mode == 'nfs' | |
run: | | |
mkdir /tmp/nfsmount_ /tmp/nfsmount | |
mkdir /tmp/nfsmount_/tmp /tmp/nfsmount_/home | |
echo "/tmp/nfsmount_ localhost(rw)" | sudo tee /etc/exports | |
sudo apt-get install -y nfs-kernel-server | |
sudo exportfs -a | |
sudo mount -t nfs localhost:/tmp/nfsmount_ /tmp/nfsmount | |
echo TMPDIR=/tmp/nfsmount/tmp >> "$GITHUB_ENV" | |
echo HOME=/tmp/nfsmount/home >> "$GITHUB_ENV" | |
echo DANDI_DEVEL_INSTRUMENT_REQUESTS_SUPERLEN=1 >> "$GITHUB_ENV" | |
- name: Use scheduled test configuration | |
if: github.event_name == 'schedule' | |
run: echo PYTEST_ADDOPTS=--scheduled >> "$GITHUB_ENV" | |
- name: Run all tests | |
if: matrix.mode != 'dandi-api' | |
run: | | |
python -m pytest -s -v --cov=dandi --cov-report=xml dandi | |
- name: Smoke test example code in docs | |
if: matrix.mode != 'dandi-api' && github.event_name == 'schedule' | |
run: | | |
set -ex | |
cd docs/source/examples | |
for f in *.py | |
do python "$f" | |
done | |
- name: Run DANDI API tests only | |
if: matrix.mode == 'dandi-api' | |
run: | | |
export DANDI_TESTS_AUDIT_CSV=/tmp/audit.csv | |
python -m pytest -s -v --cov=dandi --cov-report=xml --dandi-api dandi | |
if [ ! -e /tmp/audit.csv ] | |
then echo Audit file not created | |
exit 1 | |
fi | |
lines="$(wc -l /tmp/audit.csv | awk '{print $1}')" | |
if [ "$lines" -lt 100 ] | |
then echo Audit file shorter than expected - only "$lines" lines | |
exit 1 | |
fi | |
- name: Dump Docker Compose logs | |
if: failure() && startsWith(matrix.os, 'ubuntu') | |
run: | | |
docker compose \ | |
-f dandi/tests/data/dandiarchive-docker/docker-compose.yml \ | |
logs --timestamps | |
- name: Shut down Docker Compose | |
if: startsWith(matrix.os, 'ubuntu') | |
run: | | |
docker compose \ | |
-f dandi/tests/data/dandiarchive-docker/docker-compose.yml \ | |
down -v | |
- name: Upload coverage to Codecov | |
uses: codecov/codecov-action@v5 | |
with: | |
token: ${{ secrets.CODECOV_TOKEN }} | |
files: ./coverage.xml | |
flags: unittests | |
# name: codecov-umbrella | |
# yml: ./codecov.yml | |
fail_ci_if_error: false |