Add ComputeNode
, LocalV2
+ deprecate RemoteV1
and LocalV1
#635
Workflow file for this run
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name: Python package | |
on: [push, pull_request] | |
# https://stackoverflow.com/a/72408109/6388696 | |
# https://docs.github.com/en/actions/using-jobs/using-concurrency#example-using-concurrency-to-cancel-any-in-progress-job-or-run | |
concurrency: | |
group: ${{ github.workflow }}-${{ github.event.pull_request.number || github.ref }} | |
cancel-in-progress: true | |
jobs: | |
linting: | |
name: Run linting/pre-commit checks | |
runs-on: ubuntu-latest | |
steps: | |
- uses: actions/checkout@v4 | |
- uses: actions/setup-python@v4 | |
with: | |
python-version: '3.10' | |
- run: pip install pre-commit | |
- run: pre-commit --version | |
- run: pre-commit install | |
- run: pre-commit run --all-files | |
unit-tests: | |
needs: [linting] | |
runs-on: ${{ matrix.platform }} | |
strategy: | |
max-parallel: 4 | |
matrix: | |
platform: [ubuntu-latest, windows-latest, macos-latest] | |
python-version: ['3.8', '3.9', '3.10', '3.11'] | |
env: | |
PLATFORM: ${{ matrix.platform }} | |
steps: | |
- uses: actions/checkout@v4 | |
- name: Install poetry | |
run: | | |
python -m pip install --upgrade pip | |
pip install poetry | |
- name: Set up Python ${{ matrix.python-version }} | |
uses: actions/setup-python@v5 | |
with: | |
python-version: ${{ matrix.python-version }} | |
cache: poetry | |
- name: Install dependencies | |
run: poetry install --with=dev | |
- name: Setup passwordless SSH access to localhost for tests | |
# Adapted from https://stackoverflow.com/a/60367309/6388696 | |
if: runner.os == 'Linux' | |
run: | | |
ssh-keygen -t ed25519 -f ~/.ssh/testkey -N '' | |
cat > ~/.ssh/config <<EOF | |
Host localhost | |
User $USER | |
HostName 127.0.0.1 | |
IdentityFile ~/.ssh/testkey | |
EOF | |
echo -n 'from="127.0.0.1" ' | cat - ~/.ssh/testkey.pub > ~/.ssh/authorized_keys | |
chmod og-rw ~ | |
ssh -o 'StrictHostKeyChecking no' localhost id | |
- name: Test with pytest | |
run: poetry run pytest --cov=milatools --cov-report=xml --cov-append | |
- name: Upload coverage reports to Codecov | |
uses: codecov/codecov-action@v3 | |
with: | |
token: ${{ secrets.CODECOV_TOKEN }} | |
file: ./coverage.xml | |
flags: unittests | |
env_vars: PLATFORM,PYTHON | |
name: codecov-umbrella | |
fail_ci_if_error: false | |
mock-slurm-integration-tests: | |
name: integration tests with a mock slurm cluster | |
needs: [unit-tests] | |
runs-on: ${{ matrix.platform }} | |
strategy: | |
max-parallel: 5 | |
matrix: | |
# TODO: We should ideally also run this with Windows/Mac clients and a Linux | |
# server. Unsure how to set that up with GitHub Actions though. | |
platform: [ubuntu-latest] | |
python-version: ['3.8', '3.9', '3.10', '3.11'] | |
# For the action to work, you have to supply a mysql | |
# service as defined below. | |
services: | |
mysql: | |
image: mysql:8.0 | |
env: | |
MYSQL_ROOT_PASSWORD: root | |
ports: | |
- "8888:3306" | |
options: --health-cmd="mysqladmin ping" --health-interval=10s --health-timeout=5s --health-retries=3 | |
steps: | |
- uses: actions/checkout@v4 | |
# NOTE: Replacing this with our customized version of | |
# - uses: koesterlab/setup-slurm-action@v1 | |
- uses: ./.github/custom_setup_slurm_action | |
timeout-minutes: 5 | |
- name: Test if the slurm cluster is setup correctly | |
run: srun --nodes=1 --ntasks=1 --cpus-per-task=1 --mem=1G --time=00:01:00 hostname | |
- name: Setup passwordless SSH access to localhost for tests | |
# Adapted from https://stackoverflow.com/a/60367309/6388696 | |
run: | | |
ssh-keygen -t ed25519 -f ~/.ssh/testkey -N '' | |
cat > ~/.ssh/config <<EOF | |
Host localhost | |
User $USER | |
HostName 127.0.0.1 | |
IdentityFile ~/.ssh/testkey | |
EOF | |
echo -n 'from="127.0.0.1" ' | cat - ~/.ssh/testkey.pub > ~/.ssh/authorized_keys | |
chmod og-rw ~ | |
ssh -o 'StrictHostKeyChecking no' localhost id | |
- name: Set up Python ${{ matrix.python-version }} | |
uses: actions/setup-python@v5 | |
with: | |
python-version: ${{ matrix.python-version }} | |
- name: Install dependencies | |
run: | | |
python -m pip install --upgrade pip | |
pip install poetry | |
poetry install --with=dev | |
- name: Launch integration tests | |
run: poetry run pytest --slow --cov=milatools --cov-report=xml --cov-append -vvv --log-level=DEBUG | |
timeout-minutes: 15 | |
env: | |
SLURM_CLUSTER: localhost | |
- name: Upload coverage reports to Codecov | |
uses: codecov/codecov-action@v3 | |
with: | |
token: ${{ secrets.CODECOV_TOKEN }} | |
file: ./coverage.xml | |
flags: integrationtests | |
env_vars: PLATFORM,PYTHON | |
name: codecov-umbrella | |
fail_ci_if_error: false | |
real-slurm-integration-tests: | |
name: integration tests with a real SLURM cluster | |
needs: [mock-slurm-integration-tests] | |
runs-on: self-hosted | |
strategy: | |
max-parallel: 5 | |
matrix: | |
# TODO: We should ideally also run this with Windows/Mac clients and a Linux | |
# server. Unsure how to set that up with GitHub Actions though. | |
python-version: ['3.11'] | |
steps: | |
- uses: actions/checkout@v4 | |
- name: Set up Python ${{ matrix.python-version }} | |
uses: actions/setup-python@v5 | |
with: | |
python-version: ${{ matrix.python-version }} | |
- name: Install dependencies | |
run: | | |
python -m pip install --upgrade pip | |
pip install poetry | |
poetry install --with=dev | |
- name: Launch integration tests | |
id: self_hosted_integration_tests | |
run: poetry run pytest --slow -n 5 --cov=milatools --cov-report=xml --cov-append -vvv --log-level=DEBUG | |
# todo: Seems like the tests time out while waiting for jobs to be allocated! | |
timeout-minutes: 30 | |
env: | |
SLURM_CLUSTER: mila | |
- name: Upload coverage reports to Codecov | |
uses: codecov/codecov-action@v3 | |
with: | |
token: ${{ secrets.CODECOV_TOKEN }} | |
file: ./coverage.xml | |
flags: integrationtests | |
env_vars: PLATFORM,PYTHON | |
name: codecov-umbrella | |
fail_ci_if_error: false |