Add data structure to save and restart a simulation. #469
Workflow file for this run
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name: pytest | |
on: | |
push: | |
branches: [ main ] | |
paths: | |
- flowermd/** | |
- environment-dev.yml | |
- .github/workflows/pytest.yml | |
pull_request: | |
branches: [ main ] | |
paths: | |
- flowermd/** | |
- environment-dev.yml | |
- .github/workflows/pytest.yml | |
issue_comment: | |
types: [created] | |
branches: [ main ] | |
paths: | |
- flowermd/** | |
- environment-dev.yml | |
- .github/workflows/pytest.yml | |
workflow_dispatch: | |
jobs: | |
pytest: | |
if: github.event.pull_request.draft == false | |
strategy: | |
fail-fast: false | |
matrix: | |
os: [macos-latest, macOS-13, ubuntu-latest] | |
python-version: ['3.10', '3.11'] | |
runs-on: ${{ matrix.os }} | |
steps: | |
- name: Check out repository | |
uses: actions/checkout@v2 | |
- name: Build environment | |
uses: conda-incubator/setup-miniconda@v2 | |
with: | |
environment-file: environment-dev.yml | |
python-version: ${{ matrix.python-version }} | |
miniforge-variant: Mambaforge | |
miniforge-version: 4.9.2-4 | |
use-mamba: true | |
- name: Install package | |
shell: bash -l {0} | |
run: pip install . | |
- name: Run pytest with coverage report | |
shell: bash -l {0} | |
run: python -m pytest -rs -v --cov=./ --cov-report=xml | |
- name: Upload coverage to Codecov | |
uses: codecov/codecov-action@v3 | |
with: | |
token: ${{ secrets.CODECOV_TOKEN }} | |
file: ./coverage.xml | |
test-tutorials: | |
if: ${{ github.event.issue.pull_request && github.event.comment.body== '/testtutorials'}} | |
runs-on: ubuntu-latest | |
steps: | |
- name: Put a reaction to the comment | |
run: gh api graphql --silent --raw-field query="mutation AddReaction {addReaction(input:{subjectId:\"$NODE_ID\",content:EYES}){reaction{content}subject{id}}}" | |
env: | |
GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
NODE_ID: ${{ github.event.comment.node_id }} | |
- name: Check if PR is open | |
run: | | |
STATE=$(gh pr view $PR_NUMBER --repo ${{ github.repository }} --json state --jq .state) | |
if [ "$STATE" != "OPEN" ]; then | |
echo "Cannot build for closed PRs" | |
( | |
echo "**${{ github.workflow }}**" | |
echo "Cannot build Kuby for a closed PR. Use the `latest` version (built for the `master` branch) or create a new PR." | |
) | \ | |
gh pr comment "${PR_NUMBER}" --repo ${{ github.repository }} -F - | |
gh api graphql --silent --raw-field query="mutation AddReaction {addReaction(input:{subjectId:\"$NODE_ID\",content:THUMBS_DOWN}){reaction{content}subject{id}}}" | |
gh api graphql --silent --raw-field query="mutation RemoveReaction {removeReaction(input:{subjectId:\"$NODE_ID\",content:EYES}){reaction{content}subject{id}}}" | |
exit 1 | |
fi | |
env: | |
GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
PR_NUMBER: ${{ github.event.issue.number }} | |
NODE_ID: ${{ github.event.comment.node_id }} | |
- name: Get PR HEAD Ref | |
id: getRef | |
run: echo "pr_ref=$(gh pr view $PR_NUMBER --repo ${{ github.repository }} --json headRefOid | jq -r '.headRefOid')" >> $GITHUB_OUTPUT | |
env: | |
GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
PR_NUMBER: ${{ github.event.issue.number }} | |
- name: Check out repository | |
uses: actions/checkout@v2 | |
- name: Build environment | |
uses: conda-incubator/setup-miniconda@v2 | |
with: | |
environment-file: environment-dev.yml | |
miniforge-variant: Mambaforge | |
miniforge-version: 4.9.2-4 | |
use-mamba: true | |
- name: Install package | |
shell: bash -l {0} | |
run: pip install . | |
- name: Run pytest on tutorials | |
shell: bash -l {0} | |
run: python -m pytest -rs -v --nbmake tutorials/ |