Make RSV Forecast Submission #2
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| name: Make RSV Forecast Submission | |
| on: | |
| schedule: | |
| # Every Tuesday at 6pm CET (17:00 UTC) | |
| - cron: '0 17 * * 2' | |
| workflow_dispatch: # Allow manual triggering | |
| jobs: | |
| submit-forecast: | |
| runs-on: ubuntu-latest | |
| permissions: | |
| contents: write | |
| pull-requests: write | |
| steps: | |
| - name: Checkout repository | |
| uses: actions/checkout@v4 | |
| - name: Set up Python | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: '3.10' | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install --upgrade pip | |
| pip install requests pandas numpy | |
| - name: Create required directories | |
| run: | | |
| mkdir -p rsv/submissions | |
| - name: Run rsv forecasting script | |
| run: python rsv/run-rsv-forecasts.py | |
| env: | |
| PYTHONPATH: ${{ github.workspace }} | |
| - name: Commit forecasts to repository | |
| run: | | |
| # Configure git | |
| git config user.name "github-actions[bot]" | |
| git config user.email "github-actions[bot]@users.noreply.github.com" | |
| # Pull latest changes | |
| git pull origin main --rebase | |
| # Add and commit the new forecasts | |
| git add rsv/submissions/ | |
| # Only commit if there are changes | |
| if git diff --staged --quiet; then | |
| echo "No new forecasts to commit" | |
| else | |
| git commit -m "Store rsv forecasts $(date +%Y-%m-%d)" | |
| # Try to push, if it fails due to conflicts, pull and push again | |
| git push || (git pull --rebase origin main && git push) | |
| fi | |
| - name: Fork and sync target repository | |
| run: | | |
| # Install GitHub CLI | |
| gh auth login --with-token <<< "${{ secrets.PRIVATE_ACCESS_TOKEN }}" | |
| # Fork the repository (if not already forked) | |
| gh repo fork HopkinsIDD/rsv-forecast-hub --clone=true || true | |
| # Sync the fork with upstream | |
| pushd FluSight-forecast-hub | |
| # Add upstream remote if it doesn't exist | |
| git remote add upstream https://github.com/HopkinsIDD/rsv-forecast-hub.git 2>/dev/null || true | |
| # Set the origin remote with authentication token | |
| git remote set-url origin "https://x-access-token:${{ secrets.PRIVATE_ACCESS_TOKEN }}@github.com/${{ github.actor }}/rsv-forecast-hub.git" | |
| # Fetch and sync with upstream | |
| git fetch upstream | |
| git checkout main | |
| git reset --hard upstream/main | |
| git push origin main --force | |
| popd | |
| - name: Copy forecast files | |
| run: | | |
| # Create target directory if it doesn't exist | |
| mkdir -p rsv-forecast-hub/model-output/Metaculus-cp | |
| # Copy new forecasts | |
| cp -r rsv/submissions/* rsv-forecast-hub/model-output/Metaculus-cp/ | |
| - name: Create Pull Request | |
| run: | | |
| cd rsv-forecast-hub | |
| # Setup git config | |
| git config user.name "github-actions[bot]" | |
| git config user.email "github-actions[bot]@users.noreply.github.com" | |
| # Create a new branch with timestamp to ensure uniqueness | |
| BRANCH_NAME="rsv-forecast-update-$(date +%Y%m%d-%H%M%S)" | |
| git checkout -b $BRANCH_NAME | |
| # Add and commit changes | |
| git add model-output/Metaculus-cp/ | |
| # Only commit if there are changes | |
| if git diff --staged --quiet; then | |
| echo "No changes to commit" | |
| exit 0 | |
| else | |
| git commit -m "Update rsv forecasts $(date +%Y-%m-%d)" | |
| # Set the remote URL with authentication token | |
| git remote set-url origin "https://x-access-token:${{ secrets.PRIVATE_ACCESS_TOKEN }}@github.com/${{ github.actor }}/rsv-forecast-hub.git" | |
| # Force push to fork with the new unique branch | |
| git push -f origin $BRANCH_NAME | |
| # Create PR using gh cli | |
| gh pr create \ | |
| --title "Submission Metaculus forecasts $(date +%Y-%m-%d)" \ | |
| --body "Automated rsv forecast submission from Metaculus" \ | |
| --repo HopkinsIDD/rsv-forecast-hub \ | |
| --base main \ | |
| --head "${{ github.actor }}:$BRANCH_NAME" | |
| fi | |
| env: | |
| GITHUB_TOKEN: ${{ secrets.PRIVATE_ACCESS_TOKEN }} | |
| GH_TOKEN: ${{ secrets.PRIVATE_ACCESS_TOKEN }} |