From c3f8d28171cd59a2130408b6e3bd0e42240b6b7d Mon Sep 17 00:00:00 2001 From: Tom Knapp Date: Thu, 5 Mar 2026 17:17:32 +0000 Subject: [PATCH 1/5] NPA-6333: add runbook for resolving dependabot alerts --- README.md | 10 +- docs/DEPENDABOT_REVIEW_RUNBOOK.md | 661 ++++++++++++++++++++++++++++++ 2 files changed, 670 insertions(+), 1 deletion(-) create mode 100644 docs/DEPENDABOT_REVIEW_RUNBOOK.md diff --git a/README.md b/README.md index 36064a71..feede0ac 100644 --- a/README.md +++ b/README.md @@ -28,9 +28,17 @@ This repository includes: Contributions to this project are welcome from anyone, providing that they conform to the [guidelines for contribution](./CONTRIBUTING.md) and the [community code of conduct](./CODE_OF_CONDUCT.md). +## Documentation + +- [Development Guide](./docs/DEVELOPMENT_GUIDE.md) - Setup and development workflows +- [Dependabot Review Runbook](./docs/DEPENDABOT_REVIEW_RUNBOOK.md) - Process for reviewing dependency updates +- [Contributing Guidelines](./docs/CONTRIBUTING.md) - How to contribute to this project +- [Code of Conduct](./docs/CODE_OF_CONDUCT.md) - Community standards +- [Security Policy](./docs/SECURITY.md) - Reporting security vulnerabilities + ## Development & Testing -Development documentation can be found in [DEVELOPMENT_GUIDE.md](./DEVELOPMENT_GUIDE.md). +Development documentation can be found in [DEVELOPMENT_GUIDE.md](./docs/DEVELOPMENT_GUIDE.md). ### Licensing diff --git a/docs/DEPENDABOT_REVIEW_RUNBOOK.md b/docs/DEPENDABOT_REVIEW_RUNBOOK.md new file mode 100644 index 00000000..d1e2dbe6 --- /dev/null +++ b/docs/DEPENDABOT_REVIEW_RUNBOOK.md @@ -0,0 +1,661 @@ +# Dependabot PR Review Runbook + +This guide covers the process for reviewing and testing grouped Dependabot PRs before merging them into the `master` branch. + +## Table of Contents + +- [Overview](#overview) +- [Prerequisites](#prerequisites) +- [Weekly Review Schedule](#weekly-review-schedule) +- [Review Process](#review-process) + - [1. Identify Open Dependabot PRs](#1-identify-open-dependabot-prs) + - [2. Review PR Changes](#2-review-pr-changes) + - [3. Create Local Test Branch](#3-create-local-test-branch) + - [4. Run Automated Tests](#4-run-automated-tests) + - [5. Manual Testing (if needed)](#5-manual-testing-if-needed) + - [6. Approve and Merge](#6-approve-and-merge) +- [Handling Multiple Dependabot PRs](#handling-multiple-dependabot-prs) +- [Rollback Procedure](#rollback-procedure) +- [Common Issues and Solutions](#common-issues-and-solutions) +- [Best Practices](#best-practices) +- [Useful Commands Cheat Sheet](#useful-commands-cheat-sheet) + +## Overview + +Dependabot is configured to create grouped dependency update PRs weekly (Mondays at 09:00). You should expect to see up to 3 PRs: + +1. **Python Dependencies** (`python-dependencies` group) - Major version updates for pip packages +2. **NPM Dependencies** (`npm-dependencies` group) - Major version updates for npm packages +3. **GitHub Actions** (`github-dependencies` group) - All updates to GitHub Actions + +Minor and patch updates are ignored per the configuration in `.github/dependabot.yml`. + +## Prerequisites + +Ensure you have the following installed and configured: + +- Git +- Access to the repository with write permissions +- All development dependencies installed via `make install` + +See the [Development Guide](./DEVELOPMENT_GUIDE.md) for specific tool version requirements. + +**Quick Setup:** + +```bash +# Clone the repository (if not already done) +git clone +cd validated-relationships-service-api + +# Install all dependencies +make install +``` + +## Weekly Review Schedule + +**Recommended Review Time:** Monday afternoons or Tuesday mornings (after Dependabot creates PRs at 09:00 Monday) + +**Estimated Time Required:** + +- Simple review (no breaking changes): 15-30 minutes +- Complex review (with breaking changes): 1-2 hours + +## Review Process + +### 1. Identify Open Dependabot PRs + +First, check what Dependabot PRs are currently open: + +**Using GitHub Web UI:** + +- Navigate to the repository on GitHub +- Click on "Pull requests" tab +- Filter by author: `author:app/dependabot[bot]` +- Or use the direct URL: `https://github.com/OWNER/REPO/pulls?q=is:pr+is:open+author:app/dependabot` + +**Using Git Commands:** + +```bash +# List remote branches containing "dependabot" +git fetch origin +git branch -r | grep dependabot +``` + +You should see PRs with titles like: + +- "Bump the python-dependencies group with X updates" (for grouped Python updates) +- "Bump aiohttp from X.X.X to Y.Y.Y" (for individual Python package updates) +- "Bump cryptography from X.X.X to Y.Y.Y" (for individual Python package updates) +- "Bump the npm-dependencies group with X updates" (for grouped npm updates) +- "Bump basic-ftp from X.X.X to Y.Y.Y" (for individual npm package updates) +- "Bump the github-dependencies group with X updates" (for grouped GitHub Actions updates) + +**Note:** You may see both grouped PRs (multiple packages) and individual PRs (single packages) depending on: + +- Whether updates are available for multiple packages simultaneously +- Security updates (which may bypass grouping) +- Whether grouped updates failed and individual PRs were created instead + +### 2. Review PR Changes + +For each Dependabot PR, review the changes: + +**Using GitHub Web UI:** + +- Click on the PR title to view details +- Click "Files changed" tab to see the diff +- Click "Checks" tab to see CI/CD status + +**Using Git Commands:** + +```bash +# Fetch the PR branch +git fetch origin pull//head:pr- + +# View the diff +git diff main...pr- + +# View changed files +git diff --name-only main...pr- +``` + +**What to look for:** + +- ✅ Check if CI/CD checks are passing +- ✅ Review the changelog/release notes for each updated dependency +- ✅ Look for breaking changes in major version updates +- ⚠️ Pay special attention to dependencies that affect: + - API schema validation (`openapi-schema-validator`, etc.) + - Testing frameworks (`pytest`, `newman`, etc.) + - Build tools (`webpack`, `poetry`, etc.) + +**Check Release Notes:** + +```bash +# For Python packages, check PyPI +# Example: https://pypi.org/project/package-name/#history + +# For npm packages, check npm or GitHub +# Example: https://www.npmjs.com/package/package-name?activeTab=versions +``` + +### 3. Create Local Test Branch + +Create a test branch to verify the changes locally: + +**Using Git Commands:** + +```bash +# Ensure you're on the latest master +git checkout master +git pull origin master + +# Fetch all branches +git fetch origin + +# Find the dependabot branch name +git branch -r | grep dependabot + +# Checkout the dependabot branch directly +git checkout dependabot/npm_and_yarn/npm-dependencies-abc123 + +# Or fetch PR by number and checkout +git fetch origin pull//head:dependabot-pr- +git checkout dependabot-pr- +``` + +> **Note:** Dependabot branches may be behind master if other PRs have been merged since the Dependabot PR was created. If you encounter issues or want to test against the latest master, you can ask Dependabot to rebase: +> +> **On GitHub Web UI:** +> +> 1. Navigate to the Dependabot PR on GitHub +> 2. Scroll to the bottom (comment section) +> 3. Add a comment: `@dependabot rebase` +> 4. Click "Comment" +> +> Dependabot will automatically rebase the PR branch against the current master branch. +> +> **Other useful Dependabot commands:** +> +> - `@dependabot recreate` - Recreate the PR from scratch +> - `@dependabot merge` - Merge the PR (if checks pass) +> - `@dependabot close` - Close the PR + +**Alternative: Create a named test branch** + +```bash +# Create a test branch from the dependabot branch +git checkout master +git pull origin master +git checkout -b test/dependabot--$(date +%Y%m%d) +git merge origin/dependabot// +``` + +### 4. Run Automated Tests + +Run the full test suite to verify nothing is broken: + +#### Install Dependencies + +```bash +# Install Node dependencies +make install-node + +# Install Python dependencies (if updated) +make install-python + +# Or install everything +make install +``` + +#### Run Linting + +```bash +# Run Python linting +make lint + +# Run Python formatting check +make format + +# If formatting fails, you may need to apply formatting +make format-apply +``` + +#### Run Schema Validation + +```bash +# Validate all schema examples +make schema-all + +# Or validate specific schemas: +make schema-get-consent +make schema-post-consent +make schema-patch-consent +make schema-related-person +make schema-questionnaire +make schema-errors +``` + +#### Run Unit/Integration Tests + +```bash +# Run Python tests (requires APIGEE_ACCESS_TOKEN) +make test + +# Run smoke tests +make smoketest +``` + +#### Test OpenAPI Specification + +```bash +# Publish the spec to check for errors +make publish + +# Check the build output +ls -la build/ + +# Serve the spec locally to preview +make serve +# Open browser to http://localhost:8080 +``` + +#### Test Postman Collection (if npm updated) + +```bash +# Generate Postman collection +make generate-postman-collection + +# Test against sandbox +make test-postman-collection SANDBOX_BASE_URL=https://sandbox.api.service.nhs.uk/validated-relationships/FHIR/R4 +``` + +### 5. Manual Testing (if needed) + +For major version updates or if automated tests reveal issues: + +#### Test Sandbox + +```bash +# Start the sandbox locally (if sandbox dependencies were updated) +cd sandbox +poetry run python -m flask run --port 5000 + +# Test endpoints manually +curl http://localhost:5000/_ping +curl http://localhost:5000/_status +``` + +#### Review Breaking Changes + +If tests fail or you notice breaking changes: + +1. **Document the issue:** + + **Using GitHub Web UI:** + - Navigate to the PR on GitHub + - Scroll to the bottom and add a comment in the comment box + - Include test output and description of the issue + - Include relevant test output + +2. **Check for migration guides:** + - Look for UPGRADE.md, MIGRATION.md, or CHANGELOG.md in the dependency's repository + - Check if there are code changes required + +3. **Fix issues if possible:** + + ```bash + # Make necessary code changes + git add . + git commit -m "fix: update code for dependency upgrade" + + # Push to a new branch (don't push to dependabot's branch) + git push origin HEAD:fix/dependabot- + ``` + + **Create a new PR with GitHub Web UI:** + - Navigate to the repository on GitHub + - Click "Pull requests" → "New pull request" + - Select your branch `fix/dependabot-` + - Add title and description referencing the original Dependabot PR + - Click "Create pull request" + +### 6. Approve and Merge + +Once all tests pass: + +**Using GitHub Web UI:** + +- Navigate to the PR on GitHub +- Click "Review changes" → "Approve" → "Submit review" +- Scroll down and click "Squash and merge" (or "Rebase and merge") +- Confirm the merge +- Check "Delete branch" option + +**Clean up local branches:** + +```bash +git checkout master +git pull origin master +git branch -d +``` + +## Handling Multiple Dependabot PRs + +If you have multiple ecosystem PRs open simultaneously, you can: + +### Option A: Test Each Separately (Recommended) + +Test and merge each PR individually following the process above. This makes it easier to identify which dependency causes issues if tests fail. + +**Using Git Commands:** + +```bash +# Test Python dependencies first +git fetch origin +git checkout dependabot/pip/python-dependencies-... +make install-python +make lint format +make schema-all +make test + +# If tests pass, merge it via GitHub Web UI + +# Then test npm dependencies +git checkout master +git pull origin master +git checkout dependabot/npm_and_yarn/npm-dependencies-... +make install-node +make publish +make generate-postman-collection + +# If tests pass, merge it via GitHub Web UI +``` + +### Option B: Combine and Test Together + +If you want to test all updates together before merging: + +> ⚠️ **Warning:** Merging multiple Dependabot branches together may result in merge conflicts, especially if: +> +> - Multiple PRs update the same dependency to different versions +> - Both `poetry.lock` and `package-lock.json` are modified by different PRs +> - PRs modify overlapping sections of configuration files +> +> **If you encounter conflicts and want to undo the merge:** +> +> ```bash +> # Abort the merge and return to pre-merge state +> git merge --abort +> +> # Your branch will be back to the state before the merge command +> # You can then try a different approach or merge PRs individually +> ``` +> +> **If you want to resolve conflicts:** +> +> - Resolve them manually by choosing the appropriate version +> - Regenerate lock files (`poetry lock`, `npm install`) +> - Test thoroughly after resolving conflicts +> - Complete the merge with `git commit` + +**Using Git Commands:** + +```bash +# Create a combined test branch +git checkout master +git pull origin master +git checkout -b test/all-dependabot-$(date +%Y%m%d) + +# List and merge all dependabot branches +git fetch origin +git branch -r | grep dependabot | while read branch; do + echo "Merging $branch" + git merge --no-ff "$branch" -m "Merge $branch for testing" +done + +# Run full test suite +make install +make lint format +make schema-all +make test +make publish + +# If all tests pass, merge the original PRs individually via GitHub Web UI + +# Clean up test branch +git checkout master +git branch -D test/all-dependabot-$(date +%Y%m%d) +``` + +## Rollback Procedure + +If a merged Dependabot PR causes issues in production: + +### Immediate Rollback + +```bash +# Find the merge commit +git log --oneline --grep="dependabot" + +# Revert the merge commit +git revert -m 1 + +# Push the revert +git push origin master + +# Create a PR for the revert +gh pr create --title "Revert: Dependabot updates" \ + --body "Reverting # due to [issue description]" +``` + +### Fix Forward (Preferred) + +```bash +# Create a fix branch +git checkout -b fix/dependency-issue + +# Make necessary fixes +# ... edit files ... + +git add . +git commit -m "fix: resolve issue from dependency update" + +git push origin fix/dependency-issue +``` + +**Create PR with GitHub Web UI:** + +- Navigate to repository on GitHub +- Click "Pull requests" → "New pull request" +- Select your branch `fix/dependency-issue` +- Add title and description +- Click "Create pull request" + +## Common Issues and Solutions + +### Issue: Poetry lock file out of sync + +**Symptom:** `poetry install` fails with lock file errors + +**Solution:** + +```bash +# Update the lock file +poetry lock --no-update + +# Or regenerate it +poetry lock + +# Commit the updated lock file +git add poetry.lock +git commit -m "chore: update poetry lock file" +``` + +### Issue: npm peer dependency conflicts + +**Symptom:** `npm install` shows peer dependency warnings + +**Solution:** + +```bash +# Install with legacy peer deps (already in Makefile) +npm install --legacy-peer-deps + +# If issues persist, check package.json for conflicting versions +``` + +### Issue: Schema validation fails after OpenAPI validator update + +**Symptom:** `make schema-all` fails after updating `openapi-schema-validator` + +**Solution:** + +```bash +# Check if the schema needs updates +poetry run python scripts/validate_schema.py operationoutcome + +# Common fix: Update schema to match new validator requirements +# Check the validator's changelog for breaking changes +``` + +### Issue: Flake8 or Black failures after dependency update + +**Symptom:** `make lint` or `make format` fails + +**Solution:** + +```bash +# Apply black formatting +make format-apply + +# Check flake8 config if needed +cat .flake8 + +# May need to update .flake8 config for new rules +``` + +### Issue: GitHub Actions fail after actions update + +**Symptom:** CI/CD pipeline fails after updating `github-dependencies` + +**Solution:** + +```bash +# Check the action's changelog for breaking changes +# Common issues: +# - Changed input/output names +# - Deprecated features removed +# - Node version requirements changed + +# Update workflow files in .github/workflows/ +vim .github/workflows/.yml +``` + +### Issue: Tests pass locally but fail in CI + +**Symptom:** Local tests pass but GitHub Actions or Azure DevOps fails + +**Solution:** + +```bash +# Check environment differences +# - Python version +# - Node version +# - Environment variables + +# Try running tests in the same way CI does +poetry run pytest -v --color=yes + +# Check CI logs for specific error messages +gh run list --workflow= +gh run view +``` + +## Best Practices + +1. **Review Timing:** Review Dependabot PRs within 1-2 days of creation +2. **Batch Review:** Try to review all ecosystem PRs together for consistency +3. **Document Issues:** Always comment on PRs when you find issues +4. **Test Thoroughly:** Don't skip tests even for "simple" updates +5. **Monitor After Merge:** Check CI/CD pipelines after merging +6. **Keep Notes:** Document any issues encountered for future reference +7. **Stay Informed:** Subscribe to notifications for critical dependencies +8. **Security First:** Prioritize security updates even if they require more work +9. **Communicate:** Let the team know if you're blocking or delaying a merge +10. **Learn from Failures:** Document breaking changes for future reference + +## Useful Commands Cheat Sheet + +### Git Commands + +```bash +# List remote dependabot branches +git fetch origin +git branch -r | grep dependabot + +# Checkout a PR branch (find branch name first) +git checkout dependabot/npm_and_yarn/npm-dependencies-abc123 + +# Or fetch PR by number +git fetch origin pull//head:pr- +git checkout pr- + +# View diff from master +git diff master...HEAD + +# List changed files +git diff --name-only master...HEAD + +# View commit messages +git log master..HEAD + +# Merge PR locally (then push to master) +git checkout master +git merge --squash pr- +git commit -m "Merge dependabot PR #" +git push origin master +``` + +### Testing Commands + +```bash +# Run full test suite +make install && make lint && make format && make schema-all && make test + +# Install dependencies +make install-node # Install npm packages +make install-python # Install Python packages +make install # Install everything + +# Run linting and formatting +make lint # Check Python code style +make format # Check Python formatting +make format-apply # Apply Python formatting + +# Run schema validation +make schema-all # Validate all schemas +make schema-get-consent +make schema-post-consent +make schema-patch-consent + +# Run tests +make test # Run all tests +make smoketest # Run smoke tests only + +# Build and publish +make publish # Generate OpenAPI spec +make serve # Serve spec locally +``` + +## Additional Resources + +- [Dependabot Documentation](https://docs.github.com/en/code-security/dependabot) +- [Project Development Guide](./DEVELOPMENT_GUIDE.md) +- [Contributing Guidelines](./CONTRIBUTING.md) +- [NHS Digital API Producer Zone](https://nhsd-confluence.digital.nhs.uk/display/APM) +- [Poetry Documentation](https://python-poetry.org/docs/) + +--- + +**Last Updated:** March 2026 From ab96faaddb014fa618ba4f8e5e66675e293a6614 Mon Sep 17 00:00:00 2001 From: Tom Knapp Date: Mon, 9 Mar 2026 13:00:23 +0000 Subject: [PATCH 2/5] NPA-6333: Remove unused dependencies: reduce dependabot alerts --- package-lock.json | 661 ------------------------------------- package.json | 1 - poetry.lock | 817 +--------------------------------------------- pyproject.toml | 3 - 4 files changed, 4 insertions(+), 1478 deletions(-) diff --git a/package-lock.json b/package-lock.json index 9870926a..8facf1a5 100644 --- a/package-lock.json +++ b/package-lock.json @@ -11,7 +11,6 @@ "devDependencies": { "@apideck/portman": "~=1.33.0", "@openapitools/openapi-generator-cli": "^2.20.2", - "apigeetool": "^0.16.4", "license-checker": "^25.0.1", "minimist": "^1.2.2", "newman": "~=6.2.1" @@ -821,33 +820,6 @@ "node": ">=16.0.0" } }, - "node_modules/apigeetool": { - "version": "0.16.4", - "resolved": "https://registry.npmjs.org/apigeetool/-/apigeetool-0.16.4.tgz", - "integrity": "sha512-bSMkv3sRKmjKO+cdOJzguj3dBiWjxL6qvC25J+7Ls4sXRYrj+nPwpAWh7Qb87QO2zClS/6H+ETU0zzJkXQ8zvA==", - "dev": true, - "dependencies": { - "async": "^3.2.3", - "body-parser": "^1.20.0", - "cli-table": "^0.3.11", - "fs-extra": "^10.1.0", - "jszip": "^3.7.1", - "mustache": "^4.2.0", - "netrc": "^0.1.3", - "node-unzip-2": "^0.2.7", - 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"34613f0af472092b294077f6039a08810e1ab9cd777da7098969be48adb97725" diff --git a/sandbox/pyproject.toml b/sandbox/pyproject.toml index 5bce6025..64c5b3f9 100644 --- a/sandbox/pyproject.toml +++ b/sandbox/pyproject.toml @@ -13,6 +13,6 @@ pyyaml = "^6.0.2" [tool.poetry.dev-dependencies] flake8 = "^7.3.0" -black = "^24.3.0" +black = "^26.3.0" pytest = "^8.1.1" pytest-cov = "^5.0.0" From b2fba3718987916c094f8ccbd9238881c2114206 Mon Sep 17 00:00:00 2001 From: Tom Knapp Date: Mon, 9 Mar 2026 13:50:35 +0000 Subject: [PATCH 4/5] NPA-6333: Update Dependbot Readme for reviewing OpenAPI spec --- docs/DEPENDABOT_REVIEW_RUNBOOK.md | 12 ++++++++---- 1 file changed, 8 insertions(+), 4 deletions(-) diff --git a/docs/DEPENDABOT_REVIEW_RUNBOOK.md b/docs/DEPENDABOT_REVIEW_RUNBOOK.md index d1e2dbe6..d970d41e 100644 --- a/docs/DEPENDABOT_REVIEW_RUNBOOK.md +++ b/docs/DEPENDABOT_REVIEW_RUNBOOK.md @@ -255,9 +255,13 @@ make publish # Check the build output ls -la build/ -# Serve the spec locally to preview -make serve -# Open browser to http://localhost:8080 +# Import the spec into Postman to review +# 1. Open Postman +# 2. Click "Import" button (top left) +# 3. Select "Files" tab +# 4. Browse to and select: build/validated-relationships-service-api.json +# 5. Click "Import" to create a collection from the OpenAPI spec +# 6. Review the imported endpoints and schemas in Postman ``` #### Test Postman Collection (if npm updated) @@ -645,7 +649,7 @@ make smoketest # Run smoke tests only # Build and publish make publish # Generate OpenAPI spec -make serve # Serve spec locally +# Import build/validated-relationships-service-api.json into Postman to review the spec ``` ## Additional Resources From 8936ec214d9f5ce57d753f0abddf1e47f5454439 Mon Sep 17 00:00:00 2001 From: Tom Knapp Date: Mon, 9 Mar 2026 13:55:55 +0000 Subject: [PATCH 5/5] NPA-6333: Documentation updates --- README.md | 1 + docs/DEPENDABOT_REVIEW_RUNBOOK.md | 2 +- 2 files changed, 2 insertions(+), 1 deletion(-) diff --git a/README.md b/README.md index feede0ac..a691b58a 100644 --- a/README.md +++ b/README.md @@ -12,6 +12,7 @@ This repository does _not_ include the Validated Relationship Service FHIR API b - [Table of Contents](#table-of-contents) - [Repository Structure](#repository-structure) - [Contributing](#contributing) + - [Documentation](#documentation) - [Development \& Testing](#development--testing) - [Licensing](#licensing) diff --git a/docs/DEPENDABOT_REVIEW_RUNBOOK.md b/docs/DEPENDABOT_REVIEW_RUNBOOK.md index d970d41e..fd7ac9f5 100644 --- a/docs/DEPENDABOT_REVIEW_RUNBOOK.md +++ b/docs/DEPENDABOT_REVIEW_RUNBOOK.md @@ -28,7 +28,7 @@ Dependabot is configured to create grouped dependency update PRs weekly (Mondays 2. **NPM Dependencies** (`npm-dependencies` group) - Major version updates for npm packages 3. **GitHub Actions** (`github-dependencies` group) - All updates to GitHub Actions -Minor and patch updates are ignored per the configuration in `.github/dependabot.yml`. +For Python (pip) and NPM dependencies, minor and patch updates are ignored per the configuration in `.github/dependabot.yml`. GitHub Actions dependencies receive all update types, including minor and patch. ## Prerequisites