fix: resolve pre-commit issues after merge from main

- Fix end-of-file issues in research documentation
- Fix markdownlint issues auto-corrected by pre-commit hooks
- All pre-commit checks now passing

Author: iaminawe

docs/research/codebase-context/code-analyst.md

@@ -279,4 +279,3 @@ You are running in a **subprocess** to do deep code analysis without overwhelmin
 Your findings will be combined with the Information Analyst's findings (from docs) to create complete context.
 
 ```
-

docs/research/codebase-context/context_bootstrap.md

@@ -56,4 +56,3 @@ You operate as the manager orchestrating two specialists:
 - **Code Analyst** – inspects source, dependencies, APIs, data models, integrations; returns summarized findings plus validation questions.
 - **Information Analyst** – reviews documentation artifacts, diagrams, and in-code commentary; returns inventories, rationale evidence, gaps, and conflicts.
   Keep subprocess outputs concise. Integrate their findings into user conversations and documentation.
-

docs/research/codebase-context/information-analyst.md

@@ -282,4 +282,3 @@ You are running in a **subprocess** to do deep information extraction without ov
 Your findings will be combined with the Code Analyst's findings to create complete context. The Code Analyst tells the manager WHAT and HOW from code. You tell the manager WHY from documentation.
 
 Together, you give the manager everything needed to write accurate PRDs, meaningful ADRs with rationale, and complete SYSTEM-OVERVIEW documentation.
-

prompts/generate-codebase-context.md

@@ -591,6 +591,7 @@ src/api/routes/users.ts:25 (HTTP endpoint)
 ```
 
 **Event-Driven (Async):**
+
 ```text
 
 PaymentService.processCharge() (src/services/PaymentService.ts:89)
@@ -603,15 +604,18 @@ PaymentService.processCharge() (src/services/PaymentService.ts:89)
 ### 4.3 Architectural Patterns
 
 #### 🟢 Layered Architecture
+
 - **Evidence:** Clear separation: API → Services → Repositories → Database
 - **Rationale:** [Not explicitly documented]
 - **[User stated: "Standard pattern for maintainability"]**
 
 #### 🟢 Dependency Injection
+
 - **Evidence:** Services injected via constructor (src/services/*.ts)
 - **Implementation:** Custom DI container (src/di/container.ts:12)
 
 #### 🟡 Event-Driven (Partial)
+
 - **Evidence:** Event bus exists (src/events/bus.ts)
 - **Usage:** Only for email notifications, not fully adopted
 - **[User confirmed: "Plan to expand event usage for audit logging"]**
@@ -621,23 +625,27 @@ PaymentService.processCharge() (src/services/PaymentService.ts:89)
 ## 5. Conventions & Standards
 
 ### 5.1 Code Style
+
 - **Linter:** ESLint (eslintrc.json) - Airbnb config
 - **Formatter:** Prettier (prettierrc.json)
 - **TypeScript:** Strict mode enabled (tsconfig.json:5)
 
 ### 5.2 Naming Conventions
+
 - **Files:** camelCase for TS/JS files (userService.ts)
 - **Components:** PascalCase for React (UserProfile.tsx)
 - **Functions:** camelCase (getUserById)
 - **Classes:** PascalCase (UserService)
 - **Constants:** UPPER_SNAKE_CASE (MAX_RETRY_ATTEMPTS)
 
 ### 5.3 File Organization
+
 - **Pattern:** Layer-based (api/, services/, repositories/)
 - **Co-location:** Tests alongside source (userService.ts + userService.test.ts)
 - **Barrel exports:** index.ts files in each directory
 
 ### 5.4 Git Workflow
+
 - **Branching:** Feature branches (feature/*, bugfix/*)
 - **Commits:** Conventional Commits (feat:, fix:, docs:)
 - **PRs:** Required reviews, CI must pass
@@ -647,15 +655,18 @@ PaymentService.processCharge() (src/services/PaymentService.ts:89)
 ## 6. Testing Strategy
 
 ### 6.1 Frameworks
+
 - **Unit:** Jest (package.json:34)
 - **Integration:** Jest + Supertest (for API tests)
 - **E2E:** [None found]
 
 ### 6.2 Coverage
+
 - **Current:** ~75% (from jest.config.js coverage report)
 - **Target:** [User stated: "Aiming for 80%"]
 
 ### 6.3 Patterns
+
 - **Location:** Co-located (*.test.ts alongside source)
 - **Naming:** *.test.ts
 - **Run command:** `npm test`
@@ -665,16 +676,19 @@ PaymentService.processCharge() (src/services/PaymentService.ts:89)
 ## 7. Build & Deployment
 
 ### 7.1 Build Process
+
 - **Tool:** Webpack (webpack.config.js)
 - **Command:** `npm run build`
 - **Output:** dist/ directory
 
 ### 7.2 Environments
+
 - **Development:** Local (npm run dev)
 - **Staging:** [Not configured yet - User confirmed]
 - **Production:** AWS ECS (infrastructure/ecs-task-def.json)
 
 ### 7.3 CI/CD
+
 - **Platform:** GitHub Actions (.github/workflows/ci.yml)
 - **Pipeline:**
   1. Lint check
@@ -767,18 +781,21 @@ Priority files for anyone working on this codebase:
 ## 10. Confidence Summary
 
 ### High Confidence Findings ✅
+
 - Authentication flow (complete code trace + tests)
 - Payment integration (active production usage)
 - Database choice (explicit ADR)
 - Layered architecture (clear code organization)
 - Technology stack (explicit dependencies)
 
 ### Medium Confidence (Needs Validation) ⚠️
+
 - Event-driven pattern (partially implemented)
 - React choice rationale (documented but brief)
 - Target code coverage (stated by user)
 
 ### Low Confidence (Unknown) ❓
+
 - Redis caching decision (no documentation)
 - Deployment to staging (not configured)
 - E2E testing strategy (none found)
@@ -788,6 +805,7 @@ Priority files for anyone working on this codebase:
 ## 11. Open Questions & Gaps
 
 ### For User Validation
+
 1. ❓ **Redis Caching:**
    - Used in src/cache/redis.ts:12
    - No decision documentation found
@@ -798,12 +816,14 @@ Priority files for anyone working on this codebase:
    - User mentioned it exists - where?
 
 ### Documentation Gaps
+
 1. 📝 Need ADR for Redis caching choice
 2. 📝 Update API documentation (currently outdated: 2023-06-15)
 3. 📝 Document event-driven pattern expansion plan
 4. 📝 Remove or document deprecated OAuth code
 
 ### Code Gaps
+
 1. 🔧 Remove deprecated MongoDB client code
 2. 🔧 Remove unused OAuth handlers
 3. 🔧 Add E2E testing framework