Fix: Ensure all skills are tracked as files, not submodules

skills/loki-mode/examples/api-only.md

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+# PRD: REST API Service
+
+## Overview
+A simple REST API for managing notes. Tests Loki Mode's backend-only capabilities.
+
+## Target Users
+Developers who need a notes API.
+
+## API Endpoints
+
+### Notes Resource
+
+#### GET /api/notes
+- Returns list of all notes
+- Response: `[{ id, title, content, createdAt }]`
+
+#### GET /api/notes/:id
+- Returns single note
+- Response: `{ id, title, content, createdAt }`
+- Error: 404 if not found
+
+#### POST /api/notes
+- Creates new note
+- Body: `{ title, content }`
+- Response: `{ id, title, content, createdAt }`
+- Error: 400 if validation fails
+
+#### PUT /api/notes/:id
+- Updates existing note
+- Body: `{ title?, content? }`
+- Response: `{ id, title, content, updatedAt }`
+- Error: 404 if not found
+
+#### DELETE /api/notes/:id
+- Deletes note
+- Response: 204 No Content
+- Error: 404 if not found
+
+### Health Check
+
+#### GET /health
+- Returns `{ status: "ok", timestamp }`
+
+## Tech Stack
+- Runtime: Node.js 18+
+- Framework: Express.js
+- Database: In-memory (array) for simplicity
+- Validation: zod or joi
+- Testing: Jest + supertest
+
+## Requirements
+- Input validation on all endpoints
+- Proper HTTP status codes
+- JSON error responses
+- Request logging
+- Unit tests for each endpoint
+
+## Out of Scope
+- Authentication
+- Database persistence
+- Rate limiting
+- API documentation (OpenAPI)
+- Deployment
+
+## Test Cases
+```
+POST /api/notes with valid data → 201 + note object
+POST /api/notes with missing title → 400 + error
+GET /api/notes → 200 + array
+GET /api/notes/:id with valid id → 200 + note
+GET /api/notes/:id with invalid id → 404
+PUT /api/notes/:id with valid data → 200 + updated note
+DELETE /api/notes/:id → 204
+GET /health → 200 + status object
+```
+
+---
+
+**Purpose:** Tests backend agent capabilities, code review, and QA without frontend complexity.