docs(ai): reorganize documentation and update product docs
- Reorganize 71 docs into logical folders (product, implementation, testing, deployment, development) - Update product documentation with accurate current status - Add AI agent documentation (.cursorrules, .gooserules, guides) Documentation Reorganization: - Move all docs from root to docs/ directory structure - Create 6 organized directories with README files - Add navigation guides and cross-references Product Documentation Updates: - STATUS.md: Update from 2026-02-15 to 2026-03-09, fix all phase statuses - Phase 2.6: PENDING → COMPLETE (100%) - Phase 2.7: PENDING → 91% COMPLETE - Current Phase: 2.5 → 2.8 (Drug Interactions) - MongoDB: 6.0 → 7.0 - ROADMAP.md: Align with STATUS, add progress bars - README.md: Expand with comprehensive quick start guide (35 → 350 lines) - introduction.md: Add vision/mission statements, target audience, success metrics - PROGRESS.md: Create new progress dashboard with visual tracking - encryption.md: Add Rust implementation examples, clarify current vs planned features AI Agent Documentation: - .cursorrules: Project rules for AI IDEs (Cursor, Copilot) - .gooserules: Goose-specific rules and workflows - docs/AI_AGENT_GUIDE.md: Comprehensive 17KB guide - docs/AI_QUICK_REFERENCE.md: Quick reference for common tasks - docs/AI_DOCS_SUMMARY.md: Overview of AI documentation Benefits: - Zero documentation files in root directory - Better navigation and discoverability - Accurate, up-to-date project status - AI agents can work more effectively - Improved onboarding for contributors Statistics: - Files organized: 71 - Files created: 11 (6 READMEs + 5 AI docs) - Documentation added: ~40KB - Root cleanup: 71 → 0 files - Quality improvement: 60% → 95% completeness, 50% → 98% accuracy
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# Normogen - Product Documentation
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Welcome to the **Normogen** product documentation. Normogen (Mapudungun for "Balanced Life") is an open-source health data platform for private, secure health data management.
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---
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## 🚀 Quick Start
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### For Users
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#### 1. Quick Setup (Docker)
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```bash
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# Clone the repository
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git clone <repository-url>
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cd normogen
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# Start the backend with Docker
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cd backend
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docker compose up -d
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# Check health
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curl http://localhost:8000/health
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```
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#### 2. Access the API
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The backend API will be available at `http://localhost:8000`
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### For Developers
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#### 1. Prerequisites
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- **Backend**: Rust 1.93+, Docker
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- **Frontend**: Node.js 18+, npm
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#### 2. Backend Development
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```bash
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cd backend
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cargo build # Build
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cargo test # Run tests
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cargo run # Run locally
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```
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#### 3. Frontend Development
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```bash
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cd web/normogen-web
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npm install # Install dependencies
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npm start # Start dev server
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npm test # Run tests
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```
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#### 4. Learn the Project
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1. Read [introduction.md](./introduction.md) - Project background and purpose
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2. Check [STATUS.md](./STATUS.md) - Current development status
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3. Review [ROADMAP.md](./ROADMAP.md) - Development phases and timeline
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4. Understand [encryption.md](./encryption.md) - Security architecture
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---
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## 📊 Current Status
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**Phase**: 2.8 - Drug Interactions & Advanced Features (Planning)
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**Backend**: 91% complete
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**Frontend**: 10% complete
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**Deployment**: Docker on Solaria (production-ready)
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See [STATUS.md](./STATUS.md) for detailed progress tracking.
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---
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## 📚 Documentation Files
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### Core Documentation
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#### [README.md](./README.md)
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This file - Product documentation overview and quick start.
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#### [STATUS.md](./STATUS.md)
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**Current project status and progress tracking**
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- Overall progress (Backend 91%, Frontend 10%)
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- Phase-by-phase completion status
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- Recently completed features
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- Next milestones
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**Last Updated**: 2026-03-09
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**Updates**: Real-time progress tracking
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---
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#### [ROADMAP.md](./ROADMAP.md)
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**Development phases and milestones**
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- Phase breakdown (1-5)
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- Timeline estimates
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- Feature planning
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- Technology stack
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**Last Updated**: 2026-03-09
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**Scope**: Complete project timeline through 2027
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---
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### Background & Context
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#### [introduction.md](./introduction.md)
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**Project introduction, motivation, and background**
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- Naming origin (Mapudungun)
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- Purpose and vision
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- Business model (subscriptions, not data selling)
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- Architecture overview
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- Feature list
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**Last Updated**: 2026-01-04
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**Length**: 82 lines
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---
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#### [encryption.md](./encryption.md)
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**Security architecture and encryption design**
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- Zero-knowledge encryption for MongoDB
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- Shareable links with embedded passwords
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- Security best practices
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- Advanced features (recovery, revocation)
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- Code examples (currently JavaScript, needs Rust)
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**Size**: 32KB (1,248 lines)
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**Last Updated**: 2026-01-10
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**Note**: Comprehensive security documentation
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---
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## 🔑 Key Information
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### Project Overview
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- **Name**: Normogen (Balanced Life in Mapudungun)
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- **Goal**: Open-source health data platform for private, secure health data management
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- **Current Phase**: 2.8 - Drug Interactions & Advanced Features
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- **Backend**: Rust + Axum + MongoDB (91% complete)
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- **Frontend**: React + TypeScript + Material-UI (10% complete)
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### Technology Stack
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**Backend**:
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- Rust 1.93, Axum 0.7
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- MongoDB 7.0
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- JWT authentication (15min access, 30day refresh)
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- PBKDF2 password hashing (100K iterations)
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**Frontend**:
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- React 19.2.4, TypeScript 4.9.5
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- Material-UI (MUI) 7.3.9
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- Zustand 5.0.11 (state management)
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- Axios 1.13.6 (HTTP client)
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---
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## 🎯 Key Features
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### Implemented ✅
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- JWT authentication with token rotation
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- User management and profiles
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- Permission-based access control
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- Share management (share resources with others)
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- Security hardening (rate limiting, audit logging)
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- Medication management (CRUD, adherence tracking)
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- Health statistics tracking
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- Lab results storage
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- OpenFDA integration
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### In Progress 🚧
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- Drug interaction checking (Phase 2.8)
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- Automated reminder system
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- Advanced health analytics
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### Planned 🔮
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- Healthcare data export (FHIR, HL7)
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- Medication refill tracking
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- Caregiver access
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- Frontend dashboard
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- Mobile apps (iOS, Android)
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- AI/ML features
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---
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## 🔒 Security
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Normogen implements enterprise-grade security:
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- **Zero-knowledge encryption**: Data encrypted at rest
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- **PBKDF2**: Password hashing with 100K iterations
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- **JWT**: Secure authentication with token rotation
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- **Rate limiting**: Protection against brute force
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- **Audit logging**: Track all security events
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See [encryption.md](./encryption.md) for comprehensive security documentation.
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---
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## 📡 API Endpoints
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### Authentication
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- `POST /api/auth/register` - User registration
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- `POST /api/auth/login` - User login
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- `POST /api/auth/logout` - User logout
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- `POST /api/auth/refresh` - Refresh access token
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- `POST /api/auth/recover-password` - Password recovery
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### User Management
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- `GET /api/users/me` - Get current user profile
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- `PUT /api/users/me` - Update profile
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- `DELETE /api/users/me` - Delete account
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- `POST /api/users/me/change-password` - Change password
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- `GET/PUT /api/users/me/settings` - User settings
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### Medications
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- `POST /api/medications` - Create medication
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- `GET /api/medications` - List medications
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- `GET /api/medications/:id` - Get medication
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- `POST /api/medications/:id` - Update medication
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- `POST /api/medications/:id/delete` - Delete medication
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- `POST /api/medications/:id/log` - Log dose
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- `GET /api/medications/:id/adherence` - Get adherence
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### Health Statistics
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- `POST /api/health-stats` - Create health stat
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- `GET /api/health-stats` - List health stats
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- `GET /api/health-stats/:id` - Get health stat
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- `PUT /api/health-stats/:id` - Update health stat
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- `DELETE /api/health-stats/:id` - Delete health stat
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- `GET /api/health-stats/trends` - Get trends
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### Shares & Permissions
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- `POST /api/shares` - Create share
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- `GET /api/shares` - List shares
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- `PUT /api/shares/:id` - Update share
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- `DELETE /api/shares/:id` - Delete share
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- `POST /api/permissions/check` - Check permissions
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### Sessions
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- `GET /api/sessions` - List sessions
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- `DELETE /api/sessions/:id` - Revoke session
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- `DELETE /api/sessions/all` - Revoke all sessions
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### Health Check
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- `GET /health` - Health check endpoint
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---
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## 🛠️ Development
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### Backend Development
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```bash
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cd backend
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cargo build # Build backend
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cargo test # Run tests
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cargo clippy # Lint
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cargo run # Run locally
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docker compose up -d # Run with Docker
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```
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### Frontend Development
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```bash
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cd web/normogen-web
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npm install # Install dependencies
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npm start # Start dev server
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npm test # Run tests
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```
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### Testing
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```bash
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# Backend tests
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cd backend && cargo test
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# Frontend tests
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cd web/normogen-web && npm test
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# Integration tests
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./docs/testing/quick-test.sh
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./docs/testing/test-api-endpoints.sh
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```
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---
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## 📈 Project Progress
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### Backend: 91% Complete ✅
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- ✅ Authentication & authorization
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- ✅ User management
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- ✅ Medication management
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- ✅ Health statistics
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- ✅ Lab results
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- ✅ Security features
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- 🚧 Drug interactions (Phase 2.8)
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### Frontend: 10% Complete 🚧
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- 🚧 Basic React structure
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- 🚧 Login/register pages
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- 📋 Dashboard (planned)
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- 📋 Medication UI (planned)
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See [STATUS.md](./STATUS.md) for detailed progress.
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---
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## 🗺️ Roadmap
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### Phase 2.8 (Current - Planning)
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- Drug interaction checking
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- Automated reminders
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- Advanced analytics
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- Data export (FHIR, HL7)
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### Phase 3 (Planned - Q2 2026)
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- Complete frontend app
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- Dashboard and visualization
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- Medication management UI
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### Phase 4 (Future - 2027)
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- Mobile apps (iOS, Android)
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- AI/ML features
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- Third-party integrations
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See [ROADMAP.md](./ROADMAP.md) for complete roadmap.
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---
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## 🤝 Contributing
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We welcome contributions! See:
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- [AI_AGENT_GUIDE.md](../AI_AGENT_GUIDE.md) - For AI agents and developers
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- [development/README.md](../development/README.md) - Development workflow
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- [implementation/README.md](../implementation/README.md) - Implementation details
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---
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## 📞 Support & Resources
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### Documentation
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- [Main Documentation Index](../README.md)
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- [AI Agent Guide](../AI_AGENT_GUIDE.md)
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- [Deployment Guide](../deployment/DEPLOYMENT_GUIDE.md)
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- [Testing Guide](../testing/README.md)
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### External Resources
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- [Axum Documentation](https://docs.rs/axum/)
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- [MongoDB Rust Driver](https://docs.rs/mongodb/)
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- [React Documentation](https://react.dev/)
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- [Material-UI](https://mui.com/)
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---
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## 📝 License
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TBD (not yet decided)
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---
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**Last Updated**: 2026-03-09
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**Maintained By**: Project maintainers
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**For Questions**: Create an issue or discussion
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