# Atlas TODO List

## Status Legend
- ⬜ Not started
- 🟨 In progress
- ✅ Done
- ⛔ Blocked

---

## Phase 1: Foundation

| Feature | Status | Dependencies | Notes |
|---------|--------|--------------|-------|
| Project structure | ✅ | None | All directories created |
| Broker skeleton | ✅ | Project structure | Express server with health endpoint |
| PWA shell | ✅ | None | HTML/CSS/JS with 8 tabs |
| Service worker | ✅ | PWA shell | Offline-first caching implemented |
| Manifest.json | ✅ | PWA shell | iPhone installation ready |
| Package.json files | ✅ | None | All components have package.json |
| Environment configs | ✅ | None | All .env.example files created |
| README.md | ✅ | None | Comprehensive setup instructions |

---

## Phase 2: Core Infrastructure

| Feature | Status | Dependencies | Notes |
|---------|--------|--------------|-------|
| SQLite database schema | ✅ | Broker skeleton | Sessions, devices, jobs, agents, transcripts tables |
| Database initialization | ✅ | SQLite schema | Auto-create on startup with indexes |
| Authentication - Pairing flow | ✅ | Database | 6-digit code generation with 10-min expiry |
| Authentication - Token exchange | ✅ | Pairing flow | JWT refresh + access tokens |
| Authentication - Token refresh | ✅ | Token exchange | 15-min access, 90-day refresh |
| Authentication - Device management | ✅ | Token exchange | List/revoke devices |
| WebSocket foundation | ✅ | Broker skeleton | Agent connection handling with registration |
| WebSocket - Reconnection logic | ✅ | WebSocket foundation | Exponential backoff in PC Agent |
| WebSocket - Heartbeat/ping | ✅ | WebSocket foundation | Ping/pong keep-alive |
| Context file CRUD - Read | ✅ | Database | GET /api/context/:file |
| Context file CRUD - Write | ✅ | Read | PUT /api/context/:file with versioning |
| Context file CRUD - List | ✅ | Read | GET /api/context |
| Context - Safe update protocol | ✅ | Write | Version checking, conflict detection |
| Audit logging | ✅ | Database | Append-only JSON lines with helpers |
| Error handling middleware | ✅ | Broker skeleton | Standardized error responses

---

## Phase 3: Voice Integration

| Feature | Status | Dependencies | Notes |
|---------|--------|--------------|-------|
| OpenAI API key management | ✅ | Authentication | Protected in broker service |
| Ephemeral token generation | ✅ | API key mgmt | POST /api/realtime/session |
| OpenAI Realtime API integration | ⬜ | Ephemeral tokens | Will implement when needed |
| Push-to-talk UI | ✅ | PWA shell | Hold button with pulse animation |
| Audio capture | ✅ | Push-to-talk | MediaRecorder API |
| Transcript capture | ✅ | Whisper API | Via /api/whisper |
| Transcript storage | ✅ | Database | Stored with role and device_id |
| Transcript display | ✅ | Transcript storage | Shows in voice interface |
| Whisper API fallback | ✅ | Audio capture | POST /api/whisper |
| TTS fallback | ✅ | Whisper fallback | POST /api/tts |
| Text-only mode | ⬜ | PWA shell | Can implement when needed |
| Voice command parsing | ✅ | Transcript capture | 10+ Atlas commands |
| Interruption handling | ⬜ | Realtime API | For Realtime API integration |
| Voice error handling | ✅ | All voice features | Try/catch with user notifications |

---

## Phase 4: ADHD Features

| Feature | Status | Dependencies | Notes |
|---------|--------|--------------|-------|
| Focus copilot - Task breakdown | ⬜ | Context CRUD | Break into smallest steps |
| Focus copilot - Drift detection | ⬜ | Transcript analysis | Detect topic changes |
| Focus copilot - Breadcrumb system | ⬜ | Context CRUD | Save state before interruption |
| NOW/NEXT/LATER model | ✅ | Context CRUD | todos.json schema in todos service |
| NOW enforcement (one item only) | ✅ | NOW/NEXT/LATER | Enforced in service + UI |
| NEXT auto-promotion | ✅ | NOW enforcement | Auto-promotes on NOW complete/delete |
| Todo CRUD operations | ✅ | NOW/NEXT/LATER | Full REST API + PWA UI |
| Todo drag-to-reorder | ⬜ | Todo CRUD | Can implement later |
| Todo swipe actions | ⬜ | Todo CRUD | Can implement later |
| Focus sprint - Timer system | ✅ | PWA shell | 5/15/25/50 min with progress bar |
| Focus sprint - Start flow | ✅ | Timer system | Auto-detects current task |
| Focus sprint - During indicators | ✅ | Timer system | Live countdown + progress visual |
| Focus sprint - End flow | ✅ | Timer system | Completion sound + auto-restart offer |
| Resume UX | ✅ | Context CRUD | Work session tracking + interruption detection |
| Memory capture - Extraction | ✅ | Transcript analysis | Pattern matching for commitments/decisions/facts |
| Memory capture - Approval UI | ✅ | Extraction | Dialog with tier selection |
| Memory capture - Storage | ✅ | Approval UI | Saves to memory_*.json with metadata |
| Memory tiers - Short-term | ✅ | Memory storage | 24h auto-expire with hourly cleanup |
| Memory tiers - Working | ✅ | Memory storage | Active projects |
| Memory tiers - Long-term | ✅ | Memory storage | Permanent storage |
| Memory promotion | ✅ | Memory tiers | Progressive promotion short→working→long |
| Memory search | ✅ | Memory storage | Search with relevance scoring |
| Memory edit/delete | ✅ | Memory storage | Full CRUD with UI controls |

---

## Phase 5: PC Agent

| Feature | Status | Dependencies | Notes |
|---------|--------|--------------|-------|
| PC Agent scaffold | ⬜ | None | Node.js project structure |
| Agent configuration | ⬜ | Scaffold | BROKER_URL, ALLOWED_DIRS |
| WebSocket client | ⬜ | Agent scaffold | Auto-reconnect with backoff |
| Token storage - Windows | ⬜ | WebSocket client | Credential Vault |
| Agent registration | ⬜ | Token storage | First-time pairing |
| Job queue - Receive | ⬜ | WebSocket client | Listen for job.new |
| Job queue - Accept | ⬜ | Receive | Validate capability level |
| Job execution framework | ⬜ | Job queue | Generic runner interface |
| Checkpoint system | ⬜ | Job execution | Create before execution |
| File operations - Read | ⬜ | Job execution | Read files |
| File operations - Write | ⬜ | Job execution | Write to allowed dirs only |
| File operations - Delete | ⬜ | Job execution | Requires confirmation |
| Path validation | ⬜ | File operations | Check against allowlist |
| Script runner - Allowlist | ⬜ | Job execution | Pre-approved scripts |
| Script runner - Hash validation | ⬜ | Allowlist | Content verification |
| Script runner - Execution | ⬜ | Hash validation | Sandboxed execution |
| Browser automation - Setup | ⬜ | Job execution | Playwright installation |
| Browser automation - Navigation | ⬜ | Setup | Navigate to URLs |
| Browser automation - Interaction | ⬜ | Navigation | Click, type, screenshot |
| Browser automation - Domain allowlist | ⬜ | Navigation | Security restriction |
| Rollback - File snapshots | ⬜ | Checkpoint system | Before state capture |
| Rollback - Execution | ⬜ | File snapshots | Restore previous state |
| Progress reporting | ⬜ | Job execution | Send job.progress messages |
| Result reporting | ⬜ | Job execution | Send job.completed/failed |
| Error handling | ⬜ | Job execution | Graceful failure |
| Capability levels | ⬜ | Job execution | READ_ONLY/STANDARD/ELEVATED/ADMIN |
| Logging | ⬜ | Job execution | Local log files |

---

## Phase 6: Polish

| Feature | Status | Dependencies | Notes |
|---------|--------|--------------|-------|
| Onboarding - Welcome screen | ⬜ | PWA shell | First launch detection |
| Onboarding - Communication style | ⬜ | Welcome screen | Gentle/Direct/Minimal |
| Onboarding - Focus preferences | ⬜ | Communication style | Default sprint duration |
| Onboarding - Memory & privacy | ⬜ | Focus preferences | Approval flow explanation |
| Onboarding - First win | ⬜ | Memory & privacy | Add first task |
| Onboarding - Completion | ⬜ | First win | Save preferences, go to home |
| Workflow builder - UI | ⬜ | PWA shell | Visual workflow creation |
| Workflow builder - Trigger config | ⬜ | UI | Define trigger conditions |
| Workflow builder - Action config | ⬜ | UI | Define action steps |
| Workflow builder - Testing | ⬜ | Action config | Dry-run capability |
| Workflow detection | ⬜ | Audit log | Pattern recognition |
| Workflow proposals | ⬜ | Detection | Suggest automation |
| Workflow approval | ⬜ | Proposals | User review and approve |
| Workflow execution | ⬜ | Approval | Run approved workflows |
| Testing - Unit tests | ⬜ | All components | Jest, 80% coverage target |
| Testing - Integration tests | ⬜ | All components | API, WebSocket tests |
| Testing - E2E tests | ⬜ | All components | Playwright PWA tests |
| Documentation - Setup guide | ⬜ | README | Installation steps |
| Documentation - API reference | ⬜ | Setup guide | All endpoints documented |
| Documentation - Architecture | ⬜ | API reference | System design docs |
| Documentation - User guide | ⬜ | Architecture | How to use Atlas |

---

## Atlas Persona & Emotional Awareness

| Feature | Status | Dependencies | Notes |
|---------|--------|--------------|-------|
| Tone states implementation | ⬜ | Voice integration | Gentle/Direct/Firm/Coaching/Executive |
| Emotional signal detection | ⬜ | Transcript analysis | Voice pace, language patterns |
| Tone adaptation logic | ⬜ | Signal detection | Auto-adjust based on signals |
| User tone overrides | ⬜ | Voice commands | "Atlas be gentle/direct/firm" |
| Phrase bank integration | ⬜ | Tone states | Use approved phrases |
| Response length control | ⬜ | Tone adaptation | Max 15 words for routine |
| Daily briefing | ⬜ | Context CRUD | First interaction of day |
| End of day review | ⬜ | Context CRUD | 6pm or user-initiated |
| Overload triage | ⬜ | Emotional awareness | When overwhelm detected |

---

## Learning & Continuous Improvement

| Feature | Status | Dependencies | Notes |
|---------|--------|--------------|-------|
| Learning pipeline - Observe | ⬜ | Audit log | Track approvals, corrections |
| Learning pipeline - Analyze | ⬜ | Observe | Daily pattern analysis |
| Learning pipeline - Propose | ⬜ | Analyze | Preference suggestions |
| Learning pipeline - Persist | ⬜ | Propose | Save approved preferences |
| Pattern detection - Time-based | ⬜ | Learning pipeline | Peak focus hours |
| Pattern detection - Task-based | ⬜ | Learning pipeline | Email batching, etc. |
| Pattern detection - Interaction | ⬜ | Learning pipeline | Tone preferences |
| Preference storage | ⬜ | Learning pipeline | preferences.json |
| Preference UI | ⬜ | Preference storage | View/edit all preferences |

---

## Security & Reliability

| Feature | Status | Dependencies | Notes |
|---------|--------|--------------|-------|
| API key protection | ✅ | Architecture | Never in frontend |
| Token expiry handling | ⬜ | Authentication | Auto-refresh before expiry |
| Device revocation | ⬜ | Device management | Immediate invalidation |
| Action approval levels | ⬜ | PC Agent | Level 0-3 enforcement |
| Audit log integrity | ⬜ | Audit logging | Append-only, tamper-evident |
| Rate limiting | ⬜ | Broker server | Prevent abuse |
| Input validation | ⬜ | All APIs | Sanitize all inputs |
| XSS prevention | ⬜ | PWA | Content Security Policy |
| HTTPS enforcement | ⬜ | Deployment | TLS/SSL required |
| Backup system | ⬜ | Database | Automated backups |
| Error recovery | ⬜ | All components | Graceful degradation |

---

## Deployment & Operations

| Feature | Status | Dependencies | Notes |
|---------|--------|--------------|-------|
| Development environment | ⬜ | README | Local setup instructions |
| Production build - Broker | ⬜ | Broker complete | npm run build |
| Production build - PWA | ⬜ | PWA complete | Static asset optimization |
| Production build - PC Agent | ⬜ | Agent complete | Windows service installer |
| Health monitoring | ⬜ | Broker server | /health endpoints |
| Logging system | ⬜ | All components | Structured logging |
| Performance monitoring | ⬜ | Production | Track response times |
| Database migrations | ⬜ | Database | Version management |

---

## Open Questions
- Which hosting provider for broker server? (VPS, home server, cloud?)
- SSL certificate generation strategy for local development?
- Icon design - hire designer or use simple text-based logo?
- Voice quality vs. cost balance - what's acceptable daily spend?

---

## Session Log

### Session 1 - 2026-01-10

**Completed:**
- ✅ Project directory structure (all folders)
- ✅ Broker server skeleton with Express
- ✅ Health endpoints (/health, /health/detailed)
- ✅ WebSocket scaffolding for PC Agent
- ✅ PWA HTML shell with all 8 tabs
- ✅ PWA CSS with ADHD-friendly design (44px touch targets, 16px+ text)
- ✅ PWA JavaScript with tab navigation
- ✅ Service worker with offline-first caching
- ✅ manifest.json for iPhone installation
- ✅ Broker package.json and .env.example
- ✅ PWA package.json
- ✅ TODO LIST.md initialized

**Files Created:**
- Atlas/broker/package.json
- Atlas/broker/src/server.js
- Atlas/broker/.env.example
- Atlas/pwa/package.json
- Atlas/pwa/public/index.html
- Atlas/pwa/public/styles.css
- Atlas/pwa/public/app.js
- Atlas/pwa/public/sw.js
- Atlas/pwa/public/manifest.json
- Atlas/pwa/public/icons/README.md
- Atlas/TODO LIST.md

**Next Session (Phase 1 Completion):**
1. Create PC Agent package.json and scaffold
2. Create .env.example for PWA and PC Agent
3. Create comprehensive README.md with:
   - Project overview
   - Installation instructions for all components
   - Development setup guide
   - Environment variable documentation
4. Create placeholder icon files or instructions
5. Test broker server health endpoint
6. Test PWA loads correctly
7. Verify service worker registration

**Next Session (Phase 2 Start):**
1. Design SQLite database schema
2. Implement database initialization
3. Build authentication system (pairing flow)
4. Implement JWT token generation/validation
5. Build context file CRUD operations
6. Set up audit logging system

### Session 2 - 2026-01-10 (Continued)

**Completed:**
- ✅ SQLite database with complete schema (devices, pairing_codes, access_tokens, agents, jobs, transcripts)
- ✅ Database service with prepared statements
- ✅ Authentication service (pairing codes, JWT tokens, device management)
- ✅ Authentication middleware for protected routes
- ✅ Auth API routes (pair/initiate, pair/complete, session, devices, realtime/session)
- ✅ Context file service with version checking
- ✅ Context API routes (list, read, write with conflict detection)
- ✅ Audit logging system (append-only JSON lines)
- ✅ Enhanced WebSocket with agent registration and job tracking
- ✅ Server initialization with context files and periodic cleanup
- ✅ Updated PC Agent to handle registration acknowledgment

**Files Created/Modified:**
- Atlas/broker/src/services/database.js (NEW)
- Atlas/broker/src/services/auth.js (NEW)
- Atlas/broker/src/services/context.js (NEW)
- Atlas/broker/src/services/audit.js (NEW)
- Atlas/broker/src/middleware/auth.js (NEW)
- Atlas/broker/src/routes/auth.js (NEW)
- Atlas/broker/src/routes/context.js (NEW)
- Atlas/broker/src/server.js (UPDATED)
- Atlas/pc-agent/src/agent.js (UPDATED)
- Atlas/TODO LIST.md (UPDATED)

**Technical Highlights:**
- JWT-based authentication with 15-min access tokens and 90-day refresh tokens
- 6-digit pairing codes with 10-minute expiry
- SQLite with WAL mode for better concurrency
- Prepared statements for all database operations
- Version checking on context file updates to prevent conflicts
- Comprehensive audit logging for all state changes
- WebSocket agent registration with database tracking
- Hourly cleanup of expired tokens and pairing codes

**Next Session (Phase 3 - Voice Integration):**
1. Implement OpenAI Realtime API proxy
2. Build Whisper API fallback endpoint
3. Build TTS fallback endpoint
4. Add transcript storage service
5. Create PWA voice UI (push-to-talk button)
6. Implement audio capture in PWA
7. Add voice command parsing
8. Test complete voice flow end-to-end

### Session 3 - 2026-01-10 (Continued)

**Completed:**
- ✅ OpenAI proxy service with Whisper transcription and TTS
- ✅ Voice command parsing ("Atlas, stop/pause/be gentle/etc")
- ✅ Emotional signal detection (frustration, overwhelm, urgency, fatigue)
- ✅ Whisper API endpoint (/api/whisper)
- ✅ TTS API endpoint (/api/tts)
- ✅ Transcript GET endpoint (/api/transcripts)
- ✅ Transcript storage in database
- ✅ Push-to-talk button UI in PWA
- ✅ Audio capture using MediaRecorder API
- ✅ Voice interface styling with pulse animation
- ✅ Transcript display UI
- ✅ Integrated all voice routes in server

**Files Created/Modified:**
- Atlas/broker/src/services/openai.js (NEW)
- Atlas/broker/src/routes/voice.js (NEW)
- Atlas/broker/package.json (UPDATED - added form-data dependency)
- Atlas/pwa/public/voice.js (NEW)
- Atlas/pwa/public/index.html (UPDATED - added voice interface)
- Atlas/pwa/public/styles.css (UPDATED - added voice styles)
- Atlas/pwa/public/app.js (UPDATED - initialize voice)
- Atlas/pwa/public/sw.js (UPDATED - cache voice.js)
- Atlas/broker/src/server.js (UPDATED - integrated voice routes)
- Atlas/TODO LIST.md (UPDATED)

**Technical Highlights:**
- Push-to-talk interface (hold to record, release to transcribe)
- Automatic voice command detection for 10+ Atlas commands
- Emotional signal detection for adaptive tone responses
- Transcript storage with role tracking (user/assistant)
- TTS with configurable voice and speed
- Temp file handling for Whisper API compatibility
- Automatic cleanup of temp audio files
- PWA service worker updated for offline voice UI
- Responsive voice button with pulse animation during recording

**Next Session (Phase 4 - ADHD Features):**
1. Implement NOW/NEXT/LATER todo model
2. Build todo CRUD operations
3. Add todo UI with drag-to-reorder
4. Implement focus sprint timer system
5. Build memory capture with approval flow
6. Create memory tiers (short/working/long-term)
7. Add resume UX for interrupted work
8. Integrate OpenAI for Atlas responses (not just transcription)

### Session 4 - 2026-01-10 (Continued)

**Completed:**
- ✅ NOW/NEXT/LATER todo model with strict enforcement
- ✅ Todo service with auto-promotion logic
- ✅ Todo CRUD API routes with conflict detection
- ✅ Todo UI with NOW/NEXT/LATER/DONE sections
- ✅ Todo creation and editing in PWA
- ✅ Focus sprint timer (5/15/25/50 minute options)
- ✅ Sprint progress bar and countdown display
- ✅ Sprint completion sound and auto-restart offer
- ✅ Resume UX with work session tracking
- ✅ Interruption detection via page visibility API
- ✅ Event-driven integration between todos/sprints/resume
- ✅ Complete styling for all ADHD features
- ✅ Offline support for all ADHD features

**Files Created/Modified:**
- Atlas/broker/src/services/todos.js (NEW)
- Atlas/broker/src/routes/todos.js (NEW)
- Atlas/pwa/public/todos.js (NEW)
- Atlas/pwa/public/sprints.js (NEW)
- Atlas/pwa/public/resume.js (NEW)
- Atlas/broker/src/server.js (UPDATED - added todo routes)
- Atlas/pwa/public/index.html (UPDATED - added sprint timer and DONE section)
- Atlas/pwa/public/app.js (UPDATED - initialize todos, sprints, resume)
- Atlas/pwa/public/styles.css (UPDATED - added extensive todo and sprint styles)
- Atlas/pwa/public/sw.js (UPDATED - cache v5 with all new scripts)
- Atlas/TODO LIST.md (UPDATED)

**Technical Highlights:**
- NOW can only contain ONE item - strictly enforced at API level
- NEXT limited to 3 items max with overflow to LATER
- Auto-promotion: when NOW completes/deletes, first NEXT item moves to NOW automatically
- Sprint timer uses localStorage for persistence across page reloads
- Resume UX tracks work sessions and detects interruptions via visibility API
- Event-driven architecture: todos/sprints dispatch events for resume system
- Sprint completion includes Web Audio API beep sound
- Intelligent resume dialog shows last task, time ago, and suggestions
- Todo items show relative timestamps ("5m ago", "2h ago", etc.)
- Visual distinction for NOW item (gradient background, accent border)
- Progress bar for sprint with smooth linear animation
- Collapsible sections for NEXT/LATER/DONE to reduce cognitive load

**Key ADHD-Specific Design Decisions:**
1. ONE thing in NOW - reduces decision paralysis and context switching
2. Limited NEXT queue (3 max) - prevents overwhelming task lists
3. Auto-promotion - removes friction of choosing what's next
4. Sprint timer presets - eliminates decision about duration
5. Resume UX - critical for ADHD users who face frequent interruptions
6. Visual progress indicators - provides dopamine feedback during sprints
7. Completion sound - auditory reward for finishing sprint
8. Working state glow - visual confirmation of active session

**Next Session (Phase 5 - PC Agent or continue Phase 4):**
Option A - Continue Phase 4:
1. Build memory capture with approval flow
2. Create memory tiers (short/working/long-term)
3. Add task breakdown AI assistance
4. Implement drift detection

Option B - Start Phase 5 (PC Agent):
1. Complete PC Agent WebSocket integration
2. Implement job queue system
3. Build file operation capabilities
4. Add browser automation with Playwright

### Session 5 - 2026-01-10 (Continued)

**Phase 4 Completed - Memory System:**
- ✅ Memory service with three tiers (short/working/long-term)
- ✅ Memory API routes with full CRUD operations
- ✅ Memory extraction from transcripts with pattern matching
- ✅ Memory promotion between tiers
- ✅ Memory search across all tiers
- ✅ Memory approval flow UI
- ✅ Memory display with search and filtering
- ✅ Automatic cleanup of expired short-term memories (24h TTL)

**Phase 5 Completed - PC Agent:**
- ✅ Complete job queue system with concurrent execution
- ✅ File operations with path validation and allowlist
- ✅ Job executor with capability levels (read_only/standard/elevated/admin)
- ✅ Script execution with command whitelist
- ✅ System information reporting
- ✅ Job status tracking and history
- ✅ Job cancellation support
- ✅ WebSocket integration with broker

**Files Created/Modified (Phase 4 - Memory):**
- Atlas/broker/src/services/memory.js (NEW)
- Atlas/broker/src/routes/memory.js (NEW)
- Atlas/pwa/public/memory.js (NEW)
- Atlas/broker/src/server.js (UPDATED - added memory routes & cleanup)
- Atlas/pwa/public/index.html (UPDATED - enhanced Memory tab)
- Atlas/pwa/public/app.js (UPDATED - initialize memory)
- Atlas/pwa/public/styles.css (UPDATED - memory UI styling)
- Atlas/pwa/public/sw.js (UPDATED - cache v6 with memory.js)

**Files Created/Modified (Phase 5 - PC Agent):**
- Atlas/pc-agent/src/fileOps.js (NEW)
- Atlas/pc-agent/src/jobExecutor.js (NEW)
- Atlas/pc-agent/src/jobQueue.js (NEW)
- Atlas/pc-agent/src/agent.js (UPDATED - full job execution)
- Atlas/pc-agent/.env.example (UPDATED - capability levels)

**Technical Highlights (Memory System):**
- Three-tier memory architecture: Short-term (24h auto-expire), Working (active projects), Long-term (permanent)
- Memory extraction uses pattern matching for commitments, decisions, and facts
- Promotion workflow: short → working → long (one-way, progressive)
- Search with relevance scoring (content match > tag match > type match)
- Automatic hourly cleanup of expired short-term memories
- Manual memory creation with type classification
- Memory metadata includes source tracking (manual/transcript/conversation)

**Technical Highlights (PC Agent):**
- Job queue supports up to 3 concurrent jobs
- Capability levels enforce security boundaries:
  - `read_only`: File reading only
  - `standard`: Read + write to allowed directories
  - `elevated`: Can execute whitelisted commands (git, npm, node, etc.)
  - `admin`: Full system access (not yet implemented - reserved for future)
- Path validation ensures all file operations stay within ALLOWED_DIRS
- Job execution tracks status: queued → running → completed/failed/cancelled
- Job history maintains last 50 completed jobs
- Script execution includes command whitelist for security
- Comprehensive error handling and reporting

**Supported Job Types:**
1. `file.read` - Read file content
2. `file.write` - Write/create files
3. `file.delete` - Delete files (requires confirmation)
4. `file.list` - List directory contents
5. `file.mkdir` - Create directories
6. `file.exists` - Check if path exists
7. `script.run` - Execute whitelisted commands
8. `system.info` - Get system information

**Security Features:**
- Path allowlist prevents access to sensitive directories
- Capability level enforcement at job execution time
- Command whitelist for script execution
- Confirmation required for destructive operations (delete)
- Job validation before execution

**Next Steps:**
Phase 4 & 5 are functionally complete. Remaining optional enhancements:
1. Focus copilot features (task breakdown, drift detection)
2. Browser automation with Playwright
3. Onboarding flow for PWA
4. Workflow builder and automation
5. Learning pipeline and preference adaptation
6. Testing suite (unit, integration, E2E)

### Session 6 - 2026-01-11

**Production Deployment & Authentication Improvements:**
- ✅ WebAuthn passkey authentication with database persistence
- ✅ WebAuthn users and credentials now persist in SQLite database
- ✅ Fixed authentication token validation in middleware to support both pairing and WebAuthn JWT tokens
- ✅ Conversational UI redesign for more personal, assistant-like feel
- ✅ Dynamic time-based greetings (Good morning/Hey/Good evening)
- ✅ Voice-first interface with large "Talk to Atlas" button
- ✅ Suggestion chips for common commands
- ✅ Collapsed sprint timer by default to reduce cognitive load
- ✅ Fixed connection status showing "Offline" after authentication
- ✅ Toast notification system for user feedback
- ✅ Deployed to production at https://adampowell.pro/atlas
- ✅ Cache version bumped to v12

**Files Created/Modified:**
- Atlas/broker/src/services/database.js (UPDATED - added webauthn_users and webauthn_credentials tables)
- Atlas/broker/src/routes/auth.js (UPDATED - migrated from in-memory Map to database)
- Atlas/broker/src/middleware/auth.js (UPDATED - supports both token types)
- Atlas/pwa/public/auth.js (UPDATED - pre-filled "Adam" username, readonly)
- Atlas/pwa/public/index.html (UPDATED - conversational greeting UI, v12 cache)
- Atlas/pwa/public/app.js (UPDATED - greeting initialization, connection status fix)
- Atlas/pwa/public/styles.css (UPDATED - voice-first UI styling)
- Atlas/pwa/public/sw.js (UPDATED - v12 cache)

**Technical Highlights:**
- **WebAuthn Database Persistence**: Users and credentials now stored in SQLite instead of in-memory Map
  - `webauthn_users` table: username, user_id, device_id, created_at
  - `webauthn_credentials` table: credential_id, public_key, counter, created_at
  - Survives server restarts - no more lost authentication
- **Dual Token Support**: Auth middleware verifies both pairing-based access tokens AND WebAuthn JWT tokens
- **Username Restriction**: Only "Adam" can register/authenticate (enforced at API level)
- **Conversational Design**: Shifted from task manager feel to personal AI assistant
  - Large voice button as primary interaction
  - Time-based personalized greetings
  - Suggestion chips for discoverability
  - Collapsed advanced features by default
- **Connection Status Fix**: Sets `state.connected = true` after successful authentication

**Security Improvements:**
- Passkey credentials persisted securely in database with proper indexing
- JWT tokens expire after 30 days (configurable)
- Challenge cleanup runs every 60 seconds to prevent memory bloat
- Database foreign key constraints ensure referential integrity

**User Experience Improvements:**
- Login screen pre-fills "Adam" (readonly) for faster auth
- "Sign In with Passkey" button clearly indicates auth method
- Toast notifications provide clear feedback (success/error/info)
- Time-aware greetings create personal connection
- Voice interface prioritized for hands-free operation

**Deployment:**
- Successfully deployed to https://adampowell.pro/atlas
- Nginx proxy configured for /atlas path
- Service running via systemd (atlas.service)
- Cache version v12 deployed

**Next Session:**
Phase 6 - Polish & Production Readiness:
1. Implement voice command handling beyond transcription
2. Add PC Agent pairing and control from PWA
3. Onboarding flow for first-time users
4. Comprehensive testing suite
5. Performance monitoring and optimization