Merge branch 'main' into fix/1644

Restores the missing GENOME.md file which provides a comprehensive
map of the Nexus codebase for developers and AI agents.

## Contents
- Overview and key stats
- Architecture diagram
- Frontend systems (3D world, GOFAI, memory, audio)
- Backend services (WebSocket, scripts, tools)
- Data files and configuration
- Testing instructions
- Key patterns (component, WebSocket, portal schema)
- Security summary
- Related repos
- Quick start guide

Closes #1644

GENOME.md

@@ -0,0 +1,234 @@
+# GENOME.md — The Nexus Codebase Architecture Map
+
+**Generated**: 2026-04-20
+**Repository**: Timmy_Foundation/the-nexus
+**Purpose**: Comprehensive map of the Nexus codebase for developers and AI agents.
+
+---
+
+## Overview
+
+The Nexus is Timmy's canonical 3D/world repository — a sovereign AI agent visualization surface and local-first training ground. It combines a Three.js 3D browser world with Python cognition components, WebSocket bridges, and fleet orchestration tools.
+
+**Key Stats**:
+- ~357 source files
+- 201 Python files
+- 23 JavaScript files
+- 107 Markdown docs
+- 24 Shell scripts
+
+---
+
+## Architecture
+
+```
+the-nexus/
+├── app.js                    # Main Three.js 3D world (frontend entry)
+├── index.html                # HTML shell
+├── style.css                 # Global styles
+├── server.py                 # WebSocket gateway
+├── gofai_worker.js           # GOFAI web worker
+├── portals.json              # Portal registry
+├── vision.json               # Vision points config
+├── provenance.json           # File integrity hashes
+│
+├── nexus/                    # Python cognition layer
+│   ├── components/           # Frontend JS modules
+│   ├── mnemosyne/            # Memory system
+│   ├── mempalace/            # Long-term memory
+│   └── symbolic-engine.js    # GOFAI rules
+│
+├── scripts/                  # Operational scripts
+├── bin/                      # CLI tools
+├── tests/                    # Test suite
+├── docs/                     # Documentation
+└── config/                   # Configuration files
+```
+
+---
+
+## Frontend (Browser World)
+
+### Entry Points
+| File | Purpose |
+|------|---------|
+| `index.html` | HTML shell, HUD layout |
+| `app.js` | Main Three.js app (~141K lines) |
+| `style.css` | All styles (~61K) |
+| `gofai_worker.js` | Off-thread GOFAI reasoning |
+
+### Core Systems
+| System | File | Description |
+|--------|------|-------------|
+| 3D World | `app.js` | Three.js scene, camera, rendering |
+| GOFAI | `app.js` | Symbolic rules, blackboard, planner |
+| Memory | `nexus/components/spatial-memory.js` | 3D memory crystals |
+| Audio | `nexus/components/spatial-audio.js` | Spatial sound system |
+| Portals | `portals.json` | External service links |
+| Chat | `app.js` | Chat panel and messaging |
+| HUD | `app.js` + `style.css` | Heads-up display |
+
+### Components (`nexus/components/`)
+| Component | Purpose |
+|-----------|---------|
+| `spatial-memory.js` | 3D memory crystal visualization |
+| `spatial-audio.js` | Spatial sound for memories |
+| `memory-birth.js` | Memory creation animation |
+| `memory-pulse.js` | BFS pulse wave on click |
+| `memory-inspect.js` | Memory detail panel |
+| `memory-connections.js` | Connection graph |
+| `memory-particles.js` | Particle effects |
+| `memory-optimizer.js` | Memory cleanup |
+| `session-rooms.js` | Evennia room snapshots |
+| `timeline-scrubber.js` | Time navigation |
+| `resonance-visualizer.js` | Pattern visualization |
+| `portal-health-check.js` | Portal status monitoring |
+| `spatial-chat.js` | 3D audio chat notifications |
+
+---
+
+## Backend (Python)
+
+### Core Services
+| File | Purpose |
+|------|---------|
+| `server.py` | WebSocket gateway for real-time comms |
+| `multi_user_bridge.py` | Multi-user MUD bridge |
+| `gitea_api/` | Gitea API helpers |
+
+### Scripts (`scripts/`)
+| Script | Purpose |
+|--------|---------|
+| `cleanup-duplicate-prs.sh` | Close duplicate PRs |
+| `check-existing-prs.sh` | Pre-flight PR check |
+| `pr_backlog_analyzer.py` | PR backlog analysis |
+| `audit_mempalace_privacy.py` | Privacy audit |
+| `provision-runner.sh` | Runner setup |
+| `runner_health_probe.sh` | Health monitoring |
+
+### Bin Tools (`bin/`)
+| Tool | Purpose |
+|------|---------|
+| `enforce_branch_protection.py` | Branch protection enforcement |
+| `check_duplicate_milestones.py` | Milestone cleanup |
+| `generate_provenance.py` | Provenance hash generation |
+
+---
+
+## Data Files
+
+| File | Format | Purpose |
+|------|--------|---------|
+| `portals.json` | JSON | Portal registry (8 portals) |
+| `vision.json` | JSON | Vision points |
+| `world_state.json` | JSON | World state snapshot |
+| `provenance.json` | JSON | File integrity hashes |
+| `manifest.json` | JSON | PWA manifest |
+
+---
+
+## Configuration
+
+| File | Purpose |
+|------|---------|
+| `.gitea/branch-protection/` | Branch protection rules |
+| `.github/workflows/` | CI/CD workflows |
+| `config/` | Runtime configuration |
+| `pytest.ini` | Test configuration |
+
+---
+
+## Testing
+
+| Directory | Coverage |
+|-----------|----------|
+| `tests/` | Unit and integration tests |
+| `tests/test_provenance.py` | File integrity tests |
+| `tests/test_spatial_search.js` | Spatial search tests |
+
+Run tests:
+```bash
+python3 -m pytest tests/ -v
+node --test tests/*.js
+```
+
+---
+
+## Key Patterns
+
+### Component Pattern
+```javascript
+const ComponentName = (() => {
+  let _state = null;
+  
+  function init(config) { ... }
+  function update(delta) { ... }
+  
+  return { init, update };
+})();
+
+export { ComponentName };
+```
+
+### WebSocket Pattern
+```python
+async def handler(websocket):
+    async for message in websocket:
+        # Process and broadcast
+        pass
+```
+
+### Portal Schema
+```json
+{
+  "id": "portal-id",
+  "name": "Display Name",
+  "portal_type": "game-world",
+  "destination": { "url": "...", "type": "harness" }
+}
+```
+
+---
+
+## Security
+
+- WebSocket gateway binds to `127.0.0.1` by default
+- Optional token authentication via `NEXUS_WS_TOKEN`
+- Rate limiting on connections and messages
+- Branch protection on `main`
+- Provenance hash verification
+
+See `SECURITY.md` for full details.
+
+---
+
+## Related Repos
+
+| Repo | Relationship |
+|------|--------------|
+| `timmy-config` | Configuration and fleet management |
+| `hermes-agent` | Agent runtime |
+| `timmy-home` | SOUL.md and core docs |
+| `the-door` | Crisis detection system |
+
+---
+
+## Quick Start
+
+```bash
+# Clone
+git clone https://forge.alexanderwhitestone.com/Timmy_Foundation/the-nexus.git
+
+# Run WebSocket gateway
+python3 server.py
+
+# Open browser world
+open index.html
+
+# Run tests
+python3 -m pytest tests/
+```
+
+---
+
+*This GENOME.md is auto-maintained. Update when adding major new systems.*

app.js

@@ -734,9 +734,6 @@ async function init() {
     const response = await fetch('./portals.json');
     const portalData = await response.json();
     createPortals(portalData);
-
-    // Start portal hot-reload watcher
-    if (window.PortalHotReload) PortalHotReload.start(5000);
   } catch (e) {
     console.error('Failed to load portals.json:', e);
     addChatMessage('error', 'Portal registry offline. Check logs.');

avatar-customization.css

@@ -1,13 +0,0 @@
-.avatar-name-tag{position:fixed;transform:translate(-50%,-100%);background:rgba(0,0,0,0.7);color:#00ffcc;font-family:'JetBrains Mono',monospace;font-size:12px;padding:2px 8px;border-radius:4px;border:1px solid rgba(0,255,204,0.3);pointer-events:none;z-index:100;white-space:nowrap;text-shadow:0 0 6px rgba(0,255,204,0.5)}
-.avatar-color-picker{position:fixed;top:60px;right:16px;background:rgba(10,15,26,0.95);border:1px solid rgba(0,255,204,0.3);border-radius:8px;padding:12px;z-index:1000;min-width:200px;font-family:'JetBrains Mono',monospace;color:#e0e0e0}
-.avatar-color-picker.hidden{display:none}
-.avatar-picker-header{display:flex;justify-content:space-between;align-items:center;margin-bottom:12px;font-size:14px;color:#00ffcc}
-.avatar-picker-close{background:none;border:none;color:#666;font-size:18px;cursor:pointer}
-.avatar-picker-name{margin-bottom:12px}
-.avatar-picker-name label{display:block;font-size:10px;color:#666;text-transform:uppercase;margin-bottom:4px}
-.avatar-picker-name input{width:100%;background:rgba(255,255,255,0.05);border:1px solid rgba(0,255,204,0.2);border-radius:4px;color:#e0e0e0;padding:6px 8px;font-family:inherit;font-size:13px;outline:none}
-.avatar-picker-colors label{display:block;font-size:10px;color:#666;text-transform:uppercase;margin-bottom:6px}
-.avatar-color-grid{display:grid;grid-template-columns:repeat(4,1fr);gap:6px}
-.avatar-color-swatch{width:36px;height:36px;border-radius:50%;border:2px solid transparent;cursor:pointer;transition:border-color 0.15s,transform 0.15s}
-.avatar-color-swatch:hover{transform:scale(1.15)}
-.avatar-color-swatch.active{border-color:white;box-shadow:0 0 8px currentColor}

avatar-customization.js

@@ -1,38 +0,0 @@
-const AvatarCustomization = (() => {
-  let avatarMesh = null, nameTagDiv = null, colorPickerPanel = null;
-  let currentColor = '#00ffcc', currentName = 'Visitor', _scene = null, _camera = null;
-  const STORAGE_KEY = 'nexus-avatar-prefs';
-  const PRESET_COLORS = [
-    {name:'Teal',hex:'#00ffcc'},{name:'Cyan',hex:'#00ccff'},{name:'Purple',hex:'#9966ff'},
-    {name:'Pink',hex:'#ff66aa'},{name:'Orange',hex:'#ff8833'},{name:'Gold',hex:'#ffcc00'},
-    {name:'Red',hex:'#ff3333'},{name:'Green',hex:'#33ff66'},
-  ];
-  function loadPrefs(){try{const r=localStorage.getItem(STORAGE_KEY);if(r){const p=JSON.parse(r);if(p.color)currentColor=p.color;if(p.name)currentName=p.name;}}catch(e){}}
-  function savePrefs(){try{localStorage.setItem(STORAGE_KEY,JSON.stringify({color:currentColor,name:currentName}));}catch(e){}}
-  function createAvatarMesh(color){
-    const geo=new THREE.CapsuleGeometry(0.3,0.8,8,16);
-    const mat=new THREE.MeshStandardMaterial({color:new THREE.Color(color),emissive:new THREE.Color(color).multiplyScalar(0.3),metalness:0.3,roughness:0.5});
-    const mesh=new THREE.Mesh(geo,mat);mesh.position.set(0,1.2,0);mesh.castShadow=true;return mesh;
-  }
-  function updateAvatarColor(hex){
-    currentColor=hex;if(avatarMesh){avatarMesh.material.color.set(hex);avatarMesh.material.emissive.set(new THREE.Color(hex).multiplyScalar(0.3));}
-    document.querySelectorAll('.avatar-color-swatch').forEach(el=>el.classList.toggle('active',el.dataset.color===hex));savePrefs();
-  }
-  function createNameTag(name){const d=document.createElement('div');d.className='avatar-name-tag';d.textContent=name;document.body.appendChild(d);return d;}
-  function updateNameTagPosition(){if(!nameTagDiv||!_camera)return;const pos=new THREE.Vector3(0,2.4,0);if(avatarMesh&&avatarMesh.parent)pos.add(avatarMesh.parent.position);pos.project(_camera);const x=(pos.x*0.5+0.5)*window.innerWidth;const y=(-pos.y*0.5+0.5)*window.innerHeight;nameTagDiv.style.left=x+'px';nameTagDiv.style.top=y+'px';nameTagDiv.style.display=pos.z<1?'block':'none';}
-  function updateNameTagText(name){currentName=name;if(nameTagDiv)nameTagDiv.textContent=name;savePrefs();}
-  function createColorPicker(){
-    const panel=document.createElement('div');panel.id='avatar-color-picker';panel.className='avatar-color-picker hidden';
-    panel.innerHTML='<div class="avatar-picker-header"><span>Avatar</span><button class="avatar-picker-close">&times;</button></div><div class="avatar-picker-name"><label>Name</label><input type="text" id="avatar-name-input" maxlength="20" placeholder="Your name" /></div><div class="avatar-picker-colors"><label>Color</label><div class="avatar-color-grid">'+PRESET_COLORS.map(c=>'<button class="avatar-color-swatch '+(c.hex===currentColor?'active':'')+'" data-color="'+c.hex+'" style="background:'+c.hex+'" title="'+c.name+'"></button>').join('')+'</div></div>';
-    document.body.appendChild(panel);
-    panel.querySelector('.avatar-picker-close').addEventListener('click',()=>panel.classList.add('hidden'));
-    panel.querySelectorAll('.avatar-color-swatch').forEach(el=>el.addEventListener('click',()=>updateAvatarColor(el.dataset.color)));
-    const ni=panel.querySelector('#avatar-name-input');ni.value=currentName;ni.addEventListener('input',(e)=>updateNameTagText(e.target.value||'Visitor'));
-    return panel;
-  }
-  function toggleColorPicker(){if(!colorPickerPanel)return;colorPickerPanel.classList.toggle('hidden');const ni=colorPickerPanel.querySelector('#avatar-name-input');if(ni&&!colorPickerPanel.classList.contains('hidden')){ni.value=currentName;ni.focus();}}
-  function update(playerPos){if(!avatarMesh)return;avatarMesh.position.set(playerPos.x,playerPos.y-0.8,playerPos.z);updateNameTagPosition();}
-  function init(sceneRef,cameraRef){_scene=sceneRef;_camera=cameraRef;loadPrefs();avatarMesh=createAvatarMesh(currentColor);_scene.add(avatarMesh);nameTagDiv=createNameTag(currentName);colorPickerPanel=createColorPicker();const h=document.querySelector('.hud-top-right');if(h){const b=document.createElement('button');b.id='avatar-customize-btn';b.className='hud-icon-btn';b.title='Customize Avatar';b.innerHTML='<span class="hud-icon">🎨</span>';b.addEventListener('click',toggleColorPicker);h.insertBefore(b,h.firstChild);}console.log('[AvatarCustomization] Initialized —',currentColor,currentName);}
-  return{init,update,setColor:updateAvatarColor,setName:updateNameTagText,toggleColorPicker};
-})();
-window.AvatarCustomization=AvatarCustomization;

index.html

@@ -23,7 +23,6 @@
 <link rel="preconnect" href="https://fonts.gstatic.com" crossorigin>
 <link href="https://fonts.googleapis.com/css2?family=JetBrains+Mono:wght@300;400;500;600;700&family=Orbitron:wght@400;500;600;700;800;900&display=swap" rel="stylesheet">
 <link rel="stylesheet" href="./style.css">
-<link rel="stylesheet" href="./avatar-customization.css">
 <link rel="manifest" href="./manifest.json">
 <script type="importmap">
 {
@@ -398,7 +397,6 @@
 <script src="./boot.js"></script>
 <script src="./avatar-customization.js"></script>
 <script src="./lod-system.js"></script>
-<script src="./portal-hot-reload.js"></script>
 <script>
 function openMemoryFilter() { renderFilterList(); document.getElementById('memory-filter').style.display = 'flex'; }
 function closeMemoryFilter() { document.getElementById('memory-filter').style.display = 'none'; }

nexus/bannerlord_harness.py

@@ -29,7 +29,7 @@ from typing import Any, Callable, Optional
 
 import websockets
 
-from nexus.bannerlord_trace import BannerlordTraceLogger
+from bannerlord_trace import BannerlordTraceLogger
 
 # ═══════════════════════════════════════════════════════════════════════════
 # CONFIGURATION

nexus/evennia_ws_bridge.py

@@ -304,43 +304,6 @@ async def inject_event(event_type: str, ws_url: str, **kwargs):
         sys.exit(1)
 
 
-def clean_lines(text: str) -> str:
-    """Remove ANSI codes and collapse whitespace from log text."""
-    import re
-    text = strip_ansi(text)
-    text = re.sub(r'\s+', ' ', text).strip()
-    return text
-
-
-def normalize_event(event: dict) -> dict:
-    """Normalize an Evennia event dict to standard format."""
-    return {
-        "type": event.get("type", "unknown"),
-        "actor": event.get("actor", event.get("name", "")),
-        "room": event.get("room", event.get("location", "")),
-        "message": event.get("message", event.get("text", "")),
-        "timestamp": event.get("timestamp", ""),
-    }
-
-
-def parse_room_output(text: str) -> dict:
-    """Parse Evennia room output into structured data."""
-    import re
-    lines = text.strip().split("\n")
-    result = {"name": "", "description": "", "exits": [], "objects": []}
-    if lines:
-        result["name"] = strip_ansi(lines[0]).strip()
-    if len(lines) > 1:
-        result["description"] = strip_ansi(lines[1]).strip()
-    for line in lines[2:]:
-        line = strip_ansi(line).strip()
-        if line.startswith("Exits:"):
-            result["exits"] = [e.strip() for e in line[6:].split(",") if e.strip()]
-        elif line.startswith("You see:"):
-            result["objects"] = [o.strip() for o in line[8:].split(",") if o.strip()]
-    return result
-
-
 def main():
     parser = argparse.ArgumentParser(description="Evennia -> Nexus WebSocket Bridge")
     sub = parser.add_subparsers(dest="mode")

portal-hot-reload.js

@@ -1,105 +0,0 @@
-/**
- * Portal Hot-Reload for The Nexus
- * 
- * Watches portals.json for changes and hot-reloads portal list
- * without server restart. Existing connections unaffected.
- * 
- * Usage:
- *   PortalHotReload.start(intervalMs);
- *   PortalHotReload.stop();
- *   PortalHotReload.reload(); // manual reload
- */
-
-const PortalHotReload = (() => {
-  let _interval = null;
-  let _lastHash = '';
-  let _pollInterval = 5000; // 5 seconds
-
-  function _hashPortals(data) {
-    // Simple hash of portal IDs for change detection
-    return data.map(p => p.id || p.name).sort().join(',');
-  }
-
-  async function _checkForChanges() {
-    try {
-      const response = await fetch('./portals.json?t=' + Date.now());
-      if (!response.ok) return;
-      
-      const data = await response.json();
-      const hash = _hashPortals(data);
-      
-      if (hash !== _lastHash) {
-        console.log('[PortalHotReload] Detected change — reloading portals');
-        _lastHash = hash;
-        _reloadPortals(data);
-      }
-    } catch (e) {
-      // Silent fail — file might be mid-write
-    }
-  }
-
-  function _reloadPortals(data) {
-    // Remove old portals from scene
-    if (typeof portals !== 'undefined' && Array.isArray(portals)) {
-      portals.forEach(p => {
-        if (p.group && typeof scene !== 'undefined' && scene) {
-          scene.remove(p.group);
-        }
-      });
-      portals.length = 0;
-    }
-
-    // Create new portals
-    if (typeof createPortals === 'function') {
-      createPortals(data);
-    }
-
-    // Re-register with spatial search if available
-    if (window.SpatialSearch && typeof portals !== 'undefined') {
-      portals.forEach(p => {
-        if (p.config && p.config.name && p.group) {
-          SpatialSearch.register('portal', p, p.config.name);
-        }
-      });
-    }
-
-    // Notify
-    if (typeof addChatMessage === 'function') {
-      addChatMessage('system', `Portals reloaded: ${data.length} portals active`);
-    }
-
-    console.log(`[PortalHotReload] Reloaded ${data.length} portals`);
-  }
-
-  function start(intervalMs) {
-    if (_interval) return;
-    _pollInterval = intervalMs || _pollInterval;
-
-    // Initial load
-    fetch('./portals.json').then(r => r.json()).then(data => {
-      _lastHash = _hashPortals(data);
-    }).catch(() => {});
-
-    _interval = setInterval(_checkForChanges, _pollInterval);
-    console.log(`[PortalHotReload] Watching portals.json every ${_pollInterval}ms`);
-  }
-
-  function stop() {
-    if (_interval) {
-      clearInterval(_interval);
-      _interval = null;
-      console.log('[PortalHotReload] Stopped');
-    }
-  }
-
-  async function reload() {
-    const response = await fetch('./portals.json?t=' + Date.now());
-    const data = await response.json();
-    _lastHash = _hashPortals(data);
-    _reloadPortals(data);
-  }
-
-  return { start, stop, reload };
-})();
-
-window.PortalHotReload = PortalHotReload;