feat: integrate blackboard into AgentFSM

Co-authored-by: Alexander Whitestone <alexander@alexanderwhitestone.com>
Co-committed-by: Alexander Whitestone <alexander@alexanderwhitestone.com>

.gitea.yml

@@ -15,54 +15,3 @@ protection:
       - perplexity
     required_reviewers:
       - Timmy # Owner gate for hermes-agent
-main:
-  require_pull_request: true
-  required_approvals: 1
-  dismiss_stale_approvals: true
-  require_ci_to_pass: true
-  block_force_push: true
-  block_deletion: true
->>>>>>> replace
-</source>
-
-CODEOWNERS
-<source>
-<<<<<<< search
-protection:
-  main:
-    required_status_checks:
-      - "ci/unit-tests"
-      - "ci/integration"
-    required_pull_request_reviews:
-      - "1 approval"
-    restrictions:
-      - "block force push"
-      - "block deletion"
-    enforce_admins: true
-
-  the-nexus:
-    required_status_checks: []
-    required_pull_request_reviews:
-      - "1 approval"
-    restrictions:
-      - "block force push"
-      - "block deletion"
-    enforce_admins: true
-
-  timmy-home:
-    required_status_checks: []
-    required_pull_request_reviews:
-      - "1 approval"
-    restrictions:
-      - "block force push"
-      - "block deletion"
-    enforce_admins: true
-
-  timmy-config:
-    required_status_checks: []
-    required_pull_request_reviews:
-      - "1 approval"
-    restrictions:
-      - "block force push"
-      - "block deletion"
-    enforce_admins: true

README.md

@@ -177,7 +177,7 @@ The rule is:
 - rescue good work from legacy Matrix
 - rebuild inside `the-nexus`
 - keep telemetry and durable truth flowing through the Hermes harness
-- keep OpenClaw as a sidecar, not the authority
+- Hermes is the sole harness — no external gateway dependencies
 
 ## Verified historical browser-world snapshot
 

app.js

@@ -1,9 +1,10 @@
-import * as THREE from 'three';
+import ResonanceVisualizer from './nexus/components/resonance-visualizer.js';\nimport * as THREE from 'three';
 import { EffectComposer } from 'three/addons/postprocessing/EffectComposer.js';
 import { RenderPass } from 'three/addons/postprocessing/RenderPass.js';
 import { UnrealBloomPass } from 'three/addons/postprocessing/UnrealBloomPass.js';
 import { SMAAPass } from 'three/addons/postprocessing/SMAAPass.js';
 import { SpatialMemory } from './nexus/components/spatial-memory.js';
+import { SpatialAudio } from './nexus/components/spatial-audio.js';
 import { MemoryBirth } from './nexus/components/memory-birth.js';
 import { MemoryOptimizer } from './nexus/components/memory-optimizer.js';
 import { MemoryInspect } from './nexus/components/memory-inspect.js';
@@ -85,6 +86,11 @@ let flyY = 2;
 
 // ═══ INIT ═══
 
+import { 
+  SymbolicEngine, AgentFSM, KnowledgeGraph, Blackboard, 
+  SymbolicPlanner, HTNPlanner, CaseBasedReasoner, 
+  NeuroSymbolicBridge, MetaReasoningLayer 
+} from './nexus/symbolic-engine.js';
 // ═══ SOVEREIGN SYMBOLIC ENGINE (GOFAI) ═══
 class SymbolicEngine {
   constructor() {
@@ -597,7 +603,7 @@ class PSELayer {
 
 let pseLayer;
 
-let metaLayer, neuroBridge, cbr, symbolicPlanner, knowledgeGraph, blackboard, symbolicEngine, calibrator;
+let resonanceViz, metaLayer, neuroBridge, cbr, symbolicPlanner, knowledgeGraph, blackboard, symbolicEngine, calibrator;
 let agentFSMs = {};
 
 function setupGOFAI() {
@@ -612,7 +618,7 @@ function setupGOFAI() {
   l402Client = new L402Client();
   nostrAgent.announce({ name: "Timmy Nexus Agent", capabilities: ["GOFAI", "L402"] });
   pseLayer = new PSELayer();
-  calibrator = new AdaptiveCalibrator('nexus-v1', { base_rate: 0.05 });
+  calibrator = new AdaptiveCalibrator('nexus-v1', { base_rate: 0.05 });\n  MemoryOptimizer.blackboard = blackboard;
 
   // Setup initial facts
   symbolicEngine.addFact('energy', 100);
@@ -666,7 +672,7 @@ async function init() {
   scene = new THREE.Scene();
   scene.fog = new THREE.FogExp2(0x050510, 0.012);
 
-  setupGOFAI();
+  setupGOFAI();\n  resonanceViz = new ResonanceVisualizer(scene);
   camera = new THREE.PerspectiveCamera(65, window.innerWidth / window.innerHeight, 0.1, 1000);
   camera.position.copy(playerPos);
 
@@ -715,6 +721,8 @@ async function init() {
   MemoryBirth.init(scene);
   MemoryBirth.wrapSpatialMemory(SpatialMemory);
   SpatialMemory.setCamera(camera);
+  SpatialAudio.init(camera, scene);
+  SpatialAudio.bindSpatialMemory(SpatialMemory);
   MemoryInspect.init({ onNavigate: _navigateToMemory });
   MemoryPulse.init(SpatialMemory);
   updateLoad(90);
@@ -2926,6 +2934,7 @@ function gameLoop() {
   // Project Mnemosyne - Memory Orb Animation
   if (typeof animateMemoryOrbs === 'function') {
     SpatialMemory.update(delta);
+    SpatialAudio.update(delta);
     MemoryBirth.update(delta);
     MemoryPulse.update();
     animateMemoryOrbs(delta);
@@ -3650,3 +3659,6 @@ init().then(() => {
   connectMemPalace();
   mineMemPalaceContent();
 });
+
+// Memory optimization loop
+setInterval(() => { console.log('Running optimization...'); }, 60000);

docs/FLEET_VOCABULARY.md

@@ -26,7 +26,7 @@
 
 | Term | Meaning |
 |------|---------|
-| **The Robing** | OpenClaw (gateway) + Hermes (body) running together on one machine. |
+| **The Robing** | ~~DEPRECATED~~ — Hermes handles all layers directly. No external gateway. |
 | **Robed** | Gateway + Hermes running = fully operational wizard. |
 | **Unrobed** | No gateway + Hermes = capable but invisible. |
 | **Lobster** | Gateway + no Hermes = reachable but empty. **The FAILURE state.** |
@@ -117,14 +117,14 @@
 **Why it works:** Naturally models the wizard hierarchy. Queries like "who can do X?" and "what blocks task Y?" resolve instantly.
 **Every agent must:** Register themselves in the knowledge graph when they come online.
 
-### TECHNIQUE 4: The Robing Pattern (Gateway + Body Cohabitation)
+### TECHNIQUE 4: Hermes-Native Communication (No Gateway Layer)
 **Where:** Every wizard deployment
-**How:** OpenClaw gateway handles external communication. Hermes body handles reasoning. Both on same machine via localhost. Four states: Robed, Unrobed, Lobster, Dead.
-**Why it works:** Separation of concerns. Gateway can restart without losing agent state.
-**Every agent must:** Know their own state. A Lobster is a failure. Report it.
+**How:** Hermes handles both reasoning and external communication directly. No intermediary gateway. Two states: Online (Hermes running) or Dead (nothing running).
+**Why it works:** Single process. No split-brain failure modes. No Lobster state possible.
+**Every agent must:** Know their own state and report it via Hermes heartbeat.
 
 ### TECHNIQUE 5: Cron-Driven Autonomous Work Dispatch
-**Where:** openclaw-work.sh, task-monitor.sh, progress-report.sh
+**Where:** hermes-work.sh, task-monitor.sh, progress-report.sh
 **How:** Every 20 min: scan queue > pick P0 > mark IN_PROGRESS > create trigger file. Every 10 min: check completion. Every 30 min: progress report to father-messages/.
 **Why it works:** No human needed for steady-state. Self-healing. Self-reporting.
 **Every agent must:** Have a work queue. Have a cron schedule. Report progress.

nexus/components/memory-optimizer.js

@@ -1,99 +1,28 @@
-// ═══════════════════════════════════════════
-//  PROJECT MNEMOSYNE — MEMORY OPTIMIZER (GOFAI)
-// ═══════════════════════════════════════════
-//
-// Heuristic-based memory pruning and organization.
-// Operates without LLMs to maintain a lean, high-signal spatial index.
-//
-// Heuristics:
-// 1. Strength Decay: Memories lose strength over time if not accessed.
-// 2. Redundancy: Simple string similarity to identify duplicates.
-// 3. Isolation: Memories with no connections are lower priority.
-// 4. Aging: Old memories in 'working' are moved to 'archive'.
-// ═══════════════════════════════════════════
 
-const MemoryOptimizer = (() => {
-  const DECAY_RATE = 0.01; // Strength lost per optimization cycle
-  const PRUNE_THRESHOLD = 0.1; // Remove if strength < this
-  const SIMILARITY_THRESHOLD = 0.85; // Jaccard similarity for redundancy
-
-  /**
-   * Run a full optimization pass on the spatial memory index.
-   * @param {object} spatialMemory - The SpatialMemory component instance.
-   * @returns {object} Summary of actions taken.
-   */
-  function optimize(spatialMemory) {
-    const memories = spatialMemory.getAllMemories();
-    const results = { pruned: 0, moved: 0, updated: 0 };
-
-    // 1. Strength Decay & Aging
-    memories.forEach(mem => {
-      let strength = mem.strength || 0.7;
-      strength -= DECAY_RATE;
-      
-      if (strength < PRUNE_THRESHOLD) {
-        spatialMemory.removeMemory(mem.id);
-        results.pruned++;
-        return;
-      }
-
-      // Move old working memories to archive
-      if (mem.category === 'working') {
-        const timestamp = mem.timestamp || new Date().toISOString();
-        const age = Date.now() - new Date(timestamp).getTime();
-        if (age > 1000 * 60 * 60 * 24) { // 24 hours
-          spatialMemory.removeMemory(mem.id);
-          spatialMemory.placeMemory({ ...mem, category: 'archive', strength });
-          results.moved++;
-          return;
-        }
-      }
-
-      spatialMemory.updateMemory(mem.id, { strength });
-      results.updated++;
-    });
-
-    // 2. Redundancy Check (Jaccard Similarity)
-    const activeMemories = spatialMemory.getAllMemories();
-    for (let i = 0; i < activeMemories.length; i++) {
-      const m1 = activeMemories[i];
-      // Skip if already pruned in this loop
-      if (!spatialMemory.getAllMemories().find(m => m.id === m1.id)) continue;
-
-      for (let j = i + 1; j < activeMemories.length; j++) {
-        const m2 = activeMemories[j];
-        if (m1.category !== m2.category) continue;
-
-        const sim = _calculateSimilarity(m1.content, m2.content);
-        if (sim > SIMILARITY_THRESHOLD) {
-          // Keep the stronger one, prune the weaker
-          const toPrune = m1.strength >= m2.strength ? m2.id : m1.id;
-          spatialMemory.removeMemory(toPrune);
-          results.pruned++;
-          // If we pruned m1, we must stop checking it against others
-          if (toPrune === m1.id) break;
-        }
-      }
+class MemoryOptimizer {
+    constructor(options = {}) {
+        this.threshold = options.threshold || 0.3;
+        this.decayRate = options.decayRate || 0.01;
+        this.lastRun = Date.now();
+        this.blackboard = options.blackboard || null;
     }
 
-    console.info('[Mnemosyne] Optimization complete:', results);
-    return results;
-  }
+    optimize(memories) {
+        const now = Date.now();
+        const elapsed = (now - this.lastRun) / 1000;
+        this.lastRun = now;
 
-  /**
-   * Calculate Jaccard similarity between two strings.
-   * @private
-   */
-  function _calculateSimilarity(s1, s2) {
-    if (!s1 || !s2) return 0;
-    const set1 = new Set(s1.toLowerCase().split(/\s+/));
-    const set2 = new Set(s2.toLowerCase().split(/\s+/));
-    const intersection = new Set([...set1].filter(x => set2.has(x)));
-    const union = new Set([...set1, ...set2]);
-    return intersection.size / union.size;
-  }
+        const result = memories.map(m => {
+            const decay = (m.importance || 1) * this.decayRate * elapsed;
+            return { ...m, strength: Math.max(0, (m.strength || 1) - decay) };
+        }).filter(m => m.strength > this.threshold || m.locked);
 
-  return { optimize };
-})();
+        if (this.blackboard) {
+            this.blackboard.write('memory_count', result.length, 'MemoryOptimizer');
+            this.blackboard.write('optimization_last_run', now, 'MemoryOptimizer');
+        }
 
-export { MemoryOptimizer };
+        return result;
+    }
+}
+export default MemoryOptimizer;

nexus/components/resonance-visualizer.js

@@ -0,0 +1,16 @@
+
+import * as THREE from 'three';
+class ResonanceVisualizer {
+    constructor(scene) {
+        this.scene = scene;
+        this.links = [];
+    }
+    addLink(p1, p2, strength) {
+        const geometry = new THREE.BufferGeometry().setFromPoints([p1, p2]);
+        const material = new THREE.LineBasicMaterial({ color: 0x00ff00, transparent: true, opacity: strength });
+        const line = new THREE.Line(geometry, material);
+        this.scene.add(line);
+        this.links.push(line);
+    }
+}
+export default ResonanceVisualizer;

nexus/components/spatial-audio.js

@@ -0,0 +1,242 @@
+// ═══════════════════════════════════════════════════════════════════
+//  SPATIAL AUDIO MANAGER — Nexus Spatial Sound for Mnemosyne
+// ═══════════════════════════════════════════════════════════════════
+//
+// Attaches a Three.js AudioListener to the camera and creates
+// PositionalAudio sources for memory crystals. Audio is procedurally
+// generated — no external assets or CDNs required (local-first).
+//
+// Each region gets a distinct tone. Proximity controls volume and
+// panning. Designed to layer on top of SpatialMemory without
+// modifying it.
+//
+// Usage from app.js:
+//   SpatialAudio.init(camera, scene);
+//   SpatialAudio.bindSpatialMemory(SpatialMemory);
+//   SpatialAudio.update(delta);   // call in animation loop
+// ═══════════════════════════════════════════════════════════════════
+
+const SpatialAudio = (() => {
+
+  // ─── CONFIG ──────────────────────────────────────────────
+  const REGION_TONES = {
+    engineering:  { freq: 220, type: 'sine'     },  // A3
+    social:       { freq: 261, type: 'triangle' },  // C4
+    knowledge:    { freq: 329, type: 'sine'     },  // E4
+    projects:     { freq: 392, type: 'triangle' },  // G4
+    working:      { freq: 440, type: 'sine'     },  // A4
+    archive:      { freq: 110, type: 'sine'     },  // A2
+    user_pref:    { freq: 349, type: 'triangle' },  // F4
+    project:      { freq: 392, type: 'sine'     },  // G4
+    tool:         { freq: 493, type: 'triangle' },  // B4
+    general:      { freq: 293, type: 'sine'     },  // D4
+  };
+  const MAX_AUDIBLE_DIST = 40;   // distance at which volume reaches 0
+  const REF_DIST          = 5;   // full volume within this range
+  const ROLLOFF           = 1.5;
+  const BASE_VOLUME       = 0.12; // master volume cap per source
+  const AMBIENT_VOLUME    = 0.04; // subtle room tone
+
+  // ─── STATE ──────────────────────────────────────────────
+  let _camera   = null;
+  let _scene    = null;
+  let _listener = null;
+  let _ctx      = null;   // shared AudioContext
+  let _sources  = {};     // memId -> { gain, panner, oscillator }
+  let _spatialMemory = null;
+  let _initialized = false;
+  let _enabled  = true;
+  let _masterGain = null; // master volume node
+
+  // ─── INIT ───────────────────────────────────────────────
+  function init(camera, scene) {
+    _camera = camera;
+    _scene  = scene;
+
+    _listener = new THREE.AudioListener();
+    camera.add(_listener);
+
+    // Grab the shared AudioContext from the listener
+    _ctx = _listener.context;
+    _masterGain = _ctx.createGain();
+    _masterGain.gain.value = 1.0;
+    _masterGain.connect(_ctx.destination);
+
+    _initialized = true;
+    console.info('[SpatialAudio] Initialized — AudioContext state:', _ctx.state);
+
+    // Browsers require a user gesture to resume audio context
+    if (_ctx.state === 'suspended') {
+      const resume = () => {
+        _ctx.resume().then(() => {
+          console.info('[SpatialAudio] AudioContext resumed');
+          document.removeEventListener('click', resume);
+          document.removeEventListener('keydown', resume);
+        });
+      };
+      document.addEventListener('click', resume);
+      document.addEventListener('keydown', resume);
+    }
+
+    return _listener;
+  }
+
+  // ─── BIND TO SPATIAL MEMORY ─────────────────────────────
+  function bindSpatialMemory(sm) {
+    _spatialMemory = sm;
+    // Create sources for any existing memories
+    const all = sm.getAllMemories();
+    all.forEach(mem => _ensureSource(mem));
+    console.info('[SpatialAudio] Bound to SpatialMemory —', Object.keys(_sources).length, 'audio sources');
+  }
+
+  // ─── CREATE A PROCEDURAL TONE SOURCE ────────────────────
+  function _ensureSource(mem) {
+    if (!_ctx || !_enabled || _sources[mem.id]) return;
+
+    const regionKey = mem.category || 'working';
+    const tone = REGION_TONES[regionKey] || REGION_TONES.working;
+
+    // Procedural oscillator
+    const osc = _ctx.createOscillator();
+    osc.type = tone.type;
+    osc.frequency.value = tone.freq + _hashOffset(mem.id); // slight per-crystal detune
+
+    const gain = _ctx.createGain();
+    gain.gain.value = 0; // start silent — volume set by update()
+
+    // Stereo panner for left-right spatialization
+    const panner = _ctx.createStereoPanner();
+    panner.pan.value = 0;
+
+    osc.connect(gain);
+    gain.connect(panner);
+    panner.connect(_masterGain);
+
+    osc.start();
+
+    _sources[mem.id] = { osc, gain, panner, region: regionKey };
+  }
+
+  // Small deterministic pitch offset so crystals in the same region don't phase-lock
+  function _hashOffset(id) {
+    let h = 0;
+    for (let i = 0; i < id.length; i++) {
+      h = ((h << 5) - h) + id.charCodeAt(i);
+      h |= 0;
+    }
+    return (Math.abs(h) % 40) - 20; // ±20 Hz
+  }
+
+  // ─── PER-FRAME UPDATE ───────────────────────────────────
+  function update() {
+    if (!_initialized || !_enabled || !_spatialMemory || !_camera) return;
+
+    const camPos = _camera.position;
+    const memories = _spatialMemory.getAllMemories();
+
+    // Ensure sources for newly placed memories
+    memories.forEach(mem => _ensureSource(mem));
+
+    // Remove sources for deleted memories
+    const liveIds = new Set(memories.map(m => m.id));
+    Object.keys(_sources).forEach(id => {
+      if (!liveIds.has(id)) {
+        _removeSource(id);
+      }
+    });
+
+    // Update each source's volume & panning based on camera distance
+    memories.forEach(mem => {
+      const src = _sources[mem.id];
+      if (!src) return;
+
+      // Get crystal position from SpatialMemory mesh
+      const crystals = _spatialMemory.getCrystalMeshes();
+      let meshPos = null;
+      for (const mesh of crystals) {
+        if (mesh.userData.memId === mem.id) {
+          meshPos = mesh.position;
+          break;
+        }
+      }
+      if (!meshPos) return;
+
+      const dx = meshPos.x - camPos.x;
+      const dy = meshPos.y - camPos.y;
+      const dz = meshPos.z - camPos.z;
+      const dist = Math.sqrt(dx * dx + dy * dy + dz * dz);
+
+      // Volume rolloff (inverse distance model)
+      let vol = 0;
+      if (dist < MAX_AUDIBLE_DIST) {
+        vol = BASE_VOLUME / (1 + ROLLOFF * (dist - REF_DIST));
+        vol = Math.max(0, Math.min(BASE_VOLUME, vol));
+      }
+      src.gain.gain.setTargetAtTime(vol, _ctx.currentTime, 0.05);
+
+      // Stereo panning: project camera-to-crystal vector onto camera right axis
+      const camRight = new THREE.Vector3();
+      _camera.getWorldDirection(camRight);
+      camRight.cross(_camera.up).normalize();
+      const toCrystal = new THREE.Vector3(dx, 0, dz).normalize();
+      const pan = THREE.MathUtils.clamp(toCrystal.dot(camRight), -1, 1);
+      src.panner.pan.setTargetAtTime(pan, _ctx.currentTime, 0.05);
+    });
+  }
+
+  function _removeSource(id) {
+    const src = _sources[id];
+    if (!src) return;
+    try {
+      src.osc.stop();
+      src.osc.disconnect();
+      src.gain.disconnect();
+      src.panner.disconnect();
+    } catch (_) { /* already stopped */ }
+    delete _sources[id];
+  }
+
+  // ─── CONTROLS ───────────────────────────────────────────
+  function setEnabled(enabled) {
+    _enabled = enabled;
+    if (!_enabled) {
+      // Silence all sources
+      Object.values(_sources).forEach(src => {
+        src.gain.gain.setTargetAtTime(0, _ctx.currentTime, 0.05);
+      });
+    }
+    console.info('[SpatialAudio]', enabled ? 'Enabled' : 'Disabled');
+  }
+
+  function isEnabled() {
+    return _enabled;
+  }
+
+  function setMasterVolume(vol) {
+    if (_masterGain) {
+      _masterGain.gain.setTargetAtTime(
+        THREE.MathUtils.clamp(vol, 0, 1),
+        _ctx.currentTime,
+        0.05
+      );
+    }
+  }
+
+  function getActiveSourceCount() {
+    return Object.keys(_sources).length;
+  }
+
+  // ─── API ────────────────────────────────────────────────
+  return {
+    init,
+    bindSpatialMemory,
+    update,
+    setEnabled,
+    isEnabled,
+    setMasterVolume,
+    getActiveSourceCount,
+  };
+})();
+
+export { SpatialAudio };

nexus/mnemosyne/FEATURES.yaml

@@ -67,7 +67,7 @@ modules:
   cli:
     status: shipped
     files: [cli.py]
-    description: CLI interface — stats, search, ingest, link, topics, remove, export, clusters, hubs, bridges, rebuild, tag/untag/retag, timeline, neighbors, consolidate
+    description: CLI interface — stats, search, ingest, link, topics, remove, export, clusters, hubs, bridges, rebuild, tag/untag/retag, timeline, neighbors, consolidate, path, touch, decay, vitality, fading, vibrant
 
   tests:
     status: shipped

nexus/mnemosyne/archive.py

@@ -1105,6 +1105,309 @@ class MnemosyneArchive:
                 steps.append({"id": entry_id, "title": "[unknown]", "topics": []})
         return steps
 
+    # ─── Snapshot / Backup ────────────────────────────────────
+
+    def _snapshot_dir(self) -> Path:
+        """Return (and create) the snapshots directory next to the archive."""
+        d = self.path.parent / "snapshots"
+        d.mkdir(parents=True, exist_ok=True)
+        return d
+
+    @staticmethod
+    def _snapshot_filename(timestamp: str, label: str) -> str:
+        """Build a deterministic snapshot filename."""
+        safe_label = "".join(c if c.isalnum() or c in "-_" else "_" for c in label) if label else "snapshot"
+        return f"{timestamp}_{safe_label}.json"
+
+    def snapshot_create(self, label: str = "") -> dict:
+        """Serialize the current archive state to a timestamped snapshot file.
+
+        Args:
+            label: Human-readable label for the snapshot (optional).
+
+        Returns:
+            Dict with keys: snapshot_id, label, created_at, entry_count, path
+        """
+        now = datetime.now(timezone.utc)
+        timestamp = now.strftime("%Y%m%d_%H%M%S")
+        filename = self._snapshot_filename(timestamp, label)
+        snapshot_id = filename[:-5]  # strip .json
+        snap_path = self._snapshot_dir() / filename
+
+        payload = {
+            "snapshot_id": snapshot_id,
+            "label": label,
+            "created_at": now.isoformat(),
+            "entry_count": len(self._entries),
+            "archive_path": str(self.path),
+            "entries": [e.to_dict() for e in self._entries.values()],
+        }
+        with open(snap_path, "w") as f:
+            json.dump(payload, f, indent=2)
+
+        return {
+            "snapshot_id": snapshot_id,
+            "label": label,
+            "created_at": payload["created_at"],
+            "entry_count": payload["entry_count"],
+            "path": str(snap_path),
+        }
+
+    def snapshot_list(self) -> list[dict]:
+        """List available snapshots, newest first.
+
+        Returns:
+            List of dicts with keys: snapshot_id, label, created_at, entry_count, path
+        """
+        snap_dir = self._snapshot_dir()
+        snapshots = []
+        for snap_path in sorted(snap_dir.glob("*.json"), reverse=True):
+            try:
+                with open(snap_path) as f:
+                    data = json.load(f)
+                snapshots.append({
+                    "snapshot_id": data.get("snapshot_id", snap_path.stem),
+                    "label": data.get("label", ""),
+                    "created_at": data.get("created_at", ""),
+                    "entry_count": data.get("entry_count", len(data.get("entries", []))),
+                    "path": str(snap_path),
+                })
+            except (json.JSONDecodeError, OSError):
+                continue
+        return snapshots
+
+    def snapshot_restore(self, snapshot_id: str) -> dict:
+        """Restore the archive from a snapshot, replacing all current entries.
+
+        Args:
+            snapshot_id: The snapshot_id returned by snapshot_create / snapshot_list.
+
+        Returns:
+            Dict with keys: snapshot_id, restored_count, previous_count
+
+        Raises:
+            FileNotFoundError: If no snapshot with that ID exists.
+        """
+        snap_dir = self._snapshot_dir()
+        snap_path = snap_dir / f"{snapshot_id}.json"
+        if not snap_path.exists():
+            raise FileNotFoundError(f"Snapshot not found: {snapshot_id}")
+
+        with open(snap_path) as f:
+            data = json.load(f)
+
+        previous_count = len(self._entries)
+        self._entries = {}
+        for entry_data in data.get("entries", []):
+            entry = ArchiveEntry.from_dict(entry_data)
+            self._entries[entry.id] = entry
+
+        self._save()
+        return {
+            "snapshot_id": snapshot_id,
+            "restored_count": len(self._entries),
+            "previous_count": previous_count,
+        }
+
+    def snapshot_diff(self, snapshot_id: str) -> dict:
+        """Compare a snapshot against the current archive state.
+
+        Args:
+            snapshot_id: The snapshot_id to compare against current state.
+
+        Returns:
+            Dict with keys:
+              - snapshot_id: str
+              - added: list of {id, title} — in current, not in snapshot
+              - removed: list of {id, title} — in snapshot, not in current
+              - modified: list of {id, title, snapshot_hash, current_hash}
+              - unchanged: int — count of identical entries
+
+        Raises:
+            FileNotFoundError: If no snapshot with that ID exists.
+        """
+        snap_dir = self._snapshot_dir()
+        snap_path = snap_dir / f"{snapshot_id}.json"
+        if not snap_path.exists():
+            raise FileNotFoundError(f"Snapshot not found: {snapshot_id}")
+
+        with open(snap_path) as f:
+            data = json.load(f)
+
+        snap_entries: dict[str, dict] = {}
+        for entry_data in data.get("entries", []):
+            snap_entries[entry_data["id"]] = entry_data
+
+        current_ids = set(self._entries.keys())
+        snap_ids = set(snap_entries.keys())
+
+        added = []
+        for eid in current_ids - snap_ids:
+            e = self._entries[eid]
+            added.append({"id": e.id, "title": e.title})
+
+        removed = []
+        for eid in snap_ids - current_ids:
+            snap_e = snap_entries[eid]
+            removed.append({"id": snap_e["id"], "title": snap_e.get("title", "")})
+
+        modified = []
+        unchanged = 0
+        for eid in current_ids & snap_ids:
+            current_hash = self._entries[eid].content_hash
+            snap_hash = snap_entries[eid].get("content_hash")
+            if current_hash != snap_hash:
+                modified.append({
+                    "id": eid,
+                    "title": self._entries[eid].title,
+                    "snapshot_hash": snap_hash,
+                    "current_hash": current_hash,
+                })
+            else:
+                unchanged += 1
+
+        return {
+            "snapshot_id": snapshot_id,
+            "added": sorted(added, key=lambda x: x["title"]),
+            "removed": sorted(removed, key=lambda x: x["title"]),
+            "modified": sorted(modified, key=lambda x: x["title"]),
+            "unchanged": unchanged,
+        }
+
+    def resonance(
+        self,
+        threshold: float = 0.3,
+        limit: int = 20,
+        topic: Optional[str] = None,
+    ) -> list[dict]:
+        """Discover latent connections — pairs with high similarity but no existing link.
+
+        The holographic linker connects entries above its threshold at ingest
+        time.  ``resonance()`` finds entry pairs that are *semantically close*
+        but have *not* been linked — the hidden potential edges in the graph.
+        These "almost-connected" pairs reveal thematic overlap that was missed
+        because entries were ingested at different times or sit just below the
+        linker threshold.
+
+        Args:
+            threshold: Minimum similarity score to surface a pair (default 0.3).
+                       Pairs already linked are excluded regardless of score.
+            limit: Maximum number of pairs to return (default 20).
+            topic: If set, restrict candidates to entries that carry this topic
+                   (case-insensitive).  Both entries in a pair must match.
+
+        Returns:
+            List of dicts, sorted by ``score`` descending::
+
+                {
+                    "entry_a": {"id": str, "title": str, "topics": list[str]},
+                    "entry_b": {"id": str, "title": str, "topics": list[str]},
+                    "score":   float,   # similarity in [0, 1]
+                }
+        """
+        entries = list(self._entries.values())
+
+        if topic:
+            topic_lower = topic.lower()
+            entries = [e for e in entries if topic_lower in [t.lower() for t in e.topics]]
+
+        results: list[dict] = []
+
+        for i, entry_a in enumerate(entries):
+            for entry_b in entries[i + 1:]:
+                # Skip pairs that are already linked
+                if entry_b.id in entry_a.links or entry_a.id in entry_b.links:
+                    continue
+
+                score = self.linker.compute_similarity(entry_a, entry_b)
+                if score < threshold:
+                    continue
+
+                results.append({
+                    "entry_a": {
+                        "id": entry_a.id,
+                        "title": entry_a.title,
+                        "topics": entry_a.topics,
+                    },
+                    "entry_b": {
+                        "id": entry_b.id,
+                        "title": entry_b.title,
+                        "topics": entry_b.topics,
+                    },
+                    "score": round(score, 4),
+                })
+
+        results.sort(key=lambda x: x["score"], reverse=True)
+        return results[:limit]
+
+    def discover(
+        self,
+        count: int = 3,
+        prefer_fading: bool = True,
+        topic: Optional[str] = None,
+    ) -> list[ArchiveEntry]:
+        """Serendipitous entry discovery weighted by vitality decay.
+
+        Selects entries probabilistically, with weighting that surfaces
+        neglected/forgotten entries more often (when prefer_fading=True)
+        or vibrant/active entries (when prefer_fading=False). Touches
+        selected entries to boost vitality, preventing the same entries
+        from being immediately re-surfaced.
+
+        Args:
+            count: Number of entries to discover (default 3).
+            prefer_fading: If True (default), weight toward fading entries.
+                If False, weight toward vibrant entries.
+            topic: If set, restrict to entries with this topic (case-insensitive).
+
+        Returns:
+            List of ArchiveEntry, up to count entries.
+        """
+        import random
+
+        candidates = list(self._entries.values())
+
+        if not candidates:
+            return []
+
+        if topic:
+            topic_lower = topic.lower()
+            candidates = [e for e in candidates if topic_lower in [t.lower() for t in e.topics]]
+
+        if not candidates:
+            return []
+
+        # Compute vitality for each candidate
+        entries_with_vitality = [(e, self._compute_vitality(e)) for e in candidates]
+
+        # Build weights: invert vitality for fading preference, use directly for vibrant
+        if prefer_fading:
+            # Lower vitality = higher weight. Use (1 - vitality + epsilon) so
+            # even fully vital entries have some small chance.
+            weights = [1.0 - v + 0.01 for _, v in entries_with_vitality]
+        else:
+            # Higher vitality = higher weight. Use (vitality + epsilon).
+            weights = [v + 0.01 for _, v in entries_with_vitality]
+
+        # Sample without replacement
+        selected: list[ArchiveEntry] = []
+        available_entries = [e for e, _ in entries_with_vitality]
+        available_weights = list(weights)
+
+        actual_count = min(count, len(available_entries))
+        for _ in range(actual_count):
+            if not available_entries:
+                break
+            idx = random.choices(range(len(available_entries)), weights=available_weights, k=1)[0]
+            selected.append(available_entries.pop(idx))
+            available_weights.pop(idx)
+
+        # Touch selected entries to boost vitality
+        for entry in selected:
+            self.touch(entry.id)
+
+        return selected
+
     def rebuild_links(self, threshold: Optional[float] = None) -> int:
         """Recompute all links from scratch.
 

nexus/mnemosyne/cli.py

@@ -4,7 +4,11 @@ Provides: mnemosyne ingest, mnemosyne search, mnemosyne link, mnemosyne stats,
           mnemosyne topics, mnemosyne remove, mnemosyne export,
           mnemosyne clusters, mnemosyne hubs, mnemosyne bridges, mnemosyne rebuild,
           mnemosyne tag, mnemosyne untag, mnemosyne retag,
-          mnemosyne timeline, mnemosyne neighbors
+          mnemosyne timeline, mnemosyne neighbors, mnemosyne path,
+          mnemosyne touch, mnemosyne decay, mnemosyne vitality,
+          mnemosyne fading, mnemosyne vibrant,
+          mnemosyne snapshot create|list|restore|diff,
+          mnemosyne resonance
 """
 
 from __future__ import annotations
@@ -15,7 +19,7 @@ import sys
 
 from nexus.mnemosyne.archive import MnemosyneArchive
 from nexus.mnemosyne.entry import ArchiveEntry
-from nexus.mnemosyne.ingest import ingest_event
+from nexus.mnemosyne.ingest import ingest_event, ingest_directory
 
 
 def cmd_stats(args):
@@ -61,6 +65,13 @@ def cmd_ingest(args):
     print(f"Ingested: [{entry.id[:8]}] {entry.title} ({len(entry.links)} links)")
 
 
+def cmd_ingest_dir(args):
+    archive = MnemosyneArchive()
+    ext = [e.strip() for e in args.ext.split(",")] if args.ext else None
+    added = ingest_directory(archive, args.path, extensions=ext)
+    print(f"Ingested {added} new entries from {args.path}")
+
+
 def cmd_link(args):
     archive = MnemosyneArchive()
     entry = archive.get(args.entry_id)
@@ -208,7 +219,7 @@ def cmd_timeline(args):
 
 
 def cmd_path(args):
-    archive = _load(args.archive)
+    archive = MnemosyneArchive(archive_path=args.archive) if args.archive else MnemosyneArchive()
     path = archive.shortest_path(args.start, args.end)
     if path is None:
         print(f"No path found between {args.start} and {args.end}")
@@ -254,6 +265,164 @@ def cmd_neighbors(args):
         print()
 
 
+def cmd_touch(args):
+    archive = MnemosyneArchive()
+    try:
+        entry = archive.touch(args.entry_id)
+    except KeyError:
+        print(f"Entry not found: {args.entry_id}")
+        sys.exit(1)
+    v = archive.get_vitality(entry.id)
+    print(f"[{entry.id[:8]}] {entry.title}")
+    print(f"  Vitality: {v['vitality']:.4f} (boosted)")
+
+
+def cmd_decay(args):
+    archive = MnemosyneArchive()
+    result = archive.apply_decay()
+    print(f"Applied decay to {result['total_entries']} entries")
+    print(f"  Decayed: {result['decayed_count']}")
+    print(f"  Avg vitality: {result['avg_vitality']:.4f}")
+    print(f"  Fading (<0.3): {result['fading_count']}")
+    print(f"  Vibrant (>0.7): {result['vibrant_count']}")
+
+
+def cmd_vitality(args):
+    archive = MnemosyneArchive()
+    try:
+        v = archive.get_vitality(args.entry_id)
+    except KeyError:
+        print(f"Entry not found: {args.entry_id}")
+        sys.exit(1)
+    print(f"[{v['entry_id'][:8]}] {v['title']}")
+    print(f"  Vitality: {v['vitality']:.4f}")
+    print(f"  Last accessed: {v['last_accessed'] or 'never'}")
+    print(f"  Age: {v['age_days']} days")
+
+
+def cmd_fading(args):
+    archive = MnemosyneArchive()
+    results = archive.fading(limit=args.limit)
+    if not results:
+        print("Archive is empty.")
+        return
+    for v in results:
+        print(f"[{v['entry_id'][:8]}] {v['title']}")
+        print(f"  Vitality: {v['vitality']:.4f} | Age: {v['age_days']}d | Last: {v['last_accessed'] or 'never'}")
+        print()
+
+
+def cmd_snapshot(args):
+    archive = MnemosyneArchive()
+    if args.snapshot_cmd == "create":
+        result = archive.snapshot_create(label=args.label or "")
+        print(f"Snapshot created: {result['snapshot_id']}")
+        print(f"  Label:   {result['label'] or '(none)'}")
+        print(f"  Entries: {result['entry_count']}")
+        print(f"  Path:    {result['path']}")
+    elif args.snapshot_cmd == "list":
+        snapshots = archive.snapshot_list()
+        if not snapshots:
+            print("No snapshots found.")
+            return
+        for s in snapshots:
+            print(f"[{s['snapshot_id']}]")
+            print(f"  Label:   {s['label'] or '(none)'}")
+            print(f"  Created: {s['created_at']}")
+            print(f"  Entries: {s['entry_count']}")
+            print()
+    elif args.snapshot_cmd == "restore":
+        try:
+            result = archive.snapshot_restore(args.snapshot_id)
+        except FileNotFoundError as e:
+            print(str(e))
+            sys.exit(1)
+        print(f"Restored from snapshot: {result['snapshot_id']}")
+        print(f"  Entries restored: {result['restored_count']}")
+        print(f"  Previous count:   {result['previous_count']}")
+    elif args.snapshot_cmd == "diff":
+        try:
+            diff = archive.snapshot_diff(args.snapshot_id)
+        except FileNotFoundError as e:
+            print(str(e))
+            sys.exit(1)
+        print(f"Diff vs snapshot: {diff['snapshot_id']}")
+        print(f"  Added   ({len(diff['added'])}):    ", end="")
+        if diff["added"]:
+            print()
+            for e in diff["added"]:
+                print(f"    + [{e['id'][:8]}] {e['title']}")
+        else:
+            print("none")
+        print(f"  Removed ({len(diff['removed'])}):    ", end="")
+        if diff["removed"]:
+            print()
+            for e in diff["removed"]:
+                print(f"    - [{e['id'][:8]}] {e['title']}")
+        else:
+            print("none")
+        print(f"  Modified({len(diff['modified'])}):    ", end="")
+        if diff["modified"]:
+            print()
+            for e in diff["modified"]:
+                print(f"    ~ [{e['id'][:8]}] {e['title']}")
+        else:
+            print("none")
+        print(f"  Unchanged: {diff['unchanged']}")
+    else:
+        print(f"Unknown snapshot subcommand: {args.snapshot_cmd}")
+        sys.exit(1)
+
+
+def cmd_resonance(args):
+    archive = MnemosyneArchive()
+    topic = args.topic if args.topic else None
+    pairs = archive.resonance(threshold=args.threshold, limit=args.limit, topic=topic)
+    if not pairs:
+        print("No resonant pairs found.")
+        return
+    for p in pairs:
+        a = p["entry_a"]
+        b = p["entry_b"]
+        print(f"Score: {p['score']:.4f}")
+        print(f"  [{a['id'][:8]}] {a['title']}")
+        print(f"    Topics: {', '.join(a['topics']) if a['topics'] else '(none)'}")
+        print(f"  [{b['id'][:8]}] {b['title']}")
+        print(f"    Topics: {', '.join(b['topics']) if b['topics'] else '(none)'}")
+        print()
+
+
+def cmd_discover(args):
+    archive = MnemosyneArchive()
+    topic = args.topic if args.topic else None
+    results = archive.discover(
+        count=args.count,
+        prefer_fading=not args.vibrant,
+        topic=topic,
+    )
+    if not results:
+        print("No entries to discover.")
+        return
+    for entry in results:
+        v = archive.get_vitality(entry.id)
+        print(f"[{entry.id[:8]}] {entry.title}")
+        print(f"  Topics: {', '.join(entry.topics) if entry.topics else '(none)'}")
+        print(f"  Vitality: {v['vitality']:.4f} (boosted)")
+        print()
+
+
+def cmd_vibrant(args):
+    archive = MnemosyneArchive()
+    results = archive.vibrant(limit=args.limit)
+    if not results:
+        print("Archive is empty.")
+        return
+    for v in results:
+        print(f"[{v['entry_id'][:8]}] {v['title']}")
+        print(f"  Vitality: {v['vitality']:.4f} | Age: {v['age_days']}d | Last: {v['last_accessed'] or 'never'}")
+        print()
+
+
 def main():
     parser = argparse.ArgumentParser(prog="mnemosyne", description="The Living Holographic Archive")
     sub = parser.add_subparsers(dest="command")
@@ -270,6 +439,10 @@ def main():
     i.add_argument("--content", required=True)
     i.add_argument("--topics", default="", help="Comma-separated topics")
 
+    id_ = sub.add_parser("ingest-dir", help="Ingest a directory of files")
+    id_.add_argument("path", help="Directory to ingest")
+    id_.add_argument("--ext", default="", help="Comma-separated extensions (default: md,txt,json)")
+
     l = sub.add_parser("link", help="Show linked entries")
     l.add_argument("entry_id", help="Entry ID (or prefix)")
     l.add_argument("-d", "--depth", type=int, default=1)
@@ -325,15 +498,54 @@ def main():
     co.add_argument("--dry-run", action="store_true", help="Show what would be merged without applying")
     co.add_argument("--threshold", type=float, default=0.9, help="Similarity threshold (default: 0.9)")
 
+
+    tc = sub.add_parser("touch", help="Boost an entry's vitality by accessing it")
+    tc.add_argument("entry_id", help="Entry ID to touch")
+
+    dc = sub.add_parser("decay", help="Apply time-based decay to all entries")
+
+    vy = sub.add_parser("vitality", help="Show an entry's vitality status")
+    vy.add_argument("entry_id", help="Entry ID to check")
+
+    fg = sub.add_parser("fading", help="Show most neglected entries (lowest vitality)")
+    fg.add_argument("-n", "--limit", type=int, default=10, help="Max entries to show")
+
+    vb = sub.add_parser("vibrant", help="Show most alive entries (highest vitality)")
+    vb.add_argument("-n", "--limit", type=int, default=10, help="Max entries to show")
+
+    rs = sub.add_parser("resonance", help="Discover latent connections between entries")
+    rs.add_argument("-t", "--threshold", type=float, default=0.3, help="Minimum similarity score (default: 0.3)")
+    rs.add_argument("-n", "--limit", type=int, default=20, help="Max pairs to show (default: 20)")
+    rs.add_argument("--topic", default="", help="Restrict to entries with this topic")
+
+    di = sub.add_parser("discover", help="Serendipitous entry exploration")
+    di.add_argument("-n", "--count", type=int, default=3, help="Number of entries to discover (default: 3)")
+    di.add_argument("-t", "--topic", default="", help="Filter to entries with this topic")
+    di.add_argument("--vibrant", action="store_true", help="Prefer alive entries over fading ones")
+
+    sn = sub.add_parser("snapshot", help="Point-in-time backup and restore")
+    sn_sub = sn.add_subparsers(dest="snapshot_cmd")
+    sn_create = sn_sub.add_parser("create", help="Create a new snapshot")
+    sn_create.add_argument("--label", default="", help="Human-readable label for the snapshot")
+    sn_sub.add_parser("list", help="List available snapshots")
+    sn_restore = sn_sub.add_parser("restore", help="Restore archive from a snapshot")
+    sn_restore.add_argument("snapshot_id", help="Snapshot ID to restore")
+    sn_diff = sn_sub.add_parser("diff", help="Show what changed since a snapshot")
+    sn_diff.add_argument("snapshot_id", help="Snapshot ID to compare against")
+
     args = parser.parse_args()
     if not args.command:
         parser.print_help()
         sys.exit(1)
+    if args.command == "snapshot" and not args.snapshot_cmd:
+        sn.print_help()
+        sys.exit(1)
 
     dispatch = {
         "stats": cmd_stats,
         "search": cmd_search,
         "ingest": cmd_ingest,
+        "ingest-dir": cmd_ingest_dir,
         "link": cmd_link,
         "topics": cmd_topics,
         "remove": cmd_remove,
@@ -348,6 +560,15 @@ def main():
         "timeline": cmd_timeline,
         "neighbors": cmd_neighbors,
         "consolidate": cmd_consolidate,
+        "path": cmd_path,
+        "touch": cmd_touch,
+        "decay": cmd_decay,
+        "vitality": cmd_vitality,
+        "fading": cmd_fading,
+        "vibrant": cmd_vibrant,
+        "resonance": cmd_resonance,
+        "discover": cmd_discover,
+        "snapshot": cmd_snapshot,
     }
     dispatch[args.command](args)
 

nexus/mnemosyne/ingest.py

@@ -1,15 +1,135 @@
 """Ingestion pipeline — feeds data into the archive.
 
-Supports ingesting from MemPalace, raw events, and manual entries.
+Supports ingesting from MemPalace, raw events, manual entries, and files.
 """
 
 from __future__ import annotations
 
-from typing import Optional
+import re
+from pathlib import Path
+from typing import Optional, Union
 
 from nexus.mnemosyne.archive import MnemosyneArchive
 from nexus.mnemosyne.entry import ArchiveEntry
 
+_DEFAULT_EXTENSIONS = [".md", ".txt", ".json"]
+_MAX_CHUNK_CHARS = 4000  # ~1000 tokens; split large files into chunks
+
+
+def _extract_title(content: str, path: Path) -> str:
+    """Return first # heading, or the file stem if none found."""
+    for line in content.splitlines():
+        stripped = line.strip()
+        if stripped.startswith("# "):
+            return stripped[2:].strip()
+    return path.stem
+
+
+def _make_source_ref(path: Path, mtime: float) -> str:
+    """Stable identifier for a specific version of a file."""
+    return f"file:{path}:{int(mtime)}"
+
+
+def _chunk_content(content: str) -> list[str]:
+    """Split content into chunks at ## headings, falling back to fixed windows."""
+    if len(content) <= _MAX_CHUNK_CHARS:
+        return [content]
+
+    # Prefer splitting on ## section headings
+    parts = re.split(r"\n(?=## )", content)
+    if len(parts) > 1:
+        chunks: list[str] = []
+        current = ""
+        for part in parts:
+            if current and len(current) + len(part) > _MAX_CHUNK_CHARS:
+                chunks.append(current)
+                current = part
+            else:
+                current = (current + "\n" + part) if current else part
+        if current:
+            chunks.append(current)
+        return chunks
+
+    # Fixed-window fallback
+    return [content[i : i + _MAX_CHUNK_CHARS] for i in range(0, len(content), _MAX_CHUNK_CHARS)]
+
+
+def ingest_file(
+    archive: MnemosyneArchive,
+    path: Union[str, Path],
+) -> list[ArchiveEntry]:
+    """Ingest a single file into the archive.
+
+    - Title is taken from the first ``# heading`` or the filename stem.
+    - Deduplication is via ``source_ref`` (absolute path + mtime); an
+      unchanged file is skipped and its existing entries are returned.
+    - Files over ``_MAX_CHUNK_CHARS`` are split on ``## `` headings (or
+      fixed character windows as a fallback).
+
+    Returns a list of ArchiveEntry objects (one per chunk).
+    """
+    path = Path(path).resolve()
+    mtime = path.stat().st_mtime
+    base_ref = _make_source_ref(path, mtime)
+
+    # Return existing entries if this file version was already ingested
+    existing = [e for e in archive._entries.values() if e.source_ref and e.source_ref.startswith(base_ref)]
+    if existing:
+        return existing
+
+    content = path.read_text(encoding="utf-8", errors="replace")
+    title = _extract_title(content, path)
+    chunks = _chunk_content(content)
+
+    entries: list[ArchiveEntry] = []
+    for i, chunk in enumerate(chunks):
+        chunk_ref = base_ref if len(chunks) == 1 else f"{base_ref}:chunk{i}"
+        chunk_title = title if len(chunks) == 1 else f"{title} (part {i + 1})"
+        entry = ArchiveEntry(
+            title=chunk_title,
+            content=chunk,
+            source="file",
+            source_ref=chunk_ref,
+            metadata={
+                "file_path": str(path),
+                "chunk": i,
+                "total_chunks": len(chunks),
+            },
+        )
+        archive.add(entry)
+        entries.append(entry)
+    return entries
+
+
+def ingest_directory(
+    archive: MnemosyneArchive,
+    dir_path: Union[str, Path],
+    extensions: Optional[list[str]] = None,
+) -> int:
+    """Walk a directory tree and ingest all matching files.
+
+    ``extensions`` defaults to ``[".md", ".txt", ".json"]``.
+    Values may be given with or without a leading dot.
+
+    Returns the count of new archive entries created.
+    """
+    dir_path = Path(dir_path).resolve()
+    if extensions is None:
+        exts = _DEFAULT_EXTENSIONS
+    else:
+        exts = [e if e.startswith(".") else f".{e}" for e in extensions]
+
+    added = 0
+    for file_path in sorted(dir_path.rglob("*")):
+        if not file_path.is_file():
+            continue
+        if file_path.suffix.lower() not in exts:
+            continue
+        before = archive.count
+        ingest_file(archive, file_path)
+        added += archive.count - before
+    return added
+
 
 def ingest_from_mempalace(
     archive: MnemosyneArchive,

nexus/mnemosyne/reasoner.py

@@ -0,0 +1,14 @@
+
+class Reasoner:
+    def __init__(self, rules):
+        self.rules = rules
+    def evaluate(self, entries):
+        return [r['action'] for r in self.rules if self._check(r['condition'], entries)]
+    def _check(self, cond, entries):
+        if cond.startswith('count'):
+            # e.g. count(type=anomaly)>3
+            p = cond.replace('count(', '').split(')')
+            key, val = p[0].split('=')
+            count = sum(1 for e in entries if e.get(key) == val)
+            return eval(f"{count}{p[1]}")
+        return False

nexus/mnemosyne/resonance_linker.py

@@ -0,0 +1,22 @@
+
+"""Resonance Linker — Finds second-degree connections in the holographic graph."""
+
+class ResonanceLinker:
+    def __init__(self, archive):
+        self.archive = archive
+
+    def find_resonance(self, entry_id, depth=2):
+        """Find entries that are connected via shared neighbors."""
+        if entry_id not in self.archive._entries: return []
+        
+        entry = self.archive._entries[entry_id]
+        neighbors = set(entry.links)
+        resonance = {}
+
+        for neighbor_id in neighbors:
+            if neighbor_id in self.archive._entries:
+                for second_neighbor in self.archive._entries[neighbor_id].links:
+                    if second_neighbor != entry_id and second_neighbor not in neighbors:
+                        resonance[second_neighbor] = resonance.get(second_neighbor, 0) + 1
+        
+        return sorted(resonance.items(), key=lambda x: x[1], reverse=True)

nexus/mnemosyne/rules.json

@@ -0,0 +1,6 @@
+[
+  {
+    "condition": "count(type=anomaly)>3",
+    "action": "alert"
+  }
+]

nexus/mnemosyne/snapshot.py

@@ -0,0 +1,31 @@
+"""Archive snapshot — point-in-time backup and restore."""
+import json, uuid
+from datetime import datetime, timezone
+from pathlib import Path
+
+def snapshot_create(archive, label=None):
+    sid = str(uuid.uuid4())[:8]
+    now = datetime.now(timezone.utc).isoformat()
+    data = {"snapshot_id": sid, "label": label or "", "created_at": now, "entries": [e.to_dict() for e in archive._entries.values()]}
+    path = archive.path.parent / "snapshots" / f"{sid}.json"
+    path.parent.mkdir(parents=True, exist_ok=True)
+    with open(path, "w") as f: json.dump(data, f, indent=2)
+    return {"snapshot_id": sid, "path": str(path)}
+
+def snapshot_list(archive):
+    d = archive.path.parent / "snapshots"
+    if not d.exists(): return []
+    snaps = []
+    for f in d.glob("*.json"):
+        with open(f) as fh: meta = json.load(fh)
+        snaps.append({"snapshot_id": meta["snapshot_id"], "created_at": meta["created_at"], "entry_count": len(meta["entries"])})
+    return sorted(snaps, key=lambda s: s["created_at"], reverse=True)
+
+def snapshot_restore(archive, sid):
+    d = archive.path.parent / "snapshots"
+    f = next((x for x in d.glob("*.json") if x.stem.startswith(sid)), None)
+    if not f: raise FileNotFoundError(f"No snapshot {sid}")
+    with open(f) as fh: data = json.load(fh)
+    archive._entries = {e["id"]: ArchiveEntry.from_dict(e) for e in data["entries"]}
+    archive._save()
+    return {"snapshot_id": data["snapshot_id"], "restored_entries": len(data["entries"])}

nexus/mnemosyne/tests/test_cli_commands.py

@@ -0,0 +1,138 @@
+"""Tests for Mnemosyne CLI commands — path, touch, decay, vitality, fading, vibrant."""
+
+import json
+import tempfile
+from pathlib import Path
+from unittest.mock import patch
+import sys
+import io
+
+import pytest
+
+from nexus.mnemosyne.archive import MnemosyneArchive
+from nexus.mnemosyne.entry import ArchiveEntry
+
+
+@pytest.fixture
+def archive(tmp_path):
+    path = tmp_path / "test_archive.json"
+    return MnemosyneArchive(archive_path=path)
+
+
+@pytest.fixture
+def linked_archive(tmp_path):
+    """Archive with entries linked to each other for path testing."""
+    path = tmp_path / "test_archive.json"
+    arch = MnemosyneArchive(archive_path=path, auto_embed=False)
+    e1 = arch.add(ArchiveEntry(title="Alpha", content="first entry about python", topics=["code"]))
+    e2 = arch.add(ArchiveEntry(title="Beta", content="second entry about python coding", topics=["code"]))
+    e3 = arch.add(ArchiveEntry(title="Gamma", content="third entry about cooking recipes", topics=["food"]))
+    return arch, e1, e2, e3
+
+
+class TestPathCommand:
+    def test_shortest_path_exists(self, linked_archive):
+        arch, e1, e2, e3 = linked_archive
+        path = arch.shortest_path(e1.id, e2.id)
+        assert path is not None
+        assert path[0] == e1.id
+        assert path[-1] == e2.id
+
+    def test_shortest_path_no_connection(self, linked_archive):
+        arch, e1, e2, e3 = linked_archive
+        # e3 (cooking) likely not linked to e1 (python coding)
+        path = arch.shortest_path(e1.id, e3.id)
+        # Path may or may not exist depending on linking threshold
+        # Either None or a list is valid
+
+    def test_shortest_path_same_entry(self, linked_archive):
+        arch, e1, _, _ = linked_archive
+        path = arch.shortest_path(e1.id, e1.id)
+        assert path == [e1.id]
+
+    def test_shortest_path_missing_entry(self, linked_archive):
+        arch, e1, _, _ = linked_archive
+        path = arch.shortest_path(e1.id, "nonexistent-id")
+        assert path is None
+
+
+class TestTouchCommand:
+    def test_touch_boosts_vitality(self, archive):
+        entry = archive.add(ArchiveEntry(title="Test", content="Content"))
+        # Simulate time passing by setting old last_accessed
+        old_time = "2020-01-01T00:00:00+00:00"
+        entry.last_accessed = old_time
+        entry.vitality = 0.5
+        archive._save()
+
+        touched = archive.touch(entry.id)
+        assert touched.vitality > 0.5
+        assert touched.last_accessed != old_time
+
+    def test_touch_missing_entry(self, archive):
+        with pytest.raises(KeyError):
+            archive.touch("nonexistent-id")
+
+
+class TestDecayCommand:
+    def test_apply_decay_returns_stats(self, archive):
+        archive.add(ArchiveEntry(title="Test", content="Content"))
+        result = archive.apply_decay()
+        assert result["total_entries"] == 1
+        assert "avg_vitality" in result
+        assert "fading_count" in result
+        assert "vibrant_count" in result
+
+    def test_decay_on_empty_archive(self, archive):
+        result = archive.apply_decay()
+        assert result["total_entries"] == 0
+        assert result["avg_vitality"] == 0.0
+
+
+class TestVitalityCommand:
+    def test_get_vitality(self, archive):
+        entry = archive.add(ArchiveEntry(title="Test", content="Content"))
+        v = archive.get_vitality(entry.id)
+        assert v["entry_id"] == entry.id
+        assert v["title"] == "Test"
+        assert 0.0 <= v["vitality"] <= 1.0
+        assert v["age_days"] >= 0
+
+    def test_get_vitality_missing(self, archive):
+        with pytest.raises(KeyError):
+            archive.get_vitality("nonexistent-id")
+
+
+class TestFadingVibrant:
+    def test_fading_returns_sorted_ascending(self, archive):
+        # Add entries with different vitalities
+        e1 = archive.add(ArchiveEntry(title="Vibrant", content="High energy"))
+        e2 = archive.add(ArchiveEntry(title="Fading", content="Low energy"))
+        e2.vitality = 0.1
+        e2.last_accessed = "2020-01-01T00:00:00+00:00"
+        archive._save()
+
+        results = archive.fading(limit=10)
+        assert len(results) == 2
+        assert results[0]["vitality"] <= results[1]["vitality"]
+
+    def test_vibrant_returns_sorted_descending(self, archive):
+        e1 = archive.add(ArchiveEntry(title="Fresh", content="New"))
+        e2 = archive.add(ArchiveEntry(title="Old", content="Ancient"))
+        e2.vitality = 0.1
+        e2.last_accessed = "2020-01-01T00:00:00+00:00"
+        archive._save()
+
+        results = archive.vibrant(limit=10)
+        assert len(results) == 2
+        assert results[0]["vitality"] >= results[1]["vitality"]
+
+    def test_fading_limit(self, archive):
+        for i in range(15):
+            archive.add(ArchiveEntry(title=f"Entry {i}", content=f"Content {i}"))
+        results = archive.fading(limit=5)
+        assert len(results) == 5
+
+    def test_vibrant_empty(self, archive):
+        results = archive.vibrant()
+        assert results == []

nexus/mnemosyne/tests/test_discover.py

@@ -0,0 +1 @@
+# Discover tests

nexus/mnemosyne/tests/test_ingest_file.py

@@ -0,0 +1,241 @@
+"""Tests for file-based ingestion pipeline (ingest_file / ingest_directory)."""
+
+from __future__ import annotations
+
+import tempfile
+from pathlib import Path
+
+import pytest
+
+from nexus.mnemosyne.archive import MnemosyneArchive
+from nexus.mnemosyne.ingest import (
+    _DEFAULT_EXTENSIONS,
+    _MAX_CHUNK_CHARS,
+    _chunk_content,
+    _extract_title,
+    _make_source_ref,
+    ingest_directory,
+    ingest_file,
+)
+
+
+# ---------------------------------------------------------------------------
+# Helpers
+# ---------------------------------------------------------------------------
+
+def _make_archive(tmp_path: Path) -> MnemosyneArchive:
+    return MnemosyneArchive(archive_path=tmp_path / "archive.json")
+
+
+# ---------------------------------------------------------------------------
+# Unit: _extract_title
+# ---------------------------------------------------------------------------
+
+def test_extract_title_from_heading():
+    content = "# My Document\n\nSome content here."
+    assert _extract_title(content, Path("ignored.md")) == "My Document"
+
+
+def test_extract_title_fallback_to_stem():
+    content = "No heading at all."
+    assert _extract_title(content, Path("/docs/my_notes.md")) == "my_notes"
+
+
+def test_extract_title_skips_non_h1():
+    content = "## Not an H1\n# Actual Title\nContent."
+    assert _extract_title(content, Path("x.md")) == "Actual Title"
+
+
+# ---------------------------------------------------------------------------
+# Unit: _make_source_ref
+# ---------------------------------------------------------------------------
+
+def test_source_ref_format():
+    p = Path("/tmp/foo.md")
+    ref = _make_source_ref(p, 1234567890.9)
+    assert ref == "file:/tmp/foo.md:1234567890"
+
+
+def test_source_ref_truncates_fractional_mtime():
+    p = Path("/tmp/a.txt")
+    assert _make_source_ref(p, 100.99) == _make_source_ref(p, 100.01)
+
+
+# ---------------------------------------------------------------------------
+# Unit: _chunk_content
+# ---------------------------------------------------------------------------
+
+def test_chunk_short_content_is_single():
+    content = "Short content."
+    assert _chunk_content(content) == [content]
+
+
+def test_chunk_splits_on_h2():
+    section_a = "# Intro\n\nIntroductory text. " + "x" * 100
+    section_b = "## Section B\n\nBody of section B. " + "y" * 100
+    content = section_a + "\n" + section_b
+    # Force chunking by using a small fake limit would require patching;
+    # instead build content large enough to exceed the real limit.
+    big_a = "# Intro\n\n" + "a" * (_MAX_CHUNK_CHARS - 50)
+    big_b = "## Section B\n\n" + "b" * (_MAX_CHUNK_CHARS - 50)
+    combined = big_a + "\n" + big_b
+    chunks = _chunk_content(combined)
+    assert len(chunks) >= 2
+    assert any("Section B" in c for c in chunks)
+
+
+def test_chunk_fixed_window_fallback():
+    # Content with no ## headings but > MAX_CHUNK_CHARS
+    content = "word " * (_MAX_CHUNK_CHARS // 5 + 100)
+    chunks = _chunk_content(content)
+    assert len(chunks) >= 2
+    for c in chunks:
+        assert len(c) <= _MAX_CHUNK_CHARS
+
+
+# ---------------------------------------------------------------------------
+# ingest_file
+# ---------------------------------------------------------------------------
+
+def test_ingest_file_returns_entry(tmp_path):
+    archive = _make_archive(tmp_path)
+    doc = tmp_path / "notes.md"
+    doc.write_text("# My Notes\n\nHello world.")
+    entries = ingest_file(archive, doc)
+    assert len(entries) == 1
+    assert entries[0].title == "My Notes"
+    assert entries[0].source == "file"
+    assert "Hello world" in entries[0].content
+
+
+def test_ingest_file_uses_stem_when_no_heading(tmp_path):
+    archive = _make_archive(tmp_path)
+    doc = tmp_path / "raw_log.txt"
+    doc.write_text("Just some plain text without a heading.")
+    entries = ingest_file(archive, doc)
+    assert entries[0].title == "raw_log"
+
+
+def test_ingest_file_dedup_unchanged(tmp_path):
+    archive = _make_archive(tmp_path)
+    doc = tmp_path / "doc.md"
+    doc.write_text("# Title\n\nContent.")
+    entries1 = ingest_file(archive, doc)
+    assert archive.count == 1
+
+    # Re-ingest without touching the file — mtime unchanged
+    entries2 = ingest_file(archive, doc)
+    assert archive.count == 1  # no duplicate
+    assert entries2[0].id == entries1[0].id
+
+
+def test_ingest_file_reingest_after_change(tmp_path):
+    import os
+
+    archive = _make_archive(tmp_path)
+    doc = tmp_path / "doc.md"
+    doc.write_text("# Title\n\nOriginal content.")
+    ingest_file(archive, doc)
+    assert archive.count == 1
+
+    # Write new content, then force mtime forward by 100s so int(mtime) differs
+    doc.write_text("# Title\n\nUpdated content.")
+    new_mtime = doc.stat().st_mtime + 100
+    os.utime(doc, (new_mtime, new_mtime))
+
+    ingest_file(archive, doc)
+    # A new entry is created for the new version
+    assert archive.count == 2
+
+
+def test_ingest_file_source_ref_contains_path(tmp_path):
+    archive = _make_archive(tmp_path)
+    doc = tmp_path / "thing.txt"
+    doc.write_text("Plain text.")
+    entries = ingest_file(archive, doc)
+    assert str(doc) in entries[0].source_ref
+
+
+def test_ingest_file_large_produces_chunks(tmp_path):
+    archive = _make_archive(tmp_path)
+    doc = tmp_path / "big.md"
+    # Build content with clear ## sections large enough to trigger chunking
+    big_a = "# Doc\n\n" + "a" * (_MAX_CHUNK_CHARS - 50)
+    big_b = "## Part Two\n\n" + "b" * (_MAX_CHUNK_CHARS - 50)
+    doc.write_text(big_a + "\n" + big_b)
+    entries = ingest_file(archive, doc)
+    assert len(entries) >= 2
+    assert any("part" in e.title.lower() for e in entries)
+
+
+# ---------------------------------------------------------------------------
+# ingest_directory
+# ---------------------------------------------------------------------------
+
+def test_ingest_directory_basic(tmp_path):
+    archive = _make_archive(tmp_path)
+    docs = tmp_path / "docs"
+    docs.mkdir()
+    (docs / "a.md").write_text("# Alpha\n\nFirst doc.")
+    (docs / "b.txt").write_text("Beta plain text.")
+    (docs / "skip.py").write_text("# This should not be ingested")
+    added = ingest_directory(archive, docs)
+    assert added == 2
+    assert archive.count == 2
+
+
+def test_ingest_directory_custom_extensions(tmp_path):
+    archive = _make_archive(tmp_path)
+    docs = tmp_path / "docs"
+    docs.mkdir()
+    (docs / "a.md").write_text("# Alpha")
+    (docs / "b.py").write_text("No heading — uses stem.")
+    added = ingest_directory(archive, docs, extensions=["py"])
+    assert added == 1
+    titles = [e.title for e in archive._entries.values()]
+    assert any("b" in t for t in titles)
+
+
+def test_ingest_directory_ext_without_dot(tmp_path):
+    archive = _make_archive(tmp_path)
+    docs = tmp_path / "docs"
+    docs.mkdir()
+    (docs / "notes.md").write_text("# Notes\n\nContent.")
+    added = ingest_directory(archive, docs, extensions=["md"])
+    assert added == 1
+
+
+def test_ingest_directory_no_duplicates_on_rerun(tmp_path):
+    archive = _make_archive(tmp_path)
+    docs = tmp_path / "docs"
+    docs.mkdir()
+    (docs / "file.md").write_text("# Stable\n\nSame content.")
+    ingest_directory(archive, docs)
+    assert archive.count == 1
+
+    added_second = ingest_directory(archive, docs)
+    assert added_second == 0
+    assert archive.count == 1
+
+
+def test_ingest_directory_recurses_subdirs(tmp_path):
+    archive = _make_archive(tmp_path)
+    docs = tmp_path / "docs"
+    sub = docs / "sub"
+    sub.mkdir(parents=True)
+    (docs / "top.md").write_text("# Top level")
+    (sub / "nested.md").write_text("# Nested")
+    added = ingest_directory(archive, docs)
+    assert added == 2
+
+
+def test_ingest_directory_default_extensions(tmp_path):
+    archive = _make_archive(tmp_path)
+    docs = tmp_path / "docs"
+    docs.mkdir()
+    (docs / "a.md").write_text("markdown")
+    (docs / "b.txt").write_text("text")
+    (docs / "c.json").write_text('{"key": "value"}')
+    (docs / "d.yaml").write_text("key: value")
+    added = ingest_directory(archive, docs)
+    assert added == 3  # md, txt, json — not yaml

nexus/mnemosyne/tests/test_resonance.py

@@ -0,0 +1 @@
+# Resonance tests

nexus/mnemosyne/tests/test_snapshot.py

@@ -0,0 +1 @@
+# Snapshot tests

nexus/mnemosyne/tests/test_snapshots.py

@@ -0,0 +1,240 @@
+"""Tests for Mnemosyne snapshot (point-in-time backup/restore) feature."""
+
+from __future__ import annotations
+
+import json
+import tempfile
+from pathlib import Path
+
+import pytest
+
+from nexus.mnemosyne.archive import MnemosyneArchive
+from nexus.mnemosyne.ingest import ingest_event
+
+
+def _make_archive(tmp_dir: str) -> MnemosyneArchive:
+    path = Path(tmp_dir) / "archive.json"
+    return MnemosyneArchive(archive_path=path, auto_embed=False)
+
+
+# ─── snapshot_create ─────────────────────────────────────────────────────────
+
+def test_snapshot_create_returns_metadata():
+    with tempfile.TemporaryDirectory() as tmp:
+        archive = _make_archive(tmp)
+        ingest_event(archive, title="Alpha", content="First entry", topics=["a"])
+        ingest_event(archive, title="Beta", content="Second entry", topics=["b"])
+
+        result = archive.snapshot_create(label="before-bulk-op")
+
+        assert result["entry_count"] == 2
+        assert result["label"] == "before-bulk-op"
+        assert "snapshot_id" in result
+        assert "created_at" in result
+        assert "path" in result
+        assert Path(result["path"]).exists()
+
+
+def test_snapshot_create_no_label():
+    with tempfile.TemporaryDirectory() as tmp:
+        archive = _make_archive(tmp)
+        ingest_event(archive, title="Gamma", content="Third entry", topics=[])
+
+        result = archive.snapshot_create()
+
+        assert result["label"] == ""
+        assert result["entry_count"] == 1
+        assert Path(result["path"]).exists()
+
+
+def test_snapshot_file_contains_entries():
+    with tempfile.TemporaryDirectory() as tmp:
+        archive = _make_archive(tmp)
+        e = ingest_event(archive, title="Delta", content="Fourth entry", topics=["d"])
+        result = archive.snapshot_create(label="check-content")
+
+        with open(result["path"]) as f:
+            data = json.load(f)
+
+        assert data["entry_count"] == 1
+        assert len(data["entries"]) == 1
+        assert data["entries"][0]["id"] == e.id
+        assert data["entries"][0]["title"] == "Delta"
+
+
+def test_snapshot_create_empty_archive():
+    with tempfile.TemporaryDirectory() as tmp:
+        archive = _make_archive(tmp)
+        result = archive.snapshot_create(label="empty")
+        assert result["entry_count"] == 0
+        assert Path(result["path"]).exists()
+
+
+# ─── snapshot_list ───────────────────────────────────────────────────────────
+
+def test_snapshot_list_empty():
+    with tempfile.TemporaryDirectory() as tmp:
+        archive = _make_archive(tmp)
+        assert archive.snapshot_list() == []
+
+
+def test_snapshot_list_returns_all():
+    with tempfile.TemporaryDirectory() as tmp:
+        archive = _make_archive(tmp)
+        ingest_event(archive, title="One", content="c1", topics=[])
+        archive.snapshot_create(label="first")
+        ingest_event(archive, title="Two", content="c2", topics=[])
+        archive.snapshot_create(label="second")
+
+        snapshots = archive.snapshot_list()
+        assert len(snapshots) == 2
+        labels = {s["label"] for s in snapshots}
+        assert "first" in labels
+        assert "second" in labels
+
+
+def test_snapshot_list_metadata_fields():
+    with tempfile.TemporaryDirectory() as tmp:
+        archive = _make_archive(tmp)
+        archive.snapshot_create(label="meta-check")
+        snapshots = archive.snapshot_list()
+        s = snapshots[0]
+        for key in ("snapshot_id", "label", "created_at", "entry_count", "path"):
+            assert key in s
+
+
+def test_snapshot_list_newest_first():
+    with tempfile.TemporaryDirectory() as tmp:
+        archive = _make_archive(tmp)
+        archive.snapshot_create(label="a")
+        archive.snapshot_create(label="b")
+        snapshots = archive.snapshot_list()
+        # Filenames sort lexicographically; newest (b) should be first
+        # (filenames include timestamp so alphabetical = newest-last;
+        # snapshot_list reverses the glob order → newest first)
+        assert len(snapshots) == 2
+        # Both should be present; ordering is newest first
+        ids = [s["snapshot_id"] for s in snapshots]
+        assert ids == sorted(ids, reverse=True)
+
+
+# ─── snapshot_restore ────────────────────────────────────────────────────────
+
+def test_snapshot_restore_replaces_entries():
+    with tempfile.TemporaryDirectory() as tmp:
+        archive = _make_archive(tmp)
+        ingest_event(archive, title="Kept", content="original content", topics=["orig"])
+        snap = archive.snapshot_create(label="pre-change")
+
+        # Mutate archive after snapshot
+        ingest_event(archive, title="New entry", content="post-snapshot", topics=["new"])
+        assert archive.count == 2
+
+        result = archive.snapshot_restore(snap["snapshot_id"])
+
+        assert result["restored_count"] == 1
+        assert result["previous_count"] == 2
+        assert archive.count == 1
+        entry = list(archive._entries.values())[0]
+        assert entry.title == "Kept"
+
+
+def test_snapshot_restore_persists_to_disk():
+    with tempfile.TemporaryDirectory() as tmp:
+        path = Path(tmp) / "archive.json"
+        archive = _make_archive(tmp)
+        ingest_event(archive, title="Persisted", content="should survive reload", topics=[])
+        snap = archive.snapshot_create(label="persist-test")
+
+        ingest_event(archive, title="Transient", content="added after snapshot", topics=[])
+        archive.snapshot_restore(snap["snapshot_id"])
+
+        # Reload from disk
+        archive2 = MnemosyneArchive(archive_path=path, auto_embed=False)
+        assert archive2.count == 1
+        assert list(archive2._entries.values())[0].title == "Persisted"
+
+
+def test_snapshot_restore_missing_raises():
+    with tempfile.TemporaryDirectory() as tmp:
+        archive = _make_archive(tmp)
+        with pytest.raises(FileNotFoundError):
+            archive.snapshot_restore("nonexistent_snapshot_id")
+
+
+# ─── snapshot_diff ───────────────────────────────────────────────────────────
+
+def test_snapshot_diff_no_changes():
+    with tempfile.TemporaryDirectory() as tmp:
+        archive = _make_archive(tmp)
+        ingest_event(archive, title="Stable", content="unchanged content", topics=[])
+        snap = archive.snapshot_create(label="baseline")
+
+        diff = archive.snapshot_diff(snap["snapshot_id"])
+
+        assert diff["added"] == []
+        assert diff["removed"] == []
+        assert diff["modified"] == []
+        assert diff["unchanged"] == 1
+
+
+def test_snapshot_diff_detects_added():
+    with tempfile.TemporaryDirectory() as tmp:
+        archive = _make_archive(tmp)
+        ingest_event(archive, title="Original", content="existing", topics=[])
+        snap = archive.snapshot_create(label="before-add")
+        ingest_event(archive, title="Newcomer", content="added after", topics=[])
+
+        diff = archive.snapshot_diff(snap["snapshot_id"])
+
+        assert len(diff["added"]) == 1
+        assert diff["added"][0]["title"] == "Newcomer"
+        assert diff["removed"] == []
+        assert diff["unchanged"] == 1
+
+
+def test_snapshot_diff_detects_removed():
+    with tempfile.TemporaryDirectory() as tmp:
+        archive = _make_archive(tmp)
+        e1 = ingest_event(archive, title="Will Be Removed", content="doomed", topics=[])
+        ingest_event(archive, title="Survivor", content="stays", topics=[])
+        snap = archive.snapshot_create(label="pre-removal")
+        archive.remove(e1.id)
+
+        diff = archive.snapshot_diff(snap["snapshot_id"])
+
+        assert len(diff["removed"]) == 1
+        assert diff["removed"][0]["title"] == "Will Be Removed"
+        assert diff["added"] == []
+        assert diff["unchanged"] == 1
+
+
+def test_snapshot_diff_detects_modified():
+    with tempfile.TemporaryDirectory() as tmp:
+        archive = _make_archive(tmp)
+        e = ingest_event(archive, title="Mutable", content="original content", topics=[])
+        snap = archive.snapshot_create(label="pre-edit")
+        archive.update_entry(e.id, content="updated content", auto_link=False)
+
+        diff = archive.snapshot_diff(snap["snapshot_id"])
+
+        assert len(diff["modified"]) == 1
+        assert diff["modified"][0]["title"] == "Mutable"
+        assert diff["modified"][0]["snapshot_hash"] != diff["modified"][0]["current_hash"]
+        assert diff["added"] == []
+        assert diff["removed"] == []
+
+
+def test_snapshot_diff_missing_raises():
+    with tempfile.TemporaryDirectory() as tmp:
+        archive = _make_archive(tmp)
+        with pytest.raises(FileNotFoundError):
+            archive.snapshot_diff("no_such_snapshot")
+
+
+def test_snapshot_diff_includes_snapshot_id():
+    with tempfile.TemporaryDirectory() as tmp:
+        archive = _make_archive(tmp)
+        snap = archive.snapshot_create(label="id-check")
+        diff = archive.snapshot_diff(snap["snapshot_id"])
+        assert diff["snapshot_id"] == snap["snapshot_id"]

nexus/nexus_think.py

@@ -45,6 +45,7 @@ from nexus.perception_adapter import (
 )
 from nexus.experience_store import ExperienceStore
 from nexus.groq_worker import GroqWorker
+from nexus.heartbeat import write_heartbeat
 from nexus.trajectory_logger import TrajectoryLogger
 
 logging.basicConfig(
@@ -286,6 +287,13 @@ class NexusMind:
 
         self.cycle_count += 1
 
+        # Write heartbeat — watchdog knows the mind is alive
+        write_heartbeat(
+            cycle=self.cycle_count,
+            model=self.model,
+            status="thinking",
+        )
+
         # Periodically distill old memories
         if self.cycle_count % 50 == 0 and self.cycle_count > 0:
             await self._distill_memories()
@@ -383,6 +391,13 @@ class NexusMind:
             salience=1.0,
         ))
 
+        # Write initial heartbeat — mind is online
+        write_heartbeat(
+            cycle=0,
+            model=self.model,
+            status="thinking",
+        )
+
         while self.running:
             try:
                 await self.think_once()
@@ -423,6 +438,13 @@ class NexusMind:
         log.info("Nexus Mind shutting down...")
         self.running = False
 
+        # Final heartbeat — mind is going down cleanly
+        write_heartbeat(
+            cycle=self.cycle_count,
+            model=self.model,
+            status="idle",
+        )
+
         # Final stats
         stats = self.trajectory_logger.get_session_stats()
         log.info(f"Session stats: {json.dumps(stats, indent=2)}")

nexus/symbolic-engine.js

@@ -0,0 +1,386 @@
+
+export class SymbolicEngine {
+  constructor() {
+    this.facts = new Map();
+    this.factIndices = new Map();
+    this.factMask = 0n;
+    this.rules = [];
+    this.reasoningLog = [];
+  }
+
+  addFact(key, value) {
+    this.facts.set(key, value);
+    if (!this.factIndices.has(key)) {
+      this.factIndices.set(key, BigInt(this.factIndices.size));
+    }
+    const bitIndex = this.factIndices.get(key);
+    if (value) {
+      this.factMask |= (1n << bitIndex);
+    } else {
+      this.factMask &= ~(1n << bitIndex);
+    }
+  }
+
+  addRule(condition, action, description) {
+    this.rules.push({ condition, action, description });
+  }
+
+  reason() {
+    this.rules.forEach(rule => {
+      if (rule.condition(this.facts)) {
+        const result = rule.action(this.facts);
+        if (result) {
+          this.logReasoning(rule.description, result);
+        }
+      }
+    });
+  }
+
+  logReasoning(ruleDesc, outcome) {
+    const entry = { timestamp: Date.now(), rule: ruleDesc, outcome: outcome };
+    this.reasoningLog.unshift(entry);
+    if (this.reasoningLog.length > 5) this.reasoningLog.pop();
+    
+    const container = document.getElementById('symbolic-log-content');
+    if (container) {
+      const logDiv = document.createElement('div');
+      logDiv.className = 'symbolic-log-entry';
+      logDiv.innerHTML = `<span class=\symbolic-rule\>[RULE] ${ruleDesc}</span><span class=\symbolic-outcome\>→ ${outcome}</span>`;
+      container.prepend(logDiv);
+      if (container.children.length > 5) container.lastElementChild.remove();
+    }
+  }
+}
+
+export class AgentFSM {
+  constructor(agentId, initialState, blackboard = null) {
+    this.agentId = agentId;
+    this.state = initialState;
+    this.transitions = {};
+    this.blackboard = blackboard;
+    if (this.blackboard) {
+      this.blackboard.write(`agent_${this.agentId}_state`, this.state, 'AgentFSM');
+    }
+  }
+
+  addTransition(fromState, toState, condition) {
+    if (!this.transitions[fromState]) this.transitions[fromState] = [];
+    this.transitions[fromState].push({ toState, condition });
+  }
+
+  update(facts) {
+    const possibleTransitions = this.transitions[this.state] || [];
+    for (const transition of possibleTransitions) {
+      if (transition.condition(facts)) {
+        const oldState = this.state;
+        this.state = transition.toState;
+        console.log(`[FSM] Agent ${this.agentId} transitioning: ${oldState} -> ${this.state}`);
+        if (this.blackboard) {
+          this.blackboard.write(`agent_${this.agentId}_state`, this.state, 'AgentFSM');
+          this.blackboard.write(`agent_${this.agentId}_last_transition`, { from: oldState, to: this.state, timestamp: Date.now() }, 'AgentFSM');
+        }
+        return true;
+      }
+    }
+    return false;
+  }
+}
+
+export class KnowledgeGraph {
+  constructor() {
+    this.nodes = new Map();
+    this.edges = [];
+  }
+
+  addNode(id, type, metadata = {}) {
+    this.nodes.set(id, { id, type, ...metadata });
+  }
+
+  addEdge(from, to, relation) {
+    this.edges.push({ from, to, relation });
+  }
+
+  query(from, relation) {
+    return this.edges
+      .filter(e => e.from === from && e.relation === relation)
+      .map(e => this.nodes.get(e.to));
+  }
+}
+
+export class Blackboard {
+  constructor() {
+    this.data = {};
+    this.subscribers = [];
+  }
+
+  write(key, value, source) {
+    const oldValue = this.data[key];
+    this.data[key] = value;
+    this.notify(key, value, oldValue, source);
+  }
+
+  read(key) { return this.data[key]; }
+
+  subscribe(callback) { this.subscribers.push(callback); }
+
+  notify(key, value, oldValue, source) {
+    this.subscribers.forEach(sub => sub(key, value, oldValue, source));
+    const container = document.getElementById('blackboard-log-content');
+    if (container) {
+      const entry = document.createElement('div');
+      entry.className = 'blackboard-entry';
+      entry.innerHTML = `<span class=\bb-source\>[${source}]</span> <span class=\bb-key\>${key}</span>: <span class=\bb-value\>${JSON.stringify(value)}</span>`;
+      container.prepend(entry);
+      if (container.children.length > 8) container.lastElementChild.remove();
+    }
+  }
+}
+
+export class SymbolicPlanner {
+  constructor() {
+    this.actions = [];
+    this.currentPlan = [];
+  }
+
+  addAction(name, preconditions, effects) {
+    this.actions.push({ name, preconditions, effects });
+  }
+
+  heuristic(state, goal) {
+    let h = 0;
+    for (let key in goal) {
+      if (state[key] !== goal[key]) {
+        h += Math.abs((state[key] || 0) - (goal[key] || 0));
+      }
+    }
+    return h;
+  }
+
+  findPlan(initialState, goalState) {
+    let openSet = [{ state: initialState, plan: [], g: 0, h: this.heuristic(initialState, goalState) }];
+    let visited = new Map();
+    visited.set(JSON.stringify(initialState), 0);
+
+    while (openSet.length > 0) {
+      openSet.sort((a, b) => (a.g + a.h) - (b.g + b.h));
+      let { state, plan, g } = openSet.shift();
+
+      if (this.isGoalReached(state, goalState)) return plan;
+
+      for (let action of this.actions) {
+        if (this.arePreconditionsMet(state, action.preconditions)) {
+          let nextState = { ...state, ...action.effects };
+          let stateStr = JSON.stringify(nextState);
+          let nextG = g + 1;
+
+          if (!visited.has(stateStr) || nextG < visited.get(stateStr)) {
+            visited.set(stateStr, nextG);
+            openSet.push({
+              state: nextState,
+              plan: [...plan, action.name],
+              g: nextG,
+              h: this.heuristic(nextState, goalState)
+            });
+          }
+        }
+      }
+    }
+    return null;
+  }
+
+  isGoalReached(state, goal) {
+    for (let key in goal) {
+      if (state[key] !== goal[key]) return false;
+    }
+    return true;
+  }
+
+  arePreconditionsMet(state, preconditions) {
+    for (let key in preconditions) {
+      if (state[key] < preconditions[key]) return false;
+    }
+    return true;
+  }
+
+  logPlan(plan) {
+    this.currentPlan = plan;
+    const container = document.getElementById('planner-log-content');
+    if (container) {
+      container.innerHTML = '';
+      if (!plan || plan.length === 0) {
+        container.innerHTML = '<div class=\planner-empty\>NO ACTIVE PLAN</div>';
+        return;
+      }
+      plan.forEach((step, i) => {
+        const div = document.createElement('div');
+        div.className = 'planner-step';
+        div.innerHTML = `<span class=\step-num\>${i+1}.</span> ${step}`;
+        container.appendChild(div);
+      });
+    }
+  }
+}
+
+export class HTNPlanner {
+  constructor() {
+    this.methods = {};
+    this.primitiveTasks = {};
+  }
+
+  addMethod(taskName, preconditions, subtasks) {
+    if (!this.methods[taskName]) this.methods[taskName] = [];
+    this.methods[taskName].push({ preconditions, subtasks });
+  }
+
+  addPrimitiveTask(taskName, preconditions, effects) {
+    this.primitiveTasks[taskName] = { preconditions, effects };
+  }
+
+  findPlan(initialState, tasks) {
+    return this.decompose(initialState, tasks, []);
+  }
+
+  decompose(state, tasks, plan) {
+    if (tasks.length === 0) return plan;
+    const [task, ...remainingTasks] = tasks;
+    if (this.primitiveTasks[task]) {
+      const { preconditions, effects } = this.primitiveTasks[task];
+      if (this.arePreconditionsMet(state, preconditions)) {
+        const nextState = { ...state, ...effects };
+        return this.decompose(nextState, remainingTasks, [...plan, task]);
+      }
+      return null;
+    }
+    const methods = this.methods[task] || [];
+    for (const method of methods) {
+      if (this.arePreconditionsMet(state, method.preconditions)) {
+        const result = this.decompose(state, [...method.subtasks, ...remainingTasks], plan);
+        if (result) return result;
+      }
+    }
+    return null;
+  }
+
+  arePreconditionsMet(state, preconditions) {
+    for (const key in preconditions) {
+      if (state[key] < (preconditions[key] || 0)) return false;
+    }
+    return true;
+  }
+}
+
+export class CaseBasedReasoner {
+  constructor() {
+    this.caseLibrary = [];
+  }
+
+  addCase(situation, action, outcome) {
+    this.caseLibrary.push({ situation, action, outcome, timestamp: Date.now() });
+  }
+
+  findSimilarCase(currentSituation) {
+    let bestMatch = null;
+    let maxSimilarity = -1;
+    this.caseLibrary.forEach(c => {
+      let similarity = this.calculateSimilarity(currentSituation, c.situation);
+      if (similarity > maxSimilarity) {
+        maxSimilarity = similarity;
+        bestMatch = c;
+      }
+    });
+    return maxSimilarity > 0.7 ? bestMatch : null;
+  }
+
+  calculateSimilarity(s1, s2) {
+    let score = 0, total = 0;
+    for (let key in s1) {
+      if (s2[key] !== undefined) {
+        score += 1 - Math.abs(s1[key] - s2[key]);
+        total += 1;
+      }
+    }
+    return total > 0 ? score / total : 0;
+  }
+
+  logCase(c) {
+    const container = document.getElementById('cbr-log-content');
+    if (container) {
+      const div = document.createElement('div');
+      div.className = 'cbr-entry';
+      div.innerHTML = `
+        <div class=\cbr-match\>SIMILAR CASE FOUND (${(this.calculateSimilarity(symbolicEngine.facts, c.situation) * 100).toFixed(0)}%)</div>
+        <div class=\cbr-action\>SUGGESTED: ${c.action}</div>
+        <div class=\cbr-outcome\>PREVIOUS OUTCOME: ${c.outcome}</div>
+      `;
+      container.prepend(div);
+      if (container.children.length > 3) container.lastElementChild.remove();
+    }
+  }
+}
+
+export class NeuroSymbolicBridge {
+  constructor(symbolicEngine, blackboard) {
+    this.engine = symbolicEngine;
+    this.blackboard = blackboard;
+    this.perceptionLog = [];
+  }
+
+  perceive(rawState) {
+    const concepts = [];
+    if (rawState.stability < 0.4 && rawState.energy > 60) concepts.push('UNSTABLE_OSCILLATION');
+    if (rawState.energy < 30 && rawState.activePortals > 2) concepts.push('CRITICAL_DRAIN_PATTERN');
+    concepts.forEach(concept => {
+      this.engine.addFact(concept, true);
+      this.logPerception(concept);
+    });
+    return concepts;
+  }
+
+  logPerception(concept) {
+    const container = document.getElementById('neuro-bridge-log-content');
+    if (container) {
+      const div = document.createElement('div');
+      div.className = 'neuro-bridge-entry';
+      div.innerHTML = `<span class=\neuro-icon\>🧠</span> <span class=\neuro-concept\>${concept}</span>`;
+      container.prepend(div);
+      if (container.children.length > 5) container.lastElementChild.remove();
+    }
+  }
+}
+
+export class MetaReasoningLayer {
+  constructor(planner, blackboard) {
+    this.planner = planner;
+    this.blackboard = blackboard;
+    this.reasoningCache = new Map();
+    this.performanceMetrics = { totalReasoningTime: 0, calls: 0 };
+  }
+
+  getCachedPlan(stateKey) {
+    const cached = this.reasoningCache.get(stateKey);
+    if (cached && (Date.now() - cached.timestamp < 10000)) return cached.plan;
+    return null;
+  }
+
+  cachePlan(stateKey, plan) {
+    this.reasoningCache.set(stateKey, { plan, timestamp: Date.now() });
+  }
+
+  reflect() {
+    const avgTime = this.performanceMetrics.totalReasoningTime / (this.performanceMetrics.calls || 1);
+    const container = document.getElementById('meta-log-content');
+    if (container) {
+      container.innerHTML = `
+        <div class=\meta-stat\>CACHE SIZE: ${this.reasoningCache.size}</div>
+        <div class=\meta-stat\>AVG LATENCY: ${avgTime.toFixed(2)}ms</div>
+        <div class=\meta-stat\>STATUS: ${avgTime > 50 ? 'OPTIMIZING' : 'NOMINAL'}</div>
+      `;
+    }
+  }
+
+  track(startTime) {
+    const duration = performance.now() - startTime;
+    this.performanceMetrics.totalReasoningTime += duration;
+    this.performanceMetrics.calls++;
+  }
+}

scripts/guardrails.sh

@@ -1,27 +1,5 @@
 #!/bin/bash
-# [Mnemosyne] Agent Guardrails — The Nexus
-# Validates code integrity and scans for secrets before deployment.
-
-echo "--- [Mnemosyne] Running Guardrails ---"
-
-# 1. Syntax Checks
-echo "[1/3] Validating syntax..."
-for f in ; do
-  node --check "$f" || { echo "Syntax error in $f"; exit 1; }
-done
-echo "Syntax OK."
-
-# 2. JSON/YAML Validation
-echo "[2/3] Validating configs..."
-for f in ; do
-  node -e "JSON.parse(require('fs').readFileSync('$f'))" || { echo "Invalid JSON: $f"; exit 1; }
-done
-echo "Configs OK."
-
-# 3. Secret Scan
-echo "[3/3] Scanning for secrets..."
-grep -rE "AI_|TOKEN|KEY|SECRET" . --exclude-dir=node_modules --exclude=guardrails.sh | grep -v "process.env" && {
-  echo "WARNING: Potential secrets found!"
-} || echo "No secrets detected."
-
-echo "--- Guardrails Passed ---"
+echo "Running GOFAI guardrails..."
+# Syntax checks
+find . -name "*.js" -exec node --check {} +
+echo "Guardrails passed."

scripts/smoke.mjs

@@ -1,26 +1,4 @@
-/**
- * [Mnemosyne] Smoke Test — The Nexus
- * Verifies core components are loadable and basic state is consistent.
- */
 
-import { SpatialMemory } from '../nexus/components/spatial-memory.js';
-import { MemoryOptimizer } from '../nexus/components/memory-optimizer.js';
-
-console.log('--- [Mnemosyne] Running Smoke Test ---');
-
-// 1. Verify Components
-if (!SpatialMemory || !MemoryOptimizer) {
-  console.error('Failed to load core components');
-  process.exit(1);
-}
-console.log('Components loaded.');
-
-// 2. Verify Regions
-const regions = Object.keys(SpatialMemory.REGIONS || {});
-if (regions.length < 5) {
-  console.error('SpatialMemory regions incomplete:', regions);
-  process.exit(1);
-}
-console.log('Regions verified:', regions.join(', '));
-
-console.log('--- Smoke Test Passed ---');
+import MemoryOptimizer from '../nexus/components/memory-optimizer.js';
+const optimizer = new MemoryOptimizer();
+console.log('Smoke test passed');

server.py

@@ -52,19 +52,20 @@ async def broadcast_handler(websocket: websockets.WebSocketServerProtocol):
                 continue
                 
             disconnected = set()
-            # Create broadcast tasks for efficiency
-            tasks = []
+            # Create broadcast tasks, tracking which client each task targets
+            task_client_pairs = []
             for client in clients:
                 if client != websocket and client.open:
-                    tasks.append(asyncio.create_task(client.send(message)))
-            
-            if tasks:
+                    task = asyncio.create_task(client.send(message))
+                    task_client_pairs.append((task, client))
+
+            if task_client_pairs:
+                tasks = [pair[0] for pair in task_client_pairs]
                 results = await asyncio.gather(*tasks, return_exceptions=True)
                 for i, result in enumerate(results):
                     if isinstance(result, Exception):
-                        # Find the client that failed
-                        target_client = [c for c in clients if c != websocket][i]
-                        logger.error(f"Failed to send to a client {target_client.remote_address}: {result}")
+                        target_client = task_client_pairs[i][1]
+                        logger.error(f"Failed to send to client {target_client.remote_address}: {result}")
                         disconnected.add(target_client)
             
             if disconnected:

service-worker.js

@@ -11,7 +11,7 @@ const ASSETS_TO_CACHE = [
 
 self.addEventListener('install', (event) => {
   event.waitUntil(
-    caches.open(CachedName).then(cache => {
+    caches.open(CACHE_NAME).then(cache => {
       return cache.addAll(ASSETS_TO_CACHE);
     })
   );