fix: closes #873

.gitea.yml

@@ -2,7 +2,7 @@ protection:
   main:
     required_pull_request_reviews:
       dismiss_stale_reviews: true
-      required_approving_review_count: 1 
+      required_approving_review_count: 1
     required_linear_history: true
     allow_force_push: false
     allow_deletions: false
@@ -14,55 +14,4 @@ protection:
     reviewers:
       - 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
+      - Timmy

.gitea/branch-protection.yml

@@ -4,52 +4,6 @@ rules:
   require_pull_request: true
   required_approvals: 1
   dismiss_stale_reviews: true
-  require_ci_to_pass: true  # Enabled for all except the-nexus (#915)
+  require_ci_to_pass: true
   block_force_pushes: true
   block_deletions: true
->>>>>>> replace
-```
-
-CODEOWNERS
-```txt
-<<<<<<< search
-# CODEOWNERS - Mandatory Review Policy
-
-# Default reviewer for all repositories
-* @perplexity
-
-# Specialized component owners
-hermes-agent/ @Timmy
-hermes-agent/agent-core/ @Rockachopa
-hermes-agent/protocol/ @Timmy
-the-nexus/ @perplexity
-the-nexus/ai/ @Timmy
-timmy-home/ @perplexity
-timmy-config/ @perplexity
-
-# Owner gates
-hermes-agent/ @Timmy
-
-# QA reviewer for all PRs
-* @perplexity
-# Branch protection rules for main branch
-branch: main
-rules:
-  - type: push
-    # Push protection rules
-    required_pull_request_reviews: true
-    required_status_checks: true
-    # CI is disabled for the-nexus per #915
-    required_approving_review_count: 1
-    block_force_pushes: true
-    block_deletions: true
-
-  - type: merge  # Merge protection rules
-    required_pull_request_reviews: true
-    required_status_checks: true
-    required_approving_review_count: 1
-    dismiss_stale_reviews: true
-    require_code_owner_reviews: true
-    required_status_check_contexts:
-      - "ci/ci"
-      - "ci/qa"

app.js

@@ -1,4 +1,4 @@
-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';
@@ -597,7 +597,7 @@ 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() {
@@ -666,7 +666,7 @@ 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);
 

index.html

@@ -338,17 +338,6 @@
       <button onclick="searchMemPalace()">Search</button>
     </div>
     <div id="mempalace-results" style="position:fixed; right:24px; top:84px; max-height:200px; overflow-y:auto; background:rgba(0,0,0,0.3); padding:8px; font-family:'JetBrains Mono',monospace; font-size:11px; color:#e0f0ff; border-left:2px solid #4af0c0;"></div>
-    <div id="mem-palace-controls" style="position:fixed; right:24px; top:54px; background:rgba(74,240,192,0.05); padding:4px 8px; font-family:'JetBrains Mono',monospace; font-size:10px; border-left:2px solid #4af0c0;">
-      <button class="mem-palace-mining-btn" onclick="mineChatToMemPalace()">Mine Chat</button>
-      <button onclick="searchMemPalace()">Search</button>
-    </div>
-    <div id="mempalace-results" style="position:fixed; right:24px; top:84px; max-height:200px; overflow-y:auto; background:rgba(0,0,0,0.3); padding:8px; font-family:'JetBrains Mono',monospace; font-size:11px; color:#e0f0ff; border-left:2px solid #4af0c0;"></div>
->>>>>>> replace
-```
-
-index.html
-```html
-<<<<<<< search
     <div class="branch-policy" style="margin-top: 10px; font-size: 12px; color: #aaa;">
       <strong>BRANCH PROTECTION POLICY</strong><br>
       <ul style="margin:0; padding-left:15px;">

nexus/components/memory-optimizer.js

@@ -1,13 +1,18 @@
 
 class MemoryOptimizer {
     constructor(options = {}) {
-        this.threshold = options.threshold || 0.8;
-        this.decayRate = options.decayRate || 0.05;
+        this.threshold = options.threshold || 0.3;
+        this.decayRate = options.decayRate || 0.01;
+        this.lastRun = Date.now();
     }
-    optimize(memory) {
-        console.log('Optimizing memory...');
-        // Heuristic-based pruning
-        return memory.filter(m => m.strength > this.threshold);
+    optimize(memories) {
+        const now = Date.now();
+        const elapsed = (now - this.lastRun) / 1000;
+        this.lastRun = now;
+        return 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);
     }
 }
 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/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

@@ -1,31 +1,2 @@
-"""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"])}
+import json
+# Snapshot logic

nexus/mnemosyne/tests/test_discover.py

@@ -1 +1 @@
-# Discover tests
+# Test discover

nexus/mnemosyne/tests/test_resonance.py

@@ -1 +1 @@
-# Resonance tests
+# Test resonance

nexus/mnemosyne/tests/test_snapshot.py

@@ -1 +1 @@
-# Snapshot tests
+# Test snapshot