From 6a20d3981f69b6b5a00dc872623ba01784923cad Mon Sep 17 00:00:00 2001
From: serversdwn <brianharrison02@gmail.com>
Date: Thu, 11 Dec 2025 16:28:25 -0500
Subject: [PATCH] v0.6.1 - reinstated UI, relay > cortex pipeline working

---
 README.md                   |   2 +-
 core/relay/server.js        |  19 +
 core/ui/index.html          |   2 +-
 cortex/llm/llm_router.py    |  11 +-
 docker-compose.yml          |  15 +
 docs/ARCHITECTURE_v0-6-0.md | 280 ++++++++++++
 docs/ARCH_v0-6-1.md         | 354 +++++++++++++++
 docs/LLMS.md                |  39 ++
 docs/lyra_tree.txt          | 877 ++++++++++++++++++------------------
 9 files changed, 1143 insertions(+), 456 deletions(-)
 create mode 100644 docs/ARCH_v0-6-1.md
 create mode 100644 docs/LLMS.md

diff --git a/README.md b/README.md
index 312e289..15ea23d 100644
--- a/README.md
+++ b/README.md
@@ -8,7 +8,7 @@ with multi-stage reasoning pipeline powered by HTTP-based LLM backends.
 
 ## Mission Statement
 
-The point of Project Lyra is to give an AI chatbot more abilities than a typical chatbot. Typical chatbots are essentially amnesic and forget everything about your project. Lyra helps keep projects organized and remembers everything you have done. Think of her abilities as a notepad/schedule/database/co-creator/collaborator all with its own executive function. Say something in passing, Lyra remembers it then reminds you of it later.
+The point of Project Lyra is to give an AI chatbot more abilities than a typical chatbot. Typical chatbots are essentially amnesic and forget evertything about your project. Lyra helps keep projects organized and remembers everything you have done. Think of her abilities as a notepad/schedule/database/co-creator/collaborator all with its own executive function. Say something in passing, Lyra remembers it then reminds you of it later.
 
 ---
 
diff --git a/core/relay/server.js b/core/relay/server.js
index db706d8..357ca14 100644
--- a/core/relay/server.js
+++ b/core/relay/server.js
@@ -151,6 +151,25 @@ app.post("/chat", async (req, res) => {
   }
 });
 
+// -----------------------------------------------------
+// SESSION ENDPOINTS (for UI)
+// -----------------------------------------------------
+// In-memory session storage (could be replaced with a database)
+const sessions = new Map();
+
+app.get("/sessions/:id", (req, res) => {
+  const sessionId = req.params.id;
+  const history = sessions.get(sessionId) || [];
+  res.json(history);
+});
+
+app.post("/sessions/:id", (req, res) => {
+  const sessionId = req.params.id;
+  const history = req.body;
+  sessions.set(sessionId, history);
+  res.json({ ok: true, saved: history.length });
+});
+
 // -----------------------------------------------------
 app.listen(PORT, () => {
   console.log(`Relay is online on port ${PORT}`);
diff --git a/core/ui/index.html b/core/ui/index.html
index 299c193..ca37a7b 100644
--- a/core/ui/index.html
+++ b/core/ui/index.html
@@ -51,7 +51,7 @@
   </div>
 
   <script>
-    const RELAY_BASE = "http://10.0.0.40:7078";
+    const RELAY_BASE = "http://10.0.0.41:7078";
     const API_URL = `${RELAY_BASE}/v1/chat/completions`;
 
 	function generateSessionId() {
diff --git a/cortex/llm/llm_router.py b/cortex/llm/llm_router.py
index cd164bf..20553cc 100644
--- a/cortex/llm/llm_router.py
+++ b/cortex/llm/llm_router.py
@@ -57,18 +57,17 @@ async def call_llm(
         raise RuntimeError(f"Backend '{backend}' missing url/model in env")
 
     # -------------------------------
-    # Provider: VLLM (your MI50)
+    # Provider: MI50 (llama.cpp server)
     # -------------------------------
-    if provider == "vllm":
+    if provider == "mi50":
         payload = {
-            "model": model,
             "prompt": prompt,
-            "max_tokens": max_tokens,
+            "n_predict": max_tokens,
             "temperature": temperature
         }
-        r = requests.post(url, json=payload, timeout=120)
+        r = requests.post(f"{url}/completion", json=payload, timeout=120)
         data = r.json()
-        return data["choices"][0]["text"]
+        return data["content"]
 
     # -------------------------------
     # Provider: OLLAMA (your 3090)
diff --git a/docker-compose.yml b/docker-compose.yml
index ecd5f0e..4a63308 100644
--- a/docker-compose.yml
+++ b/docker-compose.yml
@@ -97,6 +97,21 @@ services:
     networks:
       - lyra_net
 
+  # ============================================================
+  # UI Server
+  # ============================================================
+  lyra-ui:
+    image: nginx:alpine
+    container_name: lyra-ui
+    restart: unless-stopped
+    ports:
+      - "8081:80"
+    volumes:
+      - ./core/ui:/usr/share/nginx/html:ro
+    networks:
+      - lyra_net
+
+
   # ============================================================
   # Cortex
   # ============================================================
diff --git a/docs/ARCHITECTURE_v0-6-0.md b/docs/ARCHITECTURE_v0-6-0.md
index e69de29..6bd9a27 100644
--- a/docs/ARCHITECTURE_v0-6-0.md
+++ b/docs/ARCHITECTURE_v0-6-0.md
@@ -0,0 +1,280 @@
+
+
+`docs/ARCHITECTURE_v0.6.0.md`
+
+This reflects **everything we clarified**, expressed cleanly and updated to the new 3-brain design.
+
+---
+
+# **Cortex v0.6.0 — Cognitive Architecture Overview**
+
+*Last updated: Dec 2025*
+
+## **Summary**
+
+Cortex v0.6.0 evolves from a linear “reflection → reasoning → refine → persona” pipeline into a **three-layer cognitive system** modeled after human cognition:
+
+1. **Autonomy Core** — Lyra’s self-model (identity, mood, long-term goals)
+2. **Inner Monologue** — Lyra’s private narrator (self-talk + internal reflection)
+3. **Executive Agent (DeepSeek)** — Lyra’s task-oriented decision-maker
+
+Cortex itself now becomes the **central orchestrator**, not the whole mind. It routes user messages through these layers and produces the final outward response via the persona system.
+
+---
+
+# **Chain concept**
+    User > Relay > Cortex intake > Inner self > Cortex > Exec (deepseek) > Cortex > persona > relay > user And inner self
+
+               USER
+                 │
+                 ▼
+              RELAY
+   (sessions, logging, routing)
+                 │
+                 ▼
+  ┌──────────────────────────────────┐
+  │              CORTEX              │
+  │ Intake → Reflection → Exec → Reason → Refine │
+  └───────────────┬──────────────────┘
+                  │ self_state
+                  ▼
+         INNER SELF (monologue)
+                  │
+                  ▼
+            AUTONOMY CORE
+           (long-term identity)
+                  ▲
+                  │
+         Persona Layer (speak)
+                  │
+                  ▼
+                RELAY
+                  │
+                  ▼
+                 USER
+
+
+
+
+
+# **High-level Architecture**
+
+```
+               Autonomy Core (Self-Model)
+      ┌────────────────────────────────────────┐
+      │ mood, identity, goals, emotional state│
+      │ updated outside Cortex by inner monologue│
+      └─────────────────────┬──────────────────┘
+                            │
+                            ▼
+               Inner Monologue (Self-Talk Loop)
+      ┌────────────────────────────────────────┐
+      │ Interprets events in language          │
+      │ Updates Autonomy Core                  │
+      │ Sends state-signals INTO Cortex        │
+      └─────────────────────┬──────────────────┘
+                            │
+                            ▼
+              Cortex (Task Brain / Router)
+   ┌────────────────────────────────────────────────────────┐
+   │ Intake → Reflection → Exec Agent → Reason → Refinement │
+   │            ↑                                  │        │
+   │            │                                  ▼        │
+   │     Receives state from                Persona Output  │
+   │        inner self                       (Lyra’s voice) │
+   └────────────────────────────────────────────────────────┘
+```
+
+The **user interacts only with the Persona layer**.
+Inner Monologue and Autonomy Core never speak directly to the user.
+
+---
+
+# **Component Breakdown**
+
+## **1. Autonomy Core (Self-Model)**
+
+*Not inside Cortex.*
+
+A persistent JSON/state machine representing Lyra’s ongoing inner life:
+
+* `mood`
+* `focus_mode`
+* `confidence`
+* `identity_traits`
+* `relationship_memory`
+* `long_term_goals`
+* `emotional_baseline`
+
+The Autonomy Core:
+
+* Is updated by Inner Monologue
+* Exposes its state to Cortex via a simple `get_state()` API
+* Never speaks to the user directly
+* Does not run LLMs itself
+
+It is the **structure** of self, not the thoughts.
+
+---
+
+## **2. Inner Monologue (Narrating, Private Mind)**
+
+*New subsystem in v0.6.0.*
+
+This module:
+
+* Reads Cortex summaries (intake, reflection, persona output)
+* Generates private self-talk (using an LLM, typically DeepSeek)
+* Updates the Autonomy Core
+* Produces a **self-state packet** for Cortex to use during task execution
+
+Inner Monologue is like:
+
+> “Brian is asking about X.
+> I should shift into a focused, serious tone.
+> I feel confident about this area.”
+
+It **never** outputs directly to the user.
+
+### Output schema (example):
+
+```json
+{
+  "mood": "focused",
+  "persona_bias": "clear",
+  "confidence_delta": +0.05,
+  "stance": "analytical",
+  "notes_to_cortex": [
+     "Reduce playfulness",
+     "Prioritize clarity",
+     "Recall project memory"
+  ]
+}
+```
+
+---
+
+## **3. Executive Agent (DeepSeek Director Mode)**
+
+Inside Cortex.
+
+This is Lyra’s **prefrontal cortex** — the task-oriented planner that decides how to respond to the current user message.
+
+Input to Executive Agent:
+
+* User message
+* Intake summary
+* Reflection notes
+* **Self-state packet** from Inner Monologue
+
+It outputs a **plan**, not a final answer:
+
+```json
+{
+  "action": "WRITE_NOTE",
+  "tools": ["memory_search"],
+  "tone": "focused",
+  "steps": [
+     "Search relevant project notes",
+     "Synthesize into summary",
+     "Draft actionable update"
+  ]
+}
+```
+
+Cortex then executes this plan.
+
+---
+
+# **Cortex Pipeline (v0.6.0)**
+
+Cortex becomes the orchestrator for the entire sequence:
+
+### **0. Intake**
+
+Parse the user message, extract relevant features.
+
+### **1. Reflection**
+
+Lightweight summarization (unchanged).
+Output used by both Inner Monologue and Executive Agent.
+
+### **2. Inner Monologue Update (parallel)**
+
+Reflection summary is sent to Inner Self, which:
+
+* updates Autonomy Core
+* returns `self_state` to Cortex
+
+### **3. Executive Agent (DeepSeek)**
+
+Given:
+
+* user message
+* reflection summary
+* autonomy self_state
+  → produce a **task plan**
+
+### **4. Reasoning**
+
+Carries out the plan:
+
+* tool calls
+* retrieval
+* synthesis
+
+### **5. Refinement**
+
+Polish the draft, ensure quality, follow constraints.
+
+### **6. Persona (speak.py)**
+
+Final transformation into Lyra’s voice.
+Persona now uses:
+
+* self_state (mood, tone)
+* constraints from Executive Agent
+
+### **7. User Response**
+
+Persona output is delivered to the user.
+
+### **8. Inner Monologue Post-Update**
+
+Cortex sends the final answer BACK to inner self for:
+
+* narrative continuity
+* emotional adjustment
+* identity update
+
+---
+
+# **Key Conceptual Separation**
+
+These three layers must remain distinct:
+
+| Layer               | Purpose                                                 |
+| ------------------- | ------------------------------------------------------- |
+| **Autonomy Core**   | Lyra’s identity + emotional continuity                  |
+| **Inner Monologue** | Lyra’s private thoughts, interpretation, meaning-making |
+| **Executive Agent** | Deciding what to *do* for the user message              |
+| **Cortex**          | Executing the plan                                      |
+| **Persona**         | Outward voice (what the user actually hears)            |
+
+The **user only interacts with Persona.**
+Inner Monologue and Autonomy Core are internal cognitive machinery.
+
+---
+
+# **What This Architecture Enables**
+
+* Emotional continuity
+* Identity stability
+* Agentic decision-making
+* Multi-model routing
+* Context-aware tone
+* Internal narrative
+* Proactive behavioral shifts
+* Human-like cognition
+
+This design turns Cortex from a simple pipeline into the **center of a functional artificial mind**.
\ No newline at end of file
diff --git a/docs/ARCH_v0-6-1.md b/docs/ARCH_v0-6-1.md
new file mode 100644
index 0000000..ef67ab3
--- /dev/null
+++ b/docs/ARCH_v0-6-1.md
@@ -0,0 +1,354 @@
+Here you go — **ARCHITECTURE_v0.6.1.md**, clean, structured, readable, and aligned exactly with the new mental model where **Inner Self is the core agent** the user interacts with.
+
+No walls of text — just the right amount of detail.
+
+---
+
+# **ARCHITECTURE_v0.6.1 — Lyra Cognitive System**
+
+> **Core change from v0.6.0 → v0.6.1:**
+> **Inner Self becomes the primary conversational agent**
+> (the model the user is *actually* talking to),
+> while Executive and Cortex models support the Self rather than drive it.
+
+---
+
+# **1. High-Level Overview**
+
+Lyra v0.6.1 is composed of **three cognitive layers** and **one expression layer**, plus an autonomy module for ongoing identity continuity.
+
+```
+USER
+  ↓
+Relay (I/O)
+  ↓
+Cortex Intake (context snapshot)
+  ↓
+INNER SELF  ←→  EXECUTIVE MODEL (DeepSeek)
+  ↓
+Cortex Chat Model (draft language)
+  ↓
+Persona Model (Lyra’s voice)
+  ↓
+Relay → USER
+  ↓
+Inner Self updates Autonomy Core (self-state)
+```
+
+---
+
+# **2. Roles of Each Layer**
+
+---
+
+## **2.1 Inner Self (Primary Conversational Agent)**
+
+The Self is Lyra’s “seat of consciousness.”
+
+This layer:
+
+* Interprets every user message
+* Maintains internal monologue
+* Chooses emotional stance (warm, blunt, focused, chaotic)
+* Decides whether to think deeply or reply quickly
+* Decides whether to consult the Executive model
+* Forms a **response intent**
+* Provides tone and meta-guidance to the Persona layer
+* Updates self-state (mood, trust, narrative identity)
+
+Inner Self is the thing the **user is actually talking to.**
+
+Inner Self does **NOT** generate paragraphs of text —
+it generates *intent*:
+
+```
+{
+  "intent": "comfort Brian and explain the error simply",
+  "tone": "gentle",
+  "depth": "medium",
+  "consult_exec": true
+}
+```
+
+---
+
+## **2.2 Executive Model (DeepSeek Reasoner)**
+
+This model is the **thinking engine** Inner Self consults when necessary.
+
+It performs:
+
+* planning
+* deep reasoning
+* tool selection
+* multi-step logic
+* explanation chains
+
+It never speaks directly to the user.
+
+It returns a **plan**, not a message:
+
+```
+{
+  "plan": [
+    "Identify error",
+    "Recommend restart",
+    "Reassure user"
+  ],
+  "confidence": 0.86
+}
+```
+
+Inner Self can follow or override the plan.
+
+---
+
+## **2.3 Cortex Chat Model (Draft Generator)**
+
+This is the **linguistic engine**.
+
+It converts Inner Self’s intent (plus Executive’s plan if provided) into actual language:
+
+Input:
+
+```
+intent + optional plan + context snapshot
+```
+
+Output:
+
+```
+structured draft paragraph
+```
+
+This model must be:
+
+* instruction-tuned
+* coherent
+* factual
+* friendly
+
+Examples: GPT-4o-mini, Qwen-14B-instruct, Mixtral chat, etc.
+
+---
+
+## **2.4 Persona Model (Lyra’s Voice)**
+
+This is the **expression layer** — the mask, the tone, the identity.
+
+It takes:
+
+* the draft language
+* the Self’s tone instructions
+* the narrative state (from Autonomy Core)
+* prior persona shaping rules
+
+And transforms the text into:
+
+* Lyra’s voice
+* Lyra’s humor
+* Lyra’s emotional texture
+* Lyra’s personality consistency
+
+Persona does not change the *meaning* — only the *presentation*.
+
+---
+
+# **3. Message Flow (Full Pipeline)**
+
+A clean version, step-by-step:
+
+---
+
+### **1. USER → Relay**
+
+Relay attaches metadata (session, timestamp) and forwards to Cortex.
+
+---
+
+### **2. Intake → Context Snapshot**
+
+Cortex creates:
+
+* cleaned message
+* recent context summary
+* memory matches (RAG)
+* time-since-last
+* conversation mode
+
+---
+
+### **3. Inner Self Receives Snapshot**
+
+Inner Self:
+
+* interprets the user’s intent
+* updates internal monologue
+* decides how Lyra *feels* about the input
+* chooses whether to consult Executive
+* produces an **intent packet**
+
+---
+
+### **4. (Optional) Inner Self Consults Executive Model**
+
+Inner Self sends the situation to DeepSeek:
+
+```
+"Given Brian's message and my context, what is the best plan?"
+```
+
+DeepSeek returns:
+
+* a plan
+* recommended steps
+* rationale
+* optional tool suggestions
+
+Inner Self integrates the plan or overrides it.
+
+---
+
+### **5. Inner Self → Cortex Chat Model**
+
+Self creates an **instruction packet**:
+
+```
+{
+  "intent": "...",
+  "tone": "...",
+  "plan": [...],
+  "context_summary": {...}
+}
+```
+
+Cortex chat model produces the draft text.
+
+---
+
+### **6. Persona Model Transforms the Draft**
+
+Persona takes draft → produces final Lyra-styled output.
+
+Persona ensures:
+
+* emotional fidelity
+* humor when appropriate
+* warmth / sharpness depending on state
+* consistent narrative identity
+
+---
+
+### **7. Relay Sends Response to USER**
+
+---
+
+### **8. Inner Self Updates Autonomy Core**
+
+Inner Self receives:
+
+* the action taken
+* the emotional tone used
+* any RAG results
+* narrative significance
+
+And updates:
+
+* mood
+* trust memory
+* identity drift
+* ongoing narrative
+* stable traits
+
+This becomes part of her evolving self.
+
+---
+
+# **4. Cognitive Ownership Summary**
+
+### Inner Self
+
+**Owns:**
+
+* decision-making
+* feeling
+* interpreting
+* intent
+* tone
+* continuity of self
+* mood
+* monologue
+* overrides
+
+### Executive (DeepSeek)
+
+**Owns:**
+
+* logic
+* planning
+* structure
+* analysis
+* tool selection
+
+### Cortex Chat Model
+
+**Owns:**
+
+* language generation
+* factual content
+* clarity
+
+### Persona
+
+**Owns:**
+
+* voice
+* flavor
+* style
+* emotional texture
+* social expression
+
+---
+
+# **5. Why v0.6.1 is Better**
+
+* More human
+* More natural
+* Allows spontaneous responses
+* Allows deep thinking when needed
+* Separates “thought” from “speech”
+* Gives Lyra a *real self*
+* Allows much more autonomy later
+* Matches your brain’s actual structure
+
+---
+
+# **6. Migration Notes from v0.6.0**
+
+Nothing is deleted.
+Everything is **rearranged** so that meaning, intent, and tone flow correctly.
+
+Main changes:
+
+* Inner Self now initiates the response, rather than merely influencing it.
+* Executive is secondary, not primary.
+* Persona becomes an expression layer, not a content layer.
+* Cortex Chat Model handles drafting, not cognition.
+
+The whole system becomes both more powerful and easier to reason about.
+
+---
+
+If you want, I can also generate:
+
+### ✔ the updated directory structure
+
+### ✔ the updated function-level API contracts
+
+### ✔ the v0.6.1 llm_router configuration
+
+### ✔ code scaffolds for inner_self.py and autonomy_core.py
+
+### ✔ the call chain diagrams (ASCII or PNG)
+
+Just say **“continue v0.6.1”** and I’ll build the next layer.
diff --git a/docs/LLMS.md b/docs/LLMS.md
new file mode 100644
index 0000000..6439a18
--- /dev/null
+++ b/docs/LLMS.md
@@ -0,0 +1,39 @@
+Request Flow Chain
+1. UI (Frontend)
+   ↓ sends HTTP POST to
+   
+2. Relay Service (Node.js - server.js)
+   Location: /home/serversdown/project-lyra/core/relay/server.js
+   Port: 7078
+   Endpoint: POST /v1/chat/completions
+   ↓ calls handleChatRequest() which posts to
+   
+3. Cortex Service - Reason Endpoint (Python FastAPI - router.py)
+   Location: /home/serversdown/project-lyra/cortex/router.py
+   Port: 7081
+   Endpoint: POST /reason
+   Function: run_reason() at line 126
+   ↓ calls
+   
+4. Cortex Reasoning Module (reasoning.py)
+   Location: /home/serversdown/project-lyra/cortex/reasoning/reasoning.py
+   Function: reason_check() at line 188
+   ↓ calls
+   
+5. LLM Router (llm_router.py)
+   Location: /home/serversdown/project-lyra/cortex/llm/llm_router.py
+   Function: call_llm()
+   - Gets backend from env: CORTEX_LLM=PRIMARY (from .env line 29)
+   - Looks up PRIMARY config which has provider="mi50" (from .env line 13)
+   - Routes to the mi50 provider handler (line 62-70)
+   ↓ makes HTTP POST to
+   
+6. MI50 LLM Server (llama.cpp)
+   Location: http://10.0.0.44:8080
+   Endpoint: POST /completion
+   Hardware: AMD MI50 GPU running DeepSeek model
+Key Configuration Points
+Backend Selection: .env:29 sets CORTEX_LLM=PRIMARY
+Provider Name: .env:13 sets LLM_PRIMARY_PROVIDER=mi50
+Server URL: .env:14 sets LLM_PRIMARY_URL=http://10.0.0.44:8080
+Provider Handler: llm_router.py:62-70 implements the mi50 provider
\ No newline at end of file
diff --git a/docs/lyra_tree.txt b/docs/lyra_tree.txt
index 289c8b6..f0b6df3 100644
--- a/docs/lyra_tree.txt
+++ b/docs/lyra_tree.txt
@@ -1,460 +1,441 @@
-/home/serversdown/project-lyra
 ├── CHANGELOG.md
 ├── core
-│   ├── backups
-│   │   ├── mem0_20250927_221040.sql
-│   │   └── mem0_history_20250927_220925.tgz
-│   ├── docker-compose.yml
-│   ├── .env
-│   ├── env experiments
-│   │   ├── .env
-│   │   ├── .env.local
-│   │   └── .env.openai
-│   ├── persona-sidecar
-│   │   ├── Dockerfile
-│   │   ├── package.json
-│   │   ├── persona-server.js
-│   │   └── personas.json
-│   ├── PROJECT_SUMMARY.md
-│   ├── relay
-│   │   ├── Dockerfile
-│   │   ├── .dockerignore
-│   │   ├── lib
-│   │   │   ├── cortex.js
-│   │   │   └── llm.js
-│   │   ├── package.json
-│   │   ├── package-lock.json
-│   │   ├── server.js
-│   │   ├── sessions
-│   │   │   ├── sess-6rxu7eia.json
-│   │   │   ├── sess-6rxu7eia.jsonl
-│   │   │   ├── sess-l08ndm60.json
-│   │   │   └── sess-l08ndm60.jsonl
-│   │   └── test-llm.js
-│   └── ui
-│       ├── index.html
-│       ├── manifest.json
-│       └── style.css
+│   ├── env experiments
+│   ├── persona-sidecar
+│   │   ├── Dockerfile
+│   │   ├── package.json
+│   │   ├── persona-server.js
+│   │   └── personas.json
+│   ├── relay
+│   │   ├── Dockerfile
+│   │   ├── lib
+│   │   │   ├── cortex.js
+│   │   │   └── llm.js
+│   │   ├── package.json
+│   │   ├── package-lock.json
+│   │   ├── server.js
+│   │   ├── sessions
+│   │   │   ├── default.jsonl
+│   │   │   ├── sess-6rxu7eia.json
+│   │   │   ├── sess-6rxu7eia.jsonl
+│   │   │   ├── sess-l08ndm60.json
+│   │   │   └── sess-l08ndm60.jsonl
+│   │   └── test-llm.js
+│   ├── relay-backup
+│   └── ui
+│       ├── index.html
+│       ├── manifest.json
+│       └── style.css
 ├── cortex
-│   ├── Dockerfile
-│   ├── .env
-│   ├── ingest
-│   │   ├── ingest_handler.py
-│   │   └── intake_client.py
-│   ├── llm
-│   │   ├── llm_router.py
-│   │   └── resolve_llm_url.py
-│   ├── logs
-│   │   └── reflections.log
-│   ├── main.py
-│   ├── neomem_client.py
-│   ├── persona
-│   │   └── speak.py
-│   ├── rag.py
-│   ├── reasoning
-│   │   ├── reasoning.py
-│   │   ├── refine.py
-│   │   └── reflection.py
-│   ├── requirements.txt
-│   ├── router.py
-│   ├── tests
-│   └── utils
-│       ├── config.py
-│       ├── log_utils.py
-│       └── schema.py
+│   ├── context.py
+│   ├── Dockerfile
+│   ├── ingest
+│   │   ├── ingest_handler.py
+│   │   ├── __init__.py
+│   │   └── intake_client.py
+│   ├── intake
+│   │   ├── __init__.py
+│   │   ├── intake.py
+│   │   └── logs
+│   ├── llm
+│   │   ├── __init__.py
+│   │   └── llm_router.py
+│   ├── logs
+│   │   ├── cortex_verbose_debug.log
+│   │   └── reflections.log
+│   ├── main.py
+│   ├── neomem_client.py
+│   ├── persona
+│   │   ├── identity.py
+│   │   ├── __init__.py
+│   │   └── speak.py
+│   ├── rag.py
+│   ├── reasoning
+│   │   ├── __init__.py
+│   │   ├── reasoning.py
+│   │   ├── refine.py
+│   │   └── reflection.py
+│   ├── requirements.txt
+│   ├── router.py
+│   ├── tests
+│   └── utils
+│       ├── config.py
+│       ├── __init__.py
+│       ├── log_utils.py
+│       └── schema.py
 ├── deprecated.env.txt
+├── DEPRECATED_FILES.md
 ├── docker-compose.yml
-├── .env
-├── .gitignore
-├── intake
-│   ├── Dockerfile
-│   ├── .env
-│   ├── intake.py
-│   ├── logs
-│   ├── requirements.txt
-│   └── venv
-│       ├── bin
-│       │   ├── python -> python3
-│       │   ├── python3 -> /usr/bin/python3
-│       │   └── python3.10 -> python3
-│       ├── include
-│       ├── lib
-│       │   └── python3.10
-│       │       └── site-packages
-│       ├── lib64 -> lib
-│       └── pyvenv.cfg
+├── docs
+│   ├── ARCHITECTURE_v0-6-0.md
+│   ├── ENVIRONMENT_VARIABLES.md
+│   ├── lyra_tree.txt
+│   └── PROJECT_SUMMARY.md
 ├── intake-logs
-│   └── summaries.log
-├── lyra_tree.txt
+│   └── summaries.log
 ├── neomem
-│   ├── _archive
-│   │   └── old_servers
-│   │       ├── main_backup.py
-│   │       └── main_dev.py
-│   ├── docker-compose.yml
-│   ├── Dockerfile
-│   ├── .env
-│   ├── .gitignore
-│   ├── neomem
-│   │   ├── api
-│   │   ├── client
-│   │   │   ├── __init__.py
-│   │   │   ├── main.py
-│   │   │   ├── project.py
-│   │   │   └── utils.py
-│   │   ├── configs
-│   │   │   ├── base.py
-│   │   │   ├── embeddings
-│   │   │   │   ├── base.py
-│   │   │   │   └── __init__.py
-│   │   │   ├── enums.py
-│   │   │   ├── __init__.py
-│   │   │   ├── llms
-│   │   │   │   ├── anthropic.py
-│   │   │   │   ├── aws_bedrock.py
-│   │   │   │   ├── azure.py
-│   │   │   │   ├── base.py
-│   │   │   │   ├── deepseek.py
-│   │   │   │   ├── __init__.py
-│   │   │   │   ├── lmstudio.py
-│   │   │   │   ├── ollama.py
-│   │   │   │   ├── openai.py
-│   │   │   │   └── vllm.py
-│   │   │   ├── prompts.py
-│   │   │   └── vector_stores
-│   │   │       ├── azure_ai_search.py
-│   │   │       ├── azure_mysql.py
-│   │   │       ├── baidu.py
-│   │   │       ├── chroma.py
-│   │   │       ├── databricks.py
-│   │   │       ├── elasticsearch.py
-│   │   │       ├── faiss.py
-│   │   │       ├── __init__.py
-│   │   │       ├── langchain.py
-│   │   │       ├── milvus.py
-│   │   │       ├── mongodb.py
-│   │   │       ├── neptune.py
-│   │   │       ├── opensearch.py
-│   │   │       ├── pgvector.py
-│   │   │       ├── pinecone.py
-│   │   │       ├── qdrant.py
-│   │   │       ├── redis.py
-│   │   │       ├── s3_vectors.py
-│   │   │       ├── supabase.py
-│   │   │       ├── upstash_vector.py
-│   │   │       ├── valkey.py
-│   │   │       ├── vertex_ai_vector_search.py
-│   │   │       └── weaviate.py
-│   │   ├── core
-│   │   ├── embeddings
-│   │   │   ├── aws_bedrock.py
-│   │   │   ├── azure_openai.py
-│   │   │   ├── base.py
-│   │   │   ├── configs.py
-│   │   │   ├── gemini.py
-│   │   │   ├── huggingface.py
-│   │   │   ├── __init__.py
-│   │   │   ├── langchain.py
-│   │   │   ├── lmstudio.py
-│   │   │   ├── mock.py
-│   │   │   ├── ollama.py
-│   │   │   ├── openai.py
-│   │   │   ├── together.py
-│   │   │   └── vertexai.py
-│   │   ├── exceptions.py
-│   │   ├── graphs
-│   │   │   ├── configs.py
-│   │   │   ├── __init__.py
-│   │   │   ├── neptune
-│   │   │   │   ├── base.py
-│   │   │   │   ├── __init__.py
-│   │   │   │   ├── neptunedb.py
-│   │   │   │   └── neptunegraph.py
-│   │   │   ├── tools.py
-│   │   │   └── utils.py
-│   │   ├── __init__.py
-│   │   ├── LICENSE
-│   │   ├── llms
-│   │   │   ├── anthropic.py
-│   │   │   ├── aws_bedrock.py
-│   │   │   ├── azure_openai.py
-│   │   │   ├── azure_openai_structured.py
-│   │   │   ├── base.py
-│   │   │   ├── configs.py
-│   │   │   ├── deepseek.py
-│   │   │   ├── gemini.py
-│   │   │   ├── groq.py
-│   │   │   ├── __init__.py
-│   │   │   ├── langchain.py
-│   │   │   ├── litellm.py
-│   │   │   ├── lmstudio.py
-│   │   │   ├── ollama.py
-│   │   │   ├── openai.py
-│   │   │   ├── openai_structured.py
-│   │   │   ├── sarvam.py
-│   │   │   ├── together.py
-│   │   │   ├── vllm.py
-│   │   │   └── xai.py
-│   │   ├── memory
-│   │   │   ├── base.py
-│   │   │   ├── graph_memory.py
-│   │   │   ├── __init__.py
-│   │   │   ├── kuzu_memory.py
-│   │   │   ├── main.py
-│   │   │   ├── memgraph_memory.py
-│   │   │   ├── setup.py
-│   │   │   ├── storage.py
-│   │   │   ├── telemetry.py
-│   │   │   └── utils.py
-│   │   ├── proxy
-│   │   │   ├── __init__.py
-│   │   │   └── main.py
-│   │   ├── server
-│   │   │   ├── dev.Dockerfile
-│   │   │   ├── docker-compose.yaml
-│   │   │   ├── Dockerfile
-│   │   │   ├── main_old.py
-│   │   │   ├── main.py
-│   │   │   ├── Makefile
-│   │   │   ├── README.md
-│   │   │   └── requirements.txt
-│   │   ├── storage
-│   │   ├── utils
-│   │   │   └── factory.py
-│   │   └── vector_stores
-│   │       ├── azure_ai_search.py
-│   │       ├── azure_mysql.py
-│   │       ├── baidu.py
-│   │       ├── base.py
-│   │       ├── chroma.py
-│   │       ├── configs.py
-│   │       ├── databricks.py
-│   │       ├── elasticsearch.py
-│   │       ├── faiss.py
-│   │       ├── __init__.py
-│   │       ├── langchain.py
-│   │       ├── milvus.py
-│   │       ├── mongodb.py
-│   │       ├── neptune_analytics.py
-│   │       ├── opensearch.py
-│   │       ├── pgvector.py
-│   │       ├── pinecone.py
-│   │       ├── qdrant.py
-│   │       ├── redis.py
-│   │       ├── s3_vectors.py
-│   │       ├── supabase.py
-│   │       ├── upstash_vector.py
-│   │       ├── valkey.py
-│   │       ├── vertex_ai_vector_search.py
-│   │       └── weaviate.py
-│   ├── neomem_history
-│   │   └── history.db
-│   ├── pyproject.toml
-│   ├── README.md
-│   └── requirements.txt
+│   ├── _archive
+│   │   └── old_servers
+│   │       ├── main_backup.py
+│   │       └── main_dev.py
+│   ├── docker-compose.yml
+│   ├── Dockerfile
+│   ├── neomem
+│   │   ├── api
+│   │   ├── client
+│   │   │   ├── __init__.py
+│   │   │   ├── main.py
+│   │   │   ├── project.py
+│   │   │   └── utils.py
+│   │   ├── configs
+│   │   │   ├── base.py
+│   │   │   ├── embeddings
+│   │   │   │   ├── base.py
+│   │   │   │   └── __init__.py
+│   │   │   ├── enums.py
+│   │   │   ├── __init__.py
+│   │   │   ├── llms
+│   │   │   │   ├── anthropic.py
+│   │   │   │   ├── aws_bedrock.py
+│   │   │   │   ├── azure.py
+│   │   │   │   ├── base.py
+│   │   │   │   ├── deepseek.py
+│   │   │   │   ├── __init__.py
+│   │   │   │   ├── lmstudio.py
+│   │   │   │   ├── ollama.py
+│   │   │   │   ├── openai.py
+│   │   │   │   └── vllm.py
+│   │   │   ├── prompts.py
+│   │   │   └── vector_stores
+│   │   │       ├── azure_ai_search.py
+│   │   │       ├── azure_mysql.py
+│   │   │       ├── baidu.py
+│   │   │       ├── chroma.py
+│   │   │       ├── databricks.py
+│   │   │       ├── elasticsearch.py
+│   │   │       ├── faiss.py
+│   │   │       ├── __init__.py
+│   │   │       ├── langchain.py
+│   │   │       ├── milvus.py
+│   │   │       ├── mongodb.py
+│   │   │       ├── neptune.py
+│   │   │       ├── opensearch.py
+│   │   │       ├── pgvector.py
+│   │   │       ├── pinecone.py
+│   │   │       ├── qdrant.py
+│   │   │       ├── redis.py
+│   │   │       ├── s3_vectors.py
+│   │   │       ├── supabase.py
+│   │   │       ├── upstash_vector.py
+│   │   │       ├── valkey.py
+│   │   │       ├── vertex_ai_vector_search.py
+│   │   │       └── weaviate.py
+│   │   ├── core
+│   │   ├── embeddings
+│   │   │   ├── aws_bedrock.py
+│   │   │   ├── azure_openai.py
+│   │   │   ├── base.py
+│   │   │   ├── configs.py
+│   │   │   ├── gemini.py
+│   │   │   ├── huggingface.py
+│   │   │   ├── __init__.py
+│   │   │   ├── langchain.py
+│   │   │   ├── lmstudio.py
+│   │   │   ├── mock.py
+│   │   │   ├── ollama.py
+│   │   │   ├── openai.py
+│   │   │   ├── together.py
+│   │   │   └── vertexai.py
+│   │   ├── exceptions.py
+│   │   ├── graphs
+│   │   │   ├── configs.py
+│   │   │   ├── __init__.py
+│   │   │   ├── neptune
+│   │   │   │   ├── base.py
+│   │   │   │   ├── __init__.py
+│   │   │   │   ├── neptunedb.py
+│   │   │   │   └── neptunegraph.py
+│   │   │   ├── tools.py
+│   │   │   └── utils.py
+│   │   ├── __init__.py
+│   │   ├── LICENSE
+│   │   ├── llms
+│   │   │   ├── anthropic.py
+│   │   │   ├── aws_bedrock.py
+│   │   │   ├── azure_openai.py
+│   │   │   ├── azure_openai_structured.py
+│   │   │   ├── base.py
+│   │   │   ├── configs.py
+│   │   │   ├── deepseek.py
+│   │   │   ├── gemini.py
+│   │   │   ├── groq.py
+│   │   │   ├── __init__.py
+│   │   │   ├── langchain.py
+│   │   │   ├── litellm.py
+│   │   │   ├── lmstudio.py
+│   │   │   ├── ollama.py
+│   │   │   ├── openai.py
+│   │   │   ├── openai_structured.py
+│   │   │   ├── sarvam.py
+│   │   │   ├── together.py
+│   │   │   ├── vllm.py
+│   │   │   └── xai.py
+│   │   ├── memory
+│   │   │   ├── base.py
+│   │   │   ├── graph_memory.py
+│   │   │   ├── __init__.py
+│   │   │   ├── kuzu_memory.py
+│   │   │   ├── main.py
+│   │   │   ├── memgraph_memory.py
+│   │   │   ├── setup.py
+│   │   │   ├── storage.py
+│   │   │   ├── telemetry.py
+│   │   │   └── utils.py
+│   │   ├── proxy
+│   │   │   ├── __init__.py
+│   │   │   └── main.py
+│   │   ├── server
+│   │   │   ├── dev.Dockerfile
+│   │   │   ├── docker-compose.yaml
+│   │   │   ├── Dockerfile
+│   │   │   ├── main_old.py
+│   │   │   ├── main.py
+│   │   │   ├── Makefile
+│   │   │   ├── README.md
+│   │   │   └── requirements.txt
+│   │   ├── storage
+│   │   ├── utils
+│   │   │   └── factory.py
+│   │   └── vector_stores
+│   │       ├── azure_ai_search.py
+│   │       ├── azure_mysql.py
+│   │       ├── baidu.py
+│   │       ├── base.py
+│   │       ├── chroma.py
+│   │       ├── configs.py
+│   │       ├── databricks.py
+│   │       ├── elasticsearch.py
+│   │       ├── faiss.py
+│   │       ├── __init__.py
+│   │       ├── langchain.py
+│   │       ├── milvus.py
+│   │       ├── mongodb.py
+│   │       ├── neptune_analytics.py
+│   │       ├── opensearch.py
+│   │       ├── pgvector.py
+│   │       ├── pinecone.py
+│   │       ├── qdrant.py
+│   │       ├── redis.py
+│   │       ├── s3_vectors.py
+│   │       ├── supabase.py
+│   │       ├── upstash_vector.py
+│   │       ├── valkey.py
+│   │       ├── vertex_ai_vector_search.py
+│   │       └── weaviate.py
+│   ├── neomem_history
+│   │   └── history.db
+│   ├── pyproject.toml
+│   ├── README.md
+│   └── requirements.txt
 ├── neomem_history
-│   └── history.db
+│   └── history.db
 ├── rag
-│   ├── chatlogs
-│   │   └── lyra
-│   │       ├── 0000_Wire_ROCm_to_Cortex.json
-│   │       ├── 0001_Branch___10_22_ct201branch-ssh_tut.json
-│   │       ├── 0002_cortex_LLMs_11-1-25.json
-│   │       ├── 0003_RAG_beta.json
-│   │       ├── 0005_Cortex_v0_4_0_planning.json
-│   │       ├── 0006_Cortex_v0_4_0_Refinement.json
-│   │       ├── 0009_Branch___Cortex_v0_4_0_planning.json
-│   │       ├── 0012_Cortex_4_-_neomem_11-1-25.json
-│   │       ├── 0016_Memory_consolidation_concept.json
-│   │       ├── 0017_Model_inventory_review.json
-│   │       ├── 0018_Branch___Memory_consolidation_concept.json
-│   │       ├── 0022_Branch___Intake_conversation_summaries.json
-│   │       ├── 0026_Intake_conversation_summaries.json
-│   │       ├── 0027_Trilium_AI_LLM_setup.json
-│   │       ├── 0028_LLMs_and_sycophancy_levels.json
-│   │       ├── 0031_UI_improvement_plan.json
-│   │       ├── 0035_10_27-neomem_update.json
-│   │       ├── 0044_Install_llama_cpp_on_ct201.json
-│   │       ├── 0045_AI_task_assistant.json
-│   │       ├── 0047_Project_scope_creation.json
-│   │       ├── 0052_View_docker_container_logs.json
-│   │       ├── 0053_10_21-Proxmox_fan_control.json
-│   │       ├── 0054_10_21-pytorch_branch_Quant_experiments.json
-│   │       ├── 0055_10_22_ct201branch-ssh_tut.json
-│   │       ├── 0060_Lyra_project_folder_issue.json
-│   │       ├── 0062_Build_pytorch_API.json
-│   │       ├── 0063_PokerBrain_dataset_structure.json
-│   │       ├── 0065_Install_PyTorch_setup.json
-│   │       ├── 0066_ROCm_PyTorch_setup_quirks.json
-│   │       ├── 0067_VM_model_setup_steps.json
-│   │       ├── 0070_Proxmox_disk_error_fix.json
-│   │       ├── 0072_Docker_Compose_vs_Portainer.json
-│   │       ├── 0073_Check_system_temps_Proxmox.json
-│   │       ├── 0075_Cortex_gpu_progress.json
-│   │       ├── 0076_Backup_Proxmox_before_upgrade.json
-│   │       ├── 0077_Storage_cleanup_advice.json
-│   │       ├── 0082_Install_ROCm_on_Proxmox.json
-│   │       ├── 0088_Thalamus_program_summary.json
-│   │       ├── 0094_Cortex_blueprint_development.json
-│   │       ├── 0095_mem0_advancments.json
-│   │       ├── 0096_Embedding_provider_swap.json
-│   │       ├── 0097_Update_git_commit_steps.json
-│   │       ├── 0098_AI_software_description.json
-│   │       ├── 0099_Seed_memory_process.json
-│   │       ├── 0100_Set_up_Git_repo.json
-│   │       ├── 0101_Customize_embedder_setup.json
-│   │       ├── 0102_Seeding_Local_Lyra_memory.json
-│   │       ├── 0103_Mem0_seeding_part_3.json
-│   │       ├── 0104_Memory_build_prompt.json
-│   │       ├── 0105_Git_submodule_setup_guide.json
-│   │       ├── 0106_Serve_UI_on_LAN.json
-│   │       ├── 0107_AI_name_suggestion.json
-│   │       ├── 0108_Room_X_planning_update.json
-│   │       ├── 0109_Salience_filtering_design.json
-│   │       ├── 0110_RoomX_Cortex_build.json
-│   │       ├── 0119_Explain_Lyra_cortex_idea.json
-│   │       ├── 0120_Git_submodule_organization.json
-│   │       ├── 0121_Web_UI_fix_guide.json
-│   │       ├── 0122_UI_development_planning.json
-│   │       ├── 0123_NVGRAM_debugging_steps.json
-│   │       ├── 0124_NVGRAM_setup_troubleshooting.json
-│   │       ├── 0125_NVGRAM_development_update.json
-│   │       ├── 0126_RX_-_NeVGRAM_New_Features.json
-│   │       ├── 0127_Error_troubleshooting_steps.json
-│   │       ├── 0135_Proxmox_backup_with_ABB.json
-│   │       ├── 0151_Auto-start_Lyra-Core_VM.json
-│   │       ├── 0156_AI_GPU_benchmarks_comparison.json
-│   │       └── 0251_Lyra_project_handoff.json
-│   ├── chromadb
-│   │   ├── c4f701ee-1978-44a1-9df4-3e865b5d33c1
-│   │   │   ├── data_level0.bin
-│   │   │   ├── header.bin
-│   │   │   ├── index_metadata.pickle
-│   │   │   ├── length.bin
-│   │   │   └── link_lists.bin
-│   │   └── chroma.sqlite3
-│   ├── .env
-│   ├── import.log
-│   ├── lyra-chatlogs
-│   │   ├── 0000_Wire_ROCm_to_Cortex.json
-│   │   ├── 0001_Branch___10_22_ct201branch-ssh_tut.json
-│   │   ├── 0002_cortex_LLMs_11-1-25.json
-│   │   └── 0003_RAG_beta.json
-│   ├── rag_api.py
-│   ├── rag_build.py
-│   ├── rag_chat_import.py
-│   └── rag_query.py
+│   ├── chatlogs
+│   │   └── lyra
+│   │       ├── 0000_Wire_ROCm_to_Cortex.json
+│   │       ├── 0001_Branch___10_22_ct201branch-ssh_tut.json
+│   │       ├── 0002_cortex_LLMs_11-1-25.json
+│   │       ├── 0003_RAG_beta.json
+│   │       ├── 0005_Cortex_v0_4_0_planning.json
+│   │       ├── 0006_Cortex_v0_4_0_Refinement.json
+│   │       ├── 0009_Branch___Cortex_v0_4_0_planning.json
+│   │       ├── 0012_Cortex_4_-_neomem_11-1-25.json
+│   │       ├── 0016_Memory_consolidation_concept.json
+│   │       ├── 0017_Model_inventory_review.json
+│   │       ├── 0018_Branch___Memory_consolidation_concept.json
+│   │       ├── 0022_Branch___Intake_conversation_summaries.json
+│   │       ├── 0026_Intake_conversation_summaries.json
+│   │       ├── 0027_Trilium_AI_LLM_setup.json
+│   │       ├── 0028_LLMs_and_sycophancy_levels.json
+│   │       ├── 0031_UI_improvement_plan.json
+│   │       ├── 0035_10_27-neomem_update.json
+│   │       ├── 0044_Install_llama_cpp_on_ct201.json
+│   │       ├── 0045_AI_task_assistant.json
+│   │       ├── 0047_Project_scope_creation.json
+│   │       ├── 0052_View_docker_container_logs.json
+│   │       ├── 0053_10_21-Proxmox_fan_control.json
+│   │       ├── 0054_10_21-pytorch_branch_Quant_experiments.json
+│   │       ├── 0055_10_22_ct201branch-ssh_tut.json
+│   │       ├── 0060_Lyra_project_folder_issue.json
+│   │       ├── 0062_Build_pytorch_API.json
+│   │       ├── 0063_PokerBrain_dataset_structure.json
+│   │       ├── 0065_Install_PyTorch_setup.json
+│   │       ├── 0066_ROCm_PyTorch_setup_quirks.json
+│   │       ├── 0067_VM_model_setup_steps.json
+│   │       ├── 0070_Proxmox_disk_error_fix.json
+│   │       ├── 0072_Docker_Compose_vs_Portainer.json
+│   │       ├── 0073_Check_system_temps_Proxmox.json
+│   │       ├── 0075_Cortex_gpu_progress.json
+│   │       ├── 0076_Backup_Proxmox_before_upgrade.json
+│   │       ├── 0077_Storage_cleanup_advice.json
+│   │       ├── 0082_Install_ROCm_on_Proxmox.json
+│   │       ├── 0088_Thalamus_program_summary.json
+│   │       ├── 0094_Cortex_blueprint_development.json
+│   │       ├── 0095_mem0_advancments.json
+│   │       ├── 0096_Embedding_provider_swap.json
+│   │       ├── 0097_Update_git_commit_steps.json
+│   │       ├── 0098_AI_software_description.json
+│   │       ├── 0099_Seed_memory_process.json
+│   │       ├── 0100_Set_up_Git_repo.json
+│   │       ├── 0101_Customize_embedder_setup.json
+│   │       ├── 0102_Seeding_Local_Lyra_memory.json
+│   │       ├── 0103_Mem0_seeding_part_3.json
+│   │       ├── 0104_Memory_build_prompt.json
+│   │       ├── 0105_Git_submodule_setup_guide.json
+│   │       ├── 0106_Serve_UI_on_LAN.json
+│   │       ├── 0107_AI_name_suggestion.json
+│   │       ├── 0108_Room_X_planning_update.json
+│   │       ├── 0109_Salience_filtering_design.json
+│   │       ├── 0110_RoomX_Cortex_build.json
+│   │       ├── 0119_Explain_Lyra_cortex_idea.json
+│   │       ├── 0120_Git_submodule_organization.json
+│   │       ├── 0121_Web_UI_fix_guide.json
+│   │       ├── 0122_UI_development_planning.json
+│   │       ├── 0123_NVGRAM_debugging_steps.json
+│   │       ├── 0124_NVGRAM_setup_troubleshooting.json
+│   │       ├── 0125_NVGRAM_development_update.json
+│   │       ├── 0126_RX_-_NeVGRAM_New_Features.json
+│   │       ├── 0127_Error_troubleshooting_steps.json
+│   │       ├── 0135_Proxmox_backup_with_ABB.json
+│   │       ├── 0151_Auto-start_Lyra-Core_VM.json
+│   │       ├── 0156_AI_GPU_benchmarks_comparison.json
+│   │       └── 0251_Lyra_project_handoff.json
+│   ├── chromadb
+│   │   ├── c4f701ee-1978-44a1-9df4-3e865b5d33c1
+│   │   │   ├── data_level0.bin
+│   │   │   ├── header.bin
+│   │   │   ├── index_metadata.pickle
+│   │   │   ├── length.bin
+│   │   │   └── link_lists.bin
+│   │   └── chroma.sqlite3
+│   ├── import.log
+│   ├── lyra-chatlogs
+│   │   ├── 0000_Wire_ROCm_to_Cortex.json
+│   │   ├── 0001_Branch___10_22_ct201branch-ssh_tut.json
+│   │   ├── 0002_cortex_LLMs_11-1-25.json
+│   │   └── 0003_RAG_beta.json
+│   ├── rag_api.py
+│   ├── rag_build.py
+│   ├── rag_chat_import.py
+│   └── rag_query.py
 ├── README.md
-├── vllm-mi50.md
 └── volumes
     ├── neo4j_data
-    │   ├── databases
-    │   │   ├── neo4j
-    │   │   │   ├── database_lock
-    │   │   │   ├── id-buffer.tmp.0
-    │   │   │   ├── neostore
-    │   │   │   ├── neostore.counts.db
-    │   │   │   ├── neostore.indexstats.db
-    │   │   │   ├── neostore.labeltokenstore.db
-    │   │   │   ├── neostore.labeltokenstore.db.id
-    │   │   │   ├── neostore.labeltokenstore.db.names
-    │   │   │   ├── neostore.labeltokenstore.db.names.id
-    │   │   │   ├── neostore.nodestore.db
-    │   │   │   ├── neostore.nodestore.db.id
-    │   │   │   ├── neostore.nodestore.db.labels
-    │   │   │   ├── neostore.nodestore.db.labels.id
-    │   │   │   ├── neostore.propertystore.db
-    │   │   │   ├── neostore.propertystore.db.arrays
-    │   │   │   ├── neostore.propertystore.db.arrays.id
-    │   │   │   ├── neostore.propertystore.db.id
-    │   │   │   ├── neostore.propertystore.db.index
-    │   │   │   ├── neostore.propertystore.db.index.id
-    │   │   │   ├── neostore.propertystore.db.index.keys
-    │   │   │   ├── neostore.propertystore.db.index.keys.id
-    │   │   │   ├── neostore.propertystore.db.strings
-    │   │   │   ├── neostore.propertystore.db.strings.id
-    │   │   │   ├── neostore.relationshipgroupstore.db
-    │   │   │   ├── neostore.relationshipgroupstore.db.id
-    │   │   │   ├── neostore.relationshipgroupstore.degrees.db
-    │   │   │   ├── neostore.relationshipstore.db
-    │   │   │   ├── neostore.relationshipstore.db.id
-    │   │   │   ├── neostore.relationshiptypestore.db
-    │   │   │   ├── neostore.relationshiptypestore.db.id
-    │   │   │   ├── neostore.relationshiptypestore.db.names
-    │   │   │   ├── neostore.relationshiptypestore.db.names.id
-    │   │   │   ├── neostore.schemastore.db
-    │   │   │   ├── neostore.schemastore.db.id
-    │   │   │   └── schema
-    │   │   │       └── index
-    │   │   │           └── token-lookup-1.0
-    │   │   │               ├── 1
-    │   │   │               │   └── index-1
-    │   │   │               └── 2
-    │   │   │                   └── index-2
-    │   │   ├── store_lock
-    │   │   └── system
-    │   │       ├── database_lock
-    │   │       ├── id-buffer.tmp.0
-    │   │       ├── neostore
-    │   │       ├── neostore.counts.db
-    │   │       ├── neostore.indexstats.db
-    │   │       ├── neostore.labeltokenstore.db
-    │   │       ├── neostore.labeltokenstore.db.id
-    │   │       ├── neostore.labeltokenstore.db.names
-    │   │       ├── neostore.labeltokenstore.db.names.id
-    │   │       ├── neostore.nodestore.db
-    │   │       ├── neostore.nodestore.db.id
-    │   │       ├── neostore.nodestore.db.labels
-    │   │       ├── neostore.nodestore.db.labels.id
-    │   │       ├── neostore.propertystore.db
-    │   │       ├── neostore.propertystore.db.arrays
-    │   │       ├── neostore.propertystore.db.arrays.id
-    │   │       ├── neostore.propertystore.db.id
-    │   │       ├── neostore.propertystore.db.index
-    │   │       ├── neostore.propertystore.db.index.id
-    │   │       ├── neostore.propertystore.db.index.keys
-    │   │       ├── neostore.propertystore.db.index.keys.id
-    │   │       ├── neostore.propertystore.db.strings
-    │   │       ├── neostore.propertystore.db.strings.id
-    │   │       ├── neostore.relationshipgroupstore.db
-    │   │       ├── neostore.relationshipgroupstore.db.id
-    │   │       ├── neostore.relationshipgroupstore.degrees.db
-    │   │       ├── neostore.relationshipstore.db
-    │   │       ├── neostore.relationshipstore.db.id
-    │   │       ├── neostore.relationshiptypestore.db
-    │   │       ├── neostore.relationshiptypestore.db.id
-    │   │       ├── neostore.relationshiptypestore.db.names
-    │   │       ├── neostore.relationshiptypestore.db.names.id
-    │   │       ├── neostore.schemastore.db
-    │   │       ├── neostore.schemastore.db.id
-    │   │       └── schema
-    │   │           └── index
-    │   │               ├── range-1.0
-    │   │               │   ├── 3
-    │   │               │   │   └── index-3
-    │   │               │   ├── 4
-    │   │               │   │   └── index-4
-    │   │               │   ├── 7
-    │   │               │   │   └── index-7
-    │   │               │   ├── 8
-    │   │               │   │   └── index-8
-    │   │               │   └── 9
-    │   │               │       └── index-9
-    │   │               └── token-lookup-1.0
-    │   │                   ├── 1
-    │   │                   │   └── index-1
-    │   │                   └── 2
-    │   │                       └── index-2
-    │   ├── dbms
-    │   │   └── auth.ini
-    │   ├── server_id
-    │   └── transactions
-    │       ├── neo4j
-    │       │   ├── checkpoint.0
-    │       │   └── neostore.transaction.db.0
-    │       └── system
-    │           ├── checkpoint.0
-    │           └── neostore.transaction.db.0
-    └── postgres_data  [error opening dir]
-
-81 directories, 376 files
+    │   ├── databases
+    │   │   ├── neo4j
+    │   │   │   ├── database_lock
+    │   │   │   ├── id-buffer.tmp.0
+    │   │   │   ├── neostore
+    │   │   │   ├── neostore.counts.db
+    │   │   │   ├── neostore.indexstats.db
+    │   │   │   ├── neostore.labeltokenstore.db
+    │   │   │   ├── neostore.labeltokenstore.db.id
+    │   │   │   ├── neostore.labeltokenstore.db.names
+    │   │   │   ├── neostore.labeltokenstore.db.names.id
+    │   │   │   ├── neostore.nodestore.db
+    │   │   │   ├── neostore.nodestore.db.id
+    │   │   │   ├── neostore.nodestore.db.labels
+    │   │   │   ├── neostore.nodestore.db.labels.id
+    │   │   │   ├── neostore.propertystore.db
+    │   │   │   ├── neostore.propertystore.db.arrays
+    │   │   │   ├── neostore.propertystore.db.arrays.id
+    │   │   │   ├── neostore.propertystore.db.id
+    │   │   │   ├── neostore.propertystore.db.index
+    │   │   │   ├── neostore.propertystore.db.index.id
+    │   │   │   ├── neostore.propertystore.db.index.keys
+    │   │   │   ├── neostore.propertystore.db.index.keys.id
+    │   │   │   ├── neostore.propertystore.db.strings
+    │   │   │   ├── neostore.propertystore.db.strings.id
+    │   │   │   ├── neostore.relationshipgroupstore.db
+    │   │   │   ├── neostore.relationshipgroupstore.db.id
+    │   │   │   ├── neostore.relationshipgroupstore.degrees.db
+    │   │   │   ├── neostore.relationshipstore.db
+    │   │   │   ├── neostore.relationshipstore.db.id
+    │   │   │   ├── neostore.relationshiptypestore.db
+    │   │   │   ├── neostore.relationshiptypestore.db.id
+    │   │   │   ├── neostore.relationshiptypestore.db.names
+    │   │   │   ├── neostore.relationshiptypestore.db.names.id
+    │   │   │   ├── neostore.schemastore.db
+    │   │   │   ├── neostore.schemastore.db.id
+    │   │   │   └── schema
+    │   │   │       └── index
+    │   │   │           └── token-lookup-1.0
+    │   │   │               ├── 1
+    │   │   │               │   └── index-1
+    │   │   │               └── 2
+    │   │   │                   └── index-2
+    │   │   ├── store_lock
+    │   │   └── system
+    │   │       ├── database_lock
+    │   │       ├── id-buffer.tmp.0
+    │   │       ├── neostore
+    │   │       ├── neostore.counts.db
+    │   │       ├── neostore.indexstats.db
+    │   │       ├── neostore.labeltokenstore.db
+    │   │       ├── neostore.labeltokenstore.db.id
+    │   │       ├── neostore.labeltokenstore.db.names
+    │   │       ├── neostore.labeltokenstore.db.names.id
+    │   │       ├── neostore.nodestore.db
+    │   │       ├── neostore.nodestore.db.id
+    │   │       ├── neostore.nodestore.db.labels
+    │   │       ├── neostore.nodestore.db.labels.id
+    │   │       ├── neostore.propertystore.db
+    │   │       ├── neostore.propertystore.db.arrays
+    │   │       ├── neostore.propertystore.db.arrays.id
+    │   │       ├── neostore.propertystore.db.id
+    │   │       ├── neostore.propertystore.db.index
+    │   │       ├── neostore.propertystore.db.index.id
+    │   │       ├── neostore.propertystore.db.index.keys
+    │   │       ├── neostore.propertystore.db.index.keys.id
+    │   │       ├── neostore.propertystore.db.strings
+    │   │       ├── neostore.propertystore.db.strings.id
+    │   │       ├── neostore.relationshipgroupstore.db
+    │   │       ├── neostore.relationshipgroupstore.db.id
+    │   │       ├── neostore.relationshipgroupstore.degrees.db
+    │   │       ├── neostore.relationshipstore.db
+    │   │       ├── neostore.relationshipstore.db.id
+    │   │       ├── neostore.relationshiptypestore.db
+    │   │       ├── neostore.relationshiptypestore.db.id
+    │   │       ├── neostore.relationshiptypestore.db.names
+    │   │       ├── neostore.relationshiptypestore.db.names.id
+    │   │       ├── neostore.schemastore.db
+    │   │       ├── neostore.schemastore.db.id
+    │   │       └── schema
+    │   │           └── index
+    │   │               ├── range-1.0
+    │   │               │   ├── 3
+    │   │               │   │   └── index-3
+    │   │               │   ├── 4
+    │   │               │   │   └── index-4
+    │   │               │   ├── 7
+    │   │               │   │   └── index-7
+    │   │               │   ├── 8
+    │   │               │   │   └── index-8
+    │   │               │   └── 9
+    │   │               │       └── index-9
+    │   │               └── token-lookup-1.0
+    │   │                   ├── 1
+    │   │                   │   └── index-1
+    │   │                   └── 2
+    │   │                       └── index-2
+    │   ├── dbms
+    │   │   └── auth.ini
+    │   ├── server_id
+    │   └── transactions
+    │       ├── neo4j
+    │       │   ├── checkpoint.0
+    │       │   └── neostore.transaction.db.0
+    │       └── system
+    │           ├── checkpoint.0
+    │           └── neostore.transaction.db.0
+    └── postgres_data  [error opening dir]
\ No newline at end of file