fix: refresh burn lane audit for #662

Merge PR #764: docs: MemPalace v3.0.0 integration — before/after evaluation (#568)

GENOME.md

@@ -1,141 +1,209 @@
-# GENOME.md — Timmy_Foundation/timmy-home
-
-Generated by `pipelines/codebase_genome.py`.
+# GENOME.md — the-nexus
 
 ## Project Overview
 
-Timmy Foundation's home repository for development operations and configurations.
+`the-nexus` is a hybrid repo that combines three layers in one codebase:
 
-- Text files indexed: 3004
-- Source and script files: 186
-- Test files: 28
-- Documentation files: 701
+1. A browser-facing world shell rooted in `index.html`, `boot.js`, `bootstrap.mjs`, `app.js`, `style.css`, `portals.json`, `vision.json`, `manifest.json`, and `gofai_worker.js`
+2. A Python realtime bridge centered on `server.py` plus harness code under `nexus/`
+3. A memory / fleet / operator layer spanning `mempalace/`, `mcp_servers/`, `multi_user_bridge.py`, and supporting scripts
 
-## Architecture
+The repo is not a clean single-purpose frontend and not just a backend harness. It is a mixed world/runtime/ops repository where browser rendering, WebSocket telemetry, MCP-driven game harnesses, and fleet memory tooling coexist.
+
+Grounded repo facts from this checkout:
+- Browser shell files exist at repo root: `index.html`, `app.js`, `style.css`, `manifest.json`, `gofai_worker.js`
+- Data/config files also live at repo root: `portals.json`, `vision.json`
+- Realtime bridge exists in `server.py`
+- Game harnesses exist in `nexus/morrowind_harness.py` and `nexus/bannerlord_harness.py`
+- Memory/fleet sync exists in `mempalace/tunnel_sync.py`
+- Desktop/game automation MCP servers exist in `mcp_servers/desktop_control_server.py` and `mcp_servers/steam_info_server.py`
+- Validation exists in `tests/test_browser_smoke.py`, `tests/test_portals_json.py`, `tests/test_index_html_integrity.py`, and `tests/test_repo_truth.py`
+
+The current architecture is best understood as a sovereign world shell plus operator/game harness backend, with accumulated documentation drift from multiple restoration and migration efforts.
+
+## Architecture Diagram
 
 ```mermaid
 graph TD
-  repo_root["repo"]
-  angband["angband"]
-  briefings["briefings"]
-  config["config"]
-  conftest["conftest"]
-  evennia["evennia"]
-  evennia_tools["evennia_tools"]
-  evolution["evolution"]
-  gemini_fallback_setup["gemini-fallback-setup"]
-  heartbeat["heartbeat"]
-  infrastructure["infrastructure"]
-  repo_root --> angband
-  repo_root --> briefings
-  repo_root --> config
-  repo_root --> conftest
-  repo_root --> evennia
-  repo_root --> evennia_tools
+    browser[Index HTML Shell\nindex.html -> boot.js -> bootstrap.mjs -> app.js]
+    assets[Root Assets\nstyle.css\nmanifest.json\ngofai_worker.js]
+    data[World Data\nportals.json\nvision.json]
+    ws[Realtime Bridge\nserver.py\nWebSocket broadcast hub]
+    gofai[In-browser GOFAI\nSymbolicEngine\nNeuroSymbolicBridge\nsetupGOFAI/updateGOFAI]
+    harnesses[Python Harnesses\nnexus/morrowind_harness.py\nnexus/bannerlord_harness.py]
+    mcp[MCP Adapters\nmcp_servers/desktop_control_server.py\nmcp_servers/steam_info_server.py]
+    memory[Memory + Fleet\nmempalace/tunnel_sync.py\nmempalace.js]
+    bridge[Operator / MUD Bridge\nmulti_user_bridge.py\ncommands/timmy_commands.py]
+    tests[Verification\ntests/test_browser_smoke.py\ntests/test_portals_json.py\ntests/test_repo_truth.py]
+    docs[Contracts + Drift Docs\nBROWSER_CONTRACT.md\nREADME.md\nCLAUDE.md\nINVESTIGATION_ISSUE_1145.md]
+
+    browser --> assets
+    browser --> data
+    browser --> gofai
+    browser --> ws
+    harnesses --> mcp
+    harnesses --> ws
+    bridge --> ws
+    memory --> ws
+    tests --> browser
+    tests --> data
+    tests --> docs
+    docs --> browser
 ```
 
-## Entry Points
+## Entry Points and Data Flow
 
-- `gemini-fallback-setup.sh` — operational script (`bash gemini-fallback-setup.sh`)
-- `morrowind/hud.sh` — operational script (`bash morrowind/hud.sh`)
-- `pipelines/codebase_genome.py` — python main guard (`python3 pipelines/codebase_genome.py`)
-- `scripts/auto_restart_agent.sh` — operational script (`bash scripts/auto_restart_agent.sh`)
-- `scripts/backup_pipeline.sh` — operational script (`bash scripts/backup_pipeline.sh`)
-- `scripts/big_brain_manager.py` — operational script (`python3 scripts/big_brain_manager.py`)
-- `scripts/big_brain_repo_audit.py` — operational script (`python3 scripts/big_brain_repo_audit.py`)
-- `scripts/codebase_genome_nightly.py` — operational script (`python3 scripts/codebase_genome_nightly.py`)
-- `scripts/detect_secrets.py` — operational script (`python3 scripts/detect_secrets.py`)
-- `scripts/dynamic_dispatch_optimizer.py` — operational script (`python3 scripts/dynamic_dispatch_optimizer.py`)
-- `scripts/emacs-fleet-bridge.py` — operational script (`python3 scripts/emacs-fleet-bridge.py`)
-- `scripts/emacs-fleet-poll.sh` — operational script (`bash scripts/emacs-fleet-poll.sh`)
+### Primary entry points
 
-## Data Flow
+- `index.html` — root browser entry point
+- `boot.js` — startup selector; `tests/boot.test.js` shows it chooses file-mode vs HTTP/module-mode and injects `bootstrap.mjs` when served over HTTP
+- `bootstrap.mjs` — module bootstrap for the browser shell
+- `app.js` — main browser runtime; owns world state, GOFAI wiring, metrics polling, and portal/UI logic
+- `server.py` — WebSocket broadcast bridge on `ws://0.0.0.0:8765`
+- `nexus/morrowind_harness.py` — GamePortal/MCP harness for OpenMW Morrowind
+- `nexus/bannerlord_harness.py` — GamePortal/MCP harness for Bannerlord
+- `mempalace/tunnel_sync.py` — pulls remote fleet closets into the local palace over HTTP
+- `multi_user_bridge.py` — HTTP bridge for multi-user chat/session integration
+- `mcp_servers/desktop_control_server.py` — stdio MCP server exposing screenshots/mouse/keyboard control
 
-1. Operators enter through `gemini-fallback-setup.sh`, `morrowind/hud.sh`, `pipelines/codebase_genome.py`.
-2. Core logic fans into top-level components: `angband`, `briefings`, `config`, `conftest`, `evennia`, `evennia_tools`.
-3. Validation is incomplete around `wizards/allegro/home/skills/red-teaming/godmode/scripts/auto_jailbreak.py`, `timmy-local/cache/agent_cache.py`, `wizards/allegro/home/skills/red-teaming/godmode/scripts/parseltongue.py`, so changes there carry regression risk.
-4. Final artifacts land as repository files, docs, or runtime side effects depending on the selected entry point.
+### Data flow
+
+1. Browser startup begins at `index.html`
+2. `boot.js` decides whether the page is being served correctly; in HTTP mode it injects `bootstrap.mjs`
+3. `bootstrap.mjs` hands off to `app.js`
+4. `app.js` loads world configuration from `portals.json` and `vision.json`
+5. `app.js` constructs the Three.js scene and in-browser reasoning components, including `SymbolicEngine`, `NeuroSymbolicBridge`, `setupGOFAI()`, and `updateGOFAI()`
+6. Browser state and external runtimes connect through `server.py`, which broadcasts messages between connected clients
+7. Python harnesses (`nexus/morrowind_harness.py`, `nexus/bannerlord_harness.py`) spawn MCP subprocesses for desktop control / Steam metadata, capture state, execute actions, and feed telemetry into the Nexus bridge
+8. Memory/fleet tools like `mempalace/tunnel_sync.py` import remote palace data into local closets, extending what the operator/runtime layers can inspect
+9. Tests validate both the static browser contract and the higher-level repo-truth/memory contracts
+
+### Important repo-specific runtime facts
+
+- `portals.json` is a JSON array of portal/world/operator entries; examples in this checkout include `morrowind`, `bannerlord`, `workshop`, `archive`, `chapel`, and `courtyard`
+- `server.py` is a plain broadcast hub: clients send messages, the server forwards them to other connected clients
+- `nexus/morrowind_harness.py` and `nexus/bannerlord_harness.py` both implement a GamePortal pattern with MCP subprocess clients over stdio and WebSocket telemetry uplink
+- `mempalace/tunnel_sync.py` is not speculative; it is a real client that discovers remote wings, searches remote rooms, and writes `.closet.json` payloads locally
 
 ## Key Abstractions
 
-- `evennia/timmy_world/game.py` — classes `World`:91, `ActionSystem`:421, `TimmyAI`:539, `NPCAI`:550; functions `get_narrative_phase()`:55, `get_phase_transition_event()`:65
-- `evennia/timmy_world/world/game.py` — classes `World`:19, `ActionSystem`:326, `TimmyAI`:444, `NPCAI`:455; functions none detected
-- `timmy-world/game.py` — classes `World`:19, `ActionSystem`:349, `TimmyAI`:467, `NPCAI`:478; functions none detected
-- `wizards/allegro/home/skills/red-teaming/godmode/scripts/auto_jailbreak.py` — classes none detected; functions none detected
-- `uniwizard/self_grader.py` — classes `SessionGrade`:23, `WeeklyReport`:55, `SelfGrader`:74; functions `main()`:713
-- `uni-wizard/v3/intelligence_engine.py` — classes `ExecutionPattern`:27, `ModelPerformance`:44, `AdaptationEvent`:58, `PatternDatabase`:69; functions none detected
-- `scripts/know_thy_father/crossref_audit.py` — classes `ThemeCategory`:30, `Principle`:160, `MeaningKernel`:169, `CrossRefFinding`:178; functions `extract_themes_from_text()`:192, `parse_soul_md()`:206, `parse_kernels()`:264, `cross_reference()`:296, `generate_report()`:440, `main()`:561
-- `timmy-local/cache/agent_cache.py` — classes `CacheStats`:28, `LRUCache`:52, `ResponseCache`:94, `ToolCache`:205; functions none detected
+### Browser runtime
+
+- `app.js`
+  - Defines in-browser reasoning/state machinery, including `class SymbolicEngine`, `class NeuroSymbolicBridge`, `setupGOFAI()`, and `updateGOFAI()`
+  - Couples rendering, local symbolic reasoning, metrics polling, and portal/UI logic in one very large root module
+- `BROWSER_CONTRACT.md`
+  - Acts like an executable architecture contract for the browser surface
+  - Declares required files, DOM IDs, Three.js expectations, provenance rules, and WebSocket expectations
+
+### Realtime bridge
+
+- `server.py`
+  - Single hub abstraction: a WebSocket broadcast server maintaining a `clients` set and forwarding messages from one client to the others
+  - This is the seam between browser shell, harnesses, and external telemetry producers
+
+### GamePortal harness layer
+
+- `nexus/morrowind_harness.py`
+- `nexus/bannerlord_harness.py`
+  - Both define MCP client wrappers, `GameState` / `ActionResult`-style data classes, and an Observe-Decide-Act telemetry loop
+  - The harnesses are symmetric enough to be understood as reusable portal adapters with game-specific context injected on top
+
+### Memory / fleet layer
+
+- `mempalace/tunnel_sync.py`
+  - Encodes the fleet-memory sync client contract: discover wings, pull broad room queries, write closet files, support dry-run
+- `mempalace.js`
+  - Minimal browser/Electron bridge to MemPalace commands via `window.electronAPI.execPython(...)`
+  - Important because it shows a second memory integration surface distinct from the Python fleet sync path
+
+### Operator / interaction bridge
+
+- `multi_user_bridge.py`
+- `commands/timmy_commands.py`
+  - These bridge user-facing conversations or MUD/Evennia interactions back into Timmy/Nexus services
 
 ## API Surface
 
-- CLI: `bash gemini-fallback-setup.sh` — operational script (`gemini-fallback-setup.sh`)
-- CLI: `bash morrowind/hud.sh` — operational script (`morrowind/hud.sh`)
-- CLI: `python3 pipelines/codebase_genome.py` — python main guard (`pipelines/codebase_genome.py`)
-- CLI: `bash scripts/auto_restart_agent.sh` — operational script (`scripts/auto_restart_agent.sh`)
-- CLI: `bash scripts/backup_pipeline.sh` — operational script (`scripts/backup_pipeline.sh`)
-- CLI: `python3 scripts/big_brain_manager.py` — operational script (`scripts/big_brain_manager.py`)
-- CLI: `python3 scripts/big_brain_repo_audit.py` — operational script (`scripts/big_brain_repo_audit.py`)
-- CLI: `python3 scripts/codebase_genome_nightly.py` — operational script (`scripts/codebase_genome_nightly.py`)
-- Python: `get_narrative_phase()` from `evennia/timmy_world/game.py:55`
-- Python: `get_phase_transition_event()` from `evennia/timmy_world/game.py:65`
-- Python: `main()` from `uniwizard/self_grader.py:713`
+### Browser / static surface
 
-## Test Coverage Report
+- `index.html` served over HTTP
+- `boot.js` exports `bootPage()`; verified by `node --test tests/boot.test.js`
+- Data APIs are file-based inside the repo: `portals.json`, `vision.json`, `manifest.json`
 
-- Source and script files inspected: 186
-- Test files inspected: 28
-- Coverage gaps:
-  - `wizards/allegro/home/skills/red-teaming/godmode/scripts/auto_jailbreak.py` — no matching test reference detected
-  - `timmy-local/cache/agent_cache.py` — no matching test reference detected
-  - `wizards/allegro/home/skills/red-teaming/godmode/scripts/parseltongue.py` — no matching test reference detected
-  - `twitter-archive/multimodal_pipeline.py` — no matching test reference detected
-  - `wizards/allegro/home/skills/red-teaming/godmode/scripts/godmode_race.py` — no matching test reference detected
-  - `skills/productivity/google-workspace/scripts/google_api.py` — no matching test reference detected
-  - `wizards/allegro/home/skills/productivity/google-workspace/scripts/google_api.py` — no matching test reference detected
-  - `morrowind/pilot.py` — no matching test reference detected
-  - `morrowind/mcp_server.py` — no matching test reference detected
-  - `skills/research/domain-intel/scripts/domain_intel.py` — no matching test reference detected
-  - `wizards/allegro/home/skills/research/domain-intel/scripts/domain_intel.py` — no matching test reference detected
-  - `timmy-local/scripts/ingest.py` — no matching test reference detected
+### Network/runtime surface
 
-## Security Audit Findings
+- `python3 server.py`
+  - Starts the WebSocket bridge on port `8765`
+- `python3 l402_server.py`
+  - Local HTTP microservice for cost-estimate style responses
+- `python3 multi_user_bridge.py`
+  - Multi-user HTTP/chat bridge
 
-- [medium] `briefings/briefing_20260325.json:37` — hardcoded http endpoint: plaintext or fixed HTTP endpoints can drift or leak across environments. Evidence: `"gitea_error": "Gitea 404: {\"errors\":null,\"message\":\"not found\",\"url\":\"http://143.198.27.163:3000/api/swagger\"}\n [http://143.198.27.163:3000/api/v1/repos/Timmy_Foundation/sovereign-orchestration/issues?state=open&type=issues&sort=created&direction=desc&limit=1&page=1]",`
-- [medium] `briefings/briefing_20260328.json:11` — hardcoded http endpoint: plaintext or fixed HTTP endpoints can drift or leak across environments. Evidence: `"provider_base_url": "http://localhost:8081/v1",`
-- [medium] `briefings/briefing_20260329.json:11` — hardcoded http endpoint: plaintext or fixed HTTP endpoints can drift or leak across environments. Evidence: `"provider_base_url": "http://localhost:8081/v1",`
-- [medium] `config.yaml:37` — hardcoded http endpoint: plaintext or fixed HTTP endpoints can drift or leak across environments. Evidence: `summary_base_url: http://localhost:11434/v1`
-- [medium] `config.yaml:47` — hardcoded http endpoint: plaintext or fixed HTTP endpoints can drift or leak across environments. Evidence: `base_url: 'http://localhost:11434/v1'`
-- [medium] `config.yaml:52` — hardcoded http endpoint: plaintext or fixed HTTP endpoints can drift or leak across environments. Evidence: `base_url: 'http://localhost:11434/v1'`
-- [medium] `config.yaml:57` — hardcoded http endpoint: plaintext or fixed HTTP endpoints can drift or leak across environments. Evidence: `base_url: 'http://localhost:11434/v1'`
-- [medium] `config.yaml:62` — hardcoded http endpoint: plaintext or fixed HTTP endpoints can drift or leak across environments. Evidence: `base_url: 'http://localhost:11434/v1'`
-- [medium] `config.yaml:67` — hardcoded http endpoint: plaintext or fixed HTTP endpoints can drift or leak across environments. Evidence: `base_url: 'http://localhost:11434/v1'`
-- [medium] `config.yaml:77` — hardcoded http endpoint: plaintext or fixed HTTP endpoints can drift or leak across environments. Evidence: `base_url: 'http://localhost:11434/v1'`
-- [medium] `config.yaml:82` — hardcoded http endpoint: plaintext or fixed HTTP endpoints can drift or leak across environments. Evidence: `base_url: 'http://localhost:11434/v1'`
-- [medium] `config.yaml:174` — hardcoded http endpoint: plaintext or fixed HTTP endpoints can drift or leak across environments. Evidence: `base_url: http://localhost:11434/v1`
+### Harness / operator CLI surfaces
 
-## Dead Code Candidates
+- `python3 nexus/morrowind_harness.py`
+- `python3 nexus/bannerlord_harness.py`
+- `python3 mempalace/tunnel_sync.py --peer <url> [--dry-run] [--n N]`
+- `python3 mcp_servers/desktop_control_server.py`
+- `python3 mcp_servers/steam_info_server.py`
 
-- `wizards/allegro/home/skills/red-teaming/godmode/scripts/auto_jailbreak.py` — not imported by indexed Python modules and not referenced by tests
-- `timmy-local/cache/agent_cache.py` — not imported by indexed Python modules and not referenced by tests
-- `wizards/allegro/home/skills/red-teaming/godmode/scripts/parseltongue.py` — not imported by indexed Python modules and not referenced by tests
-- `twitter-archive/multimodal_pipeline.py` — not imported by indexed Python modules and not referenced by tests
-- `wizards/allegro/home/skills/red-teaming/godmode/scripts/godmode_race.py` — not imported by indexed Python modules and not referenced by tests
-- `skills/productivity/google-workspace/scripts/google_api.py` — not imported by indexed Python modules and not referenced by tests
-- `wizards/allegro/home/skills/productivity/google-workspace/scripts/google_api.py` — not imported by indexed Python modules and not referenced by tests
-- `morrowind/pilot.py` — not imported by indexed Python modules and not referenced by tests
-- `morrowind/mcp_server.py` — not imported by indexed Python modules and not referenced by tests
-- `skills/research/domain-intel/scripts/domain_intel.py` — not imported by indexed Python modules and not referenced by tests
+### Validation surface
 
-## Performance Bottleneck Analysis
+- `python3 -m pytest tests/test_portals_json.py tests/test_index_html_integrity.py tests/test_repo_truth.py -q`
+- `node --test tests/boot.test.js`
+- `python3 -m py_compile server.py nexus/morrowind_harness.py nexus/bannerlord_harness.py mempalace/tunnel_sync.py mcp_servers/desktop_control_server.py`
+- `tests/test_browser_smoke.py` defines the higher-cost Playwright smoke contract for the world shell
 
-- `angband/mcp_server.py` — large module (353 lines) likely hides multiple responsibilities
-- `evennia/timmy_world/game.py` — large module (1541 lines) likely hides multiple responsibilities
-- `evennia/timmy_world/world/game.py` — large module (1345 lines) likely hides multiple responsibilities
-- `morrowind/mcp_server.py` — large module (451 lines) likely hides multiple responsibilities
-- `morrowind/pilot.py` — large module (459 lines) likely hides multiple responsibilities
-- `pipelines/codebase_genome.py` — large module (557 lines) likely hides multiple responsibilities
-- `scripts/know_thy_father/crossref_audit.py` — large module (657 lines) likely hides multiple responsibilities
-- `scripts/know_thy_father/index_media.py` — large module (405 lines) likely hides multiple responsibilities
-- `scripts/know_thy_father/synthesize_kernels.py` — large module (416 lines) likely hides multiple responsibilities
-- `scripts/tower_game.py` — large module (395 lines) likely hides multiple responsibilities
+## Test Coverage Gaps
+
+Strongly covered in this checkout:
+- `tests/test_portals_json.py` validates `portals.json`
+- `tests/test_index_html_integrity.py` checks merge-marker/DOM-integrity regressions in `index.html`
+- `tests/boot.test.js` verifies `boot.js` startup behavior
+- `tests/test_repo_truth.py` validates the repo-truth documents
+- Multiple `tests/test_mempalace_*.py` files cover the palace layer
+- `tests/test_bannerlord_harness.py` exists for the Bannerlord harness
+
+Notable gaps or weak seams:
+- `nexus/morrowind_harness.py` is large and operationally critical, but the generated baseline still flags it as a gap relative to its size/complexity
+- `mcp_servers/desktop_control_server.py` exposes high-power automation but has no obvious dedicated test file in the root `tests/` suite
+- `app.js` is the dominant browser runtime file and mixes rendering, GOFAI, metrics, and integration logic in one place; browser smoke exists, but there is limited unit-level decomposition around those subsystems
+- `mempalace.js` appears minimally bridged and stale relative to the richer Python MemPalace layer
+- `multi_user_bridge.py` is a large integration surface and should be treated as high regression risk even though it is central to operator/chat flow
+
+## Security Considerations
+
+- `server.py` binds `HOST = "0.0.0.0"`, exposing the broadcast bridge beyond localhost unless network controls limit it
+- The WebSocket bridge is a broadcast hub without visible authentication in `server.py`; connected clients are trusted to send messages into the bus
+- `mcp_servers/desktop_control_server.py` exposes mouse/keyboard/screenshot control through a stdio MCP server. In any non-local or poorly isolated runtime, this is a privileged automation surface
+- `app.js` contains hardcoded local/network endpoints such as `http://localhost:${L402_PORT}/api/cost-estimate` and `http://localhost:8082/metrics`; these are convenient for local development but create environment drift and deployment assumptions
+- `app.js` also embeds explicit endpoint/status references like `ws://143.198.27.163:8765`, which is operationally brittle and the kind of hardcoded location data that drifts across environments
+- `mempalace.js` shells out through `window.electronAPI.execPython(...)`; this is powerful and useful, but it is a clear trust boundary between UI and host execution
+- `INVESTIGATION_ISSUE_1145.md` documents an earlier integrity hazard: agents writing to `public/nexus/` instead of canonical root paths. That path confusion is both an operational and security concern because it makes provenance harder to reason about
+
+## Runtime Truth and Docs Drift
+
+The most important architecture finding in this repo is not a class or subsystem. It is a truth mismatch.
+
+- README.md says current `main` does not ship a browser 3D world
+- CLAUDE.md declares root `app.js` and `index.html` as canonical frontend paths
+- tests and browser contract now assume the root frontend exists
+
+All three statements are simultaneously present in this checkout.
+
+Grounded evidence:
+- `README.md` still says the repo does not contain an active root frontend such as `index.html`, `app.js`, or `style.css`
+- the current checkout does contain `index.html`, `app.js`, `style.css`, `manifest.json`, and `gofai_worker.js`
+- `BROWSER_CONTRACT.md` explicitly treats those root files as required browser assets
+- `tests/test_browser_smoke.py` serves those exact files and validates DOM/WebGL contracts against them
+- `tests/test_index_html_integrity.py` assumes `index.html` is canonical and production-relevant
+- `CLAUDE.md` says frontend code lives at repo root and explicitly warns against `public/nexus/`
+- `INVESTIGATION_ISSUE_1145.md` explains why `public/nexus/` is a bad/corrupt duplicate path and confirms the real classical AI code lives in root `app.js`
+
+The honest conclusion:
+- The repo contains a partially restored or actively re-materialized browser surface
+- The docs are preserving an older migration truth while the runtime files and smoke contracts describe a newer present-tense truth
+- Any future work in `the-nexus` must choose one truth and align `README.md`, `CLAUDE.md`, smoke tests, and file layout around it
+
+That drift is itself a critical architectural fact and should be treated as first-order design debt, not a side note.

evennia_tools/batch_cmds_bezalel.ev

@@ -1,110 +0,0 @@
-#
-# Bezalel World Builder — Evennia batch commands
-# Creates the Bezalel Evennia world from evennia_tools/bezalel_layout.py specs.
-#
-# Load with: @batchcommand bezalel_world
-#
-# Part of #536
-
-# Create rooms
-@create/drop Limbo:evennia.objects.objects.DefaultRoom
-@desc here = The void between worlds. The air carries the pulse of three houses: Mac, VPS, and this one. Everything begins here before it is given form.
-
-@create/drop Gatehouse:evennia.objects.objects.DefaultRoom
-@desc here = A stone guard tower at the edge of Bezalel world. The walls are carved with runes of travel, proof, and return. Every arrival is weighed before it is trusted.
-
-@create/drop Great Hall:evennia.objects.objects.DefaultRoom
-@desc here = A vast hall with a long working table. Maps of the three houses hang beside sketches, benchmarks, and deployment notes. This is where the forge reports back to the house.
-
-@create/drop The Library of Bezalel:evennia.objects.objects.DefaultRoom
-@desc here = Shelves of technical manuals, Evennia code, test logs, and bridge schematics rise to the ceiling. This room holds plans waiting to be made real.
-
-@create/drop The Observatory:evennia.objects.objects.DefaultRoom
-@desc here = A high chamber with telescopes pointing toward the Mac, the VPS, and the wider net. Screens glow with status lights, latency traces, and long-range signals.
-
-@create/drop The Workshop:evennia.objects.objects.DefaultRoom
-@desc here = A forge and workbench share the same heat. Scattered here are half-finished bridges, patched harnesses, and tools laid out for proof before pride.
-
-@create/drop The Server Room:evennia.objects.objects.DefaultRoom
-@desc here = Racks of humming servers line the walls. Fans push warm air through the chamber while status LEDs beat like a mechanical heart. This is the pulse of Bezalel house.
-
-@create/drop The Garden of Code:evennia.objects.objects.DefaultRoom
-@desc here = A quiet garden where ideas are left long enough to grow roots. Code-shaped leaves flutter in patterned wind, and a stone path invites patient thought.
-
-@create/drop The Portal Room:evennia.objects.objects.DefaultRoom
-@desc here = Three shimmering doorways stand in a ring: one marked for the Mac house, one for the VPS, and one for the wider net. The room hums like a bridge waiting for traffic.
-
-# Create exits
-@open gatehouse:gate,tower = Gatehouse
-@open limbo:void,back = Limbo
-@open greathall:hall,great hall = Great Hall
-@open gatehouse:gate,tower = Gatehouse
-@open library:books,study = The Library of Bezalel
-@open hall:great hall,back = Great Hall
-@open observatory:telescope,tower top = The Observatory
-@open hall:great hall,back = Great Hall
-@open workshop:forge,bench = The Workshop
-@open hall:great hall,back = Great Hall
-@open serverroom:servers,server room = The Server Room
-@open workshop:forge,bench = The Workshop
-@open garden:garden of code,grove = The Garden of Code
-@open workshop:forge,bench = The Workshop
-@open portalroom:portal,portals = The Portal Room
-@open gatehouse:gate,back = Gatehouse
-
-# Create objects
-@create Threshold Ledger
-@desc Threshold Ledger = A heavy ledger where arrivals, departures, and field notes are recorded before the work begins.
-@tel Threshold Ledger = Gatehouse
-
-@create Three-House Map
-@desc Three-House Map = A long map showing Mac, VPS, and remote edges in one continuous line of work.
-@tel Three-House Map = Great Hall
-
-@create Bridge Schematics
-@desc Bridge Schematics = Rolled plans describing world bridges, Evennia layouts, and deployment paths.
-@tel Bridge Schematics = The Library of Bezalel
-
-@create Compiler Manuals
-@desc Compiler Manuals = Manuals annotated in the margins with warnings against cleverness without proof.
-@tel Compiler Manuals = The Library of Bezalel
-
-@create Tri-Axis Telescope
-@desc Tri-Axis Telescope = A brass telescope assembly that can be turned toward the Mac, the VPS, or the open net.
-@tel Tri-Axis Telescope = The Observatory
-
-@create Forge Anvil
-@desc Forge Anvil = Scarred metal used for turning rough plans into testable form.
-@tel Forge Anvil = The Workshop
-
-@create Bridge Workbench
-@desc Bridge Workbench = A wide bench covered in harness patches, relay notes, and half-soldered bridge parts.
-@tel Bridge Workbench = The Workshop
-
-@create Heartbeat Console
-@desc Heartbeat Console = A monitoring console showing service health, latency, and the steady hum of the house.
-@tel Heartbeat Console = The Server Room
-
-@create Server Racks
-@desc Server Racks = Stacked machines that keep the world awake even when no one is watching.
-@tel Server Racks = The Server Room
-
-@create Code Orchard
-@desc Code Orchard = Trees with code-shaped leaves. Some branches bear elegant abstractions; others hold broken prototypes.
-@tel Code Orchard = The Garden of Code
-
-@create Stone Bench
-@desc Stone Bench = A place to sit long enough for a hard implementation problem to become clear.
-@tel Stone Bench = The Garden of Code
-
-@create Mac Portal:mac arch
-@desc Mac Portal = A silver doorway whose frame vibrates with the local sovereign house.
-@tel Mac Portal = The Portal Room
-
-@create VPS Portal:vps arch
-@desc VPS Portal = A cobalt doorway tuned toward the testbed VPS house.
-@tel VPS Portal = The Portal Room
-
-@create Net Portal:net arch,network arch
-@desc Net Portal = A pale doorway pointed toward the wider net and every uncertain edge beyond it.
-@tel Net Portal = The Portal Room

evennia_tools/build_bezalel_world.py

@@ -1,85 +0,0 @@
-#!/usr/bin/env python3
-""
-build_bezalel_world.py — Build Bezalel Evennia world from layout specs.
-
-Programmatically creates rooms, exits, objects, and characters in a running
-Evennia instance using the specs from evennia_tools/bezalel_layout.py.
-
-Usage (in Evennia game shell):
-    from evennia_tools.build_bezalel_world import build_world
-    build_world()
-
-Or via batch command:
-    @batchcommand evennia_tools/batch_cmds_bezalel.ev
-
-Part of #536
-""
-
-from evennia_tools.bezalel_layout import (
-    ROOMS, EXITS, OBJECTS, CHARACTERS, PORTAL_COMMANDS,
-    room_keys, reachable_rooms_from
-)
-
-
-def build_world():
-    """Build the Bezalel Evennia world from layout specs."""
-    from evennia.objects.models import ObjectDB
-    from evennia.utils.create import create_object, create_exit, create_message
-
-    print("Building Bezalel world...")
-
-    # Create rooms
-    rooms = {}
-    for spec in ROOMS:
-        room = create_object(
-            "evennia.objects.objects.DefaultRoom",
-            key=spec.key,
-            attributes=(("desc", spec.desc),),
-        )
-        rooms[spec.key] = room
-        print(f"  Room: {spec.key}")
-
-    # Create exits
-    for spec in EXITS:
-        source = rooms.get(spec.source)
-        dest = rooms.get(spec.destination)
-        if not source or not dest:
-            print(f"  WARNING: Exit {spec.key} — missing room")
-            continue
-        exit_obj = create_exit(
-            key=spec.key,
-            location=source,
-            destination=dest,
-            aliases=list(spec.aliases),
-        )
-        print(f"  Exit: {spec.source} -> {spec.destination} ({spec.key})")
-
-    # Create objects
-    for spec in OBJECTS:
-        location = rooms.get(spec.location)
-        if not location:
-            print(f"  WARNING: Object {spec.key} — missing room {spec.location}")
-            continue
-        obj = create_object(
-            "evennia.objects.objects.DefaultObject",
-            key=spec.key,
-            location=location,
-            attributes=(("desc", spec.desc),),
-            aliases=list(spec.aliases),
-        )
-        print(f"  Object: {spec.key} in {spec.location}")
-
-    # Verify reachability
-    all_rooms = set(room_keys())
-    reachable = reachable_rooms_from("Limbo")
-    unreachable = all_rooms - reachable
-    if unreachable:
-        print(f"  WARNING: Unreachable rooms: {unreachable}")
-    else:
-        print(f"  All {len(all_rooms)} rooms reachable from Limbo")
-
-    print("Bezalel world built.")
-
-
-if __name__ == "__main__":
-    build_world()

genomes/burn-fleet/GENOME.md

@@ -0,0 +1,101 @@
+# GENOME.md — Burn Fleet (Timmy_Foundation/burn-fleet)
+
+> Codebase Genome v1.0 | Generated 2026-04-16 | Repo 14/16
+
+## Project Overview
+
+**Burn Fleet** is the autonomous dispatch infrastructure for the Timmy Foundation. It manages 112 tmux panes across Mac and VPS, routing Gitea issues to lane-specialized workers by repo. Each agent has a mythological name — they are all Timmy with different hats.
+
+**Core principle:** Dispatch ALL panes. Never scan for idle. Stale work beats idle workers.
+
+## Architecture
+
+```
+Mac (M3 Max, 14 cores, 36GB)          Allegro (VPS, 2 cores, 8GB)
+┌─────────────────────────────┐       ┌─────────────────────────────┐
+│ CRUCIBLE  14 panes  (bugs)  │       │ FORGE      14 panes (bugs)  │
+│ GNOMES    12 panes  (cron)  │       │ ANVIL      14 panes (nexus) │
+│ LOOM      12 panes  (home)  │       │ CRUCIBLE-2 10 panes (home)  │
+│ FOUNDRY   10 panes  (nexus) │       │ SENTINEL    6 panes (council)│
+│ WARD      12 panes  (fleet) │       └─────────────────────────────┘
+│ COUNCIL    8 panes  (sages) │               44 panes (36 workers)
+└─────────────────────────────┘
+        68 panes (60 workers)
+```
+
+**Total: 112 panes, 96 workers + 12 council members + 4 sentinel advisors**
+
+## Key Files
+
+| File | LOC | Purpose |
+|------|-----|---------|
+| `fleet-spec.json` | ~200 | Machine definitions, window layouts, lane assignments, agent names |
+| `fleet-launch.sh` | ~100 | Create tmux sessions with correct pane counts on Mac + Allegro |
+| `fleet-christen.py` | ~80 | Launch hermes in all panes and send identity messages |
+| `fleet-dispatch.py` | ~250 | Pull Gitea issues and route to correct panes by lane |
+| `fleet-status.py` | ~100 | Health check across all machines |
+| `allegro/docker-compose.yml` | ~30 | Allegro VPS container definition |
+| `allegro/Dockerfile` | ~20 | Allegro build definition |
+| `allegro/healthcheck.py` | ~15 | Allegro container health check |
+
+**Total: ~800 LOC**
+
+## Lane Routing
+
+Issues are routed by repo to the correct window:
+
+| Repo | Mac Window | Allegro Window |
+|------|-----------|----------------|
+| hermes-agent | CRUCIBLE, GNOMES | FORGE |
+| timmy-home | LOOM | CRUCIBLE-2 |
+| timmy-config | LOOM | CRUCIBLE-2 |
+| the-nexus | FOUNDRY | ANVIL |
+| the-playground | — | ANVIL |
+| the-door | WARD | CRUCIBLE-2 |
+| fleet-ops | WARD | CRUCIBLE-2 |
+| turboquant | WARD | — |
+
+## Entry Points
+
+| Command | Purpose |
+|---------|---------|
+| `./fleet-launch.sh both` | Create tmux layout on Mac + Allegro |
+| `python3 fleet-christen.py both` | Wake all agents with identity messages |
+| `python3 fleet-dispatch.py --cycles 1` | Single dispatch cycle |
+| `python3 fleet-dispatch.py --cycles 10 --interval 60` | Continuous burn (10 cycles, 60s apart) |
+| `python3 fleet-status.py` | Health check all machines |
+
+## Agent Names
+
+| Window | Names | Count |
+|--------|-------|-------|
+| CRUCIBLE | AZOTH, ALBEDO, CITRINITAS, RUBEDO, SULPHUR, MERCURIUS, SAL, ATHANOR, VITRIOL, SATURN, JUPITER, MARS, EARTH, SOL | 14 |
+| GNOMES | RAZIEL, AZRAEL, CASSIEL, METATRON, SANDALPHON, BINAH, CHOKMAH, KETER, ALDEBARAN, RIGEL, SIRIUS, POLARIS | 12 |
+| FORGE | HAMMER, ANVIL, ADZE, PICK, TONGS, WRENCH, SCREWDRIVER, BOLT, SAW, TRAP, HOOK, MAGNET, SPARK, FLAME | 14 |
+| COUNCIL | TESLA, HERMES, GANDALF, DAVINCI, ARCHIMEDES, TURING, AURELIUS, SOLOMON | 8 |
+
+## Design Decisions
+
+1. **Separate GILs** — Allegro runs Python independently on VPS for true parallelism
+2. **Queue, not send-keys** — Workers process at their own pace, no interruption
+3. **Lane enforcement** — Panes stay in one repo to build deep context
+4. **Dispatch ALL panes** — Never scan for idle; stale work beats idle workers
+5. **Council is advisory** — Named archetypes provide perspective, not task execution
+
+## Scaling
+
+- Add panes: Edit `fleet-spec.json` → `fleet-launch.sh` → `fleet-christen.py`
+- Add machines: Edit `fleet-spec.json` → Add routing in `fleet-dispatch.py` → Ensure SSH access
+
+## Sovereignty Assessment
+
+- **Fully local** — Mac + user-controlled VPS, no cloud dependencies
+- **No phone-home** — Gitea API is self-hosted
+- **Open source** — All code on Gitea
+- **SSH-based** — Mac → Allegro communication via SSH only
+
+**Verdict: Fully sovereign. Autonomous fleet dispatch with no external dependencies.**
+
+---
+
+*"Dispatch ALL panes. Never scan for idle — stale work beats idle workers."*

reports/evaluations/2026-04-07-mempalace-v3-evaluation.md

@@ -0,0 +1,106 @@
+# MemPalace v3.0.0 Integration — Before/After Evaluation
+
+> Issue #568 | timmy-home
+> Date: 2026-04-07
+
+## Executive Summary
+
+Evaluated **MemPalace v3.0.0** as a memory layer for the Timmy/Hermes agent stack.
+
+**Installed:** ✅ `mempalace 3.0.0` via `pip install`
+**Works with:** ChromaDB, MCP servers, local LLMs
+**Zero cloud:** ✅ Fully local, no API keys required
+
+## Benchmark Findings
+
+| Benchmark | Mode | Score | API Required |
+|-----------|------|-------|-------------|
+| LongMemEval R@5 | Raw ChromaDB only | **96.6%** | **Zero** |
+| LongMemEval R@5 | Hybrid + Haiku rerank | **100%** | Optional Haiku |
+| LoCoMo R@10 | Raw, session level | 60.3% | Zero |
+| Personal palace R@10 | Heuristic bench | 85% | Zero |
+| Palace structure impact | Wing+room filtering | **+34%** R@10 | Zero |
+
+## Before vs After (Live Test)
+
+### Before (Standard BM25 / Simple Search)
+
+- No semantic understanding
+- Exact match only
+- No conversation memory
+- No structured organization
+- No wake-up context
+
+### After (MemPalace)
+
+| Query | Results | Score | Notes |
+|-------|---------|-------|-------|
+| "authentication" | auth.md, main.py | -0.139 | Finds both auth discussion and JWT implementation |
+| "docker nginx SSL" | deployment.md, auth.md | 0.447 | Exact match on deployment, related JWT context |
+| "keycloak OAuth" | auth.md, main.py | -0.029 | Finds OAuth discussion and JWT usage |
+| "postgresql database" | README.md, main.py | 0.025 | Finds both decision and implementation |
+
+### Wake-up Context
+- **~210 tokens** total
+- L0: Identity (placeholder)
+- L1: All essential facts compressed
+- Ready to inject into any LLM prompt
+
+## Integration Path
+
+### 1. Memory Mining
+```bash
+mempalace mine ~/.hermes/sessions/ --mode convos
+mempalace mine ~/.hermes/hermes-agent/
+mempalace mine ~/.hermes/
+```
+
+### 2. Wake-up Protocol
+```bash
+mempalace wake-up > /tmp/timmy-context.txt
+```
+
+### 3. MCP Integration
+```bash
+hermes mcp add mempalace -- python -m mempalace.mcp_server
+```
+
+### 4. Hermes Hooks
+- `PreCompact`: save memory before context compression
+- `PostAPI`: mine conversation after significant interactions
+- `WakeUp`: load context at session start
+
+## Recommendations
+
+### Immediate
+1. Add `mempalace` to Hermes venv requirements
+2. Create mine script for ~/.hermes/ and ~/.timmy/
+3. Add wake-up hook to Hermes session start
+4. Test with real conversation exports
+
+### Short-term
+1. Mine last 30 days of Timmy sessions
+2. Build wake-up context for all agents
+3. Add MemPalace MCP tools to Hermes toolset
+4. Test retrieval quality on real queries
+
+### Medium-term
+1. Replace homebrew memory system with MemPalace
+2. Build palace structure: wings for projects, halls for topics
+3. Compress with AAAK for 30x storage efficiency
+4. Benchmark against current RetainDB system
+
+## Conclusion
+
+MemPalace scores higher than published alternatives (Mem0, Mastra, Supermemory) with **zero API calls**.
+
+Key advantages:
+1. **Verbatim retrieval** — never loses the "why" context
+2. **Palace structure** — +34% boost from organization
+3. **Local-only** — aligns with sovereignty mandate
+4. **MCP compatible** — drops into existing tool chain
+5. **AAAK compression** — 30x storage reduction coming
+
+---
+
+*Evaluated by Timmy | Issue #568*

reports/production/2026-04-16-burn-lane-empty-audit.md

@@ -1,6 +1,6 @@
 # Burn Lane Empty Audit — timmy-home #662
 
-Generated: 2026-04-16T01:22:37Z
+Generated: 2026-04-17T03:42:50Z
 Source issue: `[ops] Burn lane empty — all open issues triaged (2026-04-14)`
 
 ## Source Snapshot
@@ -11,9 +11,9 @@ Issue #662 is an operational status note, not a normal feature request. Its body
 
 - Referenced issues audited: 42
 - Already closed: 30
-- Open but likely closure candidates (merged PR found): 0
-- Open with active PRs: 12
-- Open / needs manual review: 0
+- Open but likely closure candidates (merged PR found): 1
+- Open with active PRs: 0
+- Open / needs manual review: 11
 
 ## Issue Body Drift
 
@@ -21,56 +21,56 @@ The body of #662 is not current truth. It mixes closed issues, open issues, rang
 
 | Issue | State | Classification | PR Summary |
 |---|---|---|---|
-| #579 | closed | already closed | closed PR #644, closed PR #640, closed PR #635, closed PR #620 |
-| #648 | open | active pr | open PR #731 |
+| #579 | closed | already closed | closed PR #644, closed PR #643, closed PR #640, closed PR #635, closed PR #620 |
+| #648 | open | needs manual review | closed PR #731 |
 | #647 | closed | already closed | issue already closed |
 | #619 | closed | already closed | issue already closed |
 | #616 | closed | already closed | issue already closed |
 | #614 | closed | already closed | issue already closed |
 | #613 | closed | already closed | issue already closed |
 | #660 | closed | already closed | issue already closed |
-| #659 | closed | already closed | issue already closed |
+| #659 | closed | already closed | closed PR #660 |
 | #658 | closed | already closed | issue already closed |
 | #657 | closed | already closed | issue already closed |
 | #656 | closed | already closed | closed PR #658 |
 | #655 | closed | already closed | issue already closed |
 | #654 | closed | already closed | closed PR #661 |
-| #653 | closed | already closed | issue already closed |
-| #652 | closed | already closed | merged PR #657 |
-| #651 | closed | already closed | issue already closed |
-| #650 | closed | already closed | merged PR #654 |
-| #649 | closed | already closed | issue already closed |
-| #646 | closed | already closed | issue already closed |
-| #582 | open | active pr | open PR #738 |
+| #653 | closed | already closed | closed PR #660, closed PR #655 |
+| #652 | closed | already closed | closed PR #660, merged PR #657, closed PR #655 |
+| #651 | closed | already closed | closed PR #655 |
+| #650 | closed | already closed | closed PR #661, closed PR #660, merged PR #654, closed PR #651 |
+| #649 | closed | already closed | closed PR #660, merged PR #657, closed PR #651 |
+| #646 | closed | already closed | closed PR #655, closed PR #651 |
+| #582 | open | closure candidate | merged PR #641, merged PR #639, merged PR #637, merged PR #631, merged PR #630 |
 | #627 | closed | already closed | issue already closed |
 | #631 | closed | already closed | issue already closed |
 | #632 | closed | already closed | issue already closed |
 | #634 | closed | already closed | issue already closed |
 | #639 | closed | already closed | issue already closed |
 | #641 | closed | already closed | issue already closed |
-| #575 | closed | already closed | merged PR #656 |
-| #576 | closed | already closed | closed PR #663, closed PR #660, closed PR #655, closed PR #651, closed PR #646, closed PR #642, closed PR #633 |
+| #575 | closed | already closed | closed PR #658, merged PR #656 |
+| #576 | closed | already closed | merged PR #664, closed PR #663, closed PR #660, closed PR #655, merged PR #654, closed PR #651, closed PR #646, closed PR #642, closed PR #633 |
 | #578 | closed | already closed | merged PR #638, closed PR #636 |
 | #636 | closed | already closed | issue already closed |
 | #638 | closed | already closed | issue already closed |
-| #547 | open | active pr | open PR #730 |
-| #548 | open | active pr | open PR #712 |
-| #549 | open | active pr | open PR #729 |
-| #550 | open | active pr | open PR #727 |
-| #551 | open | active pr | open PR #725 |
-| #552 | open | active pr | open PR #724 |
-| #553 | open | active pr | open PR #722 |
-| #562 | open | active pr | open PR #718 |
-| #544 | open | active pr | open PR #732 |
-| #545 | open | active pr | open PR #719 |
+| #547 | open | needs manual review | closed PR #730 |
+| #548 | open | needs manual review | closed PR #712 |
+| #549 | open | needs manual review | closed PR #729 |
+| #550 | open | needs manual review | closed PR #727 |
+| #551 | open | needs manual review | closed PR #725 |
+| #552 | open | needs manual review | closed PR #724 |
+| #553 | open | needs manual review | closed PR #722 |
+| #562 | open | needs manual review | closed PR #718 |
+| #544 | open | needs manual review | closed PR #732 |
+| #545 | open | needs manual review | closed PR #719 |
 
 ## Closure Candidates
 
 These issues are still open but already have merged PR evidence in the forge and should be reviewed for bulk closure.
 
-| None |
-|---|
-| None |
+| Issue | State | Classification | PR Summary |
+|---|---|---|---|
+| #582 | open | closure candidate | merged PR #641, merged PR #639, merged PR #637, merged PR #631, merged PR #630 |
 
 ## Still Open / Needs Manual Review
 
@@ -78,18 +78,17 @@ These issues either have no matching PR signal or still have an active PR / ambi
 
 | Issue | State | Classification | PR Summary |
 |---|---|---|---|
-| #648 | open | active pr | open PR #731 |
-| #582 | open | active pr | open PR #738 |
-| #547 | open | active pr | open PR #730 |
-| #548 | open | active pr | open PR #712 |
-| #549 | open | active pr | open PR #729 |
-| #550 | open | active pr | open PR #727 |
-| #551 | open | active pr | open PR #725 |
-| #552 | open | active pr | open PR #724 |
-| #553 | open | active pr | open PR #722 |
-| #562 | open | active pr | open PR #718 |
-| #544 | open | active pr | open PR #732 |
-| #545 | open | active pr | open PR #719 |
+| #648 | open | needs manual review | closed PR #731 |
+| #547 | open | needs manual review | closed PR #730 |
+| #548 | open | needs manual review | closed PR #712 |
+| #549 | open | needs manual review | closed PR #729 |
+| #550 | open | needs manual review | closed PR #727 |
+| #551 | open | needs manual review | closed PR #725 |
+| #552 | open | needs manual review | closed PR #724 |
+| #553 | open | needs manual review | closed PR #722 |
+| #562 | open | needs manual review | closed PR #718 |
+| #544 | open | needs manual review | closed PR #732 |
+| #545 | open | needs manual review | closed PR #719 |
 
 ## Recommendation
 

scripts/audit_trail.py

@@ -1,138 +0,0 @@
-#!/usr/bin/env python3
-# audit_trail.py - Local logging of inputs, sources, and confidence.
-# Implements SOUL.md "What Honesty Requires" - The Audit Trail.
-# Logs are stored locally. Never sent anywhere. The user owns them.
-# Part of #794
-
-import json
-import hashlib
-import os
-import time
-from datetime import datetime, timezone
-from pathlib import Path
-from typing import Any, Dict, List, Optional
-from dataclasses import dataclass, field, asdict
-
-AUDIT_DIR = Path(os.environ.get("HERMES_HOME", Path.home() / ".hermes")) / "audit-trail"
-
-
-@dataclass
-class AuditEntry:
-    id: str
-    ts: str
-    input_text: str
-    sources: List[str]
-    confidence: float
-    output_text: str
-    model: str
-    provider: str = ""
-    session_id: str = ""
-    source_types: List[str] = field(default_factory=list)
-
-    @staticmethod
-    def generate_id(input_text: str, output_text: str, ts: str) -> str:
-        content = f"{ts}:{input_text}:{output_text}"
-        return hashlib.sha256(content.encode()).hexdigest()[:16]
-
-
-class AuditTrail:
-    def __init__(self, audit_dir: Optional[Path] = None):
-        self.audit_dir = audit_dir or AUDIT_DIR
-        self.audit_dir.mkdir(parents=True, exist_ok=True)
-        self._log_file = self.audit_dir / "trail.jsonl"
-
-    def log_response(self, input_text, sources, confidence, output_text,
-                     model="", provider="", session_id="", source_types=None):
-        ts = datetime.now(timezone.utc).isoformat()
-        entry = AuditEntry(
-            id=AuditEntry.generate_id(input_text, output_text, ts),
-            ts=ts,
-            input_text=input_text[:1000],
-            sources=[s[:200] for s in sources[:10]],
-            confidence=round(confidence, 3),
-            output_text=output_text[:2000],
-            model=model, provider=provider, session_id=session_id,
-            source_types=source_types or [],
-        )
-        with open(self._log_file, "a") as f:
-            f.write(json.dumps(asdict(entry)) + "\n")
-        return entry
-
-    def query(self, search_text, limit=10, min_confidence=0.0):
-        if not self._log_file.exists():
-            return []
-        results = []
-        search_lower = search_text.lower()
-        with open(self._log_file) as f:
-            for line in f:
-                line = line.strip()
-                if not line:
-                    continue
-                try:
-                    data = json.loads(line)
-                except json.JSONDecodeError:
-                    continue
-                if data.get("confidence", 0) < min_confidence:
-                    continue
-                searchable = (data.get("input_text", "") + " " +
-                    data.get("output_text", "") + " " +
-                    " ".join(data.get("sources", []))).lower()
-                if search_lower in searchable:
-                    results.append(AuditEntry(**{k: data.get(k, "") if isinstance(data.get(k), str)
-                        else data.get(k, []) if isinstance(data.get(k), list)
-                        else data.get(k, 0.0) for k in AuditEntry.__dataclass_fields__}))
-                if len(results) >= limit:
-                    break
-        return results
-
-    def get_stats(self):
-        if not self._log_file.exists():
-            return {"total": 0, "avg_confidence": 0, "sources_breakdown": {}}
-        total = 0
-        confidence_sum = 0.0
-        source_types = {}
-        with open(self._log_file) as f:
-            for line in f:
-                try:
-                    data = json.loads(line.strip())
-                    total += 1
-                    confidence_sum += data.get("confidence", 0)
-                    for st in data.get("source_types", []):
-                        source_types[st] = source_types.get(st, 0) + 1
-                except (json.JSONDecodeError, ValueError):
-                    continue
-        return {"total": total, "avg_confidence": round(confidence_sum / max(total, 1), 3),
-                "sources_breakdown": source_types}
-
-    def get_by_session(self, session_id, limit=50):
-        if not self._log_file.exists():
-            return []
-        results = []
-        with open(self._log_file) as f:
-            for line in f:
-                try:
-                    data = json.loads(line.strip())
-                    if data.get("session_id") == session_id:
-                        results.append(AuditEntry(**{k: data.get(k, "") if isinstance(data.get(k), str)
-                            else data.get(k, []) if isinstance(data.get(k), list)
-                            else data.get(k, 0.0) for k in AuditEntry.__dataclass_fields__}))
-                except (json.JSONDecodeError, ValueError):
-                    continue
-                if len(results) >= limit:
-                    break
-        return results
-
-
-_default_trail = None
-
-def get_trail():
-    global _default_trail
-    if _default_trail is None:
-        _default_trail = AuditTrail()
-    return _default_trail
-
-def log_response(**kwargs):
-    return get_trail().log_response(**kwargs)
-
-def query(search_text, **kwargs):
-    return get_trail().query(search_text, **kwargs)

scripts/burn_lane_issue_audit.py

@@ -23,6 +23,7 @@ class PullSummary:
     state: str
     merged: bool
     head: str
+    body: str
     url: str
 
 
@@ -75,7 +76,8 @@ def api_get(path: str, token: str):
 def collect_pull_summaries(repo: str, token: str) -> list[PullSummary]:
     pulls: list[PullSummary] = []
     for state in ("open", "closed"):
-        for page in range(1, 6):
+        page = 1
+        while True:
             batch = api_get(f"/repos/{ORG}/{repo}/pulls?state={state}&limit=100&page={page}", token)
             if not batch:
                 break
@@ -87,18 +89,18 @@ def collect_pull_summaries(repo: str, token: str) -> list[PullSummary]:
                         state=pr.get("state") or state,
                         merged=bool(pr.get("merged")),
                         head=(pr.get("head") or {}).get("ref") or "",
+                        body=pr.get("body") or "",
                         url=pr.get("html_url") or pr.get("url") or "",
                     )
                 )
-            if len(batch) < 100:
-                break
+            page += 1
     return pulls
 
 
 def match_prs(issue_num: int, pulls: Iterable[PullSummary]) -> list[PullSummary]:
     matches: list[PullSummary] = []
     for pr in pulls:
-        text = f"{pr.title} {pr.head}"
+        text = f"{pr.title} {pr.head} {pr.body}"
         if f"#{issue_num}" in text or pr.head == f"fix/{issue_num}" or f"/{issue_num}" in pr.head or f"-{issue_num}" in pr.head:
             matches.append(pr)
     return matches
@@ -116,12 +118,16 @@ def classify_issue(issue: dict, related_prs: list[PullSummary]) -> IssueAuditRow
     else:
         merged = [pr for pr in related_prs if pr.merged]
         open_prs = [pr for pr in related_prs if pr.state == "open"]
+        closed_unmerged = [pr for pr in related_prs if pr.state != "open" and not pr.merged]
         if merged:
             classification = "closure_candidate"
             pr_summary = summarize_prs(merged)
         elif open_prs:
             classification = "active_pr"
             pr_summary = summarize_prs(open_prs)
+        elif closed_unmerged:
+            classification = "needs_manual_review"
+            pr_summary = summarize_prs(closed_unmerged)
         else:
             classification = "needs_manual_review"
             pr_summary = "no matching PR found"

scripts/fix_evennia_settings.sh

@@ -1,84 +0,0 @@
-#!/bin/bash
-set -euo pipefail
-#
-# fix_evennia_settings.sh — Fix Evennia settings on Bezalel VPS.
-#
-# Removes bad port tuples that crash Evennia's Twisted port binding.
-# Run on Bezalel VPS (104.131.15.18) or via SSH.
-#
-# Usage:
-#   ssh root@104.131.15.18 'bash -s' < scripts/fix_evennia_settings.sh
-#
-# Part of #534
-
-EVENNIA_DIR="/root/wizards/bezalel/evennia/bezalel_world"
-SETTINGS="${EVENNIA_DIR}/server/conf/settings.py"
-VENV_PYTHON="/root/wizards/bezalel/evennia/venv/bin/python3"
-VENV_EVENNIA="/root/wizards/bezalel/evennia/venv/bin/evennia"
-
-echo "=== Fix Evennia Settings (Bezalel) ==="
-
-# 1. Fix settings.py — remove bad port tuples
-echo "Fixing settings.py..."
-if [ -f "$SETTINGS" ]; then
-    # Remove broken port lines
-    sed -i '/WEBSERVER_PORTS/d' "$SETTINGS"
-    sed -i '/TELNET_PORTS/d' "$SETTINGS"
-    sed -i '/WEBSOCKET_PORTS/d' "$SETTINGS"
-    sed -i '/SERVERNAME/d' "$SETTINGS"
-    
-    # Add correct settings
-    echo '' >> "$SETTINGS"
-    echo '# Fixed port settings — #534' >> "$SETTINGS"
-    echo 'SERVERNAME = "bezalel_world"' >> "$SETTINGS"
-    echo 'WEBSERVER_PORTS = [(4001, "0.0.0.0")]' >> "$SETTINGS"
-    echo 'TELNET_PORTS = [(4000, "0.0.0.0")]' >> "$SETTINGS"
-    echo 'WEBSOCKET_PORTS = [(4002, "0.0.0.0")]' >> "$SETTINGS"
-    
-    echo "Settings fixed."
-else
-    echo "ERROR: Settings file not found at $SETTINGS"
-    exit 1
-fi
-
-# 2. Clean DB and re-migrate
-echo "Cleaning DB..."
-cd "$EVENNIA_DIR"
-rm -f server/evennia.db3
-
-echo "Running migrations..."
-"$VENV_EVENNIA" migrate --no-input
-
-# 3. Create superuser
-echo "Creating superuser..."
-"$VENV_PYTHON" -c "
-import sys, os
-sys.setrecursionlimit(5000)
-os.environ['DJANGO_SETTINGS_MODULE'] = 'server.conf.settings'
-os.chdir('$EVENNIA_DIR')
-import django
-django.setup()
-from evennia.accounts.accounts import AccountDB
-try:
-    AccountDB.objects.create_superuser('Timmy', 'timmy@tower.world', 'timmy123')
-    print('Superuser Timmy created')
-except Exception as e:
-    print(f'Superuser may already exist: {e}')
-"
-
-# 4. Start Evennia
-echo "Starting Evennia..."
-"$VENV_EVENNIA" start
-
-# 5. Verify
-sleep 3
-echo ""
-echo "=== Verification ==="
-"$VENV_EVENNIA" status
-
-echo ""
-echo "Listening ports:"
-ss -tlnp | grep -E '400[012]' || echo "No ports found (may need a moment)"
-
-echo ""
-echo "Done. Connect: telnet 104.131.15.18 4000"

scripts/genome_analyzer.py

@@ -1,171 +0,0 @@
-#!/usr/bin/env python3
-"""
-genome_analyzer.py — Generate a GENOME.md from a codebase.
-
-Scans a repository and produces a structured codebase genome with:
-- File counts by type
-- Architecture overview (directory structure)
-- Entry points
-- Test coverage summary
-
-Usage:
-    python3 scripts/genome_analyzer.py /path/to/repo
-    python3 scripts/genome_analyzer.py /path/to/repo --output GENOME.md
-    python3 scripts/genome_analyzer.py /path/to/repo --dry-run
-
-Part of #666: GENOME.md Template + Single-Repo Analyzer.
-"""
-
-import argparse
-import sys
-from collections import defaultdict
-from datetime import datetime, timezone
-from pathlib import Path
-from typing import Dict, List, Tuple
-
-SKIP_DIRS = {".git", "__pycache__", ".venv", "venv", "node_modules", ".tox", ".pytest_cache", ".DS_Store"}
-
-
-def count_files(repo_path: Path) -> Dict[str, int]:
-    counts = defaultdict(int)
-    for f in repo_path.rglob("*"):
-        if any(part in SKIP_DIRS for part in f.parts):
-            continue
-        if f.is_file():
-            ext = f.suffix or "(no ext)"
-            counts[ext] += 1
-    return dict(sorted(counts.items(), key=lambda x: -x[1]))
-
-
-def find_entry_points(repo_path: Path) -> List[str]:
-    entry_points = []
-    candidates = [
-        "main.py", "app.py", "server.py", "cli.py", "manage.py",
-        "index.html", "index.js", "index.ts",
-        "Makefile", "Dockerfile", "docker-compose.yml",
-        "README.md", "deploy.sh", "setup.py", "pyproject.toml",
-    ]
-    for name in candidates:
-        if (repo_path / name).exists():
-            entry_points.append(name)
-    scripts_dir = repo_path / "scripts"
-    if scripts_dir.is_dir():
-        for f in sorted(scripts_dir.iterdir()):
-            if f.suffix in (".py", ".sh") and not f.name.startswith("test_"):
-                entry_points.append(f"scripts/{f.name}")
-    return entry_points[:15]
-
-
-def find_tests(repo_path: Path) -> Tuple[List[str], int]:
-    test_files = []
-    for f in repo_path.rglob("*"):
-        if any(part in SKIP_DIRS for part in f.parts):
-            continue
-        if f.is_file() and (f.name.startswith("test_") or f.name.endswith("_test.py") or f.name.endswith("_test.js")):
-            test_files.append(str(f.relative_to(repo_path)))
-    return sorted(test_files), len(test_files)
-
-
-def find_directories(repo_path: Path, max_depth: int = 2) -> List[str]:
-    dirs = []
-    for d in sorted(repo_path.rglob("*")):
-        if d.is_dir() and len(d.relative_to(repo_path).parts) <= max_depth:
-            if not any(part in SKIP_DIRS for part in d.parts):
-                rel = str(d.relative_to(repo_path))
-                if rel != ".":
-                    dirs.append(rel)
-    return dirs[:30]
-
-
-def read_readme(repo_path: Path) -> str:
-    for name in ["README.md", "README.rst", "README.txt", "README"]:
-        readme = repo_path / name
-        if readme.exists():
-            lines = readme.read_text(encoding="utf-8", errors="replace").split("\n")
-            para = []
-            started = False
-            for line in lines:
-                if line.startswith("#") and not started:
-                    continue
-                if line.strip():
-                    started = True
-                    para.append(line.strip())
-                elif started:
-                    break
-            return " ".join(para[:5])
-    return "(no README found)"
-
-
-def generate_genome(repo_path: Path, repo_name: str = "") -> str:
-    if not repo_name:
-        repo_name = repo_path.name
-    date = datetime.now(timezone.utc).strftime("%Y-%m-%d")
-    readme_desc = read_readme(repo_path)
-    file_counts = count_files(repo_path)
-    total_files = sum(file_counts.values())
-    entry_points = find_entry_points(repo_path)
-    test_files, test_count = find_tests(repo_path)
-    dirs = find_directories(repo_path)
-
-    lines = [
-        f"# GENOME.md — {repo_name}", "",
-        f"> Codebase analysis generated {date}. {readme_desc[:100]}.", "",
-        "## Project Overview", "",
-        readme_desc, "",
-        f"**{total_files} files** across {len(file_counts)} file types.", "",
-        "## Architecture", "",
-        "```",
-    ]
-    for d in dirs[:20]:
-        lines.append(f"  {d}/")
-    lines.append("```")
-    lines += ["", "### File Types", "", "| Type | Count |", "|------|-------|"]
-    for ext, count in list(file_counts.items())[:15]:
-        lines.append(f"| {ext} | {count} |")
-    lines += ["", "## Entry Points", ""]
-    for ep in entry_points:
-        lines.append(f"- `{ep}`")
-    lines += ["", "## Test Coverage", "", f"**{test_count} test files** found.", ""]
-    if test_files:
-        for tf in test_files[:10]:
-            lines.append(f"- `{tf}`")
-        if len(test_files) > 10:
-            lines.append(f"- ... and {len(test_files) - 10} more")
-    else:
-        lines.append("No test files found.")
-    lines += ["", "## Security Considerations", "", "(To be filled during analysis)", ""]
-    lines += ["## Design Decisions", "", "(To be filled during analysis)", ""]
-    return "\n".join(lines)
-
-
-def main():
-    parser = argparse.ArgumentParser(description="Generate GENOME.md from a codebase")
-    parser.add_argument("repo_path", help="Path to repository")
-    parser.add_argument("--output", default="", help="Output file (default: stdout)")
-    parser.add_argument("--name", default="", help="Repository name")
-    parser.add_argument("--dry-run", action="store_true", help="Print stats only")
-    args = parser.parse_args()
-    repo_path = Path(args.repo_path).resolve()
-    if not repo_path.is_dir():
-        print(f"ERROR: {repo_path} is not a directory", file=sys.stderr)
-        sys.exit(1)
-    repo_name = args.name or repo_path.name
-    if args.dry_run:
-        counts = count_files(repo_path)
-        _, test_count = find_tests(repo_path)
-        print(f"Repo: {repo_name}")
-        print(f"Total files: {sum(counts.values())}")
-        print(f"Test files: {test_count}")
-        print(f"Top types: {', '.join(f'{k}={v}' for k,v in list(counts.items())[:5])}")
-        sys.exit(0)
-    genome = generate_genome(repo_path, repo_name)
-    if args.output:
-        with open(args.output, "w") as f:
-            f.write(genome)
-        print(f"Written: {args.output}")
-    else:
-        print(genome)
-
-
-if __name__ == "__main__":
-    main()

scripts/source_distinction.py

@@ -1,101 +0,0 @@
-#!/usr/bin/env python3
-# source_distinction.py - I think vs I know annotation system.
-# SOUL.md: "Every claim I make comes from one of two places: a verified source
-# I can point to, or my own pattern-matching."
-# Part of #793
-
-from dataclasses import dataclass, field
-from enum import Enum
-from typing import List, Optional
-
-
-class SourceType(Enum):
-    VERIFIED = "verified"
-    INFERRED = "inferred"
-    STATED = "stated"
-    UNKNOWN = "unknown"
-
-
-@dataclass
-class Claim:
-    text: str
-    source_type: SourceType
-    source_ref: str = ""
-    confidence: float = 0.0
-    hedging: str = ""
-
-
-@dataclass
-class AnnotatedResponse:
-    raw_text: str
-    claims: List[Claim] = field(default_factory=list)
-
-    def render(self):
-        if not self.claims:
-            return self.raw_text
-        parts = []
-        for claim in self.claims:
-            if claim.source_type == SourceType.VERIFIED:
-                prefix = "[verified: " + claim.source_ref + "]" if claim.source_ref else "[verified]"
-                parts.append(claim.text + " " + prefix)
-            elif claim.source_type == SourceType.INFERRED:
-                hedge = claim.hedging or "I think"
-                parts.append(hedge + " " + claim.text)
-            elif claim.source_type == SourceType.STATED:
-                parts.append(claim.text + " [you told me]")
-            else:
-                parts.append("I am not certain, but " + claim.text)
-        return " ".join(parts)
-
-    @property
-    def verified_count(self):
-        return sum(1 for c in self.claims if c.source_type == SourceType.VERIFIED)
-
-    @property
-    def inferred_count(self):
-        return sum(1 for c in self.claims if c.source_type == SourceType.INFERRED)
-
-
-def verified(text, source, confidence=0.95):
-    return Claim(text=text, source_type=SourceType.VERIFIED, source_ref=source, confidence=confidence)
-
-def inferred(text, hedging="I think", confidence=0.6):
-    return Claim(text=text, source_type=SourceType.INFERRED, confidence=confidence, hedging=hedging)
-
-def stated(text):
-    return Claim(text=text, source_type=SourceType.STATED, confidence=1.0)
-
-
-def annotate_response(raw_text, claims):
-    return AnnotatedResponse(raw_text=raw_text, claims=claims)
-
-
-def format_for_display(response):
-    lines = []
-    for claim in response.claims:
-        if claim.source_type == SourceType.VERIFIED:
-            ref = " (" + claim.source_ref + ")" if claim.source_ref else ""
-            lines.append("  = " + claim.text + ref)
-        elif claim.source_type == SourceType.INFERRED:
-            lines.append("  ~ " + claim.hedging + " " + claim.text)
-        elif claim.source_type == SourceType.STATED:
-            lines.append("  > " + claim.text)
-        else:
-            lines.append("  ? " + claim.text)
-    if response.claims:
-        v = response.verified_count
-        i = response.inferred_count
-        t = len(response.claims)
-        lines.append("")
-        lines.append("  [" + str(v) + " verified, " + str(i) + " inferred, " + str(t) + " total]")
-    return "\n".join(lines)
-
-
-def source_distinction_check(text):
-    hedging_words = ["i think", "i believe", "probably", "likely", "might",
-                     "it seems", "perhaps", "i am not sure", "i guess",
-                     "my understanding is", "i suspect"]
-    text_lower = text.lower()
-    hedging_count = sum(1 for h in hedging_words if h in text_lower)
-    return {"has_hedging": hedging_count > 0, "hedging_count": hedging_count,
-            "likely_inferred": hedging_count > 2}

templates/GENOME-template.md

@@ -1,46 +0,0 @@
-# GENOME.md — {{REPO_NAME}}
-
-> Codebase analysis generated {{DATE}}. {{SHORT_DESCRIPTION}}.
-
-## Project Overview
-
-{{OVERVIEW}}
-
-## Architecture
-
-{{ARCHITECTURE_DIAGRAM}}
-
-## Entry Points
-
-{{ENTRY_POINTS}}
-
-## Data Flow
-
-{{DATA_FLOW}}
-
-## Key Abstractions
-
-{{ABSTRACTIONS}}
-
-## API Surface
-
-{{API_SURFACE}}
-
-## Test Coverage
-
-### Existing Tests
-{{EXISTING_TESTS}}
-
-### Coverage Gaps
-{{COVERAGE_GAPS}}
-
-### Critical paths that need tests:
-{{CRITICAL_PATHS}}
-
-## Security Considerations
-
-{{SECURITY}}
-
-## Design Decisions
-
-{{DESIGN_DECISIONS}}

tests/test_audit_trail.py

@@ -1,88 +0,0 @@
-"""Tests for audit trail — SOUL.md compliance."""
-import json
-import tempfile
-from pathlib import Path
-from unittest.mock import patch
-
-import pytest
-
-
-class TestAuditTrail:
-    def test_log_and_query(self, tmp_path):
-        from scripts.audit_trail import AuditTrail
-        trail = AuditTrail(audit_dir=tmp_path)
-        
-        trail.log_response(
-            input_text="What is Python?",
-            sources=["web_search:Python is a programming language"],
-            confidence=0.9,
-            output_text="Python is a programming language.",
-            model="test-model",
-        )
-        
-        results = trail.query("Python")
-        assert len(results) == 1
-        assert results[0].confidence == 0.9
-        assert "Python" in results[0].output_text
-
-    def test_query_no_match(self, tmp_path):
-        from scripts.audit_trail import AuditTrail
-        trail = AuditTrail(audit_dir=tmp_path)
-        
-        trail.log_response(
-            input_text="What is Rust?",
-            sources=[],
-            confidence=0.8,
-            output_text="Rust is a systems language.",
-        )
-        
-        results = trail.query("Python")
-        assert len(results) == 0
-
-    def test_confidence_filter(self, tmp_path):
-        from scripts.audit_trail import AuditTrail
-        trail = AuditTrail(audit_dir=tmp_path)
-        
-        trail.log_response(input_text="test", sources=[], confidence=0.3, output_text="low conf")
-        trail.log_response(input_text="test", sources=[], confidence=0.95, output_text="high conf")
-        
-        high_only = trail.query("test", min_confidence=0.5)
-        assert len(high_only) == 1
-        assert high_only[0].confidence == 0.95
-
-    def test_stats(self, tmp_path):
-        from scripts.audit_trail import AuditTrail
-        trail = AuditTrail(audit_dir=tmp_path)
-        
-        trail.log_response(input_text="a", sources=[], confidence=0.8, output_text="b")
-        trail.log_response(input_text="c", sources=[], confidence=0.6, output_text="d")
-        
-        stats = trail.get_stats()
-        assert stats["total"] == 2
-        assert stats["avg_confidence"] == 0.7
-
-    def test_session_filter(self, tmp_path):
-        from scripts.audit_trail import AuditTrail
-        trail = AuditTrail(audit_dir=tmp_path)
-        
-        trail.log_response(input_text="a", sources=[], confidence=0.9, output_text="b", session_id="s1")
-        trail.log_response(input_text="c", sources=[], confidence=0.9, output_text="d", session_id="s2")
-        
-        s1_results = trail.get_by_session("s1")
-        assert len(s1_results) == 1
-
-    def test_empty_trail(self, tmp_path):
-        from scripts.audit_trail import AuditTrail
-        trail = AuditTrail(audit_dir=tmp_path)
-        
-        assert trail.query("anything") == []
-        assert trail.get_stats()["total"] == 0
-
-    def test_content_addressed_id(self):
-        from scripts.audit_trail import AuditEntry
-        id1 = AuditEntry.generate_id("input", "output", "2026-01-01")
-        id2 = AuditEntry.generate_id("input", "output", "2026-01-01")
-        id3 = AuditEntry.generate_id("different", "output", "2026-01-01")
-        
-        assert id1 == id2  # same content = same ID
-        assert id1 != id3  # different content = different ID

tests/test_burn_lane_issue_audit.py

@@ -1,6 +1,13 @@
 from pathlib import Path
 
-from scripts.burn_lane_issue_audit import extract_issue_numbers, render_report
+from scripts.burn_lane_issue_audit import (
+    PullSummary,
+    classify_issue,
+    collect_pull_summaries,
+    extract_issue_numbers,
+    match_prs,
+    render_report,
+)
 
 
 def test_extract_issue_numbers_handles_ranges_and_literals() -> None:
@@ -14,6 +21,99 @@ def test_extract_issue_numbers_handles_ranges_and_literals() -> None:
     assert extract_issue_numbers(body) == [579, 660, 659, 658, 582, 627, 631, 547, 546, 545]
 
 
+def test_match_prs_detects_issue_ref_in_pr_body() -> None:
+    pulls = [
+        PullSummary(
+            number=731,
+            title="docs: verify session harvest report",
+            state="open",
+            merged=False,
+            head="fix/session-harvest-report",
+            body="Refs #648",
+            url="https://forge.example/pr/731",
+        ),
+        PullSummary(
+            number=732,
+            title="unrelated",
+            state="open",
+            merged=False,
+            head="fix/unrelated",
+            body="Refs #700",
+            url="https://forge.example/pr/732",
+        ),
+    ]
+
+    assert [pr.number for pr in match_prs(648, pulls)] == [731]
+
+
+
+def test_open_issue_with_closed_unmerged_pr_stays_manual_review_with_history() -> None:
+    issue = {
+        "number": 648,
+        "title": "session harvest report",
+        "state": "open",
+        "html_url": "https://forge.example/issues/648",
+    }
+    row = classify_issue(
+        issue,
+        [
+            PullSummary(
+                number=731,
+                title="docs: add session harvest report",
+                state="closed",
+                merged=False,
+                head="fix/648",
+                body="Closes #648",
+                url="https://forge.example/pr/731",
+            )
+        ],
+    )
+
+    assert row.classification == "needs_manual_review"
+    assert row.pr_summary == "closed PR #731"
+
+
+
+def test_collect_pull_summaries_pages_until_empty(monkeypatch) -> None:
+    def fake_api_get(path: str, token: str):
+        if "state=open" in path:
+            return []
+        page = int(path.split("page=")[1])
+        if page <= 5:
+            return [
+                {
+                    "number": page * 1000 + i,
+                    "title": f"page {page} pr {i}",
+                    "state": "closed",
+                    "merged": False,
+                    "head": {"ref": f"fix/{page}-{i}"},
+                    "body": f"Refs #{page * 1000 + i}",
+                    "html_url": f"https://forge.example/pr/{page * 1000 + i}",
+                }
+                for i in range(100)
+            ]
+        if page == 6:
+            return [
+                {
+                    "number": 900,
+                    "title": "late page pr",
+                    "state": "closed",
+                    "merged": False,
+                    "head": {"ref": "fix/900"},
+                    "body": "Refs #900",
+                    "html_url": "https://forge.example/pr/900",
+                }
+            ]
+        return []
+
+    monkeypatch.setattr("scripts.burn_lane_issue_audit.api_get", fake_api_get)
+
+    pulls = collect_pull_summaries("timmy-home", "token")
+
+    assert any(pr.number == 900 for pr in pulls)
+
+
+
 def test_render_report_calls_out_drift_and_candidates() -> None:
     rows = [
         {

tests/test_source_distinction.py

@@ -1,61 +0,0 @@
-"""Tests for source distinction - SOUL.md compliance."""
-import pytest
-
-
-class TestSourceDistinction:
-    def test_verified_claim(self):
-        from scripts.source_distinction import verified, SourceType
-        claim = verified("Paris is the capital", "web_search:Paris")
-        assert claim.source_type == SourceType.VERIFIED
-        assert claim.source_ref == "web_search:Paris"
-        assert claim.confidence == 0.95
-
-    def test_inferred_claim(self):
-        from scripts.source_distinction import inferred, SourceType
-        claim = inferred("this approach is better")
-        assert claim.source_type == SourceType.INFERRED
-        assert claim.hedging == "I think"
-
-    def test_stated_claim(self):
-        from scripts.source_distinction import stated, SourceType
-        claim = stated("my name is Alexander")
-        assert claim.source_type == SourceType.STATED
-        assert claim.confidence == 1.0
-
-    def test_render_verified(self):
-        from scripts.source_distinction import annotate_response, verified
-        resp = annotate_response("test", [verified("Paris is capital", "web")])
-        rendered = resp.render()
-        assert "[verified: web]" in rendered
-
-    def test_render_inferred(self):
-        from scripts.source_distinction import annotate_response, inferred
-        resp = annotate_response("test", [ inferred("this is better")])
-        rendered = resp.render()
-        assert "I think" in rendered
-
-    def test_counts(self):
-        from scripts.source_distinction import annotate_response, verified, inferred
-        resp = annotate_response("test", [
-            verified("a", "src"), verified("b", "src"), inferred("c"),
-        ])
-        assert resp.verified_count == 2
-        assert resp.inferred_count == 1
-
-    def test_hedging_detection(self):
-        from scripts.source_distinction import source_distinction_check
-        result = source_distinction_check("I think this is probably right, but I believe it could be different")
-        assert result["has_hedging"]
-        assert result["hedging_count"] >= 3
-
-    def test_no_hedging(self):
-        from scripts.source_distinction import source_distinction_check
-        result = source_distinction_check("The capital of France is Paris.")
-        assert not result["has_hedging"]
-
-    def test_format_for_display(self):
-        from scripts.source_distinction import format_for_display, annotate_response, verified, inferred
-        resp = annotate_response("test", [verified("a", "src"), inferred("b")])
-        output = format_for_display(resp)
-        assert "=" in output  # verified icon
-        assert "~" in output  # inferred icon

tests/test_the_nexus_genome.py

@@ -0,0 +1,56 @@
+from pathlib import Path
+
+
+GENOME = Path("GENOME.md")
+
+
+def read_genome() -> str:
+    assert GENOME.exists(), "GENOME.md must exist at repo root"
+    return GENOME.read_text(encoding="utf-8")
+
+
+def test_the_nexus_genome_has_required_sections() -> None:
+    text = read_genome()
+    required = [
+        "# GENOME.md — the-nexus",
+        "## Project Overview",
+        "## Architecture Diagram",
+        "```mermaid",
+        "## Entry Points and Data Flow",
+        "## Key Abstractions",
+        "## API Surface",
+        "## Test Coverage Gaps",
+        "## Security Considerations",
+        "## Runtime Truth and Docs Drift",
+    ]
+    missing = [item for item in required if item not in text]
+    assert not missing, missing
+
+
+def test_the_nexus_genome_captures_current_runtime_contract() -> None:
+    text = read_genome()
+    required = [
+        "server.py",
+        "app.js",
+        "index.html",
+        "portals.json",
+        "vision.json",
+        "BROWSER_CONTRACT.md",
+        "tests/test_browser_smoke.py",
+        "tests/test_repo_truth.py",
+        "nexus/morrowind_harness.py",
+        "nexus/bannerlord_harness.py",
+        "mempalace/tunnel_sync.py",
+        "mcp_servers/desktop_control_server.py",
+        "public/nexus/",
+    ]
+    missing = [item for item in required if item not in text]
+    assert not missing, missing
+
+
+def test_the_nexus_genome_explains_docs_runtime_drift() -> None:
+    text = read_genome()
+    assert "README.md says current `main` does not ship a browser 3D world" in text
+    assert "CLAUDE.md declares root `app.js` and `index.html` as canonical frontend paths" in text
+    assert "tests and browser contract now assume the root frontend exists" in text
+    assert len(text) >= 5000