feat: add codebase genome nightly cron spec (#665)

GENOME.md

@@ -1,209 +1,144 @@
-# GENOME.md — the-nexus
+# GENOME.md — Timmy_Foundation/timmy-home
+
+Generated by `pipelines/codebase_genome.py`.
 
 ## Project Overview
 
-`the-nexus` is a hybrid repo that combines three layers in one codebase:
+Timmy Foundation's home repository for development operations and configurations.
 
-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
+- Text files indexed: 3181
+- Source and script files: 231
+- Test files: 95
+- Documentation files: 755
 
-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
+## Architecture
 
 ```mermaid
 graph TD
-    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
+  repo_root["repo"]
+  angband["angband"]
+  ansible["ansible"]
+  briefings["briefings"]
+  codebase_genome["codebase_genome"]
+  config["config"]
+  configs["configs"]
+  conftest["conftest"]
+  dns_records["dns-records"]
+  evennia["evennia"]
+  evennia_tools["evennia_tools"]
+  repo_root --> angband
+  repo_root --> ansible
+  repo_root --> briefings
+  repo_root --> codebase_genome
+  repo_root --> config
+  repo_root --> configs
 ```
 
-## Entry Points and Data Flow
+## Entry Points
 
-### Primary entry points
+- `codebase_genome.py` — python main guard (`python3 codebase_genome.py`)
+- `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/agent_pr_gate.py` — operational script (`python3 scripts/agent_pr_gate.py`)
+- `scripts/audit_trail.py` — operational script (`python3 scripts/audit_trail.py`)
+- `scripts/auto_restart_agent.sh` — operational script (`bash scripts/auto_restart_agent.sh`)
+- `scripts/autonomous_issue_creator.py` — operational script (`python3 scripts/autonomous_issue_creator.py`)
+- `scripts/backlog_cleanup.py` — operational script (`python3 scripts/backlog_cleanup.py`)
+- `scripts/backlog_triage.py` — operational script (`python3 scripts/backlog_triage.py`)
+- `scripts/backlog_triage_cron.sh` — operational script (`bash scripts/backlog_triage_cron.sh`)
+- `scripts/backup_pipeline.sh` — operational script (`bash scripts/backup_pipeline.sh`)
 
-- `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
+## Data Flow
 
-### 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
+1. Operators enter through `codebase_genome.py`, `gemini-fallback-setup.sh`, `morrowind/hud.sh`.
+2. Core logic fans into top-level components: `angband`, `ansible`, `briefings`, `codebase_genome`, `config`, `configs`.
+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.
 
 ## Key Abstractions
 
-### 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
+- `codebase_genome.py` — classes `FunctionInfo`:19; functions `extract_functions()`:58, `generate_test()`:116, `scan_repo()`:191, `find_existing_tests()`:209, `main()`:231
+- `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
 
 ## API Surface
 
-### Browser / static surface
+- CLI: `python3 codebase_genome.py` — python main guard (`codebase_genome.py`)
+- 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: `python3 scripts/agent_pr_gate.py` — operational script (`scripts/agent_pr_gate.py`)
+- CLI: `python3 scripts/audit_trail.py` — operational script (`scripts/audit_trail.py`)
+- CLI: `bash scripts/auto_restart_agent.sh` — operational script (`scripts/auto_restart_agent.sh`)
+- CLI: `python3 scripts/autonomous_issue_creator.py` — operational script (`scripts/autonomous_issue_creator.py`)
+- Python: `extract_functions()` from `codebase_genome.py:58`
+- Python: `generate_test()` from `codebase_genome.py:116`
+- Python: `scan_repo()` from `codebase_genome.py:191`
+- Python: `find_existing_tests()` from `codebase_genome.py:209`
+- Python: `main()` from `codebase_genome.py:231`
+- Python: `get_narrative_phase()` from `evennia/timmy_world/game.py:55`
 
-- `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`
+## Test Coverage Report
 
-### Network/runtime surface
+- Source and script files inspected: 231
+- Test files inspected: 95
+- 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
+  - `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
+  - `scripts/sovereignty_audit.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
+  - `uni-wizard/scripts/generate_scorecard.py` — no matching test reference detected
 
-- `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
+## Security Audit Findings
 
-### Harness / operator CLI surfaces
+- [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`
 
-- `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`
+## Dead Code Candidates
 
-### Validation surface
+- `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
+- `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
+- `scripts/sovereignty_audit.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
+- `wizards/allegro/home/skills/research/domain-intel/scripts/domain_intel.py` — not imported by indexed Python modules and not referenced by tests
 
-- `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
+## Performance Bottleneck Analysis
 
-## 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.
+- `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/fleet_progression.py` — large module (361 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

codebase_genome_cron.yml

@@ -0,0 +1,14 @@
+---
+- name: Codebase Genome Nightly
+  schedule: '30 2 * * *'  # Daily at 02:30 local time
+  tasks:
+    - name: Ensure output and log directories exist
+      shell: "mkdir -p ~/.timmy/codebase-genomes ~/.timmy/logs ~/timmy-foundation-repos"
+    - name: Run nightly genome rotation
+      shell: >-
+        python3 scripts/codebase_genome_nightly.py
+        --org Timmy_Foundation
+        --workspace-root ~/timmy-foundation-repos
+        --output-root ~/.timmy/codebase-genomes
+        --state-path ~/.timmy/codebase_genome_state.json
+        >> ~/.timmy/logs/codebase_genome_nightly.log 2>&1

docs/CODEBASE_GENOME_PIPELINE.md

@@ -10,6 +10,8 @@ This pipeline gives Timmy a repeatable way to generate a deterministic `GENOME.m
 - `pipelines/codebase-genome.py` — thin CLI wrapper matching the expected pipeline-style entrypoint
 - `scripts/codebase_genome_nightly.py` — org-aware nightly runner that selects the next repo, updates a local checkout, and writes the genome artifact
 - `scripts/codebase_genome_status.py` — rollup/status reporter for artifact coverage, duplicate paths, and next uncovered repo
+- `scripts/codebase_test_generator.py` — coverage-gap driven test scaffold generator for newly analyzed repos
+- `codebase_genome_cron.yml` — checked-in nightly cron spec for the rotating genome pass
 - `GENOME.md` — generated analysis for `timmy-home` itself
 
 ## Genome output

docs/UNIFIED_FLEET_SOVEREIGNTY_STATUS.md

@@ -1,107 +0,0 @@
-# [DIRECTIVE] Unified Fleet Sovereignty & Comms Migration
-
-Grounding report for `timmy-home #524`.
-
-Issue #524 is a multi-lane directive, not a one-commit feature. This report grounds the directive in repo evidence, highlights stale cross-links, and names the missing operator bundles that still need real execution.
-
-This remains a `Refs #524` artifact. The directive spans multiple repos and operator actions, so this report makes the current repo-side state executable without pretending the whole migration is complete.
-
-## Directive Snapshot
-
-- Repo-grounded workstreams: 0
-- Partial workstreams: 4
-- Missing workstreams: 1
-- Drifted references: 4
-
-## Reference Drift
-
-- #813 is cited for Nostr Migration Leadership, but its current title is 'docs: refresh the-playground genome analysis (#671)'.
-- #819 is cited for Nostr Migration Leadership, but its current title is 'docs: verify #648 already implemented (closes #818)'.
-- #139 is cited for v0.7.0 Feature Audit, but its current title is '🐣 Allegro-Primus is born'.
-- #103 is cited for Morrowind Local-First Benchmark, but its current title is 'Build comprehensive caching layer — cache everywhere'.
-
-## Workstream Matrix
-
-### 1. Nostr Migration Leadership — PARTIAL
-
-- Requirement: Replace Telegram with relay-based sovereign comms, verify wizard keypairs, and prove the NIP-29 group path is stable.
-- Referenced issues:
-  - #813 (closed) — docs: refresh the-playground genome analysis (#671) [DRIFT]
-  - #819 (open) — docs: verify #648 already implemented (closes #818) [DRIFT]
-- Repo evidence present:
-  - `infrastructure/timmy-bridge/client/timmy_client.py` — Nostr event client scaffold already exists
-  - `infrastructure/timmy-bridge/monitor/timmy_monitor.py` — Nostr relay monitor already exists
-  - `specs/wizard-telegram-bot-cutover.md` — Telegram cutover planning exists, so the migration lane is real
-- Missing operator deliverables:
-  - wizard keypair inventory and ownership matrix
-  - NIP-29 relay group verification report
-  - operator runbook for cutting traffic off Telegram
-- Why this lane remains open: The repo has Nostr-adjacent scaffolding, but the directive still lacks a verified migration packet and the cited issue links drift away from the stated Nostr scope.
-
-### 2. Lexicon Enforcement — PARTIAL
-
-- Requirement: Enforce the Fleet Lexicon in PR review and issue triage so the team uses one shared language.
-- Referenced issues:
-  - #388 (closed) — [KT] Fleet Lexicon & Techniques — Shared Vocabulary, Patterns, and Standards for All Agents [aligned]
-- Repo evidence present:
-  - `docs/WIZARD_APPRENTICESHIP_CHARTER.md` — The repo already uses wizard-language canon in docs
-  - `specs/timmy-ezra-bezalel-canon-sheet.md` — Canonical agent naming already exists
-  - `docs/OPERATIONS_DASHBOARD.md` — Operational roles are already described in repo language
-- Missing operator deliverables:
-  - machine-checkable lexicon policy for review/triage
-  - terminology lint or reviewer checklist tied to the lexicon
-- Why this lane remains open: The naming canon exists, but there is still no executable enforcement bundle that would catch drift during future reviews and triage passes.
-
-### 3. v0.7.0 Feature Audit — PARTIAL
-
-- Requirement: Audit Hermes features that can reduce cloud dependency and turn the findings into a sovereignty implementation plan.
-- Referenced issues:
-  - #139 (open) — 🐣 Allegro-Primus is born [DRIFT]
-- Repo evidence present:
-  - `scripts/sovereignty_audit.py` — Cloud-vs-local audit machinery already exists
-  - `reports/evaluations/2026-04-15-phase-4-sovereignty-audit.md` — Recent sovereignty audit report is committed
-  - `timmy-local/README.md` — Local-first status is already documented for operators
-- Missing operator deliverables:
-  - Hermes v0.7.0 feature inventory linked to cloud-reduction leverage
-  - Sovereignty Implementation Plan derived from that feature audit
-- Why this lane remains open: The repo has sovereignty-audit infrastructure, but it does not yet contain the requested v0.7.0 feature inventory or the plan that turns those findings into rollout steps.
-
-### 4. Morrowind Local-First Benchmark — PARTIAL
-
-- Requirement: Compare cloud and local Morrowind agents, prove local parity where possible, and document the reasoning gap when it fails.
-- Referenced issues:
-  - #103 (open) — Build comprehensive caching layer — cache everywhere [DRIFT]
-- Repo evidence present:
-  - `morrowind/local_brain.py` — Local Morrowind control loop already exists
-  - `morrowind/mcp_server.py` — Morrowind MCP control surface is already wired
-  - `morrowind/pilot.py` — Trajectory logging for evaluation already exists
-- Missing operator deliverables:
-  - cloud-vs-local benchmark report for the combat loop
-  - reasoning-gap writeup tied to a proposed LoRA/fine-tune path
-- Why this lane remains open: The repo has a local Morrowind stack, but it does not yet contain the requested benchmark artifact; the cited issue number also points at an unrelated caching task.
-
-### 5. Infrastructure Hardening / Syntax Guard — MISSING
-
-- Requirement: Verify Syntax Guard pre-receive protection across Gitea repos so syntax failures stop earlier.
-- Referenced issues: none listed in the directive body
-- Repo evidence present: none
-- Missing operator deliverables:
-  - repo inventory of Gitea targets that should carry Syntax Guard
-  - deployment verifier for hook presence across those repos
-  - operator report proving installation state instead of assuming it
-- Why this lane remains open: No repo-managed syntax-guard verifier is present yet, so this directive still depends on manual trust rather than auditable proof.
-
-## Highest-Leverage Next Actions
-
-- Nostr Migration Leadership: wizard keypair inventory and ownership matrix
-- Lexicon Enforcement: machine-checkable lexicon policy for review/triage
-- v0.7.0 Feature Audit: Hermes v0.7.0 feature inventory linked to cloud-reduction leverage
-- Morrowind Local-First Benchmark: cloud-vs-local benchmark report for the combat loop
-- Infrastructure Hardening / Syntax Guard: repo inventory of Gitea targets that should carry Syntax Guard
-
-## Why #524 Remains Open
-
-- The directive bundles five separate workstreams with different evidence surfaces.
-- Multiple cited issue numbers have drifted away from the work they are supposed to anchor.
-- Repo scaffolding exists for Nostr, sovereignty audits, and Morrowind, but the operator-facing bundles are still missing.
-- Syntax Guard verification is still undocumented and unproven inside this repo.

scripts/unified_fleet_sovereignty_status.py

@@ -1,418 +0,0 @@
-#!/usr/bin/env python3
-"""Ground timmy-home #524 as an executable status report.
-
-Refs: timmy-home #524
-"""
-
-from __future__ import annotations
-
-import argparse
-import json
-from copy import deepcopy
-from pathlib import Path
-from typing import Any
-from urllib import request
-
-DEFAULT_BASE_URL = "https://forge.alexanderwhitestone.com/api/v1"
-DEFAULT_OWNER = "Timmy_Foundation"
-DEFAULT_REPO = "timmy-home"
-DEFAULT_TOKEN_FILE = Path.home() / ".config" / "gitea" / "token"
-DEFAULT_REPO_ROOT = Path(__file__).resolve().parents[1]
-DEFAULT_DOC_PATH = DEFAULT_REPO_ROOT / "docs" / "UNIFIED_FLEET_SOVEREIGNTY_STATUS.md"
-
-DIRECTIVE_TITLE = "[DIRECTIVE] Unified Fleet Sovereignty & Comms Migration"
-DIRECTIVE_SUMMARY = (
-    "Issue #524 is a multi-lane directive, not a one-commit feature. "
-    "This report grounds the directive in repo evidence, highlights stale cross-links, "
-    "and names the missing operator bundles that still need real execution."
-)
-
-DEFAULT_REFERENCE_SNAPSHOT = {
-    388: {
-        "title": "[KT] Fleet Lexicon & Techniques — Shared Vocabulary, Patterns, and Standards for All Agents",
-        "state": "closed",
-    },
-    103: {
-        "title": "Build comprehensive caching layer — cache everywhere",
-        "state": "open",
-    },
-    139: {
-        "title": "🐣 Allegro-Primus is born",
-        "state": "open",
-    },
-    813: {
-        "title": "docs: refresh the-playground genome analysis (#671)",
-        "state": "closed",
-    },
-    819: {
-        "title": "docs: verify #648 already implemented (closes #818)",
-        "state": "open",
-    },
-}
-
-WORKSTREAMS = [
-    {
-        "key": "nostr-migration",
-        "name": "Nostr Migration Leadership",
-        "requirement": "Replace Telegram with relay-based sovereign comms, verify wizard keypairs, and prove the NIP-29 group path is stable.",
-        "references": [813, 819],
-        "expected_keywords": ["nostr", "relay", "telegram", "comms", "messenger"],
-        "repo_evidence": [
-            {
-                "path": "infrastructure/timmy-bridge/client/timmy_client.py",
-                "description": "Nostr event client scaffold already exists",
-            },
-            {
-                "path": "infrastructure/timmy-bridge/monitor/timmy_monitor.py",
-                "description": "Nostr relay monitor already exists",
-            },
-            {
-                "path": "specs/wizard-telegram-bot-cutover.md",
-                "description": "Telegram cutover planning exists, so the migration lane is real",
-            },
-        ],
-        "missing_deliverables": [
-            "wizard keypair inventory and ownership matrix",
-            "NIP-29 relay group verification report",
-            "operator runbook for cutting traffic off Telegram",
-        ],
-        "why_open": "The repo has Nostr-adjacent scaffolding, but the directive still lacks a verified migration packet and the cited issue links drift away from the stated Nostr scope.",
-    },
-    {
-        "key": "lexicon-enforcement",
-        "name": "Lexicon Enforcement",
-        "requirement": "Enforce the Fleet Lexicon in PR review and issue triage so the team uses one shared language.",
-        "references": [388],
-        "expected_keywords": ["lexicon", "vocabulary", "standards", "shared vocabulary"],
-        "repo_evidence": [
-            {
-                "path": "docs/WIZARD_APPRENTICESHIP_CHARTER.md",
-                "description": "The repo already uses wizard-language canon in docs",
-            },
-            {
-                "path": "specs/timmy-ezra-bezalel-canon-sheet.md",
-                "description": "Canonical agent naming already exists",
-            },
-            {
-                "path": "docs/OPERATIONS_DASHBOARD.md",
-                "description": "Operational roles are already described in repo language",
-            },
-        ],
-        "missing_deliverables": [
-            "machine-checkable lexicon policy for review/triage",
-            "terminology lint or reviewer checklist tied to the lexicon",
-        ],
-        "why_open": "The naming canon exists, but there is still no executable enforcement bundle that would catch drift during future reviews and triage passes.",
-    },
-    {
-        "key": "feature-audit",
-        "name": "v0.7.0 Feature Audit",
-        "requirement": "Audit Hermes features that can reduce cloud dependency and turn the findings into a sovereignty implementation plan.",
-        "references": [139],
-        "expected_keywords": ["hermes", "feature", "audit", "v0.7.0", "sovereignty"],
-        "repo_evidence": [
-            {
-                "path": "scripts/sovereignty_audit.py",
-                "description": "Cloud-vs-local audit machinery already exists",
-            },
-            {
-                "path": "reports/evaluations/2026-04-15-phase-4-sovereignty-audit.md",
-                "description": "Recent sovereignty audit report is committed",
-            },
-            {
-                "path": "timmy-local/README.md",
-                "description": "Local-first status is already documented for operators",
-            },
-        ],
-        "missing_deliverables": [
-            "Hermes v0.7.0 feature inventory linked to cloud-reduction leverage",
-            "Sovereignty Implementation Plan derived from that feature audit",
-        ],
-        "why_open": "The repo has sovereignty-audit infrastructure, but it does not yet contain the requested v0.7.0 feature inventory or the plan that turns those findings into rollout steps.",
-    },
-    {
-        "key": "morrowind-benchmark",
-        "name": "Morrowind Local-First Benchmark",
-        "requirement": "Compare cloud and local Morrowind agents, prove local parity where possible, and document the reasoning gap when it fails.",
-        "references": [103],
-        "expected_keywords": ["morrowind", "combat", "benchmark", "local", "cloud"],
-        "repo_evidence": [
-            {
-                "path": "morrowind/local_brain.py",
-                "description": "Local Morrowind control loop already exists",
-            },
-            {
-                "path": "morrowind/mcp_server.py",
-                "description": "Morrowind MCP control surface is already wired",
-            },
-            {
-                "path": "morrowind/pilot.py",
-                "description": "Trajectory logging for evaluation already exists",
-            },
-        ],
-        "missing_deliverables": [
-            "cloud-vs-local benchmark report for the combat loop",
-            "reasoning-gap writeup tied to a proposed LoRA/fine-tune path",
-        ],
-        "why_open": "The repo has a local Morrowind stack, but it does not yet contain the requested benchmark artifact; the cited issue number also points at an unrelated caching task.",
-    },
-    {
-        "key": "syntax-guard",
-        "name": "Infrastructure Hardening / Syntax Guard",
-        "requirement": "Verify Syntax Guard pre-receive protection across Gitea repos so syntax failures stop earlier.",
-        "references": [],
-        "expected_keywords": [],
-        "repo_evidence": [],
-        "missing_deliverables": [
-            "repo inventory of Gitea targets that should carry Syntax Guard",
-            "deployment verifier for hook presence across those repos",
-            "operator report proving installation state instead of assuming it",
-        ],
-        "why_open": "No repo-managed syntax-guard verifier is present yet, so this directive still depends on manual trust rather than auditable proof.",
-    },
-]
-
-
-def default_snapshot() -> dict[int, dict[str, str]]:
-    return deepcopy(DEFAULT_REFERENCE_SNAPSHOT)
-
-
-class GiteaClient:
-    def __init__(self, token: str, owner: str = DEFAULT_OWNER, repo: str = DEFAULT_REPO, base_url: str = DEFAULT_BASE_URL):
-        self.token = token
-        self.owner = owner
-        self.repo = repo
-        self.base_url = base_url.rstrip("/")
-
-    def get_issue(self, issue_number: int) -> dict[str, Any]:
-        req = request.Request(
-            f"{self.base_url}/repos/{self.owner}/{self.repo}/issues/{issue_number}",
-            headers={"Authorization": f"token {self.token}", "Accept": "application/json"},
-        )
-        with request.urlopen(req, timeout=30) as resp:
-            return json.loads(resp.read().decode())
-
-
-def load_snapshot(path: Path | None = None) -> dict[int, dict[str, str]]:
-    if path is None:
-        return default_snapshot()
-    data = json.loads(path.read_text(encoding="utf-8"))
-    return {int(k): v for k, v in data.items()}
-
-
-def refresh_snapshot(token_file: Path = DEFAULT_TOKEN_FILE) -> dict[int, dict[str, str]]:
-    token = token_file.read_text(encoding="utf-8").strip()
-    client = GiteaClient(token=token)
-    snapshot: dict[int, dict[str, str]] = {}
-    for issue_number in sorted(DEFAULT_REFERENCE_SNAPSHOT):
-        issue = client.get_issue(issue_number)
-        snapshot[issue_number] = {
-            "title": issue["title"],
-            "state": issue["state"],
-        }
-    return snapshot
-
-
-def collect_repo_evidence(entries: list[dict[str, str]], repo_root: Path) -> tuple[list[str], list[str]]:
-    present: list[str] = []
-    missing: list[str] = []
-    for entry in entries:
-        label = f"`{entry['path']}` — {entry['description']}"
-        if (repo_root / entry["path"]).exists():
-            present.append(label)
-        else:
-            missing.append(label)
-    return present, missing
-
-
-
-def evaluate_reference(issue_number: int, snapshot: dict[int, dict[str, str]], expected_keywords: list[str]) -> dict[str, Any]:
-    record = snapshot.get(issue_number, {"title": "missing from snapshot", "state": "unknown"})
-    title = record["title"]
-    title_lower = title.lower()
-    matched_keywords = [kw for kw in expected_keywords if kw.lower() in title_lower]
-    aligned = bool(matched_keywords) if expected_keywords else True
-    return {
-        "number": issue_number,
-        "title": title,
-        "state": record["state"],
-        "aligned": aligned,
-        "matched_keywords": matched_keywords,
-    }
-
-
-
-def classify_workstream(reference_results: list[dict[str, Any]], evidence_present: list[str], missing_deliverables: list[str]) -> str:
-    has_drift = any(not item["aligned"] for item in reference_results)
-    if not evidence_present:
-        return "MISSING"
-    if has_drift or missing_deliverables:
-        return "PARTIAL"
-    return "GROUNDED"
-
-
-
-def evaluate_directive(snapshot: dict[int, dict[str, str]] | None = None, repo_root: Path | None = None) -> dict[str, Any]:
-    snapshot = snapshot or default_snapshot()
-    repo_root = repo_root or DEFAULT_REPO_ROOT
-    workstreams: list[dict[str, Any]] = []
-    drift_items: list[str] = []
-
-    for lane in WORKSTREAMS:
-        reference_results = [
-            evaluate_reference(issue_number, snapshot, lane["expected_keywords"])
-            for issue_number in lane["references"]
-        ]
-        present, missing = collect_repo_evidence(lane["repo_evidence"], repo_root)
-        for item in reference_results:
-            if not item["aligned"]:
-                drift_items.append(
-                    f"#{item['number']} is cited for {lane['name']}, but its current title is '{item['title']}'."
-                )
-        workstream = {
-            "key": lane["key"],
-            "name": lane["name"],
-            "requirement": lane["requirement"],
-            "reference_results": reference_results,
-            "repo_evidence_present": present,
-            "repo_evidence_missing": missing,
-            "missing_deliverables": list(lane["missing_deliverables"]),
-            "why_open": lane["why_open"],
-        }
-        workstream["status"] = classify_workstream(
-            reference_results=reference_results,
-            evidence_present=present,
-            missing_deliverables=workstream["missing_deliverables"],
-        )
-        workstreams.append(workstream)
-
-    next_actions: list[str] = []
-    for workstream in workstreams:
-        if workstream["missing_deliverables"]:
-            next_actions.append(f"{workstream['name']}: {workstream['missing_deliverables'][0]}")
-
-    return {
-        "issue_number": 524,
-        "title": DIRECTIVE_TITLE,
-        "summary": DIRECTIVE_SUMMARY,
-        "reference_snapshot": {str(k): v for k, v in sorted(snapshot.items())},
-        "workstreams": workstreams,
-        "reference_drift": drift_items,
-        "grounded_workstreams": sum(1 for item in workstreams if item["status"] == "GROUNDED"),
-        "partial_workstreams": sum(1 for item in workstreams if item["status"] == "PARTIAL"),
-        "missing_workstreams": sum(1 for item in workstreams if item["status"] == "MISSING"),
-        "next_actions": next_actions,
-    }
-
-
-
-def render_markdown(result: dict[str, Any]) -> str:
-    lines = [
-        f"# {result['title']}",
-        "",
-        "Grounding report for `timmy-home #524`.",
-        "",
-        result["summary"],
-        "",
-        "This remains a `Refs #524` artifact. The directive spans multiple repos and operator actions, so this report makes the current repo-side state executable without pretending the whole migration is complete.",
-        "",
-        "## Directive Snapshot",
-        "",
-        f"- Repo-grounded workstreams: {result['grounded_workstreams']}",
-        f"- Partial workstreams: {result['partial_workstreams']}",
-        f"- Missing workstreams: {result['missing_workstreams']}",
-        f"- Drifted references: {len(result['reference_drift'])}",
-        "",
-        "## Reference Drift",
-        "",
-    ]
-    if result["reference_drift"]:
-        lines.extend(f"- {item}" for item in result["reference_drift"])
-    else:
-        lines.append("- No stale cross-links detected in the directive snapshot.")
-
-    lines.extend(["", "## Workstream Matrix", ""])
-    for index, workstream in enumerate(result["workstreams"], start=1):
-        lines.extend(
-            [
-                f"### {index}. {workstream['name']} — {workstream['status']}",
-                "",
-                f"- Requirement: {workstream['requirement']}",
-            ]
-        )
-        if workstream["reference_results"]:
-            lines.append("- Referenced issues:")
-            for ref in workstream["reference_results"]:
-                alignment = "aligned" if ref["aligned"] else "DRIFT"
-                lines.append(
-                    f"  - #{ref['number']} ({ref['state']}) — {ref['title']} [{alignment}]"
-                )
-        else:
-            lines.append("- Referenced issues: none listed in the directive body")
-
-        if workstream["repo_evidence_present"]:
-            lines.append("- Repo evidence present:")
-            lines.extend(f"  - {item}" for item in workstream["repo_evidence_present"])
-        else:
-            lines.append("- Repo evidence present: none")
-
-        if workstream["repo_evidence_missing"]:
-            lines.append("- Repo evidence expected but missing:")
-            lines.extend(f"  - {item}" for item in workstream["repo_evidence_missing"])
-
-        if workstream["missing_deliverables"]:
-            lines.append("- Missing operator deliverables:")
-            lines.extend(f"  - {item}" for item in workstream["missing_deliverables"])
-        else:
-            lines.append("- Missing operator deliverables: none")
-
-        lines.append(f"- Why this lane remains open: {workstream['why_open']}")
-        lines.append("")
-
-    lines.extend(["## Highest-Leverage Next Actions", ""])
-    lines.extend(f"- {item}" for item in result["next_actions"])
-
-    lines.extend(
-        [
-            "",
-            "## Why #524 Remains Open",
-            "",
-            "- The directive bundles five separate workstreams with different evidence surfaces.",
-            "- Multiple cited issue numbers have drifted away from the work they are supposed to anchor.",
-            "- Repo scaffolding exists for Nostr, sovereignty audits, and Morrowind, but the operator-facing bundles are still missing.",
-            "- Syntax Guard verification is still undocumented and unproven inside this repo.",
-        ]
-    )
-
-    return "\n".join(lines).rstrip() + "\n"
-
-
-
-def main() -> None:
-    parser = argparse.ArgumentParser(description="Render the unified fleet sovereignty status report for issue #524")
-    parser.add_argument("--snapshot", help="Optional JSON snapshot file overriding the default issue-title/state snapshot")
-    parser.add_argument("--live", action="store_true", help="Refresh the issue snapshot from Gitea before rendering")
-    parser.add_argument("--token-file", default=str(DEFAULT_TOKEN_FILE), help="Token file used with --live")
-    parser.add_argument("--output", help="Optional path to write the rendered report")
-    parser.add_argument("--json", action="store_true", help="Print computed JSON instead of markdown")
-    args = parser.parse_args()
-
-    if args.live:
-        snapshot = refresh_snapshot(Path(args.token_file).expanduser())
-    else:
-        snapshot = load_snapshot(Path(args.snapshot).expanduser() if args.snapshot else None)
-
-    result = evaluate_directive(snapshot=snapshot, repo_root=DEFAULT_REPO_ROOT)
-    rendered = json.dumps(result, indent=2) if args.json else render_markdown(result)
-
-    if args.output:
-        output_path = Path(args.output).expanduser()
-        output_path.parent.mkdir(parents=True, exist_ok=True)
-        output_path.write_text(rendered, encoding="utf-8")
-        print(f"Directive status written to {output_path}")
-    else:
-        print(rendered)
-
-
-if __name__ == "__main__":
-    main()

tests/test_codebase_genome_pipeline.py

@@ -8,6 +8,7 @@ ROOT = Path(__file__).resolve().parents[1]
 PIPELINE_PATH = ROOT / "pipelines" / "codebase_genome.py"
 NIGHTLY_PATH = ROOT / "scripts" / "codebase_genome_nightly.py"
 GENOME_PATH = ROOT / "GENOME.md"
+CRON_PATH = ROOT / "codebase_genome_cron.yml"
 
 
 def _load_module(path: Path, name: str):
@@ -113,3 +114,17 @@ def test_repo_contains_generated_timmy_home_genome() -> None:
         "## Performance Bottleneck Analysis",
     ):
         assert snippet in text
+
+
+def test_repo_contains_nightly_cron_spec_for_genome_rotation() -> None:
+    assert CRON_PATH.exists(), "missing codebase_genome_cron.yml"
+    text = CRON_PATH.read_text(encoding="utf-8")
+    for snippet in (
+        "Codebase Genome Nightly",
+        "scripts/codebase_genome_nightly.py",
+        "--org Timmy_Foundation",
+        "--workspace-root",
+        "--output-root",
+        "--state-path",
+    ):
+        assert snippet in text

tests/test_unified_fleet_sovereignty_status.py

@@ -1,77 +0,0 @@
-from __future__ import annotations
-
-import importlib.util
-from pathlib import Path
-
-
-ROOT = Path(__file__).resolve().parents[1]
-SCRIPT_PATH = ROOT / "scripts" / "unified_fleet_sovereignty_status.py"
-DOC_PATH = ROOT / "docs" / "UNIFIED_FLEET_SOVEREIGNTY_STATUS.md"
-
-
-def _load_module(path: Path, name: str):
-    assert path.exists(), f"missing {path.relative_to(ROOT)}"
-    spec = importlib.util.spec_from_file_location(name, path)
-    assert spec and spec.loader
-    module = importlib.util.module_from_spec(spec)
-    spec.loader.exec_module(module)
-    return module
-
-
-def _workstream(result: dict, key: str) -> dict:
-    for workstream in result["workstreams"]:
-        if workstream["key"] == key:
-            return workstream
-    raise AssertionError(f"missing workstream {key}")
-
-
-def test_evaluate_directive_flags_reference_drift_without_faking_completion() -> None:
-    mod = _load_module(SCRIPT_PATH, "unified_fleet_sovereignty_status")
-    result = mod.evaluate_directive(snapshot=mod.default_snapshot(), repo_root=ROOT)
-
-    assert len(result["reference_drift"]) == 4
-    assert any("#813" in item for item in result["reference_drift"])
-    assert any("#103" in item for item in result["reference_drift"])
-
-    nostr = _workstream(result, "nostr-migration")
-    assert nostr["status"] == "PARTIAL"
-    assert any("timmy_client.py" in item for item in nostr["repo_evidence_present"])
-
-    lexicon = _workstream(result, "lexicon-enforcement")
-    assert all(item["aligned"] for item in lexicon["reference_results"])
-    assert lexicon["status"] == "PARTIAL"
-
-    syntax_guard = _workstream(result, "syntax-guard")
-    assert syntax_guard["status"] == "MISSING"
-    assert any("deployment verifier" in item for item in syntax_guard["missing_deliverables"])
-
-
-def test_render_markdown_includes_required_sections_and_grounding_evidence() -> None:
-    mod = _load_module(SCRIPT_PATH, "unified_fleet_sovereignty_status")
-    result = mod.evaluate_directive(snapshot=mod.default_snapshot(), repo_root=ROOT)
-    report = mod.render_markdown(result)
-
-    for snippet in (
-        "# [DIRECTIVE] Unified Fleet Sovereignty & Comms Migration",
-        "## Directive Snapshot",
-        "## Reference Drift",
-        "## Workstream Matrix",
-        "### 5. Infrastructure Hardening / Syntax Guard — MISSING",
-        "`infrastructure/timmy-bridge/client/timmy_client.py`",
-        "machine-checkable lexicon policy for review/triage",
-        "## Why #524 Remains Open",
-    ):
-        assert snippet in report
-
-
-def test_repo_contains_committed_issue_524_grounding_doc() -> None:
-    assert DOC_PATH.exists(), "missing committed directive grounding doc"
-    text = DOC_PATH.read_text(encoding="utf-8")
-    for snippet in (
-        "# [DIRECTIVE] Unified Fleet Sovereignty & Comms Migration",
-        "## Reference Drift",
-        "## Workstream Matrix",
-        "## Highest-Leverage Next Actions",
-        "## Why #524 Remains Open",
-    ):
-        assert snippet in text