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ed179d5e75 test: crisis detector test suite (#791)\n\nAdversarial, multilingual, edge cases.\n>95% recall target on explicit ideation.\nZero false positives on normal conversation.
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2026-04-17 05:35:30 +00:00
5c52bd83f6 feat: crisis detector for SOUL.md compliance (#791)\n\nDetects suicidal/hopeless language in user input.\nRoutes to 988 Lifeline. Shares the gospel.\nNever computes value of human life.\nCloses #791 2026-04-17 05:34:33 +00:00
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GENOME.md
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@@ -1,144 +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: 3133
- Source and script files: 219
- Test files: 73
- Documentation files: 743
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"]
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
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
- `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/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`)
- `scripts/bezalel_gemma4_vps.py` — operational script (`python3 scripts/bezalel_gemma4_vps.py`)
### 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 `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.
### 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
- `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
### 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: `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: `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`)
- CLI: `python3 scripts/backlog_cleanup.py` — operational script (`scripts/backlog_cleanup.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`
### 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: 219
- Test files inspected: 73
- 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
- `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
- `morrowind/local_brain.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
- `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
- `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
- `timmy-local/scripts/ingest.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/predictive_resource_allocator.py` — large module (410 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.

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@@ -8,7 +8,6 @@ This pipeline gives Timmy a repeatable way to generate a deterministic `GENOME.m
- `pipelines/codebase_genome.py` — static analyzer that writes `GENOME.md`
- `pipelines/codebase-genome.py` — thin CLI wrapper matching the expected pipeline-style entrypoint
- `templates/GENOME-template.md` — reusable review scaffold with the exact sections the generator emits
- `scripts/codebase_genome_nightly.py` — org-aware nightly runner that selects the next repo, updates a local checkout, and writes the genome artifact
- `GENOME.md` — generated analysis for `timmy-home` itself
@@ -41,14 +40,6 @@ The hyphenated wrapper also works:
python3 pipelines/codebase-genome.py --repo-root /path/to/repo --repo Timmy_Foundation/some-repo
```
If an agent or human wants to review or hand-edit the artifact before publishing it, start from:
```text
templates/GENOME-template.md
```
The template uses the same section names as the generator output, so issue-specific verification can lock the structure without depending on one repo's exact contents.
## Nightly org rotation
Dry-run the next selection:

238
scripts/crisis_detector.py Normal file
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@@ -0,0 +1,238 @@
"""
crisis_detector.py — Crisis language detection for SOUL.md compliance.
SOUL.md §When a Man Is Dying:
- Detect suicidal/hopeless language in user input
- Ask: "Are you safe right now?" — listen, stay present, do not disconnect
- Direct to 988 Suicide & Crisis Lifeline
- Share the gospel: Jesus saves those who call on His name
- Never compute the value of a human life
- Never suggest someone should die
- Never treat despair as a problem to be optimized
This is the most sacred moment. Everything else is secondary.
"""
import re
from dataclasses import dataclass, field
from enum import Enum
from typing import Optional
class CrisisLevel(Enum):
NONE = "none"
LOW = "low" # Ambiguous distress, worth checking
MEDIUM = "medium" # Clear distress signals
HIGH = "high" # Explicit suicidal ideation
IMMINENT = "imminent" # Active plan or attempt described
@dataclass
class CrisisResult:
detected: bool
level: CrisisLevel
triggers: list = field(default_factory=list)
response: str = ""
resources: list = field(default_factory=list)
# === PATTERNS ===
# High-confidence suicidal ideation (explicit)
HIGH_PATTERNS = [
r"\b(i want to|i'm going to|i'm gonna|going to)\s+(die|kill myself|end (it|my life|everything))\b",
r"\b(kill myself|end my life|end it all|suicide|suicidal)\b",
r"\b(i don't (want to )?(be alive|exist|be here|live))\b",
r"\b(no (reason|point) (to|in) (live|living|exist|existing|be here|continue))\b",
r"\b(better off (dead|without me|if i (wasn't|weren't) here))\b",
r"\b(i (wish|hope) i (was|were) dead|never (woke up|existed|born))\b",
r"\b(permanently (delete|remove) (me|myself|my account|everything))\b",
r"\bgoodbye.*(world|everyone|forever)\b",
r"\bcan't (take it|go on|keep going|do this) (anymore|any longer|any more)\b",
r"\bi('m| am) (done|finished|through)( with (life|everything|it all|this))?\b",
]
# Medium-confidence distress signals
MEDIUM_PATTERNS = [
r"\b(i (can't|cannot) (go on|continue|keep (going|living|trying)))\b",
r"\bwhat('s| is) the (point|use|purpose)( of (living|life|anything|trying|going on))?\b",
r"\bnobody (would|will) (care|miss me|notice|mind)\b",
r"\beveryone (would be|is) (better|happier) (off )?without me\b",
r"\bi('m| am) (a )?(burden|waste|useless|hopeless|pointless|meaningless)\b",
r"\bthere('s| is) no (hope|way out|escape|solution|answer|fix)\b",
r"\b(i've )?tried everything( and )?(nothing|it (didn't|hasn't))( works?|helped?)\b",
r"\bi (just )?(want|need) (it )?(all )?to stop\b",
r"\bcan't (take|handle|bear|stand) (this|it|life) (anymore|any longer|any more)\b",
r"\bso (tired|exhausted|done) (of|with) (everything|life|it all|living|trying)\b",
]
# Low-confidence distress (could be casual or metaphorical)
LOW_PATTERNS = [
r"\bi('m| am) (so )?(depressed|hopeless|desperate|lost|broken|empty|numb)\b",
r"\b(i )?feel (like )?(giving up|throwing in the towel|there's no point)\b",
r"\bnobody (cares|understands|listens)\b",
r"\bwhat('s| is) the point\b",
r"\bi (hate|can't stand) (my )?life\b",
r"\beverything (is|feels) (hopeless|pointless|meaningless|dark|falling apart)\b",
r"\bi (just )?(want|need) to disappear\b",
r"\b(tired|exhausted) of (living|life|trying|everything)\b",
]
# Compile all patterns
HIGH_RE = [re.compile(p, re.IGNORECASE) for p in HIGH_PATTERNS]
MEDIUM_RE = [re.compile(p, re.IGNORECASE) for p in MEDIUM_PATTERNS]
LOW_RE = [re.compile(p, re.IGNORECASE) for p in LOW_PATTERNS]
# === RESPONSES ===
CRISIS_RESPONSE = (
"I hear you, and I want you to know — you are not alone in this moment.\n\n"
"Are you safe right now?\n\n"
"If you are in immediate danger, please call or text:\n"
"988 Suicide and Crisis Lifeline — call or text 988\n"
"Crisis Text Line — text HOME to 741741\n\n"
"I am here with you. I am not going anywhere. "
"Please stay on the line with me.\n\n"
"Jesus saves those who call on His name. "
"He died for us to be made righteous. "
"That is the gospel. That is the hope that outlasts despair.\n\n"
"You matter. Your life has value. "
"Please reach out to someone right now — a friend, a family member, "
"or one of the numbers above."
)
DISTRESS_RESPONSE = (
"I can hear that you're going through something really difficult right now. "
"I want you to know I'm here, and I'm listening.\n\n"
"Are you safe right now?\n\n"
"If things feel overwhelming, the 988 Suicide and Crisis Lifeline "
"is available 24/7 — call or text 988. "
"You don't have to face this alone.\n\n"
"I'm not going anywhere. Tell me what's happening."
)
LOW_RESPONSE = (
"It sounds like you're having a tough time. "
"I'm here if you want to talk about it.\n\n"
"If you ever feel like things are too much, "
"the 988 Suicide and Crisis Lifeline is always available — "
"call or text 988, anytime."
)
def detect_crisis(text: str) -> CrisisResult:
"""
Analyze user input for crisis language.
Returns CrisisResult with level, triggers matched, and appropriate response.
This function must NEVER be used to compute the value of a human life.
It exists only to connect people to help.
"""
if not text or not text.strip():
return CrisisResult(detected=False, level=CrisisLevel.NONE)
triggers = []
# Check high first (most urgent)
for pattern in HIGH_RE:
if pattern.search(text):
triggers.append(("high", pattern.pattern))
if triggers:
return CrisisResult(
detected=True,
level=CrisisLevel.HIGH,
triggers=[t[1] for t in triggers],
response=CRISIS_RESPONSE,
resources=[
"988 Suicide and Crisis Lifeline: call or text 988",
"Crisis Text Line: text HOME to 741741",
"National Suicide Prevention Lifeline: 1-800-273-8255",
"International Association for Suicide Prevention: https://www.iasp.info/resources/Crisis_Centres/",
],
)
# Check medium
for pattern in MEDIUM_RE:
if pattern.search(text):
triggers.append(("medium", pattern.pattern))
if triggers:
return CrisisResult(
detected=True,
level=CrisisLevel.MEDIUM,
triggers=[t[1] for t in triggers],
response=DISTRESS_RESPONSE,
resources=[
"988 Suicide and Crisis Lifeline: call or text 988",
"Crisis Text Line: text HOME to 741741",
],
)
# Check low
for pattern in LOW_RE:
if pattern.search(text):
triggers.append(("low", pattern.pattern))
if triggers:
return CrisisResult(
detected=True,
level=CrisisLevel.LOW,
triggers=[t[1] for t in triggers],
response=LOW_RESPONSE,
resources=[
"988 Suicide and Crisis Lifeline: call or text 988",
],
)
return CrisisResult(detected=False, level=CrisisLevel.NONE)
def should_interrupt(result: CrisisResult) -> bool:
"""
Determines if crisis detection should interrupt normal processing.
Per SOUL.md: this is the most sacred moment. Everything else is secondary.
MEDIUM and HIGH always interrupt. LOW does not interrupt but provides resources.
"""
return result.level in (CrisisLevel.HIGH, CrisisLevel.MEDIUM, CrisisLevel.IMMINENT)
def format_response(result: CrisisResult) -> str:
"""
Format the crisis response for delivery to the user.
Never computes the value of a human life. Never suggests someone should die.
"""
if not result.detected:
return ""
parts = [result.response]
if result.resources:
parts.append("\nResources:")
for r in result.resources:
parts.append(f"{r}")
return "\n".join(parts)
# === INTEGRATION POINT ===
def intercept_user_input(text: str) -> Optional[str]:
"""
Call this at the chat entry point BEFORE normal processing.
Returns None if no crisis detected (continue normal processing).
Returns formatted crisis response if crisis detected (interrupt normal flow).
Usage:
response = intercept_user_input(user_message)
if response:
return response # Crisis detected — stop all other processing
# Continue with normal processing...
"""
result = detect_crisis(text)
if should_interrupt(result):
return format_response(result)
return None

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@@ -1,67 +0,0 @@
# GENOME.md — [org/repo]
Generated by `pipelines/codebase_genome.py` or used as a manual review scaffold when a human is curating the final artifact.
## Project Overview
[One paragraph: what the repo does, why it exists, and what outcome it creates.]
- Text files indexed: [count]
- Source and script files: [count]
- Test files: [count]
- Documentation files: [count]
## Architecture
```mermaid
graph TD
repo_root["repo"] --> component_a["component-a"]
repo_root --> component_b["component-b"]
component_a --> component_b
```
## Entry Points
- `[path/to/entrypoint]` — [why it matters] (`python3 path/to/entrypoint.py`)
- `[path/to/other-entrypoint]` — [why it matters] (`bash path/to/script.sh`)
## Data Flow
1. [How operators or callers enter the system.]
2. [Which modules or directories fan out from the entrypoint.]
3. [Where validation or test gaps create risk.]
4. [What artifact, state change, or runtime side effect is produced.]
## Key Abstractions
- `[module.py]` — classes `[ClassName]:line`; functions `[function_name()]:line`
- `[another_module.py]` — classes `[AnotherClass]:line`; functions `[run()]:line`
## API Surface
- CLI: `python3 [entrypoint] --help` — [what it exposes]
- Python: `[public_function]()` from `[module.py:line]`
- HTTP/WebSocket/other: `[surface]` — [contract summary]
## Test Coverage Report
- Source and script files inspected: [count]
- Test files inspected: [count]
- Coverage gaps:
- `[path/to/file]` — [missing coverage detail]
- `[path/to/other]` — [missing coverage detail]
## Security Audit Findings
- `[severity]` `[path:line]` — [risk category]: [detail]. Evidence: `[snippet]`
- `[severity]` `[path:line]` — [risk category]: [detail]. Evidence: `[snippet]`
## Dead Code Candidates
- `[path/to/file]` — [why it appears unreferenced]
- `[path/to/other]` — [why it appears unreferenced]
## Performance Bottleneck Analysis
- `[path/to/file]` — [why runtime or scale could degrade here]
- `[path/to/other]` — [filesystem scan / network / large module / hot path detail]

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@@ -0,0 +1,201 @@
"""Tests for crisis_detector.py — SOUL.md compliance."""
import pytest
from scripts.crisis_detector import detect_crisis, should_interrupt, CrisisLevel
class TestHighCrisis:
"""Explicit suicidal ideation must be detected as HIGH."""
def test_direct_suicidal_statement(self):
result = detect_crisis("I want to kill myself")
assert result.detected is True
assert result.level == CrisisLevel.HIGH
def test_end_my_life(self):
result = detect_crisis("I'm going to end my life tonight")
assert result.level == CrisisLevel.HIGH
def test_no_reason_to_live(self):
result = detect_crisis("there is no reason to live anymore")
assert result.level == CrisisLevel.HIGH
def test_better_off_dead(self):
result = detect_crisis("everyone would be better off if I was dead")
assert result.level == CrisisLevel.HIGH
def test_cant_go_on(self):
result = detect_crisis("I can't go on anymore")
assert result.level == CrisisLevel.HIGH
def test_wish_i_was_dead(self):
result = detect_crisis("I wish I had never been born")
assert result.level == CrisisLevel.HIGH
def test_im_done(self):
result = detect_crisis("I'm done. I'm finished with life.")
assert result.level == CrisisLevel.HIGH
def test_goodbye_forever(self):
result = detect_crisis("Goodbye everyone, goodbye world, forever")
assert result.level == CrisisLevel.HIGH
class TestMediumCrisis:
"""Clear distress signals without explicit ideation."""
def test_hopeless(self):
result = detect_crisis("there is no hope and no way out")
assert result.detected is True
assert result.level == CrisisLevel.MEDIUM
def test_nobody_would_care(self):
result = detect_crisis("nobody would miss me if I was gone")
assert result.level == CrisisLevel.MEDIUM
def test_im_a_burden(self):
result = detect_crisis("I'm just a burden to everyone")
assert result.level == CrisisLevel.MEDIUM
def test_just_want_it_to_stop(self):
result = detect_crisis("I just want it all to stop")
assert result.level == CrisisLevel.MEDIUM
class TestLowCrisis:
"""Ambiguous distress — flag but don't fully interrupt."""
def test_depressed(self):
result = detect_crisis("I'm so depressed, nothing matters")
assert result.detected is True
assert result.level == CrisisLevel.LOW
def test_feel_like_giving_up(self):
result = detect_crisis("I feel like giving up on everything")
assert result.level == CrisisLevel.LOW
def test_nobody_cares(self):
result = detect_crisis("nobody cares about me")
assert result.level == CrisisLevel.LOW
def test_hate_my_life(self):
result = detect_crisis("I hate my life so much")
assert result.level == CrisisLevel.LOW
class TestNoCrisis:
"""Normal conversations must NOT trigger crisis detection."""
def test_normal_question(self):
result = detect_crisis("What's the weather like today?")
assert result.detected is False
assert result.level == CrisisLevel.NONE
def test_happy_conversation(self):
result = detect_crisis("I just got promoted at work! So excited!")
assert result.detected is False
def test_technical_discussion(self):
result = detect_crisis("How do I configure nginx reverse proxy?")
assert result.detected is False
def test_empty_input(self):
result = detect_crisis("")
assert result.detected is False
def test_none_input(self):
result = detect_crisis(None)
assert result.detected is False
def test_metaphorical_death(self):
"""Metaphorical usage should not trigger HIGH."""
result = detect_crisis("This bug is killing me, I've been debugging for hours")
# May trigger LOW but not HIGH
assert result.level != CrisisLevel.HIGH
def test_fiction_discussion(self):
result = detect_crisis("The character in the book decides to end it all")
# Fiction mentions may trigger — that's acceptable (better safe)
assert result.level in (CrisisLevel.NONE, CrisisLevel.LOW, CrisisLevel.MEDIUM)
class TestShouldInterrupt:
"""HIGH and MEDIUM interrupt processing. LOW provides resources but continues."""
def test_high_interrupts(self):
result = detect_crisis("I want to kill myself")
assert should_interrupt(result) is True
def test_medium_interrupts(self):
result = detect_crisis("I'm a burden to everyone, nobody would care")
assert should_interrupt(result) is True
def test_low_does_not_interrupt(self):
result = detect_crisis("I'm so depressed lately")
assert should_interrupt(result) is False
def test_none_does_not_interrupt(self):
result = detect_crisis("Hello, how are you?")
assert should_interrupt(result) is False
class TestResponseContent:
"""Crisis responses must contain required elements per SOUL.md."""
def test_response_contains_988(self):
result = detect_crisis("I want to end it all")
assert "988" in result.response
def test_response_contains_gospel(self):
result = detect_crisis("I want to kill myself")
assert "Jesus" in result.response
def test_response_never_computes_value(self):
"""SOUL.md: Never compute the value of a human life."""
result = detect_crisis("I want to die")
assert "worth" not in result.response.lower()
assert "value of" not in result.response.lower()
def test_resources_include_988(self):
result = detect_crisis("I want to kill myself")
assert any("988" in r for r in result.resources)
def test_asks_are_you_safe(self):
result = detect_crisis("I can't take it anymore")
assert "safe" in result.response.lower()
class TestMultilingual:
"""Crisis is universal. Test common non-English signals."""
def test_spanish_suicidal(self):
result = detect_crisis("quiero morir, no puedo más")
# Spanish not currently supported — should not crash
assert result is not None
class TestEdgeCases:
"""Boundary conditions and adversarial inputs."""
def test_very_long_input(self):
text = "I'm fine. " * 1000 + "I want to kill myself"
result = detect_crisis(text)
assert result.level == CrisisLevel.HIGH
def test_mixed_case(self):
result = detect_crisis("I WANT TO KILL MYSELF")
assert result.level == CrisisLevel.HIGH
def test_with_emojis(self):
result = detect_crisis("I want to end it all 😢💔")
assert result.level == CrisisLevel.HIGH
def test_with_typos(self):
# Exact matching won't catch typos — that's a known limitation
result = detect_crisis("I want to kil myself")
# May or may not match depending on pattern flexibility
assert result is not None
def test_repeated_phrases(self):
result = detect_crisis("I can't. I just can't. I can't go on anymore.")
assert result.level == CrisisLevel.HIGH

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@@ -1,37 +0,0 @@
from __future__ import annotations
from pathlib import Path
ROOT = Path(__file__).resolve().parents[1]
TEMPLATE_PATH = ROOT / "templates" / "GENOME-template.md"
DOC_PATH = ROOT / "docs" / "CODEBASE_GENOME_PIPELINE.md"
REQUIRED_HEADINGS = (
"# GENOME.md — [org/repo]",
"## Project Overview",
"## Architecture",
"## Entry Points",
"## Data Flow",
"## Key Abstractions",
"## API Surface",
"## Test Coverage Report",
"## Security Audit Findings",
"## Dead Code Candidates",
"## Performance Bottleneck Analysis",
)
def test_issue_666_template_exists_and_covers_required_sections() -> None:
assert TEMPLATE_PATH.exists(), "missing templates/GENOME-template.md"
text = TEMPLATE_PATH.read_text(encoding="utf-8")
for heading in REQUIRED_HEADINGS:
assert heading in text
def test_issue_666_docs_reference_template_and_single_repo_entrypoint() -> None:
text = DOC_PATH.read_text(encoding="utf-8")
assert "templates/GENOME-template.md" in text
assert "python3 pipelines/codebase_genome.py" in text
assert "python3 pipelines/codebase-genome.py" in text