784dfbae6f
12-agent audit (waves 3+4 Opus+Sonnet) on commit3759fb0found that 2 of my prior fixes had regressions, plus the prev batch missed 8 stale-text sites and 2 latent bugs. This batch closes them all. == Regressions in audit-batch (3759fb0) — now fixed == 1. PRAGMA user_version=9 placement — could silently downgrade schema on cross-version install (existing v10 DB → re-run reset to 9 → migrations replay → ALTER TABLE duplicate-column errors) - install/sql/outcome-only-schema.sql: PRAGMA moved OUTSIDE the transaction (after COMMIT) for portability across SQLite versions - install/lib-profile-outcome-only.sh::_outcome_install_ledger: added downgrade guard — reads existing user_version BEFORE running ANY init path; if >9, skips entirely (preserves newer schema) - VERIFIED: simulated v10 DB → re-run prints "skipping init to preserve newer schema"; user_version stays at 10 (was downgraded to 9 in the prior batch) [REAL: ran in this session] 2. backup_file mv→cp workaround left orphan backups + bypassed rollback contract (BACKUP_PAIRS not registered) - install/lib-profile-outcome-only.sh: now manually appends to BACKUP_PAIRS so rollback trap restores on later failure; removes the .bak on success path - Comment updated to explain the workaround vs backup_file mv 3. CLAUDE.md skip-guard "STATUS-TRUTH MARKER" was too broad — false-positive on existing kit users (RULE 0.16 doc text matches) - lib-profile-outcome-only.sh: changed grep to literal HTML comment marker `<!-- outcome-only profile (KeiSeiKit) -->` (specific marker written by the installer itself) == Tier 1 missed in prev batch — now fixed == 4. _ts_packages/package-lock.json referenced packages/cortex-ui which does NOT exist on disk → npm ci would fail with ELSPROBLEMS in CI - Regenerated via fresh `rm package-lock.json && npm install` - npm ci now exits 0 cleanly [REAL: ran in this session] - Lockfile shrunk 2403→0 lines on the cortex-ui section (full regen) 5. v3 triggers (branch length cap ≤256) were MISSING from outcome-only-schema.sql — sqlite3 fallback path skipped a schema feature that the Rust kei-ledger flow enforces, creating cross-flow drift - Added trg_agents_branch_len_ins + trg_agents_branch_len_upd mirroring migrations_list.rs:30-44 - Header comment in outcome-only-schema.sql rewritten to match current behavior (was stale) - VERIFIED: end-to-end install creates 2 triggers [REAL: sqlite3 .schema | grep trg_agents_branch_len returns 2] 6. README.md:232 said "102 crates" while README.md:9 said "105 crates" — internal contradiction in same doc - README:232 → "105 workspace crates" 7. ARCHITECTURE.md:165 "53 Rust crates + 13 shell primitives" stale - Updated to "105 Rust workspace crates (47 declared in MANIFEST.toml `full` profile) + 14 shell primitives" 8. ARCHITECTURE.md:157 "45 /commands" stale - Updated to 68 9. plugin.json + marketplace.json description strings still had pre-fix counts (23 primitives / 39 skills / 9 hooks / 12 agents) - Both rewritten to match README:9 SSoT (38 agents / 68 skills / 38 hooks / 105 workspace crates / 47 installable + 14 shell) 10. PROFILE-OUTCOME-ONLY.md:28-29 "What does NOT get installed" still cited 102/67/37/82 - Updated to 105/68/38/85 11. encyclopedia/substrate-overview.md §6/§11/§12 still said "80-char DNA"; §13 said "495 DNA indices"; §6 said "11 install profiles (.../Cursor/Continue/etc)" - All 4 sites fixed to current language (≥33-char variable, 565 DNAs, 12 install profiles) 12. docs/DNA-INDEX.md:1352 said wire format is "(80 chars)" - Updated to "(≥33 chars; role + caps slugs are variable — see docs/DNA-FORMAT.md)" == Tier 2 honesty fixes == 13. Wagner et al. 2004 citation in SLEEP-LAYER.md:26 lacked [VERIFIED] marker (W3 doc consistency caught it) - Added [VERIFIED: doi:10.1038/nature02223] + clarification that the original study did not isolate a specific sleep stage; SWS attribution comes from secondary literature (Diekelmann/Born) 14. PHILOSOPHY.md:125 attributed "overnight consolidation of un-finished intentions" to Wagner 2004 — that paper is about insight gain on the Number Reduction Task, not Zeigarnik-effect cued memory - Rewritten to accurately describe Wagner 2004's actual finding + [VERIFIED: doi:10.1038/nature02223] Verification: - `npm ci` in _ts_packages/ exits 0 [REAL: ran in this session] - `cargo check --workspace` exits 0 in _primitives/_rust [REAL: ran in this session] - Outcome-only end-to-end fresh install produces user_version=9 + 2 triggers (correct schema shape) - Outcome-only re-run against v10 DB preserves user_version=10 (downgrade guard works) - CLAUDE.md skip-guard now triggers ONLY on literal marker, not on RULE 0.16 phrase NOT addressed in this batch (deferred to a future round): - github KeiSei84/{KeiSeiKit, KeiSeiKit-1.0} 404 (user-side action: publish repo or update refs) - keigit user `keisei` does not exist (user-side: create org or rename scope) - KEIGIT_TOKEN secret not configured (user-side action) - Forgejo registration disabled (admin-side) - safeEqual timing leak in TS server (LOW per W3 reassessment) - HTTP bind 0.0.0.0 default (MEDIUM) - Unbounded request body (MEDIUM) - Outcome-only confirm-screen bypass (RULE 0.1 spirit) - Ledger fallthrough false summary - Node 20 deprecation (deadline 2026-06-02, 30 days) - Hook count triple-discrepancy (38 README / 53 DNA-INDEX / 35 maturity-row) - 100-row router claim still in README:117 + PROFILE-OUTCOME-ONLY.md - INSTALL.md numerics without [REAL:] markers - Stale .bak files accumulation policy (cosmetic) - README per-claim [REAL: ] markers for 6 of 7 numerics Co-Authored-By: Claude Opus 4.7 (1M context) <noreply@anthropic.com>
268 lines
11 KiB
Markdown
268 lines
11 KiB
Markdown
# Philosophy — KeiSeiKit as a Living Neural Structure
|
||
|
||
> The README claims KeiSeiKit is "a living neural structure." This document
|
||
> is the long form of that claim: which biological properties we chose,
|
||
> why, how each one maps to code shipped in this repo, and what the
|
||
> tradeoffs are.
|
||
|
||
---
|
||
|
||
## The one-line thesis
|
||
|
||
A software toolkit accumulates features. A living neural structure
|
||
accumulates identity, memory, lineage, and the ability to recover from its
|
||
own mistakes. KeiSeiKit is built around the second list.
|
||
|
||
## The five properties
|
||
|
||
A neural system is distinguishable from a collection of functions by five
|
||
properties. Each one is load-bearing — remove it and the structure stops
|
||
being alive in the relevant sense.
|
||
|
||
1. **Identity** — each unit has a stable, reproducible name, not a random
|
||
UUID or a human-friendly slug that drifts.
|
||
2. **Lineage** — each unit knows who produced it and from what.
|
||
3. **Memory** — the system remembers what it did yesterday, across
|
||
restarts, across machines, across sessions.
|
||
4. **Consolidation** — memory is not raw logs; it is periodically replayed
|
||
and compressed into patterns.
|
||
5. **Corrective learning** — mistakes the system notices in itself
|
||
surface as explicit artefacts (rules, hooks, tests) the next session
|
||
inherits.
|
||
|
||
The rest of this document maps each property to the shipped code.
|
||
|
||
---
|
||
|
||
## 1. Identity — DNA
|
||
|
||
Every agent invocation resolves to a deterministic variable-length string (≥33 chars; role + caps slugs are variable):
|
||
|
||
```
|
||
<role>::<caps-bitmap>::<scope-hash>::<body-hash>-<nonce>
|
||
```
|
||
|
||
- `role` — role slug (e.g. `edit-local`, `research-web`).
|
||
- `caps-bitmap` — the resolved capability list, encoded as ordered 2-char
|
||
atom codes (`NG` = no-git-ops, `FW` = files-whitelist, `TG` = tests-green).
|
||
- `scope-hash` — 8 hex chars (32-bit) of SHA-256 over canonicalised scope.
|
||
- `body-hash` — 8 hex chars of SHA-256 over the task body text.
|
||
- `nonce` — 8 hex chars of `rand::random::<u32>()`, full 32-bit entropy.
|
||
|
||
The shape is enforced by `kei-agent-runtime::dna::parse`. Two invocations
|
||
with the same role, capability set, scope, and task body produce the same
|
||
`<role>::<caps>::<scope>::<body>` prefix, and differ only by nonce. That
|
||
makes DNA both deterministic (for reasoning) and unique (for collision
|
||
resistance — birthday threshold ≈ 65k agents per role+caps group).
|
||
|
||
**Why not UUIDs.** A UUID hides what the agent was supposed to do. A DNA
|
||
string is greppable: you can look at a ledger row and see the capability
|
||
bitmap without joining five tables.
|
||
|
||
**Why not slugs.** Slugs collide and drift. DNA is stable under renames
|
||
because the role slug is part of the hash input, not a sidecar.
|
||
|
||
Source: [`_primitives/_rust/kei-agent-runtime/src/dna.rs`](../_primitives/_rust/kei-agent-runtime/src/dna.rs).
|
||
|
||
## 2. Lineage — creator_id and fork_parent_id
|
||
|
||
Every row in the agent ledger carries two additional columns:
|
||
|
||
- `creator_id` — DNA or human id of whoever spawned this row.
|
||
- `fork_parent_id` — DNA of the agent this row was forked from, if any.
|
||
|
||
This is SQL-level lineage. Any artefact produced during a session can be
|
||
traced back to the agent that produced it, to the agent that spawned
|
||
*that* agent, to the human session the chain started from.
|
||
|
||
**Why this matters.** Software without lineage produces "where did this
|
||
file come from" questions at merge time. Lineage makes them disappear:
|
||
the merge-ceremony skill prints the DAG and the human picks which forks
|
||
merge, which squash, which defer.
|
||
|
||
Schema: [`_primitives/_rust/kei-ledger/src/schema.rs`](../_primitives/_rust/kei-ledger/src/schema.rs) migration v4.
|
||
|
||
## 3. Memory — three layers
|
||
|
||
The memory layer is deliberately three-tiered, mirroring the hippocampal
|
||
+ cortical split:
|
||
|
||
1. **Raw episodes** — session JSONL traces, append-only, one file per
|
||
session. This is the hippocampus: fast, stateful, volatile (survives
|
||
until the next full pull), not interpreted.
|
||
2. **Project memory** — `memory/{project}.md` one file per project,
|
||
self-contained, constraints + stack + status + learnings with
|
||
evidence grades.
|
||
3. **Index** — `MEMORY.md`, one line per project, ≤200 lines total. No
|
||
inline data. Reading this file gives the shape of the world.
|
||
|
||
Any session's "what did we decide last time" is a read of the
|
||
corresponding project file, not a scroll through chat history. The index
|
||
guarantees that read is fast.
|
||
|
||
**Why this layering.** A single giant memory file stops being read
|
||
because it cannot be scanned. A million tiny files stop being read
|
||
because there is no entry point. Three layers — index → project file →
|
||
raw traces — give you O(1) navigation to the right detail.
|
||
|
||
Source: `~/.claude/rules/memory-protocol.md` (the full memory-protocol
|
||
rule, reusable across projects).
|
||
|
||
## 4. Consolidation — REM and NREM
|
||
|
||
Raw traces become patterns only if something replays them. KeiSeiKit's
|
||
sleep layer runs in three phases on a nightly schedule:
|
||
|
||
### Phase A — Incubation ("sleep on it")
|
||
|
||
During the day, you drop tasks into `/sleep-on-it`. Each task gets a
|
||
priority (quick 15 min / standard 60 min / deep 240 min / marathon
|
||
480 min) and optionally a checkpoint cadence. At 03:00 local a remote
|
||
Claude Code agent on Anthropic's cloud picks up the queue (up to 480
|
||
minutes total across ≤ 5 tasks, packed greedily in FIFO order) and
|
||
works until the budget or checkpoint fires.
|
||
|
||
Biological analog: the post-sleep insight gain documented by
|
||
Wagner et al. 2004, *Nature* 427:352–355
|
||
[VERIFIED: doi:10.1038/nature02223]. The original paper showed that
|
||
problems unsolved when you went to bed are sometimes solved on waking
|
||
not because the brain ran harder but because it ran offline; the study
|
||
did not isolate a specific sleep stage, and our metaphor is a loose
|
||
mapping of that observation onto the kit's offline consolidation.
|
||
|
||
### Phase B — REM consolidation
|
||
|
||
After Phase A, the same agent reads the last 24 h of JSONL traces, diffs
|
||
them against the previous report, and writes
|
||
`reports/sleep-YYYY-MM-DD.md`. Cross-session patterns (≥ 3 occurrences
|
||
across ≥ 2 distinct sessions) are prepended to `backlog.md`.
|
||
|
||
Biological analog: REM dream-state. Pattern extraction, not raw replay.
|
||
|
||
### Phase C — NREM deep sleep
|
||
|
||
Every seven days (by default; configurable to zero to disable) the
|
||
pipeline also runs `kei-conflict-scan` → `kei-refactor-engine` → optional
|
||
`kei-graph-check`. The output is a **plan-only** markdown file or a
|
||
**plan + fork** branch (`deep-sleep/YYYY-MM-DD`) with `git apply`-ready
|
||
changes. Ambiguous conflicts are excluded from any auto-patch and listed
|
||
explicitly for human decision.
|
||
|
||
Biological analog: NREM slow-wave sleep. System-level consolidation.
|
||
Integrating, not just reviewing.
|
||
|
||
### The no-feedback-loop invariant
|
||
|
||
Nothing the cloud agent writes is ever auto-injected into a Claude Code
|
||
session. The morning report is for human review. Any rule or hook that
|
||
emerges from it is installed by hand via `/escalate-recurrence`. This
|
||
is a deliberate architectural choice: auto-learning loops without human
|
||
signoff are how models drift.
|
||
|
||
Source: [`docs/SLEEP-LAYER.md`](./SLEEP-LAYER.md) and `~/.claude/rules/sleep-layer.md`.
|
||
|
||
## 5. Corrective learning — self-audit
|
||
|
||
Three passive hooks run during any session:
|
||
|
||
- `session-end-dump` — on Stop, archives the session trace and ingests
|
||
it into `kei-memory`.
|
||
- `milestone-commit-hook` — on `feat:` / `refactor:` / merge commits,
|
||
appends a one-line summary to `audit-backlog.md`.
|
||
- `error-spike-detector` — when three or more errors occur in the last
|
||
twenty tool calls, tags the pattern.
|
||
|
||
These feed the `/self-audit` skill, which classifies recurring problems
|
||
and surfaces them via click-only `AskUserQuestion`. The user can
|
||
route a finding to:
|
||
|
||
- `/escalate-recurrence` — codify as rule + wiki + optional hook.
|
||
- `/debug-deep` — 5-phase root-cause analysis.
|
||
- hook-only — mechanical block / enforce / warn / remind.
|
||
- backlog — log, surface next session.
|
||
- postpone — keep open, resurface later.
|
||
|
||
**Silent-first mode.** The first ten sessions log only — no prompts.
|
||
This prevents false-positive fatigue while the memory store is still
|
||
empty. Session 11 onward, the self-audit starts surfacing items.
|
||
|
||
Source: `~/.claude/rules/session-self-audit.md` (RULE 0.14) and
|
||
`skills/self-audit/`.
|
||
|
||
---
|
||
|
||
## Growth — the sixth property, emergent
|
||
|
||
A substrate that satisfies properties 1–5 can support a sixth that is
|
||
harder to design for directly: **growth**. New primitives, new blocks,
|
||
new agents, new projects enter through user-driven commands and
|
||
accumulate in a way the next session can find.
|
||
|
||
- **New primitive.** `/compose-solution` decomposes a free-text problem,
|
||
greps existing atoms for prior art, and drafts a block if nothing
|
||
matches. The draft is persisted on user click, discoverable thereafter.
|
||
- **New agent.** `/spawn-agent` emits a manifest + DNA + ledger row. The
|
||
assembler hook rebuilds the markdown Claude Code picks up.
|
||
- **New project.** `/new-project` is a 4-phase skill: intake, fork
|
||
skeleton, parallel execution (orchestrator owns git per RULE 0.13),
|
||
merge ceremony.
|
||
|
||
Growth is not a feature we implemented. It is what the other five
|
||
properties produce when you compose them.
|
||
|
||
---
|
||
|
||
## What this is not
|
||
|
||
A neural network. The name "neural structure" is an analogy about
|
||
properties (identity, lineage, memory, consolidation, corrective
|
||
learning), not a claim about weights or gradients. Nothing in KeiSeiKit
|
||
trains on your data. The cloud agent in the sleep layer is a standard
|
||
Claude Code session with scheduled triggers — it reads your traces to
|
||
write a report, not to fine-tune itself.
|
||
|
||
A federation. As of v0.24, KeiSeiKit ships as a single-user substrate
|
||
installed next to Claude Code. Cross-user signing, marketplace publishing
|
||
of blocks, and federation are on the roadmap but not yet shipped. If a
|
||
doc claims otherwise, that doc is stale.
|
||
|
||
A framework. A framework tells you how to structure your application. A
|
||
substrate gives your agents identity, lineage, memory, and sleep —
|
||
nothing about it dictates the application. You can delete every skill
|
||
in this repo and the substrate still works; you can also add fifty more
|
||
and it still works.
|
||
|
||
---
|
||
|
||
## The constraints that shaped this
|
||
|
||
Three constraints, made explicit because they push back against common
|
||
defaults:
|
||
|
||
- **Constructor Pattern.** One file, one class, one concern. Files
|
||
greater than 200 lines are decomposed. Functions greater than 30
|
||
lines are split. No mixins, no DI containers, no abstract factories.
|
||
This keeps the graph readable by both humans and Claude.
|
||
- **Rust-first default.** New primitive code is Rust unless there is a
|
||
cited exception (ML training > 10M params / existing-language project
|
||
/ platform UI / browser-DOM / one-off < 50 lines / external binding
|
||
only / explicit user override). The reason is not performance — it is
|
||
that the Rust type system catches the class of mistakes LLMs most
|
||
often introduce (`None` vs `[]`, missing `.await`, unhandled
|
||
`Result`) at compile time.
|
||
- **Local-first.** Nothing is pushed anywhere by default. The sleep
|
||
layer's memory-repo is user-owned, on whatever remote the user
|
||
chose (or no remote — everything works locally).
|
||
|
||
If these constraints feel restrictive, they are — deliberately. They
|
||
are the shape of the substrate, not decorations.
|
||
|
||
---
|
||
|
||
## Further reading
|
||
|
||
- [ARCHITECTURE.md](./ARCHITECTURE.md) — build pipeline + bridges + meta-composer
|
||
- [SLEEP-LAYER.md](./SLEEP-LAYER.md) — Phase A / B / C in depth
|
||
- [TAXONOMY.md](./TAXONOMY.md) — the seven-facet vocabulary
|
||
- [SUBSTRATE-SCHEMA.md](./SUBSTRATE-SCHEMA.md) — atom contract
|
||
- [WHY.md](./WHY.md) — the full origin story
|