System of record

The GitHub repo (markdown + frontmatter) is the system of record. The Postgres/PGLite database is a derived cache. We do not back up the database — we rebuild it from the repo.

This document is the canonical reference for that contract. Every code path that writes user-knowledge state should match the pattern described here. The CI gate at scripts/check-system-of-record.sh enforces it programmatically.

Why this matters

The DB is a derived index over the markdown content. It exists to make search fast, to dedup embedding-similar claims, to materialize the cross-page graph. None of that data is irreplaceable — as long as the markdown is intact, gbrain sync && gbrain extract all rebuilds the entire DB from scratch.

This means:

• Disaster recovery is a short, boring sequence. If your DB volume corrupts, if Postgres eats itself, if PGLite's WASM lock wedges — you don't need a backup. You wipe the derived tables (on PGLite, gbrain reinit-pglite wipes the whole embedded DB), re-import from your brain repo with gbrain sync, and gbrain extract all regenerates the derived state. See "Disaster recovery" below for the exact commands.
• Multi-machine sync is git. Your brain is a repo. Push from one machine, pull from another, and the second machine's DB rebuilds on its next sync. No "back up the database" step.
• Privacy is in your hands. Sensitive entity pages can be gitignored (via gbrain.yml db_only paths or per-page) and they stay on disk but not in git. The fence respects whatever git tracking choice you make at the page level.
• Cross-agent collaboration is possible. Multiple agents can write to the same brain because the fence is the merge point, not the DB. Git handles concurrent edits the way git handles concurrent edits.

The three categories

Every table in the gbrain schema belongs to exactly one of three categories. The category determines how it gets rebuilt during disaster recovery.

FS-canonical (markdown is the source of truth)

These are user-authored knowledge. The DB row is a derived index over the markdown — wipe the table and gbrain extract rebuilds it identically. The CI gate keeps direct DB writes from drifting away from the markdown contract.

Category	How it's stored in markdown	Derived DB table	Reconciler
Takes (incl. hunches, bets)	## Takes fenced table between <!--- gbrain:takes:begin --> / :end --> markers	takes	extract takes
Facts	## Facts fenced table between <!--- gbrain:facts:begin --> / :end --> markers	facts	extract_facts cycle phase
Links	Inline [text](slug) / [[slug]] in markdown body + frontmatter direction: incoming	links	extract links
Timeline	## Timeline section after <!-- timeline --> sentinel	timeline_entries	extract timeline
Tags	Frontmatter tags: YAML array	tags	importFromFile (reconciles per-page on import)
emotional_weight	Recomputed from takes + tags	pages.emotional_weight (signal column)	recompute_emotional_weight cycle phase
synthesis_evidence	FK into takes rows (slug#N) inside synthesis pages	synthesis_evidence	extract takes (transitively)

Derived from FS but not user-authored

These hold derived state that's automatically reconstructible from the markdown but not directly authored as markdown by the user. The chunker + embedder rebuild these on import.

Table	Source	Notes
pages	The markdown file as a whole	One row per file; compiled_truth + frontmatter come from parse
content_chunks	pages.compiled_truth after chunker strip	Re-chunked on content_hash change; embedded via configured model
page_versions	Each pages UPDATE	Audit history; rebuildable in principle but not in practice

DB-only by design (named exceptions)

These hold runtime / infrastructure state that's intentionally not in the repo. The architectural rule still holds — these aren't "user knowledge" — but they're DB-only by design.

Category	Why it's OK to be DB-only
raw_data	Webhook/transcript sidecars; not user-authored knowledge.
subagent_messages / subagent_tool_executions / subagent_rate_leases	Runtime job state. Replay-only, not persistent knowledge.
oauth_clients / oauth_tokens / access_tokens	Credentials. Not in source control by definition.
mcp_request_log	Audit trail. Volatile by design.
minion_jobs / minion_inbox / minion_attachments	Job queue. Restarts re-enqueue or drop.
eval_candidates / eval_capture_failures	Contributor-mode dev loop; opt-in capture.
dream_verdicts	Scored triage cache (salience score, quotes, entities, judging model + prompt version). Rebuildable via gbrain dream retriage --force.
gbrain_cycle_locks / migration ledger	Infrastructure.
op_checkpoint_paths	Sync-resume checkpoint. Append-only progress banking; a completed sync makes it irrelevant.
config (some keys)	Site-local routing config (e.g. sync.repo_path).

A new derived table that holds user-knowledge MUST land FS-first. If you're tempted to add one as "DB-only for now," the structural question is: does it belong in this DB-only-by-design list? If not, it's FS-canonical and needs a fence (or frontmatter field) plus a reconciler.

The privacy boundary

Private knowledge in a fence still lives in the markdown file. If the user commits the page to git, the private data lands in git too. This is the existing operational model — we don't infer git policy.

For untrusted readers (remote MCP, subagent), the v0.32.2 release ships a 3-layer strip:

1. Layer A (chunker): src/core/chunkers/recursive.ts calls stripFactsFence({keepVisibility: ['world']}) + stripTakesFence before chunking. Private fact text never reaches content_chunks.chunk_text, embeddings, or search results.
2. Layer B (get_page): when ctx.remote === true, the response body has both fences stripped (private rows from facts; entire takes fence). Local CLI (ctx.remote === false) sees the full fence.
3. Layer C (git tracking): the user decides whether to commit the entity page. gbrain.yml db_only paths are gitignored automatically; per-page choices via the user's normal git workflow.

For universally-private entities (a friend's name, an investor's internal notes), mark the entity page's directory as db_only in gbrain.yml. The file stays on disk but never lands in git.

The forget contract

gbrain forget <id> and the MCP forget_fact op rewrite the fence row with strikethrough + valid_until = today + context: "forgotten: <reason>". The DB's expired_at = valid_until + now() derivation reconstructs the forget state on every rebuild because the fence is canonical.

Strikethrough has two semantics distinguished by context:

• ~~claim~~ + context: "superseded by #N" → row was replaced by a newer row in the same fence
• ~~claim~~ + context: "forgotten: <reason>" → row was retracted via the forget op

Both encodings keep the row in the markdown for audit history. To permanently delete a fact, edit the fence directly in markdown and remove the row. The next extract_facts cycle wipes the DB row.

Disaster recovery

The promise the rule makes:

# Snapshot what's there
gbrain stats > /tmp/before.txt

# Wipe and rebuild — delete the derived tables (pages + content_chunks
# survive the CASCADE-safe design), then re-derive from the repo.
# On PGLite, `gbrain reinit-pglite` wipes the whole embedded DB instead.
psql -c 'DELETE FROM facts; DELETE FROM takes; DELETE FROM links; DELETE FROM timeline_entries;'
gbrain sync
gbrain extract all

# Counts match
gbrain stats > /tmp/after.txt
diff /tmp/before.txt /tmp/after.txt

The invariant E2E test at test/e2e/system-of-record-invariant.test.ts exercises this exact flow on every CI run.

Rule for new code

When you add a new user-knowledge category:

1. Define the markdown shape. Fence (<!--- gbrain:NAME:begin --> ... :end --> table) or frontmatter field.
2. Build a parser that produces structured data from markdown. See src/core/fence-shared.ts for the shared primitives.
3. Build a writer that round-trips: parse + edit + render produces byte-identical markdown for identical input.
4. Add the engine method that takes parsed data and stamps a derived table. The method gets an entry in the CI gate's banned-direct-call list.
5. Add a reconciler: a cycle phase that walks pages, parses the fence, and rebuilds the derived table from scratch. The reconciler is the only legitimate call site for the engine method; // gbrain-allow-direct-insert: <reason> annotates it explicitly.
6. Add a round-trip test in test/e2e/system-of-record-invariant.test.ts that proves DELETE + reconcile rebuilds the table byte-identically.

The CI gate at scripts/check-system-of-record.sh fails any PR that adds a new direct call to a derived-table writer outside the reconciler / migration layer without the explicit allow-list comment.

Related

• skills/migrations/v0.32.2.md — the agent-facing migration guide
• CHANGELOG.md v0.32.2 entry — the release manifesto
• scripts/check-system-of-record.sh — the CI gate that enforces the rule