feat: parse all Go CLIs with flaggy; dump bash complete. (#36)

stdlib flag dropped --hop after the query. One wrapper in internal/cli,
source <(./bin/cli/complete.go bash). Gitea #34.

.dockerignore

@@ -3,6 +3,7 @@
 var
 .git
 .github
+lib-ladybug
 __pycache__
 *.pyc
 *.lbug

.github/workflows/ci.yml

@@ -37,31 +37,61 @@ jobs:
           bash -n bin/db/ssh-tunnel
           bash -n bin/docker-entrypoint
           bash -n bin/kb/search
+          bash -n bin/cgo/zig
+          sh -n bin/cgo/zcc
+          sh -n bin/cgo/zc++
 
       - name: Python unit tests (offline, vendored tools)
         run: |
           uv run python -m unittest discover -s bin/tools -t .
 
-      - name: Go tests (root module, no ladybug cgo)
+      - name: Go tests (root module; duckdb-go CGO via gcc, no ladybug)
         run: |
-          go vet ./...
+          CC=gcc CXX=g++ CGO_CFLAGS= CGO_LDFLAGS= go vet ./...
-          go test ./... -count=1
+          CC=gcc CXX=g++ CGO_CFLAGS= CGO_LDFLAGS= go test ./... -count=1
 
       - name: brain ranking tests (no cgo / no ladybug)
         run: go test ./internal/brain/rank -count=1
 
       - name: facts/audit self (lexicon consistency, no network)
-        run: |
+        run: ./bin/facts/audit self
-          ./bin/facts/audit self 2>/dev/null || echo "audit: not yet implemented; gate skipped"
 
-      - name: kb/eval recall gate
+      - name: CGO via Zig (compile brain/search + eval)
         run: |
-          ./bin/kb/eval 2>/dev/null || echo "eval: not yet implemented; gate skipped"
+          chmod +x bin/cgo/zig bin/cgo/zcc bin/cgo/zc++
+          bin/cgo/zig go build -tags system_ladybug -o /tmp/brain-search ./bin/brain/search.go
+          bin/cgo/zig go build -tags 'system_ladybug,brain_eval' -o /tmp/brain-eval ./bin/brain/eval.go
+
+      - uses: actions/cache@v4
+        with:
+          path: ~/.cache/huggingface
+          key: ${{ runner.os }}-hf-potion-multilingual-128M
+
+      - name: recall@5 SoT (Zig bin/brain/eval.go)
+        run: |
+          uv run python bin/kb/index --rebuild --json
+          KB_ROOT="$PWD" /tmp/brain-eval --json
+
+  ocr:
+    name: OCR (tesseract fixture)
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v4
+      - uses: actions/setup-go@v5
+        with:
+          go-version-file: go.mod
+      - name: Install tesseract + poppler
+        run: |
+          sudo apt-get update
+          sudo apt-get install -y --no-install-recommends \
+            tesseract-ocr tesseract-ocr-eng tesseract-ocr-deu poppler-utils
+      - name: Go OCR tests (synthetic HELLO PNG)
+        run: go test ./internal/ocr -count=1
 
   release:
     name: Release (semver)
     if: github.event_name == 'push' && github.ref == 'refs/heads/main'
-    needs: test
+    needs: [test, ocr]
     runs-on: ubuntu-latest
     permissions:
       contents: write

.gitignore

@@ -11,3 +11,6 @@ __pycache__/
 .secrets/
 lib-ladybug/
 go.work.local
+models/
+# Purged from git history. Do not re-add.
+docs/crm-associations-proof.md

AGENTS.md

@@ -3,7 +3,8 @@
 Evidence-first brain over the ops/eSlider stack. Facts need proof or they are
 `(not confirmed)`.
 
-Read first: [PLAN](PLAN.md) → [docs](docs/).
+Read first: [PLAN](PLAN.md) → [docs](docs/) → [roadmap](docs/roadmap.md)
+(epic [#16](https://git.produktor.io/eSlider/2dph/issues/16)).
 
 ## Method (detective, no fork)
 
@@ -15,6 +16,9 @@ Read first: [PLAN](PLAN.md) → [docs](docs/).
 - `info` root = descriptive/narrative leafs, searchable, never asserted as fact.
 - Search is deduction: `facts` → `info` → `web-search` (second independent
   source). An answer is `confirmed` only if it comes off the facts root.
+- Fact-check every *claim* (facts → info → live → web), not every edit or
+  syntax tweak. PicoClaw: `search` then `get` then `audit` before a factual
+  reply (`skills/picoclaw/SKILL.md`). `throttled` is not a negative finding.
 
 ## Hard rules
 
@@ -36,14 +40,22 @@ PLAN.md       decisions + execution + open questions
 docs/         published docs
 skills/       in-project agent skills (vendored, no external links)
 bin/          self-describing tools bin/{subject}/{method}.go (shebang)
-bin/brain/    search.go, serve.go; libs in internal/brain and internal/httpapi
+bin/brain/    search.go serve.go index.go add.go get.go stats.go eval.go watch.go
-internal/     shared Go (brain/rank is cgo-free)
+bin/chats/    sync.go import.go facts.go apply.go; libs in internal/chats
-bin/watch/    corpus watcher (internal via bin/brain/watch later)
+bin/mail/     sync.go import.go ocr.go (index_mail → brain/index.go)
-bin/mail/     mail pipeline: sync (Go), import (md), index_mail (rebuild)
+bin/markdown/ import.go (H2 leaf split; Python bin/md/import fallback)
+bin/postgres/ query.go (read-only YAML)
+bin/git/      import.go (go-git history; Python shim execs it)
+bin/web/      search.go (SearXNG; Python shim execs it)
+bin/reasoner/ bakeoff.go (D18 CPU OpenAI tool-call bake-off)
+internal/     shared Go (brain/rank is cgo-free; facts D16; cli flaggy D23; chats; gitlog; websearch; reasoner; duckstats)
+bin/qa/       stats.go (DuckDB quantiles / JSONL count; gcc CGO, not Zig)
+bin/watch/    corpus watcher (used by bin/brain/watch.go)
 bin/tools/    vendored python libs behind bin/* (kblib, yamlout, websearch)
-bin/docker-entrypoint  container entrypoint (brain index|search|serve|watch)
+bin/cgo/      zig zcc zc++ (CGO via zig cc, not gcc)
+bin/docker-entrypoint  container entrypoint (api: serve|search|watch; index: python)
 compose.yaml  docker composition (root level, not docker/)
-Dockerfile    multi-stage: python deps + static Go binaries
+Dockerfile    api (Zig CGO, no Python) + index (Python write)
 var/          kb.lbug, var/mail/*, caches (gitignored)
 .venv/        ladybug + model2vec + mistune
 ```
@@ -53,35 +65,54 @@ var/          kb.lbug, var/mail/*, caches (gitignored)
 ```bash
 bin/mail/sync.go --source onlyoffice,gmail --workers 8 --out var/mail   # raw message.json + attachments
 bin/mail/sync.go --source gmail --query 'from:example.com' --out var/mail  # Gmail search (default in:inbox)
-bin/mail/import --from-raw var/mail                                     # message.json → message.md (convert only)
+bin/mail/import.go --from-raw var/mail                                  # message.json → message.md (convert only)
-bin/mail/index_mail                                                     # rebuild brain incl. all mail (fresh DB)
+bin/brain/index.go --rebuild --with-facts --with-chats
 ```
 
 - `sync` (Go) downloads messages + attachments; Gmail uses paginated list +
   `body.attachmentId` (not partId) for attachments.
 - `import` converts body + attachments to markdown. PDFs use poppler
-  `pdftotext -layout` fast path (~15ms); textless/scanned PDFs fall back to
+  `pdftotext -layout` fast path (~15ms); textless/scanned PDFs use
-  docling (isolated subprocess — its native onnx can segfault the parent).
+  `pdftoppm` + tesseract `eng+deu` (`bin/mail/ocr.go`). Optional
-  Conversion never touches the brain DB (crash safety).
+  `OCR_ENGINE=paddle`. Conversion never touches the brain DB (crash safety).
-- `index_mail` always rebuilds from scratch (repo corpus + mail). Ladybug
+- `index_mail` is a deprecation shim for `bin/brain/index.go --rebuild`. Bulk
-  corrupts its WAL when brand-new leafs are bulk-inserted while FTS/vector
+  rebuild still deletes `var/kb.lbug` and creates FTS/HNSW last. Single-leaf
-  indexes exist; a fresh DB with indexes created last is the only safe path.
+  write is `bin/brain/add.go` (safe while indexes exist; do not DROP INDEX).
   Keep conversion + indexing separate so a conversion crash can't leave the
   DB mid-transaction.
 
 ## Tools
 
 ```bash
-bin/facts/audit ["self"|"facts"|"info"|"stale"]   # 2-source + staleness gate
+bin/facts/audit.go ["self"|"db"|"contradict"]     # 2-source + D16 adjudication
-bin/facts/crm [--dry-run]                         # proof person↔company/company↔project (ooCRM × corpus SoT)
+bin/facts/crm.go [--dry-run]                       # proof person↔company/company↔project (ooCRM × corpus SoT)
 bin/kb/search "query" [--repo X]                  # deprecated wrapper → bin/brain/search.go
 bin/brain/search.go "query" [--root facts|info]   # deduction search → YAML
+bin/brain/search.go "query" --no-web              # local graph only
+source <(./bin/cli/complete.go bash)              # flaggy completions (D23)
+eval "$(bin/cgo/zig env)"                         # Zig cc + liblbug (not gcc)
+bin/brain/index.go --rebuild [--with-mail] [--with-facts] [--with-chats]
+bin/brain/add.go --text T --root facts --source "a.md x b.md"  # incremental write
+bin/brain/add.go --json                                      # stdin leaf or {leafs:[...]}
+bin/brain/get.go <id> [--body] [--json]          # Go read; Python bin/kb/get CI fallback
+bin/brain/stats.go [--json]
+bin/brain/eval.go [--json]                       # recall@5; questions in internal/brain/rank
+bin/brain/serve.go                               # HTTP :8630; GET /openapi.json POST /mcp
+bin/markdown/import.go [dir]                      # H2 leafs → YAML; Python bin/md/import fallback
+bin/git/import.go [REPO] [--json] [--limit N]     # go-git history → commit leafs
+bin/web/search.go "query" [--json]                # SearXNG; throttled ≠ absence
+bin/reasoner/bakeoff.go [--model ID] [--json]     # D18 CPU tool-call bake-off
+bin/postgres/query.go --profile onlyoffice -c 'SELECT 1'
+bin/qa/stats.go                                  # D22 DuckDB quantiles / JSONL (gcc CGO)
+bin/mail/ocr.go <image|pdf>                      # tesseract eng+deu (scans)
 bin/md/tables                                     # what the graph holds → YAML
 bin/brain/deduce "question"                       # thinking wrapper
 ```
 
 Never start a shell command with `cd` — use the tool working-directory
-parameter. Search before reading whole files.
+parameter. Search before reading whole files. For YAML/JSON/XML/CSV/TOML/HCL
+prefer mikefarah/yq (`skills/yq/SKILL.md`). For bulk rows and quantiles use
+duckdb-go (`internal/duckstats`, `skills/duckdb/SKILL.md`), not Ladybug.
 
 ## GitHub safety rules (ABSOLUTE — never violate)
 

Dockerfile

@@ -1,5 +1,13 @@
 # syntax=docker/dockerfile:1
-FROM python:3.12-slim AS base
+#
+#   docker build --target api -t 2dph:api .
+#   docker build --target index -t 2dph:index .
+#
+# API: Go + ladybug via Zig CGO (no CPython).
+# Index: Python write path (profile `index` until brain/add is v2).
+
+# --- Python sidecar (Ladybug write / rebuild) ---
+FROM python:3.12-slim AS index
 
 ENV PYTHONUNBUFFERED=1 \
     PYTHONDONTWRITEBYTECODE=1 \
@@ -8,26 +16,16 @@ ENV PYTHONUNBUFFERED=1 \
 
 WORKDIR /app
 RUN id -u 2dph 2>/dev/null || useradd --create-home --uid 1001 2dph
+RUN apt-get update \
+    && apt-get install -y --no-install-recommends \
+         poppler-utils tesseract-ocr tesseract-ocr-eng tesseract-ocr-deu \
+    && rm -rf /var/lib/apt/lists/*
 
-# deps layer-first: rebuild only on dependency change
 COPY requirements.lock.txt /tmp/requirements.lock.txt
 RUN python -m pip install --no-cache-dir -r /tmp/requirements.lock.txt \
     && rm /tmp/requirements.lock.txt
 
-# Go services: static binaries, no interpreter at runtime
-FROM golang:1.25 AS go-build
-WORKDIR /src
-COPY go.mod ./
-COPY bin/server ./bin/server
-COPY bin/watch ./bin/watch
-RUN CGO_ENABLED=0 go build -o /serve ./bin/server \
-    && CGO_ENABLED=0 go build -o /watch ./bin/watch
-
-# runtime: python toolchain + Go services
-FROM base
 COPY . .
-COPY --from=go-build /serve /app/bin/serve
-COPY --from=go-build /watch /app/bin/watch
 RUN chmod +x /app/bin/docker-entrypoint \
     && chown -R 2dph:2dph /app
 USER 2dph
@@ -37,5 +35,51 @@ ENV PATH="/app/bin:${PATH}" \
     KB_ROOT=/app
 HEALTHCHECK --interval=30s --timeout=5s --start-period=10s --retries=3 \
     CMD python -c "import model2vec, ladybug, mistune; print('ok')" || exit 1
-
 ENTRYPOINT ["/app/bin/docker-entrypoint"]
+
+# --- Go API: CGO with Zig, not gcc ---
+FROM golang:1.26-bookworm AS api-build
+WORKDIR /src
+RUN apt-get update \
+    && apt-get install -y --no-install-recommends curl xz-utils ca-certificates \
+    && rm -rf /var/lib/apt/lists/*
+
+COPY bin/cgo ./bin/cgo
+RUN chmod +x bin/cgo/zig bin/cgo/zcc bin/cgo/zc++ \
+    && ./bin/cgo/zig env >/dev/null
+
+COPY go.mod go.sum ./
+RUN go mod download
+
+COPY . .
+ENV CGO_RPATH=/usr/local/lib
+RUN eval "$(./bin/cgo/zig env)" \
+    && go build -tags brain_serve,system_ladybug -o /out/brain-serve ./bin/brain/serve.go \
+    && go build -tags system_ladybug -o /out/brain-search ./bin/brain/search.go \
+    && CGO_ENABLED=0 go build -tags brain_watch -o /out/brain-watch ./bin/brain/watch.go
+
+FROM debian:bookworm-slim AS api
+RUN apt-get update \
+    && apt-get install -y --no-install-recommends libssl3 ca-certificates wget \
+    && rm -rf /var/lib/apt/lists/* \
+    && useradd --create-home --uid 1001 2dph
+COPY --from=api-build /out/brain-serve /usr/local/bin/brain-serve
+COPY --from=api-build /out/brain-search /usr/local/bin/brain-search
+COPY --from=api-build /out/brain-watch /usr/local/bin/brain-watch
+COPY --from=api-build /src/lib-ladybug/liblbug.so.0.19.1 /usr/local/lib/liblbug.so.0.19.1
+COPY bin/docker-entrypoint /usr/local/bin/docker-entrypoint
+RUN chmod +x /usr/local/bin/docker-entrypoint \
+    && ln -s liblbug.so.0.19.1 /usr/local/lib/liblbug.so.0 \
+    && ln -s liblbug.so.0 /usr/local/lib/liblbug.so \
+    && ldconfig
+USER 2dph
+ENV KB_ROOT=/data \
+    KB_PORT=8630 \
+    LD_LIBRARY_PATH=/usr/local/lib \
+    HF_HOME=/data/hf
+WORKDIR /data
+EXPOSE 8630
+HEALTHCHECK --interval=30s --timeout=5s --start-period=10s --retries=3 \
+    CMD wget -qO- http://127.0.0.1:8630/health || exit 1
+ENTRYPOINT ["/usr/local/bin/docker-entrypoint"]
+CMD ["serve"]

PLAN.md

@@ -4,7 +4,13 @@ A brain that loves facts and deduction. Evidence-first knowledge graph + hybrid
 RAG over the operational Brain/ops/eSlider stack. Built like Sherlock
 Holmes: nothing is asserted unless it has proof.
 
-Status: **in progress** — this file is the plan and the record of decisions.
+Status: **v1 in** (epic [#16](https://git.produktor.io/eSlider/2dph/issues/16) closed).
+v2 board: milestone [v2](https://git.produktor.io/eSlider/2dph/milestone/13) —
+OCR [#6](https://git.produktor.io/eSlider/2dph/issues/6) in,
+[#29](https://git.produktor.io/eSlider/2dph/issues/29) OQ1 in,
+[#30](https://git.produktor.io/eSlider/2dph/issues/30) OQ3 in,
+[#34](https://git.produktor.io/eSlider/2dph/issues/34) D23 in.
+Gap: [docs/roadmap.md](docs/roadmap.md).
 
 ## What
 
@@ -26,12 +32,12 @@ detective method: **a fact needs ≥2 independent sources or it is
 |---|----------|--------|
 | D1 | RAG corpus | ops stack (chat, onlyoffice, gitea/NPM, searchxng, observability, ai-bot, mcp-servers, `~/.ssh/config`) + portfolio. Exclude `office.dev` + jobs/applications. |
 | D2 | skill merging | integrate skills **in this project** `skills/`; skip gitea / brain-dependent skills. |
-| D3 | web search | Vendored client; SearXNG URL is config. Optional Compose instance (sanitized settings). Do not run a second copy on a host that already has one. Empty/`throttled` ≠ “nothing exists”. |
+| D3 | web search | Go client `bin/web/search.go` (`internal/websearch`). SearXNG URL is config (`BRAIN_SEARCH_URL`). Optional Compose profile `searxng` (sanitized settings). Do not run a second copy on a host that already has one. Empty/`throttled` ≠ “nothing exists”. |
 | D4 | embeddings | **model2vec** `minishlab/potion-multilingual-128M` instead of embeddinggemma. |
 | D5 | parser | **mistune** for MD → leaf extraction (duckdb-md documented as future optional SQL/export layer, not v1). |
-| D6 | graph engine | **LadybugDB**. Go is the service (`bin/brain/search.go`, `internal/brain`); Python remains for index/write until the Go write path is safe. |
+| D6 | graph engine | **LadybugDB**. Go is the service (`bin/brain/search.go`, `bin/brain/serve.go` in-process, `internal/brain`). Read path is Go + Zig CGO (D21). Python `bin/kb/{get,stats,eval}` is the CI fallback when Zig/libs are not fetched. Incremental write is Python `bin/kb/add` (`bin/brain/add.go`). Bulk rebuild stays `compose --profile index` until the Go write path is safe. |
 | D7 | db access | `db-yaml`/`psql-yq`-style, read-only, YAML out. OnlyOffice Postgres via SSH tunnel (`127.0.0.1:5433`). |
-| D8 | evidence | detective method: ≥2 independent sources or `(not confirmed)`. Auto-pair docker ps × compose × ssh-config × docs. |
+| D8 | evidence | detective method: ≥2 independent sources or `(not confirmed)`. 2-source auto-pair docker ps × compose × ssh-config × docs. |
 | D9 | facts/goal model | Who / What / How / Where / When + evidence + confidence on every edge. |
 | D10 | versioning | everything is a leaf with `sha256 + observed_at + source_rev`; `File-[:HAS_VERSION]->Commit-[:AUTHORED]->Person`. Stale = `source_rev` < git HEAD. |
 | D11 | strong/weak | `root` column: `facts` (strong) vs `info` (weak). Answer is `confirmed` only from facts root. |
@@ -39,9 +45,14 @@ detective method: **a fact needs ≥2 independent sources or it is
 | D13 | portfolio | start graph `(Person:eslider)-[:HAS]->(Portfolio)`, associate other natural/juristic persons later. |
 | D14 | tooling style | `bin/{subject}/{method}.go` shebang (e.g. `bin/brain/search.go`). Shared code in `internal/`. One root `go.mod` + `go.work`. No `bin/*/main.go`, no nested modules. |
 | D15 | repo | Gitea [`eSlider/2dph`](https://git.produktor.io/eSlider/2dph) is origin + [issues](https://git.produktor.io/eSlider/2dph/issues). GitHub `eSlider/2dph` is the public clone (PRs + Actions CI). No direct `main` pushes. TDD → PR → CI green → merge. |
-| D16 | contradictions | ≥2 yes vs ≥2 no → unrelated sources conflict → hypothesis → `(not confirmed)`. Resolution (authority, staleness adjudication) = **v2**, tracked as open question. |
+| D16 | contradictions | ≥2 yes vs ≥2 no → hypothesis → `(not confirmed)` until a rule fires. Order: **temporal_freshness** (fresh ≥2 vs stale minority), then **authority_pairing** (runtime/config A×B beats narrative C). Store as `a x b vs c x d` on hypothesis leafs. `bin/facts/audit contradict`. [#29](https://git.produktor.io/eSlider/2dph/issues/29). |
-| D17 | assertion gate | Fact-check every *claim* (facts → info → live sources → web), not every edit. Missing graph ≠ “does not exist”. |
+| D17 | assertion gate | Fact-check every *claim* (facts → info → live → web), not every edit. `bin/brain/search.go` adds a `web` block when there is no facts hit (`throttled`/`skipped`/`refused` ≠ absence). `--root` and `--no-web` stay local. Missing graph ≠ “does not exist”. |
-| D18 | reasoner | Pluggable OpenAI-compatible URL. RAM: Qwen3.5-9B. Quality: Bonsai-27B or Qwen3.6-27B. No official Qwen3.6-9B. |
+| D18 | reasoner | Pluggable OpenAI-compatible URL (`REASONER_BASE_URL`). RAM: `Qwen/Qwen3.5-9B`. Quality: `prism-ml/Bonsai-27B-gguf` or `Qwen/Qwen3.6-27B`. No official Qwen3.6-9B. CPU bake-off: `bin/reasoner/bakeoff.go` + compose profile `reasoner` (`OLLAMA_NUM_GPU=0`, `:11435`). PicoClaw is compose profile `picoclaw`; tools are `search`/`get`/`audit`. Weights are not copied into the 2dph image. Agent lever/loop: [#15](https://git.produktor.io/eSlider/2dph/issues/15). |
+| D19 | git history | [go-git](https://github.com/go-git/go-git) via `bin/git/import.go`. No subprocess of the git binary. Conversion prints commit leafs; brain write is `bin/brain/index.go`. |
+| D20 | agent API | OpenAPI + MCP are generated from the same `internal/httpapi.Ops` table as `bin/brain/serve.go` handlers. `GET /openapi.json`, `POST /mcp` (JSON-RPC tools/list + tools/call). Tool names match OpenAPI paths (`search`/`get`/`stats`/`audit`/`ingest`). |
+| D21 | CGO | Ladybug/tokenizers CGO is compiled with **Zig** (`bin/cgo/zcc` → `zig cc -target …-linux-gnu`), not gcc. `bin/cgo/zig` pins Zig 0.14.1 + liblbug 0.19.1 + libtokenizers 1.27.0. Compose `target: api` has no CPython; write/rebuild is profile `index`. |
+| D22 | analytics | **duckdb-go** in-process (`internal/duckstats`, `bin/qa/stats.go`) for quantiles/JSONL. Links with **gcc/g++**, not Zig. Ladybug stays the graph; web-search cache stays modernc sqlite. Slice small structured docs with **mikefarah/yq**, not kislyuk/jq. [#30](https://git.produktor.io/eSlider/2dph/issues/30). |
+| D23 | CLI | **flaggy** (`github.com/integrii/flaggy`, 0 deps). Flags at any position. Wrapper `internal/cli`. Bash complete: `source <(./bin/cli/complete.go bash)`. No cobra, no stdlib `flag` in Go tools. Search does not intercept the word `completion`. [#34](https://git.produktor.io/eSlider/2dph/issues/34). |
 
 ## Architecture
 
@@ -49,17 +60,31 @@ detective method: **a fact needs ≥2 independent sources or it is
 2dph/
   PLAN.md / AGENTS.md
   docs/                     published docs (this conversation → docs/ as md)
-  skills/                   in-project skills (web-search, db-yaml, kb-search, agent-cost, diataxis-docs, …)
+  skills/                   in-project skills (web-search, postgres, brain, picoclaw, diataxis-docs)
   bin/
-    facts/extract           auto-pair 2 sources → lexicon yaml + graph
+    facts/extract.go audit.go crm.go  # D14 shebang; Python implementation
-    facts/audit             ["self"|"facts"|"info"|"stale"] 2-source + staleness gate
+    kb/index                Python bulk write (called by bin/brain/index.go)
-    kb/index                build FTS + HNSW from corpus (Python, for now)
+    kb/add                  Python incremental write (called by bin/brain/add.go)
-    brain/search.go         deduction: facts → info → web-search
+    brain/index.go          rebuild FTS + HNSW (incl. --with-mail)
-    kb/get  kb/stats  kb/eval
+    brain/add.go            incremental leaf write (no rebuild)
-    brain/serve.go          HTTP API (internal/httpapi)
+    brain/get.go stats.go eval.go  # Go read (cgo); Python bin/kb/* CI fallback
-    md/import  md/select  md/tables  md/gaps     (mistune)
+    brain/watch.go
+    brain/search.go         deduction: facts → info → web
+    cli/complete.go         flaggy bash/zsh/fish complete (D23)
+    brain/serve.go          HTTP API in-process + OpenAPI/MCP (D20); Zig CGO (D21)
+    cgo/zig zcc zc++        CGO toolchain (zig cc, not gcc)
+    mail/import.go          JSON → markdown (no brain write)
+    markdown/import.go      H2 leaf split (Go); Python bin/md/import fallback
+    postgres/query.go       read-only YAML (wraps bin/db/psql-yq)
+    git/import.go           go-git history (no git binary; conversion only)
+    web/search.go           SearXNG client (throttled ≠ absence)
+    reasoner/bakeoff.go     CPU tool-call bake-off (D18; OpenAI tools)
+    chats/sync.go import.go facts.go apply.go
+                            (libs in internal/chats; no chats index)
+    mail/ocr.go             tesseract eng+deu (pdftoppm scans)
+    md/import               (deprecated; bin/markdown/import.go)
     brain/extract  brain/audit   brain/deduce    (thinking wrapper)
-    web/search               (vendored)
+    web/search               (deprecated shim → web/search.go)
     db/psql-yq               (vendored)
     ssh-tunnel               onlyoffice pg tunnel 5433
   var/kb.lbug               single embedded store (gitignored)
@@ -70,7 +95,10 @@ detective method: **a fact needs ≥2 independent sources or it is
 
 Node tables: `Person, Service, Host, Container, Repo, File, Commit, Leaf`.
 `Leaf(embedding FLOAT[N])` — FTS on `text`, HNSW vector index on `embedding`.
-Edges: `RUNS / USES / HAS_VERSION / AUTHORED / ABOUT / ASSOCIATED / SIMILAR_0.85`.
+Edges: `RUNS / USES / FROM_FILE / HAS_VERSION / AUTHORED / ABOUT / ASSOCIATED / SIMILAR_0.85`.
+`FROM_FILE` / `HAS_VERSION` / `AUTHORED`: `bin/brain/search.go --hop N` walks
+them from each hit (1=File, 2=Commit, 3=Person). Rebuild writes
+`Leaf-[:FROM_FILE]->File`; git import writes the rest.
 
 Common props on every node/edge: `root`, `confidence`, `evidence[]`, `how`,
 `where`, `when`, `source_rev`.
@@ -88,17 +116,20 @@ Common props on every node/edge: `root`, `confidence`, `evidence[]`, `how`,
 
 - `bin/{subject}/{method}` — line 2 is a usage comment (mirrors `psql-yq`).
 - bash + python primary; golang via Go shebang when a compiled helper is right.
-- YAML default output, `--json` for machines. Slice with `yq`.
+- YAML default output, `--json` for machines. Slice with mikefarah/yq.
 - Everything that touches the network / DB is read-only, throttled, cached.
 - Tests (TDD) gate every commit; `gh` + CI/CD on every push.
 
 ## Open questions (v2)
 
-- OQ1: mutually-contradicting evidence — how to resolve (authority weighting,
+- OQ1: **in** — D16 adjudication: `temporal_freshness` then `authority_pairing`.
-  temporal freshness, audit adjudication).
+  Unresolved 2v2 stays hypothesis. [#29](https://git.produktor.io/eSlider/2dph/issues/29).
-- OQ2: OCR pipeline for pdfs/images/docs — mostly solved: poppler pdftotext
+- OQ2: OCR — **in**. `pdftotext -layout` first; scans `pdftoppm` + tesseract
-  fast-path for born-digital PDFs, docling fallback for the ~5% textless ones.
+  `eng+deu` (`bin/mail/ocr.go`, `internal/ocr`). No gocv, no gosseract CGO
-- OQ3: optional duckdb-md layer for `SELECT … FORMAT MARKDOWN` export/write-back.
+  (D21 Zig owns Ladybug CGO). Optional `OCR_ENGINE=paddle` / compose profile
+  `ocr-paddle`. Docling left the default path. [#6](https://git.produktor.io/eSlider/2dph/issues/6).
+- OQ3: **in** — duckdb-go (`internal/duckstats`, `bin/qa/stats.go`) for
+  quantiles / JSONL count. Not a second graph. [#30](https://git.produktor.io/eSlider/2dph/issues/30).
 - OQ4: YAML-first storage for leafs — deferred: JSON is ~10x faster to
   serialize and unambiguous; YAML only where humans edit files.
 
@@ -106,12 +137,14 @@ Common props on every node/edge: `root`, `confidence`, `evidence[]`, `how`,
 
 1. `bin/mail/sync.go` (Go, 8 workers) — paginated Gmail/OnlyOffice download.
    Gmail attachments key off `body.attachmentId`, not MIME `partId`.
-2. `bin/mail/import --from-raw` — message.json → message.md; PDFs via
+2. `bin/mail/import.go --from-raw` — message.json → message.md; PDFs via
-   `pdftotext -layout` (~15ms) with docling subprocess fallback; ICS sidecars
+   `pdftotext -layout` (~15ms); textless/scanned PDFs `pdftoppm` + tesseract
+   `eng+deu`. ICS sidecars
    Latin-1→UTF-8 normalized.
-3. `bin/mail/index_mail` — fresh rebuild (repo corpus + mail) because ladybug
+3. `bin/brain/index.go --rebuild` — fresh rebuild (repo corpus + mail) because ladybug
    corrupts its WAL on bulk-insert into an already-indexed DB. Conversion and
-   indexing stay separate for crash safety.
+   indexing stay separate for crash safety. `bin/mail/index_mail` is a
+   deprecation shim.
 4. Result: 17,835 messages → 28,918 info leafs, FTS + HNSW healthy, searchable
    via `bin/brain/search.go`.
 
@@ -122,9 +155,10 @@ Common props on every node/edge: `root`, `confidence`, `evidence[]`, `how`,
 1. go vet + go test ./... (root module; packages without ladybug cgo)
 2. `go test ./internal/brain/rank` (cgo-free ranking + flag parser)
 3. python -m unittest discover -s bin/tools (includes published-docs SoT)
-4. bin/facts/audit self  (lexicon internal consistency)
+4. `bin/facts/audit self` (lexicon internal consistency; `bin/facts/audit.go` is the D14 wrapper)
-5. bin/kb/eval            (recall@5 ≥ 0.95, gates index regressions)
+5. `bin/brain/eval.go` via Zig (recall@5 ≥ 0.95). Python `bin/kb/eval` is an
-6. md-docs build/lint if docs tooling arrives.
+   explicit fallback, not the CI SoT.
+6. `bin/cgo/zig go build -tags system_ladybug` (compile search with zig cc; fetches pinned zig+libs).
 
 Feedback loop: every commit → PR → CI → green/gate → merge. Same discipline as
 `db/tech-poc`: contract first where there is an OpenAPI/message shape.
@@ -133,9 +167,26 @@ Feedback loop: every commit → PR → CI → green/gate → merge. Same discipl
 
 1. scaffold repo (:done after this file + AGENTS.md + .gitignore + ci)
 2. gh repo create eSlider/2dph --private + initial commit + CI
-3. vendored skill integration (web-search, db-yaml, kb-search, agent-cost, diataxis-docs) — no remote links
+3. vendored skill integration (web-search, postgres, brain, diataxis-docs) — no remote links
 4. .venv: ladybug + model2vec + mistune
 5. schema + tools with TDD (kb + md + facts + brain)
 6. ~/.config/brain config
-7. corpus extraction (facts/info)
+7. corpus extraction (facts/info) — **in**: [#18](https://git.produktor.io/eSlider/2dph/issues/18)
 8. verify: web-search smoke, onlyoffice pg, md-db round-trip, eval, audit
+
+## Gap to v1 (epic #16)
+
+Remaining: none for epic #16 (v1). Board:
+[epic #16](https://git.produktor.io/eSlider/2dph/issues/16),
+milestone [v1 detective brain](https://git.produktor.io/eSlider/2dph/milestone/12).
+Narrative: [docs/roadmap.md](docs/roadmap.md).
+
+| Order | Issue | Gap |
+|-------|-------|-----|
+| 1 | [#14](https://git.produktor.io/eSlider/2dph/issues/14) | **in** — `bin/brain/add.go` / `POST /ingest` write facts+info without deleting `kb.lbug`. Bulk corpus still `--rebuild`. Leftover Python (mail/facts) is not the living-graph blocker. |
+| 2 | [#17](https://git.produktor.io/eSlider/2dph/issues/17) | **in** — `--hop N` walks `FROM_FILE` → `HAS_VERSION` → `AUTHORED` (max 3). |
+| 3 | [#18](https://git.produktor.io/eSlider/2dph/issues/18) | **in** — `--with-facts` / `--facts-json` land `root=facts`; `--with-chats` indexes `var/chats/md`. WhatsApp sync is out of v1. |
+| 4 | [#15](https://git.produktor.io/eSlider/2dph/issues/15) | **in** — lever/loop documented (`search` → `get` → `audit`). |
+| 5 | [#19](https://git.produktor.io/eSlider/2dph/issues/19) | **in** — CI recall SoT is `bin/brain/eval.go` via Zig. Python `bin/kb/eval` stays as an explicit fallback. |
+
+Does **not** block epic close: OQ4. OCR [#6](https://git.produktor.io/eSlider/2dph/issues/6), OQ1 [#29](https://git.produktor.io/eSlider/2dph/issues/29), OQ3 [#30](https://git.produktor.io/eSlider/2dph/issues/30) are **in**.

README.md

@@ -7,14 +7,16 @@
 [![Latest Release](https://img.shields.io/github/v/tag/eSlider/2dph?sort=semver&label=release)](https://github.com/eSlider/2dph/releases)
 [![GitHub Stars](https://img.shields.io/github/stars/eSlider/2dph?style=social)](https://github.com/eSlider/2dph/stargazers)
 
-An evidence-first brain over the operational eSlider stack. **Facts need two
+An evidence-first brain. **Facts need two independent sources, or they are
-independent sources, or they are `(not confirmed)`.**
+`(not confirmed)`.** Cursor is not the runtime.
 
-`2dph` is a single embedded knowledge graph (LadybugDB = Kuzu successor) with
+`2dph` is a single embedded knowledge graph (LadybugDB) with native **HNSW
-native **HNSW vector** + **BM25 full-text** indexes, built from markdown,
+vector** + **BM25 full-text** indexes. Search is *deduction*: confirmed facts
-compose files, ssh config, docker state, and git history. Search is
+first, supporting info second, `web-search` as the independent second source
-*deduction*: confirmed facts first, supporting info second, `web-search` as
+when the local graph cannot confirm.
-the independent second source when the local graph cannot confirm.
+
+Run it: [docs/runbook.md](docs/runbook.md). Design: [docs/design.md](docs/design.md).
+Docs index: [docs/README.md](docs/README.md).
 
 ## Architecture
 
@@ -28,10 +30,10 @@ graph TB
     end
 
     subgraph dph["2dph tools"]
-        EX["bin/facts/extract<br/>2-source pairing"]
+        EX["bin/facts/extract.go<br/>2-source pairing"]
-        AU["bin/facts/audit<br/>confidence + staleness"]
+        AU["bin/facts/audit.go<br/>confidence + staleness"]
-        IDX["bin/kb/index<br/>chunk + embed"]
+        IDX["bin/brain/index.go<br/>chunk + embed"]
-        MD["bin/md/import<br/>mistune leaves"]
+        MD["bin/markdown/import.go<br/>H2 leaf split"]
         SR["bin/brain/search.go<br/>deduction"]
     end
 
@@ -74,7 +76,7 @@ graph TB
 ## The method
 
 Every assertion is `Who / What / How / Where / When + evidence + confidence`,
-mirroring the detective detective skill: **≥2 independent sources confirm a
+mirroring the detective method: **≥2 independent sources confirm a
 fact; conflicting sources or a single source → `hypothesis` → `(not confirmed)`.**
 
 | root | meaning | used for answers |
@@ -85,72 +87,100 @@ fact; conflicting sources or a single source → `hypothesis` → `(not confirme
 ## Deduction search
 
 ```bash
-bin/brain/search.go "Matrix federation over HTTPS"   # facts → info → web-search
+bin/brain/search.go "Matrix federation over HTTPS"   # facts → info → web
 bin/brain/search.go "onlyoffice postgres" --root facts
 bin/brain/search.go "where is cs-lexicon" --json | yq '.'
-bin/kb/get <id> --body                               # full chunk on demand
+bin/brain/search.go "upstream flag" --no-web         # local graph only
-bin/kb/stats                                         # index health
+bin/brain/get.go <id> --body                         # full chunk on demand
-bin/kb/eval                                          # recall@5 gate
+bin/brain/stats.go                                   # index health
+bin/brain/eval.go                                    # recall@5 gate
 ```
 
-`--hop` is not implemented (needs File/FROM_FILE edges); the flag errors instead of walking. `bin/kb/search` is a deprecated wrapper around `bin/brain/search.go`.
+`--hop N` walks File/Commit/Person from each hit (max 3). `bin/kb/search` is a deprecated wrapper around `bin/brain/search.go`.
+
+Git history is read with [go-git](https://github.com/go-git/go-git) (no git binary):
+
+```bash
+bin/git/import.go --json --limit 100              # commit leafs for this repo
+bin/git/import.go --root "$PROJECTS_ROOT" --json  # one pass per .git under root
+```
+
+Conversion only. Graph write (`File-[:HAS_VERSION]->Commit-[:AUTHORED]->Person`) stays with `bin/brain/index.go`.
+
+Web search (second independent source) goes through SearXNG. Empty results mean **throttled**, not “nothing exists”:
+
+```bash
+bin/web/search.go "LadybugDB vector index" --json
+# Optional local instance (skip if BRAIN_SEARCH_URL already points at one):
+# SEARXNG_SECRET=$(openssl rand -hex 32) docker compose --profile searxng up -d
+```
 
 Mail is a first-class corpus (retrievable through the same search):
 
 ```bash
 bin/mail/sync.go --source onlyoffice,gmail --workers 8 --out var/mail  # raw sync (Go)
-bin/mail/import --from-raw var/mail                                     # JSON → markdown
+bin/mail/import.go --from-raw var/mail                                  # JSON → markdown
-bin/mail/index_mail                                                     # rebuild brain incl. mail
+bin/brain/add.go --text T --root facts --source "a.md x b.md"
+bin/brain/index.go --rebuild --with-facts --with-chats                  # facts extract + chats md
+bin/brain/index.go --rebuild                                            # rebuild brain (incl. mail)
 bin/brain/search.go "invoice from last week"                            # same search over mail leafs
 ```
 
 ## Storage
 
-- **LadybugDB** — single `var/kb.lbug`, Cypher property graph, HNSW + BM25
+- **LadybugDB** — single `var/kb.lbug`, Cypher + HNSW + BM25, embedded.
-  in one engine, embedded (no server), ACID, read-only-safe for concurrent
+  Read tools (`get` / `stats` / `eval`) are Go + Zig CGO (`bin/cgo/zcc`).
-  readers. **Never `DROP INDEX` FTS/VECTOR** on Ladybug 0.19: DROP leaves
+  Python fallbacks stay for CI until the runner fetches Zig. Incremental
-  ghost catalog tables (`_0_Leaf_vec_UPPER`) so recreate fails while
+  write is `bin/brain/add.go` (Python `kblib.add_leafs`). Bulk rebuild is
-  `SHOW_INDEXES` omits HNSW. Fresh indexes = delete `var/kb.lbug` +
+  Compose profile `index` (`bin/brain/index.go --rebuild`).
-  `bin/kb/index --rebuild`. Use `ensure_indexes()` after upserts.
+- **model2vec** — `potion-multilingual-128M` (256-dim), CPU, no Ollama
-- **model2vec** — `potion-multilingual-128M` static embeddings (256-dim),
+  runtime dependency.
-  CPU-fast, deterministic, no Ollama runtime dependency.
+- facts and info split by `root` but written in the same transaction.
-- facts and info split semantically by `root` column but written inside the
+
-  same transaction.
+Ladybug 0.19 DROP INDEX warning: [docs/runbook.md](docs/runbook.md).
 
 ## Tooling conventions
 
 `bin/{subject}/{method}.go` — self-describing: shebang on line 1, usage comment
 from line 2. Shared code in `internal/`. YAML default output, `--json` for
-machines. Tests gate every commit. HTTP: `bin/brain/serve.go` (default search
+machines. Tests gate every commit. HTTP: `bin/brain/serve.go` calls
-binary `var/bin/brain-search`, not Python).
+`internal/brain` in-process (`/health` `/search` `/get` `/stats` `/audit` `/ingest` `/openapi.json` `/mcp`).
 
 ## Development
 
+See the portable runbook: [docs/runbook.md](docs/runbook.md).
+
 ```bash
-uv venv .venv                                  # Python 3.12, uv-managed
+uv venv .venv
-uv pip install -r requirements.lock.txt        # pinned toolchain
+uv pip install -r requirements.lock.txt
-bin/facts/audit self                           # lexicon consistency gate
+bin/facts/audit.go self
-go test ./... && python -m unittest discover -s bin/tools -t .
+go test ./... && uv run python -m unittest discover -s bin/tools -t .
 ```
 
 Docker (optional, cached model + var volumes):
 
 ```bash
-docker compose run --rm brain index            # (re)index corpus
+docker compose up -d brain                     # API (Zig CGO serve :8630)
-docker compose run --rm brain search "query"   # one-shot query
+docker compose --profile index run --rm index  # Python Ladybug rebuild
-docker compose run --rm brain serve            # bin/brain/serve.go
+docker compose --profile picoclaw up brain-mcp # MCP on 127.0.0.1:8630
+docker compose --profile reasoner up -d reasoner  # CPU Ollama 127.0.0.1:11435
 docker compose up brain-watch                  # auto re-index on change
 ```
 
 ## Related
 
+eSlider DevOps engineer practice: ops, OnlyOffice, and mail feed the facts
+root through `bin/facts/extract` (two-source pairing).
+
 - [go-second-brain](https://github.com/eSlider/go-second-brain) — the earlier
   Neo4j + Qdrant + Matrix RAG brain
 - [agent-skills](https://github.com/eSlider/agent-skills) — upstream
-  skills (`web-search`, `db-yaml`, …) that 2dph integrates
+  skills (`web-search`, `postgres`, …) that 2dph integrates
 - detective method — the two-source method
 
-Work board (issues): [git.produktor.io/eSlider/2dph/issues](https://git.produktor.io/eSlider/2dph/issues).
+Work board (issues): [epic #16](https://git.produktor.io/eSlider/2dph/issues/16)
+on [git.produktor.io/eSlider/2dph/issues](https://git.produktor.io/eSlider/2dph/issues).
 PRs and CI: GitHub [`eSlider/2dph`](https://github.com/eSlider/2dph).
 
-See [PLAN.md](PLAN.md) for decisions, execution status, and v2 open questions.
+See [PLAN.md](PLAN.md) for decisions, [docs/roadmap.md](docs/roadmap.md) for
+the gap to v1, and v2 open questions.

bin/brain/add.go

@@ -0,0 +1,21 @@
+//usr/bin/env go run -tags=brain_add "$0" "$@"; exit
+//go:build brain_add
+//
+// bin/brain/add.go - incremental leaf write (Python kblib, no rebuild).
+//
+//	./bin/brain/add.go --text T --root facts --source "a.md x b.md"
+//	./bin/brain/add.go --json
+//
+// D6: write stays Python. Does not delete var/kb.lbug.
+// NOTE: never run `gofmt -w` on this file — it breaks the shebang.
+package main
+
+import (
+	"os"
+
+	"github.com/eSlider/2dph/internal/cmdbin"
+)
+
+func main() {
+	os.Exit(cmdbin.ExecFile("bin/kb/add", os.Args[1:]))
+}

bin/brain/doc.go

@@ -1,3 +1,3 @@
-// Commands in this directory are shebang mains (search.go).
+// Commands in this directory are shebang mains (search.go, serve.go, index.go,
-// search.go is behind the system_ladybug build tag (cgo).
+// get.go, stats.go, eval.go, watch.go), each behind an exclusive build tag.
 package main

bin/brain/eval.go

@@ -0,0 +1,22 @@
+//usr/bin/env go run -tags=system_ladybug,brain_eval "$0" "$@"; exit
+//go:build cgo && system_ladybug && brain_eval
+//
+// bin/brain/eval.go - recall@5 gate.
+//
+//	./bin/brain/eval.go
+//	./bin/brain/eval.go --json
+//
+// Needs CGO + libladybug. Python bin/kb/eval is the CI fallback (no cgo).
+// Control questions live in internal/brain/rank (cgo-free).
+// NOTE: never run `gofmt -w` on this file — it breaks the shebang.
+package main
+
+import (
+	"os"
+
+	"github.com/eSlider/2dph/internal/brain"
+)
+
+func main() {
+	os.Exit(brain.MainEval(os.Args[1:]))
+}

bin/brain/get.go

@@ -0,0 +1,23 @@
+//usr/bin/env go run -tags=system_ladybug,brain_get "$0" "$@"; exit
+//go:build cgo && system_ladybug && brain_get
+//
+// bin/brain/get.go - read one leaf by id.
+//
+//	./bin/brain/get.go <id>
+//	./bin/brain/get.go <id> --body
+//	./bin/brain/get.go <id> --json
+//
+// Needs CGO + libladybug. Python bin/kb/get is the CI fallback (no cgo).
+// CGO compiler is Zig (`eval "$(bin/cgo/zig env)"`), not gcc.
+// NOTE: never run `gofmt -w` on this file — it breaks the shebang.
+package main
+
+import (
+	"os"
+
+	"github.com/eSlider/2dph/internal/brain"
+)
+
+func main() {
+	os.Exit(brain.MainGet(os.Args[1:]))
+}

bin/brain/index.go

@@ -0,0 +1,24 @@
+//usr/bin/env go run -tags=brain_index "$0" "$@"; exit
+//go:build brain_index
+//
+// bin/brain/index.go - rebuild the Ladybug graph (Python write path).
+//
+//	./bin/brain/index.go --rebuild --with-facts --with-chats
+//	./bin/brain/index.go --rebuild --with-mail
+//	./bin/brain/index.go --dry-run --with-mail
+//
+// v1 write: bin/brain/add.go for one/few leafs (indexes may already exist).
+// Bulk mail/corpus still --rebuild (fresh file, indexes last).
+// NOTE: never run `gofmt -w` on this file — it breaks the shebang.
+package main
+
+import (
+	"os"
+
+	"github.com/eSlider/2dph/internal/cmdbin"
+)
+
+func main() {
+	args := append([]string{"--with-mail"}, os.Args[1:]...)
+	os.Exit(cmdbin.ExecFile("bin/kb/index", args))
+}

bin/brain/search.go

@@ -3,11 +3,11 @@
 //
 // bin/brain/search.go - deduction search over the 2dph brain.
 //
-//	./bin/brain/search.go "query" [--root facts|info] [--repo P] [-n N] [--json]
+//	./bin/brain/search.go "query" [--root facts|info] [--repo P] [-n N] [--hop N] [--json] [--no-web]
 //	./bin/brain/search.go serve [port]
 //	./bin/brain/search.go --list-model
 //
-// Needs CGO + libladybug (CGO_CFLAGS/CGO_LDFLAGS). Prefer the wrapper
+// Needs CGO + libladybug via Zig (`eval "$(bin/cgo/zig env)"`), not gcc.
 // bin/kb/search which sets those and builds a binary for the embed daemon.
 // NOTE: never run `gofmt -w` on this file — it breaks the shebang.
 package main

bin/brain/serve.go

@@ -1,18 +1,23 @@
-//usr/bin/env go run -tags=brain_serve "$0" "$@"; exit
+//usr/bin/env go run -tags=brain_serve,system_ladybug "$0" "$@"; exit
-//go:build brain_serve
+//go:build brain_serve && cgo && system_ladybug
 //
-// bin/brain/serve.go - HTTP API for the 2dph brain.
+// bin/brain/serve.go - HTTP API (in-process ladybug search).
 //
 //	KB_ROOT=/path/to/2dph ./bin/brain/serve.go
-//	KB_SEARCH_CMD=... KB_WORKERS=4 KB_PORT=8630 ./bin/brain/serve.go
+//	KB_WORKERS=4 KB_PORT=8630 ./bin/brain/serve.go
 //
-// Default search backend is var/bin/brain-search (Go), not Python.
+//	GET  /openapi.json  same Ops table as the handlers
+//	POST /mcp           JSON-RPC tools/list + tools/call
+//
+// Needs CGO + libladybug (same as bin/brain/search.go).
 // NOTE: never run `gofmt -w` on this file — it breaks the shebang.
 package main
 
 import (
+	"log"
 	"os"
 
+	"github.com/eSlider/2dph/internal/brain"
 	"github.com/eSlider/2dph/internal/httpapi"
 )
 
@@ -22,5 +27,8 @@ func main() {
 			os.Setenv("KB_ROOT", wd)
 		}
 	}
-	httpapi.Run()
+	if err := brain.Ready(); err != nil {
+		log.Fatal(err)
+	}
+	httpapi.Run(brain.HTTP{})
 }

bin/brain/serve_exec.go

@@ -0,0 +1,20 @@
+//go:build brain_serve && !system_ladybug
+//
+// Fallback serve when ladybug cgo is not in the build (CI / tags=brain_serve).
+// Production shebang is serve.go (in-process).
+package main
+
+import (
+	"os"
+
+	"github.com/eSlider/2dph/internal/httpapi"
+)
+
+func main() {
+	if os.Getenv("KB_ROOT") == "" {
+		if wd, err := os.Getwd(); err == nil {
+			os.Setenv("KB_ROOT", wd)
+		}
+	}
+	httpapi.Run(nil)
+}

bin/brain/stats.go

@@ -0,0 +1,21 @@
+//usr/bin/env go run -tags=system_ladybug,brain_stats "$0" "$@"; exit
+//go:build cgo && system_ladybug && brain_stats
+//
+// bin/brain/stats.go - index health.
+//
+//	./bin/brain/stats.go
+//	./bin/brain/stats.go --json
+//
+// Needs CGO + libladybug. Python bin/kb/stats is the CI fallback (no cgo).
+// NOTE: never run `gofmt -w` on this file — it breaks the shebang.
+package main
+
+import (
+	"os"
+
+	"github.com/eSlider/2dph/internal/brain"
+)
+
+func main() {
+	os.Exit(brain.MainStats(os.Args[1:]))
+}

bin/brain/watch.go

@@ -0,0 +1,20 @@
+//usr/bin/env go run -tags=brain_watch "$0" "$@"; exit
+//go:build brain_watch
+//
+// bin/brain/watch.go - re-index when corpus files change.
+//
+//	./bin/brain/watch.go [dir...]
+//	KB_WATCH_INTERVAL=15 ./bin/brain/watch.go
+//
+// NOTE: never run `gofmt -w` on this file — it breaks the shebang.
+package main
+
+import (
+	"os"
+
+	"github.com/eSlider/2dph/bin/watch"
+)
+
+func main() {
+	watch.Run(os.Args[1:])
+}

bin/cgo/zc++

@@ -0,0 +1,23 @@
+#!/bin/sh
+# bin/cgo/zc++ — CGO CXX. Zig, not g++.
+set -eu
+ROOT="$(CDPATH= cd -- "$(dirname "$0")/../.." && pwd)"
+case "$(uname -m)" in
+  x86_64|amd64) TARGET=x86_64-linux-gnu ;;
+  aarch64|arm64) TARGET=aarch64-linux-gnu ;;
+  *)
+    echo "zc++: unsupported arch $(uname -m)" >&2
+    exit 2
+    ;;
+esac
+if [ -n "${ZIG:-}" ] && [ -x "$ZIG" ]; then
+  :
+elif [ -x "$ROOT/var/zig/zig" ]; then
+  ZIG="$ROOT/var/zig/zig"
+elif command -v zig >/dev/null 2>&1; then
+  ZIG="$(command -v zig)"
+else
+  echo "zc++: zig missing; run bin/cgo/zig first" >&2
+  exit 127
+fi
+exec "$ZIG" c++ -target "$TARGET" "$@"

bin/cgo/zcc

@@ -0,0 +1,24 @@
+#!/bin/sh
+# bin/cgo/zcc — CGO CC. Zig, not gcc.
+# Go invokes CC with many args; a wrapper avoids spaces in $CC.
+set -eu
+ROOT="$(CDPATH= cd -- "$(dirname "$0")/../.." && pwd)"
+case "$(uname -m)" in
+  x86_64|amd64) TARGET=x86_64-linux-gnu ;;
+  aarch64|arm64) TARGET=aarch64-linux-gnu ;;
+  *)
+    echo "zcc: unsupported arch $(uname -m)" >&2
+    exit 2
+    ;;
+esac
+if [ -n "${ZIG:-}" ] && [ -x "$ZIG" ]; then
+  :
+elif [ -x "$ROOT/var/zig/zig" ]; then
+  ZIG="$ROOT/var/zig/zig"
+elif command -v zig >/dev/null 2>&1; then
+  ZIG="$(command -v zig)"
+else
+  echo "zcc: zig missing; run bin/cgo/zig first" >&2
+  exit 127
+fi
+exec "$ZIG" cc -target "$TARGET" "$@"

bin/cgo/zig

@@ -0,0 +1,130 @@
+#!/usr/bin/env bash
+# bin/cgo/zig — CGO toolchain: zig cc (not gcc) + pinned liblbug + libtokenizers.
+#
+#   eval "$(bin/cgo/zig env)"     # export CC/CXX/CGO_*
+#   bin/cgo/zig go build ...      # ensure, then exec with env
+#   bin/cgo/zig ./bin/brain/search.go "query"
+#
+# Pins live in this file. Downloads land in var/ (gitignored).
+set -euo pipefail
+
+ROOT="$(CDPATH= cd -- "$(dirname "$0")/../.." && pwd)"
+ZIG_VERSION=0.14.1
+LBUG_VERSION=0.19.1
+TOKENIZERS_VERSION=1.27.0
+
+arch="$(uname -m)"
+case "$arch" in
+  x86_64|amd64)
+    ZIG_ARCH=x86_64
+    LBUG_ARCH=x86_64
+    TOK_ARCH=x86_64
+    ZIG_SHA=24aeeec8af16c381934a6cd7d95c807a8cb2cf7df9fa40d359aa884195c4716c
+    LBUG_SHA=ed263ae913f68cb0ddba0b98548b58edaac49929766d03bdaaa83be46c68847d
+    TOK_SHA=72556cdca798dd4ea7cdaba308e5f0d68a8cb93b67c96edf485b7a0edd7b07f4
+    ;;
+  aarch64|arm64)
+    ZIG_ARCH=aarch64
+    LBUG_ARCH=aarch64
+    TOK_ARCH=aarch64
+    ZIG_SHA=f7a654acc967864f7a050ddacfaa778c7504a0eca8d2b678839c21eea47c992b
+    LBUG_SHA=b07df2cd533c3976a2a3025866d6420a5f35514d0a822ecc4b2902d55b4725b7
+    TOK_SHA=e96545ad05930c26f51f63d932ee6d3bbd32bbed149e102c5290d587a2293067
+    ;;
+  *)
+    echo "bin/cgo/zig: unsupported arch $arch" >&2
+    exit 2
+    ;;
+esac
+
+CACHE="$ROOT/var/cache"
+LIB="$ROOT/lib-ladybug"
+ZIG_DIR="$ROOT/var/zig-dist"
+ZIG_BIN="$ROOT/var/zig/zig"
+
+sha256of() {
+  if command -v sha256sum >/dev/null 2>&1; then
+    sha256sum "$1" | awk '{print $1}'
+  else
+    shasum -a 256 "$1" | awk '{print $1}'
+  fi
+}
+
+fetch() {
+  local url="$1" dest="$2" expect="$3"
+  if [ -f "$dest" ] && [ "$(sha256of "$dest")" = "$expect" ]; then
+    return 0
+  fi
+  mkdir -p "$(dirname "$dest")"
+  echo "fetch $url" >&2
+  curl -fsSL "$url" -o "$dest"
+  local got
+  got="$(sha256of "$dest")"
+  if [ "$got" != "$expect" ]; then
+    echo "checksum mismatch $dest: got $got want $expect" >&2
+    rm -f "$dest"
+    exit 1
+  fi
+}
+
+ensure_zig() {
+  if [ -n "${ZIG:-}" ] && [ -x "$ZIG" ]; then
+    return 0
+  fi
+  if [ -x "$ZIG_BIN" ]; then
+    export ZIG="$ZIG_BIN"
+    return 0
+  fi
+  if command -v zig >/dev/null 2>&1; then
+    export ZIG
+    ZIG="$(command -v zig)"
+    return 0
+  fi
+  local tar="$CACHE/zig-${ZIG_ARCH}-linux-${ZIG_VERSION}.tar.xz"
+  fetch "https://ziglang.org/download/${ZIG_VERSION}/zig-${ZIG_ARCH}-linux-${ZIG_VERSION}.tar.xz" \
+    "$tar" "$ZIG_SHA"
+  mkdir -p "$CACHE"
+  rm -rf "$ZIG_DIR"
+  tar -xJf "$tar" -C "$CACHE"
+  mv "$CACHE/zig-${ZIG_ARCH}-linux-${ZIG_VERSION}" "$ZIG_DIR"
+  mkdir -p "$ROOT/var/zig"
+  ln -sfn "$ZIG_DIR/zig" "$ZIG_BIN"
+  export ZIG="$ZIG_BIN"
+}
+
+ensure_libs() {
+  mkdir -p "$LIB"
+  if [ ! -f "$LIB/liblbug.so" ]; then
+    local tar="$CACHE/liblbug-linux-${LBUG_ARCH}.tar.gz"
+    fetch "https://github.com/LadybugDB/ladybug/releases/download/v${LBUG_VERSION}/liblbug-linux-${LBUG_ARCH}.tar.gz" \
+      "$tar" "$LBUG_SHA"
+    tar -xzf "$tar" -C "$LIB"
+  fi
+  if [ ! -f "$LIB/libtokenizers.a" ]; then
+    local tar="$CACHE/libtokenizers.linux-${TOK_ARCH}.tar.gz"
+    fetch "https://github.com/daulet/tokenizers/releases/download/v${TOKENIZERS_VERSION}/libtokenizers.linux-${TOK_ARCH}.tar.gz" \
+      "$tar" "$TOK_SHA"
+    tar -xzf "$tar" -C "$LIB"
+  fi
+}
+
+print_env() {
+  printf 'export ZIG=%q\n' "$ZIG"
+  printf 'export CC=%q\n' "$ROOT/bin/cgo/zcc"
+  printf 'export CXX=%q\n' "$ROOT/bin/cgo/zc++"
+  printf 'export CGO_ENABLED=1\n'
+  printf 'export CGO_CFLAGS=%q\n' "-I$LIB"
+  printf 'export CGO_LDFLAGS=%q\n' "-L$LIB -Wl,-rpath,${CGO_RPATH:-$LIB}"
+}
+
+ensure_zig
+ensure_libs
+
+cmd="${1:-env}"
+if [ "$cmd" = "env" ]; then
+  print_env
+  exit 0
+fi
+
+eval "$(print_env)"
+exec "$@"

bin/chats/apply.go

@@ -0,0 +1,19 @@
+//usr/bin/env go run -tags=chats_apply "$0" "$@"; exit
+//go:build chats_apply
+//
+// bin/chats/apply.go - push extracted chat facts to OnlyOffice CRM.
+//
+//	./bin/chats/apply.go [--dry-run]
+//
+// NOTE: never run `gofmt -w` on this file — it breaks the shebang.
+package main
+
+import (
+	"os"
+
+	"github.com/eSlider/2dph/internal/chats"
+)
+
+func main() {
+	os.Exit(chats.RunApply(os.Args[1:]))
+}

bin/chats/doc.go

@@ -0,0 +1,4 @@
+// Commands in this directory are shebang mains (sync.go, import.go, facts.go,
+// apply.go), each behind an exclusive build tag so `go build ./bin/chats`
+// does not see two mains. Shared code lives in internal/chats.
+package main

bin/chats/facts.go

@@ -0,0 +1,20 @@
+//usr/bin/env go run -tags=chats_facts "$0" "$@"; exit
+//go:build chats_facts
+//
+// bin/chats/facts.go - extract phone/email/linkedin facts from JSONL.
+//
+//	./bin/chats/facts.go
+//
+// Writes var/chats/facts/. Does not index the brain.
+// NOTE: never run `gofmt -w` on this file — it breaks the shebang.
+package main
+
+import (
+	"os"
+
+	"github.com/eSlider/2dph/internal/chats"
+)
+
+func main() {
+	os.Exit(chats.RunFacts(os.Args[1:]))
+}

bin/chats/import.go

@@ -0,0 +1,20 @@
+//usr/bin/env go run -tags=chats_import "$0" "$@"; exit
+//go:build chats_import
+//
+// bin/chats/import.go - JSONL → markdown under var/chats/md/.
+//
+//	./bin/chats/import.go
+//
+// Conversion only. Brain ingest is bin/brain/index.go, not this command.
+// NOTE: never run `gofmt -w` on this file — it breaks the shebang.
+package main
+
+import (
+	"os"
+
+	"github.com/eSlider/2dph/internal/chats"
+)
+
+func main() {
+	os.Exit(chats.RunImport(os.Args[1:]))
+}

bin/chats/index_cmd.go

@@ -1,56 +0,0 @@
-package main
-
-import (
-	"bytes"
-	"flag"
-	"fmt"
-	"os"
-	"os/exec"
-	"path/filepath"
-	"strings"
-)
-
-func runIndex(args []string) int {
-	fs := flag.NewFlagSet("chats index", flag.ContinueOnError)
-	help := fs.Bool("help", false, "")
-	fs.SetOutput(os.Stderr)
-	if err := fs.Parse(args); err != nil {
-		return 2
-	}
-	if *help {
-		fmt.Fprintln(os.Stderr, "usage: chats index")
-		return 0
-	}
-
-	root := repoRoot()
-	mdDir := filepath.Join(chatsDir(), "md")
-
-	_, err := os.Stat(mdDir)
-	if os.IsNotExist(err) {
-		fmt.Fprintf(os.Stderr, "chats index: no chat markdown at %s; run 'chats import' first\n", mdDir)
-		return 1
-	}
-
-	indexScript := filepath.Join(root, "bin", "kb", "index")
-	if _, err := os.Stat(indexScript); os.IsNotExist(err) {
-		fmt.Fprintf(os.Stderr, "chats index: %s not found\n", indexScript)
-		return 1
-	}
-
-	cmd := exec.Command(indexScript, "--corpus", mdDir)
-	var outBuf, errBuf bytes.Buffer
-	cmd.Stdout = &outBuf
-	cmd.Stderr = &errBuf
-	cmd.Dir = root
-
-	if err := cmd.Run(); err != nil {
-		fmt.Fprintf(os.Stderr, "chats index: %v\n%s", err, errBuf.String())
-		return 1
-	}
-	result := strings.TrimSpace(outBuf.String())
-	if result == "" {
-		result = strings.TrimSpace(errBuf.String())
-	}
-	fmt.Printf("chats index: %s\n", result)
-	return 0
-}

bin/chats/main.go

@@ -1,115 +0,0 @@
-// bin/chats - sync, import, index, extract facts, and apply chat data
-// from Telegram, WhatsApp, LinkedIn into the brain and OnlyOffice CRM.
-//
-// Usage:
-//
-//	chats sync telegram   [--limit N] [--since DATE] [--phone PHONE]
-//	chats sync whatsapp   [--qr] [--limit N]
-//	chats sync linkedin   [--limit N]
-//	chats import                           # JSONL → MD (all sources)
-//	chats index                            # rebuild var/kb.lbug with chats
-//	chats facts                            # extract + cross-check
-//	chats apply          [--dry-run]       # push to OnlyOffice CRM
-package main
-
-import (
-	"fmt"
-	"os"
-	"strings"
-)
-
-func main() {
-	if len(os.Args) < 2 {
-		usage()
-		os.Exit(2)
-	}
-	cmd := os.Args[1]
-	args := os.Args[2:]
-	switch cmd {
-	case "sync":
-		if len(args) < 1 {
-			usage()
-			os.Exit(2)
-		}
-		platform := args[0]
-		platformArgs := args[1:]
-		switch platform {
-		case "telegram":
-			os.Exit(runSyncTelegram(platformArgs))
-		case "whatsapp":
-			fmt.Fprintf(os.Stderr, "chats: WhatsApp not implemented yet\n")
-			os.Exit(1)
-		case "linkedin":
-			os.Exit(runSyncLinkedIn(platformArgs))
-		default:
-			fmt.Fprintf(os.Stderr, "chats: unknown platform %q\n", platform)
-			os.Exit(2)
-		}
-	case "import":
-		os.Exit(runImport(args))
-	case "index":
-		os.Exit(runIndex(args))
-	case "facts":
-		os.Exit(runFacts(args))
-	case "apply":
-		os.Exit(runApply(args))
-	case "help", "-h", "--help":
-		usage()
-		return
-	default:
-		fmt.Fprintf(os.Stderr, "chats: unknown command %q\n", cmd)
-		usage()
-		os.Exit(2)
-	}
-}
-
-func usage() {
-	w := os.Stderr
-	fmt.Fprintln(w, `Usage: chats <command> [args]
-
-Commands:
-  sync telegram  [--limit N] [--since DATE] [--phone PHONE]
-  sync whatsapp  [--qr] [--limit N]
-  sync linkedin  [--limit N]
-  import                             JSONL → MD (all sources)
-  index                              rebuild var/kb.lbug with chats
-  facts                              extract + cross-check facts
-  apply             [--dry-run]      push to OnlyOffice CRM
-
-Output layout:
-  var/chats/<platform>/<chat_id>/messages.jsonl
-  var/chats/md/<platform>/<chat_name>/messages.md`)
-}
-
-// repoRoot locates the 2dph project root by walking up from the binary.
-func repoRoot() string {
-	if v := os.Getenv("KB_ROOT"); v != "" {
-		return v
-	}
-	wd, err := os.Getwd()
-	if err != nil {
-		return "."
-	}
-	for i := 0; i < 10; i++ {
-		if _, err := os.Stat(wd + "/var"); err == nil {
-			return wd
-		}
-		if _, err := os.Stat(wd + "/.git"); err == nil {
-			return wd
-		}
-		parent := wd
-		if idx := strings.LastIndex(wd, "/"); idx >= 0 {
-			parent = wd[:idx]
-		}
-		if parent == wd {
-			break
-		}
-		wd = parent
-	}
-	return "."
-}
-
-// chatsDir returns var/chats under the repo root.
-func chatsDir() string {
-	return repoRoot() + "/var/chats"
-}

bin/chats/sync.go

@@ -0,0 +1,42 @@
+//usr/bin/env go run -tags=chats_sync "$0" "$@"; exit
+//go:build chats_sync
+//
+// bin/chats/sync.go - download chat messages to var/chats/<platform>/.
+//
+//	./bin/chats/sync.go telegram [--limit N] [--phone PHONE]
+//	./bin/chats/sync.go linkedin [--limit N] [--refresh]
+//
+// NOTE: never run `gofmt -w` on this file — it breaks the shebang.
+package main
+
+import (
+	"fmt"
+	"os"
+
+	"github.com/eSlider/2dph/internal/chats"
+)
+
+func main() {
+	if len(os.Args) < 2 {
+		fmt.Fprintln(os.Stderr, `usage: bin/chats/sync.go telegram|linkedin [flags]`)
+		os.Exit(2)
+	}
+	platform := os.Args[1]
+	args := os.Args[2:]
+	switch platform {
+	case "telegram":
+		os.Exit(chats.RunSyncTelegram(args))
+	case "linkedin":
+		os.Exit(chats.RunSyncLinkedIn(args))
+	case "whatsapp":
+		fmt.Fprintln(os.Stderr, "chats: WhatsApp sync is out of v1")
+		os.Exit(1)
+	case "help", "-h", "--help":
+		fmt.Fprintln(os.Stderr, `usage: bin/chats/sync.go telegram|linkedin [flags]
+WhatsApp sync is out of v1.`)
+		return
+	default:
+		fmt.Fprintf(os.Stderr, "chats: unknown platform %q\n", platform)
+		os.Exit(2)
+	}
+}

bin/cli/complete.go

@@ -0,0 +1,91 @@
+//usr/bin/env go run "$0" "$@"; exit
+//
+// bin/cli/complete.go - dump flaggy shell completions for all Go shebang tools (D23).
+//
+//	source <(./bin/cli/complete.go bash)
+//	./bin/cli/complete.go zsh|fish|powershell|nushell
+//
+// Search does not steal the word "completion"; this binary dumps scripts.
+// NOTE: never run `gofmt -w` on this file — it breaks the shebang.
+package main
+
+import (
+	"fmt"
+	"os"
+	"strings"
+
+	mailsync "github.com/eSlider/2dph/bin/mail/sync"
+	"github.com/eSlider/2dph/internal/brain/rank"
+	"github.com/eSlider/2dph/internal/chats"
+	"github.com/eSlider/2dph/internal/cli"
+	"github.com/eSlider/2dph/internal/gitlog"
+	"github.com/eSlider/2dph/internal/mdleaves"
+	"github.com/eSlider/2dph/internal/ocr"
+	"github.com/eSlider/2dph/internal/reasoner"
+	"github.com/eSlider/2dph/internal/websearch"
+	"github.com/integrii/flaggy"
+)
+
+func tools() []cli.Tool {
+	return []cli.Tool{
+		{Path: "bin/brain/search.go", Name: "brain-search", New: rank.Parser},
+		{Path: "bin/brain/get.go", Name: "brain-get", New: func() *flaggy.Parser {
+			o := rank.GetOptions{}
+			return rank.GetParser(&o)
+		}},
+		{Path: "bin/brain/stats.go", Name: "brain-stats", New: rank.StatsParser},
+		{Path: "bin/brain/eval.go", Name: "brain-eval", New: rank.EvalParser},
+		{Path: "bin/web/search.go", Name: "web-search", New: websearch.Parser},
+		{Path: "bin/git/import.go", Name: "git-import", New: gitlog.Parser},
+		{Path: "bin/markdown/import.go", Name: "markdown-import", New: mdleaves.Parser},
+		{Path: "bin/qa/stats.go", Name: "qa-stats", New: cli.QAParser},
+		{Path: "bin/reasoner/bakeoff.go", Name: "reasoner-bakeoff", New: reasoner.Parser},
+		{Path: "bin/mail/ocr.go", Name: "mail-ocr", New: ocr.Parser},
+		{Path: "bin/mail/sync.go", Name: "mail-sync", New: mailsync.Parser},
+		{Path: "bin/chats/sync.go", Name: "chats-sync", New: chats.SyncParser},
+		{Path: "bin/chats/import.go", Name: "chats-import", New: chats.ImportParser},
+		{Path: "bin/chats/facts.go", Name: "chats-facts", New: chats.FactsParser},
+		{Path: "bin/chats/apply.go", Name: "chats-apply", New: chats.ApplyParser},
+	}
+}
+
+func main() {
+	os.Exit(run(os.Args[1:]))
+}
+
+func run(args []string) int {
+	shell := "bash"
+	if len(args) > 0 {
+		switch args[0] {
+		case "bash", "zsh", "fish", "powershell", "nushell":
+			shell = args[0]
+		case "-h", "--help", "help":
+			fmt.Fprintln(os.Stderr, "usage: bin/cli/complete.go [bash|zsh|fish|powershell|nushell]")
+			return 0
+		default:
+			fmt.Fprintf(os.Stderr, "cli/complete: unknown shell %q\n", args[0])
+			return 2
+		}
+	}
+	if shell == "bash" {
+		fmt.Print(cli.BashScript(tools()))
+		return 0
+	}
+	var b strings.Builder
+	for _, t := range tools() {
+		p := t.New()
+		p.Name = t.Name
+		switch shell {
+		case "zsh":
+			b.WriteString(flaggy.GenerateZshCompletion(p))
+		case "fish":
+			b.WriteString(flaggy.GenerateFishCompletion(p))
+		case "powershell":
+			b.WriteString(flaggy.GeneratePowerShellCompletion(p))
+		case "nushell":
+			b.WriteString(flaggy.GenerateNushellCompletion(p))
+		}
+	}
+	fmt.Print(b.String())
+	return 0
+}

bin/docker-entrypoint

@@ -1,13 +1,10 @@
 #!/usr/bin/env bash
 # bin/docker-entrypoint - run 2dph tools inside the container.
 #
-#   brain                 shell (default)
+# API image (Zig CGO binaries):
-#   brain search <q>      bin/kb/search
+#   serve | search | watch
-#   brain index           bin/kb/index
+# Index image (Python write path, compose profile `index`):
-#   brain watch <dir>     watchdog re-indexer (bin/kb/watch)
+#   index | extract | audit | search (deprecated python wrapper)
-#   brain serve           async Go HTTP server (bin/serve)
-#   brain extract         bin/facts/extract (docker×compose pairing)
-#   brain audit           bin/facts/audit
 #
 # Usage comment starts at line 2 (self-describing convention).
 set -euo pipefail
@@ -15,10 +12,24 @@ set -euo pipefail
 CMD="${1:-shell}"
 shift || true
 
+if [ -x /usr/local/bin/brain-serve ]; then
+	case "$CMD" in
+		shell) exec bash ;;
+		serve) exec /usr/local/bin/brain-serve "$@" ;;
+		search) exec /usr/local/bin/brain-search "$@" ;;
+		watch) exec /usr/local/bin/brain-watch "$@" ;;
+		index)
+			echo "index is the Python sidecar: docker compose --profile index run --rm index" >&2
+			exit 2
+			;;
+		*) echo "unknown command: $CMD (api: serve|search|watch)" >&2; exit 2 ;;
+	esac
+fi
+
 case "$CMD" in
 	shell) exec bash ;;
 	search) exec "$KB_PY" /app/bin/kb/search "$@" ;;
-  index) exec "$KB_PY" /app/bin/kb/index "$@" ;;
+	index) exec "$KB_PY" /app/bin/kb/index --with-mail "$@" ;;
 	watch) exec /app/bin/watch "$@" ;;
 	serve) exec /app/bin/serve "$@" ;;
 	extract) exec "$KB_PY" /app/bin/facts/extract "$@" ;;

bin/facts/audit

@@ -1,14 +1,15 @@
 #!/usr/bin/env python3
 """facts/audit - evidence & lexicon checks for the 2dph brain.
 
-  bin/facts/audit self      # lexicon: every fact in db has >=2 sources
+  bin/facts/audit self         # lexicon: docs + two-source rule
-  bin/facts/audit db        # evidence gate: run against var/kb.lbug
+  bin/facts/audit db           # evidence gate against var/kb.lbug
+  bin/facts/audit contradict   # D16 adjudication (JSON claim(s) on stdin)
 
-`self` mode checks the repo itself (no network, no runtime deps). It greps
+`self` mode checks the repo itself (no network, no runtime deps).
-for known-good two-source pairings and confirms the docs are consistent.
+`db` mode loads every Leaf with root=facts. Confirmed facts need ` x `;
-`db` mode loads every Leaf with root=facts and asserts each has source_rev
+hypothesis contradictions need `a x b vs c x d` (both sides ≥2).
-and a non-empty `loc` (the "where did you see it" evidence pointer) and that
+`contradict` applies temporal_freshness then authority_pairing; ≥2 vs ≥2
-'confirmed' facts carry a two-source `source` field.
+with no rule stays hypothesis / `(not confirmed)`.
 
 Exit 0 = all checks pass, 1 = audit failures, 2 = could not evaluate.
 """
@@ -22,6 +23,8 @@ from pathlib import Path
 ROOT = Path(__file__).resolve().parents[2]
 sys.path.insert(0, str(ROOT / "bin" / "tools"))
 
+from contradict import adjudicate, check_fact_row  # noqa: E402
+
 
 def audit_db() -> list[str]:
     from kblib import connect
@@ -33,14 +36,8 @@ def audit_db() -> list[str]:
     r = conn.execute("MATCH (l:Leaf {root:'facts'}) RETURN l.id, l.source, l.loc, l.how, l.confidence")
     problems: list[str] = []
     for lid, source, loc, how, conf in r.get_all():
-        if conf != "confirmed":
+        problems.extend(check_fact_row(str(lid), str(source or ""), str(loc or ""),
-            problems.append(f"{lid}: facts require confidence='confirmed', got '{conf}'")
+                                       str(how or ""), str(conf or "")))
-        if not source or " x " not in source:
-            problems.append(f"{lid}: needs 2-source evidence in source, got '{source}'")
-        if not loc:
-            problems.append(f"{lid}: missing loc (evidence pointer)")
-        if not how:
-            problems.append(f"{lid}: missing how")
     conn.close()
     db.close()
     return problems
@@ -54,20 +51,50 @@ def audit_self() -> list[str]:
         problems.append("PLAN.md missing recall@5 gate")
     if re.search(r"(?i)facts must have.*2 sources|2.source", plan) is None:
         problems.append("PLAN.md missing the two-source evidence rule for facts")
+    if "temporal_freshness" not in plan or "authority_pairing" not in plan:
+        problems.append("PLAN.md missing D16 adjudication rules")
     if re.search(r"(?i)HNSW|BM25|deduction", (ROOT / "README.md").read_text()) is None:
         problems.append("README.md missing search/retrieval description")
     return problems
 
 
+def audit_contradict(raw: str) -> tuple[list[str], list[dict]]:
+    raw = raw.strip()
+    if not raw:
+        return ["contradict: empty stdin (JSON claim or {claims:[...]})"], []
+    try:
+        payload = json.loads(raw)
+    except json.JSONDecodeError as e:
+        return [f"contradict: invalid JSON: {e}"], []
+    if isinstance(payload, dict) and "claims" in payload:
+        claims = list(payload.get("claims") or [])
+    elif isinstance(payload, dict):
+        claims = [payload]
+    elif isinstance(payload, list):
+        claims = payload
+    else:
+        return ["contradict: expected object or list"], []
+    details = [adjudicate(c) for c in claims]
+    return [], details
+
+
 def main(argv: list[str]) -> int:
     import argparse
     p = argparse.ArgumentParser(description="evidence & lexicon audit")
-    p.add_argument("mode", choices=("self", "db"))
+    p.add_argument("mode", choices=("self", "db", "contradict"))
     p.add_argument("--json", action="store_true")
     a = p.parse_args(argv)
 
-    problems = audit_self() if a.mode == "self" else audit_db()
+    details: list[dict] = []
-    out = {"mode": a.mode, "ok": not problems, "problems": problems}
+    if a.mode == "self":
+        problems = audit_self()
+    elif a.mode == "db":
+        problems = audit_db()
+    else:
+        problems, details = audit_contradict(sys.stdin.read())
+    out: dict = {"mode": a.mode, "ok": not problems, "problems": problems}
+    if details:
+        out["contradictions"] = details
     if a.json:
         print(json.dumps(out, indent=2))
     else:

bin/facts/audit.go

@@ -0,0 +1,22 @@
+//usr/bin/env go run -tags=facts_audit "$0" "$@"; exit
+//go:build facts_audit
+//
+// bin/facts/audit.go - 2-source + lexicon checks.
+//
+//	./bin/facts/audit.go self
+//	./bin/facts/audit.go db
+//	./bin/facts/audit.go contradict --json < claim.json
+//
+// Python bin/facts/audit is the implementation (CI runs it directly).
+// NOTE: never run `gofmt -w` on this file — it breaks the shebang.
+package main
+
+import (
+	"os"
+
+	"github.com/eSlider/2dph/internal/cmdbin"
+)
+
+func main() {
+	os.Exit(cmdbin.ExecFile("bin/facts/audit", os.Args[1:]))
+}

bin/facts/crm.go

@@ -0,0 +1,20 @@
+//usr/bin/env go run -tags=facts_crm "$0" "$@"; exit
+//go:build facts_crm
+//
+// bin/facts/crm.go - prove person↔company / company↔project (ooCRM × corpus).
+//
+//	./bin/facts/crm.go [--dry-run] [--mismatches]
+//
+// Python bin/facts/crm is the implementation. Graph write stays Python.
+// NOTE: never run `gofmt -w` on this file — it breaks the shebang.
+package main
+
+import (
+	"os"
+
+	"github.com/eSlider/2dph/internal/cmdbin"
+)
+
+func main() {
+	os.Exit(cmdbin.ExecFile("bin/facts/crm", os.Args[1:]))
+}

bin/facts/extract.go

@@ -0,0 +1,20 @@
+//usr/bin/env go run -tags=facts_extract "$0" "$@"; exit
+//go:build facts_extract
+//
+// bin/facts/extract.go - acquire confirmed facts (2-source each).
+//
+//	./bin/facts/extract.go [--json] [--dry-run]
+//
+// Python bin/facts/extract is the implementation. Graph write stays Python.
+// NOTE: never run `gofmt -w` on this file — it breaks the shebang.
+package main
+
+import (
+	"os"
+
+	"github.com/eSlider/2dph/internal/cmdbin"
+)
+
+func main() {
+	os.Exit(cmdbin.ExecFile("bin/facts/extract", os.Args[1:]))
+}

bin/git/import

@@ -1,153 +1,25 @@
 #!/usr/bin/env python3
-"""git/import - import git history (commits, authors, files) into the brain.
+"""git/import — deprecated. Use bin/git/import.go (go-git, no git binary).
 
-  bin/git/import [REPO]                 import all commits -> leafs + graph
+  bin/git/import.go [REPO] [--json] [--limit N] [--since DATE]
-  bin/git/import --json                 emit import leafs as JSON, no write
-  bin/git/import --limit 100            cap commits processed
-  bin/git/import --since 2026-01-01     only recent commits
-  bin/git/import --root DIR             run per repo dir under DIR
-  bin/git/import --no-env               never read .env anywhere (default: true)
-
-Reads `git log --no-merges --name-only` from the repo, maps commits to
-`info` leafs (root=info, type=commit) and writes the version graph
-`File -[:HAS_VERSION]-> Commit -[:AUTHORED]-> Person` into var/kb.lbug.
-Idempotent: leaf MERGE by (source,text via leaf_id), graph MERGE by sha.
 """
 from __future__ import annotations
 
-import json
+import os
-import subprocess
 import sys
 from pathlib import Path
 
 ROOT = Path(__file__).resolve().parents[2]
-sys.path.insert(0, str(ROOT / "bin" / "tools"))
-
-from kblib import (  # noqa: E402
-    connect, ensure_indexes, init_schema, upsert_leaf,
-)
-from gitimport import commits_to_leafs, ensure_git_schema, index_commits, parse_log  # noqa: E402
-
-LOG_FMT = "--format=%x1e%H%x1f%an%x1f%ae%x1f%aI%x1f%s"
-
-
-def git_log(repo: Path, limit: int = 0, since: str = "") -> str:
-    cmd = ["git", "-C", str(repo), "log", "--no-merges", "--name-only", LOG_FMT]
-    if since:
-        cmd += ["--since", since]
-    if limit:
-        cmd += ["-n", str(limit)]
-    try:
-        out = subprocess.run(cmd, capture_output=True, text=True, timeout=120)
-    except (FileNotFoundError, subprocess.TimeoutExpired):
-        return ""
-    if out.returncode != 0:
-        print(f"git/import: {repo}: {out.stderr.strip()}", file=sys.stderr)
-        return ""
-    return out.stdout
-
-
-def repo_name(repo: Path) -> str:
-    try:
-        out = subprocess.run(
-            ["git", "-C", str(repo), "remote", "get-url", "origin"],
-            capture_output=True, text=True, timeout=20)
-        url = out.stdout.strip()
-        return url.rstrip("/").split("/")[-1].removesuffix(".git") if url else repo.name
-    except (FileNotFoundError, subprocess.TimeoutExpired):
-        return repo.name
-
-
-def embedder():
-    from model2vec import StaticModel
-    model = StaticModel.from_pretrained("minishlab/potion-multilingual-128M")
-    return lambda text: model.encode([text])[0].astype(float).tolist()
-
-
-def import_repo(conn, repo: Path, embed, limit: int, since: str,
-                no_write: bool = False) -> tuple[int, int]:
-    raw = git_log(repo, limit, since)
-    commits = parse_log(raw)
-    leafs = commits_to_leafs(commits, repo_name(repo))
-    if no_write:
-        return len(commits), 0
-    written = 0
-    for lf in leafs:
-        query = f"{lf['heading']}\n\n{lf['text']}"
-        emb = embed(lf["text"]) if lf["text"] else None
-        upsert_leaf(conn, text=query, root="info", confidence="confirmed",
-                    source=lf["source"], source_rev="git", how="git/import",
-                    loc=lf["source"], type_=lf.get("type", "commit"),
-                    embedding=emb)
-        written += 1
-    index_commits(conn, commits, repo_name(repo))
-    return len(commits), written
 
 
 def main(argv: list[str]) -> int:
-    import argparse
+    print(
-    p = argparse.ArgumentParser(description="import git history into the brain")
+        "bin/git/import is deprecated; use bin/git/import.go (go-git)",
-    p.add_argument("repo", nargs="?", default=None)
+        file=sys.stderr,
-    p.add_argument("--root", default=None, help="directory of repos to import (each git dir separately)")
+    )
-    p.add_argument("--limit", type=int, default=0)
+    target = ROOT / "bin" / "git" / "import.go"
-    p.add_argument("--since", default="")
+    os.execvp("go", ["go", "run", str(target), *argv])
-    p.add_argument("--json", action="store_true")
+    return 1
-    p.add_argument("--dry-run", action="store_true", help="parse + report, no db write")
-    a = p.parse_args(argv)
-
-    repos: list[Path] = []
-    if a.repo:
-        repos = [Path(a.repo)]
-    elif a.root:
-        root = Path(a.root)
-        if root.is_file():
-            repos = [root]
-        else:
-            repos = [dp for dp in sorted(root.iterdir()) if (dp / ".git").exists() or dp.is_file()]
-    else:
-        repos = [ROOT]
-
-    total_commits = 0
-    results: list[dict] = []
-    if a.dry_run:
-        for repo in repos:
-            if not repo.exists():
-                continue
-            commits = parse_log(git_log(repo, a.limit, a.since))
-            name = repo_name(repo)
-            total_commits += len(commits)
-            results.append({"repo": name, "commits": len(commits),
-                            "leafs": len(commits_to_leafs(commits, name)), "path": str(repo)})
-        if a.json:
-            print(json.dumps(results, indent=2))
-        else:
-            for r in results:
-                print(f"{r['repo']:<24} {r['commits']:>5} commits -> {r['leafs']} leafs  {r['path']}")
-        return 0
-
-    # Never DROP FTS/VECTOR (ghost catalog). Upsert while indexes exist is OK;
-    # ensure_indexes only CREATEs when missing.
-    db, conn = connect(ROOT / "var" / "kb.lbug", read_only=False)
-    init_schema(conn)
-    embed = embedder()
-    rows: list[dict] = []
-    for repo in repos:
-        if not repo.exists():
-            continue
-        reached, written = import_repo(conn, repo, embed, a.limit, a.since)
-        total_commits += reached
-        rows.append({"repo": repo_name(repo), "commits": reached, "written": written})
-    ensure_indexes(conn)
-    conn.close()
-    db.close()
-
-    if a.json:
-        print(json.dumps(rows, indent=2))
-    else:
-        for r in rows:
-            print(f"imported {r['commits']:>5} commits -> {r['written']} leafs  {r['repo']}")
-        print(f"total: {total_commits} commits")
-    return 0
 
 
 if __name__ == "__main__":

bin/git/import.go

@@ -0,0 +1,100 @@
+//usr/bin/env go run "$0" "$@"; exit
+//
+// bin/git/import.go - read git history with go-git (no git binary).
+//
+//	./bin/git/import.go [REPO]
+//	./bin/git/import.go --json
+//	./bin/git/import.go --limit 100 --since 2026-01-01
+//	./bin/git/import.go --root DIR
+//
+// Conversion only: prints commit leafs. Brain write is bin/brain/index.go.
+// NOTE: never run `gofmt -w` on this file — it breaks the shebang.
+package main
+
+import (
+	"encoding/json"
+	"fmt"
+	"os"
+	"path/filepath"
+
+	cliparse "github.com/eSlider/2dph/internal/cli"
+	"github.com/eSlider/2dph/internal/cmdbin"
+	"github.com/eSlider/2dph/internal/gitlog"
+)
+
+func main() {
+	os.Exit(run(os.Args[1:]))
+}
+
+func run(args []string) int {
+	c, err := gitlog.ParseArgs(args)
+	if err != nil {
+		return cliparse.Fail(err)
+	}
+	repo, root, since, limit, jsonOut := c.Repo, c.Root, c.Since, c.Limit, c.JSONOut
+
+	sinceT, err := gitlog.ParseSince(since)
+	if err != nil {
+		fmt.Fprintf(os.Stderr, "git/import: %v\n", err)
+		return 2
+	}
+
+	repos := []string{}
+	if repo != "" {
+		repos = []string{repo}
+	} else if root != "" {
+		entries, err := os.ReadDir(root)
+		if err != nil {
+			fmt.Fprintf(os.Stderr, "git/import: %v\n", err)
+			return 1
+		}
+		for _, e := range entries {
+			p := filepath.Join(root, e.Name())
+			if _, err := os.Stat(filepath.Join(p, ".git")); err == nil {
+				repos = append(repos, p)
+			}
+		}
+	} else {
+		repos = []string{cmdbin.Root()}
+	}
+
+	opt := gitlog.Options{Limit: limit, Since: sinceT}
+	type row struct {
+		Repo    string         `json:"repo"`
+		Path    string         `json:"path"`
+		Commits int            `json:"commits"`
+		Leafs   []gitlog.Leaf  `json:"leafs,omitempty"`
+	}
+	var rows []row
+	for _, p := range repos {
+		name, err := gitlog.RepoName(p)
+		if err != nil && name == "" {
+			fmt.Fprintf(os.Stderr, "git/import: %s: %v\n", p, err)
+			continue
+		}
+		cs, err := gitlog.Log(p, opt)
+		if err != nil {
+			fmt.Fprintf(os.Stderr, "git/import: %s: %v\n", p, err)
+			return 1
+		}
+		leafs := make([]gitlog.Leaf, 0, len(cs))
+		for _, c := range cs {
+			leafs = append(leafs, gitlog.ToLeaf(c, name))
+		}
+		rows = append(rows, row{Repo: name, Path: p, Commits: len(cs), Leafs: leafs})
+	}
+
+	if jsonOut {
+		enc := json.NewEncoder(os.Stdout)
+		enc.SetIndent("", "  ")
+		enc.SetEscapeHTML(false)
+		if err := enc.Encode(rows); err != nil {
+			return 1
+		}
+		return 0
+	}
+	for _, r := range rows {
+		fmt.Printf("%-24s %5d commits  %s\n", r.Repo, r.Commits, r.Path)
+	}
+	return 0
+}

bin/kb/add

@@ -0,0 +1,114 @@
+#!/usr/bin/env python3
+"""kb/add - incremental leaf write (no rebuild).
+
+  bin/kb/add --text T --root facts|info --source S
+  bin/kb/add --json                 # stdin: one object or {"leafs":[...]}
+  bin/kb/add --db PATH --json
+
+Writes facts+info in one Ladybug transaction. Does not delete kb.lbug.
+Embedding is used when provided; otherwise model2vec encodes the text.
+"""
+from __future__ import annotations
+
+import json
+import sys
+from pathlib import Path
+
+ROOT = Path(__file__).resolve().parents[2]
+sys.path.insert(0, str(ROOT / "bin" / "tools"))
+
+from kblib import (  # noqa: E402
+    EMBED_DIM,
+    add_leafs,
+    connect,
+    ensure_indexes,
+    init_schema,
+)
+
+
+def _as_leafs(payload: object) -> list[dict]:
+    if isinstance(payload, list):
+        return [dict(x) for x in payload]
+    if isinstance(payload, dict):
+        if "leafs" in payload:
+            return [dict(x) for x in payload["leafs"]]
+        return [dict(payload)]
+    raise ValueError("json must be an object, a list, or {leafs:[...]}")
+
+
+def _embed_missing(leafs: list[dict]) -> None:
+    missing = [lf for lf in leafs if not lf.get("embedding")]
+    if not missing:
+        return
+    from model2vec import StaticModel
+
+    model = StaticModel.from_pretrained("minishlab/potion-multilingual-128M")
+    for lf in missing:
+        text = str(lf.get("text") or "")
+        vec = model.encode([text])[0].astype(float).tolist()
+        if len(vec) != EMBED_DIM:
+            vec = (vec + [0.0] * EMBED_DIM)[:EMBED_DIM]
+        lf["embedding"] = vec
+
+
+def main(argv: list[str]) -> int:
+    import argparse
+
+    p = argparse.ArgumentParser(description="add leafs without rebuilding the brain")
+    p.add_argument("--db", default="", help="path to kb.lbug (default var/kb.lbug)")
+    p.add_argument("--json", action="store_true", help="read leaf JSON from stdin")
+    p.add_argument("--text", default="", help="leaf text")
+    p.add_argument("--root", default="info", choices=("facts", "info"))
+    p.add_argument("--source", default="")
+    p.add_argument("--confidence", default="confirmed")
+    p.add_argument("--source-rev", default="working-tree")
+    p.add_argument("--how", default="brain/add")
+    p.add_argument("--loc", default="")
+    p.add_argument("--type", default="reference", dest="type_")
+    args = p.parse_args(argv)
+
+    if args.json:
+        raw = sys.stdin.read()
+        if not raw.strip():
+            print("kb/add: empty stdin", file=sys.stderr)
+            return 2
+        leafs = _as_leafs(json.loads(raw))
+    else:
+        if not args.text or not args.source:
+            print("kb/add: --text and --source are required (or --json)", file=sys.stderr)
+            return 2
+        leafs = [{
+            "text": args.text,
+            "root": args.root,
+            "source": args.source,
+            "confidence": args.confidence,
+            "source_rev": args.source_rev,
+            "how": args.how,
+            "loc": args.loc or args.source,
+            "type": args.type_,
+        }]
+
+    for lf in leafs:
+        if not lf.get("text") or not lf.get("source"):
+            print("kb/add: each leaf needs text and source", file=sys.stderr)
+            return 2
+
+    _embed_missing(leafs)
+
+    from kblib import DB_PATH, VAR
+
+    dbpath = Path(args.db) if args.db else DB_PATH
+    dbpath.parent.mkdir(parents=True, exist_ok=True)
+    VAR.mkdir(exist_ok=True)
+    db, conn = connect(dbpath, read_only=False)
+    init_schema(conn)
+    ids = add_leafs(conn, leafs)
+    ensure_indexes(conn)
+    conn.close()
+    db.close()
+    print(json.dumps({"mode": "add", "ids": ids, "db": str(dbpath)}))
+    return 0
+
+
+if __name__ == "__main__":
+    sys.exit(main(sys.argv[1:]))

bin/kb/index

@@ -2,12 +2,15 @@
 """kb/index - build the 2dph brain from markdown + factual leafs.
 
   bin/kb/index [--corpus DIR] [--rebuild] [--limit N]
+  bin/kb/index --rebuild --with-facts --with-chats
   bin/kb/index --json                 # emit stats as JSON
 
 Reads every .md under the corpus (default: repo root docs, skills, READMEs)
 as `info` leafs, embeds them with model2vec (potion-multilingual-128M), and
 writes them into var/kb.lbug with FTS + HNSW indexes. `facts` leafs come
-from bin/facts/extract (docker x compose x ssh-config pairing).
+from bin/facts/extract (docker × compose × ssh-config pairing) when
+`--with-facts` is set. `--with-chats` indexes markdown under var/chats/md
+(or a given dir) as info. WhatsApp sync stays out of v1.
 
 --rebuild drops the database file and indexes from scratch. Without it a run
 is idempotent (MERGE by (source,text) id).
@@ -22,10 +25,11 @@ ROOT = Path(__file__).resolve().parents[2]
 sys.path.insert(0, str(ROOT / "bin" / "tools"))
 
 from kblib import (  # noqa: E402
-    connect, ensure_indexes, init_schema, upsert_leaf,
+    add_leafs, connect, ensure_indexes, init_schema, upsert_leaf, link_from_file,
     open_readonly, stats,
 )
 from mdleaves import read_markdown, to_all, walk_markdown  # noqa: E402
+from mailleafs import from_mail_root  # noqa: E402
 
 CORPUS_DEFAULTS = ["README.md", "PLAN.md", "AGENTS.md", "docs", "skills"]
 
@@ -80,10 +84,11 @@ def index_leafs(conn, leafs: list[dict], embed_fn, limit: int) -> tuple[int, int
     for lf in leafs[:limit] if limit else leafs:
         query = f"{lf['heading']}\n\n{lf['text']}"
         emb = embed_fn(lf["text"]) if lf["text"] else None
-        upsert_leaf(conn, text=query, root="info", confidence="confirmed",
+        lid = upsert_leaf(conn, text=query, root="info", confidence="confirmed",
                     source=lf["source"], source_rev="working-tree",
                     how="kb/index", loc=lf["source"], type_=lf.get("type", "reference"),
                     embedding=emb)
+        link_from_file(conn, lid, lf["source"], repo=str(lf.get("repo") or ""))
         count += 1
     return count, len(leafs)
 
@@ -94,11 +99,67 @@ def embedder():
     return lambda text: model.encode([text])[0].astype(float).tolist()
 
 
+def index_fact_dicts(conn, facts: list[dict], embed_fn) -> int:
+    """Write extract-shaped dicts as root=facts leafs (2-source source field)."""
+    leafs = []
+    for f in facts:
+        text = str(f.get("text") or "")
+        source = str(f.get("source") or "")
+        if not text or not source:
+            continue
+        leafs.append({
+            "text": text,
+            "root": "facts",
+            "confidence": "confirmed",
+            "source": source,
+            "source_rev": f.get("source_rev") or "working-tree",
+            "how": f.get("how") or "facts/extract",
+            "loc": f.get("loc") or source,
+            "type": "fact",
+            "embedding": embed_fn(text) if text else None,
+        })
+    return len(add_leafs(conn, leafs))
+
+
+def facts_from_extract() -> list[dict]:
+    import subprocess
+    proc = subprocess.run(
+        [sys.executable, str(ROOT / "bin" / "facts" / "extract"), "--json", "--dry-run"],
+        cwd=ROOT,
+        capture_output=True,
+        text=True,
+        check=False,
+    )
+    if proc.returncode != 0:
+        print(f"kb/index: facts/extract failed: {proc.stderr}", file=sys.stderr)
+        return []
+    try:
+        payload = json.loads(proc.stdout)
+    except json.JSONDecodeError:
+        print("kb/index: facts/extract produced non-JSON", file=sys.stderr)
+        return []
+    return list(payload.get("facts") or [])
+
+
 def main(argv: list[str]) -> int:
     import argparse
     p = argparse.ArgumentParser(description="build the 2dph brain index")
     p.add_argument("--corpus", action="append", help="extra markdown dir/file to index (may repeat)")
     p.add_argument("--rebuild", action="store_true", help="fresh db + indexes")
+    p.add_argument("--db", default="", help="path to kb.lbug (default var/kb.lbug)")
+    p.add_argument("--no-defaults", action="store_true", help="do not index repo README/docs/skills")
+    p.add_argument("--with-mail", action="store_true", help="include var/mail message.md leafs")
+    p.add_argument("--with-facts", action="store_true", help="run facts/extract into root=facts")
+    p.add_argument("--facts-json", default="", help="JSON list (or {facts:[...]}) of fact dicts")
+    p.add_argument(
+        "--with-chats",
+        nargs="?",
+        const=str(ROOT / "var" / "chats" / "md"),
+        default="",
+        help="index chat markdown as info (default var/chats/md)",
+    )
+    p.add_argument("--since", default="", help="with --with-mail, only messages dated >= YYYY-MM-DD")
+    p.add_argument("--dry-run", action="store_true", help="count leafs, write nothing")
     p.add_argument(
         "--skip-indexes",
         action="store_true",
@@ -109,33 +170,72 @@ def main(argv: list[str]) -> int:
     a = p.parse_args(argv)
 
     from kblib import DB_PATH, VAR
-    VAR.mkdir(exist_ok=True)
-    if a.rebuild and DB_PATH.exists():
-        DB_PATH.unlink()
 
-    leafs = load_corpus(ROOT)
+    dbpath = Path(a.db) if a.db else DB_PATH
+    leafs: list[dict] = [] if a.no_defaults else load_corpus(ROOT)
     if a.corpus:
         for source in a.corpus:
             leafs.extend(load_corpus_glob(source))
+    chat_n = 0
+    if a.with_chats:
+        chats = load_corpus_glob(a.with_chats)
+        chat_n = len(chats)
+        leafs.extend(chats)
+    mail_n = 0
+    if a.with_mail:
+        mail = from_mail_root(ROOT / "var" / "mail", since=a.since)
+        mail_n = len(mail)
+        leafs.extend(mail)
 
-    db, conn = connect(DB_PATH, read_only=False)
+    facts: list[dict] = []
+    if a.facts_json:
+        raw = Path(a.facts_json).read_text(encoding="utf-8")
+        payload = json.loads(raw)
+        facts = list(payload.get("facts") if isinstance(payload, dict) else payload)
+    if a.with_facts:
+        facts.extend(facts_from_extract())
+
+    if a.dry_run:
+        msg = {
+            "indexed": 0,
+            "corpus_total": len(leafs),
+            "mail_leafs": mail_n,
+            "chat_leafs": chat_n,
+            "facts_leafs": len(facts),
+            "dry_run": True,
+        }
+        print(json.dumps(msg, indent=2) if a.json else
+              f"brain/index: {len(leafs)} info + {len(facts)} facts would be indexed")
+        return 0
+
+    VAR.mkdir(exist_ok=True)
+    dbpath.parent.mkdir(parents=True, exist_ok=True)
+    if a.rebuild and dbpath.exists():
+        dbpath.unlink()
+
+    db, conn = connect(dbpath, read_only=False)
     init_schema(conn)
 
-    # Never DROP FTS/VECTOR (ghost catalog). Write leafs, then ensure indexes
-    # unless --skip-indexes (seed facts first — MERGE under live FTS corrupts it).
-    # --rebuild already deleted kb.lbug above, so CREATE runs on a clean DB.
     embed = embedder()
     done, total = index_leafs(conn, leafs, embed, a.limit)
+    fact_n = index_fact_dicts(conn, facts, embed) if facts else 0
     if not a.skip_indexes:
         ensure_indexes(conn)
     s = stats(conn)
     conn.close()
     db.close()
 
-    result = {"indexed": done, "corpus_total": total, **{k: v for k, v in s.items() if k in ("total", "by_root")}}
+    result = {
+        "indexed": done,
+        "corpus_total": total,
+        "facts_leafs": fact_n,
+        "chat_leafs": chat_n,
+        **{k: v for k, v in s.items() if k in ("total", "by_root")},
+    }
     if a.skip_indexes:
         result["indexes"] = "skipped"
-    print(json.dumps(result, indent=2) if a.json else f"indexed {done}/{total} leafs; db total {s['total']}")
+    print(json.dumps(result, indent=2) if a.json else
+          f"indexed {done}/{total} info + {fact_n} facts; db total {s['total']}")
     return 0
 
 

bin/kb/search

@@ -1,10 +1,9 @@
 #!/usr/bin/env bash
 # bin/kb/search — deprecated wrapper. Use bin/brain/search.go.
-# Sets CGO for ladybug, builds a binary (embed daemon needs a real executable),
+# CGO via Zig (bin/cgo/zig), not gcc. Builds a binary then execs it.
-# then execs it. Prints one deprecation line.
 set -euo pipefail
 
-ROOT="$(cd "$(dirname "$0")/../.." && pwd)"
+ROOT="$(CDPATH= cd -- "$(dirname "$0")/../.." && pwd)"
 BIN="$ROOT/var/bin/brain-search"
 SRC="$ROOT/internal/brain"
 CMD="$ROOT/bin/brain"
@@ -24,11 +23,10 @@ else
 fi
 
 if [ "$need_build" -eq 1 ]; then
-	echo "Building brain/search..." >&2
+	echo "Building brain/search (zig cc)..." >&2
 	(
 		cd "$ROOT" &&
-			CGO_CFLAGS="-I$ROOT/lib-ladybug" \
+			eval "$("$ROOT/bin/cgo/zig" env)" &&
-			CGO_LDFLAGS="-L$ROOT/lib-ladybug -Wl,-rpath,$ROOT/lib-ladybug" \
 			go build -tags system_ladybug -o "$BIN" ./bin/brain
 	) || exit 1
 fi

bin/kb/watch.go

@@ -1,5 +1,5 @@
 //usr/bin/env go run "$0" "$@"; exit
-// bin/kb/watch.go - re-index the 2dph brain when corpus files change.
+// bin/kb/watch.go — deprecated. Use bin/brain/watch.go.
 //
 // Usage:
 //

bin/mail/import

@@ -7,7 +7,7 @@
   bin/mail/import --since 2026-01-01    only messages after a date
   bin/mail/import --limit 50            cap messages per run
   bin/mail/import --no-attachments      body only, skip attachment conversion
-  bin/mail/import --ocr                OCR scanned PDFs/images via docling
+  bin/mail/import --ocr                OCR images (PDFs OCR when textless)
   bin/mail/import --dry-run            list messages without writing anything
 
 Writes one directory per message: var/mail/{folder}/{message_id}/
@@ -15,11 +15,12 @@ Writes one directory per message: var/mail/{folder}/{message_id}/
   attachments/              raw attachment files (zips unpacked to _unpacked/)
   attachments/*.md          converted attachment content
 
-Indexing is a separate step (bin/mail/index_mail): conversion can crash in
+Indexing is a separate step (`bin/brain/index.go --rebuild`): conversion can
-native docling and must not leave the brain DB mid-transaction.
+crash and must not leave the brain DB mid-transaction.
 
-Requires ONLYOFFICE_URL/USER/PASS in .env (or env). Idempotent: a message
+Requires ONLYOFFICE_URL/USER/PASS in .env (or env) except `--from-raw`.
-already present (message.md exists) is skipped unless --force.
+Idempotent: a message already present (message.md exists) is skipped unless
+--force.
 """
 from __future__ import annotations
 
@@ -41,10 +42,10 @@ from mailconv import (  # noqa: E402
     IMAGE_SUFFIXES,
     LEGACY_OFFICE_SUFFIXES,
     TEXT_SUFFIXES,
+    convert_pdf,
     html_to_markdown,
-    is_convertible,
     normalize_markdown,
-    subject_to_filename,
+    ocr_image,
     zip_extract_safe,
 )
 
@@ -147,9 +148,9 @@ def convert_file_to_md(path: Path, ocr: bool) -> str | None:
         except Exception as e:
             return f"\n<!-- conversion failed: {e} -->\n"
     if suffix == ".pdf":
-        return _convert_pdf(path, ocr)
+        return convert_pdf(path, ocr)
     if suffix in IMAGE_SUFFIXES and ocr:
-        return _convert_pdf(path, ocr)
+        return ocr_image(path) or "\n<!-- ocr unavailable -->\n"
     if suffix in LEGACY_OFFICE_SUFFIXES:
         return _convert_legacy(path)
     if suffix in ARCHIVE_SUFFIXES:
@@ -157,67 +158,6 @@ def convert_file_to_md(path: Path, ocr: bool) -> str | None:
     return None
 
 
-def _convert_pdf(path: Path, ocr: bool) -> str:
-    """Convert one PDF to markdown.
-
-    Fast path: poppler's pdftotext (-layout) extracts exact text from
-    born-digital PDFs in ~15ms vs docling's 1-3s. Only textless PDFs (scanned
-    pages, layout-heavy) fall back to docling, which runs isolated in a
-    subprocess because its native onnx/RT-DETR has segfaulted the main process.
-    """
-    text = _pdf_fast_text(path)
-    if ocr or text is None or not text.strip():
-        return _convert_pdf_docling(path, ocr)
-    return normalize_markdown(text)
-
-
-def _pdf_fast_text(path: Path) -> str | None:
-    """pdftotext -layout; None when poppler is unavailable (or the PDF has no text layer)."""
-    try:
-        proc = subprocess.run(
-            ["pdftotext", "-layout", str(path), "-"],
-            capture_output=True, timeout=60)
-    except (OSError, subprocess.TimeoutExpired):
-        return None
-    if proc.returncode != 0:
-        return None
-    return proc.stdout.decode("utf-8", errors="replace")
-
-
-def _convert_pdf_docling(path: Path, ocr: bool) -> str:
-    try:
-        proc = subprocess.run(
-            [sys.executable, os.path.abspath(__file__), "--pdf-worker", str(path),
-             "--ocr" if ocr else "--no-ocr"],
-            capture_output=True, text=True, timeout=600)
-    except subprocess.TimeoutExpired:
-        return "\n<!-- pdf conversion timed out -->\n"
-    if proc.returncode != 0:
-        tail = proc.stderr.strip().splitlines()[-3:]
-        return f"\n<!-- pdf conversion failed: {proc.returncode}: {' | '.join(tail)} -->\n"
-    return proc.stdout
-
-
-def _pdf_worker(path: Path, ocr: bool) -> None:
-    """docling worker entry: prints converted markdown on stdout, exits non-zero on error."""
-    try:
-        from docling.document_converter import DocumentConverter, PdfFormatOption
-        from docling.datamodel.pipeline_options import PdfPipelineOptions
-        opts = PdfPipelineOptions()
-        opts.do_ocr = bool(ocr)
-        opts.do_table_structure = True
-        conv = DocumentConverter(format_options={"pdf": PdfFormatOption(pipeline_options=opts)})
-        res = conv.convert(str(path))
-        sys.stdout.write(normalize_markdown(res.document.export_to_markdown()))
-        sys.exit(0)
-    except Exception as e:
-        # errors/stacktraces to stderr; the caller only reports a one-liner
-        print(f"pdf-worker: {e}", file=sys.stderr)
-        import traceback
-        traceback.print_exc(file=sys.stderr)
-        sys.exit(1)
-
-
 def _convert_legacy(path: Path) -> str:
     """Legacy .doc/.xls/.ppt -> md via pandoc (installed) or a stub."""
     try:
@@ -356,19 +296,12 @@ def main(argv: list[str]) -> int:
     p.add_argument("--from-raw", default="",
                    help="convert Go-synced dirs (var/mail/<folder>/<id>/message.json) to markdown")
     p.add_argument("--no-attachments", action="store_true", help="skip attachment download+convert")
-    p.add_argument("--ocr", action="store_true", help="OCR scanned PDFs/images via docling")
+    p.add_argument("--ocr", action="store_true", help="OCR images (PDFs OCR when textless)")
     p.add_argument("--force", action="store_true", help="re-import even if message.md exists")
     p.add_argument("--dry-run", action="store_true", help="list messages, write nothing")
     p.add_argument("--json", action="store_true")
-    p.add_argument("--pdf-worker", default="", help=argparse.SUPPRESS)
-    p.add_argument("--no-ocr", action="store_true", help=argparse.SUPPRESS)
     a = p.parse_args(argv)
 
-    if a.pdf_worker:
-        _pdf_worker(Path(a.pdf_worker), ocr=not a.no_ocr)
-        return 0
-
-    conf = load_env()
     fid = folder_id(a.folder)
     out_root = ROOT / "var" / "mail"
     summary: list[dict] = []
@@ -394,6 +327,7 @@ def main(argv: list[str]) -> int:
                                      target_dir=msg_dir.parent))
             summary.append(entry)
     else:
+        conf = load_env()
         OOCLIENT = OOClient(conf)
         if a.id:
             messages = [{"id": i} for i in a.id]

bin/mail/import.go

@@ -0,0 +1,20 @@
+//usr/bin/env go run -tags=mail_import "$0" "$@"; exit
+//go:build mail_import
+//
+// bin/mail/import.go - message.json → markdown (no brain write).
+//
+//	./bin/mail/import.go --from-raw var/mail
+//
+// Indexing is bin/brain/index.go --rebuild, not this command.
+// NOTE: never run `gofmt -w` on this file — it breaks the shebang.
+package main
+
+import (
+	"os"
+
+	"github.com/eSlider/2dph/internal/cmdbin"
+)
+
+func main() {
+	os.Exit(cmdbin.ExecFile("bin/mail/import", os.Args[1:]))
+}

bin/mail/index_mail

@@ -1,135 +1,26 @@
 #!/usr/bin/env python3
-"""mail/index_mail - rebuild the brain with every markdown under var/mail.
+"""mail/index_mail — deprecated. Use bin/brain/index.go --rebuild --with-mail.
 
-Ladybug corrupts its WAL when brand-new leafs are bulk-inserted while the
+Ladybug corrupts its WAL on bulk-insert into an already-indexed DB, so this
-FTS/VECTOR indexes already exist, so indexing ALWAYS runs as a fresh rebuild
+shim always rebuilds (repo corpus + var/mail). Conversion stays in mail/import.
-(repo corpus + var/mail), matching the proven-safe `kb/index --rebuild` path.
-Conversion and indexing stay separate: conversion can crash in native docling
-and must not leave the brain DB mid-transaction.
-
-  bin/mail/index_mail                 rebuild the index incl. all mail
-  bin/mail/index_mail --dry-run       count without writing
-  bin/mail/index_mail --limit N       cap messages included
-  bin/mail/index_mail --since D       only messages dated >= D (YYYY-MM-DD)
 """
 from __future__ import annotations
 
-import argparse
+import os
-import json
 import sys
 from pathlib import Path
 
 ROOT = Path(__file__).resolve().parents[2]
-sys.path.insert(0, str(ROOT / "bin" / "tools"))
-
-from kblib import DB_PATH, VAR, connect, ensure_indexes, init_schema, stats, upsert_leaf  # noqa: E402
-from mdleaves import read_markdown, to_all, walk_markdown  # noqa: E402
-
-
-def msg_date(md: Path) -> str:
-    j = md.parent / "message.json"
-    try:
-        d = json.loads(j.read_text(encoding="utf-8"))
-        return (d.get("receivedDate") or d.get("receivedAt") or "")[:10]
-    except Exception:
-        return ""
-
-
-def mail_leafs(limit: int, since: str, repo: str = "ooMail") -> list[dict]:
-    root = ROOT / "var" / "mail"
-    mds = sorted(root.rglob("message.md"))
-    if since:
-        mds = [m for m in mds if msg_date(m) >= since]
-    if limit:
-        mds = mds[:limit]
-    leafs: list[dict] = []
-    for md in mds:
-        files = [md] + sorted((md.parent / "attachments").glob("*.md"))
-        for f in files:
-            if not f.exists():
-                continue
-            for lf in to_all(read_markdown(f), f, repo=repo):
-                lf["source"] = f"ooMail:{md.parent.name}:{f.name}"
-                lf["how"] = "mail/import"
-                leafs.append(lf)
-    return leafs
 
 
 def main(argv: list[str]) -> int:
-    p = argparse.ArgumentParser(description="rebuild the brain incl. all mail")
+    print(
-    p.add_argument("--dry-run", action="store_true", help="count only, write nothing")
+        "bin/mail/index_mail is deprecated; use bin/brain/index.go --rebuild --with-mail",
-    p.add_argument("--limit", type=int, default=0, help="cap messages included")
+        file=sys.stderr,
-    p.add_argument("--since", default="", help="only messages dated >= YYYY-MM-DD")
+    )
-    p.add_argument("--json", action="store_true")
+    index = ROOT / "bin" / "kb" / "index"
-    a = p.parse_args(argv)
+    os.execv(sys.executable, [sys.executable, str(index), "--rebuild", "--with-mail", *argv])
-
+    return 1
-    mail = mail_leafs(a.limit, a.since)
-    if a.dry_run:
-        print(f"mail/index_mail: {len(mail)} mail leafs would be indexed")
-        return 0
-
-    # Fresh rebuild: delete DB, index repo corpus + mail, create indexes once
-    # at the end. Never insert into an already-indexed DB (WAL corruption).
-    VAR.mkdir(exist_ok=True)
-    if DB_PATH.exists():
-        DB_PATH.unlink()
-
-    corpus = _load_corpus()
-    leafs = corpus + mail
-
-    db, conn = connect(DB_PATH, read_only=False)
-    init_schema(conn)
-    embed = _embedder()
-    done, total = _index_leafs(conn, leafs, embed)
-    ensure_indexes(conn)
-    s = stats(conn)
-    conn.close()
-    db.close()
-
-    result = {"indexed": done, "corpus_total": total, "mail_leafs": len(mail),
-              **{k: v for k, v in s.items() if k in ("total", "by_root")}}
-    print(json.dumps(result, indent=2) if a.json else
-          f"mail/index_mail: indexed {done}/{total} leafs (mail={len(mail)}); db total {s['total']}")
-    return 0
-
-
-CORPUS_DEFAULTS = ["README.md", "PLAN.md", "AGENTS.md", "docs", "skills"]
-
-
-def _load_corpus() -> list[dict]:
-    files: list[Path] = []
-    for entry in CORPUS_DEFAULTS:
-        p = ROOT / entry
-        if p.is_file():
-            files.append(p)
-        elif p.is_dir():
-            files.extend(walk_markdown(p))
-    leafs: list[dict] = []
-    for path in files:
-        try:
-            leafs.extend(to_all(read_markdown(path), path, repo="eSlider/2dph"))
-        except OSError as e:
-            print(f"mail/index_mail: skip {path}: {e}", file=sys.stderr)
-    return leafs
-
-
-def _index_leafs(conn, leafs: list[dict], embed_fn) -> tuple[int, int]:
-    count = 0
-    for lf in leafs:
-        query = f"{lf['heading']}\n\n{lf['text']}"
-        emb = embed_fn(lf["text"]) if lf["text"] else None
-        upsert_leaf(conn, text=query, root="info", confidence="confirmed",
-                    source=lf["source"], source_rev="mail" if lf.get("how") == "mail/import" else "working-tree",
-                    how=lf.get("how", "kb/index"), loc=lf["source"], type_=lf.get("type", "reference"),
-                    embedding=emb)
-        count += 1
-    return count, len(leafs)
-
-
-def _embedder():
-    from model2vec import StaticModel
-    model = StaticModel.from_pretrained("minishlab/potion-multilingual-128M")
-    return lambda text: model.encode([text])[0].astype(float).tolist()
 
 
 if __name__ == "__main__":

bin/mail/ocr.go

@@ -0,0 +1,46 @@
+//usr/bin/env go run -tags=mail_ocr "$0" "$@"; exit
+//go:build mail_ocr
+//
+// bin/mail/ocr.go - OCR an image or scanned PDF (tesseract eng+deu).
+//
+//	./bin/mail/ocr.go scan.png
+//	./bin/mail/ocr.go scan.pdf
+//	OCR_ENGINE=paddle ./bin/mail/ocr.go scan.png
+//
+// PDFs try pdftotext -layout first; empty text layer uses pdftoppm + tesseract.
+// No gocv. Tesseract CGO bindings are not used (D21 Zig owns Ladybug CGO).
+// NOTE: never run `gofmt -w` on this file — it breaks the shebang.
+package main
+
+import (
+	"fmt"
+	"os"
+	"strings"
+
+	cliparse "github.com/eSlider/2dph/internal/cli"
+	"github.com/eSlider/2dph/internal/ocr"
+)
+
+func main() {
+	os.Exit(run(os.Args[1:]))
+}
+
+func run(args []string) int {
+	c, err := ocr.ParseArgs(args)
+	if err != nil {
+		return cliparse.Fail(err)
+	}
+	path := c.Path
+	var text string
+	if strings.HasSuffix(strings.ToLower(path), ".pdf") {
+		text, err = ocr.PDFFile(path)
+	} else {
+		text, err = ocr.ImageFile(path)
+	}
+	if err != nil {
+		fmt.Fprintf(os.Stderr, "mail/ocr: %v\n", err)
+		return 1
+	}
+	fmt.Println(text)
+	return 0
+}

bin/mail/sync.go

@@ -6,7 +6,7 @@
 //	./bin/mail/sync.go --dry-run
 //
 // Writes raw message.json + attachments under var/mail/<folder>/<id>/; run
-// bin/mail/import --from-raw afterwards to convert everything to markdown.
+// bin/mail/import.go --from-raw afterwards to convert everything to markdown.
 //
 // Shebang trick: first line is a Go `//` comment; the real code lives in the
 // importable package (module path, never a relative import).

bin/mail/sync/cli.go

@@ -5,12 +5,15 @@ package sync
 
 import (
 	"context"
-	"flag"
+	"errors"
 	"fmt"
 	"os"
 	"path/filepath"
 	"strings"
 	"time"
+
+	cliparse "github.com/eSlider/2dph/internal/cli"
+	"github.com/integrii/flaggy"
 )
 
 // CLIConfig is a superset of SyncConfig plus flag parsing results.
@@ -21,58 +24,84 @@ type CLIConfig struct {
 	Help    bool
 }
 
-// ParseCLI reads os.Args into a CLIConfig. Exit codes: 0 ok, 2 usage.
+type flagVals struct {
+	env, out, srcs, query string
+	workers, limit, offset int
+	force, dryRun         bool
+}
+
+func Parser() *flaggy.Parser {
+	v := flagVals{workers: 4, query: "in:inbox", srcs: "onlyoffice"}
+	return bind(&v)
+}
+
+func bind(v *flagVals) *flaggy.Parser {
+	if v.workers == 0 {
+		v.workers = 4
+	}
+	if v.query == "" {
+		v.query = "in:inbox"
+	}
+	if v.srcs == "" {
+		v.srcs = "onlyoffice"
+	}
+	p := cliparse.New("mail-sync")
+	p.Description = "download mail to var/mail"
+	p.String(&v.env, "", "env", ".env file")
+	p.String(&v.out, "", "out", "var/mail root")
+	p.Int(&v.workers, "", "workers", "concurrent downloads")
+	p.Int(&v.limit, "", "limit", "max messages per source (0 = all)")
+	p.Int(&v.offset, "", "offset", "skip first N messages per source")
+	p.Bool(&v.force, "", "force", "overwrite existing message.json")
+	p.Bool(&v.dryRun, "", "dry-run", "list counts without writing")
+	p.String(&v.query, "", "query", "Gmail search query")
+	p.String(&v.srcs, "", "source", "comma list: onlyoffice,gmail")
+	return p
+}
+
+// ParseCLI reads args into a CLIConfig. Exit codes: 0 ok, 2 usage.
 func ParseCLI(args []string) (CLIConfig, int, error) {
-	fs := flag.NewFlagSet("mail/sync", flag.ContinueOnError)
+	v := flagVals{workers: 4, query: "in:inbox", srcs: "onlyoffice"}
-	var (
+	p := bind(&v)
-		env    = fs.String("env", "", ".env file (default: <cwd>/.env)")
+	if err := cliparse.Parse(p, args); err != nil {
-		out    = fs.String("out", "", "var/mail root (default: <cwd>/var/mail)")
+		if errors.Is(err, cliparse.ErrHelp) {
-		workers = fs.Int("workers", 4, "concurrent downloads")
+			return CLIConfig{Help: true}, 0, nil
-		limit  = fs.Int("limit", 0, "max messages per source (0 = all)")
+		}
-		offset = fs.Int("offset", 0, "skip first N messages per source")
-		force  = fs.Bool("force", false, "overwrite existing message.json + attachments")
-		dryRun = fs.Bool("dry-run", false, "list message counts without writing")
-		query  = fs.String("query", "in:inbox", "Gmail search query (gmail source only)")
-		srcs   = fs.String("source", "onlyoffice", "comma list: onlyoffice,gmail (default onlyoffice)")
-		help   = fs.Bool("help", false, "usage")
-	)
-	fs.SetOutput(os.Stderr)
-	if err := fs.Parse(args); err != nil {
 		return CLIConfig{}, 2, err
 	}
-	if *help || fs.NArg() > 0 {
+	if len(p.TrailingArguments) > 0 {
 		return CLIConfig{Help: true}, 0, nil
 	}
 	wd, err := os.Getwd()
 	if err != nil {
 		return CLIConfig{}, 2, err
 	}
-	if *env == "" {
+	if v.env == "" {
-		*env = filepath.Join(wd, ".env")
+		v.env = filepath.Join(wd, ".env")
 	}
-	if *out == "" {
+	if v.out == "" {
-		*out = filepath.Join(wd, "var", "mail")
+		v.out = filepath.Join(wd, "var", "mail")
 	}
-	envVars := readEnv(*env)
+	envVars := readEnv(v.env)
 	cfg := SyncConfig{
-		Out:     *out,
+		Out:     v.out,
-		Workers: *workers,
+		Workers: v.workers,
-		Limit:   *limit,
+		Limit:   v.limit,
-		Offset:  *offset,
+		Offset:  v.offset,
-		Force:   *force,
+		Force:   v.force,
-		DryRun:  *dryRun,
+		DryRun:  v.dryRun,
-		Query:   *query,
+		Query:   v.query,
 		Policy:  RetryPolicy{},
 	}
-	cli := CLIConfig{Sync: cfg, Env: *env, Sources: *srcs}
+	out := CLIConfig{Sync: cfg, Env: v.env, Sources: v.srcs}
-	for _, s := range strings.Split(*srcs, ",") {
+	for _, s := range strings.Split(v.srcs, ",") {
 		switch strings.TrimSpace(s) {
 		case "onlyoffice":
 			u := pick(envVars["ONLYOFFICE_URL"], envVars["OO_URL"])
 			user := pick(envVars["ONLYOFFICE_USER"], envVars["OO_USER"])
 			pass := pick(envVars["ONLYOFFICE_PASS"], envVars["OO_PASSWORD"])
 			if u == "" || user == "" || pass == "" {
-				return CLIConfig{}, 2, fmt.Errorf("onlyoffice source needs ONLYOFFICE_URL/USER/PASS in %s", *env)
+				return CLIConfig{}, 2, fmt.Errorf("onlyoffice source needs ONLYOFFICE_URL/USER/PASS in %s", v.env)
 			}
 			cfg.OO = &OOConfig{URL: u, User: user, Password: pass}
 		case "gmail":
@@ -85,30 +114,30 @@ func ParseCLI(args []string) (CLIConfig, int, error) {
 			return CLIConfig{}, 2, fmt.Errorf("unknown source %q", s)
 		}
 	}
-	cli.Sync = cfg
+	out.Sync = cfg
-	return cli, 0, nil
+	return out, 0, nil
 }
 
 // Main is the CLI entry: returns process exit code.
 func Main(args []string) int {
-	cli, code, err := ParseCLI(args)
+	cfg, code, err := ParseCLI(args)
 	if err != nil {
 		fmt.Fprintln(os.Stderr, "mail/sync:", err)
 		return code
 	}
-	if cli.Help {
+	if cfg.Help {
 		fmt.Fprintln(os.Stderr, "usage: bin/mail/sync.go [--source onlyoffice,gmail] [--query GMAIL_Q] [--limit N] [--offset N] [--workers N] [--force] [--dry-run]")
 		return 0
 	}
 	ctx, cancel := context.WithTimeout(context.Background(), 6*time.Hour)
 	defer cancel()
 	start := time.Now()
-	stats, err := Run(ctx, cli.Sync)
+	stats, err := Run(ctx, cfg.Sync)
 	if err != nil {
 		fmt.Fprintln(os.Stderr, "mail/sync:", err)
 		return 1
 	}
-	if cli.Sync.DryRun {
+	if cfg.Sync.DryRun {
 		fmt.Printf("mail/sync: dry-run checked=%d (no writes)\n", stats.Checked)
 		return 0
 	}
@@ -135,7 +164,6 @@ func readEnv(path string) map[string]string {
 		k, v, _ := strings.Cut(line, "=")
 		out[strings.TrimSpace(k)] = strings.Trim(strings.TrimSpace(v), "\"'")
 	}
-	// env overrides file
 	for _, kv := range os.Environ() {
 		k, v, ok := strings.Cut(kv, "=")
 		if !ok {

bin/markdown/doc.go

@@ -0,0 +1,3 @@
+// Commands in this directory are shebang mains (import.go), tagged so
+// `go build ./bin/markdown` does not see two mains.
+package main

bin/markdown/import.go

@@ -0,0 +1,85 @@
+//usr/bin/env go run "$0" "$@"; exit
+//
+// bin/markdown/import.go - split markdown into leafs (H2 boundaries).
+//
+//	./bin/markdown/import.go [dir]
+//	./bin/markdown/import.go --files a.md,b.md --json
+//
+// Conversion only. Brain write is bin/brain/index.go.
+// Python bin/md/import remains as a fallback.
+// NOTE: never run `gofmt -w` on this file — it breaks the shebang.
+package main
+
+import (
+	"fmt"
+	"os"
+	"strings"
+
+	cliparse "github.com/eSlider/2dph/internal/cli"
+	"github.com/eSlider/2dph/internal/mdleaves"
+)
+
+func main() {
+	os.Exit(run(os.Args[1:]))
+}
+
+func run(args []string) int {
+	c, err := mdleaves.ParseArgs(args)
+	if err != nil {
+		return cliparse.Fail(err)
+	}
+	jsonOut := c.JSONOut
+	files := c.Files
+	root := c.Root
+
+	var paths []string
+	if files != "" {
+		for _, f := range strings.Split(files, ",") {
+			f = strings.TrimSpace(f)
+			if f != "" {
+				paths = append(paths, f)
+			}
+		}
+	} else {
+		st, err := os.Stat(root)
+		if err != nil {
+			fmt.Fprintf(os.Stderr, "md/import: no such path %s\n", root)
+			return 2
+		}
+		if !st.IsDir() {
+			paths = []string{root}
+		} else {
+			var err error
+			paths, err = mdleaves.WalkMarkdown(root)
+			if err != nil {
+				fmt.Fprintf(os.Stderr, "md/import: %v\n", err)
+				return 1
+			}
+		}
+	}
+	if len(paths) == 0 {
+		fmt.Fprintln(os.Stderr, "md/import: no markdown files")
+		return 1
+	}
+
+	var all []mdleaves.Leaf
+	for _, p := range paths {
+		raw, err := os.ReadFile(p)
+		if err != nil {
+			fmt.Fprintf(os.Stderr, "md/import: %s: %v\n", p, err)
+			continue
+		}
+		all = append(all, mdleaves.ToAll(string(raw), p, "")...)
+	}
+	if jsonOut {
+		s, err := mdleaves.EncodeJSON(all)
+		if err != nil {
+			fmt.Fprintln(os.Stderr, err)
+			return 1
+		}
+		fmt.Print(s)
+		return 0
+	}
+	fmt.Print(mdleaves.EncodeYAML(all))
+	return 0
+}

bin/postgres/doc.go

@@ -0,0 +1,2 @@
+// Commands in this directory are shebang mains (query.go).
+package main

bin/postgres/query.go

@@ -0,0 +1,20 @@
+//usr/bin/env go run -tags=postgres_query "$0" "$@"; exit
+//go:build postgres_query
+//
+// bin/postgres/query.go - read-only Postgres as YAML.
+//
+//	./bin/postgres/query.go --profile onlyoffice -c 'SELECT 1'
+//
+// Profiles: $HOME/.config/brain/db-profiles.yml (credentials stay out of git).
+// NOTE: never run `gofmt -w` on this file — it breaks the shebang.
+package main
+
+import (
+	"os"
+
+	"github.com/eSlider/2dph/internal/cmdbin"
+)
+
+func main() {
+	os.Exit(cmdbin.ExecFile("bin/db/psql-yq", os.Args[1:]))
+}

bin/qa/stats.go

@@ -0,0 +1,61 @@
+//usr/bin/env go run -tags=qa_stats "$0" "$@"; exit
+//go:build qa_stats
+//
+// bin/qa/stats.go - DuckDB quantiles over a JSON number array or JSONL count.
+//
+//	./bin/qa/stats.go <<< '[1,2,3,4,5]'
+//	./bin/qa/stats.go --jsonl rows.jsonl
+//
+// NOTE: never run `gofmt -w` on this file — it breaks the shebang.
+// DuckDB CGO needs gcc/g++ (not Zig). After eval "$(bin/cgo/zig env)":
+//   CC=gcc CXX=g++ CGO_CFLAGS= CGO_LDFLAGS= ./bin/qa/stats.go
+package main
+
+import (
+	"encoding/json"
+	"fmt"
+	"io"
+	"os"
+
+	cliparse "github.com/eSlider/2dph/internal/cli"
+	"github.com/eSlider/2dph/internal/duckstats"
+)
+
+func main() {
+	os.Exit(run(os.Args[1:]))
+}
+
+func run(args []string) int {
+	c, err := cliparse.ParseQAStats(args)
+	if err != nil {
+		return cliparse.Fail(err)
+	}
+	jsonl := c.JSONL
+	if jsonl != "" {
+		n, err := duckstats.CountJSONL(jsonl)
+		if err != nil {
+			fmt.Fprintln(os.Stderr, err)
+			return 1
+		}
+		fmt.Printf("n: %d\n", n)
+		return 0
+	}
+	raw, err := io.ReadAll(os.Stdin)
+	if err != nil {
+		fmt.Fprintln(os.Stderr, err)
+		return 1
+	}
+	var samples []float64
+	if err := json.Unmarshal(raw, &samples); err != nil {
+		fmt.Fprintln(os.Stderr, err)
+		return 1
+	}
+	s, err := duckstats.Quantiles(samples)
+	if err != nil {
+		fmt.Fprintln(os.Stderr, err)
+		return 1
+	}
+	fmt.Printf("n: %d\nmin: %g\np50: %g\np95: %g\nmax: %g\navg: %g\n",
+		s.N, s.Min, s.P50, s.P95, s.Max, s.Avg)
+	return 0
+}

bin/reasoner/bakeoff.go

@@ -0,0 +1,73 @@
+//usr/bin/env go run -tags=reasoner_bakeoff "$0" "$@"; exit
+//go:build reasoner_bakeoff
+//
+// bin/reasoner/bakeoff.go - CPU tool-call bake-off against an OpenAI-compatible URL (D18).
+//
+//	REASONER_BASE_URL=http://127.0.0.1:11435/v1 REASONER_MODEL=qwen3.5:9b ./bin/reasoner/bakeoff.go
+//	./bin/reasoner/bakeoff.go --model MichelRosselli/bonsai-27b:Q1_0 --json
+//
+// Measures OpenAI tool_calls (search/get/audit) and RSS from Ollama /api/ps, not VRAM.
+// PicoClaw is compose profile picoclaw; tool names match internal/httpapi MCP ops.
+// NOTE: never run `gofmt -w` on this file — it breaks the shebang.
+package main
+
+import (
+	"encoding/json"
+	"fmt"
+	"os"
+
+	cliparse "github.com/eSlider/2dph/internal/cli"
+	"github.com/eSlider/2dph/internal/duckstats"
+	"github.com/eSlider/2dph/internal/reasoner"
+)
+
+func main() {
+	os.Exit(run(os.Args[1:]))
+}
+
+func run(args []string) int {
+	c, err := reasoner.ParseArgs(args)
+	if err != nil {
+		return cliparse.Fail(err)
+	}
+	base, model, jsonOut, device := c.Base, c.Model, c.JSONOut, c.Device
+	client := reasoner.Client{BaseURL: base, Model: model, Device: device}
+	rep := reasoner.Run(client)
+	lat := make([]float64, 0, len(rep.Prompts))
+	for _, p := range rep.Prompts {
+		lat = append(lat, float64(p.LatencyMS))
+	}
+	if st, err := duckstats.Quantiles(lat); err == nil {
+		rep.LatencyP50MS = st.P50
+		rep.LatencyP95MS = st.P95
+	}
+	raw, err := json.MarshalIndent(rep, "", "  ")
+	if err != nil {
+		fmt.Fprintln(os.Stderr, err)
+		return 1
+	}
+	if jsonOut {
+		fmt.Println(string(raw))
+	} else {
+		fmt.Printf("model: %s\n", rep.Model)
+		fmt.Printf("hf_id: %s\n", rep.HF)
+		fmt.Printf("device: %s\n", rep.Device)
+		fmt.Printf("tool_call: %d/%d\n", rep.ToolCallOK, rep.ToolCallN)
+		fmt.Printf("xml_leak: %d\n", rep.XMLLeak)
+		fmt.Printf("rss_mb: %d\n", rep.RSSMB)
+		fmt.Printf("vram_mb: %d\n", rep.VRAMMB)
+		fmt.Printf("latency_p50_ms: %g\n", rep.LatencyP50MS)
+		fmt.Printf("latency_p95_ms: %g\n", rep.LatencyP95MS)
+		for _, p := range rep.Prompts {
+			status := "fail"
+			if p.OK {
+				status = "ok"
+			}
+			fmt.Printf("  %s: %s wanted=%s got=%s xml=%v %dms %s\n", p.WantedTool, status, p.WantedTool, p.ToolName, p.XMLLeak, p.LatencyMS, p.Err)
+		}
+	}
+	if rep.ToolCallN == 0 {
+		return 1
+	}
+	return 0
+}

bin/reasoner/doc.go

@@ -0,0 +1,2 @@
+// Commands in this directory are shebang mains (bakeoff.go).
+package main

bin/serve.go

@@ -18,5 +18,5 @@ func main() {
 			os.Setenv("KB_ROOT", wd)
 		}
 	}
-	httpapi.Run()
+	httpapi.Run(nil)
 }

bin/tools/contradict.py

@@ -0,0 +1,103 @@
+"""D16 contradiction adjudication (same rules as internal/facts)."""
+from __future__ import annotations
+
+from typing import Any
+
+CONF_CONFIRMED = "confirmed"
+CONF_HYPOTHESIS = "hypothesis"
+
+RULE_UNRESOLVED = "unresolved"
+RULE_TEMPORAL = "temporal_freshness"
+RULE_AUTHORITY = "authority_pairing"
+RULE_TWO_SOURCE = "two_source"
+RULE_SINGLE = "single_source"
+
+KIND_RUNTIME = "runtime"
+KIND_CONFIG = "config"
+KIND_NARRATIVE = "narrative"
+
+
+def _independent(sources: list[dict]) -> int:
+    seen: set[str] = set()
+    for i, s in enumerate(sources):
+        sid = str(s.get("id") or "") or f"{s.get('kind', '')}#{i}"
+        seen.add(sid)
+    return len(seen)
+
+
+def _fresh_n(sources: list[dict]) -> int:
+    return sum(1 for s in sources if not s.get("stale"))
+
+
+def _strong_n(sources: list[dict]) -> int:
+    return sum(1 for s in sources if s.get("kind") in (KIND_RUNTIME, KIND_CONFIG))
+
+
+def adjudicate(claim: dict[str, Any]) -> dict[str, Any]:
+    yes = list(claim.get("yes") or [])
+    no = list(claim.get("no") or [])
+    yes_n, no_n = _independent(yes), _independent(no)
+    text = str(claim.get("text") or "")
+
+    def out(conf: str, rule: str, winner: str = "") -> dict[str, Any]:
+        return {
+            "text": text,
+            "confidence": conf,
+            "confirmed": conf == CONF_CONFIRMED,
+            "rule": rule,
+            "winner": winner,
+            "yes": yes_n,
+            "no": no_n,
+        }
+
+    if yes_n < 2 or no_n < 2:
+        if yes_n >= 2:
+            return out(CONF_CONFIRMED, RULE_TWO_SOURCE, "yes")
+        if no_n >= 2:
+            return out(CONF_CONFIRMED, RULE_TWO_SOURCE, "no")
+        return out(CONF_HYPOTHESIS, RULE_SINGLE)
+    yf, nf = _fresh_n(yes), _fresh_n(no)
+    if yf >= 2 and nf < 2:
+        return out(CONF_CONFIRMED, RULE_TEMPORAL, "yes")
+    if nf >= 2 and yf < 2:
+        return out(CONF_CONFIRMED, RULE_TEMPORAL, "no")
+    ys, ns = _strong_n(yes), _strong_n(no)
+    if ys >= 2 and ns < 2:
+        return out(CONF_CONFIRMED, RULE_AUTHORITY, "yes")
+    if ns >= 2 and ys < 2:
+        return out(CONF_CONFIRMED, RULE_AUTHORITY, "no")
+    return out(CONF_HYPOTHESIS, RULE_UNRESOLVED)
+
+
+def parse_source_field(source: str) -> tuple[str, str]:
+    """Split `a x b vs c x d` into (yes, no). Empty no if no ` vs `."""
+    if " vs " not in source:
+        return source, ""
+    yes, _, no = source.partition(" vs ")
+    return yes.strip(), no.strip()
+
+
+def check_fact_row(lid: str, source: str, loc: str, how: str, conf: str) -> list[str]:
+    """Lexicon checks for one facts leaf (no Ladybug)."""
+    problems: list[str] = []
+    src = source or ""
+    if conf == CONF_CONFIRMED:
+        if " vs " in src:
+            problems.append(f"{lid}: confirmed fact cannot keep a vs-contradiction")
+        if " x " not in src:
+            problems.append(f"{lid}: needs 2-source evidence in source, got '{source}'")
+    elif conf == CONF_HYPOTHESIS:
+        yes, no = parse_source_field(src)
+        if not no or " x " not in yes or " x " not in no:
+            problems.append(
+                f"{lid}: hypothesis contradiction needs 'a x b vs c x d', got '{source}'"
+            )
+    elif conf == "partial":
+        pass
+    else:
+        problems.append(f"{lid}: unknown confidence '{conf}'")
+    if not loc:
+        problems.append(f"{lid}: missing loc (evidence pointer)")
+    if not how:
+        problems.append(f"{lid}: missing how")
+    return problems

bin/tools/gitimport.py

@@ -1,21 +1,12 @@
-"""gitimport - parse `git log` output and turn commits into brain leafs.
+"""gitimport - Ladybug graph writes for Commit/File/Person (no git binary).
 
-Pure, testable functions. Field grammar (see bin/git/import):
+Commit records come from bin/git/import.go (go-git). This module only MERGEs
-
+the version graph File-[:HAS_VERSION]->Commit-[:AUTHORED]->Person.
-  git log --no-merges --name-only \
-      --format='%x1e%H%x1f%an%x1f%ae%x1f%aI%x1f%s'
-
-  0x1e = record separator, 0x1f = field separator.
-  Files: newline-separated lines following each record's subject.
 """
-
 from __future__ import annotations
 
 from dataclasses import dataclass, field
 
-REC_SEP = "\x1e"
-FIELD_SEP = "\x1f"
-
 
 @dataclass
 class Commit:
@@ -26,54 +17,6 @@ class Commit:
     subject: str
     files: list[str] = field(default_factory=list)
 
-    def leaf_text(self, repo: str) -> str:
-        head = f"commit {self.sha[:12]} in {repo} — {self.subject}"
-        body = [head, f"Author: {self.author} <{self.email}>", f"Date: {self.date}"]
-        if self.files:
-            body.append("Changing: " + ", ".join(self.files))
-        return "\n".join(body)
-
-
-def parse_log(text: str) -> list[Commit]:
-    """Parse `git log` output into Commit records.
-
-    Records are separated by 0x1e. A record is fields joined by 0x1f,
-    followed by optional newline-separated file paths inside the next
-    segment (git emits blank line + files after each record).
-    """
-    commits: list[Commit] = []
-    # field records and file lists alternate; simpler: split on REC_SEP,
-    # each chunk = header line, possibly followed by newline + files.
-    for chunk in text.split(REC_SEP):
-        chunk = chunk.strip("\n")
-        if not chunk:
-            continue
-        lines = chunk.split("\n", 1)
-        header = lines[0].split(FIELD_SEP)
-        if len(header) < 5:
-            continue
-        sha, author, email, date, subject = header[:5]
-        files = [ln.strip() for ln in lines[1].splitlines() if ln.strip()] if len(lines) > 1 else []
-        commits.append(Commit(sha=sha, author=author, email=email,
-                              date=date, subject=subject, files=files))
-    return commits
-
-
-def commits_to_leafs(commits: list[Commit], repo: str) -> list[dict]:
-    """Map commits to the leaf shape bin/kb/index expects (source/repo/...)."""
-    out: list[dict] = []
-    for c in commits:
-        out.append({
-            "source": f"{repo}@{c.sha}",
-            "repo": repo,
-            "heading": f"commit {c.sha[:12]} — {c.subject}",
-            "text": c.leaf_text(repo),
-            "type": "commit",
-            "status": "current",
-            "related": ",".join(c.files),
-        })
-    return out
-
 
 GIT_SCHEMA = (
     "CREATE NODE TABLE IF NOT EXISTS Commit (id STRING, repo STRING, subject STRING, "

bin/tools/kblib.py

@@ -4,7 +4,7 @@ Single embedded graph `var/kb.lbug`. Two roots: facts (assertions backed by
 >=2 independent sources) and info (narrative leafs). Hybrid retrieval: BM25
 (FTS extension) + HNSW cosine (VECTOR extension) + Cypher graph hops.
 
-All access is read-only unless `--rebuild` is passed to kb/index.
+All access is read-only unless `--rebuild` (kb/index) or `kb/add`.
 """
 from __future__ import annotations
 
@@ -118,6 +118,97 @@ def upsert_leaf(conn: ladybug.Connection, *, text: str, root: str, confidence: s
     return lid
 
 
+def add_leafs(conn: ladybug.Connection, leafs: list[dict]) -> list[str]:
+    """Write facts+info leafs in one transaction. Safe while FTS/HNSW exist.
+
+    Each leaf dict: text, source, optional root/confidence/source_rev/how/loc/type/embedding.
+    Does not delete the database file. Measured on Ladybug 0.19: MERGE of new
+    ids (and updates) stays FTS+HNSW queryable; DROP INDEX is the fatal path.
+    """
+    if not leafs:
+        return []
+    started = False
+    try:
+        conn.execute("BEGIN TRANSACTION")
+        started = True
+    except Exception:
+        started = False
+    ids: list[str] = []
+    try:
+        for lf in leafs:
+            ids.append(
+                upsert_leaf(
+                    conn,
+                    text=str(lf["text"]),
+                    root=str(lf.get("root") or ROOT_INFO),
+                    confidence=str(lf.get("confidence") or CONF_CONFIRMED),
+                    source=str(lf["source"]),
+                    source_rev=str(lf.get("source_rev") or "working-tree"),
+                    how=str(lf.get("how") or "brain/add"),
+                    loc=str(lf.get("loc") or lf.get("source") or ""),
+                    type_=str(lf.get("type") or lf.get("type_") or "reference"),
+                    embedding=lf.get("embedding"),
+                )
+            )
+        if started:
+            conn.execute("COMMIT")
+    except Exception:
+        if started:
+            try:
+                conn.execute("ROLLBACK")
+            except Exception:
+                pass
+        raise
+    return ids
+
+
+def file_id(repo: str, path: str) -> str:
+    """Stable File.id matching gitimport (`repo:path`)."""
+    return f"{repo}:{path}" if repo else path
+
+
+def link_from_file(conn: ladybug.Connection, leaf_id: str, path: str,
+                   repo: str = "", mtime: str = "") -> str:
+    """MERGE File and Leaf-[:FROM_FILE]->File so --hop 1 can walk."""
+    fid = file_id(repo, path)
+    conn.execute(
+        "MERGE (f:File {id:$id}) SET f.path=$path, f.repo=$repo, f.mtime=$mtime",
+        parameters={"id": fid, "path": path, "repo": repo, "mtime": mtime},
+    )
+    conn.execute(
+        "MATCH (l:Leaf {id:$lid}), (f:File {id:$fid}) "
+        "MERGE (l)-[:FROM_FILE]->(f)",
+        parameters={"lid": leaf_id, "fid": fid},
+    )
+    return fid
+
+
+HOP_STMTS = {
+    1: "MATCH (l:Leaf {id:$id})-[:FROM_FILE]->(f:File) RETURN f.id, f.path, 1",
+    2: ("MATCH (l:Leaf {id:$id})-[:FROM_FILE]->(f:File)-[:HAS_VERSION]->(c:Commit) "
+        "RETURN c.id, c.subject, 2"),
+    3: ("MATCH (l:Leaf {id:$id})-[:FROM_FILE]->(f:File)-[:HAS_VERSION]->(c:Commit)"
+        "-[:AUTHORED]->(p:Person) RETURN p.id, p.name, 3"),
+}
+HOP_LABELS = {1: "File", 2: "Commit", 3: "Person"}
+
+
+def hop_walk(conn: ladybug.Connection, leaf_id: str, n: int) -> list[dict]:
+    """Walk Leaf → File → Commit → Person up to n hops (max 3)."""
+    depth = min(max(int(n), 0), 3)
+    out: list[dict] = []
+    for d in range(1, depth + 1):
+        rows = conn.execute(HOP_STMTS[d], parameters={"id": leaf_id}).get_all()
+        for row in rows:
+            out.append({
+                "id": row[0],
+                "label": HOP_LABELS[d],
+                "name": row[1],
+                "depth": int(row[2]),
+            })
+    return out
+
+
 def leaf_index_names(conn: ladybug.Connection) -> set[str]:
     """Return index names on the Leaf table (e.g. {'id', 'Leaf_vec', '_PK'})."""
     rows = conn.execute("CALL SHOW_INDEXES() RETURN *").get_all()
@@ -135,7 +226,7 @@ def create_fts_and_vector(conn: ladybug.Connection, force: bool = False) -> None
 
     `force=True` is accepted for API compatibility but does **not** drop.
     Fresh indexes require deleting `var/kb.lbug` and rebuilding
-    (`bin/kb/index --rebuild`).
+    (`bin/brain/index.go --rebuild`).
     """
     del force  # API compat; DROP is unsafe — see docstring
     names = leaf_index_names(conn)
@@ -145,7 +236,7 @@ def create_fts_and_vector(conn: ladybug.Connection, force: bool = False) -> None
         except Exception as e:
             raise RuntimeError(
                 "CREATE_FTS_INDEX failed (often ghost catalog after DROP INDEX). "
-                "Delete var/kb.lbug and run bin/kb/index --rebuild. "
+                "Delete var/kb.lbug and run bin/brain/index.go --rebuild. "
                 f"Cause: {e}"
             ) from e
     if "Leaf_vec" not in names:
@@ -158,7 +249,7 @@ def create_fts_and_vector(conn: ladybug.Connection, force: bool = False) -> None
             raise RuntimeError(
                 "CREATE_VECTOR_INDEX failed (often ghost catalog after DROP INDEX "
                 "Leaf.Leaf_vec → `_0_Leaf_vec_UPPER already exists in catalog`). "
-                "Delete var/kb.lbug and run bin/kb/index --rebuild. "
+                "Delete var/kb.lbug and run bin/brain/index.go --rebuild. "
                 f"Cause: {e}"
             ) from e
     names = leaf_index_names(conn)
@@ -237,6 +328,6 @@ def stats(conn: ladybug.Connection) -> dict:
 
 def open_readonly() -> tuple[ladybug.Database, ladybug.Connection]:
     if not DB_PATH.exists():
-        raise FileNotFoundError(f"{DB_PATH} missing - run bin/kb/index first")
+        raise FileNotFoundError(f"{DB_PATH} missing - run bin/brain/index.go --rebuild first")
     db, conn = connect(read_only=True)
     return db, conn

bin/tools/mailconv.py

@@ -7,7 +7,10 @@ offline against fixtures.
 from __future__ import annotations
 
 import html
+import os
 import re
+import subprocess
+import tempfile
 import zipfile
 from pathlib import Path
 
@@ -18,9 +21,10 @@ OFFICE_SUFFIXES = {".docx", ".pptx", ".xlsx", ".html", ".htm", ".epub", ".eml",
 PDF_SUFFIXES = {".pdf"}
 IMAGE_SUFFIXES = {".png", ".jpg", ".jpeg", ".gif", ".bmp", ".tiff", ".tif", ".webp"}
 ARCHIVE_SUFFIXES = {".zip"}
-# Legacy binary Office (doc/xls/ppt) — markitdown/docling skip them; we try
+# Legacy binary Office (doc/xls/ppt) — markitdown skip them; we try
 # pandoc first, else leave a stub.
 LEGACY_OFFICE_SUFFIXES = {".doc", ".xls", ".ppt"}
+TESS_LANG = "eng+deu"
 
 CONVERTIBLE_SUFFIXES = (
     TEXT_SUFFIXES | OFFICE_SUFFIXES | PDF_SUFFIXES | IMAGE_SUFFIXES | ARCHIVE_SUFFIXES | LEGACY_OFFICE_SUFFIXES
@@ -146,3 +150,82 @@ def zip_extract_safe(zip_path: Path, dest: Path) -> list[Path]:
 
 def is_convertible(suffix: str) -> bool:
     return suffix.lower() in CONVERTIBLE_SUFFIXES
+
+
+def convert_pdf(path: Path, ocr: bool = False) -> str:
+    """pdftotext -layout first; empty text layer → pdftoppm + tesseract.
+
+    `ocr` is unused for born-digital PDFs (text layer wins). Scans OCR
+    automatically. This path never execs an ONNX document converter.
+    """
+    del ocr  # scans OCR when the text layer is empty; flag is for images
+    text = pdf_fast_text(path)
+    if text and text.strip():
+        return normalize_markdown(text)
+    scanned = ocr_pdf(path)
+    if scanned and scanned.strip():
+        return normalize_markdown(scanned)
+    if text:
+        return normalize_markdown(text)
+    return "\n<!-- pdf has no text layer (ocr unavailable) -->\n"
+
+
+def pdf_fast_text(path: Path) -> str | None:
+    """pdftotext -layout; None when poppler is missing or the command fails."""
+    try:
+        proc = subprocess.run(
+            ["pdftotext", "-layout", str(path), "-"],
+            capture_output=True, timeout=60)
+    except (OSError, subprocess.TimeoutExpired):
+        return None
+    if proc.returncode != 0:
+        return None
+    return proc.stdout.decode("utf-8", errors="replace")
+
+
+def ocr_pdf(path: Path) -> str:
+    """Rasterize with pdftoppm and OCR each page (tesseract or paddle)."""
+    try:
+        with tempfile.TemporaryDirectory(prefix="2dph-ocr-") as tmp:
+            prefix = str(Path(tmp) / "page")
+            proc = subprocess.run(
+                ["pdftoppm", "-png", "-r", "200", str(path), prefix],
+                capture_output=True, timeout=120)
+            if proc.returncode != 0:
+                return ""
+            pages = sorted(Path(tmp).glob("page*.png"))
+            parts = [ocr_image(p) for p in pages]
+            return "\n\n".join(p for p in parts if p and p.strip())
+    except (OSError, subprocess.TimeoutExpired):
+        return ""
+
+
+def ocr_image(path: Path) -> str:
+    engine = os.environ.get("OCR_ENGINE", "tesseract")
+    if engine == "paddle":
+        return _ocr_paddle(path)
+    return _ocr_tesseract(path)
+
+
+def _ocr_tesseract(path: Path) -> str:
+    try:
+        proc = subprocess.run(
+            ["tesseract", str(path), "stdout", "-l", TESS_LANG, "--psm", "6"],
+            capture_output=True, timeout=120)
+    except (OSError, subprocess.TimeoutExpired):
+        return ""
+    if proc.returncode != 0:
+        return ""
+    return proc.stdout.decode("utf-8", errors="replace").strip()
+
+
+def _ocr_paddle(path: Path) -> str:
+    try:
+        proc = subprocess.run(
+            ["paddleocr", "ocr", "-i", str(path)],
+            capture_output=True, timeout=180)
+    except (OSError, subprocess.TimeoutExpired):
+        return ""
+    if proc.returncode != 0:
+        return ""
+    return proc.stdout.decode("utf-8", errors="replace").strip()

bin/tools/mailleafs.py

@@ -0,0 +1,37 @@
+"""Mail markdown under var/mail → info leafs. Conversion stays off the brain DB."""
+from __future__ import annotations
+
+import json
+from pathlib import Path
+
+from mdleaves import read_markdown, to_all
+
+
+def msg_date(md: Path) -> str:
+    j = md.parent / "message.json"
+    try:
+        d = json.loads(j.read_text(encoding="utf-8"))
+        return (d.get("receivedDate") or d.get("receivedAt") or "")[:10]
+    except (OSError, json.JSONDecodeError, TypeError):
+        return ""
+
+
+def from_mail_root(root: Path, limit: int = 0, since: str = "", repo: str = "ooMail") -> list[dict]:
+    if not root.is_dir():
+        return []
+    mds = sorted(root.rglob("message.md"))
+    if since:
+        mds = [m for m in mds if msg_date(m) >= since]
+    if limit:
+        mds = mds[:limit]
+    leafs: list[dict] = []
+    for md in mds:
+        files = [md] + sorted((md.parent / "attachments").glob("*.md"))
+        for f in files:
+            if not f.exists():
+                continue
+            for lf in to_all(read_markdown(f), f, repo=repo):
+                lf["source"] = f"ooMail:{md.parent.name}:{f.name}"
+                lf["how"] = "mail/import"
+                leafs.append(lf)
+    return leafs

bin/tools/test_bin_layout.py

@@ -1,6 +1,7 @@
 """D14 layout: bin/{subject}/{method}.go, libs in internal/, one go.mod."""
 from __future__ import annotations
 
+import os
 import unittest
 from pathlib import Path
 
@@ -34,3 +35,282 @@ class BinLayoutTest(unittest.TestCase):
     def test_no_main_go_under_bin_brain(self) -> None:
         main = ROOT / "bin" / "brain" / "main.go"
         self.assertFalse(main.exists(), "bin/brain/main.go is not a method")
+
+    def test_chats_methods_are_shebangs_not_main(self) -> None:
+        chats = ROOT / "bin" / "chats"
+        self.assertFalse(
+            (chats / "main.go").exists(),
+            "bin/chats/main.go is a dispatcher, not a method",
+        )
+        self.assertFalse(
+            (chats / "index_cmd.go").exists(),
+            "chats index is a brain write hiding under the wrong subject",
+        )
+        for method in ("sync.go", "import.go", "facts.go", "apply.go"):
+            p = chats / method
+            self.assertTrue(p.is_file(), f"missing bin/chats/{method}")
+            first = p.read_text().splitlines()[0]
+            self.assertTrue(
+                first.startswith("//usr/bin/env go run"),
+                f"{method} shebang, got {first!r}",
+            )
+
+    def test_chats_lib_lives_in_internal(self) -> None:
+        self.assertTrue(
+            (ROOT / "internal" / "chats" / "linkedin.go").is_file(),
+            "LinkedIn parser must live in internal/chats",
+        )
+        self.assertFalse(
+            (ROOT / "bin" / "chats" / "linkedin.go").exists(),
+            "parser must not stay under bin/chats as a second main",
+        )
+
+    def _assert_shebang(self, rel: str) -> None:
+        p = ROOT / rel
+        self.assertTrue(p.is_file(), f"missing {rel}")
+        first = p.read_text().splitlines()[0]
+        self.assertTrue(
+            first.startswith("//usr/bin/env go run"),
+            f"{rel} shebang, got {first!r}",
+        )
+
+    def test_brain_methods_are_shebangs(self) -> None:
+        for method in ("index.go", "add.go", "get.go", "stats.go", "eval.go", "watch.go"):
+            self._assert_shebang(f"bin/brain/{method}")
+
+    def test_brain_add_is_python_write_not_rebuild(self) -> None:
+        self._assert_shebang("bin/brain/add.go")
+        text = (ROOT / "bin" / "brain" / "add.go").read_text()
+        self.assertIn("cmdbin.ExecFile", text)
+        self.assertIn("bin/kb/add", text)
+        self.assertNotIn("--rebuild", text)
+        py = (ROOT / "bin" / "kb" / "add").read_text()
+        self.assertIn("add_leafs", py)
+        self.assertIn("--json", py)
+        self.assertNotIn("unlink", py.lower())
+
+    def test_brain_get_stats_eval_are_not_python_exec(self) -> None:
+        for method in ("get.go", "stats.go", "eval.go"):
+            text = (ROOT / "bin" / "brain" / method).read_text()
+            self.assertNotIn(
+                "ExecFile",
+                text,
+                f"bin/brain/{method} must call internal/brain, not ExecFile Python",
+            )
+            self.assertNotIn(
+                "cmdbin",
+                text,
+                f"bin/brain/{method} must not import internal/cmdbin",
+            )
+            self.assertIn(
+                "system_ladybug",
+                text.splitlines()[0],
+                f"bin/brain/{method} shebang must pass -tags=system_ladybug",
+            )
+            self.assertIn(
+                "github.com/eSlider/2dph/internal/brain",
+                text,
+            )
+
+    def test_eval_control_questions_live_in_rank(self) -> None:
+        rank = (ROOT / "internal" / "brain" / "rank" / "evalq.go").read_text()
+        py = (ROOT / "bin" / "kb" / "eval").read_text()
+        for frag in ("BM25", "DevOps", "LadybugDB"):
+            self.assertIn(frag, rank)
+            self.assertIn(frag, py)
+        self.assertIn("0.95", rank)
+
+    def test_facts_methods_are_shebangs(self) -> None:
+        for method in ("audit.go", "extract.go", "crm.go"):
+            self._assert_shebang(f"bin/facts/{method}")
+            text = (ROOT / "bin" / "facts" / method).read_text()
+            self.assertIn("cmdbin.ExecFile", text)
+            self.assertIn(f"bin/facts/{method.removesuffix('.go')}", text)
+
+    def test_d16_adjudication_is_cgo_free(self) -> None:
+        self.assertTrue((ROOT / "internal" / "facts" / "contradict.go").is_file())
+        go = (ROOT / "internal" / "facts" / "contradict.go").read_text()
+        py = (ROOT / "bin" / "tools" / "contradict.py").read_text()
+        audit = (ROOT / "bin" / "facts" / "audit").read_text()
+        for token in ("temporal_freshness", "authority_pairing", "unresolved"):
+            self.assertIn(token, go)
+            self.assertIn(token, py)
+        self.assertIn("contradict", audit)
+        self.assertIn(" vs ", py)
+        plan = (ROOT / "PLAN.md").read_text()
+        self.assertIn("temporal_freshness", plan)
+        self.assertIn("authority_pairing", plan)
+        shebang = (ROOT / "bin" / "facts" / "audit.go").read_text()
+        self.assertIn("contradict", shebang)
+
+    def test_d23_flaggy_cli(self) -> None:
+        self.assertTrue((ROOT / "internal" / "cli" / "cli.go").is_file())
+        self.assertIn("github.com/integrii/flaggy", (ROOT / "go.mod").read_text())
+        plan = (ROOT / "PLAN.md").read_text()
+        self.assertIn("D23", plan)
+        self.assertIn("flaggy", plan)
+        complete = (ROOT / "bin" / "cli" / "complete.go").read_text()
+        first = complete.splitlines()[0]
+        self.assertTrue(first.startswith("//usr/bin/env go run"), first)
+        self.assertIn("complete.go bash", complete)
+        self.assertIn("brain-search", complete)
+        chats_import = (ROOT / "internal" / "chats" / "import.go").read_text()
+        self.assertNotIn("flag.NewFlagSet", chats_import)
+        args = (ROOT / "internal" / "brain" / "rank" / "args.go").read_text()
+        self.assertIn("internal/cli", args)
+
+    def test_mail_import_is_shebang_not_brain_write(self) -> None:
+        self._assert_shebang("bin/mail/import.go")
+        index_mail = (ROOT / "bin" / "mail" / "index_mail").read_text()
+        self.assertIn(
+            "bin/brain/index.go",
+            index_mail,
+            "index_mail must point at bin/brain/index.go",
+        )
+
+    def test_mail_ocr_is_tesseract_not_docling(self) -> None:
+        self._assert_shebang("bin/mail/ocr.go")
+        ocr = (ROOT / "bin" / "mail" / "ocr.go").read_text()
+        self.assertIn("internal/ocr", ocr)
+        self.assertIn("mail_ocr", ocr)
+        self.assertNotIn("github.com/otiai10/gosseract", ocr)
+        py = (ROOT / "bin" / "mail" / "import").read_text()
+        self.assertNotIn("from docling", py)
+        self.assertNotIn("import docling", py)
+        self.assertIn("convert_pdf", py)
+        conv = (ROOT / "bin" / "tools" / "mailconv.py").read_text()
+        self.assertIn("pdftotext", conv)
+        self.assertIn("pdftoppm", conv)
+        self.assertIn("tesseract", conv)
+        self.assertIn("eng+deu", conv)
+        self.assertNotIn("from docling", conv)
+        self.assertNotIn("import docling", conv)
+        self.assertNotIn("gocv", conv.lower())
+        proj = (ROOT / "pyproject.toml").read_text()
+        self.assertNotIn("docling", proj)
+        ci = (ROOT / ".github" / "workflows" / "ci.yml").read_text()
+        self.assertIn("tesseract-ocr", ci)
+        self.assertIn("./internal/ocr", ci)
+        compose = (ROOT / "compose.yaml").read_text()
+        self.assertIn("ocr-paddle", compose)
+        self.assertIn("OCR_ENGINE", compose)
+
+    def test_markdown_import_is_go_not_python_exec(self) -> None:
+        self._assert_shebang("bin/markdown/import.go")
+        text = (ROOT / "bin" / "markdown" / "import.go").read_text()
+        self.assertNotIn("ExecFile", text)
+        self.assertNotIn("cmdbin", text)
+        self.assertIn("internal/mdleaves", text)
+        self.assertNotIn("kb.lbug", text)
+
+    def test_import_adapters_do_not_write_ladybug(self) -> None:
+        for rel in (
+            "bin/mail/import.go",
+            "bin/mail/import",
+            "bin/markdown/import.go",
+            "bin/chats/import.go",
+            "bin/git/import.go",
+        ):
+            text = (ROOT / rel).read_text()
+            self.assertNotIn("upsert_leaf", text, rel)
+            self.assertNotIn("kb.lbug", text, rel)
+            self.assertNotIn("var/brain.lbug", text, rel)
+        index = (ROOT / "bin" / "brain" / "index.go").read_text()
+        self.assertIn("bin/kb/index", index)
+
+    def test_postgres_query_is_shebang(self) -> None:
+        self._assert_shebang("bin/postgres/query.go")
+
+    def test_git_import_is_gogit_shebang(self) -> None:
+        self._assert_shebang("bin/git/import.go")
+        py = (ROOT / "bin" / "git" / "import").read_text()
+        self.assertNotIn(
+            '["git"',
+            py,
+            "Python git/import must not subprocess the git binary",
+        )
+        self.assertIn("bin/git/import.go", py)
+
+    def test_web_search_is_shebang(self) -> None:
+        self._assert_shebang("bin/web/search.go")
+        py = (ROOT / "bin" / "web" / "search").read_text()
+        self.assertIn("bin/web/search.go", py)
+
+    def test_gitimport_py_has_no_git_binary(self) -> None:
+        py = (ROOT / "bin" / "tools" / "gitimport.py").read_text()
+        self.assertNotIn("subprocess", py)
+        self.assertNotIn("git log", py)
+
+    def test_gogit_is_direct_go_mod_require(self) -> None:
+        text = (ROOT / "go.mod").read_text()
+        first = text.split("require (")[1].split(")")[0]
+        self.assertRegex(first, r"github.com/go-git/go-git/v5\s+v")
+        for line in first.splitlines():
+            if "go-git/go-git" in line:
+                self.assertNotIn("indirect", line)
+
+    def test_duckdb_go_is_direct_require(self) -> None:
+        text = (ROOT / "go.mod").read_text()
+        first = text.split("require (")[1].split(")")[0]
+        self.assertRegex(first, r"github.com/duckdb/duckdb-go/v2\s+v")
+        for line in first.splitlines():
+            if "duckdb/duckdb-go" in line:
+                self.assertNotIn("indirect", line)
+        skill = (ROOT / "skills" / "duckdb" / "SKILL.md").read_text()
+        self.assertIn("github.com/duckdb/duckdb-go", skill)
+        self.assertIn("Ladybug", skill)
+        self.assertIn("sqlite", skill.lower())
+        self.assertIn("gcc", skill.lower())
+        self.assertIn("Zig", skill)
+        plan = (ROOT / "PLAN.md").read_text()
+        self.assertIn("D22", plan)
+        self.assertIn("duckdb-go", plan)
+        self._assert_shebang("bin/qa/stats.go")
+        reasoner = (ROOT / "internal" / "reasoner" / "client.go").read_text()
+        self.assertNotIn("duckdb", reasoner)
+        self.assertNotIn("duckstats", reasoner)
+        bakeoff = (ROOT / "bin" / "reasoner" / "bakeoff.go").read_text()
+        self.assertIn("internal/duckstats", bakeoff)
+        webcache = (ROOT / "internal" / "websearch" / "cache.go").read_text()
+        self.assertNotIn("duckdb", webcache)
+        self.assertIn("modernc.org/sqlite", webcache)
+
+    def test_cgo_uses_zig_not_gcc(self) -> None:
+        for rel in ("bin/cgo/zig", "bin/cgo/zcc", "bin/cgo/zc++"):
+            p = ROOT / rel
+            self.assertTrue(p.is_file(), f"missing {rel}")
+            self.assertTrue(
+                os.access(p, os.X_OK),
+                f"{rel} must be executable",
+            )
+        zig = (ROOT / "bin" / "cgo" / "zig").read_text()
+        self.assertIn("zig cc", zig)
+        self.assertIn("0.14.1", zig)
+        zcc = (ROOT / "bin" / "cgo" / "zcc").read_text()
+        self.assertIn('exec "$ZIG" cc', zcc)
+        self.assertNotIn("command -v gcc", zcc)
+        search = (ROOT / "bin" / "kb" / "search").read_text()
+        self.assertIn("bin/cgo/zig", search)
+        self.assertNotIn("command -v gcc", search)
+
+    def test_ci_recall_sot_is_zig_brain_eval(self) -> None:
+        ci = (ROOT / ".github" / "workflows" / "ci.yml").read_text()
+        self.assertIn("bin/brain/eval.go", ci)
+        self.assertIn("system_ladybug,brain_eval", ci)
+        self.assertIn("/tmp/brain-eval", ci)
+        self.assertIn("KB_ROOT", ci)
+        self.assertNotIn("bin/kb/eval", ci)
+        self.assertNotIn("gate skipped", ci)
+        self.assertIn("./bin/facts/audit self", ci)
+
+    def test_eval_fragments_live_in_default_corpus(self) -> None:
+        """CI --rebuild indexes README/PLAN/docs/skills; fragments must be there."""
+        corpus = []
+        for rel in ("README.md", "PLAN.md", "AGENTS.md"):
+            corpus.append((ROOT / rel).read_text())
+        for d in ("docs", "skills"):
+            for p in (ROOT / d).rglob("*.md"):
+                corpus.append(p.read_text())
+        blob = "\n".join(corpus)
+        for frag in ("BM25", "DevOps", "LadybugDB"):
+            self.assertIn(frag, blob, f"{frag} must appear in default index corpus")

bin/tools/test_contradict.py

@@ -0,0 +1,104 @@
+import os
+import sys
+import unittest
+
+sys.path.insert(0, os.path.dirname(__file__))
+
+from contradict import (  # noqa: E402
+    RULE_AUTHORITY,
+    RULE_SINGLE,
+    RULE_TEMPORAL,
+    RULE_TWO_SOURCE,
+    RULE_UNRESOLVED,
+    adjudicate,
+    check_fact_row,
+    parse_source_field,
+)
+
+
+def src(i, kind, stale=False):
+    return {"id": i, "kind": kind, "stale": stale}
+
+
+class TestContradict(unittest.TestCase):
+    def test_two_vs_two_stays_hypothesis(self):
+        r = adjudicate({
+            "text": "svc listens on 443",
+            "yes": [src("docker-ps", "runtime"), src("compose", "config")],
+            "no": [src("docker-old", "runtime"), src("compose-old", "config")],
+        })
+        self.assertFalse(r["confirmed"])
+        self.assertEqual(r["rule"], RULE_UNRESOLVED)
+        self.assertEqual(r["winner"], "")
+
+    def test_temporal_freshness(self):
+        r = adjudicate({
+            "text": "svc listens on 443",
+            "yes": [src("docker-ps", "runtime"), src("compose", "config")],
+            "no": [src("old-readme", "narrative", True), src("old-wiki", "narrative", True)],
+        })
+        self.assertTrue(r["confirmed"])
+        self.assertEqual(r["rule"], RULE_TEMPORAL)
+        self.assertEqual(r["winner"], "yes")
+
+    def test_authority_pairing(self):
+        r = adjudicate({
+            "text": "svc listens on 443",
+            "yes": [src("docker-ps", "runtime"), src("compose", "config")],
+            "no": [src("readme", "narrative"), src("wiki", "narrative")],
+        })
+        self.assertTrue(r["confirmed"])
+        self.assertEqual(r["rule"], RULE_AUTHORITY)
+        self.assertEqual(r["winner"], "yes")
+
+    def test_two_source_and_single(self):
+        two = adjudicate({
+            "text": "arc-1 runs Matrix",
+            "yes": [src("compose", "config"), src("docker-ps", "runtime")],
+        })
+        self.assertTrue(two["confirmed"])
+        self.assertEqual(two["rule"], RULE_TWO_SOURCE)
+        one = adjudicate({"text": "maybe", "yes": [src("readme", "narrative")]})
+        self.assertFalse(one["confirmed"])
+        self.assertEqual(one["rule"], RULE_SINGLE)
+
+    def test_parse_source_field(self):
+        yes, no = parse_source_field("docker ps x compose.yml vs old.md x wiki.md")
+        self.assertIn(" x ", yes)
+        self.assertIn(" x ", no)
+
+    def test_check_fact_row_allows_hypothesis_vs(self):
+        p = check_fact_row(
+            "L1", "a.md x b.md vs c.md x d.md", "var/", "audit", "hypothesis",
+        )
+        self.assertEqual(p, [])
+        p = check_fact_row("L2", "a.md x b.md", "var/", "audit", "confirmed")
+        self.assertEqual(p, [])
+        p = check_fact_row("L3", "a.md x b.md vs c.md x d.md", "var/", "audit", "confirmed")
+        self.assertTrue(any("vs-contradiction" in x for x in p))
+        p = check_fact_row("L4", "only-one.md", "var/", "audit", "hypothesis")
+        self.assertTrue(any("a x b vs" in x for x in p))
+
+    def test_audit_contradict_cli_unresolved(self):
+        import json
+        import subprocess
+        from pathlib import Path
+        root = Path(__file__).resolve().parents[2]
+        payload = json.dumps({
+            "text": "svc 443",
+            "yes": [src("a", "runtime"), src("b", "config")],
+            "no": [src("c", "runtime"), src("d", "config")],
+        })
+        proc = subprocess.run(
+            [sys.executable, str(root / "bin" / "facts" / "audit"), "contradict", "--json"],
+            input=payload, capture_output=True, text=True, check=False,
+        )
+        self.assertEqual(proc.returncode, 0, proc.stderr)
+        out = json.loads(proc.stdout)
+        self.assertTrue(out["ok"])
+        self.assertEqual(out["contradictions"][0]["rule"], RULE_UNRESOLVED)
+        self.assertFalse(out["contradictions"][0]["confirmed"])
+
+
+if __name__ == "__main__":
+    unittest.main()

bin/tools/test_gitgraph.py

@@ -9,12 +9,6 @@ sys.path.insert(0, str(Path(__file__).resolve().parent))
 import kblib  # noqa: E402
 import gitimport  # noqa: E402
 
-SAMPLE = (
-    "\x1e" + "a1b2c3d" + "\x1f" + "Ada Lovelace" + "\x1f" + "ada@example.com"
-    + "\x1f" + "2026-08-10T12:00:00+01:00" + "\x1f" + "feat: first commit"
-    + "\n\nREADME.md\nsrc/main.c\n"
-)
-
 COMMIT_PERSON_SCHEMA = (
     "CREATE NODE TABLE IF NOT EXISTS Commit (id STRING, repo STRING, subject STRING, "
     "author STRING, email STRING, date STRING, PRIMARY KEY(id))"
@@ -26,6 +20,17 @@ HAS_VERSION_SCHEMA = "CREATE REL TABLE IF NOT EXISTS HAS_VERSION (FROM File TO C
 AUTHORED_SCHEMA = "CREATE REL TABLE IF NOT EXISTS AUTHORED (FROM Commit TO Person)"
 
 
+def sample_commit() -> gitimport.Commit:
+    return gitimport.Commit(
+        sha="a1b2c3d",
+        author="Ada Lovelace",
+        email="ada@example.com",
+        date="2026-08-10T12:00:00+01:00",
+        subject="feat: first commit",
+        files=["README.md", "src/main.c"],
+    )
+
+
 class GitGraphTest(unittest.TestCase):
     def setUp(self):
         self.dir = tempfile.mkdtemp()
@@ -42,14 +47,12 @@ class GitGraphTest(unittest.TestCase):
         self.db.close()
 
     def test_index_commits_creates_nodes_and_edges(self):
-        cs = gitimport.parse_log(SAMPLE)
+        gitimport.index_commits(self.conn, [sample_commit()], "sample-repo")
-        gitimport.index_commits(self.conn, cs, "sample-repo")
         rp = self.conn.execute("MATCH (p:Person) RETURN p.name, p.email").get_all()
         self.assertEqual([tuple(r) for r in rp], [("Ada Lovelace", "ada@example.com")])
         rc = self.conn.execute("MATCH (c:Commit) RETURN c.id, c.repo").get_all()
         self.assertEqual(len(rc), 1)
         self.assertEqual(rc[0][1], "sample-repo")
-        # File -[:HAS_VERSION]-> Commit -[:AUTHORED]-> Person
         rf = self.conn.execute(
             "MATCH (f:File)-[:HAS_VERSION]->(c:Commit)-[:AUTHORED]->(p:Person) "
             "RETURN f.path, c.id, p.email").get_all()
@@ -58,7 +61,7 @@ class GitGraphTest(unittest.TestCase):
         self.assertTrue(all(r[2] == "ada@example.com" for r in rf))
 
     def test_index_commits_idempotent(self):
-        cs = gitimport.parse_log(SAMPLE)
+        cs = [sample_commit()]
         gitimport.index_commits(self.conn, cs, "sample-repo")
         gitimport.index_commits(self.conn, cs, "sample-repo")
         n = self.conn.execute("MATCH (c:Commit) RETURN count(*)").get_all()[0][0]

bin/tools/test_gitimport.py

@@ -1,57 +0,0 @@
-import sys
-import unittest
-from pathlib import Path
-
-sys.path.insert(0, str(Path(__file__).resolve().parent))
-
-import gitimport  # noqa: E402
-
-SAMPLE = (
-    "\x1e" + "a1b2c3d" + "\x1f" + "Ada Lovelace" + "\x1f" + "ada@example.com"
-    + "\x1f" + "2026-08-10T12:00:00+01:00" + "\x1f" + "feat: first commit"
-    + "\n\nREADME.md\nsrc/main.c\n"
-    + "\x1e" + "e4f5a6b" + "\x1f" + "Bob Babbage" + "\x1f" + "bob@example.com"
-    + "\x1f" + "2026-08-11T09:30:00+01:00" + "\x1f" + "fix: typo"
-    + "\n\ndocs/notes.md"
-)
-
-
-class GitparseTest(unittest.TestCase):
-    def test_parses_records(self):
-        cs = gitimport.parse_log(SAMPLE)
-        self.assertEqual(len(cs), 2)
-
-    def test_parses_commit_fields(self):
-        cs = gitimport.parse_log(SAMPLE)
-        c = cs[0]
-        self.assertEqual(c.sha, "a1b2c3d")
-        self.assertEqual(c.author, "Ada Lovelace")
-        self.assertEqual(c.email, "ada@example.com")
-        self.assertEqual(c.date, "2026-08-10T12:00:00+01:00")
-        self.assertEqual(c.subject, "feat: first commit")
-
-    def test_parses_changed_files(self):
-        cs = gitimport.parse_log(SAMPLE)
-        self.assertEqual(cs[0].files, ["README.md", "src/main.c"])
-        self.assertEqual(cs[1].files, ["docs/notes.md"])
-
-    def test_ignores_empty(self):
-        self.assertEqual(gitimport.parse_log(""), [])
-
-    def test_skip_malformed_record(self):
-        self.assertEqual(gitimport.parse_log("\x1eweird\x1e"), [])
-
-    def test_commit_leaf_shape(self):
-        leafs = gitimport.commits_to_leafs(gitimport.parse_log(SAMPLE), "sample-repo")
-        self.assertEqual(len(leafs), 2)
-        lf = leafs[0]
-        self.assertEqual(lf["type"], "commit")
-        self.assertEqual(lf["repo"], "sample-repo")
-        self.assertEqual(lf["source"], "sample-repo@a1b2c3d")
-        self.assertIn("Ada Lovelace", lf["text"])
-        self.assertIn("README.md", lf["related"])
-        self.assertIn("feat: first commit", lf["heading"])
-
-
-if __name__ == "__main__":
-    unittest.main()

bin/tools/test_index_adapters.py

@@ -0,0 +1,97 @@
+"""Import adapters write files only. Index rebuild is brain/index (D14 / Gitea #7)."""
+from __future__ import annotations
+
+import json
+import os
+import subprocess
+import sys
+import tempfile
+import unittest
+from pathlib import Path
+
+ROOT = Path(__file__).resolve().parents[2]
+
+
+class IndexAdapterTest(unittest.TestCase):
+    def test_dry_run_fixture_corpus_does_not_write_lbug(self) -> None:
+        tmp = Path(tempfile.mkdtemp())
+        (tmp / "note.md").write_text("# Fixture\n\n## Leaf\n\nhello corpus\n", encoding="utf-8")
+        lbug = tmp / "kb.lbug"
+        try:
+            import ladybug  # noqa: F401
+        except ImportError:
+            venv_py = ROOT / ".venv" / "bin" / "python"
+            if not venv_py.is_file():
+                self.skipTest("ladybug missing")
+            py = str(venv_py)
+        else:
+            py = sys.executable
+        proc = subprocess.run(
+            [py, str(ROOT / "bin" / "kb" / "index"), "--dry-run", "--json", "--corpus", str(tmp)],
+            cwd=ROOT,
+            capture_output=True,
+            text=True,
+            env=os.environ.copy(),
+            check=False,
+        )
+        self.assertEqual(proc.returncode, 0, proc.stderr)
+        msg = json.loads(proc.stdout)
+        self.assertTrue(msg.get("dry_run"))
+        self.assertGreaterEqual(msg.get("corpus_total", 0), 1)
+        self.assertFalse(lbug.exists(), "dry-run must not create a Ladybug file")
+
+    def test_facts_json_and_chats_land_on_rebuild(self) -> None:
+        """Gitea #18: facts (2-source) + chats markdown become leafs on rebuild."""
+        tmp = Path(tempfile.mkdtemp())
+        dbpath = tmp / "kb.lbug"
+        chats = tmp / "chats"
+        chats.mkdir()
+        (chats / "alice.md").write_text(
+            "# Chat\n\n## Alice and Bob\n\nhello from chats fixture unique-chat-token\n",
+            encoding="utf-8",
+        )
+        facts_path = tmp / "facts.json"
+        facts_path.write_text(json.dumps([{
+            "text": "container 'brain' unique-fact-token is running and declared in compose.yaml",
+            "source": "docker ps x compose.yaml",
+            "loc": "compose.yaml:brain",
+            "how": "facts/extract",
+        }]), encoding="utf-8")
+        venv_py = ROOT / ".venv" / "bin" / "python"
+        py = str(venv_py) if venv_py.is_file() else sys.executable
+        proc = subprocess.run(
+            [
+                py, str(ROOT / "bin" / "kb" / "index"),
+                "--rebuild", "--db", str(dbpath), "--no-defaults",
+                "--with-chats", str(chats),
+                "--facts-json", str(facts_path),
+                "--json",
+            ],
+            cwd=ROOT,
+            capture_output=True,
+            text=True,
+            env=os.environ.copy(),
+            check=False,
+        )
+        self.assertEqual(proc.returncode, 0, proc.stderr)
+        msg = json.loads(proc.stdout)
+        self.assertGreaterEqual(msg.get("facts_leafs", 0), 1)
+        self.assertGreaterEqual(msg.get("chat_leafs", 0), 1)
+        self.assertTrue(dbpath.exists())
+        sys.path.insert(0, str(ROOT / "bin" / "tools"))
+        import kblib
+        db, conn = kblib.connect(dbpath, read_only=True)
+        try:
+            stats = kblib.stats(conn)
+            self.assertGreaterEqual(stats["by_root"].get("facts", 0), 1)
+            fts = kblib.query_fts(conn, "unique-chat-token", 5)
+            self.assertTrue(fts, "chats markdown must be FTS-searchable")
+            fact_hits = kblib.query_fts(conn, "unique-fact-token", 5)
+            self.assertTrue(any(h.get("root") == "facts" for h in fact_hits))
+            src = conn.execute(
+                "MATCH (l:Leaf {root:'facts'}) RETURN l.source"
+            ).get_all()
+            self.assertTrue(any(" x " in str(r[0]) for r in src))
+        finally:
+            conn.close()
+            db.close()

bin/tools/test_kb_add.py

@@ -0,0 +1,69 @@
+"""Incremental add writes leafs without deleting kb.lbug."""
+from __future__ import annotations
+
+import json
+import os
+import subprocess
+import sys
+import tempfile
+import unittest
+from pathlib import Path
+
+ROOT = Path(__file__).resolve().parents[2]
+
+
+class KbAddCLITest(unittest.TestCase):
+    def test_json_add_does_not_delete_db(self) -> None:
+        tmp = Path(tempfile.mkdtemp())
+        dbpath = tmp / "kb.lbug"
+        py = sys.executable
+        venv_py = ROOT / ".venv" / "bin" / "python"
+        if venv_py.is_file():
+            py = str(venv_py)
+        payload = {
+            "text": "cli zebra leaf",
+            "root": "info",
+            "source": "cli-test",
+            "confidence": "confirmed",
+            "how": "test",
+            "loc": str(tmp),
+            "type": "reference",
+            "embedding": [0.0] * 256,
+        }
+        payload["embedding"][0] = 0.3
+        proc = subprocess.run(
+            [py, str(ROOT / "bin" / "kb" / "add"), "--db", str(dbpath), "--json"],
+            cwd=ROOT,
+            input=json.dumps(payload),
+            capture_output=True,
+            text=True,
+            env=os.environ.copy(),
+            check=False,
+        )
+        self.assertEqual(proc.returncode, 0, proc.stderr)
+        self.assertTrue(dbpath.exists(), "add must create the db, not skip write")
+        out = json.loads(proc.stdout)
+        self.assertEqual(out.get("mode"), "add")
+        self.assertEqual(len(out.get("ids") or []), 1)
+        again = subprocess.run(
+            [py, str(ROOT / "bin" / "kb" / "add"), "--db", str(dbpath), "--json"],
+            cwd=ROOT,
+            input=json.dumps({
+                **payload,
+                "text": "second moose leaf",
+                "source": "cli-test-2",
+            }),
+            capture_output=True,
+            text=True,
+            env=os.environ.copy(),
+            check=False,
+        )
+        self.assertEqual(again.returncode, 0, again.stderr)
+        self.assertTrue(dbpath.exists())
+        second = json.loads(again.stdout)
+        self.assertEqual(len(second.get("ids") or []), 1)
+        self.assertNotEqual(out["ids"][0], second["ids"][0])
+
+
+if __name__ == "__main__":
+    unittest.main()

bin/tools/test_kblib.py

@@ -71,6 +71,69 @@ class KblibTest(unittest.TestCase):
         self.assertTrue(hits)
         self.assertIn("Leaf_vec", kblib.leaf_index_names(self.conn))
 
+    def test_add_after_indexes_keeps_fts_queryable(self):
+        """Incremental add after FTS+HNSW must find the new leaf on both indexes."""
+        kblib.upsert_leaf(self.conn, text="seed fox leaf", root="info",
+                          confidence="confirmed", source="s", source_rev="r1",
+                          how="test", loc="/tmp", type_="reference",
+                          embedding=make_emb(0.1))
+        kblib.ensure_indexes(self.conn)
+        ids = kblib.add_leafs(self.conn, [{
+            "text": "added zebra after index",
+            "root": "facts",
+            "confidence": "confirmed",
+            "source": "a.md x b.md",
+            "source_rev": "r1",
+            "how": "test",
+            "loc": "/tmp",
+            "type": "fact",
+            "embedding": make_emb(0.9),
+        }])
+        self.assertEqual(len(ids), 1)
+        fts = kblib.query_fts(self.conn, "zebra", 5)
+        self.assertTrue(fts)
+        self.assertIn("zebra", fts[0]["text"])
+        self.assertEqual(fts[0]["root"], "facts")
+        vec = kblib.query_vector(self.conn, make_emb(0.9), 5)
+        self.assertTrue(any("zebra" in h["text"] for h in vec))
+        fox = kblib.query_fts(self.conn, "fox", 5)
+        self.assertTrue(fox)
+        self.assertIn("fox", fox[0]["text"])
+
+    def test_add_facts_and_info_one_transaction(self):
+        """D12: facts and info land in the same transaction."""
+        kblib.ensure_indexes(self.conn)
+        ids = kblib.add_leafs(self.conn, [
+            {
+                "text": "tx fact leaf two-source",
+                "root": "facts",
+                "confidence": "confirmed",
+                "source": "compose.yml x docker ps",
+                "source_rev": "r1",
+                "how": "test",
+                "loc": "/tmp",
+                "type": "fact",
+                "embedding": make_emb(0.4),
+            },
+            {
+                "text": "tx info narrative",
+                "root": "info",
+                "confidence": "confirmed",
+                "source": "note.md",
+                "source_rev": "r1",
+                "how": "test",
+                "loc": "/tmp",
+                "type": "reference",
+                "embedding": make_emb(0.5),
+            },
+        ])
+        self.assertEqual(len(ids), 2)
+        stats = kblib.stats(self.conn)
+        self.assertEqual(stats["by_root"].get("facts"), 1)
+        self.assertEqual(stats["by_root"].get("info"), 1)
+        self.assertTrue(kblib.query_fts(self.conn, "two-source", 5))
+        self.assertTrue(kblib.query_fts(self.conn, "narrative", 5))
+
     def test_drop_vector_then_create_raises_clear_error(self):
         """DROP INDEX leaves ghost catalog; create_fts_and_vector must raise."""
         kblib.upsert_leaf(self.conn, text="seed", root="info",
@@ -98,6 +161,39 @@ class KblibTest(unittest.TestCase):
         self.assertEqual(stats["total"], 2)
         self.assertEqual(stats["by_root"], {"facts": 1, "info": 1})
 
+    def test_hop_1_returns_file_hop_3_reaches_person(self):
+        """--hop walks FROM_FILE / HAS_VERSION / AUTHORED (Gitea #17)."""
+        import gitimport
+
+        lid = kblib.upsert_leaf(
+            self.conn, text="readme hop fixture", root="info",
+            confidence="confirmed", source="README.md", source_rev="r1",
+            how="test", loc="README.md", type_="reference",
+            embedding=make_emb(0.3),
+        )
+        kblib.link_from_file(self.conn, lid, "README.md", repo="sample-repo")
+        gitimport.index_commits(self.conn, [gitimport.Commit(
+            sha="a1b2c3d",
+            author="Ada Lovelace",
+            email="ada@example.com",
+            date="2026-08-10T12:00:00Z",
+            subject="feat: first commit",
+            files=["README.md"],
+        )], "sample-repo")
+        hop1 = kblib.hop_walk(self.conn, lid, 1)
+        self.assertEqual(len(hop1), 1)
+        self.assertEqual(hop1[0]["label"], "File")
+        self.assertEqual(hop1[0]["name"], "README.md")
+        self.assertEqual(hop1[0]["depth"], 1)
+        hop3 = kblib.hop_walk(self.conn, lid, 3)
+        labels = {n["label"] for n in hop3}
+        self.assertIn("File", labels)
+        self.assertIn("Commit", labels)
+        self.assertIn("Person", labels)
+        person = [n for n in hop3 if n["label"] == "Person"][0]
+        self.assertEqual(person["name"], "Ada Lovelace")
+        self.assertEqual(person["depth"], 3)
+
 
 if __name__ == "__main__":
     unittest.main()

bin/tools/test_mailconv.py

@@ -8,10 +8,13 @@ from pathlib import Path
 sys.path.insert(0, os.path.dirname(__file__))
 
 from mailconv import (  # noqa: E402
+    TESS_LANG,
     clean_email_address,
+    convert_pdf,
     html_to_markdown,
     is_convertible,
     normalize_markdown,
+    ocr_image,
     split_zip_members,
     subject_to_filename,
     zip_extract_safe,
@@ -100,6 +103,92 @@ class TestMailConv(unittest.TestCase):
         self.assertFalse(is_convertible(".exe"))
         self.assertFalse(is_convertible(".unknown"))
 
+    def test_convert_pdf_prefers_pdftotext(self):
+        import mailconv as mc
+
+        calls: list[list[str]] = []
+
+        def fake_run(cmd, **kwargs):
+            calls.append(list(cmd))
+
+            class P:
+                returncode = 0
+                stdout = b"Invoice BM25 layout"
+                stderr = b""
+
+            return P()
+
+        self._patch_run(mc, fake_run)
+        out = convert_pdf(Path(self._tmp("born.pdf")))
+        self.assertIn("BM25", out)
+        self.assertEqual(calls[0][:2], ["pdftotext", "-layout"])
+        self.assertFalse(any(c[0] == "tesseract" for c in calls))
+        self.assertFalse(any(c[0] == "pdftoppm" for c in calls))
+
+    def test_convert_pdf_empty_layer_uses_pdftoppm_tesseract(self):
+        import mailconv as mc
+
+        calls: list[list[str]] = []
+
+        def fake_run(cmd, **kwargs):
+            calls.append(list(cmd))
+
+            class P:
+                returncode = 0
+                stdout = b""
+                stderr = b""
+
+            if cmd[0] == "pdftotext":
+                P.stdout = b"  \n"
+                return P()
+            if cmd[0] == "pdftoppm":
+                prefix = Path(cmd[-1])
+                (prefix.parent / "page-1.png").write_bytes(b"fake")
+                return P()
+            if cmd[0] == "tesseract":
+                P.stdout = b"scanned HELLO"
+                return P()
+            return P()
+
+        self._patch_run(mc, fake_run)
+        out = convert_pdf(Path(self._tmp("scan.pdf")))
+        self.assertIn("HELLO", out)
+        bins = [c[0] for c in calls]
+        self.assertIn("pdftotext", bins)
+        self.assertIn("pdftoppm", bins)
+        self.assertIn("tesseract", bins)
+        tess = next(c for c in calls if c[0] == "tesseract")
+        self.assertIn(TESS_LANG, tess)
+        self.assertNotIn("docling", " ".join(bins))
+
+    def test_ocr_image_paddle_engine(self):
+        import mailconv as mc
+
+        calls: list[list[str]] = []
+
+        def fake_run(cmd, **kwargs):
+            calls.append(list(cmd))
+
+            class P:
+                returncode = 0
+                stdout = b"paddle text"
+                stderr = b""
+
+            return P()
+
+        self._patch_run(mc, fake_run)
+        os.environ["OCR_ENGINE"] = "paddle"
+        try:
+            out = ocr_image(Path(self._tmp("x.png")))
+        finally:
+            os.environ.pop("OCR_ENGINE", None)
+        self.assertEqual(out, "paddle text")
+        self.assertEqual(calls[0][:2], ["paddleocr", "ocr"])
+
+    def _patch_run(self, mod, fn) -> None:
+        self.addCleanup(setattr, mod.subprocess, "run", mod.subprocess.run)
+        mod.subprocess.run = fn
+
     def _mk_zip(self, members):
         zpath = Path(self._tmp("arc.zip"))
         with zipfile.ZipFile(zpath, "w") as zf:

bin/tools/test_mailleafs.py

@@ -0,0 +1,46 @@
+"""Mail markdown → leafs (no Ladybug). Brain index --with-mail uses this."""
+from __future__ import annotations
+
+import json
+import sys
+import tempfile
+import unittest
+from pathlib import Path
+
+sys.path.insert(0, str(Path(__file__).resolve().parent))
+
+import mailleafs  # noqa: E402
+
+
+class MailLeafsTest(unittest.TestCase):
+    def test_message_md_becomes_info_leaf(self) -> None:
+        root = Path(tempfile.mkdtemp())
+        msg = root / "inbox" / "alice-1"
+        msg.mkdir(parents=True)
+        (msg / "message.json").write_text(
+            json.dumps({"receivedDate": "2026-01-15T10:00:00Z", "subject": "Hello"}),
+            encoding="utf-8",
+        )
+        (msg / "message.md").write_text(
+            "---\nroot: info\n---\n\n# Hello\n\nFrom Alice to Bob.\n",
+            encoding="utf-8",
+        )
+        leafs = mailleafs.from_mail_root(root)
+        self.assertEqual(len(leafs), 1)
+        self.assertIn("Alice", leafs[0]["text"])
+        self.assertTrue(leafs[0]["source"].startswith("ooMail:"))
+        self.assertEqual(leafs[0]["how"], "mail/import")
+
+    def test_since_filters_by_message_json_date(self) -> None:
+        root = Path(tempfile.mkdtemp())
+        for name, day in (("old", "2025-01-01"), ("new", "2026-06-01")):
+            d = root / "inbox" / name
+            d.mkdir(parents=True)
+            (d / "message.json").write_text(
+                json.dumps({"receivedDate": f"{day}T00:00:00Z"}),
+                encoding="utf-8",
+            )
+            (d / "message.md").write_text(f"# {name}\n\nbody\n", encoding="utf-8")
+        leafs = mailleafs.from_mail_root(root, since="2026-01-01")
+        self.assertEqual(len(leafs), 1)
+        self.assertIn("new", leafs[0]["text"])

bin/tools/test_published_docs.py

@@ -1,7 +1,6 @@
-"""Published docs must match live commands (Gitea SoT, brain/search, no fake --hop)."""
+"""Published docs must match live commands (Gitea SoT, brain/search)."""
 from __future__ import annotations
 
-import re
 import unittest
 from pathlib import Path
 
@@ -30,19 +29,160 @@ class PublishedDocsTest(unittest.TestCase):
             "README deduction search must name bin/brain/search.go",
         )
 
-    def test_docs_do_not_claim_hop_walks(self) -> None:
+    def test_readme_index_is_brain_not_index_mail(self) -> None:
+        text = (ROOT / "README.md").read_text()
+        self.assertIn("bin/brain/index.go", text)
+        self.assertNotIn(
+            "bin/mail/index_mail",
+            text,
+            "mail index is a brain write; README must name bin/brain/index.go",
+        )
+
+    def test_readme_git_import_is_gogit(self) -> None:
+        text = (ROOT / "README.md").read_text()
+        self.assertIn("bin/git/import.go", text)
+        self.assertIn("go-git", text)
+        self.assertIn("D19", (ROOT / "PLAN.md").read_text())
+
+    def test_web_search_is_go_not_ops_host(self) -> None:
+        readme = (ROOT / "README.md").read_text()
+        self.assertIn("bin/web/search.go", readme)
+        skill = (ROOT / "skills" / "web-search" / "SKILL.md").read_text()
+        self.assertIn("bin/web/search.go", skill)
+        self.assertNotIn("search.ops.io", skill)
+        self.assertNotIn("search.ops.io", readme)
+        compose = (ROOT / "compose.yaml").read_text()
+        self.assertIn("searxng", compose)
+        self.assertNotIn("search.ops.io", compose)
+        settings = (ROOT / "deploy" / "searxng" / "settings.yml").read_text()
+        self.assertNotIn("password", settings.lower())
+        self.assertIn("json", settings)
+
+    def test_picoclaw_compose_profile_has_mcp_example(self) -> None:
+        compose = (ROOT / "compose.yaml").read_text()
+        self.assertIn('profiles: ["picoclaw"]', compose)
+        self.assertIn("127.0.0.1:8630", compose)
+        example = (ROOT / "deploy" / "picoclaw" / "mcp.json.example").read_text()
+        self.assertIn("127.0.0.1:8630/mcp", example)
+        self.assertNotIn("password", example.lower())
+        self.assertNotIn("token", example.lower())
+        docs = (ROOT / "docs" / "picoclaw.md").read_text()
+        self.assertIn("search", docs)
+        self.assertIn("throttled", docs)
+
+    def test_readme_read_path_is_go(self) -> None:
+        plan = (ROOT / "PLAN.md").read_text()
+        self.assertIn("get.go", plan)
+        self.assertIn("CI fallback", plan)
+        design = (ROOT / "docs" / "design.md").read_text()
+        self.assertIn("internal/brain/rank", design)
+        self.assertIn("They do not exec Python", design)
+
+    def test_openapi_mcp_from_same_handlers(self) -> None:
+        plan = (ROOT / "PLAN.md").read_text()
+        self.assertIn("D20", plan)
+        self.assertIn("/openapi.json", (ROOT / "README.md").read_text())
+        self.assertIn("/mcp", (ROOT / "README.md").read_text())
+        skill = (ROOT / "skills" / "brain" / "SKILL.md").read_text()
+        self.assertIn("/mcp", skill)
+        self.assertFalse((ROOT / "skills" / "db-yaml").exists())
+        self.assertTrue((ROOT / "skills" / "postgres" / "SKILL.md").is_file())
+
+    def test_cgo_zig_and_index_profile(self) -> None:
+        plan = (ROOT / "PLAN.md").read_text()
+        self.assertIn("D21", plan)
+        self.assertIn("zig cc", plan)
+        dockerfile = (ROOT / "Dockerfile").read_text()
+        self.assertIn("bin/cgo/zcc", dockerfile)
+        self.assertIn("FROM debian:bookworm-slim AS api", dockerfile)
+        self.assertIn("FROM python:3.12-slim AS index", dockerfile)
+        api = dockerfile[dockerfile.index("FROM debian:bookworm-slim AS api") :]
+        self.assertNotIn("pip install", api)
+        compose = (ROOT / "compose.yaml").read_text()
+        self.assertIn('profiles: ["index"]', compose)
+        self.assertIn("target: api", compose)
+
+    def test_reasoner_docs_name_real_hf_ids_cpu_sidecar(self) -> None:
+        docs = (ROOT / "docs" / "reasoner.md").read_text()
+        for hf in (
+            "Qwen/Qwen3.5-9B",
+            "Qwen/Qwen3.6-27B",
+            "prism-ml/Bonsai-27B-gguf",
+        ):
+            self.assertIn(hf, docs)
+        self.assertIn("no official qwen3.6-9b", docs.lower())
+        self.assertIn("OLLAMA_NUM_GPU", docs)
+        self.assertIn("rss_mb", docs)
+        self.assertIn("vram_mb", docs)
+        self.assertIn("3/3", docs)
+        self.assertIn("Do not claim 9B is better at tools", docs)
+        self.assertNotIn("Qwen/Qwen3.6-9B", docs)
+        plan = (ROOT / "PLAN.md").read_text()
+        self.assertIn("D18", plan)
+        self.assertIn("Qwen/Qwen3.5-9B", plan)
+        compose = (ROOT / "compose.yaml").read_text()
+        self.assertIn('"reasoner"', compose)
+        self.assertIn("OLLAMA_NUM_GPU", compose)
+        self.assertIn("127.0.0.1:11435", compose)
+        dockerfile = (ROOT / "Dockerfile").read_text()
+        self.assertNotIn(".gguf", dockerfile.lower())
+        self.assertNotIn(".safetensors", dockerfile.lower())
+        api = dockerfile[dockerfile.index("FROM debian:bookworm-slim AS api") :]
+        self.assertNotIn("COPY models", api)
+        self.assertNotIn("qwen", api.lower())
+
+    def test_readme_search_escalates_web(self) -> None:
+        text = (ROOT / "README.md").read_text()
+        self.assertIn("--no-web", text)
+        self.assertIn("D17", (ROOT / "PLAN.md").read_text())
+        skill = (ROOT / "skills" / "brain" / "SKILL.md").read_text()
+        self.assertIn("`web` block", skill)
+
+    def test_docs_say_hop_walks_from_file(self) -> None:
         paths = [
             ROOT / "README.md",
             ROOT / "docs" / "design.md",
-            ROOT / "skills" / "kb-search" / "SKILL.md",
+            ROOT / "skills" / "brain" / "SKILL.md",
-            ROOT / "skills" / "diataxis-docs" / "SKILL.md",
+            ROOT / "docs" / "runbook.md",
+            ROOT / "docs" / "README.md",
         ]
-        # Command-style `--hop 1` / `--hop N` plus follow/walk = the old lie.
-        # Honest "not implemented" notes must not match.
-        lie = re.compile(r"--hop (?:N|1).*(?:follow|walk)", re.I | re.S)
         for path in paths:
             text = path.read_text()
-            self.assertIsNone(
+            self.assertIn("--hop", text, f"{path.relative_to(ROOT)} must document --hop")
-                lie.search(text),
+            self.assertNotIn(
-                f"{path.relative_to(ROOT)} still claims --hop walks the graph",
+                "not implemented",
+                text.lower(),
+                f"{path.relative_to(ROOT)} still says hop is not implemented",
             )
+
+    def test_docs_are_portable_diataxis(self) -> None:
+        index = (ROOT / "docs" / "README.md").read_text()
+        self.assertIn("type: reference", index)
+        for d in ("D3", "D6", "D14", "D15", "D17", "D18"):
+            self.assertIn(d, index)
+        runbook = (ROOT / "docs" / "runbook.md").read_text()
+        self.assertIn("type: howto", runbook)
+        self.assertIn("bin/brain/search.go", runbook)
+        self.assertIn("bin/brain/index.go", runbook)
+        self.assertNotIn("search.ops.io", runbook)
+        self.assertNotIn("/mnt/", runbook)
+        self.assertNotIn("/home/", runbook)
+        readme = (ROOT / "README.md").read_text()
+        self.assertIn("docs/runbook.md", readme)
+        self.assertNotIn("search.ops.io", readme)
+
+    def test_v1_epic_is_named_in_docs(self) -> None:
+        plan = (ROOT / "PLAN.md").read_text()
+        self.assertIn("Gap to v1", plan)
+        self.assertIn("eSlider/2dph/issues/16", plan)
+        self.assertIn("eSlider/2dph/issues/17", plan)
+        self.assertIn("eSlider/2dph/milestone/12", plan)
+        road = (ROOT / "docs" / "roadmap.md").read_text()
+        self.assertIn("type: explanation", road)
+        self.assertIn("issues/16", road)
+        self.assertIn("issues/14", road)
+        index = (ROOT / "docs" / "README.md").read_text()
+        self.assertIn("roadmap.md", index)
+        self.assertIn("epic #16", index)
+        agents = (ROOT / "AGENTS.md").read_text()
+        self.assertIn("roadmap.md", agents)

bin/tools/test_skills.py

@@ -0,0 +1,63 @@
+"""Skills must name live commands; every bin/ path in SKILL.md must exist."""
+from __future__ import annotations
+
+import re
+import unittest
+from pathlib import Path
+
+ROOT = Path(__file__).resolve().parents[2]
+BIN_PATH = re.compile(r"(bin/[A-Za-z0-9_./-]+)")
+
+
+class SkillsTest(unittest.TestCase):
+    def test_db_yaml_renamed_to_postgres(self) -> None:
+        self.assertFalse(
+            (ROOT / "skills" / "db-yaml").exists(),
+            "skills/db-yaml must be skills/postgres",
+        )
+        self.assertTrue((ROOT / "skills" / "postgres" / "SKILL.md").is_file())
+        text = (ROOT / "skills" / "postgres" / "SKILL.md").read_text()
+        self.assertIn("bin/postgres/query.go", text)
+        self.assertNotIn("search.ops.io", text)
+
+    def test_every_bin_path_in_skills_exists(self) -> None:
+        missing: list[str] = []
+        for path in (ROOT / "skills").rglob("SKILL.md"):
+            text = path.read_text()
+            for m in BIN_PATH.finditer(text):
+                rel = m.group(1).rstrip(")`.,;")
+                candidate = ROOT / rel
+                if not candidate.exists():
+                    missing.append(f"{path.relative_to(ROOT)}: {rel}")
+        self.assertEqual(missing, [], "skill bin paths must exist")
+
+    def test_brain_skill_lists_generated_tools(self) -> None:
+        tools = (ROOT / "skills" / "brain" / "tools.md").read_text()
+        skill = (ROOT / "skills" / "brain" / "SKILL.md").read_text()
+        self.assertIn("tools.md", skill)
+        for name in ("search", "get", "stats", "audit"):
+            self.assertIn(f"`{name}`", tools)
+
+    def test_picoclaw_lists_tool_order(self) -> None:
+        skill = (ROOT / "skills" / "picoclaw" / "SKILL.md").read_text()
+        agents = (ROOT / "AGENTS.md").read_text()
+        self.assertIn("**`search`**", skill)
+        self.assertIn("**`get`**", skill)
+        self.assertIn("**`audit`**", skill)
+        self.assertIn("throttled", skill.lower())
+        self.assertIn("not a negative finding", agents)
+        self.assertIn("Fact-check every", agents)
+
+    def test_yq_is_mikefarah_for_structured_data(self) -> None:
+        skill = (ROOT / "skills" / "yq" / "SKILL.md").read_text()
+        self.assertIn("https://github.com/mikefarah/yq", skill)
+        for fmt in ("YAML", "JSON", "XML", "CSV", "TOML", "HCL"):
+            self.assertIn(fmt, skill)
+        self.assertIn("not kislyuk", skill.lower())
+        plan = (ROOT / "PLAN.md").read_text()
+        self.assertIn("mikefarah/yq", plan)
+        agents = (ROOT / "AGENTS.md").read_text()
+        self.assertIn("mikefarah/yq", agents)
+        web = (ROOT / "skills" / "web-search" / "SKILL.md").read_text()
+        self.assertIn("| yq ", web)
+        self.assertNotIn("| jq ", web)

bin/tools/test_skills_bin_paths.py

@@ -0,0 +1,33 @@
+"""Every bin/ path named in skills/ must exist on disk."""
+from __future__ import annotations
+
+import re
+import unittest
+from pathlib import Path
+
+ROOT = Path(__file__).resolve().parents[2]
+BIN_PATH = re.compile(r"\b(bin/[A-Za-z0-9_./-]+)")
+
+
+class SkillsBinPathsTest(unittest.TestCase):
+    def test_agent_cost_skill_is_gone(self) -> None:
+        self.assertFalse(
+            (ROOT / "skills" / "agent-cost").exists(),
+            "skills/agent-cost documents bin/agents/cost which does not exist",
+        )
+
+    def test_brain_skill_replaces_kb_search(self) -> None:
+        self.assertTrue((ROOT / "skills" / "brain" / "SKILL.md").is_file())
+        self.assertFalse((ROOT / "skills" / "kb-search").exists())
+
+    def test_skill_bin_paths_exist(self) -> None:
+        missing: list[str] = []
+        for skill in sorted((ROOT / "skills").rglob("SKILL.md")):
+            text = skill.read_text()
+            for match in BIN_PATH.findall(text):
+                rel = match.rstrip("`'.,")
+                if rel.endswith(".go") or Path(rel).suffix == "" or Path(rel).suffix in {".go", ".py"}:
+                    p = ROOT / rel
+                    if not p.exists():
+                        missing.append(f"{skill.relative_to(ROOT)}: {rel}")
+        self.assertEqual(missing, [], "SKILL.md names bin/ paths that do not exist")

bin/tools/test_system_perf.py

@@ -0,0 +1,36 @@
+"""qa/system_perf.py is an offline-gated system test (no live brain in CI)."""
+from __future__ import annotations
+
+import ast
+import unittest
+from pathlib import Path
+
+ROOT = Path(__file__).resolve().parents[2]
+
+
+class SystemPerfScriptTest(unittest.TestCase):
+    def test_script_compiles_and_is_read_only(self) -> None:
+        path = ROOT / "qa" / "system_perf.py"
+        src = path.read_text()
+        compile(src, str(path), "exec")
+        self.assertIn("--json", src)
+        self.assertIn("qwen3.5:9b", src)
+        self.assertIn("--picoclaw", src)
+        self.assertIn("BRAIN_URL", src)
+        self.assertIn("tools/list", src)
+        self.assertIn("tools/call", src)
+        self.assertIn("GATE_HEALTH_MS", src)
+        self.assertIn("GATE_GET_P50_MS", src)
+        self.assertNotIn("kb.lbug", src)
+        self.assertNotIn("password", src.lower())
+        self.assertNotIn("token", src.lower())
+
+    def test_script_does_not_write_ladybug(self) -> None:
+        tree = ast.parse((ROOT / "qa" / "system_perf.py").read_text())
+        writes = [
+            n.func.attr
+            for n in ast.walk(tree)
+            if isinstance(n, ast.Call) and isinstance(n.func, ast.Attribute)
+            and n.func.attr in {"write_text", "write_bytes", "dump"}
+        ]
+        self.assertEqual(writes, [], f"system_perf must not write files: {writes}")

bin/watch/watch.go

@@ -1,4 +1,4 @@
-// Package watch polls corpus directories for changes and re-runs bin/kb/index.
+// Package watch polls corpus directories for changes and re-runs brain/index.
 //
 // Port of the former bin/kb-watch bash script to an importable, testable Go
 // package. Polls file mtimes (no inotify deps); cheap and reliable.
@@ -18,8 +18,8 @@ import (
 type Options struct {
 	Dirs     []string
 	Interval time.Duration
-	// IndexCmd is the kb/index command template. %s is replaced by the repo
+	// IndexCmd is the index command template. %s is replaced by the repo
-	// root (from KB_ROOT). Defaults to `python3 <root>/bin/kb/index`.
+	// root (from KB_ROOT). Defaults to `python3 <root>/bin/kb/index --with-mail`.
 	IndexCmd string
 }
 
@@ -67,7 +67,7 @@ func fromEnv(args []string) Options {
 	if pys == "" {
 		pys = "python3"
 	}
-	opts.IndexCmd = pys + " <root>/bin/kb/index"
+	opts.IndexCmd = pys + " <root>/bin/kb/index --with-mail"
 	return opts
 }
 

bin/watch/watch_test.go

@@ -3,6 +3,7 @@ package watch
 import (
 	"os"
 	"path/filepath"
+	"strings"
 	"testing"
 	"time"
 )
@@ -43,7 +44,10 @@ func TestFromEnvDefaults(t *testing.T) {
 	if opts.Interval != 30*time.Second {
 		t.Fatalf("default interval = %s, want 30s", opts.Interval)
 	}
-	if opts.IndexCmd == "" {
+	if !strings.Contains(opts.IndexCmd, "kb/index") {
-		t.Fatal("default index cmd is empty")
+		t.Fatalf("default index cmd = %q, want kb/index", opts.IndexCmd)
+	}
+	if !strings.Contains(opts.IndexCmd, "--with-mail") {
+		t.Fatalf("default index cmd must include --with-mail, got %q", opts.IndexCmd)
 	}
 }

bin/web/search

@@ -1,150 +1,26 @@
 #!/usr/bin/env python3
-"""web/search - web search through the self-hosted SearXNG at search.ops.io.
+"""web/search — deprecated. Use bin/web/search.go (SearXNG, no Python client).
 
-  bin/web/search "LadybugDB vector search"
+  bin/web/search.go QUERY [--json] [-n N] [--site HOST]
-  bin/web/search "model2vec multilingual" --site github.com
-  bin/web/search "uclancy" --category it -n 3 --json | jq -r '.results[].url'
-  bin/web/search "sqlite-vec" --refresh          # ignore the cached answer
-
-This complements bin/kb/search: the knowledge base holds our own facts, this
-reaches the public web. Use it as the second, independent source that the
-detective method asks for.
-
-Exit codes: 0 results, 2 refused as possible PII, 3 throttled (not "nothing
-found" - the instance answers 200 with an empty list when it throttles).
 """
 from __future__ import annotations
 
-import argparse
-import fcntl
-import json
 import os
 import sys
-import time
-import urllib.parse
-import urllib.request
 from pathlib import Path
 
-TOOLS = Path(__file__).resolve().parents[1] / "tools"
+ROOT = Path(__file__).resolve().parents[2]
-sys.path.insert(0, str(TOOLS))
-sys.path.insert(0, str(TOOLS / "web-search"))
-
-import websearch as ws          # noqa: E402
-from yamlout import to_yaml     # noqa: E402
-
-CONFIG = Path(os.environ.get("BRAIN_SEARCH_ENV", Path.home() / ".config/brain/search.env"))
-CACHE = Path(os.environ.get("BRAIN_SEARCH_CACHE", Path.home() / ".cache/brain/web-search.sqlite"))
-LOCK = CACHE.with_suffix(".lock")
 
 
-def load_config() -> dict:
+def main(argv: list[str]) -> int:
-    if not CONFIG.exists():
+    print(
-        sys.exit(f"no credentials at {CONFIG} (mode 600, BRAIN_SEARCH_URL/USER/PASS)")
+        "bin/web/search is deprecated; use bin/web/search.go",
-    conf = {}
+        file=sys.stderr,
-    for line in CONFIG.read_text().splitlines():
+    )
-        line = line.strip()
+    target = ROOT / "bin" / "web" / "search.go"
-        if not line or line.startswith("#") or "=" not in line:
+    os.execvp("go", ["go", "run", str(target), *argv])
-            continue
+    return 1
-        key, _, value = line.partition("=")
-        conf[key.strip()] = value.strip().strip("\"'")
-    missing = {"BRAIN_SEARCH_URL", "BRAIN_SEARCH_USER", "BRAIN_SEARCH_PASS"} - conf.keys()
-    if missing:
-        sys.exit(f"{CONFIG} is missing {', '.join(sorted(missing))}")
-    return conf
-
-
-def fetch(conf: dict, query: str, params: dict, timeout: int) -> dict:
-    args = {"q": query, "format": "json", **params}
-    url = f"{conf['BRAIN_SEARCH_URL'].rstrip('/')}/search?{urllib.parse.urlencode(args)}"
-    request = urllib.request.Request(url)
-    token = f"{conf['BRAIN_SEARCH_USER']}:{conf['BRAIN_SEARCH_PASS']}".encode()
-    import base64
-    request.add_header("Authorization", "Basic " + base64.b64encode(token).decode())
-    with urllib.request.urlopen(request, timeout=timeout) as response:
-        return json.loads(response.read().decode())
-
-
-def main() -> int:
-    parser = argparse.ArgumentParser(description="web search via SearXNG")
-    parser.add_argument("query")
-    parser.add_argument("-n", "--limit", type=int, default=ws.DEFAULT_LIMIT)
-    parser.add_argument("--site", help="restrict to one domain")
-    parser.add_argument("--lang", help="language code, e.g. de")
-    parser.add_argument("--fresh", choices=["day", "week", "month", "year"],
-                        help="time range")
-    parser.add_argument("--category", help="SearXNG category, e.g. it, science, news")
-    parser.add_argument("--engines", help="comma separated engine list")
-    parser.add_argument("--json", action="store_true")
-    parser.add_argument("--refresh", action="store_true", help="bypass the cache")
-    parser.add_argument("--ttl", type=float, default=ws.CACHE_TTL)
-    parser.add_argument("--timeout", type=int, default=25)
-    parser.add_argument("--force", action="store_true",
-                        help="send even if the query looks like PII")
-    args = parser.parse_args()
-
-    query = f"site:{args.site} {args.query}" if args.site else args.query
-
-    reason = ws.phi_reason(query)
-    if reason and not args.force:
-        print(f"refused: {reason}. This query would leave the host.", file=sys.stderr)
-        print("Rephrase without identifiers, or pass --force if it is genuinely public.",
-              file=sys.stderr)
-        return 2
-
-    params = {}
-    if args.lang:
-        params["language"] = args.lang
-    if args.fresh:
-        params["time_range"] = args.fresh
-    if args.category:
-        params["categories"] = args.category
-    if args.engines:
-        params["engines"] = args.engines
-
-    key = ws.cache_key(query, params)
-    conn = ws.open_cache(CACHE)
-
-    if not args.refresh:
-        cached = ws.cache_get(conn, key, ttl=args.ttl)
-        if cached is not None:
-            out = ws.project(cached, limit=args.limit)
-            out["cached"] = True
-            sys.stdout.write(json.dumps(out, indent=2, ensure_ascii=False) + "\n"
-                             if args.json else to_yaml(out))
-            return 0
-
-    conf = load_config()
-    LOCK.parent.mkdir(parents=True, exist_ok=True)
-
-    # One request at a time across every agent on this host: the instance
-    # suspends engines for minutes when several of us ask at once.
-    with open(LOCK, "w") as lock:
-        fcntl.flock(lock, fcntl.LOCK_EX)
-
-        payload = None
-        for attempt in range(1 + len(ws.RETRY_BACKOFF)):
-            delay = ws.wait_for(ws.last_call(conn), time.time())
-            if delay:
-                time.sleep(delay)
-            ws.mark_call(conn)
-            try:
-                payload = fetch(conf, query, params, args.timeout)
-            except Exception as error:              # noqa: BLE001 - report, do not crash
-                print(f"request failed: {error}", file=sys.stderr)
-                return 3
-            if ws.classify(payload) == "ok":
-                break
-            if attempt < len(ws.RETRY_BACKOFF):
-                time.sleep(ws.RETRY_BACKOFF[attempt])
-
-    if ws.classify(payload) == "ok":
-        ws.cache_put(conn, key, payload)
-
-    out = ws.project(payload, limit=args.limit)
-    sys.stdout.write(json.dumps(out, indent=2, ensure_ascii=False) + "\n"
-                     if args.json else to_yaml(out))
-    return 0 if out["status"] == "ok" else 3
 
 
 if __name__ == "__main__":
-    sys.exit(main())
+    sys.exit(main(sys.argv[1:]))

bin/web/search.go

@@ -0,0 +1,170 @@
+//usr/bin/env go run "$0" "$@"; exit
+//
+// bin/web/search.go - SearXNG as the second independent source (D3).
+//
+//	./bin/web/search.go "LadybugDB vector search"
+//	./bin/web/search.go "model2vec" --category it --json
+//	./bin/web/search.go "postgres" --site github.com --fresh year
+//
+// Empty results mean throttled, not "nothing exists". Exit 2 = PII refuse, 3 = throttled.
+// Config: $BRAIN_SEARCH_ENV (default $HOME/.config/brain/search.env).
+// NOTE: never run `gofmt -w` on this file — it breaks the shebang.
+package main
+
+import (
+	"encoding/json"
+	"fmt"
+	"net/http"
+	"os"
+	"time"
+
+	"github.com/eSlider/2dph/internal/cli"
+	"github.com/eSlider/2dph/internal/websearch"
+	"golang.org/x/sys/unix"
+)
+
+func main() {
+	os.Exit(run(os.Args[1:]))
+}
+
+func run(args []string) int {
+	c, err := websearch.ParseArgs(args)
+	if err != nil {
+		return cli.Fail(err)
+	}
+	query, site, lang, fresh, category, engines := c.Query, c.Site, c.Lang, c.Fresh, c.Category, c.Engines
+	limit := c.Limit
+	jsonOut, refresh, force := c.JSONOut, c.Refresh, c.Force
+	ttl := c.TTL
+	timeout := c.Timeout
+	if site != "" {
+		query = "site:" + site + " " + query
+	}
+	if reason := websearch.PHIReason(query); reason != "" && !force {
+		fmt.Fprintf(os.Stderr, "refused: %s. This query would leave the host.\n", reason)
+		fmt.Fprintln(os.Stderr, "Rephrase without identifiers, or pass --force if it is genuinely public.")
+		return 2
+	}
+
+	params := map[string]string{}
+	if lang != "" {
+		params["language"] = lang
+	}
+	if fresh != "" {
+		params["time_range"] = fresh
+	}
+	if category != "" {
+		params["categories"] = category
+	}
+	if engines != "" {
+		params["engines"] = engines
+	}
+
+	cachePath := os.Getenv("BRAIN_SEARCH_CACHE")
+	if cachePath == "" {
+		cachePath = os.Getenv("HOME") + "/.cache/brain/web-search.sqlite"
+	}
+	cache, err := websearch.OpenCache(cachePath)
+	if err != nil {
+		fmt.Fprintf(os.Stderr, "web/search: cache: %v\n", err)
+		return 1
+	}
+	defer cache.Close()
+
+	key := websearch.CacheKey(query, params)
+	now := float64(time.Now().Unix())
+	if !refresh {
+		if cached, err := cache.Get(key, ttl, now); err != nil {
+			fmt.Fprintf(os.Stderr, "web/search: cache: %v\n", err)
+			return 1
+		} else if cached != nil {
+			out := websearch.Project(*cached, limit, websearch.DefaultSnippetChars)
+			out.Cached = true
+			return writeOut(out, jsonOut)
+		}
+	}
+
+	envPath := os.Getenv("BRAIN_SEARCH_ENV")
+	if envPath == "" {
+		envPath = os.Getenv("HOME") + "/.config/brain/search.env"
+	}
+	conf, err := websearch.LoadConfig(envPath)
+	if err != nil {
+		fmt.Fprintf(os.Stderr, "web/search: %v\n", err)
+		return 1
+	}
+
+	lockPath := cachePath + ".lock"
+	lock, err := os.OpenFile(lockPath, os.O_CREATE|os.O_RDWR, 0o600)
+	if err != nil {
+		fmt.Fprintf(os.Stderr, "web/search: lock: %v\n", err)
+		return 1
+	}
+	defer lock.Close()
+	if err := unix.Flock(int(lock.Fd()), unix.LOCK_EX); err != nil {
+		fmt.Fprintf(os.Stderr, "web/search: lock: %v\n", err)
+		return 1
+	}
+	defer unix.Flock(int(lock.Fd()), unix.LOCK_UN)
+
+	var payload websearch.Payload
+	attempts := 1 + len(websearch.RetryBackoff)
+	client := &http.Client{}
+	for attempt := 0; attempt < attempts; attempt++ {
+		last, err := cache.LastCall()
+		if err != nil {
+			fmt.Fprintf(os.Stderr, "web/search: cache: %v\n", err)
+			return 1
+		}
+		if delay := websearch.WaitFor(last, float64(time.Now().Unix()), websearch.MinInterval); delay > 0 {
+			time.Sleep(time.Duration(delay * float64(time.Second)))
+		}
+		if err := cache.MarkCall(float64(time.Now().Unix())); err != nil {
+			fmt.Fprintf(os.Stderr, "web/search: cache: %v\n", err)
+			return 1
+		}
+		payload, err = websearch.Fetch(client, conf, query, params, time.Duration(timeout)*time.Second)
+		if err != nil {
+			fmt.Fprintf(os.Stderr, "request failed: %v\n", err)
+			return 3
+		}
+		if websearch.Classify(payload) == websearch.StatusOK {
+			break
+		}
+		if attempt < len(websearch.RetryBackoff) {
+			time.Sleep(time.Duration(websearch.RetryBackoff[attempt] * float64(time.Second)))
+		}
+	}
+
+	if websearch.Classify(payload) == websearch.StatusOK {
+		if err := cache.Put(key, payload, float64(time.Now().Unix())); err != nil {
+			fmt.Fprintf(os.Stderr, "web/search: cache: %v\n", err)
+		}
+	}
+	out := websearch.Project(payload, limit, websearch.DefaultSnippetChars)
+	code := writeOut(out, jsonOut)
+	if out.Status != websearch.StatusOK && code == 0 {
+		return 3
+	}
+	return code
+}
+
+func writeOut(out websearch.Output, jsonOut bool) int {
+	if jsonOut {
+		enc := json.NewEncoder(os.Stdout)
+		enc.SetIndent("", "  ")
+		enc.SetEscapeHTML(false)
+		if err := enc.Encode(out); err != nil {
+			return 1
+		}
+		if out.Status != websearch.StatusOK {
+			return 3
+		}
+		return 0
+	}
+	fmt.Print(out.YAML())
+	if out.Status != websearch.StatusOK {
+		return 3
+	}
+	return 0
+}

compose.yaml

@@ -1,66 +1,176 @@
 # 2dph — docker composition
 #
-#   docker compose run --rm brain index                     # rebuild graph
+#   docker compose up -d brain                  # API (Zig CGO serve)
-#   docker compose run --rm brain search "Matrix fed"       # one-shot query
+#   docker compose --profile index run --rm index   # Python rebuild
-#   docker compose run --rm brain serve                     # async Go server
+#   docker compose --profile picoclaw up -d     # brain-mcp + CPU reasoner + PicoClaw gateway
-#   docker compose up brain-watch                           # auto re-index
+#   docker compose --profile reasoner up -d reasoner   # CPU Ollama :11435
+#   docker compose --profile searxng up -d
+#   OCR_ENGINE=paddle docker compose --profile ocr-paddle run --rm ocr-paddle
 #
-# Caching: the 128M model (HF_HOME) and kb.lbug (VAR_DIR) live in named
+# Secrets never baked in: search.env + db-profiles.yml from ~/.config/brain.
-# volumes, so rebuilds never redownload the model or re-derive the graph.
-# Secrets are never baked into the image: search.env + db-profiles.yml mount
-# read-only from ~/.config/brain.
 
 name: 2dph
 
+networks:
+  default:
+    name: 2dph_sys
+    driver: bridge
+    ipam:
+      config:
+        - subnet: 10.23.42.0/24
+
 services:
   brain:
-    image: ghcr.io/eslider/2dph:latest
+    image: ghcr.io/eslider/2dph:api
     build:
       context: .
       dockerfile: Dockerfile
+      target: api
       cache_from:
         - ghcr.io/eslider/2dph:cache
-    command: ["brain", "search", "help"]
+    command: ["serve"]
     environment: &env
       HF_HOME: /data/hf
       BRAIN_SEARCH_CACHE: /data/cache/web-search.sqlite
       BRAIN_DB_PROFILES: /secret/db-profiles.yml
       BRAIN_SEARCH_ENV: /secret/search.env
-      KB_SEARCH_CMD: /app/bin/kb/search
+      KB_ROOT: /data
       KB_WORKERS: "4"
+      KB_PORT: "8630"
     volumes:
       - kb-model:/data/hf
       - kb-var:/data
-      # corpus is read-only on the host, never written from the container
-      - ..:/corpus:ro
       - ~/.config/brain:/secret:ro
+    ports:
+      - "127.0.0.1:8630:8630"
     read_only: true
     tmpfs:
       - /tmp
     healthcheck:
-      test: ["CMD", "python3", "-c", "import ladybug, model2vec, mistune; print('ok')"]
+      test: ["CMD", "wget", "-qO-", "http://127.0.0.1:8630/health"]
       interval: 30s
       timeout: 5s
       retries: 3
     restart: unless-stopped
     stop_grace_period: 20s
 
-  # watcher: re-index on corpus file change (watchdog script)
   brain-watch:
-    image: ghcr.io/eslider/2dph:latest
+    image: ghcr.io/eslider/2dph:api
     environment: *env
     volumes:
       - kb-model:/data/hf
       - kb-var:/data
       - ..:/corpus:ro
       - ~/.config/brain:/secret:ro
-    command: ["brain", "watch", "/corpus"]
+    command: ["watch", "/corpus"]
     read_only: true
     tmpfs:
       - /tmp
     restart: unless-stopped
     stop_grace_period: 20s
 
+  # Python write path (Ladybug rebuild). Not in the API image.
+  #   docker compose --profile index run --rm index
+  index:
+    profiles: ["index"]
+    image: ghcr.io/eslider/2dph:index
+    build:
+      context: .
+      dockerfile: Dockerfile
+      target: index
+    environment:
+      HF_HOME: /data/hf
+      KB_PY: python3
+    volumes:
+      - kb-model:/data/hf
+      - kb-var:/app/var
+      - ..:/corpus:ro
+      - ~/.config/brain:/secret:ro
+    command: ["index"]
+    read_only: true
+    tmpfs:
+      - /tmp
+
+  # Optional local SearXNG (D3). Skip if BRAIN_SEARCH_URL already points at a
+  # live instance — do not run a second copy on that host.
+  #   SEARXNG_SECRET=$(openssl rand -hex 32) docker compose --profile searxng up -d
+  searxng:
+    profiles: ["searxng"]
+    image: docker.io/searxng/searxng:2026.8.10-0a118066d
+    ports:
+      - "127.0.0.1:8888:8080"
+    environment:
+      SEARXNG_SECRET: ${SEARXNG_SECRET:-}
+    volumes:
+      - ./deploy/searxng/settings.yml:/etc/searxng/settings.yml:ro
+      - ./deploy/searxng/limiter.toml:/etc/searxng/limiter.toml:ro
+    restart: unless-stopped
+
+  # MCP endpoint for PicoClaw (and any MCP client).
+  #   docker compose --profile picoclaw up -d
+  brain-mcp:
+    profiles: ["picoclaw"]
+    image: ghcr.io/eslider/2dph:api
+    environment: *env
+    volumes:
+      - kb-model:/data/hf
+      - kb-var:/data
+      - ~/.config/brain:/secret:ro
+    command: ["serve"]
+    ports:
+      - "127.0.0.1:8630:8630"
+    read_only: true
+    tmpfs:
+      - /tmp
+    restart: unless-stopped
+
+  # CPU OpenAI-compatible sidecar (D18). Weights are pulled at runtime, not
+  # baked into the 2dph image. Does not touch host Ollama on :11434.
+  #   docker compose --profile reasoner up -d reasoner
+  #   docker compose --profile reasoner exec reasoner ollama pull qwen3.5:9b
+  reasoner:
+    profiles: ["reasoner", "picoclaw"]
+    image: docker.io/ollama/ollama:latest
+    environment:
+      OLLAMA_NUM_GPU: "0"
+      OLLAMA_HOST: "0.0.0.0:11434"
+    ports:
+      - "127.0.0.1:11435:11434"
+    volumes:
+      - reasoner-ollama:/root/.ollama
+    restart: unless-stopped
+
+  # Official PicoClaw gateway. Config has no secrets (Ollama + HTTP MCP).
+  # Host network: brain/reasoner bind 127.0.0.1 only, so host.docker.internal
+  # (docker0) cannot reach them. Gateway 127.0.0.1:18790 (not the 18800 launcher).
+  # If :8630/:11435 are already bound, do not start brain-mcp/reasoner:
+  #   docker compose --profile picoclaw up -d --no-deps picoclaw
+  picoclaw:
+    profiles: ["picoclaw"]
+    image: docker.io/sipeed/picoclaw:v0.3.1
+    network_mode: host
+    depends_on:
+      - brain-mcp
+      - reasoner
+    environment:
+      PICOCLAW_GATEWAY_HOST: "127.0.0.1"
+    entrypoint: ["picoclaw", "gateway"]
+    volumes:
+      - picoclaw-home:/root/.picoclaw
+      - ./deploy/picoclaw/config.json:/root/.picoclaw/config.json:ro
+    restart: unless-stopped
+
+  # Optional PP-OCRv5 (not default). Default OCR is tesseract eng+deu.
+  #   OCR_ENGINE=paddle docker compose --profile ocr-paddle run --rm ocr-paddle
+  ocr-paddle:
+    profiles: ["ocr-paddle"]
+    image: python:3.12-slim
+    environment:
+      OCR_ENGINE: paddle
+    command: ["python", "-c", "print('OCR_ENGINE=paddle; install paddleocr on PATH')"]
+
 volumes:
   kb-model:
   kb-var:
+  reasoner-ollama:
+  picoclaw-home:

deploy/picoclaw/config.json

@@ -0,0 +1,33 @@
+{
+  "agents": {
+    "defaults": {
+      "model_name": "qwen3.5-9b",
+      "max_tool_iterations": 8,
+      "max_tokens": 512,
+      "context_window": 8192
+    }
+  },
+  "model_list": [
+    {
+      "model_name": "qwen3.5-9b",
+      "model": "ollama/qwen3.5:9b",
+      "api_base": "http://127.0.0.1:11435/v1",
+      "request_timeout": 600
+    }
+  ],
+  "tools": {
+    "web": {
+      "enabled": false
+    },
+    "mcp": {
+      "enabled": true,
+      "servers": {
+        "2dph": {
+          "enabled": true,
+          "type": "http",
+          "url": "http://127.0.0.1:8630/mcp"
+        }
+      }
+    }
+  }
+}

deploy/picoclaw/mcp.json.example

@@ -0,0 +1,8 @@
+{
+  "mcpServers": {
+    "2dph": {
+      "url": "http://127.0.0.1:8630/mcp",
+      "description": "2dph fact gate. Tool order: search → get → audit. throttled is not absence."
+    }
+  }
+}

deploy/searxng/limiter.toml

@@ -0,0 +1,7 @@
+[botdetection.ip_lists]
+# RFC1918 only. Do not copy a live instance egress IP into git.
+pass_ip = [
+  "10.0.0.0/8",
+  "172.16.0.0/12",
+  "192.168.0.0/16",
+]

deploy/searxng/settings.yml

@@ -0,0 +1,28 @@
+use_default_settings: true
+
+general:
+  instance_name: "2dph"
+
+search:
+  formats:
+    - html
+    - json
+  suspended_times:
+    SearxEngineCaptcha: 300
+    SearxEngineTooManyRequests: 120
+    SearxEngineAccessDenied: 300
+
+server:
+  limiter: true
+  image_proxy: false
+  # secret_key comes from SEARXNG_SECRET (never commit a real secret)
+
+engines:
+  - name: bing
+    disabled: false
+  - name: google
+    disabled: false
+  - name: duckduckgo
+    disabled: false
+  - name: wikipedia
+    disabled: false

docs/README.md

@@ -1,14 +1,38 @@
-# 2dph (deductionphile)
+---
+type: reference
+status: current
+related:
+  - docs/runbook.md
+  - docs/design.md
+  - PLAN.md
+  - docs/roadmap.md
+---
 
-Evidence-first knowledge graph + hybrid RAG over the operational
+# 2dph docs (Diataxis)
-Brain/ops/eSlider stack. Facts need proof or they are
+
+Evidence-first knowledge graph. Facts need proof or they are
 `(not confirmed)`.
 
-- [PLAN.md](../PLAN.md) — decisions, execution order, open questions (v2)
+| Type | Doc |
-- [design](design.md) — schema, deduction model, sources
+|------|-----|
-- [Gitea issues](https://git.produktor.io/eSlider/2dph/issues) — work board (origin)
+| tutorial / howto | [runbook](runbook.md) — run anywhere (uv, Go, Docker) |
+| explanation | [design](design.md) — two roots, deduction, D17/D20/D18 |
+| explanation | [roadmap](roadmap.md) — gap to v1 (epic #16) |
+| howto | [picoclaw](picoclaw.md) — MCP agent profile |
+| howto | [reasoner](reasoner.md) — CPU bake-off (D18) |
+| reference | [PLAN.md](../PLAN.md) — decisions D1–D22 |
 
-Search: `bin/brain/search.go "query"` (HTTP: `bin/brain/serve.go`). `--hop` is
+Decisions the public face must name: **D3** SearXNG compose, **D6** Go service /
-not a walk; the flag errors until File/FROM_FILE edges exist.
+Python write sidecar, **D14** `bin/{subject}/{method}.go`, **D15** Gitea origin,
+**D17** assertion gate (facts → info → web), **D18** pluggable reasoner.
 
-Published docs live here and mirror the project state.
+Search: `bin/brain/search.go "query"` (HTTP: `bin/brain/serve.go` —
+`/health` `/search` `/get` `/stats` `/audit` `/ingest`). `--hop N` walks
+`FROM_FILE` → Commit → Person from each hit (max 3). Rebuild writes
+File edges ([#17](https://git.produktor.io/eSlider/2dph/issues/17)).
+
+Work board: [Gitea issues](https://git.produktor.io/eSlider/2dph/issues)
+([epic #16](https://git.produktor.io/eSlider/2dph/issues/16)).
+PRs and CI: GitHub [`eSlider/2dph`](https://github.com/eSlider/2dph).
+
+Published docs live here and match live commands.

docs/chat-import-plan.md

@@ -15,9 +15,11 @@ OO_CLI                     (default: $HOME/go/bin/oo)
 ## Quick reference
 
 ```
-./bin/chat sync telegram --limit 100
+./bin/chats/sync.go telegram --limit 100
-./bin/chat import
+./bin/chats/import.go
-./bin/chat index
+./bin/chats/facts.go
-./bin/chat facts
+./bin/chats/apply.go --dry-run
-./bin/chat apply --dry-run
 ```
+
+JSONL → markdown only. Brain ingest is `bin/brain/index.go --with-chats`
+(default `var/chats/md`). WhatsApp sync is out of v1.

docs/design.md

@@ -1,3 +1,12 @@
+---
+type: explanation
+status: current
+related:
+  - docs/README.md
+  - docs/runbook.md
+  - docs/roadmap.md
+---
+
 # Design — facts, info, deduction
 
 ## Two roots, one transaction
@@ -21,10 +30,17 @@ bin/brain/search.go "question"
   1. facts root   — confirmed answers only   → return with evidence links
   2. info  root   — supporting narrative     → snippets, marked (not confirmed)
   3. web-search   — second independent source → upgrade hypothesis to confirmed
+     (`web` block from `bin/web/search.go` when no facts hit; status `throttled`
+     is not evidence of absence; `--no-web` / `--root` skip it)
 ```
 
-`--hop` is not implemented yet (needs File/FROM_FILE edges). The flag is an
+`--hop N` walks `Leaf-[:FROM_FILE]->File-[:HAS_VERSION]->Commit-[:AUTHORED]->Person`
-error; it is not a graph walk.
+from each hit (1=File, 2=Commit, 3=Person). Rebuild writes FROM_FILE;
+git import writes HAS_VERSION/AUTHORED ([#17](https://git.produktor.io/eSlider/2dph/issues/17)).
+
+Go CLIs parse with **flaggy** via `internal/cli` (D23). Flags may appear
+after positionals (`search q --hop 1`). Completions:
+`source <(./bin/cli/complete.go bash)`.
 
 ## Who / What / How / Where / When + evidence
 
@@ -46,7 +62,8 @@ Every assertion edge carries:
 Content leafs: `sha256`, `observed_at`, `source_rev`, `confidence`. Stale = a
 file changed on disk (git HEAD/mtime) after its last observed `source_rev`.
 `File-[:HAS_VERSION]->Commit-[:AUTHORED]->Person` records the history of every
-content leaf.
+content leaf. Commit records come from `bin/git/import.go` (go-git, no git
+binary); conversion prints leafs, brain write is `bin/brain/index.go`.
 
 `bin/facts/audit stale` flags leafs whose observed revision is behind the
 corpus HEAD.
@@ -58,4 +75,36 @@ corpus HEAD.
 - C: narrative — READMEs, AGENTS.md, docs
 
 Confirmed = A×B or B×C agreement. Single source = hypothesis + `(not confirmed)`.
-Conflicting pairings (≥2 yes vs ≥2 no) = hypothesis (OQ1 → v2 resolution).
+Conflicting pairings (≥2 yes vs ≥2 no) stay hypothesis until
+`temporal_freshness` or `authority_pairing` fires (`bin/facts/audit contradict`,
+[#29](https://git.produktor.io/eSlider/2dph/issues/29)).
+
+## Read path
+
+`bin/brain/get.go`, `stats.go`, and `eval.go` call `internal/brain` with cgo
+(`system_ladybug`), compiled by **Zig** (`bin/cgo/zcc`, D21), not gcc.
+They do not exec Python. Control questions for recall@5 live in
+`internal/brain/rank` so CI can test the table without libladybug.
+Python `bin/kb/{get,stats,eval}` remain for GitHub Actions until the runner
+fetches Zig + libs (`bin/cgo/zig`). Incremental write is `bin/kb/add`
+(`bin/brain/add.go`). Bulk index/write is still `bin/kb/index`
+(`docker compose --profile index`).
+
+## Agent API (D20)
+
+`bin/brain/serve.go` exposes the same `internal/httpapi.Ops` table as OpenAPI
+(`GET /openapi.json`) and MCP (`POST /mcp` JSON-RPC `tools/list` +
+`tools/call`). Tool names match paths: `search`, `get`, `stats`, `audit`,
+`ingest` (add a leaf; omit body for the CLI hint).
+Agents should use these endpoints instead of shebang CLIs.
+
+## Reasoner (D18)
+
+Pluggable OpenAI-compatible URL. RAM: `Qwen/Qwen3.5-9B`. Quality:
+`prism-ml/Bonsai-27B-gguf` or `Qwen/Qwen3.6-27B`. No official Qwen3.6-9B.
+CPU sidecar: compose profile `reasoner` (`OLLAMA_NUM_GPU=0`,
+`127.0.0.1:11435`). Bake-off: `bin/reasoner/bakeoff.go`. Weights stay out
+of the 2dph image. See [docs/reasoner.md](reasoner.md).
+
+Gap to v1 (hops, corpus, CI eval): [roadmap](roadmap.md),
+[epic #16](https://git.produktor.io/eSlider/2dph/issues/16).

docs/picoclaw.md

@@ -0,0 +1,34 @@
+# PicoClaw profile (reference agent)
+
+2dph is the memory/fact gate. Compose profile `picoclaw` runs the official
+PicoClaw gateway (`docker.io/sipeed/picoclaw:v0.3.1`) plus `brain-mcp` and the
+CPU reasoner. Default agent model is `qwen3.5:9b` (RAM path, D18). Weights stay
+in the reasoner volume, not in the 2dph image.
+No secrets in git: Ollama needs no key; MCP is local HTTP.
+
+```bash
+docker compose --profile picoclaw up -d
+# already serving :8630 / :11435:
+docker compose --profile picoclaw up -d --no-deps picoclaw
+```
+
+Gateway: `127.0.0.1:18790`. Brain MCP: `http://127.0.0.1:8630/mcp`.
+Cursor-style clients can use [deploy/picoclaw/mcp.json.example](../deploy/picoclaw/mcp.json.example).
+PicoClaw itself uses [deploy/picoclaw/config.json](../deploy/picoclaw/config.json)
+(`127.0.0.1` + host network — loopback publishes are not reachable via docker0).
+
+OpenAPI: `GET http://127.0.0.1:8630/openapi.json`.
+
+Before a factual reply: `search` → `get` → `audit`. `throttled` is not a
+negative finding. See `skills/picoclaw/SKILL.md`.
+
+System performance (MCP gates + qwen3.5:9b tool_call + PicoClaw gateway):
+
+```bash
+./qa/system_perf.py --json | yq '.gates'
+REASONER_MODEL=qwen3.5:9b ./qa/system_perf.py --reasoner --picoclaw --json | yq '.reasoner'
+```
+
+The default agent model is `qwen3.5:9b`. PicoClaw `context_window` is 8192
+(heuristic `max_tokens*4` at 512 is 2048, too small for MCP tool schemas).
+`request_timeout` is 600s for a CPU turn (tool_call + MCP search + answer).

docs/reasoner.md

@@ -0,0 +1,71 @@
+# Reasoner bake-off (D18)
+
+Pluggable OpenAI-compatible URL. 2dph does not ship weights. PicoClaw is
+compose profile `picoclaw` (`sipeed/picoclaw`); the bake-off hits the same
+tool names (`search` → `get` → `audit` from `internal/httpapi.Ops`).
+
+```bash
+docker compose --profile reasoner up -d reasoner
+docker compose --profile reasoner exec reasoner ollama pull qwen3.5:9b
+REASONER_BASE_URL=http://127.0.0.1:11435/v1 REASONER_MODEL=qwen3.5:9b \
+  ./bin/reasoner/bakeoff.go --json
+```
+
+JSON includes `latency_p50_ms` / `latency_p95_ms` from DuckDB (`internal/duckstats`, D22).
+
+Host Ollama on `:11434` is left alone. This sidecar binds `127.0.0.1:11435`
+with `OLLAMA_NUM_GPU=0` (CPU). Measure RSS (`/api/ps` `size`), not VRAM.
+
+If Compose cannot allocate a project network (Docker IPAM pool exhausted),
+the same sidecar is:
+
+```bash
+docker run -d --name 2dph-reasoner \
+  -e OLLAMA_NUM_GPU=0 \
+  -p 127.0.0.1:11435:11434 \
+  -v 2dph-reasoner-ollama:/root/.ollama \
+  ollama/ollama:latest
+```
+
+## Real Hugging Face ids
+
+| Role | HF id | Ollama tag (this bake-off) |
+|------|-------|----------------------------|
+| RAM / 9B | `Qwen/Qwen3.5-9B` | `qwen3.5:9b` |
+| Quality 27B (CPU) | `prism-ml/Bonsai-27B-gguf` (derived from Qwen3.6-27B) | `MichelRosselli/bonsai-27b:Q1_0` |
+| Quality 27B (full) | `Qwen/Qwen3.6-27B` | not pulled on this CPU box |
+
+There is **no official Qwen3.6-9B**. Do not invent that id.
+
+Qwen3.5-9B has documented upstream tool-call XML bugs. A 9B win on tools
+is only claimed if this bake-off records OpenAI `tool_calls` (not
+`<tool_call>` XML in `content`).
+
+The 2dph API image does not `COPY` GGUF/safetensors. Pull at runtime into
+the `reasoner-ollama` volume.
+
+## Live CPU run
+
+Host sidecar: Ollama **0.32.9**, `OLLAMA_NUM_GPU=0`, `127.0.0.1:11435`,
+`device: cpu`, `vram_mb: 0`. Date: 2026-08-13. Same three prompts
+(`search` / `get` / `audit`). PicoClaw binary was not used; the OpenAI
+tools payload is the surface it would send.
+
+| Model | HF id | tool_call | xml_leak | rss_mb | latency_ms (search/get/audit) |
+|-------|-------|-----------|----------|--------|-------------------------------|
+| `qwen3.5:9b` | `Qwen/Qwen3.5-9B` | 3/3 | 0 | 5790 | 50059 / 51678 / 31980 |
+| `MichelRosselli/bonsai-27b:Q1_0` | `prism-ml/Bonsai-27B-gguf` | 3/3 | 0 | 21951 | 327702 / 166830 / 119808 |
+| `Qwen/Qwen3.6-27B` | `Qwen/Qwen3.6-27B` | not loaded | — | — | too heavy for this CPU box |
+
+Both loaded models emitted OpenAI `tool_calls` (not `<tool_call>` XML) on
+this runtime. **Do not claim 9B is better at tools** — the score is tied
+at 3/3. 9B is smaller and faster. Bonsai RSS includes weights + KV
+(`size` from `/api/ps`); first Bonsai prompt includes cold load.
+
+Re-run:
+
+```bash
+REASONER_BASE_URL=http://127.0.0.1:11435/v1 REASONER_MODEL=qwen3.5:9b \
+  ./bin/reasoner/bakeoff.go --json
+REASONER_MODEL=MichelRosselli/bonsai-27b:Q1_0 ./bin/reasoner/bakeoff.go --json
+```

docs/roadmap.md

@@ -0,0 +1,67 @@
+---
+type: explanation
+status: current
+related:
+  - PLAN.md
+  - docs/design.md
+  - docs/runbook.md
+---
+
+# Gap to v1 — detective brain
+
+Goal: a brain that does not assert without proof. Search is deduction
+(`facts` ≥2 sources → `info` → `web`). `confirmed` only from the facts root.
+
+**v1 is a living graph the agent can write and walk**, not “more RAG”.
+
+Epic: [Gitea #16](https://git.produktor.io/eSlider/2dph/issues/16).
+Milestone: [v1 detective brain](https://git.produktor.io/eSlider/2dph/milestone/12).
+Decisions: [PLAN.md](../PLAN.md).
+
+## In (do not reopen)
+
+Read path Go + Zig CGO (D21). HTTP + OpenAPI + MCP (D20). PicoClaw compose
+profile + CPU reasoner (D18). Mail sync → import → rebuild. D14 shebangs.
+Compose `api` (no CPython) / `index` (Python write). Issues #1–#5, #7–#13.
+[#15](https://git.produktor.io/eSlider/2dph/issues/15) lever/loop.
+[#14](https://git.produktor.io/eSlider/2dph/issues/14) `bin/brain/add.go` /
+`POST /ingest` (Python `kblib.add_leafs`; no Go upsert port).
+[#17](https://git.produktor.io/eSlider/2dph/issues/17) `--hop N` walks
+FROM_FILE / HAS_VERSION / AUTHORED.
+[#18](https://git.produktor.io/eSlider/2dph/issues/18) `--with-facts` /
+`--with-chats` on rebuild (WhatsApp out of v1).
+[#19](https://git.produktor.io/eSlider/2dph/issues/19) CI recall SoT =
+`bin/brain/eval.go` via Zig.
+Epic [#16](https://git.produktor.io/eSlider/2dph/issues/16) closed.
+
+## v2
+
+[#6](https://git.produktor.io/eSlider/2dph/issues/6) OCR — **in**.
+[#30](https://git.produktor.io/eSlider/2dph/issues/30) OQ3 duckdb-go — **in**.
+[#29](https://git.produktor.io/eSlider/2dph/issues/29) OQ1 contradiction
+resolution — **in** (`temporal_freshness`, `authority_pairing`).
+[#34](https://git.produktor.io/eSlider/2dph/issues/34) D23 flaggy CLI — **in**.
+
+## Blockers
+
+None for epic #16 (closed). Remaining v2: OQ4.
+
+```
+question
+    │
+    ├─ FTS + HNSW          ← in
+    ├─ facts / info roots  ← in
+    ├─ web (D17)           ← in
+    ├─ brain/add ACID      ← in
+    ├─ Cypher hop          ← in
+    └─ facts+chats corpus  ← in
+```
+
+## Not v1
+
+OQ4 YAML-first leafs.
+OCR (OQ2), duckdb-go (OQ3/D22), and D16 adjudication (OQ1) are in.
+
+## Close epic #16 when
+
+Children #14, #15, #17, #18, #19 are closed. MCP tool order stays gated by tests.

docs/runbook.md

@@ -0,0 +1,86 @@
+---
+type: howto
+status: current
+related:
+  - docs/README.md
+  - PLAN.md
+---
+
+# Run 2dph (portable)
+
+No laptop-absolute paths. Config lives in env files under `$HOME/.config/brain/`
+(mode 0600), not in git.
+
+## Toolchain
+
+- Go (see `go.mod`)
+- Python 3.12 + [uv](https://docs.astral.sh/uv)
+- Optional: Docker, Zig CGO via `bin/cgo/zig` (not gcc)
+- Optional: poppler (`pdftotext`/`pdftoppm`) + tesseract `eng+deu` for mail OCR
+
+```bash
+uv venv .venv
+uv pip install -r requirements.lock.txt
+eval "$(bin/cgo/zig env)"   # when compiling Ladybug read tools
+go test ./...
+uv run python -m unittest discover -s bin/tools -t .
+```
+
+## Config
+
+| File / env | Purpose |
+|------------|---------|
+| `$BRAIN_SEARCH_ENV` (default `$HOME/.config/brain/search.env`) | `BRAIN_SEARCH_URL` (SearXNG). Optional Basic Auth. |
+| `$HOME/.config/brain/db-profiles.yml` | read-only Postgres profiles (OnlyOffice via tunnel) |
+
+If the host already runs SearXNG, point `BRAIN_SEARCH_URL` at it. Do not start
+a second copy (D3). Optional Compose instance:
+
+```bash
+SEARXNG_SECRET=$(openssl rand -hex 32) docker compose --profile searxng up -d
+```
+
+That binds `127.0.0.1:8888`. JSON format must stay enabled.
+
+## Index then search
+
+Write path is `bin/brain/add.go` for a leaf (or `POST /ingest`). Bulk
+corpus rebuild remains `bin/brain/index.go --rebuild` (Compose profile
+`index`). Do not DROP INDEX on Ladybug 0.19.
+
+```bash
+bin/brain/add.go --text "arc-1 runs Matrix" --root facts --source "compose.yml x docker ps"
+bin/brain/index.go --rebuild --with-facts --with-chats
+bin/brain/search.go "LadybugDB vector index"     # facts → info → web (D17)
+bin/brain/search.go "upstream flag" --no-web
+source <(./bin/cli/complete.go bash)            # D23 flaggy complete
+bin/brain/get.go <id> --body
+bin/brain/stats.go
+```
+
+`--hop N` walks File → Commit → Person from each hit. Empty web results are `throttled`, not absence.
+Gap to v1: [roadmap](roadmap.md) / [epic #16](https://git.produktor.io/eSlider/2dph/issues/16).
+
+Ladybug 0.19: never `DROP INDEX` FTS/VECTOR (ghost catalog). Fresh indexes =
+delete `var/kb.lbug` then `--rebuild`.
+
+## HTTP / MCP
+
+```bash
+docker compose up -d brain                       # :8630 Zig CGO serve
+docker compose --profile index run --rm index    # rebuild
+docker compose --profile picoclaw up brain-mcp   # MCP 127.0.0.1:8630
+```
+
+`GET /openapi.json`, `POST /mcp`. Agent tool order: `search` → `get` → `audit`.
+
+## Reasoner (optional, D18)
+
+CPU sidecar on `127.0.0.1:11435`. Weights are not in the 2dph image.
+
+```bash
+docker compose --profile reasoner up -d reasoner
+REASONER_BASE_URL=http://127.0.0.1:11435/v1 ./bin/reasoner/bakeoff.go --json
+```
+
+See [reasoner.md](reasoner.md).

go.mod

@@ -7,19 +7,55 @@ require (
 	github.com/arran4/golang-ical v0.3.5
 	github.com/chewxy/math32 v1.11.2
 	github.com/daulet/tokenizers v1.27.0
+	github.com/duckdb/duckdb-go/v2 v2.10505.0
+	github.com/go-git/go-git/v5 v5.19.2
+	github.com/integrii/flaggy v1.8.0
+	golang.org/x/sys v0.47.0
 	golang.org/x/text v0.40.0
+	modernc.org/sqlite v1.56.0
 )
 
 require (
+	dario.cat/mergo v1.0.0 // indirect
+	github.com/Microsoft/go-winio v0.6.2 // indirect
+	github.com/ProtonMail/go-crypto v1.1.6 // indirect
 	github.com/apache/arrow-go/v18 v18.6.0 // indirect
+	github.com/cloudflare/circl v1.6.3 // indirect
+	github.com/cyphar/filepath-securejoin v0.6.1 // indirect
+	github.com/duckdb/duckdb-go-bindings v0.10505.0 // indirect
+	github.com/duckdb/duckdb-go-bindings/lib/darwin-amd64 v0.10505.0 // indirect
+	github.com/duckdb/duckdb-go-bindings/lib/darwin-arm64 v0.10505.0 // indirect
+	github.com/duckdb/duckdb-go-bindings/lib/linux-amd64 v0.10505.0 // indirect
+	github.com/duckdb/duckdb-go-bindings/lib/linux-arm64 v0.10505.0 // indirect
+	github.com/duckdb/duckdb-go-bindings/lib/windows-amd64 v0.10505.0 // indirect
+	github.com/dustin/go-humanize v1.0.1 // indirect
+	github.com/emirpasic/gods v1.18.1 // indirect
+	github.com/go-git/gcfg v1.5.1-0.20230307220236-3a3c6141e376 // indirect
+	github.com/go-git/go-billy/v5 v5.9.0 // indirect
+	github.com/go-viper/mapstructure/v2 v2.5.0 // indirect
 	github.com/goccy/go-json v0.10.6 // indirect
+	github.com/golang/groupcache v0.0.0-20241129210726-2c02b8208cf8 // indirect
 	github.com/google/flatbuffers v25.12.19+incompatible // indirect
 	github.com/google/uuid v1.6.0 // indirect
+	github.com/jbenet/go-context v0.0.0-20150711004518-d14ea06fba99 // indirect
+	github.com/kevinburke/ssh_config v1.2.0 // indirect
 	github.com/klauspost/compress v1.18.5 // indirect
 	github.com/klauspost/cpuid/v2 v2.3.0 // indirect
+	github.com/mattn/go-isatty v0.0.24 // indirect
+	github.com/ncruces/go-strftime v1.0.0 // indirect
 	github.com/pierrec/lz4/v4 v4.1.26 // indirect
+	github.com/pjbgf/sha1cd v0.6.0 // indirect
+	github.com/remyoudompheng/bigfft v0.0.0-20230129092748-24d4a6f8daec // indirect
+	github.com/sergi/go-diff v1.3.2-0.20230802210424-5b0b94c5c0d3 // indirect
 	github.com/shopspring/decimal v1.4.0 // indirect
+	github.com/skeema/knownhosts v1.3.1 // indirect
+	github.com/xanzy/ssh-agent v0.3.3 // indirect
 	github.com/zeebo/xxh3 v1.1.0 // indirect
-	golang.org/x/exp v0.0.0-20260112195511-716be5621a96 // indirect
+	golang.org/x/crypto v0.53.0 // indirect
-	golang.org/x/sys v0.43.0 // indirect
+	golang.org/x/exp v0.0.0-20260410095643-746e56fc9e2f // indirect
+	golang.org/x/net v0.56.0 // indirect
+	gopkg.in/warnings.v0 v0.1.2 // indirect
+	modernc.org/libc v1.74.4 // indirect
+	modernc.org/mathutil v1.7.1 // indirect
+	modernc.org/memory v1.11.0 // indirect
 )

go.sum

@@ -1,50 +1,202 @@
+dario.cat/mergo v1.0.0 h1:AGCNq9Evsj31mOgNPcLyXc+4PNABt905YmuqPYYpBWk=
+dario.cat/mergo v1.0.0/go.mod h1:uNxQE+84aUszobStD9th8a29P2fMDhsBdgRYvZOxGmk=
 github.com/LadybugDB/go-ladybug v0.17.0 h1:RXDbkBjrbRmLdEbhGl4CLOIEzSt09gbP0n9UbKDEfwI=
 github.com/LadybugDB/go-ladybug v0.17.0/go.mod h1:GeIXmE8XyF5TFS94NAuTag7vgCC+no/HTBMRA6Rd5Cs=
+github.com/Microsoft/go-winio v0.5.2/go.mod h1:WpS1mjBmmwHBEWmogvA2mj8546UReBk4v8QkMxJ6pZY=
+github.com/Microsoft/go-winio v0.6.2 h1:F2VQgta7ecxGYO8k3ZZz3RS8fVIXVxONVUPlNERoyfY=
+github.com/Microsoft/go-winio v0.6.2/go.mod h1:yd8OoFMLzJbo9gZq8j5qaps8bJ9aShtEA8Ipt1oGCvU=
+github.com/ProtonMail/go-crypto v1.1.6 h1:ZcV+Ropw6Qn0AX9brlQLAUXfqLBc7Bl+f/DmNxpLfdw=
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internal/brain/http.go

@@ -0,0 +1,171 @@
+//go:build cgo && system_ladybug
+
+package brain
+
+import (
+	"bytes"
+	"context"
+	"encoding/json"
+	"fmt"
+	"os/exec"
+	"path/filepath"
+
+	"github.com/eSlider/2dph/internal/brain/rank"
+)
+
+// Ready opens the Ladybug file for the life of the serve process.
+func Ready() error {
+	return openBrain()
+}
+
+// HTTP is the in-process API used by bin/brain/serve.go.
+type HTTP struct{}
+
+func (HTTP) Search(ctx context.Context, query string, limit int) ([]byte, error) {
+	hits, err := searchHits(query, "", "", limit)
+	if err != nil {
+		return nil, err
+	}
+	for i := range hits {
+		if hits[i].Text != "" {
+			runes := []rune(hits[i].Text)
+			if len(runes) > 280 {
+				runes = runes[:280]
+			}
+			hits[i].Snippet = string(runes)
+		}
+	}
+	webOut := rank.Deduce(hits, query, "", false, func(q string) rank.SecondSource {
+		return lookupWeb(ctx, q)
+	})
+	var buf bytes.Buffer
+	enc := json.NewEncoder(&buf)
+	enc.SetEscapeHTML(false)
+	if err := enc.Encode(toJSONOut(hits, query, "", webOut)); err != nil {
+		return nil, err
+	}
+	return buf.Bytes(), nil
+}
+
+func (HTTP) Get(_ context.Context, id string, body bool) ([]byte, error) {
+	if conn == nil {
+		return nil, fmt.Errorf("brain not open")
+	}
+	stmt, err := conn.Prepare(
+		"MATCH (l:Leaf {id:$id}) RETURN l.id, l.text, l.root, l.confidence, l.source, l.type",
+	)
+	if err != nil {
+		return nil, err
+	}
+	defer stmt.Close()
+	res, err := conn.Execute(stmt, map[string]any{"id": id})
+	if err != nil {
+		return nil, err
+	}
+	if !res.HasNext() {
+		return nil, fmt.Errorf("no leaf %s", id)
+	}
+	row, err := res.Next()
+	if err != nil {
+		return nil, err
+	}
+	vals, err := row.GetAsSlice()
+	if err != nil || len(vals) < 6 {
+		return nil, fmt.Errorf("leaf row")
+	}
+	out := map[string]any{
+		"id":         fmt.Sprint(vals[0]),
+		"root":       fmt.Sprint(vals[2]),
+		"confidence": fmt.Sprint(vals[3]),
+		"source":     fmt.Sprint(vals[4]),
+		"type":       fmt.Sprint(vals[5]),
+	}
+	if body {
+		out["text"] = fmt.Sprint(vals[1])
+	}
+	return json.Marshal(out)
+}
+
+func (HTTP) Stats(context.Context) ([]byte, error) {
+	if conn == nil {
+		return nil, fmt.Errorf("brain not open")
+	}
+	res, err := conn.Query("MATCH (l:Leaf) RETURN l.root, count(*)")
+	if err != nil {
+		return nil, err
+	}
+	byRoot := map[string]int{}
+	total := 0
+	for res.HasNext() {
+		row, err := res.Next()
+		if err != nil {
+			return nil, err
+		}
+		vals, err := row.GetAsSlice()
+		if err != nil || len(vals) < 2 {
+			continue
+		}
+		n := int(asInt(vals[1]))
+		byRoot[fmt.Sprint(vals[0])] = n
+		total += n
+	}
+	return json.Marshal(map[string]any{"total": total, "by_root": byRoot, "db": dbPath()})
+}
+
+func (HTTP) Audit(context.Context) ([]byte, error) {
+	if conn == nil {
+		return nil, fmt.Errorf("brain not open")
+	}
+	res, err := conn.Query("MATCH (l:Leaf) RETURN l.root, l.confidence, count(*)")
+	if err != nil {
+		return nil, err
+	}
+	var rows []map[string]any
+	for res.HasNext() {
+		row, err := res.Next()
+		if err != nil {
+			return nil, err
+		}
+		vals, err := row.GetAsSlice()
+		if err != nil || len(vals) < 3 {
+			continue
+		}
+		rows = append(rows, map[string]any{
+			"root":       fmt.Sprint(vals[0]),
+			"confidence": fmt.Sprint(vals[1]),
+			"count":      asInt(vals[2]),
+		})
+	}
+	return json.Marshal(map[string]any{"status": "ok", "by_confidence": rows})
+}
+
+func (HTTP) Ingest(ctx context.Context, body []byte) ([]byte, error) {
+	if len(bytes.TrimSpace(body)) == 0 {
+		return json.Marshal(map[string]any{
+			"mode":    "add",
+			"command": "bin/brain/add.go",
+			"rebuild": "bin/brain/index.go --rebuild",
+		})
+	}
+	cmd := exec.CommandContext(ctx, filepath.Join(repoRoot(), "bin", "kb", "add"), "--json")
+	cmd.Stdin = bytes.NewReader(body)
+	cmd.Dir = repoRoot()
+	out, err := cmd.Output()
+	if err != nil {
+		return nil, fmt.Errorf("add: %w", err)
+	}
+	return out, nil
+}
+
+func asInt(v any) int64 {
+	switch n := v.(type) {
+	case int64:
+		return n
+	case int:
+		return int64(n)
+	case float64:
+		return int64(n)
+	default:
+		return 0
+	}
+}

internal/brain/modelid.go

@@ -0,0 +1,3 @@
+package brain
+
+const ModelID = "minishlab/potion-multilingual-128M"

internal/brain/rank/args.go

@@ -3,70 +3,78 @@ package rank
 import (
 	"fmt"
 	"strconv"
-	"strings"
+
+	"github.com/eSlider/2dph/internal/cli"
+	"github.com/integrii/flaggy"
 )
 
-const Usage = `usage: bin/brain/search.go "query" [--root facts|info] [--repo REPO] [-n N] [--json]
+const Usage = `usage: bin/brain/search.go "query" [--root facts|info] [--repo REPO] [-n N] [--hop N] [--json] [--no-web]
        bin/brain/search.go serve [port]
-       bin/brain/search.go --list-model`
+       bin/brain/search.go --list-model
+       source <(./bin/cli/complete.go bash)`
 
 type Options struct {
 	Query     string
 	Root      string
 	Repo      string
 	Limit     int
+	Hop       int
 	JSONOut   bool
 	ListModel bool
+	NoWeb     bool
+}
+
+// NewParser is the flaggy schema for search (also used by bin/cli/complete.go).
+func NewParser(opt *Options) *flaggy.Parser {
+	if opt.Limit == 0 {
+		opt.Limit = 20
+	}
+	p := cli.New("brain-search")
+	p.Description = "deduction search: facts → info → web"
+	p.String(&opt.Root, "", "root", "facts or info")
+	p.String(&opt.Repo, "", "repo", "filter by repo")
+	p.Int(&opt.Limit, "n", "n", "max hits")
+	p.Int(&opt.Hop, "", "hop", "walk FROM_FILE depth 1-3")
+	p.Bool(&opt.JSONOut, "", "json", "JSON output")
+	p.Bool(&opt.NoWeb, "", "no-web", "stay local")
+	p.Bool(&opt.ListModel, "", "list-model", "print embedding model")
+	return p
 }
 
 // ParseArgs reads flags. Unknown flags are an error: silently dropping them
 // meant `--hop 1` vanished and its argument `1` was appended to the query.
-// --hop is recognised so it cannot be swallowed; it is not implemented until
-// File/FROM_FILE edges exist.
 func ParseArgs(args []string) (Options, error) {
 	opt := Options{Limit: 20}
-	var queryArgs []string
+	p := NewParser(&opt)
-
+	var q string
-	for i := 0; i < len(args); i++ {
+	p.AddPositionalValue(&q, "query", 1, false, "search query")
-		arg := args[i]
+	if err := cli.Parse(p, args); err != nil {
-		wantsValue := arg == "--root" || arg == "--repo" || arg == "-n" || arg == "--hop"
+		return opt, err
-		if wantsValue && i+1 >= len(args) {
-			return opt, fmt.Errorf("%s needs a value", arg)
 	}
-		switch arg {
+	opt.Query = cli.Query(q, p.TrailingArguments)
-		case "--root":
+	if opt.Root != "" && opt.Root != "facts" && opt.Root != "info" {
-			i++
-			opt.Root = args[i]
-			if opt.Root != "facts" && opt.Root != "info" {
 		return opt, fmt.Errorf("--root must be facts or info, got %q", opt.Root)
 	}
-		case "--repo":
+	if opt.Limit < 1 {
-			i++
+		return opt, fmt.Errorf("-n must be a positive integer, got %q", strconv.Itoa(opt.Limit))
-			opt.Repo = args[i]
-		case "-n":
-			i++
-			n, err := strconv.Atoi(args[i])
-			if err != nil || n < 1 {
-				return opt, fmt.Errorf("-n must be a positive integer, got %q", args[i])
 	}
-			opt.Limit = n
+	if opt.Hop < 0 {
-		case "--hop":
+		return opt, fmt.Errorf("--hop must be a positive integer, got %q", strconv.Itoa(opt.Hop))
-			return opt, fmt.Errorf("--hop is not implemented yet (needs File/FROM_FILE edges)")
-		case "--json":
-			opt.JSONOut = true
-		case "--list-model":
-			opt.ListModel = true
-		default:
-			if strings.HasPrefix(arg, "-") {
-				return opt, fmt.Errorf("unknown flag %q", arg)
 	}
-			queryArgs = append(queryArgs, arg)
+	if opt.Hop > 3 {
+		return opt, fmt.Errorf("--hop max is 3 (File → Commit → Person)")
 	}
-	}
-
-	opt.Query = strings.TrimSpace(strings.Join(queryArgs, " "))
 	if opt.Query == "" && !opt.ListModel {
 		return opt, fmt.Errorf("no query given")
 	}
 	return opt, nil
 }
+
+// Parser is the search schema for bin/cli/complete.go.
+func Parser() *flaggy.Parser {
+	opt := Options{Limit: 20}
+	p := NewParser(&opt)
+	var q string
+	p.AddPositionalValue(&q, "query", 1, false, "search query")
+	return p
+}

internal/brain/rank/escalate.go

@@ -0,0 +1,58 @@
+package rank
+
+// SecondSource is the web-search block on a deduction answer.
+// Kept apart from graph hits so "ours" and "not ours" stay visible.
+type SecondSource struct {
+	Status  string            `json:"status"`
+	Note    string            `json:"note,omitempty"`
+	Cached  bool              `json:"cached,omitempty"`
+	Results []SecondSourceHit `json:"results,omitempty"`
+}
+
+type SecondSourceHit struct {
+	Rank    int    `json:"rank"`
+	Title   string `json:"title"`
+	URL     string `json:"url"`
+	Snippet string `json:"snippet"`
+	Engine  string `json:"engine"`
+}
+
+type WebFn func(query string) SecondSource
+
+// ShouldEscalate is true when the default deduction path has no confirmed
+// facts hit. Hypothesis/partial facts are `(not confirmed)` (D16).
+// `--root facts|info` is a single-root ask: do not mix in the web.
+func ShouldEscalate(hits []Hit, rootFilter string) bool {
+	if rootFilter != "" {
+		return false
+	}
+	for _, h := range hits {
+		if ConfirmedFact(h) {
+			return false
+		}
+	}
+	return true
+}
+
+// ConfirmedFact is a facts-root hit that is not hypothesis/partial.
+// Empty confidence is treated as confirmed (legacy leafs).
+func ConfirmedFact(h Hit) bool {
+	if h.Root != "facts" {
+		return false
+	}
+	switch h.Confidence {
+	case "hypothesis", "partial":
+		return false
+	default:
+		return true
+	}
+}
+
+// Deduce returns the second-source block, or nil when web must not run.
+func Deduce(hits []Hit, query, rootFilter string, noWeb bool, web WebFn) *SecondSource {
+	if noWeb || web == nil || !ShouldEscalate(hits, rootFilter) {
+		return nil
+	}
+	out := web(query)
+	return &out
+}

internal/brain/rank/escalate_test.go

@@ -0,0 +1,88 @@
+package rank
+
+import (
+	"strings"
+	"testing"
+)
+
+func TestShouldEscalateWhenNoFacts(t *testing.T) {
+	if !ShouldEscalate(nil, "") {
+		t.Fatal("empty local graph must escalate")
+	}
+	if !ShouldEscalate([]Hit{h("i", "info", "docs/a.md")}, "") {
+		t.Fatal("info-only must escalate (not confirmed)")
+	}
+}
+
+func TestShouldEscalateWhenHypothesisFacts(t *testing.T) {
+	hyp := Hit{ID: "c", Root: "facts", Confidence: "hypothesis", Source: "a x b vs c x d"}
+	if !ShouldEscalate([]Hit{hyp}, "") {
+		t.Fatal("hypothesis facts are (not confirmed); escalate")
+	}
+	if ConfirmedFact(hyp) {
+		t.Fatal("hypothesis is not confirmed")
+	}
+}
+
+func TestShouldNotEscalateWhenFactsConfirm(t *testing.T) {
+	hits := []Hit{h("f", "facts", "docker ps x compose"), h("i", "info", "docs/a.md")}
+	if ShouldEscalate(hits, "") {
+		t.Fatal("facts hit is already confirmed; do not mix web")
+	}
+}
+
+func TestShouldNotEscalateWhenRootFilterSet(t *testing.T) {
+	if ShouldEscalate(nil, "facts") {
+		t.Fatal("--root facts must stay local")
+	}
+	if ShouldEscalate([]Hit{h("i", "info", "x")}, "info") {
+		t.Fatal("--root info must stay local")
+	}
+}
+
+func TestDeduceCallsWebOnlyWhenEscalating(t *testing.T) {
+	called := 0
+	web := func(q string) SecondSource {
+		called++
+		if q != "LadybugDB" {
+			t.Fatalf("query = %q", q)
+		}
+		return SecondSource{Status: "ok", Results: []SecondSourceHit{{Title: "t", URL: "http://example.com"}}}
+	}
+	got := Deduce([]Hit{h("i", "info", "x")}, "LadybugDB", "", false, web)
+	if called != 1 || got == nil || got.Status != "ok" {
+		t.Fatalf("got %+v called=%d", got, called)
+	}
+}
+
+func TestDeduceNilWhenFactsOrNoWeb(t *testing.T) {
+	web := func(string) SecondSource {
+		t.Fatal("web must not run")
+		return SecondSource{}
+	}
+	if Deduce([]Hit{h("f", "facts", "x")}, "q", "", false, web) != nil {
+		t.Fatal("facts")
+	}
+	if Deduce([]Hit{h("i", "info", "x")}, "q", "", true, web) != nil {
+		t.Fatal("--no-web")
+	}
+	if Deduce(nil, "q", "facts", false, web) != nil {
+		t.Fatal("--root facts")
+	}
+	if Deduce(nil, "q", "", false, nil) != nil {
+		t.Fatal("nil web fn")
+	}
+}
+
+func TestParseNoWeb(t *testing.T) {
+	opt, err := ParseArgs([]string{"query", "--no-web", "--json"})
+	if err != nil || !opt.NoWeb || !opt.JSONOut || opt.Query != "query" {
+		t.Fatalf("got %+v err=%v", opt, err)
+	}
+}
+
+func TestUsageNamesNoWeb(t *testing.T) {
+	if !strings.Contains(Usage, "--no-web") {
+		t.Fatalf("usage must name --no-web, got:\n%s", Usage)
+	}
+}

internal/brain/rank/evalq.go

@@ -0,0 +1,16 @@
+package rank
+
+// Eval control questions (recall@5). Kept here so CI can test the gate
+// table without ladybug cgo. The runner lives in internal/brain (cgo).
+const EvalRecallThreshold = 0.95
+
+type EvalQuestion struct {
+	Query    string
+	Fragment string
+}
+
+var EvalQuestions = []EvalQuestion{
+	{"hybrid search fts and vector", "BM25"},
+	{"eslider devops engineer", "DevOps"},
+	{"ladybugdb graph engine storage", "LadybugDB"},
+}

internal/brain/rank/evalq_test.go

@@ -0,0 +1,17 @@
+package rank
+
+import "testing"
+
+func TestEvalQuestionsAreThreeAndThreshold(t *testing.T) {
+	if EvalRecallThreshold != 0.95 {
+		t.Fatalf("threshold = %v", EvalRecallThreshold)
+	}
+	if len(EvalQuestions) != 3 {
+		t.Fatalf("questions = %d, want 3", len(EvalQuestions))
+	}
+	for _, q := range EvalQuestions {
+		if q.Query == "" || q.Fragment == "" {
+			t.Fatalf("empty control: %+v", q)
+		}
+	}
+}

internal/brain/rank/query.go

@@ -3,7 +3,34 @@ package rank
 // BM25 ranks best-first, so the top hits are the *highest* scores; cosine
 // distance ranks best-first ascending. Both mirror kblib.py.
 const FTSStmt = "CALL QUERY_FTS_INDEX('Leaf', 'id', $q) " +
-	"RETURN node.id, node.text, node.root, node.source, score ORDER BY score DESC LIMIT $n"
+	"RETURN node.id, node.text, node.root, node.source, score, node.confidence ORDER BY score DESC LIMIT $n"
 
 const VecStmt = "CALL QUERY_VECTOR_INDEX('Leaf', 'Leaf_vec', $q, $n) " +
-	"RETURN node.id, node.text, node.root, node.source, distance ORDER BY distance LIMIT $n"
+	"RETURN node.id, node.text, node.root, node.source, distance, node.confidence ORDER BY distance LIMIT $n"
+
+// HopStmt is the Cypher walk from a search hit. Depth 1 = File, 2 = Commit, 3 = Person.
+func HopStmt(depth int) string {
+	switch depth {
+	case 1:
+		return "MATCH (l:Leaf {id:$id})-[:FROM_FILE]->(f:File) RETURN f.id, f.path, 1"
+	case 2:
+		return "MATCH (l:Leaf {id:$id})-[:FROM_FILE]->(f:File)-[:HAS_VERSION]->(c:Commit) RETURN c.id, c.subject, 2"
+	case 3:
+		return "MATCH (l:Leaf {id:$id})-[:FROM_FILE]->(f:File)-[:HAS_VERSION]->(c:Commit)-[:AUTHORED]->(p:Person) RETURN p.id, p.name, 3"
+	default:
+		return ""
+	}
+}
+
+func HopLabel(depth int) string {
+	switch depth {
+	case 1:
+		return "File"
+	case 2:
+		return "Commit"
+	case 3:
+		return "Person"
+	default:
+		return ""
+	}
+}

internal/brain/rank/rank.go

@@ -7,14 +7,23 @@ import (
 	"strings"
 )
 
+type HopNode struct {
+	ID    string `json:"id"`
+	Label string `json:"label"`
+	Name  string `json:"name"`
+	Depth int    `json:"depth"`
+}
+
 // Hit is one search result, mirroring the python script's dict shape.
 type Hit struct {
 	ID         string    `json:"id"`
 	Text       string    `json:"text"`
 	Root       string    `json:"root"`
+	Confidence string    `json:"confidence,omitempty"`
 	Source     string    `json:"-"`
 	Score      float64   `json:"score"`
 	Snippet    string    `json:"snippet,omitempty"`
+	Hops       []HopNode `json:"hops,omitempty"`
 }
 
 // rrfK dampens the contribution of low ranks; same constant as kblib.py.

internal/brain/rank/rank_test.go

@@ -91,15 +91,41 @@ func TestHybridKeepsVectorScoreForSharedHit(t *testing.T) {
 }
 
 // The old parser dropped unknown flags and appended their arguments to the
-// query, so `search "q" --hop 1` searched for "q 1". --hop is not implemented
+// query, so `search "q" --hop 1` searched for "q 1". --hop must stay a flag.
-// here (needs File edges); it must still fail closed instead of changing q.
 func TestParseHopIsNotSwallowedIntoTheQuery(t *testing.T) {
-	_, err := ParseArgs([]string{"what runs on arc-2", "--hop", "1"})
+	opt, err := ParseArgs([]string{"what runs on arc-2", "--hop", "1"})
-	if err == nil {
+	if err != nil {
-		t.Fatal("expected --hop to error (not implemented), not be swallowed")
+		t.Fatalf("unexpected error: %v", err)
 	}
-	if !strings.Contains(err.Error(), "--hop") {
+	if opt.Query != "what runs on arc-2" {
-		t.Fatalf("error should name --hop, got %v", err)
+		t.Fatalf("query swallowed hop arg: %q", opt.Query)
+	}
+	if opt.Hop != 1 {
+		t.Fatalf("hop = %d, want 1", opt.Hop)
+	}
+}
+
+func TestParseHopMaxIsThree(t *testing.T) {
+	if _, err := ParseArgs([]string{"q", "--hop", "4"}); err == nil {
+		t.Fatal("expected --hop 4 to error")
+	}
+	opt, err := ParseArgs([]string{"q", "--hop", "3"})
+	if err != nil || opt.Hop != 3 {
+		t.Fatalf("hop 3: %+v err=%v", opt, err)
+	}
+}
+
+func TestHopStmtWalksFromFile(t *testing.T) {
+	s := HopStmt(1)
+	if !strings.Contains(s, "FROM_FILE") || !strings.Contains(s, "File") {
+		t.Fatalf("hop 1 must walk FROM_FILE, got %q", s)
+	}
+	s3 := HopStmt(3)
+	if !strings.Contains(s3, "HAS_VERSION") || !strings.Contains(s3, "AUTHORED") || !strings.Contains(s3, "Person") {
+		t.Fatalf("hop 3 must reach Person, got %q", s3)
+	}
+	if HopLabel(1) != "File" || HopLabel(3) != "Person" {
+		t.Fatal("hop labels")
 	}
 }
 
@@ -146,4 +172,7 @@ func TestFTSQueryOrdersByScoreDescending(t *testing.T) {
 	if !strings.Contains(FTSStmt, "ORDER BY score DESC") {
 		t.Fatalf("FTS query must order by score DESC, got:\n%s", FTSStmt)
 	}
+	if !strings.Contains(FTSStmt, "node.confidence") {
+		t.Fatal("FTS must return confidence for D16")
+	}
 }