NeuralMind v4.3.1

Date: 2026-09-25

Type: Patch release

PR: #532

A one-root-cause, three-symptom fix. All three trace to _is_book_project() comparing a recursive **/*.md glob against a root-only code glob — so any code repo whose code lives in a package subdirectory (including NeuralMind itself) with three or more .md files anywhere was misclassified as a book project.

What that caused

Symptom	Before v4.3.1
Runaway build	Book-mode ingested the entire repo as “chapters” (on this repo: ~28K chunks, ~875 ONNX child processes, multi-hour build)
False doctor failure	`neuralmind doctor` reported `[FAIL] no nodes embedded` on a healthy scoped build — it probed only the default-scope `store.sqlite` while book builds write `store.code.sqlite`
Junk ingestion	`ingest_directory()` had no ignore handling — vendored corpora (`.bench-work`, `node_modules`) and state dirs were swept into the content store

Fixes

_is_book_project() same-basis counting (cli.py) — both markdown and code files counted via os.walk, with vendored/state dirs pruned from BOTH counts. A code repo with a package subdir is no longer a “book”.
Doctor per-scope probe (doctor.py) — when the default-scope store is empty, doctor sums the per-scope stores (store.{code,content,docs}.sqlite), so a healthy scoped build reports its real node count. Uses Path.as_uri() for Windows-safe read-only URIs.
Ingestion ignore guard (document_ingestion.py) — INGEST_IGNORED_DIRS frozenset + dot-dir skip in _walk(); vendored corpora and state dirs are never ingested as content.

Verification

Classification matrix: code repo → False, real book (26 chapters) → True, doc-heavy repo with src/ → False, pure-prose → True
neuralmind doctor on this repo: [ ok ] Semantic index: 5848 nodes embedded (was FAIL)
110 tests passing across book-indexing, doctor, document-ingestion, ingest-content, and skill-manifest suites; 21/21 CI checks green (ubuntu/macos/windows, Python 3.10–3.12)
Adversarial QA: Qwen 3.8 Flash parallel review — 4 findings triaged, 3 prompt-artifact false positives rejected after re-reading the code, 1 genuine (Windows URI portability) fixed via as_uri()

Upgrade notes

No action needed — behavior only changes for projects that were previously misrouted into book mode. If you intentionally build a book-like project whose auto-detection now differs, pass --content-type book explicitly.