Commit Graph
5 Commits
Author SHA1 Message Date
Marc-André Bombeck a822aa5a0e fix(documents): send a read that states no unit itself to review
A unit of "1" is the explicit no-unit choice a person makes. When a
document read returns it on its own, the value is staged for review
instead of passing straight through, so a unit the read dropped never
lands as a dimensionless value.
2026-11-02 20:31:33 +01:00
Marc-André Bombeck 5a7bd95c7b fix(documents): read a long document through the lab scan's read core
Extracting lab values from a stored document still sent the whole text
in one call. A multi-page report produced more JSON than one call's
output ceiling, the answer was cut mid-fact, the parse failed twice, and
the read came back as 422 "Couldn't read the document. Try a clearer
copy." The lab scan had already learned to read the same report a page
or a part at a time, but each surface carried its own copy of the read,
so the document path never got it. It also ran under the shared 60 s
timeout, dropped every fact past 120 (or every fact when one did not
match the schema), and charged a flat reservation.

The read now lives once, in lib/documents/ocr-read.ts and ocr-plan.ts:
the per-read limits, the corrective retry, the salvage of a cut
answer's complete rows, the wire re-check and budget reservation before
each read, and the planning of a PDF a page at a time and text in parts
at line boundaries. The lab scan and the document extraction (the
extract route, its background run and the lab auto-staging) both read
through it, and the background run plans its reads on the same deadline
as a lab scan. The per-read budget moves to a shared metered budget.

The document path validates the answer fact by fact, keeps the lab
scan's row cap (400), and says why nothing came back: 422
documents.inbound.outputLimit when the reads stopped at the output
limit, 429 when the budget refused them, extractFailed only for answers
that were not the schema. A run whose reads were cut or not reached
reports `incomplete` on its result.

A guard holds the class: the output ceiling is set only in the core,
both surfaces read through runOcrReads, both runs share the deadline,
and a lab read and a document read go out under the same limits.

Refs #1257
2026-10-24 10:34:31 +02:00
Marc-André Bombeck fea1d1e0b5 chore: strip planning tags from comments and enable the rule
Output of `node scripts/strip-planning-tags.mjs --write`: 3,157 comment
lines in 1,308 files lose the work-item identifier at their head. Release
versions and issue references stay; nothing outside comment text
changes, which the script checks per file against a comment-free
printout. healthlog/no-planning-tags is enabled at error level with this
commit, so the tree it lands on is clean.
2026-10-20 09:08:40 +02:00
Marc-André Bombeck 8e938a4f45 fix(documents): anchor extracted-fact provenance to the real document span
Every staged fact carried a sourceText the model echoed back, stored verbatim
as 'the exact verbatim span of the document the fact came from'. Nothing
checked that the span existed. A paraphrase, a normalised rendering, or an
outright invention was persisted and shown to the reviewer as a transcription
of their own clinical record — an anchor pointing at nothing, or at a span the
document never contained.

Treat the echo as a lookup key instead. anchorSourceText resolves it against
the extracted text (exact, then whitespace-collapsed and case-folded to absorb
OCR reflow) and stores the span the document actually carries, with its offset.
A quote that matches nothing is dropped and the fact is flagged unanchored;
vision mode has no extracted text at all, so its facts are unanchored by
construction. Rows written before this resolve to unanchored on read — their
quote is preserved but never presented as checked.
2026-07-19 11:06:14 +02:00
Marc-André Bombeck 98ca0b9d61 feat(documents): extract structured facts from clinical documents
Ingest an uploaded doctor report / discharge letter through the existing
dedicated OCR/vision provider rails (the v1.22 document-scan provider/key,
reused — no new provider) and transcribe structured facts into staging.

The safety line is extract, never interpret: the prompt frames the document
as untrusted data to reproduce verbatim. Diagnoses map to Condition,
measured values to Observation, medications to MedicationStatement — with
STATED status only. A code survives only when the document writes it and its
system matches the resource (SNOMED/ICD-10 for a diagnosis, LOINC for a
value, RxNorm/ATC for a medication); nothing is inferred, no value is
range-flagged, no condition is linked to a medication. Every fact carries
per-field provenance and a confidence score; a fact below the confidence
floor fails closed — it cannot be approved until the user edits it.

Routes (apiHandler + Zod + session-narrowed userId, opt-in module-gated):
- POST/GET /api/documents/inbound — upload+extract (vision or local-OCR
  text), and list. The raw document is stored encrypted at rest.
- GET/DELETE /api/documents/inbound/[id] — review detail; soft-delete.
- PATCH .../facts/[factId] — correct a staged fact before approval.
- POST .../confirm — the only write path: approved facts flow into the
  labs / conditions / medications stores through their normal create paths;
  rejected facts are discarded; low-confidence facts are refused.
2026-06-28 16:57:06 +02:00