Commit Graph
9759 Commits
Author SHA1 Message Date
Marc-André Bombeck cf7905dc92 refactor(medications): hold recurrence.ts at its size baseline 2026-11-03 20:58:46 +01:00
Marc-André Bombeck 227c80878c test: give every case its own mock state under a shuffled order
Cases leaned on what an earlier case set up or left behind: a once-value
the code under test never consumed, an implementation swapped in and
kept by clearAllMocks, a payload only another block's setup provided,
the zone resolver's per-user cache, module state in a hoisted object,
and a scope set one case discovered for the next. Each now resets or
states what it reads.
2026-11-03 20:58:38 +01:00
Marc-André Bombeck 4f7802ba28 test(browser): leave no state behind for the next case
Await the form's explicit unmount: an unmount left running overlaps the
next render's act, and React then commits nothing for the rest of the
file. Return to the newest history entry after stepping back, so the
next case's push adds an entry instead of replacing the forward one.
2026-11-03 20:58:38 +01:00
Marc-André Bombeck 54d0647a6d fix(stats): keep r² within [0, 1] when y sits far from zero
The centred sums lose their last digits when every y is close to one
large value, and a two-point fit came out at r² 1.00000004. Clamp the
ratio to 1 and the y sum of squares at 0, and pin the two shrunk
counterexamples the nightly property run found.
2026-11-03 20:58:37 +01:00
Marc-André Bombeck 270c6ca619 refactor(medications): keep the rrule start alignment in its own module
recurrence.ts sits on the source-size ratchet; the helper and its reasoning
read on their own.
2026-11-03 20:57:46 +01:00
Marc-André Bombeck d8743e9111 chore: drop the trivyignore entries for npm's bundled packages
Both covered copies inside the npm CLI of the Node base image. The
runner removes npm, so neither CVE matches anything in the image; a scan
of the built image with an empty ignore file reports neither.
2026-11-03 20:53:29 +01:00
Marc-André Bombeck 3d0ae05192 docs: say the published image renders documents on a Raspberry Pi 4
The image runs the glibc canvas build now, which needs no ARMv8.2
features, so the Pi 4 gets thumbnails and scanned-PDF rendering back
without a code change: the gate only ever closed for musl on arm64. The
gate's comment, the env example and the getting-started prerequisites
say so, and keep NATIVE_CANVAS as the override. The x64 AVX2 gate stays:
the glibc x64 build rendered a PDF page under an emulated core without
AVX2, but it still carries AVX2 code and that one run does not cover
every path.
2026-11-03 20:53:28 +01:00
Marc-André Bombeck de7858100f build: run the image on Debian trixie instead of Alpine
Every stage now starts from node:22-trixie-slim, pinned by its multi-arch
index digest, so the native modules load their glibc builds. The arm64
musl Skia build needs ARMv8.2 (LSE atomics, RCpc loads) and dies with
SIGILL on an ARMv8.0 core such as the Raspberry Pi 4's Cortex-A72; the
glibc build runs there (#1311).

The runner keeps what it had: tzdata, TZ, the build-time OS upgrade, the
nextjs user (uid 1001, now in group nodejs gid 1001), the backup and
GeoLite2 directories and every build-time assertion. pg_dump and
pg_restore of major 18 come from the PGDG apt repository, whose signing
key is fetched by node and checked against a pinned SHA-256 before apt
trusts it; PATH names the major 18 directory so the binary does not
depend on Debian's version-picking wrapper. The canvas hoist takes the
-gnu binary package by the pinned version and still fails the build on a
mismatch. bookworm-slim was the other candidate; on the day of the
switch it carried a CRITICAL zlib finding that trixie-slim does not.
2026-11-03 20:53:20 +01:00
Marc-André Bombeck 65e35761ec build: probe container health with Node's fetch instead of wget
The probe now needs nothing but the node binary the image already runs,
which frees the base image from carrying wget. The image HEALTHCHECK and
the compose healthcheck use the same one-liner: a non-2xx answer, a
refused connection or the 4 s abort exit 1, inside Docker's 5 s timeout.
The boot-storm guard reads the abort from the fetch and refuses a probe
that names wget or curl.
2026-11-03 20:53:20 +01:00
Marc-André Bombeck 775933b7d5 Merge branch 'feat/v147-dbroles' into release/v1.47.0 2026-11-03 20:52:17 +01:00
Marc-André Bombeck 3d1a6224ba test: drop vi imports the removed schema-mirror mocks left unused 2026-11-03 20:49:31 +01:00
Marc-André Bombeck df1e19f1c2 docs: describe the app's database role, its limits and how to opt out 2026-11-03 20:38:46 +01:00
Marc-André Bombeck c7ff22ab00 chore(env): whitelist DB_APP_ROLE and document it beside the database settings 2026-11-03 20:37:48 +01:00
Marc-André Bombeck 485161a657 feat(db): run the app as a role that cannot change the schema
After the migrations the entrypoint ensures healthlog_app, a login role
with row access to the app's schema, MAINTAIN on measurements and
ownership of the pgboss schema, and starts the app with a DATABASE_URL
for it in place of the owner's. The role cannot alter or drop tables,
create roles, schemas or functions in the app's schema, read server
files or run programs, or write the migration history.

The password is an HMAC of a fixed label under API_TOKEN_HMAC_KEY, so a
separate worker container derives the same one, and it is sent as a
SCRAM verifier. Every boot re-applies the grants in one transaction
under an advisory lock, and drops as the owner the indexes the
maintenance job may no longer drop. When the owner cannot create roles,
the server is older than Postgres 17, or the role cannot log in, the
boot says why and the app stays on the owner as before. DB_APP_ROLE=off
skips it.
2026-11-03 20:36:37 +01:00
Marc-André Bombeck 95525a0259 fix(jobs): let pg-boss create its schema only when it is missing
Postgres checks the database's CREATE privilege before it checks
whether the schema exists, so CREATE SCHEMA IF NOT EXISTS fails for a
role that may not create schemas even when the schema is there. The
worker now asks first and passes createSchema: false when it exists.
2026-11-03 20:32:53 +01:00
Marc-André Bombeck f05a112c61 feat(jobs): leave index drops to the owner when maintenance runs without it
DROP INDEX belongs to the table's owner; the MAINTAIN privilege covers
VACUUM and REINDEX but not the drops of retired indexes and invalid
rebuild copies. A run that does not own measurements now skips those
drops and names what is left, for the boot to drop as the owner. The
retired-index list moves to a plain module the boot script can read.
2026-11-03 20:32:53 +01:00
Marc-André Bombeck b6da360856 refactor(db): drop the runtime schema mirror
ensureDbCompatibility ran ALTER TABLE / CREATE TABLE IF NOT EXISTS on the
login, register, token and session paths, mirroring columns every
migration under prisma/migrations already creates. The entrypoint applies
those migrations before the server listens and stops the boot when one
fails, so the mirror never had work to do, and DDL on a request path
needs the table's owner: a connection that may only read and write rows
fails every login on it. Drop the module, its call sites and the mocks
that stubbed it out.
2026-11-03 20:32:35 +01:00
Marc-André Bombeck 381726f471 perf(medications): start the rrule walk just before the window
between() iterates from DTSTART, so every compliance read walked a daily
schedule from the day the medication was created: about 4 ms per rate,
growing with the medication's age, and enough under a loaded test run to
push a compliance property past its timeout. DAILY and WEEKLY rules repeat
with a fixed period, so the start moves forward by whole periods to just
before the window. A property test holds the occurrences in the window
equal to the walk from the real anchor.
2026-11-03 20:23:31 +01:00
Florian Maetschke 8643a1ab8e Note the injection-site chip in the changelog 2026-11-03 12:03:33 +01:00
Florian Maetschke a3516160c0 Share the taken/skipped chip between the two history layouts
The desktop table and the mobile cards carried the same status badge
twice. Pulling it into one component makes room for the injection-site
chip without growing the list function past its size baseline, and
the baseline tightens to the new, lower count.
2026-11-03 11:49:41 +01:00
Florian Maetschke 5aac158b12 Show the injection site in the intake history
An injected dose already stores where it went, but the per-medication
history only showed when it was taken and where the entry came from.
The list now renders the site as a chip next to the status, on the
desktop table and the mobile cards, so the rotation can be read back
from the history. Rows without a site are unchanged.
2026-11-03 11:46:07 +01:00
dependabot[bot] 540f4ff84f build(deps): bump the production-weekly group across 1 directory with 3 updates (#1329)
Bumps the production-weekly group with 3 updates in the / directory: [@aws-sdk/client-s3](https://github.com/aws/aws-sdk-js-v3/tree/HEAD/clients/client-s3), [@aws-sdk/lib-storage](https://github.com/aws/aws-sdk-js-v3/tree/HEAD/lib/lib-storage) and [@napi-rs/canvas](https://github.com/Brooooooklyn/canvas).


Updates `@aws-sdk/client-s3` from 3.1159.0 to 3.1161.0
- [Release notes](https://github.com/aws/aws-sdk-js-v3/releases)
- [Changelog](https://github.com/aws/aws-sdk-js-v3/blob/main/clients/client-s3/CHANGELOG.md)
- [Commits](https://github.com/aws/aws-sdk-js-v3/commits/v3.1161.0/clients/client-s3)

Updates `@aws-sdk/lib-storage` from 3.1159.0 to 3.1161.0
- [Release notes](https://github.com/aws/aws-sdk-js-v3/releases)
- [Changelog](https://github.com/aws/aws-sdk-js-v3/blob/main/lib/lib-storage/CHANGELOG.md)
- [Commits](https://github.com/aws/aws-sdk-js-v3/commits/v3.1161.0/lib/lib-storage)

Updates `@napi-rs/canvas` from 1.0.13 to 1.1.0
- [Release notes](https://github.com/Brooooooklyn/canvas/releases)
- [Changelog](https://github.com/Brooooooklyn/canvas/blob/main/CHANGELOG.md)
- [Commits](https://github.com/Brooooooklyn/canvas/compare/v1.0.13...v1.1.0)

---
updated-dependencies:
- dependency-name: "@aws-sdk/client-s3"
  dependency-version: 3.1161.0
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: production-weekly
- dependency-name: "@aws-sdk/lib-storage"
  dependency-version: 3.1161.0
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: production-weekly
- dependency-name: "@napi-rs/canvas"
  dependency-version: 1.1.0
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: production-weekly
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
2026-11-02 21:12:37 +00:00
l1137l c6372bde94 Merge main v1.46.6 into feat/ru-locale
- baselines: take main's entries, keep the two ru-driven line counts (coach-prose-grounding 1091, insight-generator 1115) and regenerate the function baseline.
- messages/ru.json: translate the five unit-less markers keys the release added (labs.unit.none/noneHint, labs.ocr.errorUnitMismatchNoUnit, labs.ocr.unitDiffersBadgeNoUnit, recordImport.unitlessHint) — parity is 11 159 keys again.
2026-11-02 21:07:44 +00:00
Marc-André Bombeck 2c8140a502 Merge pull request #1328 from MBombeck/release/v1.46.6
release: v1.46.6
v1.46.6
2026-11-02 21:39:10 +01:00
Marc-André Bombeck 1bde3fc618 chore: drop exports nothing imports
knip 6.44 follows the members a dynamic import reads, and the Insights
page reads two of the derived barrel's: the barrel now exports those two,
whose building blocks are imported from their own modules. BAND_VAR had
no reader, and the drawer re-exported useResettableValue for a test that
only imports nextResettableValue. The size and version-stamp baselines
take the lower numbers.
2026-11-02 21:22:16 +01:00
l1137l 48bfbad4e6 fix(i18n): address the ru review — units, Cyrillic regexes, locale registry
Dose bank
- DRUG_UNIT learns мг / мкг / мл / ЕД / МЕ, so "2,4 мг" anchors a dose again.
- The bank matches verb-first Russian word order too ("принимайте 2 таблетки",
  "пропустите дозу метформина", "начните с 5 мг"), and the Cyrillic drug names
  people actually see on the box; the deferral words ("спросите врача",
  "как назначено") stand those shapes down.

Cyrillic-safe regexes
- \w and \b are ASCII in JavaScript: every stem in the ru bank and in
  population-norms/ru.ts is [а-яё]*, and the word edges are lookarounds
  (?<![а-яёa-z]), so «высокий риск» and «нормальный диапазон» match again.
- coach-prose-grounding: Russian month names in the genitive, a space as the
  thousands separator in parseLocaleNumber and numFrag, and Cyrillic-safe
  edges around the written-date pattern.

Registered everywhere a locale has to be
- targetLanguageName() returns "Russian", so the coach, the period narrative
  and the document descriptions stop saying "write in English".
- i18n-key-tool.mjs, split-description.mjs, LOINC name normalisation (it
  stripped Cyrillic, so no Russian lab name resolved), HOST_TLDS (ru/by/kz/ua),
  no-key-fallbacks (32 tables), country-label, the AUDIT-C standard drink.
- docs/api/openapi.yaml regenerated.

Questionnaires
- The PHQ-9 / GAD-7 source comments no longer claim no validated Russian
  version exists (Zolotareva 2023; Pfizer's official screeners).
- WHO-5 items are gender-neutral: «чувствовал(а)».
- "body fat" and "fat mass" both read «Жировая масса»; body fat is now
  «Процент жировой массы», which is what the two metrics measure.

Tests
- ru in the 13 locale tables, plus mood, onboarding, instruments, clinician
  view, status summary, describe screen, citation coverage and LOINC.
- i18n-no-dot-separator: the ru bundle is exempt from the dash rule (a spaced
  dash is Russian punctuation, not a fragment join); the middle dot still
  fails there.
- Two 800-line baselines raised by the 12 and 5 lines this change adds.

pnpm typecheck, pnpm openapi:check and the full suite (36 316 tests) pass.
2026-11-02 20:22:03 +00:00
Marc-André Bombeck 94da0bc352 test: tighten the version-stamp baseline for the review row 2026-11-02 20:58:15 +01:00
Marc-André Bombeck 165120e845 chore(release): v1.46.6 2026-11-02 20:52:22 +01:00
Marc-André Bombeck 49a0eb92ff fix(labs): word a value without a unit the same on every remaining surface
The briefing's lab input passed the stored "1" to the model, the unit
mismatch refusal read "is in 1", and the trend card left a gap where a
language puts the unit before a particle. get_labs says that a value
without a unit has an empty unit, and a lab link id is scrubbed like its
label. The review row is back at its baseline length.
2026-11-02 20:52:18 +01:00
Marc-André Bombeck 6a8ac98613 fix(labs): let a unit typed key by key pass through "1"
The no-unit state was read from the value, so the first keystroke of
10^9/L or 1/min ticked the box and locked the field. Only the box makes
the choice now; a typed 1 stays text.
2026-11-02 20:52:17 +01:00
Marc-André Bombeck 70cc753c49 Merge branch 'fix/pdf-unicode-font' into release/v1.46.6 2026-11-02 20:38:27 +01:00
Marc-André Bombeck ee0adae99c test(doctor-report): read the font guard's files through readSource 2026-11-02 20:36:16 +01:00
Marc-André Bombeck 0115a02d22 fix(doctor-report): draw the PDF in an embedded Unicode font
Helvetica's WinAnsi encoding turned every glyph outside Latin-1 into an
empty box: a Polish report lost its diacritics, a Korean report was
unreadable, and free text in any other script broke in every locale.

The renderer now registers the embedded ReportSans family on each
document, names it in every setFont, and makes it the autoTable default.
The Hangul variant is read only when the report is Korean or its data
contains Hangul. Font files are cached per process; streams are
compressed so the subset fonts add about 30 KB to a report.

The arrows, superscripts and comparison signs now print as themselves,
so the WinAnsi sanitiser and its ASCII fallbacks are gone. Tests render
Polish, Russian and Korean strings and arrows and read them back out of
the text layer.
2026-11-02 20:32:17 +01:00
Marc-André Bombeck 80a62afbbf build(pdf): add Unicode fonts for the doctor report
The report's built-in Helvetica is WinAnsi-only. These fonts cover what
the report can carry: ReportSans (Noto Sans plus the arrows and
mathematical operators of Noto Sans Math; Latin incl. Extended-A/B,
Greek, Cyrillic) in regular, bold and italic, and ReportSansKR, the same
plus Hangul from Noto Sans KR, in regular and bold.

scripts/build-pdf-fonts.py rebuilds them from the upstream sources. All
are SIL OFL 1.1; the licence sits beside the files. The directory is
named in outputFileTracingIncludes because the renderer reads the files
by a path the tracer cannot follow.
2026-11-02 20:32:11 +01:00
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 2c6fb82326 Merge branch 'feat/unitless' into release/v1.46.6 2026-11-02 20:30:41 +01:00
Marc-André Bombeck e605fe0ae8 docs(api): describe the dimensionless lab unit on every lab unit field
The unit on lab results, biomarkers, the scanned-report commit and the
document fact edit now states that "1" means the value has no unit, that
it matches only itself, and that an empty unit stays refused. The lab CSV
import description names the 1 in the unit column.

Refs #1313
2026-11-02 20:28:35 +01:00
Marc-André Bombeck f9431da64f feat(labs): show a value without a unit as the number alone
Every place a lab unit is printed beside a value now goes through one
helper, so a reading stored in "1" reads "3.6" and not "3.6 1": the
list, history and detail, the chart and its tooltips, the reference bar
and range notes, the trend card, the timeline, the day view, the
clinician page, the doctor-report PDF and the changes card. Where the
unit stands alone (a marker's subtitle, a picker row, the merge preview)
it reads "No unit".

The Coach's lab block, the get_labs history and the visit-prep summary
hand the model an empty unit for such a value, so it never quotes the
"1" either.

Refs #1313
2026-11-02 20:28:34 +01:00
Marc-André Bombeck 5405ce053d feat(fhir): code a lab value without a unit as the UCUM unity
A value stored with unit "1" carries system and code on its quantity
even when the analyte map knows no coding for it: the unity is UCUM by
definition.

Refs #1313
2026-11-02 20:28:34 +01:00
Marc-André Bombeck 79ac5670c7 feat(labs): offer an explicit no-unit choice for ratios and indices
A ratio (cholesterol/HDL, albumin/globulin) or an index such as INR has
no unit, and every lab write path refuses a numeric value without one.
That refusal stays: an empty unit usually means the extraction dropped
it. Instead the value is stored as the UCUM unity "1", chosen on purpose.

The unit field when a marker is defined, on a scanned report's row and
in the document review edit now carries a "No unit" checkbox that sets
"1". The CSV import takes 1 in the unit column, as the template and the
import sheet say; an empty cell is still refused, and other spellings
such as "ratio" or "-" stay the literal unit they always were.

"1" compares as a unit of its own: it matches only itself, so it is
refused under a marker kept in mg/dL and the other way round.

Refs #1313
2026-11-02 20:28:23 +01:00
Marc-André Bombeck cae6edec64 Merge branch 'feat/mcp-links' into release/v1.46.6 2026-11-02 20:25:04 +01:00
Marc-André Bombeck 5f9c8461a3 test(mcp): pin record links against Postgres
Source system and id without the address, the Documents switch, the empty
answer, the cap, document links to labs and medications, row ids, and that
another account's document never appears, not even through a link row that
points across accounts.
2026-11-02 20:24:28 +01:00
Marc-André Bombeck 34302867aa feat(mcp): list links on lab and medication reads, ids on visit and condition rows
get_labs readings (the latest, earlier values in full, trajectory readings)
carry the fetch ids of what they link to, with linksTruncated; each linked
record is described once per answer in linkedRecords, because one report
usually holds a whole panel and would otherwise repeat on every reading.
fetch lab: and fetch med: list their links like the other record kinds, and
get_medication_schedule rows carry their id and links inline. get_visits and
get_illness_recovery rows carry visit: and condition: ids, so a row's links
are one fetch away. The labs and illness blocks gain an opt-in to carry row
ids; the Coach never asks for them.
2026-11-02 20:24:28 +01:00
Marc-André Bombeck ea7c6c860e feat(mcp): share one record-link builder and list labs and medications on a document
The links fetch lists beside a visit, condition, document or vaccination move
out of record-search into record-links, so the lab and medication reads can
list theirs through the same builder. A linked document imported from
Paperless-ngx or Papra now names its source system and its id there, never
the instance address. fetch document: also lists the lab results read from
it and the medications filed against it, each behind its own module.
2026-11-02 20:24:27 +01:00
Marc-André Bombeck a2ce11fec4 Merge pull request #1327 from johnnyrepo026/fix/review-edit-failed-rows
fix(documents): offer the edit control on review rows whose save was refused
2026-11-02 20:15:16 +01:00
Marc-André Bombeck 7dfc2cbbea test(series): follow the hour bucket into the route mock and the dated-fixture guard
The route test recognised the bucket statement by its old GROUP BY
column, and the new fall-back-night test reads from a fixed date, which
the dated-fixture guard now allowlists with its reason.
2026-11-02 20:14:18 +01:00
Marc-André Bombeck e7c625cab7 chore(deps): next 16.4.3 and the weekly dependency updates
Folds the open dependency updates into one change: next,
@next/bundle-analyzer and eslint-config-next 16.4.3, the production
group (aws-sdk, MCP SDK, node-apn, TanStack Query and Virtual, dotenv,
jose, lucide-react, nodemailer) and the development group (Stryker,
@types/node, knip, shadcn). The runtime prisma install in the Dockerfile
pins dotenv in step with the app.
2026-11-02 20:10:38 +01:00
Marc-André Bombeck 0810285061 fix(series): keep the repeated hour of a fall-back night apart
The hour grain of the dense series read truncated the local wall clock,
so the hour a fall-back night runs twice folded both instances into one
bucket: on that day a sensor stream showed one mean for two hours of
readings. An hour bucket now starts at the reading's instant less its
local minutes and seconds, which keeps the two hours apart and still
starts a half-hour zone's buckets on the half hour.

The new integration test pins a New York fall-back night and a
half-hour zone to fixed dates, so the case runs every day instead of
only when the rolling window of the existing tests covers one.
2026-11-02 20:06:15 +01:00
johnnyrepo026 e3aae483b0 fix(documents): offer the edit control on review rows whose save was refused
A confident lab value that Finish review refused (no unit, or a unit that disagrees with the marker) showed the reason but no way to act on it, so it could only be discarded. The Check control now also opens on a row with a commit failure, not only on a low-confidence one.

FactRow grows by one line (the data-slot the new test finds the control by), so its size baseline moves from 262 to 263.

Refs #1313
2026-11-02 12:21:37 -06:00
l1137l 6b9d222643 feat(i18n): add Russian (ru) locale
Full Russian catalog (11,154 keys, 1:1 with en, identical nesting) and every
locale wiring point the app declares, so ru is a first-class locale instead
of an English fallback:

- messages/ru.json, project.inlang/settings.json, i18n boot script
- i18n config / load-locale, format-locale (ru-RU), date-fns ru
- labs: parse-reference-range RANGE_PROSE for Russian lab sheets
  ("3,5 - 5,0", "от 3,5 до 5,0", "до 5,6", "не более 5,6")
- AI: citation-coverage normative stems, coach system prompt and insights
  reply footer (Russian prompts must override the hard-coded
  "Respond in English"), population-norm patterns
- safety: outbound-screen Russian imperative/dose/unit/causality bank
- mental health: PHQ-9, GAD-7, WHO-5 and SCI wording

verify-message-catalogs.mjs passes for all 10 locales.
2026-11-01 17:11:31 +00:00