@cosyte/terminology 0.0.1 → 0.0.2
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- package/CHANGELOG.md +198 -7
- package/README.md +84 -24
- package/dist/index.cjs +66 -26
- package/dist/index.cjs.map +1 -1
- package/dist/index.d.cts +329 -184
- package/dist/index.d.ts +329 -184
- package/dist/index.mjs +66 -27
- package/dist/index.mjs.map +1 -1
- package/package.json +8 -6
- package/vendor/ucum/NOTICE.md +48 -0
package/CHANGELOG.md
CHANGED
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@@ -9,8 +9,202 @@ this file is maintained by hand (Changesets handles the version bump and publish
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## [Unreleased]
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-
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-
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### Fixed
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- **The package claimed to bundle no copyrighted content while bundling the UCUM table, and its
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attribution never reached the tarball** (`TERMINOLOGY-LICENSING-ACCURACY`). Four statements shipped
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in `0.0.1`, live on the registry and on docs.cosyte.com, that the tree falsifies:
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1. the unscoped "**zero copyrighted terminology content is bundled**" claim (README, the JSDoc
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compiled into `dist/index.d.ts` / `dist/index.d.cts`, and four `docs-content/` pages) is
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falsified by `ucum-essence.xml` — copyright Regenstrief Institute, Inc. — being embedded
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byte-for-byte in `dist/index.mjs` and `dist/index.cjs`. The vendored XML carries no copyright
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line of its own, so the shipped copy asserted nothing;
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2. `vendor/ucum/NOTICE.md` was **absent from `package.json`'s `files`**, so the attribution never
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reached a consumer and the README pointed at a file the package did not contain. Measured by
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packing the base tree: 10 files, no `NOTICE.md`;
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3. `src/crosswalk/categories.ts` bundles four SNOMED CT map-category concepts — id **and** steward
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description — in the same doc comment that said "no SNOMED CT content is bundled";
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4. the README listed **LOINC** among "public-domain content packs" one line before listing it as
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copyrighted, and listed **UCUM** among packs that "are not bundled" while bundling it.
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Founder call 2026-07-29: keep the bundled table, make the claim true. Every consumer surface now
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says **"no code-system release is bundled"** and then names what is: the UCUM unit table
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(`ucum-essence.xml` v2.2, copyright ©1999–2024 Regenstrief Institute, Inc., verbatim under the UCUM
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Copyright Notice and License, with its warranty disclaimer), the code-system identity pairings, and
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the SNOMED CT concepts the crosswalk resolver names — the four map-category concepts **and** the two
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gender findings (`248152002` / `248153007`) a gender `IFA` rule is written against, each with its
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description (copyright © International Health Terminology Standards Development Organisation).
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`vendor/ucum/NOTICE.md` is now in `files` and the packed tarball carries it, which also repairs the
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dangling README pointer. On the README, the declaration files and the docs intro the list is written
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as **open** ("includes the following"); a draft instead called it "three things … exact rather than
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approximate", and that self-certification was falsified from `dist` in one grep by the gender
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findings it had missed.
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The README and the `src/` doc comments were corrected **together** and the built declaration files
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read back, because fixing one and not the other is what made the previous attempt contradict itself
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and forced a revert to base. Legal conclusions were **cut** rather than reworded, measured on the
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base across `README.md`, `docs-content/`, `src/` and `vendor/`: **"license-clean" ×5**
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(`src/codesystem/fhir.ts`, `src/codesystem/load.ts`, `src/codesystem/types.ts`,
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`src/valueset/types.ts`, `vendor/ucum/NOTICE.md`) and a **permitted-use assertion ×2**
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(`src/ucum/essence.ts`, `vendor/ucum/NOTICE.md`). All seven are now zero. The docs state what is
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distributed and under whose copyright, and say plainly that this is not legal advice. The gate's own
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tarball
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drift tripwire caught the new public surface: `vendor/ucum/NOTICE.md` is now scanned by
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`check:no-internal-refs`, and the internal roadmap citation it carried was removed before it shipped.
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No runtime behaviour changes.
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- **A RxNorm concept could load under a term type it does not have.** `loadRxNormGraph` recognized 18
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of RxNorm's term types and typed each concept from whichever recognized `RXNCONSO` atom appeared
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first in the file. Five real term types were not among the 18 (`SCDF`, `SBDF`, `SCDFP`, `SBDFP`,
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`SCDGP`, two of which this package's own documentation already named as subjects of authored
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`has_ingredient` rows), and `PSN` / `SY` / `TMSY` were, so a drug of an unrecognized type that also
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carried a synonym atom loaded under the **synonym's** term type instead of being skipped. `RXCUI`
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370659, the `SCDF` "hydroxyzine Oral Tablet", loaded as a Tall Man Lettering synonym with no
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warning, and then answered navigation queries under that type. The failure did not need an
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unrecognized type: any concept whose synonym atom preceded its defining one was mislabelled the
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same way, including an ordinary `SCD`.
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Both halves are fixed together, because either alone leaves the class open. The term-type
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vocabulary now carries all of RxNorm's, each under its published name, and `BPCK` reads "Brand Name
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Pack" as the NLM writes it. And a concept is now typed by a **defining** atom wherever that sits in
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the file: the NLM defines `PSN` / `SY` / `TMSY` as a "synonym of another TTY", so they type a name
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rather than a concept and can no longer establish one. An `RXCUI` that no defining atom could type
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is left out of the graph and reported as a new `TERM_RXNORM_UNTYPED_CONCEPT` warning, which also
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covers concepts that were previously dropped in silence. Refusing is the safer direction: an absent
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concept is already a first-class typed answer, while a concept whose term type reads `TMSY` is a
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fabricated claim about what a drug is, and a caller cannot tell it from a real one.
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`ingredientsOf` keeps its contract exactly: it follows authored edges only and synthesizes nothing.
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Concepts of the five restored types now load, so they answer with the `has_ingredient` rows their
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release really carries, and the reference now records what those are, verified per relation rather
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than inferred from a sibling: an `SCDF` reaches the ingredient `IN`, an `SBDF` reaches the **brand
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name** rather than the active ingredient, and the precise forms carry no ingredient edge at all.
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An `SCDFP` instead reaches its basis-of-strength substances by `has_boss`, a one-to-many relation
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whose targets can be precise ingredients or plain ingredients, and which `ingredientsOf`
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deliberately does not follow. Also exports `isSynonymTermType`.
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- **The documented RxNorm ingredient topology now matches the one RxNorm authors.** The package's
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own documentation taught an edge that does not exist. The API reference for `ingredientsOf`, the
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RxNorm type and guide overviews, the quickstart, the concepts guide, the README and the loader's
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worked example all modelled a clinical drug linking straight to its ingredient (`SCD
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has_ingredient IN`). RxNorm authors no such relationship in any release: the ingredient edge is
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authored on the components and dose-form concepts around the clinical drug rather than on the drug
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itself, a branded concept's own ingredient edge lands on its **brand name** rather than on the
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active ingredient, and `IN ingredient_of` reaches those components rather than the drug. Because
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the reference text ships inside the type declarations, an installed copy of the package was
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teaching it too, and `ingredientsOf` on a clinical drug returning nothing read as a gap in the
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engine rather than as the honest answer it is. Those places now state the authored topology, and
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it is stated as the pairings RxNorm authors rather than as a closed set: the clinical side
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(`SCDC`/`SCDF`/`SCDG`) reaches the `IN`, the branded side (`SBD`/`SBDC`/`SBDF`/`SBDG`) reaches the
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`BN`, and the reader is told to check the term type that comes back. They also spell out how to
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reach an _active_ ingredient, which is not the same walk from a clinical drug as from a branded
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one: an `SBD`'s `consists_of` returns its branded component as well as the clinical one, and only
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the clinical one leads to the `IN`. The quickstart carries new executable examples of both
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traversals, so the guidance is checked against the shipped code rather than asserted in prose.
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Behaviour is unchanged: no loader, navigation or resolution result differs.
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- **The npm description described a different package.** `@cosyte/terminology` shipped to the
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registry describing itself as a "Terminology parser, serializer, and builder ... lenient on parse,
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spec-clean on emit" - unmodified scaffold boilerplate, still in use by the packages that really
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are parsers. This one is explicitly **not** a parser, mirrors the FHIR Terminology Module rather
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than a parser API, and has neither a serializer nor a builder. The most-read line of a published
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package therefore named three things it does not have and omitted what it does. The description
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and the `parser` / `serializer` keywords now say what the engine is and what it operates over.
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- **`VERSION` now reports the version you actually installed.** `@cosyte/terminology@0.0.1` shipped
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exporting `VERSION === "0.0.0"`: `package.json` was bumped by Changesets, the constant in the source
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was not. `docs-content/installation.md` documents printing exactly that constant as the install smoke
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test, so the one check an installer is told to run was the one that lied. The constant now reads
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`0.0.1`, and it can no longer drift: the release `version` script rewrites it from `package.json`, and
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a test compares the two, so a skipped sync fails the build instead of publishing.
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- **Docs stated the wrong publish status in five places.** The README status block, the README install
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note, `docs-content/intro.md`, `docs-content/installation.md`, and the project guide all said
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`@cosyte/terminology` was "not yet published to npm" and told readers to consume it from source or a
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workspace link. It has been on npm since `0.0.1`. All five now say the package is published, and
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deliberately do not name a version: a version literal in prose is the same drift this release just
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built a machine guard against, and the registry is the authority. (The historical `[0.0.1]` entry
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below is left as written: it records what the docs said at the time, hours before the release
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landed.)
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### Changed
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- **Internal project bookkeeping is gone from every surface a consumer reads, and a gate now keeps
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it out.** Per the founder directive of 2026-07-27, what a consumer reads says what the software
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does and what changed; item identifiers, phase and roadmap-section language, ADR numbers and
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meta-repo paths belong in this file, the changeset, the commit and the roadmap. Measured on
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`1158f96` with the final rule set: the public markdown carried 10 lines across four
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`docs-content/` pages, `src/` doc comments produced 154 gate hits across 28 of the 38 source
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files (91 from the line pass and 63 from the paragraph-reflow pass, which re-reports all but one
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of the same places), and the npm `description`/`keywords` and `src/` string literals carried
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none. The doc comments are the
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surface that matters most and the one no docs review looks at: they compile verbatim into
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`dist/index.d.ts` and `dist/index.d.cts`, so **89 lines of the published declaration files**
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carried this text into every consumer's editor. All are now zero.
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Two shapes no rule catches were cleared by hand, and they are recorded as places rather than as a
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count: clause-terminal uses of "phase" (in the README, the troubleshooting page, and the
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concept-map, crosswalk, module and RxNorm reference docs), and two bare roadmap-section citations
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written without the word "roadmap" next to them. **A zero from a rule set is not a zero**, which
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is why the by-hand half is stated at all.
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Two statements were **restated rather than deleted**, because removing the planning pointer alone
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would have widened each into a capability the code does not provide: subsumption is documented as
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not computed across two separate releases (it reads the loaded system's own `parent` edges), and
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the `ICD10CM_ORDER_FILE_FIELDS` preset is documented as not confirmed against an authoritative
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machine-readable source. The NLM RxNorm Technical Documentation citations were
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deliberately left standing: they are the normative grounding for the `RXNREL` edge-direction
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convention, and a rule keyed on `§` alone would have deleted the reference a consumer needs in
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order to check that direction. A self-test now asserts that no rule matches them, so closing that
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gap has to be a decision.
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- **`pnpm check:no-internal-refs` is a new repository gate, and it runs in its own CI job.** It
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scans `README.md`, `LICENSE`, `docs-content/`, the npm `description` and `keywords`, `src/` doc
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comments and `src/` string literals, line by line and paragraph-joined, and refuses to report
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green from a scan that did not read all of its input. It deliberately does **not** scan
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`CHANGELOG.md`, `.changeset/`, `CLAUDE.md` or `//` comments, which is where the identifiers
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belong. Its rules key on known project prefixes and never on the `WORD-N` shape: measured here, a
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shape rule matches 89 hyphenated uppercase tokens on this tree and **all 89 are the consumer's
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reference material** (`ICD-10-CM`, `ICD-9`, `RFC-4180`, and the UCUM expressions `OHM-1`, `CM-1`
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and `KG-1.S-2`, which are units with negative exponents), while the prefix-keyed rule matches
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none. Negative self-tests pin that, so a later simplification reds instead of silently deleting a
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code system's identifier from a terminology engine's documentation. One rule diverges from the
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sibling copies on the same reasoning: the "unit of work" rule no longer keys on "the", because a
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fixed-width order file's **field slice** is this package's public API and the sibling pattern was
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wrong eight times out of nine here.
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- **The RxNorm drug graph's edge direction is now pinned by tests in both directions.** RxNorm
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relationships are directional, and reading one backwards is a wrong-medication defect rather than a
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cosmetic one: the ingredient of a tablet would come back as a tablet that is an "ingredient of" its
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own ingredient, and the generic behind a brand would come back as the brand behind a generic. The
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convention is now pinned per relation family (ingredient, tradename, dose form, components and
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packs), forward and reverse, against the sample relationship rows published in the RxNorm technical
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documentation, so an inverted reading cannot pass by trading one assertion for another. The pinned
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fixtures follow the topology RxNorm actually authors, including the two places it surprises people:
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a clinical drug carries no direct ingredient edge (the ingredient is reached through its
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component), and a branded drug's direct ingredient edge points at its brand name. Behaviour is
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unchanged: the loader and the navigation surface answer exactly as they did before.
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- **`VERSION` is declared `string` rather than the version literal.** Its emitted type was previously
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narrowed to the exact release string, so every version bump was a `.d.ts` change and code comparing
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`VERSION` against another string could be rejected by the type checker. Widening it makes the
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declared type stable across releases. Runtime value is unchanged.
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### Security
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- **The CI checks that run on a pull request now block the merge.** Until now `@cosyte/terminology`
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had no branch-protection ruleset at all, so `ci` (typecheck, lint, format, PHI scan, tests, coverage
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gate, build, `attw`, dual ESM/CJS smoke) and CodeQL could all go red and the merge would still land
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on `main`, and `main` publishes. A repository ruleset now requires those checks, restricted to the
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GitHub Actions app so a status of the same name cannot be posted by anything else, and blocks branch
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deletion and force-push on `main`. Scope of the claim: this makes a red check binding, it does not
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make a check correct, and nothing inside this repository can observe the ruleset. See the note in
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`.github/workflows/ci.yml` before splitting a required job.
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- **Dependency updates are now watched.** The repository had no Dependabot configuration, so its zero
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open update PRs meant nothing was looking, not that nothing was stale.
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## [0.0.1] - 2026-07-21
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The first pre-alpha release. The package begins its public history at `0.0.x`, per the cosyte version
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ladder (`0.0.x` until first alpha).
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### Security
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`WARNING_CODES` entry, and the parse-oriented option/warning types). This package is an engine, not
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a parser; that placeholder surface never shipped.
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### Security
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[Unreleased]: https://github.com/cosyte/terminology/commits/main
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[Unreleased]: https://github.com/cosyte/terminology/compare/v0.0.1...HEAD
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[0.0.1]: https://github.com/cosyte/terminology/releases/tag/v0.0.1
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package/README.md
CHANGED
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`@cosyte/terminology` is **not a wire parser**. It mirrors the FHIR **Terminology Module**
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(`$translate`, `$lookup`, `$validate-code`, `$expand`, …), operating over **consumer-supplied** FHIR
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resources. It is the sibling engine `@cosyte/transform` and, later, the parsers' code-system
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recognition consume. It ships the **engine,
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recognition consume. It ships the **engine, and no code-system release** — SNOMED CT, CPT, LOINC,
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UMLS/RxNorm, and VSAC value sets are strictly bring-your-own. It is not content-free, though: what it
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_does_ bundle — the UCUM unit table, the code-system _identities_ (OID ↔ canonical URI), and the
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SNOMED CT concepts the crosswalk resolver names — is listed with its copyright under
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[What is bundled](#what-is-bundled).
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> **Status:** pre-alpha (`0.0.x`), **published on npm.** The **engine is complete** — every
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> operation below ships today. The surface:
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>
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> - the code-system **identity resolver** (`resolveSystem`) and the ConceptMap **`$translate`** engine
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> (`loadConceptMap` / `translate`);
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@@ -23,22 +25,23 @@ canonical URI) are published facts, grounded firsthand and encoded.
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> magnitude conversion**) — the official UCUM functional-test suite is the conformance gate;
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> - the **crosswalk resolvers** — the CMS **ICD-9↔ICD-10 GEMs** (`loadGems` / `applyGem`,
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> public-domain) and the NLM **SNOMED CT → ICD-10-CM complex map** (`loadComplexMap` /
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> `applyComplexMap`, BYO —
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> `applyComplexMap`, BYO — no SNOMED CT refset bundled), never inverted;
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> - the **RxNorm drug graph** (`loadRxNormGraph` + `ingredientsOf` / `genericFor` / `brandsFor` /
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> `doseFormsOf` / `consistsOf` / `resolveNdc` / `approximateMatch`) over a **BYO** RxNorm RRF release,
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> edges read in RxNorm's documented direction and never inverted, an absent `RXCUI`/NDC typed, never
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> fabricated.
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>
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> **Bring your own data.** The engine is whole; **no code-system
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>
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>
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-
>
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> **Bring your own data.** The engine is whole; **no code-system release is bundled.** It runs over
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> the FHIR resources and standard releases _you_ supply — SNOMED CT, CPT, LOINC, UMLS/RxNorm, the CMS
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> GEM files, the NLM complex-map refset and VSAC value sets are all bring-your-own, under whatever
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> terms their steward sets. The content packs that would change that (RxNorm Prescribable, ICD-10-CM)
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> are not bundled either. For the things that **are** bundled, and under whose copyright, see
|
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> [What is bundled](#what-is-bundled).
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## Install
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> **
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-
>
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> **On npm.** `@cosyte/terminology` is **published**, on the pre-alpha `0.0.x` ladder. The command
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> below installs the real package; the registry, not this page, is the authority on the exact version.
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```bash
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npm install @cosyte/terminology
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@@ -111,9 +114,12 @@ ucumEqual("mg", "g"); // false — different units (this is not conversion)
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ucumEqual("Cel", "K"); // false — a special (non-linear) unit is never equated with a linear one
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```
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The UCUM table is the official `ucum-essence.xml
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-
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-
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The UCUM table is the official `ucum-essence.xml` (version 2.2), and it **is bundled with this
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package** — embedded verbatim in the published build and parsed at runtime. It is copyright
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©1999–2024 Regenstrief Institute, Inc., reproduced under the UCUM Copyright Notice and License
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(<https://ucum.org/license>); the engine ships no derivative of it and passes the official UCUM
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functional-test suite. The full notice ships in the package at `vendor/ucum/NOTICE.md` — see
|
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[What is bundled](#what-is-bundled).
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> **Case-sensitive (c/s) mode only.** UCUM's normative interchange mode — the one FHIR/HL7 bind to —
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> is case-sensitive (`m` = metre, `M` = mega, `Pa` = pascal, `pA` = picoampere). The
|
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@@ -128,8 +134,34 @@ dose-form graph. Relationships are read in RxNorm's documented direction (`RELA`
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the **second** `RXCUI` has to the **first**); navigation follows only authored edges — the engine
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never synthesizes an inverse, and never fabricates a concept, edge, or NDC.
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Authored edges only means the graph you get is RxNorm's, including where its shape surprises you.
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`has_ingredient` is authored from the **clinical** side (`SCDC`/`SCDF`/`SCDG`) to the ingredient
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`IN`, and from the **branded** side (`SBD`/`SBDC`/`SBDF`/`SBDG`) to the **brand name** `BN` rather
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than to the active ingredient. RxNorm authors no ingredient edge on a clinical drug (`SCD`) at all,
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+
so that query answers with an honest empty set rather than a guess. To reach an active ingredient,
|
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walk to the **clinical** component and take its edge: `consistsOf` then `ingredientsOf`. From an
|
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`SBD`, `consistsOf` returns both its branded component (`SBDC`, whose ingredient edge is the brand
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+
name again) and the clinical `SCDC`; it is the `SCDC` that leads to the `IN`. The **precise** forms
|
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+
(`SCDFP`, `SBDFP`, `SCDGP`) carry no ingredient edge at all: an `SCDFP` instead reaches its
|
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|
+
basis-of-strength substances by `has_boss`, a one-to-many relation with a different meaning whose
|
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|
+
targets can be a `PIN` or a plain `IN`, and which `ingredientsOf` does not follow. Read the `tty` of
|
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what comes back rather than assuming it.
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+
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A concept is typed by its **defining** atom, whichever line of `RXNCONSO` that sits on. `PSN`, `SY`
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+
and `TMSY` type a _name_ rather than a concept, so they never establish an `RXCUI`'s term type. An
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`RXCUI` no defining atom could type is left out of the graph and reported as
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`TERM_RXNORM_UNTYPED_CONCEPT` on `graph.warnings`, rather than loaded under a synonym's term type:
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a concept that answers with a term type it does not have is a fabricated claim about a drug, and
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this engine refuses instead.
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+
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```ts
|
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-
import {
|
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+
import {
|
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+
loadRxNormGraph,
|
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ingredientsOf,
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+
consistsOf,
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genericFor,
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resolveNdc,
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+
} from "@cosyte/terminology";
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const graph = loadRxNormGraph({
|
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conso: rxnconsoRrf,
|
|
@@ -138,14 +170,16 @@ const graph = loadRxNormGraph({
|
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version: "RXNORM_2026AA",
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|
});
|
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|
|
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-
ingredientsOf(graph, "
|
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-
|
|
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|
+
ingredientsOf(graph, "316151"); // an SCDC → { found: true, targets: [ { rxcui: "29046", tty: "IN", name: "lisinopril", … } ] }
|
|
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|
+
ingredientsOf(graph, "314076"); // an SCD → { found: true, targets: [] }, because no such edge is authored
|
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|
+
consistsOf(graph, "314076"); // → the SCDC, the first of the two hops to the ingredient
|
|
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|
+
genericFor(graph, "104377"); // an SBD → its SCD, via the authored tradename_of edge
|
|
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|
resolveNdc(graph, "00000000001"); // { resolved: true, rxcui: "314076", status: "active", asOf: "RXNORM_2026AA" }
|
|
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|
ingredientsOf(graph, "99999999"); // { found: false, code: "TERM_RXNORM_UNKNOWN_RXCUI" } — never a guess
|
|
145
179
|
```
|
|
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180
|
|
|
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181
|
The engine ships **no** RxNorm content — you supply the release (the public-domain Current Prescribable
|
|
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-
Content subset, or the full BYO release).
|
|
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|
+
Content subset, or the full BYO release).
|
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|
|
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## The invariants this engine is built on
|
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185
|
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@@ -154,8 +188,9 @@ Content subset, or the full BYO release). Bundling the public-domain pack is a l
|
|
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|
`unknown`, never a guessed URI.
|
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189
|
- **Never invert.** A directional map is read in its authored direction only; reverse translation
|
|
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|
needs an explicit inverse map, never a mechanical inversion.
|
|
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|
-
- **BYO data, engine-only.**
|
|
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|
-
|
|
191
|
+
- **BYO data, engine-only.** No code-system release is bundled (a licensing wall, not a gap); the
|
|
192
|
+
engine operates over your own FHIR resources. The UCUM unit table and the two identity sets that
|
|
193
|
+
**are** bundled are named, with their copyright, under [What is bundled](#what-is-bundled).
|
|
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194
|
- **Liberal load, conservative assertion.** Malformed input degrades to a typed diagnostic; a 1:many
|
|
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|
mapping returns the full candidate set, never collapsed to one.
|
|
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196
|
- **Value-free diagnostics.** A diagnostic carries a code + system + version, never patient context —
|
|
@@ -163,6 +198,31 @@ Content subset, or the full BYO release). Bundling the public-domain pack is a l
|
|
|
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|
- **Zero runtime dependencies. Dual ESM + CJS.** Node stdlib only; built with `tsup`, validated with
|
|
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|
`attw`. Immutable by construction (every returned value is deep-frozen).
|
|
165
200
|
|
|
201
|
+
## What is bundled
|
|
202
|
+
|
|
203
|
+
The engine bundles **no code-system release**. What it _does_ bundle includes the following, named
|
|
204
|
+
with its copyright:
|
|
205
|
+
|
|
206
|
+
- **The UCUM unit table** — `ucum-essence.xml`, version 2.2, revision-date 2024-06-17. The Unified
|
|
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|
+
Code for Units of Measure (UCUM) is copyright ©1999–2024 Regenstrief Institute, Inc., all rights
|
|
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|
+
reserved, and is reproduced **verbatim** under the UCUM Copyright Notice and License
|
|
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|
+
(<https://ucum.org/license>). It is embedded byte-for-byte in the published build and parsed at
|
|
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|
+
runtime; no modified or derivative copy is distributed. The UCUM Specification is provided "as is"
|
|
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|
+
**without warranty of any kind** — see the License for the full disclaimer. The complete notice
|
|
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|
+
ships with this package at `vendor/ucum/NOTICE.md`.
|
|
213
|
+
- **Code-system identity facts** — the OID ↔ canonical-URI pairings (`SYSTEM_IDENTITIES`). These
|
|
214
|
+
identify the systems; they are not any system's code list.
|
|
215
|
+
- **The SNOMED CT concepts the crosswalk resolver names**, each with its description: the four
|
|
216
|
+
map-category concepts in `MAP_CATEGORIES` (`447637006`, `447638001`, `447639009`, `447640006`) that
|
|
217
|
+
a complex-map row's `mapCategoryId` refers to, and the two gender findings (`248152002` Female,
|
|
218
|
+
`248153007` Male) that a gender `IFA` rule is written against. SNOMED CT is copyright
|
|
219
|
+
© International Health Terminology Standards Development Organisation. **No SNOMED CT release or
|
|
220
|
+
refset is bundled** — you supply the map rows under your own SNOMED CT licence.
|
|
221
|
+
|
|
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|
+
This section states what is distributed and under whose copyright. It is not legal advice, and makes
|
|
223
|
+
no claim about whether any particular use of these materials is permitted to you.
|
|
224
|
+
|
|
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225
|
## License
|
|
167
226
|
|
|
168
|
-
MIT © Cosyte
|
|
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|
+
MIT © Cosyte — this package's own code. The bundled third-party materials above stay under their own
|
|
228
|
+
copyright and licences.
|
package/dist/index.cjs
CHANGED
|
@@ -75,13 +75,13 @@ var DIAGNOSTIC_CODES = {
|
|
|
75
75
|
* code system was not supplied, an unresolvable referenced value set, or a `filter` operator the
|
|
76
76
|
* engine does not implement. Surfaced as a typed outcome that marks the expansion **incomplete**;
|
|
77
77
|
* the engine **never** fabricates a member and **never** returns a silently-empty "no members"
|
|
78
|
-
* answer for a part it could not compute (
|
|
78
|
+
* answer for a part it could not compute (a false "not a member" is a clinical error).
|
|
79
79
|
*/
|
|
80
80
|
TERM_VALUESET_CANNOT_EXPAND: "TERM_VALUESET_CANNOT_EXPAND",
|
|
81
81
|
/**
|
|
82
82
|
* A **pre-computed** `ValueSet.expansion` is **incomplete** — its `total` exceeds the number of
|
|
83
|
-
* `contains` entries, or it is flagged too-costly (the VSAC `$expand` >1200-code truncation
|
|
84
|
-
*
|
|
83
|
+
* `contains` entries, or it is flagged too-costly (the VSAC `$expand` >1200-code truncation
|
|
84
|
+
* hazard). The engine **never treats a truncated expansion as complete membership**: a code
|
|
85
85
|
* absent from a truncated expansion is `undetermined`, never a confident "not a member".
|
|
86
86
|
*/
|
|
87
87
|
TERM_VALUESET_EXPANSION_TRUNCATED: "TERM_VALUESET_EXPANSION_TRUNCATED",
|
|
@@ -89,7 +89,7 @@ var DIAGNOSTIC_CODES = {
|
|
|
89
89
|
* A UCUM unit expression is **not valid** — it does not parse against the UCUM grammar, or it
|
|
90
90
|
* names an atom absent from the vendored UCUM table. A **first-class typed outcome, never an
|
|
91
91
|
* error and never a guess**: {@link validateUcum} returns `{ valid: false, reason }`, never a
|
|
92
|
-
* coerced or "nearest" unit (the never-fabricate invariant, applied to units
|
|
92
|
+
* coerced or "nearest" unit (the never-fabricate invariant, applied to units). The
|
|
93
93
|
* `reason` is value-free (a grammar fault or an unknown-atom shape), never PHI.
|
|
94
94
|
*/
|
|
95
95
|
TERM_UCUM_INVALID: "TERM_UCUM_INVALID",
|
|
@@ -97,7 +97,7 @@ var DIAGNOSTIC_CODES = {
|
|
|
97
97
|
* A crosswalk source code has an **authored No-Map** — the steward declares it has no valid target
|
|
98
98
|
* in the other classification (a GEM `NoDx`/`NoPCS` sentinel, or a SNOMED complex-map `447638001`
|
|
99
99
|
* "cannot be classified" category). A **first-class typed outcome, never an error and never a
|
|
100
|
-
* guess** (the never-fabricate invariant, applied to crosswalks
|
|
100
|
+
* guess** (the never-fabricate invariant, applied to crosswalks). Distinct from
|
|
101
101
|
* {@link TERM_CROSSWALK_UNMAPPED}: the source *is* in the map, and the map says "no target".
|
|
102
102
|
*/
|
|
103
103
|
TERM_CROSSWALK_NO_MAP: "TERM_CROSSWALK_NO_MAP",
|
|
@@ -111,7 +111,7 @@ var DIAGNOSTIC_CODES = {
|
|
|
111
111
|
/**
|
|
112
112
|
* A SNOMED→ICD-10-CM complex-map group's decision needs **patient context** (an `IFA` age band or
|
|
113
113
|
* gender) the caller did not supply. The engine surfaces the candidate rules + advice and **refuses
|
|
114
|
-
* to pick a branch** it lacks the data for
|
|
114
|
+
* to pick a branch** it lacks the data for — never a silently-chosen target.
|
|
115
115
|
*/
|
|
116
116
|
TERM_CROSSWALK_CONTEXT_REQUIRED: "TERM_CROSSWALK_CONTEXT_REQUIRED",
|
|
117
117
|
/**
|
|
@@ -133,17 +133,27 @@ var DIAGNOSTIC_CODES = {
|
|
|
133
133
|
* **silently** — they are expected, not faults.
|
|
134
134
|
*/
|
|
135
135
|
TERM_RXNORM_MALFORMED_ROW: "TERM_RXNORM_MALFORMED_ROW",
|
|
136
|
+
/**
|
|
137
|
+
* An `RXCUI` appeared in the release's `SAB=RXNORM` atoms but **none of them could establish its
|
|
138
|
+
* term type**, so it is **not** in the graph. Either every atom carried a synonym-class `TTY`
|
|
139
|
+
* (`PSN`/`SY`/`TMSY`, which Appendix 5 defines as a "synonym of another TTY" and which therefore
|
|
140
|
+
* types a *name* rather than a concept) or every atom carried a `TTY` this engine does not model.
|
|
141
|
+
* The concept is skipped rather than typed from a synonym atom: an absent concept is already a
|
|
142
|
+
* first-class typed answer (`TERM_RXNORM_UNKNOWN_RXCUI`), while a concept whose term type reads
|
|
143
|
+
* `TMSY` is a fabricated claim about what a drug *is* that a caller cannot detect.
|
|
144
|
+
*/
|
|
145
|
+
TERM_RXNORM_UNTYPED_CONCEPT: "TERM_RXNORM_UNTYPED_CONCEPT",
|
|
136
146
|
/**
|
|
137
147
|
* A RxNorm graph navigation was asked about an `RXCUI` **absent from the loaded release** — a
|
|
138
148
|
* first-class typed outcome, never a fabricated concept and never an empty "success" (the
|
|
139
|
-
* never-fabricate invariant, applied to the drug graph
|
|
149
|
+
* never-fabricate invariant, applied to the drug graph). Distinct from a *present*
|
|
140
150
|
* concept that simply has no edge of the requested relationship (that is a found result with empty
|
|
141
151
|
* targets).
|
|
142
152
|
*/
|
|
143
153
|
TERM_RXNORM_UNKNOWN_RXCUI: "TERM_RXNORM_UNKNOWN_RXCUI",
|
|
144
154
|
/**
|
|
145
155
|
* An NDC could **not be resolved** to any `RXCUI` in the loaded RxNorm release — a typed, surfaced
|
|
146
|
-
* absence, never a guessed `RXCUI`. NDC↔RXCUI is many:1 and temporal
|
|
156
|
+
* absence, never a guessed `RXCUI`. NDC↔RXCUI is many:1 and temporal, so a resolution
|
|
147
157
|
* is always release-scoped; an NDC not present in the loaded release is this diagnostic.
|
|
148
158
|
*/
|
|
149
159
|
TERM_RXNORM_NDC_UNMAPPED: "TERM_RXNORM_NDC_UNMAPPED"
|
|
@@ -178,7 +188,7 @@ var FATAL_CODES = {
|
|
|
178
188
|
/**
|
|
179
189
|
* An **inversion** of a directional crosswalk was requested — a forbidden operation. The GEMs and
|
|
180
190
|
* the SNOMED→ICD-10-CM map are authoritative in **one direction only**; a forward map is not the
|
|
181
|
-
* inverse of the backward map
|
|
191
|
+
* inverse of the backward map. Thrown by {@link ../crosswalk/gems.invertGem} so the
|
|
182
192
|
* never-invert refusal is a first-class, discoverable contract rather than a silent absence.
|
|
183
193
|
*/
|
|
184
194
|
TERM_MAP_NOT_INVERTIBLE: "TERM_MAP_NOT_INVERTIBLE"
|
|
@@ -4360,12 +4370,17 @@ var TERM_TYPES = Object.freeze({
|
|
|
4360
4370
|
BN: "Brand Name",
|
|
4361
4371
|
SCDC: "Semantic Clinical Drug Component",
|
|
4362
4372
|
SBDC: "Semantic Branded Drug Component",
|
|
4373
|
+
SCDF: "Semantic Clinical Drug Form",
|
|
4374
|
+
SBDF: "Semantic Branded Drug Form",
|
|
4375
|
+
SCDFP: "Semantic Clinical Drug Form Precise",
|
|
4376
|
+
SBDFP: "Semantic Branded Drug Form Precise",
|
|
4363
4377
|
SCD: "Semantic Clinical Drug",
|
|
4364
4378
|
SBD: "Semantic Branded Drug",
|
|
4365
4379
|
SCDG: "Semantic Clinical Drug Group",
|
|
4366
4380
|
SBDG: "Semantic Branded Drug Group",
|
|
4381
|
+
SCDGP: "Semantic Clinical Drug Form Group Precise",
|
|
4367
4382
|
GPCK: "Generic Pack",
|
|
4368
|
-
BPCK: "
|
|
4383
|
+
BPCK: "Brand Name Pack",
|
|
4369
4384
|
DF: "Dose Form",
|
|
4370
4385
|
DFG: "Dose Form Group",
|
|
4371
4386
|
PSN: "Prescribable Name",
|
|
@@ -4374,9 +4389,13 @@ var TERM_TYPES = Object.freeze({
|
|
|
4374
4389
|
ET: "Entry Term"
|
|
4375
4390
|
});
|
|
4376
4391
|
var KNOWN = new Set(Object.keys(TERM_TYPES));
|
|
4392
|
+
var SYNONYM = /* @__PURE__ */ new Set(["PSN", "SY", "TMSY"]);
|
|
4377
4393
|
function asTermType(tty) {
|
|
4378
4394
|
return KNOWN.has(tty) ? tty : void 0;
|
|
4379
4395
|
}
|
|
4396
|
+
function isSynonymTermType(tty) {
|
|
4397
|
+
return SYNONYM.has(tty);
|
|
4398
|
+
}
|
|
4380
4399
|
|
|
4381
4400
|
// src/rxnorm/load.ts
|
|
4382
4401
|
var SAB_RXNORM = "RXNORM";
|
|
@@ -4390,13 +4409,13 @@ function cell2(cells, index) {
|
|
|
4390
4409
|
}
|
|
4391
4410
|
function parseConso(content, warnings) {
|
|
4392
4411
|
const concepts = /* @__PURE__ */ new Map();
|
|
4393
|
-
const
|
|
4394
|
-
|
|
4395
|
-
|
|
4412
|
+
const conso = [];
|
|
4413
|
+
const untyped = /* @__PURE__ */ new Map();
|
|
4414
|
+
for (const [i, raw] of content.split(/\r?\n/).entries()) {
|
|
4396
4415
|
if (raw === "") continue;
|
|
4397
4416
|
const cells = parseRrfLine(raw);
|
|
4398
4417
|
if (cells.length <= CONSO.STR) {
|
|
4399
|
-
|
|
4418
|
+
conso.push(
|
|
4400
4419
|
Object.freeze({
|
|
4401
4420
|
code: "TERM_RXNORM_MALFORMED_ROW",
|
|
4402
4421
|
file: "RXNCONSO",
|
|
@@ -4407,11 +4426,9 @@ function parseConso(content, warnings) {
|
|
|
4407
4426
|
continue;
|
|
4408
4427
|
}
|
|
4409
4428
|
if (cell2(cells, CONSO.SAB) !== SAB_RXNORM) continue;
|
|
4410
|
-
const tty = asTermType(cell2(cells, CONSO.TTY) ?? "");
|
|
4411
|
-
if (tty === void 0) continue;
|
|
4412
4429
|
const rxcui = cell2(cells, CONSO.RXCUI);
|
|
4413
4430
|
if (rxcui === void 0 || rxcui === "") {
|
|
4414
|
-
|
|
4431
|
+
conso.push(
|
|
4415
4432
|
Object.freeze({
|
|
4416
4433
|
code: "TERM_RXNORM_MALFORMED_ROW",
|
|
4417
4434
|
file: "RXNCONSO",
|
|
@@ -4421,7 +4438,13 @@ function parseConso(content, warnings) {
|
|
|
4421
4438
|
);
|
|
4422
4439
|
continue;
|
|
4423
4440
|
}
|
|
4441
|
+
const tty = asTermType(cell2(cells, CONSO.TTY) ?? "");
|
|
4442
|
+
if (tty === void 0 || isSynonymTermType(tty)) {
|
|
4443
|
+
if (!concepts.has(rxcui) && !untyped.has(rxcui)) untyped.set(rxcui, i + 1);
|
|
4444
|
+
continue;
|
|
4445
|
+
}
|
|
4424
4446
|
if (concepts.has(rxcui)) continue;
|
|
4447
|
+
untyped.delete(rxcui);
|
|
4425
4448
|
const name = cell2(cells, CONSO.STR) ?? "";
|
|
4426
4449
|
const suppress = cell2(cells, CONSO.SUPPRESS) ?? "N";
|
|
4427
4450
|
concepts.set(
|
|
@@ -4429,14 +4452,24 @@ function parseConso(content, warnings) {
|
|
|
4429
4452
|
Object.freeze({ rxcui, tty, name, suppressed: suppress !== "" && suppress !== "N" })
|
|
4430
4453
|
);
|
|
4431
4454
|
}
|
|
4455
|
+
for (const line of untyped.values()) {
|
|
4456
|
+
conso.push(
|
|
4457
|
+
Object.freeze({
|
|
4458
|
+
code: "TERM_RXNORM_UNTYPED_CONCEPT",
|
|
4459
|
+
file: "RXNCONSO",
|
|
4460
|
+
line,
|
|
4461
|
+
detail: "no RXNORM atom established this RXCUI's term type (every atom was synonym-class or an unmodelled TTY); skipped rather than typed from a synonym"
|
|
4462
|
+
})
|
|
4463
|
+
);
|
|
4464
|
+
}
|
|
4465
|
+
conso.sort((a, b) => a.line - b.line);
|
|
4466
|
+
for (const w of conso) warnings.push(w);
|
|
4432
4467
|
return concepts;
|
|
4433
4468
|
}
|
|
4434
4469
|
function parseRel(content, warnings) {
|
|
4435
4470
|
const edges = /* @__PURE__ */ new Map();
|
|
4436
4471
|
let edgeCount = 0;
|
|
4437
|
-
const
|
|
4438
|
-
for (let i = 0; i < lines.length; i++) {
|
|
4439
|
-
const raw = lines[i] ?? "";
|
|
4472
|
+
for (const [i, raw] of content.split(/\r?\n/).entries()) {
|
|
4440
4473
|
if (raw === "") continue;
|
|
4441
4474
|
const cells = parseRrfLine(raw);
|
|
4442
4475
|
if (cells.length <= REL.RELA) {
|
|
@@ -4465,9 +4498,7 @@ function parseRel(content, warnings) {
|
|
|
4465
4498
|
}
|
|
4466
4499
|
function parseNdcs(content, warnings) {
|
|
4467
4500
|
const ndcs = /* @__PURE__ */ new Map();
|
|
4468
|
-
const
|
|
4469
|
-
for (let i = 0; i < lines.length; i++) {
|
|
4470
|
-
const raw = lines[i] ?? "";
|
|
4501
|
+
for (const [i, raw] of content.split(/\r?\n/).entries()) {
|
|
4471
4502
|
if (raw === "") continue;
|
|
4472
4503
|
const cells = parseRrfLine(raw);
|
|
4473
4504
|
if (cells.length <= SAT.ATV) {
|
|
@@ -4519,9 +4550,17 @@ function loadRxNormGraph(source) {
|
|
|
4519
4550
|
|
|
4520
4551
|
// src/rxnorm/rela.ts
|
|
4521
4552
|
var RELA = {
|
|
4522
|
-
/**
|
|
4553
|
+
/**
|
|
4554
|
+
* `has_ingredient`: subject *has ingredient* object. Authored from the clinical side
|
|
4555
|
+
* (`SCDC`/`SCDF`/`SCDG`) to an `IN` and from the branded side (`SBD`/`SBDC`/`SBDF`/`SBDG`) to a
|
|
4556
|
+
* `BN`; RxNorm authors no `SCD ⟶ IN` row.
|
|
4557
|
+
*/
|
|
4523
4558
|
HAS_INGREDIENT: "has_ingredient",
|
|
4524
|
-
/**
|
|
4559
|
+
/**
|
|
4560
|
+
* `ingredient_of`: subject *is an ingredient of* object. The authored inverse, so an `IN` reaches
|
|
4561
|
+
* clinical components and dose forms and a `BN` reaches branded concepts (the `SBD` included).
|
|
4562
|
+
* Neither reaches an `SCD`.
|
|
4563
|
+
*/
|
|
4525
4564
|
INGREDIENT_OF: "ingredient_of",
|
|
4526
4565
|
/** `has_precise_ingredient` — subject *has precise ingredient* object (a `PIN`). */
|
|
4527
4566
|
HAS_PRECISE_INGREDIENT: "has_precise_ingredient",
|
|
@@ -4664,7 +4703,7 @@ function approximateMatch(graph, query, options = {}) {
|
|
|
4664
4703
|
}
|
|
4665
4704
|
|
|
4666
4705
|
// src/index.ts
|
|
4667
|
-
var VERSION = "0.0.
|
|
4706
|
+
var VERSION = "0.0.2";
|
|
4668
4707
|
|
|
4669
4708
|
exports.COMPLEX_MAP_SOURCE_SYSTEM = COMPLEX_MAP_SOURCE_SYSTEM;
|
|
4670
4709
|
exports.DIAGNOSTIC_CODES = DIAGNOSTIC_CODES;
|
|
@@ -4706,6 +4745,7 @@ exports.ingredientsOf = ingredientsOf;
|
|
|
4706
4745
|
exports.invertGem = invertGem;
|
|
4707
4746
|
exports.isA = isA;
|
|
4708
4747
|
exports.isJsonObject = isJsonObject;
|
|
4748
|
+
exports.isSynonymTermType = isSynonymTermType;
|
|
4709
4749
|
exports.isUnknownSystem = isUnknownSystem;
|
|
4710
4750
|
exports.loadCodeSystem = loadCodeSystem;
|
|
4711
4751
|
exports.loadComplexMap = loadComplexMap;
|