@omophub/omophub-mcp 1.5.0 → 1.5.2

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Files changed (7) hide show
  1. package/README.md +1 -0
  2. package/dist/tools/fhir.d.ts.map +1 -1
  3. package/dist/tools/fhir.js +17 -4
  4. package/dist/tools/fhir.js.map +1 -1
  5. package/dist/tools/semantic-search.js +1 -1
  6. package/dist/tools/semantic-search.js.map +1 -1
  7. package/package.json +3 -3
package/README.md CHANGED
@@ -7,6 +7,7 @@
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  <p>
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  <a href="https://www.npmjs.com/package/@omophub/omophub-mcp"><img src="https://img.shields.io/npm/v/@omophub/omophub-mcp?style=flat-square&color=cb3837&label=npm" alt="npm version" /></a>
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+ <a href="https://app.codecov.io/gh/OMOPHub/omophub-mcp?branch=main"><img src="https://codecov.io/gh/OMOPHub/omophub-mcp/branch/main/graph/badge.svg" alt="Codecov" /></a>
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  <a href="https://www.npmjs.com/package/@omophub/omophub-mcp"><img src="https://img.shields.io/npm/dm/@omophub/omophub-mcp?style=flat-square&color=blue" alt="npm downloads" /></a>
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  <a href="https://github.com/OMOPHub/omophub-mcp/blob/main/LICENSE"><img src="https://img.shields.io/github/license/OMOPHub/omophub-mcp?style=flat-square" alt="License" /></a>
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  <a href="https://github.com/OMOPHub/omophub-mcp"><img src="https://img.shields.io/badge/TypeScript-5.x-3178c6?style=flat-square&logo=typescript&logoColor=white" alt="TypeScript" /></a>
package/dist/tools/fhir.d.ts.map CHANGED
@@ -1 +1 @@
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- {"version":3,"file":"fhir.d.ts","sourceRoot":"","sources":["../../src/tools/fhir.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AAEzE,OAAO,KAAK,EAAE,aAAa,EAAE,MAAM,kBAAkB,CAAC;AAyEtD,wBAAgB,iBAAiB,CAAC,MAAM,EAAE,SAAS,EAAE,MAAM,EAAE,aAAa,GAAG,IAAI,CAwJhF"}
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+ {"version":3,"file":"fhir.d.ts","sourceRoot":"","sources":["../../src/tools/fhir.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AAEzE,OAAO,KAAK,EAAE,aAAa,EAAE,MAAM,kBAAkB,CAAC;AAyEtD,wBAAgB,iBAAiB,CAAC,MAAM,EAAE,SAAS,EAAE,MAAM,EAAE,aAAa,GAAG,IAAI,CAmKhF"}
package/dist/tools/fhir.js CHANGED
@@ -151,10 +151,23 @@ export function registerFhirTools(server, client) {
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  const response = await rc.post('/fhir/resolve/codeable-concept', body, 'fhir_resolve_codeable_concept');
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  const best = response.data?.best_match?.resolution;
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  const altCount = response.data?.alternatives?.length ?? 0;
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- const text = best
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- ? `Best match: ${best.standard_concept.concept_name} (${best.source_concept.vocabulary_id})\n` +
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- `Target table: ${best.target_table ?? 'unknown'} | Alternatives: ${altCount}`
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- : 'No resolution found — all codings failed to resolve';
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+ let text;
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+ if (!best) {
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+ text = 'No resolution found — all codings failed to resolve';
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+ }
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+ else if (best.standard_concept.concept_id === 0) {
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+ // concept_id 0 is the OMOP "no matching concept" sentinel (from
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+ // on_unmapped: 'sentinel') — surface it as unmapped rather than
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+ // presenting it as a successful best match.
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+ text =
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+ `Unmapped: no OMOP standard concept (concept_id 0) for any coding\n` +
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+ `Alternatives: ${altCount}`;
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+ }
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+ else {
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+ text =
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+ `Best match: ${best.standard_concept.concept_name} (${best.source_concept.vocabulary_id})\n` +
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+ `Target table: ${best.target_table ?? 'unknown'} | Alternatives: ${altCount}`;
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+ }
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  return {
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  content: [
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  { type: 'text', text },
package/dist/tools/fhir.js.map CHANGED
@@ -1 +1 @@
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- 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1
+ 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package/dist/tools/semantic-search.js CHANGED
@@ -49,7 +49,7 @@ export function registerSemanticSearchTools(server, client) {
49
49
  params.domain_ids = domain_ids;
50
50
  if (standard_concept)
51
51
  params.standard_concept = standard_concept;
52
- const response = await rc.request('/concepts/semantic-search', params, 'semantic_search');
52
+ const response = await rc.request('/search/semantic', params, 'semantic_search');
53
53
  const results = response.data?.results ?? [];
54
54
  if (results.length === 0) {
55
55
  return {
package/dist/tools/semantic-search.js.map CHANGED
@@ -1 +1 @@
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package/package.json CHANGED
@@ -1,6 +1,6 @@
1
1
  {
2
2
  "name": "@omophub/omophub-mcp",
3
- "version": "1.5.0",
3
+ "version": "1.5.2",
4
4
  "mcpName": "io.github.OMOPHub/omophub-mcp",
5
5
  "description": "MCP server for OHDSI OMOP standardized medical vocabularies - search, lookup, map, and navigate concepts via AI agents",
6
6
  "type": "module",
@@ -64,9 +64,9 @@
64
64
  "devDependencies": {
65
65
  "@biomejs/biome": "^2.4.4",
66
66
  "@types/node": "^25.0.3",
67
- "@vitest/coverage-v8": "^3.2.4",
67
+ "@vitest/coverage-v8": "^4.1.8",
68
68
  "tsx": "^4.19.0",
69
69
  "typescript": "^5.9.3",
70
- "vitest": "^3.2.4"
70
+ "vitest": "^4.1.8"
71
71
  }
72
72
  }