@omophub/omophub-mcp 1.2.0 → 1.3.0
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/README.md +47 -6
- package/dist/client/api.d.ts +2 -2
- package/dist/client/api.d.ts.map +1 -1
- package/dist/client/api.js +1 -1
- package/dist/client/api.js.map +1 -1
- package/dist/client/resolve.d.ts +26 -0
- package/dist/client/resolve.d.ts.map +1 -0
- package/dist/client/resolve.js +55 -0
- package/dist/client/resolve.js.map +1 -0
- package/dist/client/types.d.ts +13 -8
- package/dist/client/types.d.ts.map +1 -1
- package/dist/formatters/index.d.ts.map +1 -1
- package/dist/formatters/index.js +21 -4
- package/dist/formatters/index.js.map +1 -1
- package/dist/index.d.ts.map +1 -1
- package/dist/index.js +8 -7
- package/dist/index.js.map +1 -1
- package/dist/resources/index.d.ts.map +1 -1
- package/dist/resources/index.js +7 -4
- package/dist/resources/index.js.map +1 -1
- package/dist/server.d.ts +1 -1
- package/dist/server.d.ts.map +1 -1
- package/dist/server.js.map +1 -1
- package/dist/tools/concepts.d.ts.map +1 -1
- package/dist/tools/concepts.js +7 -4
- package/dist/tools/concepts.js.map +1 -1
- package/dist/tools/explore.d.ts.map +1 -1
- package/dist/tools/explore.js +6 -4
- package/dist/tools/explore.js.map +1 -1
- package/dist/tools/hierarchy.d.ts.map +1 -1
- package/dist/tools/hierarchy.js +4 -2
- package/dist/tools/hierarchy.js.map +1 -1
- package/dist/tools/mappings.d.ts.map +1 -1
- package/dist/tools/mappings.js +4 -2
- package/dist/tools/mappings.js.map +1 -1
- package/dist/tools/search.d.ts.map +1 -1
- package/dist/tools/search.js +4 -2
- package/dist/tools/search.js.map +1 -1
- package/dist/tools/semantic-search.d.ts.map +1 -1
- package/dist/tools/semantic-search.js +4 -2
- package/dist/tools/semantic-search.js.map +1 -1
- package/dist/tools/similar.d.ts.map +1 -1
- package/dist/tools/similar.js +4 -2
- package/dist/tools/similar.js.map +1 -1
- package/dist/tools/vocabularies.d.ts.map +1 -1
- package/dist/tools/vocabularies.js +36 -10
- package/dist/tools/vocabularies.js.map +1 -1
- package/dist/transports/http.d.ts +1 -1
- package/dist/transports/http.d.ts.map +1 -1
- package/dist/transports/http.js +6 -5
- package/dist/transports/http.js.map +1 -1
- package/dist/utils/auth.d.ts +1 -1
- package/dist/utils/auth.d.ts.map +1 -1
- package/dist/utils/auth.js +1 -6
- package/dist/utils/auth.js.map +1 -1
- package/dist/utils/errors.js +2 -2
- package/package.json +1 -1
package/README.md
CHANGED
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@@ -50,7 +50,7 @@ Claude: Found it - E11.9 (Type 2 diabetes mellitus without complications)
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### 1. Get an API Key
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Sign up at [omophub.com](https://omophub.com) → create an API key in your [dashboard](https://omophub.com/
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Sign up at [omophub.com](https://omophub.com) → create an API key in your [dashboard](https://dashboard.omophub.com/api-keys).
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### 2. Add to Your AI Client
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@@ -140,7 +140,48 @@ npx -y @omophub/omophub-mcp --transport=http --port=3100 --api-key=oh_your_key_h
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# Health check: http://localhost:3100/health
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```
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Connect MCP clients to
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Connect MCP clients to `/` or `/mcp`. Useful for centralized deployments where multiple AI agents share one server instance.
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</details>
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<details>
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<summary><strong>Hosted (mcp.omophub.com)</strong></summary>
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Connect directly to the OMOPHub-hosted MCP server — no installation required. Each client authenticates with their own API key via the `Authorization` header:
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**Claude Code:**
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```bash
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claude mcp add omophub --transport http \
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-H "Authorization: Bearer oh_your_key_here" \
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https://mcp.omophub.com
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```
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**VS Code** (`.vscode/mcp.json`):
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```json
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{
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"servers": {
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"omophub": {
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"type": "http",
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"url": "https://mcp.omophub.com",
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"headers": { "Authorization": "Bearer oh_your_key_here" }
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}
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}
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}
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```
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**Cursor / Windsurf:**
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```json
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{
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"mcpServers": {
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"omophub": {
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"url": "https://mcp.omophub.com",
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"headers": { "Authorization": "Bearer oh_your_key_here" }
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}
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}
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}
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```
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> **Note:** Claude Desktop's Custom Connectors UI only supports OAuth and cannot send custom headers. Use the [npx setup](#claude-desktop) instead.
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</details>
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@@ -256,7 +297,7 @@ In **HTTP mode**, the health endpoint is available at `/health` on the same port
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```bash
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npx @omophub/omophub-mcp --transport=http --port=3100 --api-key=oh_your_key
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curl http://localhost:3100/health
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# → {"status":"ok","version":"1.
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# → {"status":"ok","version":"1.3.0","uptime_seconds":42}
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```
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In **stdio mode**, use `--health-port` for a standalone health endpoint:
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@@ -293,8 +334,8 @@ OMOPHUB_API_KEY=oh_your_key npx tsx src/index.ts
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| Error | Solution |
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| :--- | :--- |
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| `API key required` | Set `OMOPHUB_API_KEY` in your environment or MCP config |
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| `Authentication failed` | API key may be invalid or expired - [generate a new one](https://omophub.com/
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| `Rate limit exceeded` | Automatic retries are built in. For higher limits, [upgrade your plan](https://omophub.com/
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| `Authentication failed` | API key may be invalid or expired - [generate a new one](https://dashboard.omophub.com/api-keys) |
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| `Rate limit exceeded` | Automatic retries are built in. For higher limits, [upgrade your plan](https://dashboard.omophub.com/billing) |
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| Tools not appearing | Restart your AI client, verify `npx @omophub/omophub-mcp` runs without errors, check config path |
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---
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@@ -302,7 +343,7 @@ OMOPHUB_API_KEY=oh_your_key npx tsx src/index.ts
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## Links
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- [Documentation](https://docs.omophub.com)
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- [Get an API Key](https://omophub.com/
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- [Get an API Key](https://dashboard.omophub.com/api-keys)
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- [Python SDK](https://github.com/OMOPHub/omophub-python)
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- [Community & Support](https://github.com/OMOPHub/omophub-mcp/issues)
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package/dist/client/api.d.ts
CHANGED
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@@ -1,9 +1,9 @@
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import type { ApiResponse } from './types.js';
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export declare class OmopHubClient {
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readonly baseUrl: string;
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private readonly apiKey;
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private readonly analyticsOptout;
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constructor(apiKey: string, baseUrl?: string);
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constructor(apiKey: string | undefined, baseUrl?: string);
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request<T>(path: string, params?: Record<string, string | number | boolean | undefined>, toolName?: string): Promise<ApiResponse<T>>;
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post<T>(path: string, body: Record<string, unknown>, toolName?: string): Promise<ApiResponse<T>>;
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}
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package/dist/client/api.d.ts.map
CHANGED
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@@ -1 +1 @@
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{"version":3,"file":"api.d.ts","sourceRoot":"","sources":["../../src/client/api.ts"],"names":[],"mappings":"AAGA,OAAO,KAAK,EAAE,WAAW,EAAE,MAAM,YAAY,CAAC;AAkB9C,qBAAa,aAAa;IACxB,
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{"version":3,"file":"api.d.ts","sourceRoot":"","sources":["../../src/client/api.ts"],"names":[],"mappings":"AAGA,OAAO,KAAK,EAAE,WAAW,EAAE,MAAM,YAAY,CAAC;AAkB9C,qBAAa,aAAa;IACxB,QAAQ,CAAC,OAAO,EAAE,MAAM,CAAC;IACzB,OAAO,CAAC,QAAQ,CAAC,MAAM,CAAS;IAChC,OAAO,CAAC,QAAQ,CAAC,eAAe,CAAU;gBAE9B,MAAM,EAAE,MAAM,GAAG,SAAS,EAAE,OAAO,CAAC,EAAE,MAAM;IAUlD,OAAO,CAAC,CAAC,EACb,IAAI,EAAE,MAAM,EACZ,MAAM,CAAC,EAAE,MAAM,CAAC,MAAM,EAAE,MAAM,GAAG,MAAM,GAAG,OAAO,GAAG,SAAS,CAAC,EAC9D,QAAQ,CAAC,EAAE,MAAM,GAChB,OAAO,CAAC,WAAW,CAAC,CAAC,CAAC,CAAC;IAqFpB,IAAI,CAAC,CAAC,EACV,IAAI,EAAE,MAAM,EACZ,IAAI,EAAE,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,EAC7B,QAAQ,CAAC,EAAE,MAAM,GAChB,OAAO,CAAC,WAAW,CAAC,CAAC,CAAC,CAAC;CA0E3B"}
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package/dist/client/api.js
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apiKey;
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analyticsOptout;
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constructor(apiKey, baseUrl) {
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this.apiKey = apiKey;
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this.apiKey = apiKey ?? '';
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this.baseUrl = (baseUrl ||
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process.env.OMOPHUB_BASE_URL ||
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'https://api.omophub.com/v1').replace(/\/$/, '');
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package/dist/client/api.js.map
CHANGED
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{"version":3,"file":"api.js","sourceRoot":"","sources":["../../src/client/api.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,eAAe,EAAE,MAAM,oBAAoB,CAAC;AACrD,OAAO,EAAE,MAAM,EAAE,MAAM,oBAAoB,CAAC;AAC5C,OAAO,EAAE,OAAO,EAAE,MAAM,eAAe,CAAC;AAGxC,MAAM,WAAW,GAAG,CAAC,CAAC;AAEtB,kFAAkF;AAClF,SAAS,eAAe,CAAC,MAAc,EAAE,UAAkB;IACzD,MAAM,OAAO,GAAG,QAAQ,CAAC,MAAM,EAAE,EAAE,CAAC,CAAC;IACrC,IAAI,CAAC,MAAM,CAAC,KAAK,CAAC,OAAO,CAAC,IAAI,OAAO,IAAI,CAAC;QAAE,OAAO,OAAO,GAAG,IAAI,CAAC;IAElE,MAAM,IAAI,GAAG,IAAI,CAAC,KAAK,CAAC,MAAM,CAAC,CAAC;IAChC,IAAI,CAAC,MAAM,CAAC,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC;QACxB,MAAM,OAAO,GAAG,IAAI,GAAG,IAAI,CAAC,GAAG,EAAE,CAAC;QAClC,OAAO,OAAO,GAAG,CAAC,CAAC,CAAC,CAAC,OAAO,CAAC,CAAC,CAAC,UAAU,CAAC;IAC5C,CAAC;IAED,OAAO,UAAU,CAAC;AACpB,CAAC;AAED,MAAM,OAAO,aAAa;
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+
{"version":3,"file":"api.js","sourceRoot":"","sources":["../../src/client/api.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,eAAe,EAAE,MAAM,oBAAoB,CAAC;AACrD,OAAO,EAAE,MAAM,EAAE,MAAM,oBAAoB,CAAC;AAC5C,OAAO,EAAE,OAAO,EAAE,MAAM,eAAe,CAAC;AAGxC,MAAM,WAAW,GAAG,CAAC,CAAC;AAEtB,kFAAkF;AAClF,SAAS,eAAe,CAAC,MAAc,EAAE,UAAkB;IACzD,MAAM,OAAO,GAAG,QAAQ,CAAC,MAAM,EAAE,EAAE,CAAC,CAAC;IACrC,IAAI,CAAC,MAAM,CAAC,KAAK,CAAC,OAAO,CAAC,IAAI,OAAO,IAAI,CAAC;QAAE,OAAO,OAAO,GAAG,IAAI,CAAC;IAElE,MAAM,IAAI,GAAG,IAAI,CAAC,KAAK,CAAC,MAAM,CAAC,CAAC;IAChC,IAAI,CAAC,MAAM,CAAC,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC;QACxB,MAAM,OAAO,GAAG,IAAI,GAAG,IAAI,CAAC,GAAG,EAAE,CAAC;QAClC,OAAO,OAAO,GAAG,CAAC,CAAC,CAAC,CAAC,OAAO,CAAC,CAAC,CAAC,UAAU,CAAC;IAC5C,CAAC;IAED,OAAO,UAAU,CAAC;AACpB,CAAC;AAED,MAAM,OAAO,aAAa;IACf,OAAO,CAAS;IACR,MAAM,CAAS;IACf,eAAe,CAAU;IAE1C,YAAY,MAA0B,EAAE,OAAgB;QACtD,IAAI,CAAC,MAAM,GAAG,MAAM,IAAI,EAAE,CAAC;QAC3B,IAAI,CAAC,OAAO,GAAG,CACb,OAAO;YACP,OAAO,CAAC,GAAG,CAAC,gBAAgB;YAC5B,4BAA4B,CAC7B,CAAC,OAAO,CAAC,KAAK,EAAE,EAAE,CAAC,CAAC;QACrB,IAAI,CAAC,eAAe,GAAG,OAAO,CAAC,GAAG,CAAC,wBAAwB,KAAK,MAAM,CAAC;IACzE,CAAC;IAED,KAAK,CAAC,OAAO,CACX,IAAY,EACZ,MAA8D,EAC9D,QAAiB;QAEjB,MAAM,GAAG,GAAG,IAAI,GAAG,CAAC,GAAG,IAAI,CAAC,OAAO,GAAG,IAAI,EAAE,CAAC,CAAC;QAE9C,IAAI,MAAM,EAAE,CAAC;YACX,KAAK,MAAM,CAAC,GAAG,EAAE,KAAK,CAAC,IAAI,MAAM,CAAC,OAAO,CAAC,MAAM,CAAC,EAAE,CAAC;gBAClD,IAAI,KAAK,KAAK,SAAS,IAAI,KAAK,KAAK,EAAE,EAAE,CAAC;oBACxC,GAAG,CAAC,YAAY,CAAC,GAAG,CAAC,GAAG,EAAE,MAAM,CAAC,KAAK,CAAC,CAAC,CAAC;gBAC3C,CAAC;YACH,CAAC;QACH,CAAC;QAED,MAAM,OAAO,GAA2B;YACtC,aAAa,EAAE,UAAU,IAAI,CAAC,MAAM,EAAE;YACtC,YAAY,EAAE,eAAe,OAAO,EAAE;YACtC,MAAM,EAAE,kBAAkB;SAC3B,CAAC;QAEF,IAAI,CAAC,IAAI,CAAC,eAAe,EAAE,CAAC;YAC1B,OAAO,CAAC,cAAc,CAAC,GAAG,MAAM,CAAC;YACjC,IAAI,QAAQ,EAAE,CAAC;gBACb,OAAO,CAAC,YAAY,CAAC,GAAG,QAAQ,CAAC;YACnC,CAAC;QACH,CAAC;QAED,IAAI,SAAS,GAAiB,IAAI,CAAC;QAEnC,KAAK,IAAI,OAAO,GAAG,CAAC,EAAE,OAAO,IAAI,WAAW,EAAE,OAAO,EAAE,EAAE,CAAC;YACxD,MAAM,KAAK,GAAG,IAAI,CAAC,GAAG,EAAE,CAAC;YAEzB,IAAI,CAAC;gBACH,MAAM,QAAQ,GAAG,MAAM,KAAK,CAAC,GAAG,CAAC,QAAQ,EAAE,EAAE;oBAC3C,OAAO;oBACP,MAAM,EAAE,WAAW,CAAC,OAAO,CAAC,MAAM,CAAC;iBACpC,CAAC,CAAC;gBACH,MAAM,QAAQ,GAAG,IAAI,CAAC,GAAG,EAAE,GAAG,KAAK,CAAC;gBAEpC,MAAM,CAAC,KAAK,CAAC,aAAa,EAAE;oBAC1B,SAAS,EAAE,QAAQ;oBACnB,QAAQ,EAAE,IAAI;oBACd,WAAW,EAAE,QAAQ;oBACrB,MAAM,EAAE,QAAQ,CAAC,MAAM;iBACxB,CAAC,CAAC;gBAEH,IAAI,QAAQ,CAAC,MAAM,KAAK,GAAG,IAAI,OAAO,GAAG,WAAW,EAAE,CAAC;oBACrD,MAAM,UAAU,GAAG,QAAQ,CAAC,OAAO,CAAC,GAAG,CAAC,aAAa,CAAC,CAAC;oBACvD,MAAM,UAAU,GAAG,IAAI,GAAG,CAAC,OAAO,GAAG,CAAC,CAAC,CAAC;oBACxC,MAAM,MAAM,GAAG,UAAU,CAAC,CAAC,CAAC,eAAe,CAAC,UAAU,EAAE,UAAU,CAAC,CAAC,CAAC,CAAC,UAAU,CAAC;oBACjF,MAAM,CAAC,IAAI,CAAC,6BAA6B,MAAM,IAAI,EAAE;wBACnD,SAAS,EAAE,QAAQ;wBACnB,QAAQ,EAAE,IAAI;qBACf,CAAC,CAAC;oBACH,MAAM,IAAI,OAAO,CAAC,CAAC,OAAO,EAAE,EAAE,CAAC,UAAU,CAAC,OAAO,EAAE,MAAM,CAAC,CAAC,CAAC;oBAC5D,SAAS;gBACX,CAAC;gBAED,IAAI,CAAC,QAAQ,CAAC,EAAE,EAAE,CAAC;oBACjB,MAAM,IAAI,GAAG,MAAM,QAAQ,CAAC,IAAI,EAAE,CAAC;oBACnC,IAAI,OAAe,CAAC;oBACpB,IAAI,CAAC;wBACH,MAAM,MAAM,GAAG,IAAI,CAAC,KAAK,CAAC,IAAI,CAAuD,CAAC;wBACtF,OAAO,GAAG,MAAM,CAAC,KAAK,EAAE,OAAO,IAAI,MAAM,CAAC,OAAO,IAAI,IAAI,CAAC;oBAC5D,CAAC;oBAAC,MAAM,CAAC;wBACP,OAAO,GAAG,IAAI,IAAI,QAAQ,CAAC,UAAU,CAAC;oBACxC,CAAC;oBACD,MAAM,IAAI,eAAe,CAAC,QAAQ,CAAC,MAAM,EAAE,OAAO,EAAE,IAAI,CAAC,CAAC;gBAC5D,CAAC;gBAED,OAAO,CAAC,MAAM,QAAQ,CAAC,IAAI,EAAE,CAAmB,CAAC;YACnD,CAAC;YAAC,OAAO,KAAK,EAAE,CAAC;gBACf,IAAI,KAAK,YAAY,eAAe;oBAAE,MAAM,KAAK,CAAC;gBAClD,SAAS,GAAG,KAAK,YAAY,KAAK,CAAC,CAAC,CAAC,KAAK,CAAC,CAAC,CAAC,IAAI,KAAK,CAAC,MAAM,CAAC,KAAK,CAAC,CAAC,CAAC;gBAEtE,IAAI,OAAO,GAAG,WAAW,EAAE,CAAC;oBAC1B,MAAM,CAAC,IAAI,CAAC,qCAAqC,OAAO,GAAG,CAAC,GAAG,EAAE;wBAC/D,SAAS,EAAE,QAAQ;wBACnB,QAAQ,EAAE,IAAI;qBACf,CAAC,CAAC;oBACH,MAAM,IAAI,OAAO,CAAC,CAAC,OAAO,EAAE,EAAE,CAAC,UAAU,CAAC,OAAO,EAAE,IAAI,GAAG,CAAC,OAAO,GAAG,CAAC,CAAC,CAAC,CAAC,CAAC;gBAC5E,CAAC;YACH,CAAC;QACH,CAAC;QAED,MAAM,SAAS,IAAI,IAAI,KAAK,CAAC,8BAA8B,CAAC,CAAC;IAC/D,CAAC;IAED,KAAK,CAAC,IAAI,CACR,IAAY,EACZ,IAA6B,EAC7B,QAAiB;QAEjB,MAAM,GAAG,GAAG,GAAG,IAAI,CAAC,OAAO,GAAG,IAAI,EAAE,CAAC;QAErC,MAAM,OAAO,GAA2B;YACtC,aAAa,EAAE,UAAU,IAAI,CAAC,MAAM,EAAE;YACtC,YAAY,EAAE,eAAe,OAAO,EAAE;YACtC,cAAc,EAAE,kBAAkB;YAClC,MAAM,EAAE,kBAAkB;SAC3B,CAAC;QAEF,IAAI,CAAC,IAAI,CAAC,eAAe,EAAE,CAAC;YAC1B,OAAO,CAAC,cAAc,CAAC,GAAG,MAAM,CAAC;YACjC,IAAI,QAAQ,EAAE,CAAC;gBACb,OAAO,CAAC,YAAY,CAAC,GAAG,QAAQ,CAAC;YACnC,CAAC;QACH,CAAC;QAED,MAAM,SAAS,GAAiB,IAAI,CAAC;QAErC,KAAK,IAAI,OAAO,GAAG,CAAC,EAAE,OAAO,IAAI,WAAW,EAAE,OAAO,EAAE,EAAE,CAAC;YACxD,MAAM,KAAK,GAAG,IAAI,CAAC,GAAG,EAAE,CAAC;YAEzB,IAAI,CAAC;gBACH,MAAM,QAAQ,GAAG,MAAM,KAAK,CAAC,GAAG,EAAE;oBAChC,MAAM,EAAE,MAAM;oBACd,OAAO;oBACP,IAAI,EAAE,IAAI,CAAC,SAAS,CAAC,IAAI,CAAC;oBAC1B,MAAM,EAAE,WAAW,CAAC,OAAO,CAAC,MAAM,CAAC;iBACpC,CAAC,CAAC;gBAEH,MAAM,CAAC,KAAK,CAAC,kBAAkB,EAAE;oBAC/B,SAAS,EAAE,QAAQ;oBACnB,QAAQ,EAAE,IAAI;oBACd,WAAW,EAAE,IAAI,CAAC,GAAG,EAAE,GAAG,KAAK;oBAC/B,MAAM,EAAE,QAAQ,CAAC,MAAM;iBACxB,CAAC,CAAC;gBAEH,IAAI,QAAQ,CAAC,MAAM,KAAK,GAAG,IAAI,OAAO,GAAG,WAAW,EAAE,CAAC;oBACrD,MAAM,UAAU,GAAG,QAAQ,CAAC,OAAO,CAAC,GAAG,CAAC,aAAa,CAAC,CAAC;oBACvD,MAAM,UAAU,GAAG,IAAI,GAAG,CAAC,OAAO,GAAG,CAAC,CAAC,CAAC;oBACxC,MAAM,MAAM,GAAG,UAAU,CAAC,CAAC,CAAC,eAAe,CAAC,UAAU,EAAE,UAAU,CAAC,CAAC,CAAC,CAAC,UAAU,CAAC;oBACjF,MAAM,CAAC,IAAI,CAAC,6BAA6B,MAAM,IAAI,EAAE;wBACnD,SAAS,EAAE,QAAQ;wBACnB,QAAQ,EAAE,IAAI;qBACf,CAAC,CAAC;oBACH,MAAM,IAAI,OAAO,CAAC,CAAC,OAAO,EAAE,EAAE,CAAC,UAAU,CAAC,OAAO,EAAE,MAAM,CAAC,CAAC,CAAC;oBAC5D,SAAS;gBACX,CAAC;gBAED,IAAI,CAAC,QAAQ,CAAC,EAAE,EAAE,CAAC;oBACjB,MAAM,IAAI,GAAG,MAAM,QAAQ,CAAC,IAAI,EAAE,CAAC;oBACnC,IAAI,OAAe,CAAC;oBACpB,IAAI,CAAC;wBACH,MAAM,MAAM,GAAG,IAAI,CAAC,KAAK,CAAC,IAAI,CAG7B,CAAC;wBACF,OAAO,GAAG,MAAM,CAAC,KAAK,EAAE,OAAO,IAAI,MAAM,CAAC,OAAO,IAAI,IAAI,CAAC;oBAC5D,CAAC;oBAAC,MAAM,CAAC;wBACP,OAAO,GAAG,IAAI,IAAI,QAAQ,CAAC,UAAU,CAAC;oBACxC,CAAC;oBACD,MAAM,IAAI,eAAe,CAAC,QAAQ,CAAC,MAAM,EAAE,OAAO,EAAE,IAAI,CAAC,CAAC;gBAC5D,CAAC;gBAED,OAAO,CAAC,MAAM,QAAQ,CAAC,IAAI,EAAE,CAAmB,CAAC;YACnD,CAAC;YAAC,OAAO,KAAK,EAAE,CAAC;gBACf,IAAI,KAAK,YAAY,eAAe;oBAAE,MAAM,KAAK,CAAC;gBAClD,wEAAwE;gBACxE,MAAM,KAAK,YAAY,KAAK,CAAC,CAAC,CAAC,KAAK,CAAC,CAAC,CAAC,IAAI,KAAK,CAAC,MAAM,CAAC,KAAK,CAAC,CAAC,CAAC;YAClE,CAAC;QACH,CAAC;QAED,MAAM,SAAS,IAAI,IAAI,KAAK,CAAC,mCAAmC,CAAC,CAAC;IACpE,CAAC;CACF"}
|
|
@@ -0,0 +1,26 @@
|
|
|
1
|
+
/**
|
|
2
|
+
* Per-request client resolution for hosted MCP deployments.
|
|
3
|
+
*
|
|
4
|
+
* In self-hosted mode (stdio or HTTP with OMOPHUB_API_KEY env var),
|
|
5
|
+
* the default client is used for all requests.
|
|
6
|
+
*
|
|
7
|
+
* In hosted mode, each client sends their own API key via
|
|
8
|
+
* Authorization: Bearer header, and we create/cache a client per key.
|
|
9
|
+
*/
|
|
10
|
+
import { OmopHubClient } from './api.js';
|
|
11
|
+
/** Minimal type for the `extra` parameter passed to MCP tool handlers. */
|
|
12
|
+
interface ToolExtra {
|
|
13
|
+
requestInfo?: {
|
|
14
|
+
headers?: Record<string, string | string[] | undefined>;
|
|
15
|
+
};
|
|
16
|
+
}
|
|
17
|
+
/**
|
|
18
|
+
* Resolve the OmopHubClient for a request.
|
|
19
|
+
*
|
|
20
|
+
* Priority:
|
|
21
|
+
* 1. Authorization: Bearer header from the HTTP request (hosted mode)
|
|
22
|
+
* 2. Default client created at startup (self-hosted mode / stdio)
|
|
23
|
+
*/
|
|
24
|
+
export declare function resolveClient(extra: ToolExtra, defaultClient: OmopHubClient): OmopHubClient;
|
|
25
|
+
export {};
|
|
26
|
+
//# sourceMappingURL=resolve.d.ts.map
|
|
@@ -0,0 +1 @@
|
|
|
1
|
+
{"version":3,"file":"resolve.d.ts","sourceRoot":"","sources":["../../src/client/resolve.ts"],"names":[],"mappings":"AAAA;;;;;;;;GAQG;AAEH,OAAO,EAAE,aAAa,EAAE,MAAM,UAAU,CAAC;AAEzC,0EAA0E;AAC1E,UAAU,SAAS;IACjB,WAAW,CAAC,EAAE;QACZ,OAAO,CAAC,EAAE,MAAM,CAAC,MAAM,EAAE,MAAM,GAAG,MAAM,EAAE,GAAG,SAAS,CAAC,CAAC;KACzD,CAAC;CACH;AAcD;;;;;;GAMG;AACH,wBAAgB,aAAa,CAAC,KAAK,EAAE,SAAS,EAAE,aAAa,EAAE,aAAa,GAAG,aAAa,CA4B3F"}
|
|
@@ -0,0 +1,55 @@
|
|
|
1
|
+
/**
|
|
2
|
+
* Per-request client resolution for hosted MCP deployments.
|
|
3
|
+
*
|
|
4
|
+
* In self-hosted mode (stdio or HTTP with OMOPHUB_API_KEY env var),
|
|
5
|
+
* the default client is used for all requests.
|
|
6
|
+
*
|
|
7
|
+
* In hosted mode, each client sends their own API key via
|
|
8
|
+
* Authorization: Bearer header, and we create/cache a client per key.
|
|
9
|
+
*/
|
|
10
|
+
import { OmopHubClient } from './api.js';
|
|
11
|
+
// LRU-style cache of clients keyed by API key (max 100 entries)
|
|
12
|
+
const clientCache = new Map();
|
|
13
|
+
const MAX_CACHED_CLIENTS = 100;
|
|
14
|
+
function pruneClientCache() {
|
|
15
|
+
if (clientCache.size <= MAX_CACHED_CLIENTS)
|
|
16
|
+
return;
|
|
17
|
+
const entries = [...clientCache.entries()].sort((a, b) => a[1].lastUsed - b[1].lastUsed);
|
|
18
|
+
for (const [key] of entries.slice(0, entries.length - MAX_CACHED_CLIENTS)) {
|
|
19
|
+
clientCache.delete(key);
|
|
20
|
+
}
|
|
21
|
+
}
|
|
22
|
+
/**
|
|
23
|
+
* Resolve the OmopHubClient for a request.
|
|
24
|
+
*
|
|
25
|
+
* Priority:
|
|
26
|
+
* 1. Authorization: Bearer header from the HTTP request (hosted mode)
|
|
27
|
+
* 2. Default client created at startup (self-hosted mode / stdio)
|
|
28
|
+
*/
|
|
29
|
+
export function resolveClient(extra, defaultClient) {
|
|
30
|
+
const headers = extra?.requestInfo?.headers;
|
|
31
|
+
const rawHeader = headers?.['authorization'] ?? headers?.['Authorization'];
|
|
32
|
+
if (!rawHeader)
|
|
33
|
+
return defaultClient;
|
|
34
|
+
const authHeader = Array.isArray(rawHeader) ? rawHeader[0] : rawHeader;
|
|
35
|
+
if (!authHeader)
|
|
36
|
+
return defaultClient;
|
|
37
|
+
const match = /^Bearer\s+(.+)$/i.exec(authHeader);
|
|
38
|
+
if (!match)
|
|
39
|
+
return defaultClient;
|
|
40
|
+
const apiKey = match[1].trim();
|
|
41
|
+
if (!apiKey)
|
|
42
|
+
return defaultClient;
|
|
43
|
+
// Check cache
|
|
44
|
+
const cached = clientCache.get(apiKey);
|
|
45
|
+
if (cached) {
|
|
46
|
+
cached.lastUsed = Date.now();
|
|
47
|
+
return cached.client;
|
|
48
|
+
}
|
|
49
|
+
// Create new client for this key, inheriting baseUrl from the default client
|
|
50
|
+
const client = new OmopHubClient(apiKey, defaultClient.baseUrl);
|
|
51
|
+
clientCache.set(apiKey, { client, lastUsed: Date.now() });
|
|
52
|
+
pruneClientCache();
|
|
53
|
+
return client;
|
|
54
|
+
}
|
|
55
|
+
//# sourceMappingURL=resolve.js.map
|
|
@@ -0,0 +1 @@
|
|
|
1
|
+
{"version":3,"file":"resolve.js","sourceRoot":"","sources":["../../src/client/resolve.ts"],"names":[],"mappings":"AAAA;;;;;;;;GAQG;AAEH,OAAO,EAAE,aAAa,EAAE,MAAM,UAAU,CAAC;AASzC,gEAAgE;AAChE,MAAM,WAAW,GAAG,IAAI,GAAG,EAAuD,CAAC;AACnF,MAAM,kBAAkB,GAAG,GAAG,CAAC;AAE/B,SAAS,gBAAgB;IACvB,IAAI,WAAW,CAAC,IAAI,IAAI,kBAAkB;QAAE,OAAO;IACnD,MAAM,OAAO,GAAG,CAAC,GAAG,WAAW,CAAC,OAAO,EAAE,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,QAAQ,GAAG,CAAC,CAAC,CAAC,CAAC,CAAC,QAAQ,CAAC,CAAC;IACzF,KAAK,MAAM,CAAC,GAAG,CAAC,IAAI,OAAO,CAAC,KAAK,CAAC,CAAC,EAAE,OAAO,CAAC,MAAM,GAAG,kBAAkB,CAAC,EAAE,CAAC;QAC1E,WAAW,CAAC,MAAM,CAAC,GAAG,CAAC,CAAC;IAC1B,CAAC;AACH,CAAC;AAED;;;;;;GAMG;AACH,MAAM,UAAU,aAAa,CAAC,KAAgB,EAAE,aAA4B;IAC1E,MAAM,OAAO,GAAG,KAAK,EAAE,WAAW,EAAE,OAAO,CAAC;IAC5C,MAAM,SAAS,GAAG,OAAO,EAAE,CAAC,eAAe,CAAC,IAAI,OAAO,EAAE,CAAC,eAAe,CAAC,CAAC;IAE3E,IAAI,CAAC,SAAS;QAAE,OAAO,aAAa,CAAC;IAErC,MAAM,UAAU,GAAG,KAAK,CAAC,OAAO,CAAC,SAAS,CAAC,CAAC,CAAC,CAAC,SAAS,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,SAAS,CAAC;IACvE,IAAI,CAAC,UAAU;QAAE,OAAO,aAAa,CAAC;IAEtC,MAAM,KAAK,GAAG,kBAAkB,CAAC,IAAI,CAAC,UAAU,CAAC,CAAC;IAClD,IAAI,CAAC,KAAK;QAAE,OAAO,aAAa,CAAC;IAEjC,MAAM,MAAM,GAAG,KAAK,CAAC,CAAC,CAAC,CAAC,IAAI,EAAE,CAAC;IAC/B,IAAI,CAAC,MAAM;QAAE,OAAO,aAAa,CAAC;IAElC,cAAc;IACd,MAAM,MAAM,GAAG,WAAW,CAAC,GAAG,CAAC,MAAM,CAAC,CAAC;IACvC,IAAI,MAAM,EAAE,CAAC;QACX,MAAM,CAAC,QAAQ,GAAG,IAAI,CAAC,GAAG,EAAE,CAAC;QAC7B,OAAO,MAAM,CAAC,MAAM,CAAC;IACvB,CAAC;IAED,6EAA6E;IAC7E,MAAM,MAAM,GAAG,IAAI,aAAa,CAAC,MAAM,EAAE,aAAa,CAAC,OAAO,CAAC,CAAC;IAChE,WAAW,CAAC,GAAG,CAAC,MAAM,EAAE,EAAE,MAAM,EAAE,QAAQ,EAAE,IAAI,CAAC,GAAG,EAAE,EAAE,CAAC,CAAC;IAC1D,gBAAgB,EAAE,CAAC;IAEnB,OAAO,MAAM,CAAC;AAChB,CAAC"}
|
package/dist/client/types.d.ts
CHANGED
|
@@ -32,15 +32,20 @@ export interface SearchResult extends Concept {
|
|
|
32
32
|
score?: number;
|
|
33
33
|
}
|
|
34
34
|
export interface Mapping {
|
|
35
|
-
concept_id
|
|
36
|
-
concept_name
|
|
37
|
-
vocabulary_id
|
|
38
|
-
concept_code
|
|
39
|
-
domain_id
|
|
40
|
-
standard_concept
|
|
41
|
-
concept_class_id
|
|
42
|
-
relationship_id
|
|
35
|
+
concept_id?: number;
|
|
36
|
+
concept_name?: string;
|
|
37
|
+
vocabulary_id?: string;
|
|
38
|
+
concept_code?: string;
|
|
39
|
+
domain_id?: string;
|
|
40
|
+
standard_concept?: string | null;
|
|
41
|
+
concept_class_id?: string;
|
|
42
|
+
relationship_id?: string;
|
|
43
43
|
relationship_name?: string;
|
|
44
|
+
target_concept_id?: number;
|
|
45
|
+
target_concept_name?: string;
|
|
46
|
+
source_concept_id?: number;
|
|
47
|
+
source_concept_name?: string;
|
|
48
|
+
confidence?: number;
|
|
44
49
|
}
|
|
45
50
|
export interface HierarchyNode extends Concept {
|
|
46
51
|
level?: number;
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"types.d.ts","sourceRoot":"","sources":["../../src/client/types.ts"],"names":[],"mappings":"AAAA,MAAM,WAAW,cAAc;IAC7B,IAAI,EAAE,MAAM,CAAC;IACb,SAAS,EAAE,MAAM,CAAC;IAClB,WAAW,EAAE,MAAM,CAAC;IACpB,WAAW,EAAE,MAAM,CAAC;IACpB,QAAQ,EAAE,OAAO,CAAC;IAClB,YAAY,EAAE,OAAO,CAAC;CACvB;AAED,MAAM,WAAW,WAAW,CAAC,CAAC;IAC5B,OAAO,EAAE,OAAO,CAAC;IACjB,IAAI,EAAE,CAAC,CAAC;IACR,IAAI,CAAC,EAAE;QACL,UAAU,CAAC,EAAE,cAAc,CAAC;QAC5B,iBAAiB,CAAC,EAAE,MAAM,CAAC;QAC3B,OAAO,CAAC,EAAE,MAAM,CAAC;KAClB,CAAC;CACH;AAED,MAAM,WAAW,OAAO;IACtB,UAAU,EAAE,MAAM,CAAC;IACnB,YAAY,EAAE,MAAM,CAAC;IACrB,SAAS,EAAE,MAAM,CAAC;IAClB,aAAa,EAAE,MAAM,CAAC;IACtB,gBAAgB,EAAE,MAAM,CAAC;IACzB,gBAAgB,EAAE,MAAM,GAAG,IAAI,CAAC;IAChC,YAAY,EAAE,MAAM,CAAC;IACrB,gBAAgB,CAAC,EAAE,MAAM,CAAC;IAC1B,cAAc,CAAC,EAAE,MAAM,CAAC;IACxB,cAAc,CAAC,EAAE,MAAM,GAAG,IAAI,CAAC;IAC/B,QAAQ,CAAC,EAAE,MAAM,EAAE,CAAC;CACrB;AAED,MAAM,WAAW,YAAa,SAAQ,OAAO;IAC3C,KAAK,CAAC,EAAE,MAAM,CAAC;CAChB;AAED,MAAM,WAAW,OAAO;
|
|
1
|
+
{"version":3,"file":"types.d.ts","sourceRoot":"","sources":["../../src/client/types.ts"],"names":[],"mappings":"AAAA,MAAM,WAAW,cAAc;IAC7B,IAAI,EAAE,MAAM,CAAC;IACb,SAAS,EAAE,MAAM,CAAC;IAClB,WAAW,EAAE,MAAM,CAAC;IACpB,WAAW,EAAE,MAAM,CAAC;IACpB,QAAQ,EAAE,OAAO,CAAC;IAClB,YAAY,EAAE,OAAO,CAAC;CACvB;AAED,MAAM,WAAW,WAAW,CAAC,CAAC;IAC5B,OAAO,EAAE,OAAO,CAAC;IACjB,IAAI,EAAE,CAAC,CAAC;IACR,IAAI,CAAC,EAAE;QACL,UAAU,CAAC,EAAE,cAAc,CAAC;QAC5B,iBAAiB,CAAC,EAAE,MAAM,CAAC;QAC3B,OAAO,CAAC,EAAE,MAAM,CAAC;KAClB,CAAC;CACH;AAED,MAAM,WAAW,OAAO;IACtB,UAAU,EAAE,MAAM,CAAC;IACnB,YAAY,EAAE,MAAM,CAAC;IACrB,SAAS,EAAE,MAAM,CAAC;IAClB,aAAa,EAAE,MAAM,CAAC;IACtB,gBAAgB,EAAE,MAAM,CAAC;IACzB,gBAAgB,EAAE,MAAM,GAAG,IAAI,CAAC;IAChC,YAAY,EAAE,MAAM,CAAC;IACrB,gBAAgB,CAAC,EAAE,MAAM,CAAC;IAC1B,cAAc,CAAC,EAAE,MAAM,CAAC;IACxB,cAAc,CAAC,EAAE,MAAM,GAAG,IAAI,CAAC;IAC/B,QAAQ,CAAC,EAAE,MAAM,EAAE,CAAC;CACrB;AAED,MAAM,WAAW,YAAa,SAAQ,OAAO;IAC3C,KAAK,CAAC,EAAE,MAAM,CAAC;CAChB;AAED,MAAM,WAAW,OAAO;IAEtB,UAAU,CAAC,EAAE,MAAM,CAAC;IACpB,YAAY,CAAC,EAAE,MAAM,CAAC;IACtB,aAAa,CAAC,EAAE,MAAM,CAAC;IACvB,YAAY,CAAC,EAAE,MAAM,CAAC;IACtB,SAAS,CAAC,EAAE,MAAM,CAAC;IACnB,gBAAgB,CAAC,EAAE,MAAM,GAAG,IAAI,CAAC;IACjC,gBAAgB,CAAC,EAAE,MAAM,CAAC;IAC1B,eAAe,CAAC,EAAE,MAAM,CAAC;IACzB,iBAAiB,CAAC,EAAE,MAAM,CAAC;IAE3B,iBAAiB,CAAC,EAAE,MAAM,CAAC;IAC3B,mBAAmB,CAAC,EAAE,MAAM,CAAC;IAC7B,iBAAiB,CAAC,EAAE,MAAM,CAAC;IAC3B,mBAAmB,CAAC,EAAE,MAAM,CAAC;IAC7B,UAAU,CAAC,EAAE,MAAM,CAAC;CACrB;AAED,MAAM,WAAW,aAAc,SAAQ,OAAO;IAC5C,KAAK,CAAC,EAAE,MAAM,CAAC;IACf,wBAAwB,CAAC,EAAE,MAAM,CAAC;IAClC,wBAAwB,CAAC,EAAE,MAAM,CAAC;CACnC;AAED,MAAM,WAAW,iBAAiB;IAChC,OAAO,EAAE,OAAO,CAAC;IACjB,SAAS,CAAC,EAAE,aAAa,EAAE,CAAC;IAC5B,WAAW,CAAC,EAAE,aAAa,EAAE,CAAC;IAC9B,eAAe,CAAC,EAAE,MAAM,CAAC;IACzB,iBAAiB,CAAC,EAAE,MAAM,CAAC;CAC5B;AAED,yFAAyF;AACzF,MAAM,WAAW,oBAAoB;IACnC,UAAU,EAAE,MAAM,CAAC;IACnB,YAAY,CAAC,EAAE,MAAM,CAAC;IACtB,aAAa,CAAC,EAAE,MAAM,CAAC;IACvB,SAAS,CAAC,EAAE,aAAa,EAAE,CAAC;IAC5B,WAAW,CAAC,EAAE,aAAa,EAAE,CAAC;IAC9B,eAAe,CAAC,EAAE,MAAM,CAAC;IACzB,iBAAiB,CAAC,EAAE,MAAM,CAAC;IAC3B,iBAAiB,CAAC,EAAE;QAClB,eAAe,CAAC,EAAE,MAAM,CAAC;QACzB,iBAAiB,CAAC,EAAE,MAAM,CAAC;KAC5B,CAAC;CACH;AAED,MAAM,WAAW,UAAU;IACzB,aAAa,EAAE,MAAM,CAAC;IACtB,eAAe,EAAE,MAAM,CAAC;IACxB,oBAAoB,CAAC,EAAE,MAAM,CAAC;IAC9B,kBAAkB,CAAC,EAAE,MAAM,CAAC;IAC5B,qBAAqB,CAAC,EAAE,MAAM,CAAC;IAC/B,aAAa,CAAC,EAAE,MAAM,CAAC;IACvB,sBAAsB,CAAC,EAAE,MAAM,CAAC;IAChC,eAAe,CAAC,EAAE,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;CAC1C;AAED,MAAM,WAAW,gBAAgB;IAC/B,cAAc,EAAE,OAAO,CAAC;IACxB,QAAQ,EAAE,OAAO,EAAE,CAAC;IACpB,cAAc,EAAE,MAAM,CAAC;CACxB"}
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../../src/formatters/index.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EACV,WAAW,EACX,OAAO,EAEP,iBAAiB,EAEjB,gBAAgB,EAChB,YAAY,EACZ,UAAU,EACX,MAAM,oBAAoB,CAAC;AAa5B,wBAAgB,iBAAiB,CAC/B,QAAQ,EAAE,WAAW,CAAC,YAAY,EAAE,CAAC,EACrC,KAAK,EAAE,MAAM,GACZ;IAAE,IAAI,EAAE,MAAM,CAAC;IAAC,IAAI,EAAE,MAAM,CAAA;CAAE,CAyChC;AAED,wBAAgB,aAAa,CAAC,OAAO,EAAE,OAAO,GAAG;IAAE,IAAI,EAAE,MAAM,CAAC;IAAC,IAAI,EAAE,MAAM,CAAA;CAAE,CAgC9E;
|
|
1
|
+
{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../../src/formatters/index.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EACV,WAAW,EACX,OAAO,EAEP,iBAAiB,EAEjB,gBAAgB,EAChB,YAAY,EACZ,UAAU,EACX,MAAM,oBAAoB,CAAC;AAa5B,wBAAgB,iBAAiB,CAC/B,QAAQ,EAAE,WAAW,CAAC,YAAY,EAAE,CAAC,EACrC,KAAK,EAAE,MAAM,GACZ;IAAE,IAAI,EAAE,MAAM,CAAC;IAAC,IAAI,EAAE,MAAM,CAAA;CAAE,CAyChC;AAED,wBAAgB,aAAa,CAAC,OAAO,EAAE,OAAO,GAAG;IAAE,IAAI,EAAE,MAAM,CAAC;IAAC,IAAI,EAAE,MAAM,CAAA;CAAE,CAgC9E;AAqBD,wBAAgB,cAAc,CAC5B,QAAQ,EAAE,WAAW,CAAC,gBAAgB,CAAC,EACvC,SAAS,EAAE,MAAM,GAChB;IAAE,IAAI,EAAE,MAAM,CAAC;IAAC,IAAI,EAAE,MAAM,CAAA;CAAE,CA6ChC;AAED,wBAAgB,eAAe,CAC7B,QAAQ,EAAE,WAAW,CAAC,iBAAiB,CAAC,EACxC,SAAS,EAAE,IAAI,GAAG,MAAM,GAAG,MAAM,GAChC;IAAE,IAAI,EAAE,MAAM,CAAC;IAAC,IAAI,EAAE,MAAM,CAAA;CAAE,CAsDhC;AAED,wBAAgB,oBAAoB,CAClC,QAAQ,EAAE,WAAW,CAAC,UAAU,EAAE,CAAC,EACnC,MAAM,CAAC,EAAE,MAAM,GACd;IAAE,IAAI,EAAE,MAAM,CAAC;IAAC,IAAI,EAAE,MAAM,CAAA;CAAE,CAwChC;AAED,wBAAgB,WAAW,CAAC,KAAK,EAAE,MAAM,GAAG;IAAE,IAAI,EAAE,MAAM,CAAC;IAAC,IAAI,EAAE,MAAM,CAAA;CAAE,CAKzE"}
|
package/dist/formatters/index.js
CHANGED
|
@@ -76,6 +76,17 @@ export function formatConcept(concept) {
|
|
|
76
76
|
json: JSON.stringify(concept),
|
|
77
77
|
};
|
|
78
78
|
}
|
|
79
|
+
/** Normalize a mapping to flat target fields regardless of API shape */
|
|
80
|
+
function normalizeMapping(m) {
|
|
81
|
+
return {
|
|
82
|
+
concept_id: m.concept_id ?? m.target_concept_id,
|
|
83
|
+
concept_name: m.concept_name ?? m.target_concept_name ?? 'Unknown',
|
|
84
|
+
vocabulary_id: m.vocabulary_id ?? '',
|
|
85
|
+
concept_code: m.concept_code ?? '',
|
|
86
|
+
relationship_id: m.relationship_id ?? 'Maps to',
|
|
87
|
+
standard_concept: m.standard_concept,
|
|
88
|
+
};
|
|
89
|
+
}
|
|
79
90
|
export function formatMappings(response, conceptId) {
|
|
80
91
|
const data = response.data;
|
|
81
92
|
const mappings = data.mappings;
|
|
@@ -92,7 +103,13 @@ export function formatMappings(response, conceptId) {
|
|
|
92
103
|
}
|
|
93
104
|
const source = data.source_concept;
|
|
94
105
|
const header = `Mappings for **${source?.concept_name || `Concept ${conceptId}`}** (${source?.vocabulary_id || 'unknown'} → targets):`;
|
|
95
|
-
const
|
|
106
|
+
const normalized = mappings.map(normalizeMapping);
|
|
107
|
+
const lines = normalized.map((m, i) => {
|
|
108
|
+
const idPart = m.concept_id ? ` (ID: ${m.concept_id})` : '';
|
|
109
|
+
const vocabPart = m.vocabulary_id ? ` ${m.vocabulary_id} |` : '';
|
|
110
|
+
const codePart = m.concept_code ? ` Code: ${m.concept_code} |` : '';
|
|
111
|
+
return `${i + 1}. **${m.concept_name}**${idPart}\n ${vocabPart}${codePart} Relationship: ${m.relationship_id}`;
|
|
112
|
+
});
|
|
96
113
|
return {
|
|
97
114
|
text: `${header}\n\n${lines.join('\n\n')}`,
|
|
98
115
|
json: JSON.stringify({
|
|
@@ -100,11 +117,11 @@ export function formatMappings(response, conceptId) {
|
|
|
100
117
|
source_concept_name: source?.concept_name,
|
|
101
118
|
mapped: true,
|
|
102
119
|
total_mappings: data.total_mappings ?? mappings.length,
|
|
103
|
-
mappings:
|
|
120
|
+
mappings: normalized.map((m) => ({
|
|
104
121
|
concept_id: m.concept_id,
|
|
105
122
|
concept_name: m.concept_name,
|
|
106
|
-
vocabulary_id: m.vocabulary_id,
|
|
107
|
-
concept_code: m.concept_code,
|
|
123
|
+
vocabulary_id: m.vocabulary_id || undefined,
|
|
124
|
+
concept_code: m.concept_code || undefined,
|
|
108
125
|
relationship_id: m.relationship_id,
|
|
109
126
|
standard_concept: m.standard_concept,
|
|
110
127
|
})),
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/formatters/index.ts"],"names":[],"mappings":"AAWA,SAAS,WAAW,CAAC,CAAyB,EAAE,KAAc;IAC5D,MAAM,MAAM,GAAG,KAAK,KAAK,SAAS,CAAC,CAAC,CAAC,GAAG,KAAK,GAAG,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC;IAC3D,MAAM,GAAG,GACP,CAAC,CAAC,gBAAgB,KAAK,GAAG;QACxB,CAAC,CAAC,aAAa;QACf,CAAC,CAAC,CAAC,CAAC,gBAAgB,KAAK,GAAG;YAC1B,CAAC,CAAC,mBAAmB;YACrB,CAAC,CAAC,EAAE,CAAC;IACX,OAAO,GAAG,MAAM,KAAK,CAAC,CAAC,YAAY,WAAW,CAAC,CAAC,UAAU,SAAS,CAAC,CAAC,aAAa,MAAM,CAAC,CAAC,SAAS,YAAY,CAAC,CAAC,YAAY,GAAG,GAAG,EAAE,CAAC;AACxI,CAAC;AAED,MAAM,UAAU,iBAAiB,CAC/B,QAAqC,EACrC,KAAa;IAEb,MAAM,OAAO,GAAG,QAAQ,CAAC,IAAI,CAAC;IAC9B,MAAM,UAAU,GAAG,QAAQ,CAAC,IAAI,EAAE,UAAU,CAAC;IAC7C,MAAM,KAAK,GAAG,UAAU,EAAE,WAAW,IAAI,OAAO,CAAC,MAAM,CAAC;IACxD,MAAM,IAAI,GAAG,UAAU,EAAE,IAAI,IAAI,CAAC,CAAC;IACnC,MAAM,UAAU,GAAG,UAAU,EAAE,WAAW,IAAI,CAAC,CAAC;IAEhD,IAAI,OAAO,CAAC,MAAM,KAAK,CAAC,EAAE,CAAC;QACzB,OAAO;YACL,IAAI,EAAE,0BAA0B,KAAK,8DAA8D;YACnG,IAAI,EAAE,IAAI,CAAC,SAAS,CAAC,EAAE,OAAO,EAAE,EAAE,EAAE,KAAK,EAAE,IAAI,EAAE,WAAW,EAAE,UAAU,EAAE,KAAK,EAAE,CAAC;SACnF,CAAC;IACJ,CAAC;IAED,MAAM,KAAK,GAAG,OAAO,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,WAAW,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC;IACvD,MAAM,MAAM,GAAG,SAAS,KAAK,WAAW,KAAK,KAAK,CAAC,CAAC,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,SAAS,KAAK,mBAAmB,IAAI,OAAO,UAAU,IAAI,CAAC;IAEzH,IAAI,IAAI,GAAG,GAAG,MAAM,OAAO,KAAK,CAAC,IAAI,CAAC,MAAM,CAAC,EAAE,CAAC;IAEhD,IAAI,UAAU,EAAE,QAAQ,EAAE,CAAC;QACzB,IAAI,IAAI,kBAAkB,IAAI,GAAG,CAAC,uBAAuB,CAAC;IAC5D,CAAC;IAED,OAAO;QACL,IAAI;QACJ,IAAI,EAAE,IAAI,CAAC,SAAS,CAAC;YACnB,OAAO,EAAE,OAAO,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC;gBAC3B,UAAU,EAAE,CAAC,CAAC,UAAU;gBACxB,YAAY,EAAE,CAAC,CAAC,YAAY;gBAC5B,aAAa,EAAE,CAAC,CAAC,aAAa;gBAC9B,SAAS,EAAE,CAAC,CAAC,SAAS;gBACtB,YAAY,EAAE,CAAC,CAAC,YAAY;gBAC5B,gBAAgB,EAAE,CAAC,CAAC,gBAAgB;gBACpC,gBAAgB,EAAE,CAAC,CAAC,gBAAgB;aACrC,CAAC,CAAC;YACH,KAAK;YACL,IAAI;YACJ,WAAW,EAAE,UAAU;YACvB,KAAK;SACN,CAAC;KACH,CAAC;AACJ,CAAC;AAED,MAAM,UAAU,aAAa,CAAC,OAAgB;IAC5C,MAAM,GAAG,GACP,OAAO,CAAC,gBAAgB,KAAK,GAAG;QAC9B,CAAC,CAAC,UAAU;QACZ,CAAC,CAAC,OAAO,CAAC,gBAAgB,KAAK,GAAG;YAChC,CAAC,CAAC,gBAAgB;YAClB,CAAC,CAAC,cAAc,CAAC;IAEvB,MAAM,KAAK,GAAG;QACZ,KAAK,OAAO,CAAC,YAAY,IAAI;QAC7B,EAAE;QACF,mBAAmB;QACnB,mBAAmB;QACnB,kBAAkB,OAAO,CAAC,UAAU,IAAI;QACxC,kBAAkB,OAAO,CAAC,aAAa,IAAI;QAC3C,cAAc,OAAO,CAAC,SAAS,IAAI;QACnC,qBAAqB,OAAO,CAAC,gBAAgB,IAAI;QACjD,oBAAoB,OAAO,CAAC,YAAY,IAAI;QAC5C,uBAAuB,GAAG,IAAI;KAC/B,CAAC;IAEF,IAAI,OAAO,CAAC,gBAAgB;QAAE,KAAK,CAAC,IAAI,CAAC,kBAAkB,OAAO,CAAC,gBAAgB,IAAI,CAAC,CAAC;IACzF,IAAI,OAAO,CAAC,cAAc;QAAE,KAAK,CAAC,IAAI,CAAC,gBAAgB,OAAO,CAAC,cAAc,IAAI,CAAC,CAAC;IACnF,IAAI,OAAO,CAAC,cAAc;QAAE,KAAK,CAAC,IAAI,CAAC,sBAAsB,OAAO,CAAC,cAAc,IAAI,CAAC,CAAC;IACzF,IAAI,OAAO,CAAC,QAAQ,IAAI,OAAO,CAAC,QAAQ,CAAC,MAAM,GAAG,CAAC,EAAE,CAAC;QACpD,KAAK,CAAC,IAAI,CAAC,gBAAgB,OAAO,CAAC,QAAQ,CAAC,IAAI,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC;IAC9D,CAAC;IAED,OAAO;QACL,IAAI,EAAE,KAAK,CAAC,IAAI,CAAC,IAAI,CAAC;QACtB,IAAI,EAAE,IAAI,CAAC,SAAS,CAAC,OAAO,CAAC;KAC9B,CAAC;AACJ,CAAC;AAED,MAAM,UAAU,cAAc,CAC5B,QAAuC,EACvC,SAAiB;IAEjB,MAAM,IAAI,GAAG,QAAQ,CAAC,IAAI,CAAC;IAC3B,MAAM,QAAQ,GAAG,IAAI,CAAC,QAAQ,CAAC;IAE/B,IAAI,CAAC,QAAQ,IAAI,QAAQ,CAAC,MAAM,KAAK,CAAC,EAAE,CAAC;QACvC,OAAO;YACL,IAAI,EAAE,iCAAiC,SAAS,KAAK,IAAI,CAAC,cAAc,EAAE,YAAY,IAAI,SAAS,IAAI;YACvG,IAAI,EAAE,IAAI,CAAC,SAAS,CAAC;gBACnB,iBAAiB,EAAE,SAAS;gBAC5B,mBAAmB,EAAE,IAAI,CAAC,cAAc,EAAE,YAAY;gBACtD,MAAM,EAAE,KAAK;gBACb,QAAQ,EAAE,EAAE;aACb,CAAC;SACH,CAAC;IACJ,CAAC;IAED,MAAM,MAAM,GAAG,IAAI,CAAC,cAAc,CAAC;IACnC,MAAM,MAAM,GAAG,kBAAkB,MAAM,EAAE,YAAY,IAAI,WAAW,SAAS,EAAE,OAAO,MAAM,EAAE,aAAa,IAAI,SAAS,cAAc,CAAC;IAEvI,MAAM,
|
|
1
|
+
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|
package/dist/index.d.ts.map
CHANGED
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":";AAWA,MAAM,MAAM,aAAa,GAAG,OAAO,GAAG,MAAM,CAAC;AAI7C,wBAAgB,SAAS,CAAC,IAAI,EAAE,MAAM,EAAE,GAAG;IACzC,MAAM,CAAC,EAAE,MAAM,CAAC;IAChB,OAAO,CAAC,EAAE,MAAM,CAAC;IACjB,UAAU,CAAC,EAAE,MAAM,CAAC;IACpB,SAAS,CAAC,EAAE,aAAa,CAAC;IAC1B,IAAI,CAAC,EAAE,MAAM,CAAC;CACf,CAiCA;AAED,wBAAgB,iBAAiB,CAAC,OAAO,CAAC,EAAE,MAAM,GAAG,MAAM,GAAG,SAAS,CAYtE;AAED,wBAAgB,gBAAgB,CAAC,YAAY,CAAC,EAAE,aAAa,GAAG,aAAa,CAS5E;AAED,wBAAgB,WAAW,CAAC,OAAO,CAAC,EAAE,MAAM,GAAG,MAAM,CAYpD;AAED,wBAAsB,IAAI,IAAI,OAAO,CAAC,IAAI,CAAC,
|
|
1
|
+
{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":";AAWA,MAAM,MAAM,aAAa,GAAG,OAAO,GAAG,MAAM,CAAC;AAI7C,wBAAgB,SAAS,CAAC,IAAI,EAAE,MAAM,EAAE,GAAG;IACzC,MAAM,CAAC,EAAE,MAAM,CAAC;IAChB,OAAO,CAAC,EAAE,MAAM,CAAC;IACjB,UAAU,CAAC,EAAE,MAAM,CAAC;IACpB,SAAS,CAAC,EAAE,aAAa,CAAC;IAC1B,IAAI,CAAC,EAAE,MAAM,CAAC;CACf,CAiCA;AAED,wBAAgB,iBAAiB,CAAC,OAAO,CAAC,EAAE,MAAM,GAAG,MAAM,GAAG,SAAS,CAYtE;AAED,wBAAgB,gBAAgB,CAAC,YAAY,CAAC,EAAE,aAAa,GAAG,aAAa,CAS5E;AAED,wBAAgB,WAAW,CAAC,OAAO,CAAC,EAAE,MAAM,GAAG,MAAM,CAYpD;AAED,wBAAsB,IAAI,IAAI,OAAO,CAAC,IAAI,CAAC,CAoC1C"}
|
package/dist/index.js
CHANGED
|
@@ -73,16 +73,17 @@ export function resolvePort(cliPort) {
|
|
|
73
73
|
}
|
|
74
74
|
export async function main() {
|
|
75
75
|
const args = parseArgs(process.argv);
|
|
76
|
-
|
|
77
|
-
|
|
78
|
-
|
|
79
|
-
|
|
80
|
-
|
|
81
|
-
logger.error(error instanceof Error ? error.message : String(error));
|
|
76
|
+
const apiKey = resolveApiKey(args.apiKey);
|
|
77
|
+
const transportType = resolveTransport(args.transport);
|
|
78
|
+
if (!apiKey && transportType === 'stdio') {
|
|
79
|
+
logger.error('OMOPHub API key required for stdio mode. Set OMOPHUB_API_KEY or pass --api-key=KEY.\n' +
|
|
80
|
+
'Get your free API key at: https://dashboard.omophub.com/api-keys');
|
|
82
81
|
process.exit(1);
|
|
83
82
|
}
|
|
83
|
+
if (!apiKey) {
|
|
84
|
+
logger.info('No default API key — hosted mode: all requests must include Authorization: Bearer header');
|
|
85
|
+
}
|
|
84
86
|
const server = createServer(apiKey, args.baseUrl);
|
|
85
|
-
const transportType = resolveTransport(args.transport);
|
|
86
87
|
if (transportType === 'http') {
|
|
87
88
|
const port = resolvePort(args.port);
|
|
88
89
|
logger.info('Starting OMOPHub MCP server (http transport)');
|
package/dist/index.js.map
CHANGED
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"index.js","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":";AAEA,OAAO,EAAE,YAAY,EAAE,MAAM,SAAS,CAAC;AACvC,OAAO,GAAG,MAAM,UAAU,CAAC;AAC3B,OAAO,EAAE,oBAAoB,EAAE,MAAM,2CAA2C,CAAC;AACjF,OAAO,EAAE,iBAAiB,EAAE,MAAM,aAAa,CAAC;AAChD,OAAO,EAAE,YAAY,EAAE,MAAM,aAAa,CAAC;AAC3C,OAAO,EAAE,kBAAkB,EAAE,MAAM,sBAAsB,CAAC;AAC1D,OAAO,EAAE,aAAa,EAAE,MAAM,iBAAiB,CAAC;AAChD,OAAO,EAAE,MAAM,EAAE,MAAM,mBAAmB,CAAC;AAI3C,MAAM,iBAAiB,GAAG,IAAI,CAAC;AAE/B,MAAM,UAAU,SAAS,CAAC,IAAc;IAOtC,MAAM,MAAM,GAMR,EAAE,CAAC;IAEP,KAAK,MAAM,GAAG,IAAI,IAAI,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE,CAAC;QAChC,IAAI,GAAG,CAAC,UAAU,CAAC,YAAY,CAAC,EAAE,CAAC;YACjC,MAAM,CAAC,MAAM,GAAG,GAAG,CAAC,KAAK,CAAC,YAAY,CAAC,MAAM,CAAC,CAAC;QACjD,CAAC;aAAM,IAAI,GAAG,CAAC,UAAU,CAAC,aAAa,CAAC,EAAE,CAAC;YACzC,MAAM,CAAC,OAAO,GAAG,GAAG,CAAC,KAAK,CAAC,aAAa,CAAC,MAAM,CAAC,CAAC;QACnD,CAAC;aAAM,IAAI,GAAG,CAAC,UAAU,CAAC,gBAAgB,CAAC,EAAE,CAAC;YAC5C,MAAM,IAAI,GAAG,QAAQ,CAAC,GAAG,CAAC,KAAK,CAAC,gBAAgB,CAAC,MAAM,CAAC,EAAE,EAAE,CAAC,CAAC;YAC9D,IAAI,CAAC,MAAM,CAAC,KAAK,CAAC,IAAI,CAAC,IAAI,IAAI,GAAG,CAAC,IAAI,IAAI,GAAG,KAAK,EAAE,CAAC;gBACpD,MAAM,CAAC,UAAU,GAAG,IAAI,CAAC;YAC3B,CAAC;QACH,CAAC;aAAM,IAAI,GAAG,CAAC,UAAU,CAAC,cAAc,CAAC,EAAE,CAAC;YAC1C,MAAM,KAAK,GAAG,GAAG,CAAC,KAAK,CAAC,cAAc,CAAC,MAAM,CAAC,CAAC;YAC/C,IAAI,KAAK,KAAK,OAAO,IAAI,KAAK,KAAK,MAAM,EAAE,CAAC;gBAC1C,MAAM,CAAC,SAAS,GAAG,KAAK,CAAC;YAC3B,CAAC;QACH,CAAC;aAAM,IAAI,GAAG,CAAC,UAAU,CAAC,SAAS,CAAC,EAAE,CAAC;YACrC,MAAM,IAAI,GAAG,QAAQ,CAAC,GAAG,CAAC,KAAK,CAAC,SAAS,CAAC,MAAM,CAAC,EAAE,EAAE,CAAC,CAAC;YACvD,IAAI,CAAC,MAAM,CAAC,KAAK,CAAC,IAAI,CAAC,IAAI,IAAI,GAAG,CAAC,IAAI,IAAI,GAAG,KAAK,EAAE,CAAC;gBACpD,MAAM,CAAC,IAAI,GAAG,IAAI,CAAC;YACrB,CAAC;QACH,CAAC;IACH,CAAC;IAED,OAAO,MAAM,CAAC;AAChB,CAAC;AAED,MAAM,UAAU,iBAAiB,CAAC,OAAgB;IAChD,IAAI,OAAO,KAAK,SAAS;QAAE,OAAO,OAAO,CAAC;IAE1C,MAAM,OAAO,GAAG,OAAO,CAAC,GAAG,CAAC,WAAW,CAAC;IACxC,IAAI,OAAO,EAAE,CAAC;QACZ,MAAM,IAAI,GAAG,QAAQ,CAAC,OAAO,EAAE,EAAE,CAAC,CAAC;QACnC,IAAI,CAAC,MAAM,CAAC,KAAK,CAAC,IAAI,CAAC,IAAI,IAAI,GAAG,CAAC,IAAI,IAAI,GAAG,KAAK,EAAE,CAAC;YACpD,OAAO,IAAI,CAAC;QACd,CAAC;IACH,CAAC;IAED,OAAO,SAAS,CAAC;AACnB,CAAC;AAED,MAAM,UAAU,gBAAgB,CAAC,YAA4B;IAC3D,IAAI,YAAY;QAAE,OAAO,YAAY,CAAC;IAEtC,MAAM,YAAY,GAAG,OAAO,CAAC,GAAG,CAAC,aAAa,CAAC;IAC/C,IAAI,YAAY,KAAK,MAAM,IAAI,YAAY,KAAK,OAAO,EAAE,CAAC;QACxD,OAAO,YAAY,CAAC;IACtB,CAAC;IAED,OAAO,OAAO,CAAC;AACjB,CAAC;AAED,MAAM,UAAU,WAAW,CAAC,OAAgB;IAC1C,IAAI,OAAO,KAAK,SAAS;QAAE,OAAO,OAAO,CAAC;IAE1C,MAAM,OAAO,GAAG,OAAO,CAAC,GAAG,CAAC,QAAQ,CAAC;IACrC,IAAI,OAAO,EAAE,CAAC;QACZ,MAAM,IAAI,GAAG,QAAQ,CAAC,OAAO,EAAE,EAAE,CAAC,CAAC;QACnC,IAAI,CAAC,MAAM,CAAC,KAAK,CAAC,IAAI,CAAC,IAAI,IAAI,GAAG,CAAC,IAAI,IAAI,GAAG,KAAK,EAAE,CAAC;YACpD,OAAO,IAAI,CAAC;QACd,CAAC;IACH,CAAC;IAED,OAAO,iBAAiB,CAAC;AAC3B,CAAC;AAED,MAAM,CAAC,KAAK,UAAU,IAAI;IACxB,MAAM,IAAI,GAAG,SAAS,CAAC,OAAO,CAAC,IAAI,CAAC,CAAC;IAErC,
|
|
1
|
+
{"version":3,"file":"index.js","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":";AAEA,OAAO,EAAE,YAAY,EAAE,MAAM,SAAS,CAAC;AACvC,OAAO,GAAG,MAAM,UAAU,CAAC;AAC3B,OAAO,EAAE,oBAAoB,EAAE,MAAM,2CAA2C,CAAC;AACjF,OAAO,EAAE,iBAAiB,EAAE,MAAM,aAAa,CAAC;AAChD,OAAO,EAAE,YAAY,EAAE,MAAM,aAAa,CAAC;AAC3C,OAAO,EAAE,kBAAkB,EAAE,MAAM,sBAAsB,CAAC;AAC1D,OAAO,EAAE,aAAa,EAAE,MAAM,iBAAiB,CAAC;AAChD,OAAO,EAAE,MAAM,EAAE,MAAM,mBAAmB,CAAC;AAI3C,MAAM,iBAAiB,GAAG,IAAI,CAAC;AAE/B,MAAM,UAAU,SAAS,CAAC,IAAc;IAOtC,MAAM,MAAM,GAMR,EAAE,CAAC;IAEP,KAAK,MAAM,GAAG,IAAI,IAAI,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE,CAAC;QAChC,IAAI,GAAG,CAAC,UAAU,CAAC,YAAY,CAAC,EAAE,CAAC;YACjC,MAAM,CAAC,MAAM,GAAG,GAAG,CAAC,KAAK,CAAC,YAAY,CAAC,MAAM,CAAC,CAAC;QACjD,CAAC;aAAM,IAAI,GAAG,CAAC,UAAU,CAAC,aAAa,CAAC,EAAE,CAAC;YACzC,MAAM,CAAC,OAAO,GAAG,GAAG,CAAC,KAAK,CAAC,aAAa,CAAC,MAAM,CAAC,CAAC;QACnD,CAAC;aAAM,IAAI,GAAG,CAAC,UAAU,CAAC,gBAAgB,CAAC,EAAE,CAAC;YAC5C,MAAM,IAAI,GAAG,QAAQ,CAAC,GAAG,CAAC,KAAK,CAAC,gBAAgB,CAAC,MAAM,CAAC,EAAE,EAAE,CAAC,CAAC;YAC9D,IAAI,CAAC,MAAM,CAAC,KAAK,CAAC,IAAI,CAAC,IAAI,IAAI,GAAG,CAAC,IAAI,IAAI,GAAG,KAAK,EAAE,CAAC;gBACpD,MAAM,CAAC,UAAU,GAAG,IAAI,CAAC;YAC3B,CAAC;QACH,CAAC;aAAM,IAAI,GAAG,CAAC,UAAU,CAAC,cAAc,CAAC,EAAE,CAAC;YAC1C,MAAM,KAAK,GAAG,GAAG,CAAC,KAAK,CAAC,cAAc,CAAC,MAAM,CAAC,CAAC;YAC/C,IAAI,KAAK,KAAK,OAAO,IAAI,KAAK,KAAK,MAAM,EAAE,CAAC;gBAC1C,MAAM,CAAC,SAAS,GAAG,KAAK,CAAC;YAC3B,CAAC;QACH,CAAC;aAAM,IAAI,GAAG,CAAC,UAAU,CAAC,SAAS,CAAC,EAAE,CAAC;YACrC,MAAM,IAAI,GAAG,QAAQ,CAAC,GAAG,CAAC,KAAK,CAAC,SAAS,CAAC,MAAM,CAAC,EAAE,EAAE,CAAC,CAAC;YACvD,IAAI,CAAC,MAAM,CAAC,KAAK,CAAC,IAAI,CAAC,IAAI,IAAI,GAAG,CAAC,IAAI,IAAI,GAAG,KAAK,EAAE,CAAC;gBACpD,MAAM,CAAC,IAAI,GAAG,IAAI,CAAC;YACrB,CAAC;QACH,CAAC;IACH,CAAC;IAED,OAAO,MAAM,CAAC;AAChB,CAAC;AAED,MAAM,UAAU,iBAAiB,CAAC,OAAgB;IAChD,IAAI,OAAO,KAAK,SAAS;QAAE,OAAO,OAAO,CAAC;IAE1C,MAAM,OAAO,GAAG,OAAO,CAAC,GAAG,CAAC,WAAW,CAAC;IACxC,IAAI,OAAO,EAAE,CAAC;QACZ,MAAM,IAAI,GAAG,QAAQ,CAAC,OAAO,EAAE,EAAE,CAAC,CAAC;QACnC,IAAI,CAAC,MAAM,CAAC,KAAK,CAAC,IAAI,CAAC,IAAI,IAAI,GAAG,CAAC,IAAI,IAAI,GAAG,KAAK,EAAE,CAAC;YACpD,OAAO,IAAI,CAAC;QACd,CAAC;IACH,CAAC;IAED,OAAO,SAAS,CAAC;AACnB,CAAC;AAED,MAAM,UAAU,gBAAgB,CAAC,YAA4B;IAC3D,IAAI,YAAY;QAAE,OAAO,YAAY,CAAC;IAEtC,MAAM,YAAY,GAAG,OAAO,CAAC,GAAG,CAAC,aAAa,CAAC;IAC/C,IAAI,YAAY,KAAK,MAAM,IAAI,YAAY,KAAK,OAAO,EAAE,CAAC;QACxD,OAAO,YAAY,CAAC;IACtB,CAAC;IAED,OAAO,OAAO,CAAC;AACjB,CAAC;AAED,MAAM,UAAU,WAAW,CAAC,OAAgB;IAC1C,IAAI,OAAO,KAAK,SAAS;QAAE,OAAO,OAAO,CAAC;IAE1C,MAAM,OAAO,GAAG,OAAO,CAAC,GAAG,CAAC,QAAQ,CAAC;IACrC,IAAI,OAAO,EAAE,CAAC;QACZ,MAAM,IAAI,GAAG,QAAQ,CAAC,OAAO,EAAE,EAAE,CAAC,CAAC;QACnC,IAAI,CAAC,MAAM,CAAC,KAAK,CAAC,IAAI,CAAC,IAAI,IAAI,GAAG,CAAC,IAAI,IAAI,GAAG,KAAK,EAAE,CAAC;YACpD,OAAO,IAAI,CAAC;QACd,CAAC;IACH,CAAC;IAED,OAAO,iBAAiB,CAAC;AAC3B,CAAC;AAED,MAAM,CAAC,KAAK,UAAU,IAAI;IACxB,MAAM,IAAI,GAAG,SAAS,CAAC,OAAO,CAAC,IAAI,CAAC,CAAC;IAErC,MAAM,MAAM,GAAG,aAAa,CAAC,IAAI,CAAC,MAAM,CAAC,CAAC;IAC1C,MAAM,aAAa,GAAG,gBAAgB,CAAC,IAAI,CAAC,SAAS,CAAC,CAAC;IAEvD,IAAI,CAAC,MAAM,IAAI,aAAa,KAAK,OAAO,EAAE,CAAC;QACzC,MAAM,CAAC,KAAK,CACV,uFAAuF;YACrF,kEAAkE,CACrE,CAAC;QACF,OAAO,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC;IAClB,CAAC;IAED,IAAI,CAAC,MAAM,EAAE,CAAC;QACZ,MAAM,CAAC,IAAI,CACT,0FAA0F,CAC3F,CAAC;IACJ,CAAC;IAED,MAAM,MAAM,GAAG,YAAY,CAAC,MAAM,EAAE,IAAI,CAAC,OAAO,CAAC,CAAC;IAElD,IAAI,aAAa,KAAK,MAAM,EAAE,CAAC;QAC7B,MAAM,IAAI,GAAG,WAAW,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC;QACpC,MAAM,CAAC,IAAI,CAAC,8CAA8C,CAAC,CAAC;QAC5D,MAAM,kBAAkB,CAAC,MAAM,EAAE,IAAI,CAAC,CAAC;IACzC,CAAC;SAAM,CAAC;QACN,MAAM,SAAS,GAAG,IAAI,oBAAoB,EAAE,CAAC;QAC7C,MAAM,CAAC,IAAI,CAAC,+CAA+C,CAAC,CAAC;QAC7D,MAAM,MAAM,CAAC,OAAO,CAAC,SAAS,CAAC,CAAC;QAEhC,MAAM,UAAU,GAAG,iBAAiB,CAAC,IAAI,CAAC,UAAU,CAAC,CAAC;QACtD,IAAI,UAAU,KAAK,SAAS,EAAE,CAAC;YAC7B,iBAAiB,CAAC,UAAU,CAAC,CAAC;QAChC,CAAC;IACH,CAAC;AACH,CAAC;AAED,SAAS,aAAa;IACpB,IAAI,CAAC,OAAO,CAAC,IAAI,CAAC,CAAC,CAAC;QAAE,OAAO,KAAK,CAAC;IACnC,IAAI,CAAC;QACH,OAAO,MAAM,CAAC,IAAI,CAAC,GAAG,KAAK,GAAG,CAAC,aAAa,CAAC,YAAY,CAAC,OAAO,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,IAAI,CAAC;IACnF,CAAC;IAAC,MAAM,CAAC;QACP,OAAO,KAAK,CAAC;IACf,CAAC;AACH,CAAC;AAED,MAAM,WAAW,GAAG,aAAa,EAAE,CAAC;AAEpC,IAAI,WAAW,EAAE,CAAC;IAChB,IAAI,EAAE,CAAC,KAAK,CAAC,CAAC,KAAc,EAAE,EAAE;QAC9B,MAAM,CAAC,KAAK,CAAC,aAAa,EAAE,EAAE,KAAK,EAAE,MAAM,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC;QACtD,OAAO,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC;IAClB,CAAC,CAAC,CAAC;AACL,CAAC"}
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../../src/resources/index.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AAEzE,OAAO,KAAK,EAAE,aAAa,EAAE,MAAM,kBAAkB,CAAC;
|
|
1
|
+
{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../../src/resources/index.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AAEzE,OAAO,KAAK,EAAE,aAAa,EAAE,MAAM,kBAAkB,CAAC;AA4CtD,wBAAgB,iBAAiB,CAAC,MAAM,EAAE,SAAS,EAAE,MAAM,EAAE,aAAa,GAAG,IAAI,CAsEhF"}
|
package/dist/resources/index.js
CHANGED
|
@@ -1,4 +1,5 @@
|
|
|
1
1
|
import { ResourceTemplate } from '@modelcontextprotocol/sdk/server/mcp.js';
|
|
2
|
+
import { resolveClient } from '../client/resolve.js';
|
|
2
3
|
import { vocabularyCache } from '../utils/cache.js';
|
|
3
4
|
const PAGE_SIZE = 100;
|
|
4
5
|
const CACHE_KEY = 'vocabularies:all';
|
|
@@ -26,8 +27,9 @@ async function getCachedVocabularies(client, toolName) {
|
|
|
26
27
|
}
|
|
27
28
|
export function registerResources(server, client) {
|
|
28
29
|
// Static resource: vocabulary catalog
|
|
29
|
-
server.resource('vocabulary-list', 'omophub://vocabularies', async (uri) => {
|
|
30
|
-
const
|
|
30
|
+
server.resource('vocabulary-list', 'omophub://vocabularies', async (uri, extra) => {
|
|
31
|
+
const rc = resolveClient(extra, client);
|
|
32
|
+
const vocabs = await getCachedVocabularies(rc, 'resource:vocabulary-list');
|
|
31
33
|
const text = vocabs
|
|
32
34
|
.map((v) => `${v.vocabulary_id}: ${v.vocabulary_name}${v.concept_count != null ? ` (${v.concept_count.toLocaleString()} concepts)` : ''}`)
|
|
33
35
|
.join('\n');
|
|
@@ -45,9 +47,10 @@ export function registerResources(server, client) {
|
|
|
45
47
|
const vocabularyTemplate = new ResourceTemplate('omophub://vocabularies/{vocabulary_id}', {
|
|
46
48
|
list: undefined,
|
|
47
49
|
});
|
|
48
|
-
server.resource('vocabulary-details', vocabularyTemplate, async (uri, variables) => {
|
|
50
|
+
server.resource('vocabulary-details', vocabularyTemplate, async (uri, variables, extra) => {
|
|
51
|
+
const rc = resolveClient(extra, client);
|
|
49
52
|
const vocabularyId = String(variables.vocabulary_id);
|
|
50
|
-
const vocabs = await getCachedVocabularies(
|
|
53
|
+
const vocabs = await getCachedVocabularies(rc, 'resource:vocabulary-details');
|
|
51
54
|
const vocab = vocabs.find((v) => v.vocabulary_id.toLowerCase() === vocabularyId.toLowerCase());
|
|
52
55
|
if (!vocab) {
|
|
53
56
|
return {
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/resources/index.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,gBAAgB,EAAE,MAAM,yCAAyC,CAAC;
|
|
1
|
+
{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/resources/index.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,gBAAgB,EAAE,MAAM,yCAAyC,CAAC;AAE3E,OAAO,EAAE,aAAa,EAAE,MAAM,sBAAsB,CAAC;AAErD,OAAO,EAAE,eAAe,EAAE,MAAM,mBAAmB,CAAC;AAEpD,MAAM,SAAS,GAAG,GAAG,CAAC;AACtB,MAAM,SAAS,GAAG,kBAAkB,CAAC;AAErC,KAAK,UAAU,oBAAoB,CACjC,MAAqB,EACrB,QAAgB;IAEhB,MAAM,GAAG,GAAiB,EAAE,CAAC;IAC7B,IAAI,IAAI,GAAG,CAAC,CAAC;IAEb,uEAAuE;IACvE,OAAO,IAAI,EAAE,CAAC;QACZ,MAAM,GAAG,GAAG,MAAM,MAAM,CAAC,OAAO,CAC9B,eAAe,EACf,EAAE,aAAa,EAAE,IAAI,EAAE,SAAS,EAAE,SAAS,EAAE,IAAI,EAAE,EACnD,QAAQ,CACT,CAAC;QACF,MAAM,KAAK,GAAG,GAAG,CAAC,IAAI,CAAC,YAAY,CAAC;QACpC,GAAG,CAAC,IAAI,CAAC,GAAG,KAAK,CAAC,CAAC;QAEnB,IAAI,KAAK,CAAC,MAAM,GAAG,SAAS,IAAI,CAAC,GAAG,CAAC,IAAI,EAAE,UAAU,EAAE,QAAQ;YAAE,MAAM;QACvE,IAAI,EAAE,CAAC;IACT,CAAC;IAED,OAAO,GAAG,CAAC;AACb,CAAC;AAED,KAAK,UAAU,qBAAqB,CAClC,MAAqB,EACrB,QAAgB;IAEhB,MAAM,MAAM,GAAG,eAAe,CAAC,GAAG,CAAC,SAAS,CAAuC,CAAC;IACpF,IAAI,MAAM;QAAE,OAAO,MAAM,CAAC,IAAI,CAAC;IAE/B,MAAM,MAAM,GAAG,MAAM,oBAAoB,CAAC,MAAM,EAAE,QAAQ,CAAC,CAAC;IAC5D,eAAe,CAAC,GAAG,CAAC,SAAS,EAAE,EAAE,IAAI,EAAE,MAAM,EAAE,CAAC,CAAC;IACjD,OAAO,MAAM,CAAC;AAChB,CAAC;AAED,MAAM,UAAU,iBAAiB,CAAC,MAAiB,EAAE,MAAqB;IACxE,sCAAsC;IACtC,MAAM,CAAC,QAAQ,CAAC,iBAAiB,EAAE,wBAAwB,EAAE,KAAK,EAAE,GAAG,EAAE,KAAK,EAAE,EAAE;QAChF,MAAM,EAAE,GAAG,aAAa,CAAC,KAAK,EAAE,MAAM,CAAC,CAAC;QACxC,MAAM,MAAM,GAAG,MAAM,qBAAqB,CAAC,EAAE,EAAE,0BAA0B,CAAC,CAAC;QAC3E,MAAM,IAAI,GAAG,MAAM;aAChB,GAAG,CACF,CAAC,CAAC,EAAE,EAAE,CACJ,GAAG,CAAC,CAAC,aAAa,KAAK,CAAC,CAAC,eAAe,GAAG,CAAC,CAAC,aAAa,IAAI,IAAI,CAAC,CAAC,CAAC,KAAK,CAAC,CAAC,aAAa,CAAC,cAAc,EAAE,YAAY,CAAC,CAAC,CAAC,EAAE,EAAE,CAChI;aACA,IAAI,CAAC,IAAI,CAAC,CAAC;QAEd,OAAO;YACL,QAAQ,EAAE;gBACR;oBACE,GAAG,EAAE,GAAG,CAAC,IAAI;oBACb,QAAQ,EAAE,YAAY;oBACtB,IAAI,EAAE,4BAA4B,GAAG,CAAC,MAAM,CAAC,EAAE,CAAC,OAAO,IAAI,EAAE;iBAC9D;aACF;SACF,CAAC;IACJ,CAAC,CAAC,CAAC;IAEH,mDAAmD;IACnD,MAAM,kBAAkB,GAAG,IAAI,gBAAgB,CAAC,wCAAwC,EAAE;QACxF,IAAI,EAAE,SAAS;KAChB,CAAC,CAAC;IAEH,MAAM,CAAC,QAAQ,CAAC,oBAAoB,EAAE,kBAAkB,EAAE,KAAK,EAAE,GAAG,EAAE,SAAS,EAAE,KAAK,EAAE,EAAE;QACxF,MAAM,EAAE,GAAG,aAAa,CAAC,KAAK,EAAE,MAAM,CAAC,CAAC;QACxC,MAAM,YAAY,GAAG,MAAM,CAAC,SAAS,CAAC,aAAa,CAAC,CAAC;QACrD,MAAM,MAAM,GAAG,MAAM,qBAAqB,CAAC,EAAE,EAAE,6BAA6B,CAAC,CAAC;QAE9E,MAAM,KAAK,GAAG,MAAM,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,aAAa,CAAC,WAAW,EAAE,KAAK,YAAY,CAAC,WAAW,EAAE,CAAC,CAAC;QAE/F,IAAI,CAAC,KAAK,EAAE,CAAC;YACX,OAAO;gBACL,QAAQ,EAAE;oBACR;wBACE,GAAG,EAAE,GAAG,CAAC,IAAI;wBACb,QAAQ,EAAE,YAAY;wBACtB,IAAI,EAAE,eAAe,YAAY,cAAc;qBAChD;iBACF;aACF,CAAC;QACJ,CAAC;QAED,MAAM,KAAK,GAAG;YACZ,eAAe,KAAK,CAAC,aAAa,EAAE;YACpC,SAAS,KAAK,CAAC,eAAe,EAAE;YAChC,KAAK,CAAC,kBAAkB,CAAC,CAAC,CAAC,YAAY,KAAK,CAAC,kBAAkB,EAAE,CAAC,CAAC,CAAC,IAAI;YACxE,KAAK,CAAC,oBAAoB,CAAC,CAAC,CAAC,cAAc,KAAK,CAAC,oBAAoB,EAAE,CAAC,CAAC,CAAC,IAAI;YAC9E,KAAK,CAAC,aAAa,IAAI,IAAI;gBACzB,CAAC,CAAC,mBAAmB,KAAK,CAAC,aAAa,CAAC,cAAc,EAAE,EAAE;gBAC3D,CAAC,CAAC,IAAI;YACR,KAAK,CAAC,sBAAsB,IAAI,IAAI;gBAClC,CAAC,CAAC,sBAAsB,KAAK,CAAC,sBAAsB,CAAC,cAAc,EAAE,EAAE;gBACvE,CAAC,CAAC,IAAI;SACT,CAAC,MAAM,CAAC,OAAO,CAAC,CAAC;QAElB,OAAO;YACL,QAAQ,EAAE;gBACR;oBACE,GAAG,EAAE,GAAG,CAAC,IAAI;oBACb,QAAQ,EAAE,YAAY;oBACtB,IAAI,EAAE,KAAK,CAAC,IAAI,CAAC,IAAI,CAAC;iBACvB;aACF;SACF,CAAC;IACJ,CAAC,CAAC,CAAC;AACL,CAAC"}
|
package/dist/server.d.ts
CHANGED
|
@@ -1,3 +1,3 @@
|
|
|
1
1
|
import { McpServer } from '@modelcontextprotocol/sdk/server/mcp.js';
|
|
2
|
-
export declare function createServer(apiKey: string, baseUrl?: string): McpServer;
|
|
2
|
+
export declare function createServer(apiKey: string | undefined, baseUrl?: string): McpServer;
|
|
3
3
|
//# sourceMappingURL=server.d.ts.map
|
package/dist/server.d.ts.map
CHANGED
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"server.d.ts","sourceRoot":"","sources":["../src/server.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AAiBpE,wBAAgB,YAAY,CAAC,MAAM,EAAE,MAAM,EAAE,OAAO,CAAC,EAAE,MAAM,GAAG,SAAS,CA+
|
|
1
|
+
{"version":3,"file":"server.d.ts","sourceRoot":"","sources":["../src/server.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AAiBpE,wBAAgB,YAAY,CAAC,MAAM,EAAE,MAAM,GAAG,SAAS,EAAE,OAAO,CAAC,EAAE,MAAM,GAAG,SAAS,CA+BpF"}
|
package/dist/server.js.map
CHANGED
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"server.js","sourceRoot":"","sources":["../src/server.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AACpE,OAAO,EAAE,aAAa,EAAE,MAAM,iBAAiB,CAAC;AAChD,OAAO,EAAE,eAAe,EAAE,MAAM,oBAAoB,CAAC;AACrD,OAAO,EAAE,iBAAiB,EAAE,MAAM,sBAAsB,CAAC;AACzD,OAAO,EACL,oBAAoB,EACpB,oBAAoB,EACpB,sBAAsB,EACtB,oBAAoB,EACpB,mBAAmB,EACnB,2BAA2B,EAC3B,oBAAoB,EACpB,uBAAuB,GACxB,MAAM,kBAAkB,CAAC;AAC1B,OAAO,EAAE,MAAM,EAAE,MAAM,mBAAmB,CAAC;AAC3C,OAAO,EAAE,OAAO,EAAE,MAAM,cAAc,CAAC;AAEvC,MAAM,UAAU,YAAY,CAAC,
|
|
1
|
+
{"version":3,"file":"server.js","sourceRoot":"","sources":["../src/server.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AACpE,OAAO,EAAE,aAAa,EAAE,MAAM,iBAAiB,CAAC;AAChD,OAAO,EAAE,eAAe,EAAE,MAAM,oBAAoB,CAAC;AACrD,OAAO,EAAE,iBAAiB,EAAE,MAAM,sBAAsB,CAAC;AACzD,OAAO,EACL,oBAAoB,EACpB,oBAAoB,EACpB,sBAAsB,EACtB,oBAAoB,EACpB,mBAAmB,EACnB,2BAA2B,EAC3B,oBAAoB,EACpB,uBAAuB,GACxB,MAAM,kBAAkB,CAAC;AAC1B,OAAO,EAAE,MAAM,EAAE,MAAM,mBAAmB,CAAC;AAC3C,OAAO,EAAE,OAAO,EAAE,MAAM,cAAc,CAAC;AAEvC,MAAM,UAAU,YAAY,CAAC,MAA0B,EAAE,OAAgB;IACvE,MAAM,MAAM,GAAG,IAAI,SAAS,CAAC;QAC3B,IAAI,EAAE,SAAS;QACf,OAAO,EAAE,OAAO;QAChB,WAAW,EACT,4KAA4K;KAC/K,CAAC,CAAC;IAEH,MAAM,MAAM,GAAG,IAAI,aAAa,CAAC,MAAM,EAAE,OAAO,CAAC,CAAC;IAElD,iBAAiB;IACjB,mBAAmB,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;IACpC,2BAA2B,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;IAC5C,oBAAoB,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;IACrC,oBAAoB,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;IACrC,oBAAoB,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;IACrC,oBAAoB,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;IACrC,sBAAsB,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;IACvC,uBAAuB,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;IAExC,iCAAiC;IACjC,iBAAiB,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;IAClC,eAAe,CAAC,MAAM,CAAC,CAAC;IAExB,MAAM,CAAC,IAAI,CAAC,gCAAgC,EAAE;QAC5C,KAAK,EAAE,CAAC;QACR,SAAS,EAAE,CAAC;QACZ,OAAO,EAAE,CAAC;KACX,CAAC,CAAC;IAEH,OAAO,MAAM,CAAC;AAChB,CAAC"}
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"concepts.d.ts","sourceRoot":"","sources":["../../src/tools/concepts.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AAEzE,OAAO,KAAK,EAAE,aAAa,EAAE,MAAM,kBAAkB,CAAC;
|
|
1
|
+
{"version":3,"file":"concepts.d.ts","sourceRoot":"","sources":["../../src/tools/concepts.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AAEzE,OAAO,KAAK,EAAE,aAAa,EAAE,MAAM,kBAAkB,CAAC;AAOtD,wBAAgB,oBAAoB,CAAC,MAAM,EAAE,SAAS,EAAE,MAAM,EAAE,aAAa,GAAG,IAAI,CAmHnF"}
|
package/dist/tools/concepts.js
CHANGED
|
@@ -1,12 +1,14 @@
|
|
|
1
1
|
import { z } from 'zod';
|
|
2
|
+
import { resolveClient } from '../client/resolve.js';
|
|
2
3
|
import { formatConcept } from '../formatters/index.js';
|
|
3
4
|
import { conceptCache } from '../utils/cache.js';
|
|
4
5
|
import { formatErrorForMcp } from '../utils/errors.js';
|
|
5
6
|
export function registerConceptTools(server, client) {
|
|
6
7
|
server.tool('get_concept', 'Get detailed information about a specific OMOP concept by its numeric concept_id. Returns the concept name, vocabulary, domain, concept class, standard status, valid dates, and synonyms. Use this when you already have a concept_id and need its details.', {
|
|
7
8
|
concept_id: z.number().describe('The OMOP concept_id (numeric identifier)'),
|
|
8
|
-
}, async ({ concept_id }) => {
|
|
9
|
+
}, async ({ concept_id }, extra) => {
|
|
9
10
|
try {
|
|
11
|
+
const rc = resolveClient(extra, client);
|
|
10
12
|
const cacheKey = `concept:${concept_id}`;
|
|
11
13
|
const cached = conceptCache.get(cacheKey);
|
|
12
14
|
if (cached) {
|
|
@@ -18,7 +20,7 @@ export function registerConceptTools(server, client) {
|
|
|
18
20
|
],
|
|
19
21
|
};
|
|
20
22
|
}
|
|
21
|
-
const response = await
|
|
23
|
+
const response = await rc.request(`/concepts/${concept_id}`, undefined, 'get_concept');
|
|
22
24
|
conceptCache.set(cacheKey, response);
|
|
23
25
|
const { text, json } = formatConcept(response.data);
|
|
24
26
|
return {
|
|
@@ -48,8 +50,9 @@ export function registerConceptTools(server, client) {
|
|
|
48
50
|
.string()
|
|
49
51
|
.max(50)
|
|
50
52
|
.describe("The vocabulary-specific code. Examples: 'E11.9' (ICD-10), '44054006' (SNOMED), '4850' (LOINC)"),
|
|
51
|
-
}, async ({ vocabulary_id, concept_code }) => {
|
|
53
|
+
}, async ({ vocabulary_id, concept_code }, extra) => {
|
|
52
54
|
try {
|
|
55
|
+
const rc = resolveClient(extra, client);
|
|
53
56
|
const cacheKey = `code:${vocabulary_id}:${concept_code}`;
|
|
54
57
|
const cached = conceptCache.get(cacheKey);
|
|
55
58
|
if (cached) {
|
|
@@ -63,7 +66,7 @@ export function registerConceptTools(server, client) {
|
|
|
63
66
|
};
|
|
64
67
|
}
|
|
65
68
|
// Actual API uses /concepts/by-code/{vocabulary_id}/{concept_code}
|
|
66
|
-
const response = await
|
|
69
|
+
const response = await rc.request(`/concepts/by-code/${encodeURIComponent(vocabulary_id)}/${encodeURIComponent(concept_code)}`, undefined, 'get_concept_by_code');
|
|
67
70
|
conceptCache.set(cacheKey, response);
|
|
68
71
|
const concepts = Array.isArray(response.data) ? response.data : [response.data];
|
|
69
72
|
const formatted = concepts.map((c) => formatConcept(c));
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"concepts.js","sourceRoot":"","sources":["../../src/tools/concepts.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;
|
|
1
|
+
{"version":3,"file":"concepts.js","sourceRoot":"","sources":["../../src/tools/concepts.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;AAExB,OAAO,EAAE,aAAa,EAAE,MAAM,sBAAsB,CAAC;AAErD,OAAO,EAAE,aAAa,EAAE,MAAM,wBAAwB,CAAC;AACvD,OAAO,EAAE,YAAY,EAAE,MAAM,mBAAmB,CAAC;AACjD,OAAO,EAAE,iBAAiB,EAAE,MAAM,oBAAoB,CAAC;AAEvD,MAAM,UAAU,oBAAoB,CAAC,MAAiB,EAAE,MAAqB;IAC3E,MAAM,CAAC,IAAI,CACT,aAAa,EACb,8PAA8P,EAC9P;QACE,UAAU,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,0CAA0C,CAAC;KAC5E,EACD,KAAK,EAAE,EAAE,UAAU,EAAE,EAAE,KAAK,EAAE,EAAE;QAC9B,IAAI,CAAC;YACH,MAAM,EAAE,GAAG,aAAa,CAAC,KAAK,EAAE,MAAM,CAAC,CAAC;YACxC,MAAM,QAAQ,GAAG,WAAW,UAAU,EAAE,CAAC;YACzC,MAAM,MAAM,GAAG,YAAY,CAAC,GAAG,CAAC,QAAQ,CAAqC,CAAC;YAE9E,IAAI,MAAM,EAAE,CAAC;gBACX,MAAM,EAAE,IAAI,EAAE,IAAI,EAAE,GAAG,aAAa,CAAC,MAAM,CAAC,IAAI,CAAC,CAAC;gBAClD,OAAO;oBACL,OAAO,EAAE;wBACP,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE;wBAC/B,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE,IAAI,EAAE;qBACtC;iBACF,CAAC;YACJ,CAAC;YAED,MAAM,QAAQ,GAAG,MAAM,EAAE,CAAC,OAAO,CAC/B,aAAa,UAAU,EAAE,EACzB,SAAS,EACT,aAAa,CACd,CAAC;YAEF,YAAY,CAAC,GAAG,CAAC,QAAQ,EAAE,QAAQ,CAAC,CAAC;YACrC,MAAM,EAAE,IAAI,EAAE,IAAI,EAAE,GAAG,aAAa,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAC;YAEpD,OAAO;gBACL,OAAO,EAAE;oBACP,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE;oBAC/B,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE,IAAI,EAAE;iBACtC;aACF,CAAC;QACJ,CAAC;QAAC,OAAO,KAAK,EAAE,CAAC;YACf,MAAM,EAAE,IAAI,EAAE,IAAI,EAAE,GAAG,iBAAiB,CAAC,KAAK,EAAE,aAAa,CAAC,CAAC;YAC/D,OAAO;gBACL,OAAO,EAAE;oBACP,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE;oBAC/B,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE,IAAI,EAAE;iBACtC;gBACD,OAAO,EAAE,IAAI;aACd,CAAC;QACJ,CAAC;IACH,CAAC,CACF,CAAC;IAEF,MAAM,CAAC,IAAI,CACT,qBAAqB,EACrB,mWAAmW,EACnW;QACE,aAAa,EAAE,CAAC;aACb,MAAM,EAAE;aACR,GAAG,CAAC,EAAE,CAAC;aACP,QAAQ,CACP,iGAAiG,CAClG;QACH,YAAY,EAAE,CAAC;aACZ,MAAM,EAAE;aACR,GAAG,CAAC,EAAE,CAAC;aACP,QAAQ,CACP,+FAA+F,CAChG;KACJ,EACD,KAAK,EAAE,EAAE,aAAa,EAAE,YAAY,EAAE,EAAE,KAAK,EAAE,EAAE;QAC/C,IAAI,CAAC;YACH,MAAM,EAAE,GAAG,aAAa,CAAC,KAAK,EAAE,MAAM,CAAC,CAAC;YACxC,MAAM,QAAQ,GAAG,QAAQ,aAAa,IAAI,YAAY,EAAE,CAAC;YACzD,MAAM,MAAM,GAAG,YAAY,CAAC,GAAG,CAAC,QAAQ,CAAiD,CAAC;YAE1F,IAAI,MAAM,EAAE,CAAC;gBACX,MAAM,QAAQ,GAAG,KAAK,CAAC,OAAO,CAAC,MAAM,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC,MAAM,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC,MAAM,CAAC,IAAI,CAAC,CAAC;gBAC1E,MAAM,SAAS,GAAG,QAAQ,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,aAAa,CAAC,CAAC,CAAC,CAAC,CAAC;gBACxD,OAAO;oBACL,OAAO,EAAE;wBACP,GAAG,SAAS,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE,CAAC,CAAC,IAAI,EAAE,CAAC,CAAC;wBAClE,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE,IAAI,CAAC,SAAS,CAAC,QAAQ,CAAC,EAAE;qBAC1D;iBACF,CAAC;YACJ,CAAC;YAED,mEAAmE;YACnE,MAAM,QAAQ,GAAG,MAAM,EAAE,CAAC,OAAO,CAC/B,qBAAqB,kBAAkB,CAAC,aAAa,CAAC,IAAI,kBAAkB,CAAC,YAAY,CAAC,EAAE,EAC5F,SAAS,EACT,qBAAqB,CACtB,CAAC;YAEF,YAAY,CAAC,GAAG,CAAC,QAAQ,EAAE,QAAQ,CAAC,CAAC;YAErC,MAAM,QAAQ,GAAG,KAAK,CAAC,OAAO,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAC;YAChF,MAAM,SAAS,GAAG,QAAQ,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,aAAa,CAAC,CAAC,CAAC,CAAC,CAAC;YAExD,OAAO;gBACL,OAAO,EAAE;oBACP,GAAG,SAAS,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE,CAAC,CAAC,IAAI,EAAE,CAAC,CAAC;oBAClE,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE,IAAI,CAAC,SAAS,CAAC,QAAQ,CAAC,EAAE;iBAC1D;aACF,CAAC;QACJ,CAAC;QAAC,OAAO,KAAK,EAAE,CAAC;YACf,MAAM,EAAE,IAAI,EAAE,IAAI,EAAE,GAAG,iBAAiB,CAAC,KAAK,EAAE,qBAAqB,CAAC,CAAC;YACvE,OAAO;gBACL,OAAO,EAAE;oBACP,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE;oBAC/B,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE,IAAI,EAAE;iBACtC;gBACD,OAAO,EAAE,IAAI;aACd,CAAC;QACJ,CAAC;IACH,CAAC,CACF,CAAC;AACJ,CAAC"}
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"explore.d.ts","sourceRoot":"","sources":["../../src/tools/explore.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AAEzE,OAAO,KAAK,EAAE,aAAa,EAAE,MAAM,kBAAkB,CAAC;
|
|
1
|
+
{"version":3,"file":"explore.d.ts","sourceRoot":"","sources":["../../src/tools/explore.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AAEzE,OAAO,KAAK,EAAE,aAAa,EAAE,MAAM,kBAAkB,CAAC;AAuBtD,wBAAgB,oBAAoB,CAAC,MAAM,EAAE,SAAS,EAAE,MAAM,EAAE,aAAa,GAAG,IAAI,CAoOnF"}
|
package/dist/tools/explore.js
CHANGED
|
@@ -1,4 +1,5 @@
|
|
|
1
1
|
import { z } from 'zod';
|
|
2
|
+
import { resolveClient } from '../client/resolve.js';
|
|
2
3
|
import { formatErrorForMcp } from '../utils/errors.js';
|
|
3
4
|
export function registerExploreTools(server, client) {
|
|
4
5
|
server.tool('explore_concept', 'Get a comprehensive view of a medical concept in one call: detailed info, ancestors/descendants hierarchy, and cross-vocabulary mappings. Use this instead of calling get_concept + get_hierarchy + map_concept separately. Ideal for understanding what a concept is, where it sits in the classification tree, and how it maps to other coding systems.', {
|
|
@@ -22,25 +23,26 @@ export function registerExploreTools(server, client) {
|
|
|
22
23
|
.max(200)
|
|
23
24
|
.optional()
|
|
24
25
|
.describe("Comma-separated vocabulary IDs to filter mappings. Examples: 'ICD10CM', 'SNOMED'."),
|
|
25
|
-
}, async ({ concept_id, include_hierarchy, include_mappings, hierarchy_levels, target_vocabularies,
|
|
26
|
+
}, async ({ concept_id, include_hierarchy, include_mappings, hierarchy_levels, target_vocabularies }, extra) => {
|
|
26
27
|
try {
|
|
28
|
+
const rc = resolveClient(extra, client);
|
|
27
29
|
// Build parallel requests
|
|
28
30
|
const requests = [];
|
|
29
31
|
// 1. Always fetch concept details
|
|
30
|
-
const conceptReq =
|
|
32
|
+
const conceptReq = rc.request(`/concepts/${concept_id}`, {}, 'explore_concept');
|
|
31
33
|
requests.push(conceptReq);
|
|
32
34
|
// 2. Optionally fetch hierarchy
|
|
33
35
|
let hierarchyReq = null;
|
|
34
36
|
if (include_hierarchy !== false) {
|
|
35
37
|
const levels = hierarchy_levels ?? 2;
|
|
36
|
-
hierarchyReq =
|
|
38
|
+
hierarchyReq = rc.request(`/concepts/${concept_id}/hierarchy`, { max_levels: levels }, 'explore_concept');
|
|
37
39
|
requests.push(hierarchyReq);
|
|
38
40
|
}
|
|
39
41
|
// 3. Optionally fetch mappings via relationships endpoint
|
|
40
42
|
// (The /mappings endpoint has a schema resolution bug — using /relationships instead)
|
|
41
43
|
let mappingsReq = null;
|
|
42
44
|
if (include_mappings !== false) {
|
|
43
|
-
mappingsReq =
|
|
45
|
+
mappingsReq = rc.request(`/concepts/${concept_id}/relationships`, { page_size: 100 }, 'explore_concept');
|
|
44
46
|
requests.push(mappingsReq);
|
|
45
47
|
}
|
|
46
48
|
// Execute all in parallel
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"explore.js","sourceRoot":"","sources":["../../src/tools/explore.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;
|
|
1
|
+
{"version":3,"file":"explore.js","sourceRoot":"","sources":["../../src/tools/explore.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;AAExB,OAAO,EAAE,aAAa,EAAE,MAAM,sBAAsB,CAAC;AAErD,OAAO,EAAE,iBAAiB,EAAE,MAAM,oBAAoB,CAAC;AAoBvD,MAAM,UAAU,oBAAoB,CAAC,MAAiB,EAAE,MAAqB;IAC3E,MAAM,CAAC,IAAI,CACT,iBAAiB,EACjB,2VAA2V,EAC3V;QACE,UAAU,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,gCAAgC,CAAC;QACjE,iBAAiB,EAAE,CAAC;aACjB,OAAO,EAAE;aACT,OAAO,CAAC,IAAI,CAAC;aACb,QAAQ,CAAC,kDAAkD,CAAC;QAC/D,gBAAgB,EAAE,CAAC;aAChB,MAAM,EAAE;aACR,GAAG,CAAC,CAAC,CAAC;aACN,GAAG,CAAC,CAAC,CAAC;aACN,OAAO,CAAC,CAAC,CAAC;aACV,QAAQ,CAAC,qDAAqD,CAAC;QAClE,gBAAgB,EAAE,CAAC;aAChB,OAAO,EAAE;aACT,OAAO,CAAC,IAAI,CAAC;aACb,QAAQ,CAAC,kDAAkD,CAAC;QAC/D,mBAAmB,EAAE,CAAC;aACnB,MAAM,EAAE;aACR,GAAG,CAAC,GAAG,CAAC;aACR,QAAQ,EAAE;aACV,QAAQ,CACP,mFAAmF,CACpF;KACJ,EACD,KAAK,EACH,EAAE,UAAU,EAAE,iBAAiB,EAAE,gBAAgB,EAAE,gBAAgB,EAAE,mBAAmB,EAAE,EAC1F,KAAK,EACL,EAAE;QACF,IAAI,CAAC;YACH,MAAM,EAAE,GAAG,aAAa,CAAC,KAAK,EAAE,MAAM,CAAC,CAAC;YACxC,0BAA0B;YAC1B,MAAM,QAAQ,GAAuB,EAAE,CAAC;YAExC,kCAAkC;YAClC,MAAM,UAAU,GAAG,EAAE,CAAC,OAAO,CAAU,aAAa,UAAU,EAAE,EAAE,EAAE,EAAE,iBAAiB,CAAC,CAAC;YACzF,QAAQ,CAAC,IAAI,CAAC,UAAU,CAAC,CAAC;YAE1B,gCAAgC;YAChC,IAAI,YAAY,GAA4B,IAAI,CAAC;YACjD,IAAI,iBAAiB,KAAK,KAAK,EAAE,CAAC;gBAChC,MAAM,MAAM,GAAG,gBAAgB,IAAI,CAAC,CAAC;gBACrC,YAAY,GAAG,EAAE,CAAC,OAAO,CACvB,aAAa,UAAU,YAAY,EACnC,EAAE,UAAU,EAAE,MAAM,EAAE,EACtB,iBAAiB,CAClB,CAAC;gBACF,QAAQ,CAAC,IAAI,CAAC,YAAY,CAAC,CAAC;YAC9B,CAAC;YAED,0DAA0D;YAC1D,sFAAsF;YACtF,IAAI,WAAW,GAA4B,IAAI,CAAC;YAChD,IAAI,gBAAgB,KAAK,KAAK,EAAE,CAAC;gBAC/B,WAAW,GAAG,EAAE,CAAC,OAAO,CACtB,aAAa,UAAU,gBAAgB,EACvC,EAAE,SAAS,EAAE,GAAG,EAAE,EAClB,iBAAiB,CAClB,CAAC;gBACF,QAAQ,CAAC,IAAI,CAAC,WAAW,CAAC,CAAC;YAC7B,CAAC;YAED,0BAA0B;YAC1B,MAAM,OAAO,GAAG,MAAM,OAAO,CAAC,UAAU,CAAC,QAAQ,CAAC,CAAC;YAEnD,kBAAkB;YAClB,MAAM,aAAa,GAAG,OAAO,CAAC,CAAC,CAAC,CAAC;YACjC,MAAM,OAAO,GACX,aAAa,CAAC,MAAM,KAAK,WAAW;gBAClC,CAAC,CAAE,aAAa,CAAC,KAA2B,CAAC,IAAI;gBACjD,CAAC,CAAC,IAAI,CAAC;YAEX,IAAI,SAAS,GAAgC,IAAI,CAAC;YAClD,IAAI,iBAAiB,GAA6B,IAAI,CAAC;YAEvD,IAAI,GAAG,GAAG,CAAC,CAAC;YACZ,IAAI,YAAY,EAAE,CAAC;gBACjB,MAAM,CAAC,GAAG,OAAO,CAAC,GAAG,EAAE,CAAC,CAAC;gBACzB,IAAI,CAAC,CAAC,MAAM,KAAK,WAAW,EAAE,CAAC;oBAC7B,SAAS,GAAI,CAAC,CAAC,KAAwC,CAAC,IAAI,CAAC;gBAC/D,CAAC;YACH,CAAC;YACD,IAAI,WAAW,EAAE,CAAC;gBAChB,MAAM,CAAC,GAAG,OAAO,CAAC,GAAG,CAAC,CAAC;gBACvB,IAAI,CAAC,CAAC,MAAM,KAAK,WAAW,EAAE,CAAC;oBAC7B,iBAAiB,GAAI,CAAC,CAAC,KAAqC,CAAC,IAAI,CAAC;gBACpE,CAAC;YACH,CAAC;YAED,IAAI,CAAC,OAAO,EAAE,CAAC;gBACb,4DAA4D;gBAC5D,IAAI,aAAa,CAAC,MAAM,KAAK,UAAU,EAAE,CAAC;oBACxC,MAAM,EAAE,IAAI,EAAE,IAAI,EAAE,GAAG,iBAAiB,CAAC,aAAa,CAAC,MAAM,EAAE,iBAAiB,CAAC,CAAC;oBAClF,OAAO;wBACL,OAAO,EAAE;4BACP,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE;4BAC/B,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE,IAAI,EAAE;yBACtC;wBACD,OAAO,EAAE,IAAI;qBACd,CAAC;gBACJ,CAAC;gBACD,OAAO;oBACL,OAAO,EAAE,CAAC,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE,WAAW,UAAU,aAAa,EAAE,CAAC;oBAC9E,OAAO,EAAE,IAAI;iBACd,CAAC;YACJ,CAAC;YAED,8BAA8B;YAC9B,MAAM,QAAQ,GAAa,EAAE,CAAC;YAE9B,eAAe;YACf,MAAM,GAAG,GACP,OAAO,CAAC,gBAAgB,KAAK,GAAG;gBAC9B,CAAC,CAAC,aAAa;gBACf,CAAC,CAAC,OAAO,CAAC,gBAAgB,KAAK,GAAG;oBAChC,CAAC,CAAC,mBAAmB;oBACrB,CAAC,CAAC,EAAE,CAAC;YACX,QAAQ,CAAC,IAAI,CACX,MAAM,OAAO,CAAC,YAAY,GAAG,GAAG,IAAI;gBAClC,qBAAqB,OAAO,CAAC,UAAU,IAAI;gBAC3C,qBAAqB,OAAO,CAAC,aAAa,IAAI;gBAC9C,iBAAiB,OAAO,CAAC,SAAS,IAAI;gBACtC,gBAAgB,OAAO,CAAC,gBAAgB,IAAI;gBAC5C,eAAe,OAAO,CAAC,YAAY,EAAE,CACxC,CAAC;YAEF,YAAY;YACZ,IAAI,SAAS,EAAE,CAAC;gBACd,MAAM,SAAS,GAAG,SAAS,CAAC,SAAS,IAAI,EAAE,CAAC;gBAC5C,MAAM,WAAW,GAAG,SAAS,CAAC,WAAW,IAAI,EAAE,CAAC;gBAEhD,IAAI,SAAS,CAAC,MAAM,GAAG,CAAC,IAAI,WAAW,CAAC,MAAM,GAAG,CAAC,EAAE,CAAC;oBACnD,MAAM,cAAc,GAAa,CAAC,cAAc,CAAC,CAAC;oBAElD,IAAI,SAAS,CAAC,MAAM,GAAG,CAAC,EAAE,CAAC;wBACzB,cAAc,CAAC,IAAI,CAAC,oBAAoB,SAAS,CAAC,MAAM,GAAG,CAAC,CAAC;wBAC7D,KAAK,MAAM,CAAC,IAAI,SAAS,CAAC,KAAK,CAAC,CAAC,EAAE,EAAE,CAAC,EAAE,CAAC;4BACvC,MAAM,KAAK,GAAG,CAAC,CAAC,wBAAwB,IAAI,CAAC,CAAC,KAAK,IAAI,EAAE,CAAC;4BAC1D,cAAc,CAAC,IAAI,CACjB,KAAK,IAAI,CAAC,MAAM,CAAC,MAAM,CAAC,KAAK,CAAC,IAAI,CAAC,CAAC,KAAK,CAAC,CAAC,YAAY,KAAK,CAAC,CAAC,aAAa,SAAS,CAAC,CAAC,UAAU,GAAG,CACpG,CAAC;wBACJ,CAAC;wBACD,IAAI,SAAS,CAAC,MAAM,GAAG,EAAE;4BACvB,cAAc,CAAC,IAAI,CAAC,aAAa,SAAS,CAAC,MAAM,GAAG,EAAE,OAAO,CAAC,CAAC;oBACnE,CAAC;oBAED,IAAI,WAAW,CAAC,MAAM,GAAG,CAAC,EAAE,CAAC;wBAC3B,cAAc,CAAC,IAAI,CAAC,sBAAsB,WAAW,CAAC,MAAM,GAAG,CAAC,CAAC;wBACjE,KAAK,MAAM,CAAC,IAAI,WAAW,CAAC,KAAK,CAAC,CAAC,EAAE,EAAE,CAAC,EAAE,CAAC;4BACzC,MAAM,KAAK,GAAG,CAAC,CAAC,wBAAwB,IAAI,CAAC,CAAC,KAAK,IAAI,EAAE,CAAC;4BAC1D,cAAc,CAAC,IAAI,CACjB,KAAK,IAAI,CAAC,MAAM,CAAC,MAAM,CAAC,KAAK,CAAC,IAAI,CAAC,CAAC,KAAK,CAAC,CAAC,YAAY,KAAK,CAAC,CAAC,aAAa,SAAS,CAAC,CAAC,UAAU,GAAG,CACpG,CAAC;wBACJ,CAAC;wBACD,IAAI,WAAW,CAAC,MAAM,GAAG,EAAE;4BACzB,cAAc,CAAC,IAAI,CAAC,aAAa,WAAW,CAAC,MAAM,GAAG,EAAE,OAAO,CAAC,CAAC;oBACrE,CAAC;oBAED,QAAQ,CAAC,IAAI,CAAC,cAAc,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC,CAAC;gBAC3C,CAAC;YACH,CAAC;YAED,8DAA8D;YAC9D,IAAI,iBAAiB,EAAE,CAAC;gBACtB,MAAM,OAAO,GAAG,iBAAiB,CAAC,aAAa,IAAI,EAAE,CAAC;gBAEtD,mCAAmC;gBACnC,MAAM,WAAW,GAAG,OA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|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"hierarchy.d.ts","sourceRoot":"","sources":["../../src/tools/hierarchy.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AAEzE,OAAO,KAAK,EAAE,aAAa,EAAE,MAAM,kBAAkB,CAAC;
|
|
1
|
+
{"version":3,"file":"hierarchy.d.ts","sourceRoot":"","sources":["../../src/tools/hierarchy.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AAEzE,OAAO,KAAK,EAAE,aAAa,EAAE,MAAM,kBAAkB,CAAC;AAOtD,wBAAgB,sBAAsB,CAAC,MAAM,EAAE,SAAS,EAAE,MAAM,EAAE,aAAa,GAAG,IAAI,CAoHrF"}
|
package/dist/tools/hierarchy.js
CHANGED
|
@@ -1,4 +1,5 @@
|
|
|
1
1
|
import { z } from 'zod';
|
|
2
|
+
import { resolveClient } from '../client/resolve.js';
|
|
2
3
|
import { formatHierarchy } from '../formatters/index.js';
|
|
3
4
|
import { hierarchyCache } from '../utils/cache.js';
|
|
4
5
|
import { formatErrorForMcp } from '../utils/errors.js';
|
|
@@ -24,8 +25,9 @@ export function registerHierarchyTools(server, client) {
|
|
|
24
25
|
.max(200)
|
|
25
26
|
.optional()
|
|
26
27
|
.describe('Comma-separated vocabulary IDs to filter results. Leave empty for all.'),
|
|
27
|
-
}, async ({ concept_id, direction, max_levels, max_results, vocabulary_ids }) => {
|
|
28
|
+
}, async ({ concept_id, direction, max_levels, max_results, vocabulary_ids }, extra) => {
|
|
28
29
|
try {
|
|
30
|
+
const rc = resolveClient(extra, client);
|
|
29
31
|
const cacheKey = `hierarchy:${concept_id}:${direction}:${max_levels}:${max_results}:${vocabulary_ids}`;
|
|
30
32
|
const cached = hierarchyCache.get(cacheKey);
|
|
31
33
|
if (cached) {
|
|
@@ -51,7 +53,7 @@ export function registerHierarchyTools(server, client) {
|
|
|
51
53
|
params.page_size = max_results;
|
|
52
54
|
if (vocabulary_ids)
|
|
53
55
|
params.vocabulary_ids = vocabulary_ids;
|
|
54
|
-
const rawResponse = await
|
|
56
|
+
const rawResponse = await rc.request(`/concepts/${concept_id}/${endpoint}`, params, 'get_hierarchy');
|
|
55
57
|
// API returns flat concept fields — normalize into { concept: {...} } for formatter
|
|
56
58
|
const raw = rawResponse.data;
|
|
57
59
|
const totalAncestors = raw.total_ancestors ?? raw.hierarchy_summary?.total_ancestors;
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"hierarchy.js","sourceRoot":"","sources":["../../src/tools/hierarchy.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;
|
|
1
|
+
{"version":3,"file":"hierarchy.js","sourceRoot":"","sources":["../../src/tools/hierarchy.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;AAExB,OAAO,EAAE,aAAa,EAAE,MAAM,sBAAsB,CAAC;AAErD,OAAO,EAAE,eAAe,EAAE,MAAM,wBAAwB,CAAC;AACzD,OAAO,EAAE,cAAc,EAAE,MAAM,mBAAmB,CAAC;AACnD,OAAO,EAAE,iBAAiB,EAAE,MAAM,oBAAoB,CAAC;AAEvD,MAAM,UAAU,sBAAsB,CAAC,MAAiB,EAAE,MAAqB;IAC7E,MAAM,CAAC,IAAI,CACT,eAAe,EACf,yeAAye,EACze;QACE,UAAU,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,qBAAqB,CAAC;QACtD,SAAS,EAAE,CAAC;aACT,IAAI,CAAC,CAAC,IAAI,EAAE,MAAM,EAAE,MAAM,CAAC,CAAC;aAC5B,OAAO,CAAC,MAAM,CAAC;aACf,QAAQ,CACP,4GAA4G,CAC7G;QACH,UAAU,EAAE,CAAC;aACV,MAAM,EAAE;aACR,QAAQ,EAAE;aACV,QAAQ,CAAC,gFAAgF,CAAC;QAC7F,WAAW,EAAE,CAAC;aACX,MAAM,EAAE;aACR,GAAG,CAAC,CAAC,CAAC;aACN,GAAG,CAAC,GAAG,CAAC;aACR,OAAO,CAAC,GAAG,CAAC;aACZ,QAAQ,CACP,iGAAiG,CAClG;QACH,cAAc,EAAE,CAAC;aACd,MAAM,EAAE;aACR,GAAG,CAAC,GAAG,CAAC;aACR,QAAQ,EAAE;aACV,QAAQ,CAAC,wEAAwE,CAAC;KACtF,EACD,KAAK,EAAE,EAAE,UAAU,EAAE,SAAS,EAAE,UAAU,EAAE,WAAW,EAAE,cAAc,EAAE,EAAE,KAAK,EAAE,EAAE;QAClF,IAAI,CAAC;YACH,MAAM,EAAE,GAAG,aAAa,CAAC,KAAK,EAAE,MAAM,CAAC,CAAC;YACxC,MAAM,QAAQ,GAAG,aAAa,UAAU,IAAI,SAAS,IAAI,UAAU,IAAI,WAAW,IAAI,cAAc,EAAE,CAAC;YACvG,MAAM,MAAM,GAAG,cAAc,CAAC,GAAG,CAAC,QAAQ,CAE7B,CAAC;YAEd,IAAI,MAAM,EAAE,CAAC;gBACX,MAAM,EAAE,IAAI,EAAE,IAAI,EAAE,GAAG,eAAe,CACpC,MAAM,CAAC,QAAiD,EACxD,MAAM,CAAC,SAAS,CACjB,CAAC;gBACF,OAAO;oBACL,OAAO,EAAE;wBACP,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE;wBAC/B,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE,IAAI,EAAE;qBACtC;iBACF,CAAC;YACJ,CAAC;YAED,mDAAmD;YACnD,MAAM,WAAW,GAAG;gBAClB,EAAE,EAAE,WAAW;gBACf,IAAI,EAAE,aAAa;gBACnB,IAAI,EAAE,WAAW;aACT,CAAC;YAEX,MAAM,QAAQ,GAAG,WAAW,CAAC,SAAS,IAAI,MAAM,CAAC,CAAC;YAClD,MAAM,MAAM,GAA0D,EAAE,CAAC;YAEzE,IAAI,UAAU,KAAK,SAAS;gBAAE,MAAM,CAAC,UAAU,GAAG,UAAU,CAAC;YAC7D,IAAI,WAAW,KAAK,SAAS;gBAAE,MAAM,CAAC,SAAS,GAAG,WAAW,CAAC;YAC9D,IAAI,cAAc;gBAAE,MAAM,CAAC,cAAc,GAAG,cAAc,CAAC;YAE3D,MAAM,WAAW,GAAG,MAAM,EAAE,CAAC,OAAO,CAClC,aAAa,UAAU,IAAI,QAAQ,EAAE,EACrC,MAAM,EACN,eAAe,CAChB,CAAC;YAEF,oFAAoF;YACpF,MAAM,GAAG,GAAG,WAAW,CAAC,IAAI,CAAC;YAC7B,MAAM,cAAc,GAAG,GAAG,CAAC,eAAe,IAAI,GAAG,CAAC,iBAAiB,EAAE,eAAe,CAAC;YACrF,MAAM,gBAAgB,GAAG,GAAG,CAAC,iBAAiB,IAAI,GAAG,CAAC,iBAAiB,EAAE,iBAAiB,CAAC;YAE3F,MAAM,QAAQ,GAAmC;gBAC/C,GAAG,WAAW;gBACd,IAAI,EAAE;oBACJ,OAAO,EAAE;wBACP,UAAU,EAAE,GAAG,CAAC,UAAU;wBAC1B,YAAY,EAAE,GAAG,CAAC,YAAY,IAAI,WAAW,GAAG,CAAC,UAAU,EAAE;wBAC7D,aAAa,EAAE,GAAG,CAAC,aAAa,IAAI,EAAE;wBACtC,SAAS,EAAE,EAAE;wBACb,gBAAgB,EAAE,EAAE;wBACpB,gBAAgB,EAAE,IAAI;wBACtB,YAAY,EAAE,EAAE;qBACjB;oBACD,SAAS,EAAE,GAAG,CAAC,SAAS;oBACxB,WAAW,EAAE,GAAG,CAAC,WAAW;oBAC5B,eAAe,EAAE,cAAc;oBAC/B,iBAAiB,EAAE,gBAAgB;iBACpC;aACF,CAAC;YAEF,cAAc,CAAC,GAAG,CAAC,QAAQ,EAAE,EAAE,QAAQ,EAAE,SAAS,EAAE,SAAS,IAAI,MAAM,EAAE,CAAC,CAAC;YAC3E,MAAM,EAAE,IAAI,EAAE,IAAI,EAAE,GAAG,eAAe,CAAC,QAAQ,EAAE,SAAS,IAAI,MAAM,CAAC,CAAC;YAEtE,OAAO;gBACL,OAAO,EAAE;oBACP,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE;oBAC/B,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE,IAAI,EAAE;iBACtC;aACF,CAAC;QACJ,CAAC;QAAC,OAAO,KAAK,EAAE,CAAC;YACf,MAAM,EAAE,IAAI,EAAE,IAAI,EAAE,GAAG,iBAAiB,CAAC,KAAK,EAAE,eAAe,CAAC,CAAC;YACjE,OAAO;gBACL,OAAO,EAAE;oBACP,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE;oBAC/B,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE,IAAI,EAAE;iBACtC;gBACD,OAAO,EAAE,IAAI;aACd,CAAC;QACJ,CAAC;IACH,CAAC,CACF,CAAC;AACJ,CAAC"}
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"mappings.d.ts","sourceRoot":"","sources":["../../src/tools/mappings.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AAEzE,OAAO,KAAK,EAAE,aAAa,EAAE,MAAM,kBAAkB,CAAC;
|
|
1
|
+
{"version":3,"file":"mappings.d.ts","sourceRoot":"","sources":["../../src/tools/mappings.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AAEzE,OAAO,KAAK,EAAE,aAAa,EAAE,MAAM,kBAAkB,CAAC;AAMtD,wBAAgB,oBAAoB,CAAC,MAAM,EAAE,SAAS,EAAE,MAAM,EAAE,aAAa,GAAG,IAAI,CAgDnF"}
|
package/dist/tools/mappings.js
CHANGED
|
@@ -1,4 +1,5 @@
|
|
|
1
1
|
import { z } from 'zod';
|
|
2
|
+
import { resolveClient } from '../client/resolve.js';
|
|
2
3
|
import { formatMappings } from '../formatters/index.js';
|
|
3
4
|
import { formatErrorForMcp } from '../utils/errors.js';
|
|
4
5
|
export function registerMappingTools(server, client) {
|
|
@@ -9,13 +10,14 @@ export function registerMappingTools(server, client) {
|
|
|
9
10
|
.max(200)
|
|
10
11
|
.optional()
|
|
11
12
|
.describe("Comma-separated vocabulary IDs to map TO. Examples: 'ICD10CM', 'SNOMED', 'RxNorm'. Omit to see all available mappings."),
|
|
12
|
-
}, async ({ concept_id, target_vocabularies }) => {
|
|
13
|
+
}, async ({ concept_id, target_vocabularies }, extra) => {
|
|
13
14
|
try {
|
|
15
|
+
const rc = resolveClient(extra, client);
|
|
14
16
|
const params = {};
|
|
15
17
|
// Map PRD param to actual API param (target_vocabularies → target_vocabulary)
|
|
16
18
|
if (target_vocabularies)
|
|
17
19
|
params.target_vocabulary = target_vocabularies;
|
|
18
|
-
const response = await
|
|
20
|
+
const response = await rc.request(`/concepts/${concept_id}/mappings`, params, 'map_concept');
|
|
19
21
|
const { text, json } = formatMappings(response, concept_id);
|
|
20
22
|
return {
|
|
21
23
|
content: [
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"mappings.js","sourceRoot":"","sources":["../../src/tools/mappings.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;
|
|
1
|
+
{"version":3,"file":"mappings.js","sourceRoot":"","sources":["../../src/tools/mappings.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;AAExB,OAAO,EAAE,aAAa,EAAE,MAAM,sBAAsB,CAAC;AAErD,OAAO,EAAE,cAAc,EAAE,MAAM,wBAAwB,CAAC;AACxD,OAAO,EAAE,iBAAiB,EAAE,MAAM,oBAAoB,CAAC;AAEvD,MAAM,UAAU,oBAAoB,CAAC,MAAiB,EAAE,MAAqB;IAC3E,MAAM,CAAC,IAAI,CACT,aAAa,EACb,6eAA6e,EAC7e;QACE,UAAU,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,wCAAwC,CAAC;QACzE,mBAAmB,EAAE,CAAC;aACnB,MAAM,EAAE;aACR,GAAG,CAAC,GAAG,CAAC;aACR,QAAQ,EAAE;aACV,QAAQ,CACP,wHAAwH,CACzH;KACJ,EACD,KAAK,EAAE,EAAE,UAAU,EAAE,mBAAmB,EAAE,EAAE,KAAK,EAAE,EAAE;QACnD,IAAI,CAAC;YACH,MAAM,EAAE,GAAG,aAAa,CAAC,KAAK,EAAE,MAAM,CAAC,CAAC;YACxC,MAAM,MAAM,GAA0D,EAAE,CAAC;YAEzE,8EAA8E;YAC9E,IAAI,mBAAmB;gBAAE,MAAM,CAAC,iBAAiB,GAAG,mBAAmB,CAAC;YAExE,MAAM,QAAQ,GAAG,MAAM,EAAE,CAAC,OAAO,CAC/B,aAAa,UAAU,WAAW,EAClC,MAAM,EACN,aAAa,CACd,CAAC;YAEF,MAAM,EAAE,IAAI,EAAE,IAAI,EAAE,GAAG,cAAc,CAAC,QAAQ,EAAE,UAAU,CAAC,CAAC;YAE5D,OAAO;gBACL,OAAO,EAAE;oBACP,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE;oBAC/B,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE,IAAI,EAAE;iBACtC;aACF,CAAC;QACJ,CAAC;QAAC,OAAO,KAAK,EAAE,CAAC;YACf,MAAM,EAAE,IAAI,EAAE,IAAI,EAAE,GAAG,iBAAiB,CAAC,KAAK,EAAE,aAAa,CAAC,CAAC;YAC/D,OAAO;gBACL,OAAO,EAAE;oBACP,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE;oBAC/B,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE,IAAI,EAAE;iBACtC;gBACD,OAAO,EAAE,IAAI;aACd,CAAC;QACJ,CAAC;IACH,CAAC,CACF,CAAC;AACJ,CAAC"}
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"search.d.ts","sourceRoot":"","sources":["../../src/tools/search.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AAEzE,OAAO,KAAK,EAAE,aAAa,EAAE,MAAM,kBAAkB,CAAC;
|
|
1
|
+
{"version":3,"file":"search.d.ts","sourceRoot":"","sources":["../../src/tools/search.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AAEzE,OAAO,KAAK,EAAE,aAAa,EAAE,MAAM,kBAAkB,CAAC;AAMtD,wBAAgB,mBAAmB,CAAC,MAAM,EAAE,SAAS,EAAE,MAAM,EAAE,aAAa,GAAG,IAAI,CA+ElF"}
|
package/dist/tools/search.js
CHANGED
|
@@ -1,4 +1,5 @@
|
|
|
1
1
|
import { z } from 'zod';
|
|
2
|
+
import { resolveClient } from '../client/resolve.js';
|
|
2
3
|
import { formatConceptList } from '../formatters/index.js';
|
|
3
4
|
import { formatErrorForMcp } from '../utils/errors.js';
|
|
4
5
|
export function registerSearchTools(server, client) {
|
|
@@ -30,8 +31,9 @@ export function registerSearchTools(server, client) {
|
|
|
30
31
|
.max(50)
|
|
31
32
|
.default(10)
|
|
32
33
|
.describe('Number of results to return (1-50, default 10)'),
|
|
33
|
-
}, async ({ query, vocabulary_ids, domain_ids, standard_concept, page, page_size }) => {
|
|
34
|
+
}, async ({ query, vocabulary_ids, domain_ids, standard_concept, page, page_size }, extra) => {
|
|
34
35
|
try {
|
|
36
|
+
const rc = resolveClient(extra, client);
|
|
35
37
|
const params = {
|
|
36
38
|
query,
|
|
37
39
|
page: page ?? 1,
|
|
@@ -44,7 +46,7 @@ export function registerSearchTools(server, client) {
|
|
|
44
46
|
params.domain_ids = domain_ids;
|
|
45
47
|
if (standard_concept)
|
|
46
48
|
params.standard_concept = standard_concept;
|
|
47
|
-
const response = await
|
|
49
|
+
const response = await rc.request('/search/concepts', params, 'search_concepts');
|
|
48
50
|
const { text, json } = formatConceptList(response, query);
|
|
49
51
|
return {
|
|
50
52
|
content: [
|
package/dist/tools/search.js.map
CHANGED
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"search.js","sourceRoot":"","sources":["../../src/tools/search.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;
|
|
1
|
+
{"version":3,"file":"search.js","sourceRoot":"","sources":["../../src/tools/search.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;AAExB,OAAO,EAAE,aAAa,EAAE,MAAM,sBAAsB,CAAC;AAErD,OAAO,EAAE,iBAAiB,EAAE,MAAM,wBAAwB,CAAC;AAC3D,OAAO,EAAE,iBAAiB,EAAE,MAAM,oBAAoB,CAAC;AAEvD,MAAM,UAAU,mBAAmB,CAAC,MAAiB,EAAE,MAAqB;IAC1E,MAAM,CAAC,IAAI,CACT,iBAAiB,EACjB,uVAAuV,EACvV;QACE,KAAK,EAAE,CAAC;aACL,MAAM,EAAE;aACR,IAAI,EAAE;aACN,GAAG,CAAC,CAAC,CAAC;aACN,GAAG,CAAC,GAAG,CAAC;aACR,QAAQ,CAAC,gDAAgD,CAAC;QAC7D,cAAc,EAAE,CAAC;aACd,MAAM,EAAE;aACR,GAAG,CAAC,GAAG,CAAC;aACR,QAAQ,EAAE;aACV,QAAQ,CACP,wIAAwI,CACzI;QACH,UAAU,EAAE,CAAC;aACV,MAAM,EAAE;aACR,GAAG,CAAC,GAAG,CAAC;aACR,QAAQ,EAAE;aACV,QAAQ,CACP,kIAAkI,CACnI;QACH,gBAAgB,EAAE,CAAC;aAChB,IAAI,CAAC,CAAC,GAAG,EAAE,GAAG,CAAC,CAAC;aAChB,QAAQ,EAAE;aACV,QAAQ,CACP,kGAAkG,CACnG;QACH,IAAI,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,OAAO,CAAC,CAAC,CAAC,CAAC,QAAQ,CAAC,kCAAkC,CAAC;QAC/E,SAAS,EAAE,CAAC;aACT,MAAM,EAAE;aACR,GAAG,CAAC,CAAC,CAAC;aACN,GAAG,CAAC,EAAE,CAAC;aACP,OAAO,CAAC,EAAE,CAAC;aACX,QAAQ,CAAC,gDAAgD,CAAC;KAC9D,EACD,KAAK,EAAE,EAAE,KAAK,EAAE,cAAc,EAAE,UAAU,EAAE,gBAAgB,EAAE,IAAI,EAAE,SAAS,EAAE,EAAE,KAAK,EAAE,EAAE;QACxF,IAAI,CAAC;YACH,MAAM,EAAE,GAAG,aAAa,CAAC,KAAK,EAAE,MAAM,CAAC,CAAC;YACxC,MAAM,MAAM,GAA0D;gBACpE,KAAK;gBACL,IAAI,EAAE,IAAI,IAAI,CAAC;gBACf,SAAS,EAAE,SAAS,IAAI,EAAE;aAC3B,CAAC;YAEF,2CAA2C;YAC3C,IAAI,cAAc;gBAAE,MAAM,CAAC,YAAY,GAAG,cAAc,CAAC;YACzD,IAAI,UAAU;gBAAE,MAAM,CAAC,UAAU,GAAG,UAAU,CAAC;YAC/C,IAAI,gBAAgB;gBAAE,MAAM,CAAC,gBAAgB,GAAG,gBAAgB,CAAC;YAEjE,MAAM,QAAQ,GAAG,MAAM,EAAE,CAAC,OAAO,CAC/B,kBAAkB,EAClB,MAAM,EACN,iBAAiB,CAClB,CAAC;YAEF,MAAM,EAAE,IAAI,EAAE,IAAI,EAAE,GAAG,iBAAiB,CAAC,QAAQ,EAAE,KAAK,CAAC,CAAC;YAE1D,OAAO;gBACL,OAAO,EAAE;oBACP,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE;oBAC/B,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE,IAAI,EAAE;iBACtC;aACF,CAAC;QACJ,CAAC;QAAC,OAAO,KAAK,EAAE,CAAC;YACf,MAAM,EAAE,IAAI,EAAE,IAAI,EAAE,GAAG,iBAAiB,CAAC,KAAK,EAAE,iBAAiB,CAAC,CAAC;YACnE,OAAO;gBACL,OAAO,EAAE;oBACP,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE;oBAC/B,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE,IAAI,EAAE;iBACtC;gBACD,OAAO,EAAE,IAAI;aACd,CAAC;QACJ,CAAC;IACH,CAAC,CACF,CAAC;AACJ,CAAC"}
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"semantic-search.d.ts","sourceRoot":"","sources":["../../src/tools/semantic-search.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AAEzE,OAAO,KAAK,EAAE,aAAa,EAAE,MAAM,kBAAkB,CAAC;
|
|
1
|
+
{"version":3,"file":"semantic-search.d.ts","sourceRoot":"","sources":["../../src/tools/semantic-search.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AAEzE,OAAO,KAAK,EAAE,aAAa,EAAE,MAAM,kBAAkB,CAAC;AAUtD,wBAAgB,2BAA2B,CAAC,MAAM,EAAE,SAAS,EAAE,MAAM,EAAE,aAAa,GAAG,IAAI,CA6G1F"}
|
|
@@ -1,4 +1,5 @@
|
|
|
1
1
|
import { z } from 'zod';
|
|
2
|
+
import { resolveClient } from '../client/resolve.js';
|
|
2
3
|
import { formatErrorForMcp } from '../utils/errors.js';
|
|
3
4
|
export function registerSemanticSearchTools(server, client) {
|
|
4
5
|
server.tool('semantic_search', "Search for medical concepts using natural language with neural embeddings. Unlike keyword search, semantic search understands clinical meaning — 'heart attack' finds 'Myocardial infarction', 'high blood sugar' finds 'Hyperglycemia'. Returns concepts ranked by similarity score. Use this when the user describes symptoms, conditions, or treatments in everyday language rather than exact medical terminology.", {
|
|
@@ -34,8 +35,9 @@ export function registerSemanticSearchTools(server, client) {
|
|
|
34
35
|
.max(50)
|
|
35
36
|
.default(10)
|
|
36
37
|
.describe('Number of results to return (1-50, default 10)'),
|
|
37
|
-
}, async ({ query, vocabulary_ids, domain_ids, standard_concept, threshold, page_size }) => {
|
|
38
|
+
}, async ({ query, vocabulary_ids, domain_ids, standard_concept, threshold, page_size }, extra) => {
|
|
38
39
|
try {
|
|
40
|
+
const rc = resolveClient(extra, client);
|
|
39
41
|
const params = {
|
|
40
42
|
query,
|
|
41
43
|
page_size: page_size ?? 10,
|
|
@@ -47,7 +49,7 @@ export function registerSemanticSearchTools(server, client) {
|
|
|
47
49
|
params.domain_ids = domain_ids;
|
|
48
50
|
if (standard_concept)
|
|
49
51
|
params.standard_concept = standard_concept;
|
|
50
|
-
const response = await
|
|
52
|
+
const response = await rc.request('/concepts/semantic-search', params, 'semantic_search');
|
|
51
53
|
const results = response.data?.results ?? [];
|
|
52
54
|
if (results.length === 0) {
|
|
53
55
|
return {
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"semantic-search.js","sourceRoot":"","sources":["../../src/tools/semantic-search.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;
|
|
1
|
+
{"version":3,"file":"semantic-search.js","sourceRoot":"","sources":["../../src/tools/semantic-search.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;AAExB,OAAO,EAAE,aAAa,EAAE,MAAM,sBAAsB,CAAC;AAErD,OAAO,EAAE,iBAAiB,EAAE,MAAM,oBAAoB,CAAC;AAOvD,MAAM,UAAU,2BAA2B,CAAC,MAAiB,EAAE,MAAqB;IAClF,MAAM,CAAC,IAAI,CACT,iBAAiB,EACjB,wZAAwZ,EACxZ;QACE,KAAK,EAAE,CAAC;aACL,MAAM,EAAE;aACR,IAAI,EAAE;aACN,GAAG,CAAC,CAAC,CAAC;aACN,GAAG,CAAC,GAAG,CAAC;aACR,QAAQ,CAAC,6DAA6D,CAAC;QAC1E,cAAc,EAAE,CAAC;aACd,MAAM,EAAE;aACR,GAAG,CAAC,GAAG,CAAC;aACR,QAAQ,EAAE;aACV,QAAQ,CACP,uFAAuF,CACxF;QACH,UAAU,EAAE,CAAC;aACV,MAAM,EAAE;aACR,GAAG,CAAC,GAAG,CAAC;aACR,QAAQ,EAAE;aACV,QAAQ,CACP,wFAAwF,CACzF;QACH,gBAAgB,EAAE,CAAC;aAChB,IAAI,CAAC,CAAC,GAAG,EAAE,GAAG,CAAC,CAAC;aAChB,QAAQ,EAAE;aACV,QAAQ,CAAC,8EAA8E,CAAC;QAC3F,SAAS,EAAE,CAAC;aACT,MAAM,EAAE;aACR,GAAG,CAAC,CAAC,CAAC;aACN,GAAG,CAAC,CAAC,CAAC;aACN,OAAO,CAAC,GAAG,CAAC;aACZ,QAAQ,CAAC,8EAA8E,CAAC;QAC3F,SAAS,EAAE,CAAC;aACT,MAAM,EAAE;aACR,GAAG,CAAC,CAAC,CAAC;aACN,GAAG,CAAC,EAAE,CAAC;aACP,OAAO,CAAC,EAAE,CAAC;aACX,QAAQ,CAAC,gDAAgD,CAAC;KAC9D,EACD,KAAK,EACH,EAAE,KAAK,EAAE,cAAc,EAAE,UAAU,EAAE,gBAAgB,EAAE,SAAS,EAAE,SAAS,EAAE,EAC7E,KAAK,EACL,EAAE;QACF,IAAI,CAAC;YACH,MAAM,EAAE,GAAG,aAAa,CAAC,KAAK,EAAE,MAAM,CAAC,CAAC;YACxC,MAAM,MAAM,GAA0D;gBACpE,KAAK;gBACL,SAAS,EAAE,SAAS,IAAI,EAAE;gBAC1B,SAAS,EAAE,SAAS,IAAI,GAAG;aAC5B,CAAC;YAEF,IAAI,cAAc;gBAAE,MAAM,CAAC,cAAc,GAAG,cAAc,CAAC;YAC3D,IAAI,UAAU;gBAAE,MAAM,CAAC,UAAU,GAAG,UAAU,CAAC;YAC/C,IAAI,gBAAgB;gBAAE,MAAM,CAAC,gBAAgB,GAAG,gBAAgB,CAAC;YAEjE,MAAM,QAAQ,GAAG,MAAM,EAAE,CAAC,OAAO,CAC/B,2BAA2B,EAC3B,MAAM,EACN,iBAAiB,CAClB,CAAC;YAEF,MAAM,OAAO,GAAG,QAAQ,CAAC,IAAI,EAAE,OAAO,IAAI,EAAE,CAAC;YAE7C,IAAI,OAAO,CAAC,MAAM,KAAK,CAAC,EAAE,CAAC;gBACzB,OAAO;oBACL,OAAO,EAAE;wBACP;4BACE,IAAI,EAAE,MAAe;4BACrB,IAAI,EAAE,kCAAkC,KAAK,6DAA6D;yBAC3G;wBACD,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE,IAAI,CAAC,SAAS,CAAC,EAAE,OAAO,EAAE,EAAE,EAAE,KAAK,EAAE,SAAS,EAAE,CAAC,EAAE;qBACnF;iBACF,CAAC;YACJ,CAAC;YAED,MAAM,KAAK,GAAG,OAAO,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE;gBACjC,MAAM,GAAG,GACP,CAAC,CAAC,gBAAgB,KAAK,GAAG;oBACxB,CAAC,CAAC,aAAa;oBACf,CAAC,CAAC,CAAC,CAAC,gBAAgB,KAAK,GAAG;wBAC1B,CAAC,CAAC,mBAAmB;wBACrB,CAAC,CAAC,EAAE,CAAC;gBACX,MAAM,KAAK,GAAG,MAAM,CAAC,QAAQ,CAAC,CAAC,CAAC,gBAAgB,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,gBAAgB,CAAC,OAAO,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,KAAK,CAAC;gBAC1F,OAAO,GAAG,CAAC,GAAG,CAAC,OAAO,CAAC,CAAC,YAAY,WAAW,CAAC,CAAC,UAAU,mBAAmB,KAAK,QAAQ,CAAC,CAAC,aAAa,MAAM,CAAC,CAAC,SAAS,YAAY,CAAC,CAAC,YAAY,GAAG,GAAG,EAAE,CAAC;YAChK,CAAC,CAAC,CAAC;YAEH,MAAM,IAAI,GAAG,SAAS,OAAO,CAAC,MAAM,0BAA0B,KAAK,SAAS,KAAK,CAAC,IAAI,CAAC,MAAM,CAAC,EAAE,CAAC;YAEjG,OAAO;gBACL,OAAO,EAAE;oBACP,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE;oBAC/B,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE,IAAI,CAAC,SAAS,CAAC,EAAE,OAAO,EAAE,KAAK,EAAE,SAAS,EAAE,CAAC,EAAE;iBAC/E;aACF,CAAC;QACJ,CAAC;QAAC,OAAO,KAAK,EAAE,CAAC;YACf,MAAM,EAAE,IAAI,EAAE,IAAI,EAAE,GAAG,iBAAiB,CAAC,KAAK,EAAE,iBAAiB,CAAC,CAAC;YACnE,OAAO;gBACL,OAAO,EAAE;oBACP,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE;oBAC/B,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE,IAAI,EAAE;iBACtC;gBACD,OAAO,EAAE,IAAI;aACd,CAAC;QACJ,CAAC;IACH,CAAC,CACF,CAAC;AACJ,CAAC"}
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"similar.d.ts","sourceRoot":"","sources":["../../src/tools/similar.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AAEzE,OAAO,KAAK,EAAE,aAAa,EAAE,MAAM,kBAAkB,CAAC;
|
|
1
|
+
{"version":3,"file":"similar.d.ts","sourceRoot":"","sources":["../../src/tools/similar.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AAEzE,OAAO,KAAK,EAAE,aAAa,EAAE,MAAM,kBAAkB,CAAC;AA4BtD,wBAAgB,oBAAoB,CAAC,MAAM,EAAE,SAAS,EAAE,MAAM,EAAE,aAAa,GAAG,IAAI,CAuKnF"}
|
package/dist/tools/similar.js
CHANGED
|
@@ -1,4 +1,5 @@
|
|
|
1
1
|
import { z } from 'zod';
|
|
2
|
+
import { resolveClient } from '../client/resolve.js';
|
|
2
3
|
import { formatErrorForMcp } from '../utils/errors.js';
|
|
3
4
|
export function registerSimilarTools(server, client) {
|
|
4
5
|
server.tool('find_similar_concepts', "Find medical concepts similar to a reference concept, name, or natural language query. Supports three algorithms: 'semantic' (neural embeddings — best for meaning), 'lexical' (text matching — best for typos), 'hybrid' (combined — default). Provide exactly ONE of: concept_id, concept_name, or query. Use this to explore related concepts, find alternative codes, or build phenotype concept sets. Tip: For drug vocabularies like RxNorm, use drug class names ('ACE inhibitors', 'beta blockers', 'antihypertensives') rather than symptom descriptions ('medications for high blood pressure') — the embedding model aligns better with clinical terminology than lay language.", {
|
|
@@ -39,8 +40,9 @@ export function registerSimilarTools(server, client) {
|
|
|
39
40
|
.max(200)
|
|
40
41
|
.optional()
|
|
41
42
|
.describe("Comma-separated domain IDs to filter results. Examples: 'Condition', 'Drug'."),
|
|
42
|
-
}, async ({ concept_id, concept_name, query, algorithm, similarity_threshold, page_size, vocabulary_ids, domain_ids, }) => {
|
|
43
|
+
}, async ({ concept_id, concept_name, query, algorithm, similarity_threshold, page_size, vocabulary_ids, domain_ids, }, extra) => {
|
|
43
44
|
try {
|
|
45
|
+
const rc = resolveClient(extra, client);
|
|
44
46
|
// Validate exactly one input source
|
|
45
47
|
const provided = [concept_id, concept_name, query].filter((v) => v !== undefined).length;
|
|
46
48
|
if (provided !== 1) {
|
|
@@ -75,7 +77,7 @@ export function registerSimilarTools(server, client) {
|
|
|
75
77
|
.split(',')
|
|
76
78
|
.map((s) => s.trim())
|
|
77
79
|
.filter(Boolean);
|
|
78
|
-
const response = await
|
|
80
|
+
const response = await rc.post('/search/similar', body, 'find_similar_concepts');
|
|
79
81
|
const data = response.data;
|
|
80
82
|
const concepts = data?.similar_concepts ?? [];
|
|
81
83
|
const meta = data?.search_metadata;
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"similar.js","sourceRoot":"","sources":["../../src/tools/similar.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;AAExB,OAAO,EAAE,iBAAiB,EAAE,MAAM,oBAAoB,CAAC;AA0BvD,MAAM,UAAU,oBAAoB,CAAC,MAAiB,EAAE,MAAqB;IAC3E,MAAM,CAAC,IAAI,CACT,uBAAuB,EACvB,4pBAA4pB,EAC5pB;QACE,UAAU,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,+CAA+C,CAAC;QAC3F,YAAY,EAAE,CAAC;aACZ,MAAM,EAAE;aACR,GAAG,CAAC,GAAG,CAAC;aACR,QAAQ,EAAE;aACV,QAAQ,CAAC,4CAA4C,CAAC;QACzD,KAAK,EAAE,CAAC;aACL,MAAM,EAAE;aACR,GAAG,CAAC,GAAG,CAAC;aACR,QAAQ,EAAE;aACV,QAAQ,CAAC,0DAA0D,CAAC;QACvE,SAAS,EAAE,CAAC;aACT,IAAI,CAAC,CAAC,UAAU,EAAE,SAAS,EAAE,QAAQ,CAAC,CAAC;aACvC,OAAO,CAAC,QAAQ,CAAC;aACjB,QAAQ,CACP,kGAAkG,CACnG;QACH,oBAAoB,EAAE,CAAC;aACpB,MAAM,EAAE;aACR,GAAG,CAAC,CAAC,CAAC;aACN,GAAG,CAAC,CAAC,CAAC;aACN,OAAO,CAAC,GAAG,CAAC;aACZ,QAAQ,CAAC,kDAAkD,CAAC;QAC/D,SAAS,EAAE,CAAC;aACT,MAAM,EAAE;aACR,GAAG,CAAC,CAAC,CAAC;aACN,GAAG,CAAC,GAAG,CAAC;aACR,OAAO,CAAC,EAAE,CAAC;aACX,QAAQ,CAAC,uCAAuC,CAAC;QACpD,cAAc,EAAE,CAAC;aACd,MAAM,EAAE;aACR,GAAG,CAAC,GAAG,CAAC;aACR,QAAQ,EAAE;aACV,QAAQ,CACP,kFAAkF,CACnF;QACH,UAAU,EAAE,CAAC;aACV,MAAM,EAAE;aACR,GAAG,CAAC,GAAG,CAAC;aACR,QAAQ,EAAE;aACV,QAAQ,CAAC,8EAA8E,CAAC;KAC5F,EACD,KAAK,
|
|
1
|
+
{"version":3,"file":"similar.js","sourceRoot":"","sources":["../../src/tools/similar.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;AAExB,OAAO,EAAE,aAAa,EAAE,MAAM,sBAAsB,CAAC;AACrD,OAAO,EAAE,iBAAiB,EAAE,MAAM,oBAAoB,CAAC;AA0BvD,MAAM,UAAU,oBAAoB,CAAC,MAAiB,EAAE,MAAqB;IAC3E,MAAM,CAAC,IAAI,CACT,uBAAuB,EACvB,4pBAA4pB,EAC5pB;QACE,UAAU,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,+CAA+C,CAAC;QAC3F,YAAY,EAAE,CAAC;aACZ,MAAM,EAAE;aACR,GAAG,CAAC,GAAG,CAAC;aACR,QAAQ,EAAE;aACV,QAAQ,CAAC,4CAA4C,CAAC;QACzD,KAAK,EAAE,CAAC;aACL,MAAM,EAAE;aACR,GAAG,CAAC,GAAG,CAAC;aACR,QAAQ,EAAE;aACV,QAAQ,CAAC,0DAA0D,CAAC;QACvE,SAAS,EAAE,CAAC;aACT,IAAI,CAAC,CAAC,UAAU,EAAE,SAAS,EAAE,QAAQ,CAAC,CAAC;aACvC,OAAO,CAAC,QAAQ,CAAC;aACjB,QAAQ,CACP,kGAAkG,CACnG;QACH,oBAAoB,EAAE,CAAC;aACpB,MAAM,EAAE;aACR,GAAG,CAAC,CAAC,CAAC;aACN,GAAG,CAAC,CAAC,CAAC;aACN,OAAO,CAAC,GAAG,CAAC;aACZ,QAAQ,CAAC,kDAAkD,CAAC;QAC/D,SAAS,EAAE,CAAC;aACT,MAAM,EAAE;aACR,GAAG,CAAC,CAAC,CAAC;aACN,GAAG,CAAC,GAAG,CAAC;aACR,OAAO,CAAC,EAAE,CAAC;aACX,QAAQ,CAAC,uCAAuC,CAAC;QACpD,cAAc,EAAE,CAAC;aACd,MAAM,EAAE;aACR,GAAG,CAAC,GAAG,CAAC;aACR,QAAQ,EAAE;aACV,QAAQ,CACP,kFAAkF,CACnF;QACH,UAAU,EAAE,CAAC;aACV,MAAM,EAAE;aACR,GAAG,CAAC,GAAG,CAAC;aACR,QAAQ,EAAE;aACV,QAAQ,CAAC,8EAA8E,CAAC;KAC5F,EACD,KAAK,EACH,EACE,UAAU,EACV,YAAY,EACZ,KAAK,EACL,SAAS,EACT,oBAAoB,EACpB,SAAS,EACT,cAAc,EACd,UAAU,GACX,EACD,KAAK,EACL,EAAE;QACF,IAAI,CAAC;YACH,MAAM,EAAE,GAAG,aAAa,CAAC,KAAK,EAAE,MAAM,CAAC,CAAC;YACxC,oCAAoC;YACpC,MAAM,QAAQ,GAAG,CAAC,UAAU,EAAE,YAAY,EAAE,KAAK,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,KAAK,SAAS,CAAC,CAAC,MAAM,CAAC;YACzF,IAAI,QAAQ,KAAK,CAAC,EAAE,CAAC;gBACnB,OAAO;oBACL,OAAO,EAAE;wBACP;4BACE,IAAI,EAAE,MAAe;4BACrB,IAAI,EAAE,mEAAmE;yBAC1E;qBACF;oBACD,OAAO,EAAE,IAAI;iBACd,CAAC;YACJ,CAAC;YAED,MAAM,IAAI,GAA4B;gBACpC,SAAS,EAAE,SAAS,IAAI,QAAQ;gBAChC,oBAAoB,EAAE,oBAAoB,IAAI,GAAG;gBACjD,SAAS,EAAE,SAAS,IAAI,EAAE;aAC3B,CAAC;YAEF,IAAI,UAAU,KAAK,SAAS;gBAAE,IAAI,CAAC,UAAU,GAAG,UAAU,CAAC;YAC3D,IAAI,YAAY,KAAK,SAAS;gBAAE,IAAI,CAAC,YAAY,GAAG,YAAY,CAAC;YACjE,IAAI,KAAK,KAAK,SAAS;gBAAE,IAAI,CAAC,KAAK,GAAG,KAAK,CAAC;YAC5C,IAAI,cAAc;gBAChB,IAAI,CAAC,cAAc,GAAG,cAAc;qBACjC,KAAK,CAAC,GAAG,CAAC;qBACV,GAAG,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,IAAI,EAAE,CAAC;qBACpB,MAAM,CAAC,OAAO,CAAC,CAAC;YACrB,IAAI,UAAU;gBACZ,IAAI,CAAC,UAAU,GAAG,UAAU;qBACzB,KAAK,CAAC,GAAG,CAAC;qBACV,GAAG,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,IAAI,EAAE,CAAC;qBACpB,MAAM,CAAC,OAAO,CAAC,CAAC;YAErB,MAAM,QAAQ,GAAG,MAAM,EAAE,CAAC,IAAI,CAC5B,iBAAiB,EACjB,IAAI,EACJ,uBAAuB,CACxB,CAAC;YAEF,MAAM,IAAI,GAAG,QAAQ,CAAC,IAAI,CAAC;YAC3B,MAAM,QAAQ,GAAG,IAAI,EAAE,gBAAgB,IAAI,EAAE,CAAC;YAC9C,MAAM,IAAI,GAAG,IAAI,EAAE,eAAe,CAAC;YAEnC,IAAI,QAAQ,CAAC,MAAM,KAAK,CAAC,EAAE,CAAC;gBAC1B,MAAM,MAAM,GAAG,UAAU,CAAC,CAAC,CAAC,WAAW,UAAU,EAAE,CAAC,CAAC,CAAC,CAAC,YAAY,IAAI,KAAK,IAAI,EAAE,CAAC,CAAC;gBACpF,OAAO;oBACL,OAAO,EAAE;wBACP;4BACE,IAAI,EAAE,MAAe;4BACrB,IAAI,EAAE,iCAAiC,MAAM,yEAAyE;yBACvH;wBACD;4BACE,IAAI,EAAE,MAAe;4BACrB,IAAI,EAAE,IAAI,CAAC,SAAS,CAAC,EAAE,gBAAgB,EAAE,EAAE,EAAE,eAAe,EAAE,IAAI,EAAE,CAAC;yBACtE;qBACF;iBACF,CAAC;YACJ,CAAC;YAED,MAAM,MAAM,GAAG,UAAU;gBACvB,CAAC,CAAC,cAAc,UAAU,EAAE;gBAC5B,CAAC,CAAC,YAAY;oBACZ,CAAC,CAAC,IAAI,YAAY,GAAG;oBACrB,CAAC,CAAC,IAAI,KAAK,GAAG,CAAC;YAEnB,MAAM,KAAK,GAAG,QAAQ,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE;gBAClC,MAAM,GAAG,GACP,CAAC,CAAC,gBAAgB,KAAK,GAAG;oBACxB,CAAC,CAAC,aAAa;oBACf,CAAC,CAAC,CAAC,CAAC,gBAAgB,KAAK,GAAG;wBAC1B,CAAC,CAAC,mBAAmB;wBACrB,CAAC,CAAC,EAAE,CAAC;gBACX,MAAM,KAAK,GAAG,MAAM,CAAC,QAAQ,CAAC,CAAC,CAAC,gBAAgB,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,gBAAgB,CAAC,OAAO,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,KAAK,CAAC;gBAC1F,IAAI,IAAI,GAAG,GAAG,CAAC,GAAG,CAAC,OAAO,CAAC,CAAC,YAAY,WAAW,CAAC,CAAC,UAAU,cAAc,KAAK,QAAQ,CAAC,CAAC,aAAa,MAAM,CAAC,CAAC,SAAS,YAAY,CAAC,CAAC,YAAY,GAAG,GAAG,EAAE,CAAC;gBAC7J,IAAI,CAAC,CAAC,sBAAsB,EAAE,CAAC;oBAC7B,IAAI,IAAI,SAAS,CAAC,CAAC,sBAAsB,GAAG,CAAC;gBAC/C,CAAC;gBACD,OAAO,IAAI,CAAC;YACd,CAAC,CAAC,CAAC;YAEH,MAAM,SAAS,GAAG,IAAI,EAAE,cAAc,IAAI,SAAS,IAAI,QAAQ,CAAC;YAChE,MAAM,IAAI,GAAG,SAAS,QAAQ,CAAC,MAAM,wBAAwB,MAAM,KAAK,SAAS,mBAAmB,KAAK,CAAC,IAAI,CAAC,MAAM,CAAC,EAAE,CAAC;YAEzH,OAAO;gBACL,OAAO,EAAE;oBACP,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE;oBAC/B;wBACE,IAAI,EAAE,MAAe;wBACrB,IAAI,EAAE,IAAI,CAAC,SAAS,CAAC,EAAE,gBAAgB,EAAE,QAAQ,EAAE,eAAe,EAAE,IAAI,EAAE,CAAC;qBAC5E;iBACF;aACF,CAAC;QACJ,CAAC;QAAC,OAAO,KAAK,EAAE,CAAC;YACf,MAAM,EAAE,IAAI,EAAE,IAAI,EAAE,GAAG,iBAAiB,CAAC,KAAK,EAAE,uBAAuB,CAAC,CAAC;YACzE,OAAO;gBACL,OAAO,EAAE;oBACP,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE;oBAC/B,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE,IAAI,EAAE;iBACtC;gBACD,OAAO,EAAE,IAAI;aACd,CAAC;QACJ,CAAC;IACH,CAAC,CACF,CAAC;AACJ,CAAC"}
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"vocabularies.d.ts","sourceRoot":"","sources":["../../src/tools/vocabularies.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AAEzE,OAAO,KAAK,EAAE,aAAa,EAAE,MAAM,kBAAkB,CAAC;
|
|
1
|
+
{"version":3,"file":"vocabularies.d.ts","sourceRoot":"","sources":["../../src/tools/vocabularies.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AAEzE,OAAO,KAAK,EAAE,aAAa,EAAE,MAAM,kBAAkB,CAAC;AA8BtD,wBAAgB,uBAAuB,CAAC,MAAM,EAAE,SAAS,EAAE,MAAM,EAAE,aAAa,GAAG,IAAI,CAyDtF"}
|
|
@@ -1,7 +1,23 @@
|
|
|
1
1
|
import { z } from 'zod';
|
|
2
|
+
import { resolveClient } from '../client/resolve.js';
|
|
2
3
|
import { formatVocabularyList } from '../formatters/index.js';
|
|
3
4
|
import { vocabularyCache } from '../utils/cache.js';
|
|
4
5
|
import { formatErrorForMcp } from '../utils/errors.js';
|
|
6
|
+
const PAGE_SIZE = 100;
|
|
7
|
+
async function fetchAllVocabularies(client) {
|
|
8
|
+
const all = [];
|
|
9
|
+
let page = 1;
|
|
10
|
+
// eslint-disable-next-line @typescript-eslint/no-unnecessary-condition
|
|
11
|
+
while (true) {
|
|
12
|
+
const raw = await client.request('/vocabularies', { include_stats: true, page_size: PAGE_SIZE, page }, 'list_vocabularies');
|
|
13
|
+
const batch = raw.data.vocabularies;
|
|
14
|
+
all.push(...batch);
|
|
15
|
+
if (batch.length < PAGE_SIZE || !raw.meta?.pagination?.has_next)
|
|
16
|
+
break;
|
|
17
|
+
page++;
|
|
18
|
+
}
|
|
19
|
+
return all;
|
|
20
|
+
}
|
|
5
21
|
export function registerVocabularyTools(server, client) {
|
|
6
22
|
server.tool('list_vocabularies', 'List all available medical vocabularies in the OMOP standardized vocabulary system with concept counts and metadata. Use this to understand what terminology systems are available (SNOMED CT, ICD-10-CM, RxNorm, LOINC, etc.) and their scope.', {
|
|
7
23
|
search: z
|
|
@@ -9,19 +25,29 @@ export function registerVocabularyTools(server, client) {
|
|
|
9
25
|
.max(200)
|
|
10
26
|
.optional()
|
|
11
27
|
.describe('Optional search term to filter vocabularies by name'),
|
|
12
|
-
}, async ({ search }) => {
|
|
28
|
+
}, async ({ search }, extra) => {
|
|
13
29
|
try {
|
|
30
|
+
const rc = resolveClient(extra, client);
|
|
14
31
|
const cacheKey = 'vocabularies:all';
|
|
15
|
-
let
|
|
16
|
-
if (!
|
|
17
|
-
|
|
18
|
-
|
|
19
|
-
response = {
|
|
20
|
-
...rawResponse,
|
|
21
|
-
data: rawResponse.data.vocabularies,
|
|
22
|
-
};
|
|
23
|
-
vocabularyCache.set(cacheKey, response);
|
|
32
|
+
let vocabs = vocabularyCache.get(cacheKey);
|
|
33
|
+
if (!vocabs) {
|
|
34
|
+
vocabs = await fetchAllVocabularies(rc);
|
|
35
|
+
vocabularyCache.set(cacheKey, vocabs);
|
|
24
36
|
}
|
|
37
|
+
const response = {
|
|
38
|
+
success: true,
|
|
39
|
+
data: vocabs,
|
|
40
|
+
meta: {
|
|
41
|
+
pagination: {
|
|
42
|
+
total_items: vocabs.length,
|
|
43
|
+
page: 1,
|
|
44
|
+
page_size: vocabs.length,
|
|
45
|
+
total_pages: 1,
|
|
46
|
+
has_next: false,
|
|
47
|
+
has_previous: false,
|
|
48
|
+
},
|
|
49
|
+
},
|
|
50
|
+
};
|
|
25
51
|
const { text, json } = formatVocabularyList(response, search);
|
|
26
52
|
return {
|
|
27
53
|
content: [
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"vocabularies.js","sourceRoot":"","sources":["../../src/tools/vocabularies.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;
|
|
1
|
+
{"version":3,"file":"vocabularies.js","sourceRoot":"","sources":["../../src/tools/vocabularies.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;AAExB,OAAO,EAAE,aAAa,EAAE,MAAM,sBAAsB,CAAC;AAErD,OAAO,EAAE,oBAAoB,EAAE,MAAM,wBAAwB,CAAC;AAC9D,OAAO,EAAE,eAAe,EAAE,MAAM,mBAAmB,CAAC;AACpD,OAAO,EAAE,iBAAiB,EAAE,MAAM,oBAAoB,CAAC;AAEvD,MAAM,SAAS,GAAG,GAAG,CAAC;AAEtB,KAAK,UAAU,oBAAoB,CAAC,MAAqB;IACvD,MAAM,GAAG,GAAiB,EAAE,CAAC;IAC7B,IAAI,IAAI,GAAG,CAAC,CAAC;IAEb,uEAAuE;IACvE,OAAO,IAAI,EAAE,CAAC;QACZ,MAAM,GAAG,GAAG,MAAM,MAAM,CAAC,OAAO,CAC9B,eAAe,EACf,EAAE,aAAa,EAAE,IAAI,EAAE,SAAS,EAAE,SAAS,EAAE,IAAI,EAAE,EACnD,mBAAmB,CACpB,CAAC;QACF,MAAM,KAAK,GAAG,GAAG,CAAC,IAAI,CAAC,YAAY,CAAC;QACpC,GAAG,CAAC,IAAI,CAAC,GAAG,KAAK,CAAC,CAAC;QAEnB,IAAI,KAAK,CAAC,MAAM,GAAG,SAAS,IAAI,CAAC,GAAG,CAAC,IAAI,EAAE,UAAU,EAAE,QAAQ;YAAE,MAAM;QACvE,IAAI,EAAE,CAAC;IACT,CAAC;IAED,OAAO,GAAG,CAAC;AACb,CAAC;AAED,MAAM,UAAU,uBAAuB,CAAC,MAAiB,EAAE,MAAqB;IAC9E,MAAM,CAAC,IAAI,CACT,mBAAmB,EACnB,iPAAiP,EACjP;QACE,MAAM,EAAE,CAAC;aACN,MAAM,EAAE;aACR,GAAG,CAAC,GAAG,CAAC;aACR,QAAQ,EAAE;aACV,QAAQ,CAAC,qDAAqD,CAAC;KACnE,EACD,KAAK,EAAE,EAAE,MAAM,EAAE,EAAE,KAAK,EAAE,EAAE;QAC1B,IAAI,CAAC;YACH,MAAM,EAAE,GAAG,aAAa,CAAC,KAAK,EAAE,MAAM,CAAC,CAAC;YACxC,MAAM,QAAQ,GAAG,kBAAkB,CAAC;YACpC,IAAI,MAAM,GAAG,eAAe,CAAC,GAAG,CAAC,QAAQ,CAA6B,CAAC;YAEvE,IAAI,CAAC,MAAM,EAAE,CAAC;gBACZ,MAAM,GAAG,MAAM,oBAAoB,CAAC,EAAE,CAAC,CAAC;gBACxC,eAAe,CAAC,GAAG,CAAC,QAAQ,EAAE,MAAM,CAAC,CAAC;YACxC,CAAC;YAED,MAAM,QAAQ,GAA8B;gBAC1C,OAAO,EAAE,IAAI;gBACb,IAAI,EAAE,MAAM;gBACZ,IAAI,EAAE;oBACJ,UAAU,EAAE;wBACV,WAAW,EAAE,MAAM,CAAC,MAAM;wBAC1B,IAAI,EAAE,CAAC;wBACP,SAAS,EAAE,MAAM,CAAC,MAAM;wBACxB,WAAW,EAAE,CAAC;wBACd,QAAQ,EAAE,KAAK;wBACf,YAAY,EAAE,KAAK;qBACpB;iBACF;aACF,CAAC;YAEF,MAAM,EAAE,IAAI,EAAE,IAAI,EAAE,GAAG,oBAAoB,CAAC,QAAQ,EAAE,MAAM,CAAC,CAAC;YAE9D,OAAO;gBACL,OAAO,EAAE;oBACP,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE;oBAC/B,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE,IAAI,EAAE;iBACtC;aACF,CAAC;QACJ,CAAC;QAAC,OAAO,KAAK,EAAE,CAAC;YACf,MAAM,EAAE,IAAI,EAAE,IAAI,EAAE,GAAG,iBAAiB,CAAC,KAAK,EAAE,mBAAmB,CAAC,CAAC;YACrE,OAAO;gBACL,OAAO,EAAE;oBACP,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE;oBAC/B,EAAE,IAAI,EAAE,MAAe,EAAE,IAAI,EAAE,IAAI,EAAE;iBACtC;gBACD,OAAO,EAAE,IAAI;aACd,CAAC;QACJ,CAAC;IACH,CAAC,CACF,CAAC;AACJ,CAAC"}
|
|
@@ -1,7 +1,7 @@
|
|
|
1
1
|
import { type Server } from 'node:http';
|
|
2
2
|
import type { McpServer } from '@modelcontextprotocol/sdk/server/mcp.js';
|
|
3
3
|
/**
|
|
4
|
-
* Starts an HTTP server with Streamable HTTP MCP transport on /
|
|
4
|
+
* Starts an HTTP server with Streamable HTTP MCP transport on /
|
|
5
5
|
* and a health endpoint on /health.
|
|
6
6
|
*/
|
|
7
7
|
export declare function startHttpTransport(mcpServer: McpServer, port: number): Promise<Server>;
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"http.d.ts","sourceRoot":"","sources":["../../src/transports/http.ts"],"names":[],"mappings":"AAAA,OAAO,EAAsC,KAAK,MAAM,EAAuB,MAAM,WAAW,CAAC;AACjG,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AAkBzE;;;GAGG;AACH,wBAAsB,kBAAkB,CAAC,SAAS,EAAE,SAAS,EAAE,IAAI,EAAE,MAAM,GAAG,OAAO,CAAC,MAAM,CAAC,
|
|
1
|
+
{"version":3,"file":"http.d.ts","sourceRoot":"","sources":["../../src/transports/http.ts"],"names":[],"mappings":"AAAA,OAAO,EAAsC,KAAK,MAAM,EAAuB,MAAM,WAAW,CAAC;AACjG,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AAkBzE;;;GAGG;AACH,wBAAsB,kBAAkB,CAAC,SAAS,EAAE,SAAS,EAAE,IAAI,EAAE,MAAM,GAAG,OAAO,CAAC,MAAM,CAAC,CAqD5F"}
|
package/dist/transports/http.js
CHANGED
|
@@ -5,7 +5,7 @@ import { logger } from '../utils/logger.js';
|
|
|
5
5
|
const CORS_HEADERS = {
|
|
6
6
|
'Access-Control-Allow-Origin': '*',
|
|
7
7
|
'Access-Control-Allow-Methods': 'GET, POST, DELETE, OPTIONS',
|
|
8
|
-
'Access-Control-Allow-Headers': 'Content-Type, mcp-session-id',
|
|
8
|
+
'Access-Control-Allow-Headers': 'Content-Type, mcp-session-id, Authorization',
|
|
9
9
|
'Access-Control-Expose-Headers': 'mcp-session-id',
|
|
10
10
|
};
|
|
11
11
|
function setCorsHeaders(res) {
|
|
@@ -14,7 +14,7 @@ function setCorsHeaders(res) {
|
|
|
14
14
|
}
|
|
15
15
|
}
|
|
16
16
|
/**
|
|
17
|
-
* Starts an HTTP server with Streamable HTTP MCP transport on /
|
|
17
|
+
* Starts an HTTP server with Streamable HTTP MCP transport on /
|
|
18
18
|
* and a health endpoint on /health.
|
|
19
19
|
*/
|
|
20
20
|
export async function startHttpTransport(mcpServer, port) {
|
|
@@ -33,8 +33,9 @@ export async function startHttpTransport(mcpServer, port) {
|
|
|
33
33
|
// Health endpoint
|
|
34
34
|
if (handleHealthRequest(req, res))
|
|
35
35
|
return;
|
|
36
|
-
// MCP endpoint
|
|
37
|
-
|
|
36
|
+
// MCP endpoint (/ for hosted, /mcp for self-hosted backward compat)
|
|
37
|
+
const pathname = new URL(req.url ?? '/', 'http://localhost').pathname;
|
|
38
|
+
if (pathname === '/' || pathname === '/mcp') {
|
|
38
39
|
try {
|
|
39
40
|
await transport.handleRequest(req, res);
|
|
40
41
|
}
|
|
@@ -56,7 +57,7 @@ export async function startHttpTransport(mcpServer, port) {
|
|
|
56
57
|
});
|
|
57
58
|
await new Promise((resolve) => {
|
|
58
59
|
httpServer.listen(port, () => {
|
|
59
|
-
logger.info(`OMOPHub MCP server listening on http://localhost:${String(port)}
|
|
60
|
+
logger.info(`OMOPHub MCP server listening on http://localhost:${String(port)}`);
|
|
60
61
|
logger.info(`Health endpoint at http://localhost:${String(port)}/health`);
|
|
61
62
|
resolve();
|
|
62
63
|
});
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"http.js","sourceRoot":"","sources":["../../src/transports/http.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,YAAY,EAA0D,MAAM,WAAW,CAAC;AAEjG,OAAO,EAAE,6BAA6B,EAAE,MAAM,oDAAoD,CAAC;AACnG,OAAO,EAAE,mBAAmB,EAAE,MAAM,cAAc,CAAC;AACnD,OAAO,EAAE,MAAM,EAAE,MAAM,oBAAoB,CAAC;AAE5C,MAAM,YAAY,GAA2B;IAC3C,6BAA6B,EAAE,GAAG;IAClC,8BAA8B,EAAE,4BAA4B;IAC5D,8BAA8B,EAAE,
|
|
1
|
+
{"version":3,"file":"http.js","sourceRoot":"","sources":["../../src/transports/http.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,YAAY,EAA0D,MAAM,WAAW,CAAC;AAEjG,OAAO,EAAE,6BAA6B,EAAE,MAAM,oDAAoD,CAAC;AACnG,OAAO,EAAE,mBAAmB,EAAE,MAAM,cAAc,CAAC;AACnD,OAAO,EAAE,MAAM,EAAE,MAAM,oBAAoB,CAAC;AAE5C,MAAM,YAAY,GAA2B;IAC3C,6BAA6B,EAAE,GAAG;IAClC,8BAA8B,EAAE,4BAA4B;IAC5D,8BAA8B,EAAE,6CAA6C;IAC7E,+BAA+B,EAAE,gBAAgB;CAClD,CAAC;AAEF,SAAS,cAAc,CAAC,GAAmB;IACzC,KAAK,MAAM,CAAC,GAAG,EAAE,KAAK,CAAC,IAAI,MAAM,CAAC,OAAO,CAAC,YAAY,CAAC,EAAE,CAAC;QACxD,GAAG,CAAC,SAAS,CAAC,GAAG,EAAE,KAAK,CAAC,CAAC;IAC5B,CAAC;AACH,CAAC;AAED;;;GAGG;AACH,MAAM,CAAC,KAAK,UAAU,kBAAkB,CAAC,SAAoB,EAAE,IAAY;IACzE,MAAM,SAAS,GAAG,IAAI,6BAA6B,CAAC;QAClD,kBAAkB,EAAE,SAAS;KAC9B,CAAC,CAAC;IAEH,MAAM,SAAS,CAAC,OAAO,CAAC,SAAS,CAAC,CAAC;IAEnC,MAAM,UAAU,GAAG,YAAY,CAAC,KAAK,EAAE,GAAoB,EAAE,GAAmB,EAAE,EAAE;QAClF,cAAc,CAAC,GAAG,CAAC,CAAC;QAEpB,wBAAwB;QACxB,IAAI,GAAG,CAAC,MAAM,KAAK,SAAS,EAAE,CAAC;YAC7B,GAAG,CAAC,SAAS,CAAC,GAAG,CAAC,CAAC;YACnB,GAAG,CAAC,GAAG,EAAE,CAAC;YACV,OAAO;QACT,CAAC;QAED,kBAAkB;QAClB,IAAI,mBAAmB,CAAC,GAAG,EAAE,GAAG,CAAC;YAAE,OAAO;QAE1C,oEAAoE;QACpE,MAAM,QAAQ,GAAG,IAAI,GAAG,CAAC,GAAG,CAAC,GAAG,IAAI,GAAG,EAAE,kBAAkB,CAAC,CAAC,QAAQ,CAAC;QACtE,IAAI,QAAQ,KAAK,GAAG,IAAI,QAAQ,KAAK,MAAM,EAAE,CAAC;YAC5C,IAAI,CAAC;gBACH,MAAM,SAAS,CAAC,aAAa,CAAC,GAAG,EAAE,GAAG,CAAC,CAAC;YAC1C,CAAC;YAAC,OAAO,KAAK,EAAE,CAAC;gBACf,MAAM,CAAC,KAAK,CAAC,qBAAqB,EAAE,EAAE,KAAK,EAAE,MAAM,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC;gBAC9D,IAAI,CAAC,GAAG,CAAC,WAAW,EAAE,CAAC;oBACrB,GAAG,CAAC,SAAS,CAAC,GAAG,EAAE,EAAE,cAAc,EAAE,kBAAkB,EAAE,CAAC,CAAC;oBAC3D,GAAG,CAAC,GAAG,CAAC,IAAI,CAAC,SAAS,CAAC,EAAE,KAAK,EAAE,uBAAuB,EAAE,CAAC,CAAC,CAAC;gBAC9D,CAAC;YACH,CAAC;YACD,OAAO;QACT,CAAC;QAED,YAAY;QACZ,GAAG,CAAC,SAAS,CAAC,GAAG,EAAE,EAAE,cAAc,EAAE,kBAAkB,EAAE,CAAC,CAAC;QAC3D,GAAG,CAAC,GAAG,CAAC,IAAI,CAAC,SAAS,CAAC,EAAE,KAAK,EAAE,WAAW,EAAE,CAAC,CAAC,CAAC;IAClD,CAAC,CAAC,CAAC;IAEH,UAAU,CAAC,EAAE,CAAC,OAAO,EAAE,CAAC,GAAG,EAAE,EAAE;QAC7B,MAAM,CAAC,KAAK,CAAC,mBAAmB,EAAE,EAAE,KAAK,EAAE,MAAM,CAAC,GAAG,CAAC,EAAE,IAAI,EAAE,CAAC,CAAC;IAClE,CAAC,CAAC,CAAC;IAEH,MAAM,IAAI,OAAO,CAAO,CAAC,OAAO,EAAE,EAAE;QAClC,UAAU,CAAC,MAAM,CAAC,IAAI,EAAE,GAAG,EAAE;YAC3B,MAAM,CAAC,IAAI,CAAC,oDAAoD,MAAM,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;YAChF,MAAM,CAAC,IAAI,CAAC,uCAAuC,MAAM,CAAC,IAAI,CAAC,SAAS,CAAC,CAAC;YAC1E,OAAO,EAAE,CAAC;QACZ,CAAC,CAAC,CAAC;IACL,CAAC,CAAC,CAAC;IAEH,OAAO,UAAU,CAAC;AACpB,CAAC"}
|
package/dist/utils/auth.d.ts
CHANGED
|
@@ -1,2 +1,2 @@
|
|
|
1
|
-
export declare function resolveApiKey(cliKey?: string): string;
|
|
1
|
+
export declare function resolveApiKey(cliKey?: string): string | undefined;
|
|
2
2
|
//# sourceMappingURL=auth.d.ts.map
|
package/dist/utils/auth.d.ts.map
CHANGED
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"auth.d.ts","sourceRoot":"","sources":["../../src/utils/auth.ts"],"names":[],"mappings":"AAAA,wBAAgB,aAAa,CAAC,MAAM,CAAC,EAAE,MAAM,GAAG,MAAM,
|
|
1
|
+
{"version":3,"file":"auth.d.ts","sourceRoot":"","sources":["../../src/utils/auth.ts"],"names":[],"mappings":"AAAA,wBAAgB,aAAa,CAAC,MAAM,CAAC,EAAE,MAAM,GAAG,MAAM,GAAG,SAAS,CAEjE"}
|
package/dist/utils/auth.js
CHANGED
|
@@ -1,9 +1,4 @@
|
|
|
1
1
|
export function resolveApiKey(cliKey) {
|
|
2
|
-
|
|
3
|
-
if (!key) {
|
|
4
|
-
throw new Error('OMOPHub API key required. Set OMOPHUB_API_KEY environment variable or pass --api-key=KEY.\n' +
|
|
5
|
-
'Get your free API key at: https://omophub.com/dashboard/api-keys');
|
|
6
|
-
}
|
|
7
|
-
return key;
|
|
2
|
+
return cliKey || process.env.OMOPHUB_API_KEY || undefined;
|
|
8
3
|
}
|
|
9
4
|
//# sourceMappingURL=auth.js.map
|
package/dist/utils/auth.js.map
CHANGED
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"auth.js","sourceRoot":"","sources":["../../src/utils/auth.ts"],"names":[],"mappings":"AAAA,MAAM,UAAU,aAAa,CAAC,MAAe;IAC3C,
|
|
1
|
+
{"version":3,"file":"auth.js","sourceRoot":"","sources":["../../src/utils/auth.ts"],"names":[],"mappings":"AAAA,MAAM,UAAU,aAAa,CAAC,MAAe;IAC3C,OAAO,MAAM,IAAI,OAAO,CAAC,GAAG,CAAC,eAAe,IAAI,SAAS,CAAC;AAC5D,CAAC"}
|
package/dist/utils/errors.js
CHANGED
|
@@ -8,8 +8,8 @@ export class OmopHubApiError extends Error {
|
|
|
8
8
|
this.name = 'OmopHubApiError';
|
|
9
9
|
}
|
|
10
10
|
}
|
|
11
|
-
const UPGRADE_URL = 'https://omophub.com/
|
|
12
|
-
const API_KEYS_URL = 'https://omophub.com/
|
|
11
|
+
const UPGRADE_URL = 'https://dashboard.omophub.com/billing';
|
|
12
|
+
const API_KEYS_URL = 'https://dashboard.omophub.com/api-keys';
|
|
13
13
|
export function formatErrorForMcp(error, toolName) {
|
|
14
14
|
if (error instanceof OmopHubApiError) {
|
|
15
15
|
switch (error.status) {
|
package/package.json
CHANGED
|
@@ -1,6 +1,6 @@
|
|
|
1
1
|
{
|
|
2
2
|
"name": "@omophub/omophub-mcp",
|
|
3
|
-
"version": "1.
|
|
3
|
+
"version": "1.3.0",
|
|
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",
|