@cyanheads/gbif-biodiversity-mcp-server 0.2.9 → 0.4.0
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/CLAUDE.md +2 -2
- package/README.md +1 -1
- package/dist/mcp-server/resources/definitions/gbif-dataset.resource.d.ts +7 -1
- package/dist/mcp-server/resources/definitions/gbif-dataset.resource.d.ts.map +1 -1
- package/dist/mcp-server/resources/definitions/gbif-dataset.resource.js +28 -4
- package/dist/mcp-server/resources/definitions/gbif-dataset.resource.js.map +1 -1
- package/dist/mcp-server/resources/definitions/gbif-species.resource.d.ts +7 -1
- package/dist/mcp-server/resources/definitions/gbif-species.resource.d.ts.map +1 -1
- package/dist/mcp-server/resources/definitions/gbif-species.resource.js +26 -3
- package/dist/mcp-server/resources/definitions/gbif-species.resource.js.map +1 -1
- package/dist/mcp-server/tools/definitions/gbif-get-dataset.tool.d.ts +3 -0
- package/dist/mcp-server/tools/definitions/gbif-get-dataset.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/gbif-get-dataset.tool.js +28 -7
- package/dist/mcp-server/tools/definitions/gbif-get-dataset.tool.js.map +1 -1
- package/dist/mcp-server/tools/definitions/gbif-get-species.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/gbif-get-species.tool.js +3 -1
- package/dist/mcp-server/tools/definitions/gbif-get-species.tool.js.map +1 -1
- package/dist/mcp-server/tools/definitions/gbif-occurrence-facets.tool.d.ts +1 -0
- package/dist/mcp-server/tools/definitions/gbif-occurrence-facets.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/gbif-occurrence-facets.tool.js +6 -1
- package/dist/mcp-server/tools/definitions/gbif-occurrence-facets.tool.js.map +1 -1
- package/dist/mcp-server/tools/definitions/gbif-search-occurrences.tool.d.ts +1 -0
- package/dist/mcp-server/tools/definitions/gbif-search-occurrences.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/gbif-search-occurrences.tool.js +7 -2
- package/dist/mcp-server/tools/definitions/gbif-search-occurrences.tool.js.map +1 -1
- package/dist/services/gbif/gbif-service.d.ts +1 -0
- package/dist/services/gbif/gbif-service.d.ts.map +1 -1
- package/dist/services/gbif/gbif-service.js +2 -0
- package/dist/services/gbif/gbif-service.js.map +1 -1
- package/package.json +2 -3
- package/server.json +3 -3
package/CLAUDE.md
CHANGED
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@@ -1,8 +1,8 @@
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# Developer Protocol
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**Server:** @cyanheads/gbif-biodiversity-mcp-server
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**Version:** 0.
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**Framework:** [@cyanheads/mcp-ts-core](https://www.npmjs.com/package/@cyanheads/mcp-ts-core) `^0.10.
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**Version:** 0.4.0
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**Framework:** [@cyanheads/mcp-ts-core](https://www.npmjs.com/package/@cyanheads/mcp-ts-core) `^0.10.10`
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**Engines:** Bun ≥1.3.0, Node ≥24.0.0
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**MCP SDK:** `@modelcontextprotocol/sdk` ^1.29.0
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**Zod:** ^4.4.3
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package/README.md
CHANGED
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@@ -7,7 +7,7 @@
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<div align="center">
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[](./CHANGELOG.md) [](./LICENSE) [](https://github.com/users/cyanheads/packages/container/package/gbif-biodiversity-mcp-server) [](https://modelcontextprotocol.io/) [](https://www.npmjs.com/package/@cyanheads/gbif-biodiversity-mcp-server) [](https://www.typescriptlang.org/) [](https://bun.sh/)
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</div>
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* @module mcp-server/resources/definitions/gbif-dataset
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*/
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import { z } from '@cyanheads/mcp-ts-core';
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import { JsonRpcErrorCode } from '@cyanheads/mcp-ts-core/errors';
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export declare const gbifDatasetResource: import("@cyanheads/mcp-ts-core").ResourceDefinition<z.ZodObject<{
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datasetKey: z.ZodString;
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}, z.core.$strip>, z.ZodObject<{
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@@ -16,5 +17,10 @@ export declare const gbifDatasetResource: import("@cyanheads/mcp-ts-core").Resou
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publishingCountry: z.ZodOptional<z.ZodString>;
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recordCount: z.ZodOptional<z.ZodNumber>;
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numConstituents: z.ZodOptional<z.ZodNumber>;
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}, z.core.$strip>,
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}, z.core.$strip>, readonly [{
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readonly reason: "not_found";
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readonly code: JsonRpcErrorCode.NotFound;
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readonly when: "The datasetKey UUID does not match any dataset in GBIF.";
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readonly recovery: "Use gbif_search_datasets to find valid dataset keys, or check the UUID from an occurrence record's datasetKey field.";
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}]>;
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//# sourceMappingURL=gbif-dataset.resource.d.ts.map
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{"version":3,"file":"gbif-dataset.resource.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/resources/definitions/gbif-dataset.resource.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,EAAY,CAAC,EAAE,MAAM,wBAAwB,CAAC;
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{"version":3,"file":"gbif-dataset.resource.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/resources/definitions/gbif-dataset.resource.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,EAAY,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACrD,OAAO,EAAE,gBAAgB,EAAY,MAAM,+BAA+B,CAAC;AAK3E,eAAO,MAAM,mBAAmB;;;;;;;;;;;;;;;;;;GAqE9B,CAAC"}
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* @module mcp-server/resources/definitions/gbif-dataset
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*/
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import { resource, z } from '@cyanheads/mcp-ts-core';
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import {
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import { JsonRpcErrorCode, McpError } from '@cyanheads/mcp-ts-core/errors';
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import { stripHtml } from '../../../mcp-server/tools/utils.js';
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import { getGbifService } from '../../../services/gbif/gbif-service.js';
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export const gbifDatasetResource = resource('gbif://dataset/{datasetKey}', {
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name: 'gbif-dataset',
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recordCount: z.number().optional().describe('Number of records. May be absent.'),
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numConstituents: z.number().optional().describe('Number of sub-datasets. May be absent.'),
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}),
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errors: [
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{
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reason: 'not_found',
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code: JsonRpcErrorCode.NotFound,
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when: 'The datasetKey UUID does not match any dataset in GBIF.',
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recovery: "Use gbif_search_datasets to find valid dataset keys, or check the UUID from an occurrence record's datasetKey field.",
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},
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],
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async handler(params, ctx) {
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ctx.log.debug('Fetching dataset resource', { datasetKey: params.datasetKey });
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let raw;
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try {
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raw = await getGbifService().getDataset(params.datasetKey, ctx);
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}
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catch (err) {
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// Map the upstream GBIF 404 envelope to a clean domain not_found, mirroring
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// gbif_get_dataset — the service throws before the !raw.key check can run.
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if (err instanceof McpError && err.code === JsonRpcErrorCode.NotFound) {
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throw ctx.fail('not_found', `Dataset ${params.datasetKey} not found in GBIF.`, {
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...ctx.recoveryFor('not_found'),
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});
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}
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throw err;
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}
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if (!raw.key) {
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throw
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throw ctx.fail('not_found', `Dataset ${params.datasetKey} not found in GBIF.`, {
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...ctx.recoveryFor('not_found'),
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});
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}
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return {
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key: raw.key,
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title: raw.title,
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type: raw.type,
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description: raw.description,
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description: raw.description ? stripHtml(raw.description) : undefined,
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license: raw.license,
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doi: raw.doi,
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citationText: raw.citation?.text,
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{"version":3,"file":"gbif-dataset.resource.js","sourceRoot":"","sources":["../../../../src/mcp-server/resources/definitions/gbif-dataset.resource.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,EAAE,QAAQ,EAAE,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACrD,OAAO,EAAE,QAAQ,EAAE,MAAM,+BAA+B,CAAC;
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{"version":3,"file":"gbif-dataset.resource.js","sourceRoot":"","sources":["../../../../src/mcp-server/resources/definitions/gbif-dataset.resource.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,EAAE,QAAQ,EAAE,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACrD,OAAO,EAAE,gBAAgB,EAAE,QAAQ,EAAE,MAAM,+BAA+B,CAAC;AAC3E,OAAO,EAAE,SAAS,EAAE,MAAM,6BAA6B,CAAC;AACxD,OAAO,EAAE,cAAc,EAAE,MAAM,iCAAiC,CAAC;AAGjE,MAAM,CAAC,MAAM,mBAAmB,GAAG,QAAQ,CAAC,6BAA6B,EAAE;IACzE,IAAI,EAAE,cAAc;IACpB,KAAK,EAAE,cAAc;IACrB,WAAW,EACT,gFAAgF;QAChF,uFAAuF;QACvF,0CAA0C;IAC5C,QAAQ,EAAE,kBAAkB;IAC5B,MAAM,EAAE,CAAC,CAAC,MAAM,CAAC;QACf,UAAU,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,eAAe,CAAC;KACjD,CAAC;IACF,MAAM,EAAE,CAAC,CAAC,MAAM,CAAC;QACf,GAAG,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,eAAe,CAAC;QACpD,KAAK,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,gBAAgB,CAAC;QACvD,IAAI,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,eAAe,CAAC;QACrD,WAAW,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,qCAAqC,CAAC;QAClF,OAAO,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,oCAAoC,CAAC;QAC7E,GAAG,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,kCAAkC,CAAC;QACvE,YAAY,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,oCAAoC,CAAC;QAClF,iBAAiB,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,kCAAkC,CAAC;QACrF,WAAW,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,mCAAmC,CAAC;QAChF,eAAe,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,wCAAwC,CAAC;KAC1F,CAAC;IAEF,MAAM,EAAE;QACN;YACE,MAAM,EAAE,WAAW;YACnB,IAAI,EAAE,gBAAgB,CAAC,QAAQ;YAC/B,IAAI,EAAE,yDAAyD;YAC/D,QAAQ,EACN,sHAAsH;SACzH;KACF;IAED,KAAK,CAAC,OAAO,CAAC,MAAM,EAAE,GAAG;QACvB,GAAG,CAAC,GAAG,CAAC,KAAK,CAAC,2BAA2B,EAAE,EAAE,UAAU,EAAE,MAAM,CAAC,UAAU,EAAE,CAAC,CAAC;QAC9E,IAAI,GAAqB,CAAC;QAC1B,IAAI,CAAC;YACH,GAAG,GAAG,MAAM,cAAc,EAAE,CAAC,UAAU,CAAC,MAAM,CAAC,UAAU,EAAE,GAAG,CAAC,CAAC;QAClE,CAAC;QAAC,OAAO,GAAG,EAAE,CAAC;YACb,4EAA4E;YAC5E,2EAA2E;YAC3E,IAAI,GAAG,YAAY,QAAQ,IAAI,GAAG,CAAC,IAAI,KAAK,gBAAgB,CAAC,QAAQ,EAAE,CAAC;gBACtE,MAAM,GAAG,CAAC,IAAI,CAAC,WAAW,EAAE,WAAW,MAAM,CAAC,UAAU,qBAAqB,EAAE;oBAC7E,GAAG,GAAG,CAAC,WAAW,CAAC,WAAW,CAAC;iBAChC,CAAC,CAAC;YACL,CAAC;YACD,MAAM,GAAG,CAAC;QACZ,CAAC;QAED,IAAI,CAAC,GAAG,CAAC,GAAG,EAAE,CAAC;YACb,MAAM,GAAG,CAAC,IAAI,CAAC,WAAW,EAAE,WAAW,MAAM,CAAC,UAAU,qBAAqB,EAAE;gBAC7E,GAAG,GAAG,CAAC,WAAW,CAAC,WAAW,CAAC;aAChC,CAAC,CAAC;QACL,CAAC;QAED,OAAO;YACL,GAAG,EAAE,GAAG,CAAC,GAAG;YACZ,KAAK,EAAE,GAAG,CAAC,KAAK;YAChB,IAAI,EAAE,GAAG,CAAC,IAAI;YACd,WAAW,EAAE,GAAG,CAAC,WAAW,CAAC,CAAC,CAAC,SAAS,CAAC,GAAG,CAAC,WAAW,CAAC,CAAC,CAAC,CAAC,SAAS;YACrE,OAAO,EAAE,GAAG,CAAC,OAAO;YACpB,GAAG,EAAE,GAAG,CAAC,GAAG;YACZ,YAAY,EAAE,GAAG,CAAC,QAAQ,EAAE,IAAI;YAChC,iBAAiB,EAAE,GAAG,CAAC,iBAAiB;YACxC,WAAW,EAAE,GAAG,CAAC,UAAU,IAAI,GAAG,CAAC,WAAW;YAC9C,eAAe,EAAE,GAAG,CAAC,eAAe;SACrC,CAAC;IACJ,CAAC;CACF,CAAC,CAAC"}
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* @module mcp-server/resources/definitions/gbif-species
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*/
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import { JsonRpcErrorCode } from '@cyanheads/mcp-ts-core/errors';
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export declare const gbifSpeciesResource: import("@cyanheads/mcp-ts-core").ResourceDefinition<z.ZodObject<{
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taxonKey: z.ZodString;
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}, z.core.$strip>, z.ZodObject<{
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extinct: z.ZodOptional<z.ZodBoolean>;
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acceptedKey: z.ZodOptional<z.ZodNumber>;
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accepted: z.ZodOptional<z.ZodString>;
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}, z.core.$strip>,
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}, z.core.$strip>, readonly [{
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readonly reason: "not_found";
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readonly code: JsonRpcErrorCode.NotFound;
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readonly when: "The taxonKey does not exist in the GBIF backbone.";
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readonly recovery: "Use gbif_match_species to resolve a name to a valid backbone key, or gbif_search_species to browse.";
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}]>;
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//# sourceMappingURL=gbif-species.resource.d.ts.map
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{"version":3,"file":"gbif-species.resource.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/resources/definitions/gbif-species.resource.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,EAAY,CAAC,EAAE,MAAM,wBAAwB,CAAC;
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{"version":3,"file":"gbif-species.resource.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/resources/definitions/gbif-species.resource.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,EAAY,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACrD,OAAO,EAAE,gBAAgB,EAA6B,MAAM,+BAA+B,CAAC;AAI5F,eAAO,MAAM,mBAAmB;;;;;;;;;;;;;;;;;;;;;;;;;GAwF9B,CAAC"}
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* @module mcp-server/resources/definitions/gbif-species
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import { JsonRpcErrorCode, McpError, validationError } from '@cyanheads/mcp-ts-core/errors';
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import { getGbifService } from '../../../services/gbif/gbif-service.js';
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export const gbifSpeciesResource = resource('gbif://species/{taxonKey}', {
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name: 'gbif-species',
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acceptedKey: z.number().optional().describe('Accepted taxon key when synonym.'),
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accepted: z.string().optional().describe('Accepted name when synonym.'),
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}),
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errors: [
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{
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reason: 'not_found',
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code: JsonRpcErrorCode.NotFound,
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when: 'The taxonKey does not exist in the GBIF backbone.',
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recovery: 'Use gbif_match_species to resolve a name to a valid backbone key, or gbif_search_species to browse.',
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},
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],
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async handler(params, ctx) {
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const taxonKey = parseInt(params.taxonKey, 10);
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if (Number.isNaN(taxonKey)) {
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throw validationError(`Invalid taxon key: "${params.taxonKey}". Must be a numeric backbone key.`);
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}
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ctx.log.debug('Fetching species resource', { taxonKey });
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let raw;
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try {
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raw = await getGbifService().getSpecies(taxonKey, ctx);
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}
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catch (err) {
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// Map the upstream GBIF 404 envelope to a clean domain not_found, mirroring
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// gbif_get_species — the service throws before the !raw.key check can run.
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if (err instanceof McpError && err.code === JsonRpcErrorCode.NotFound) {
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throw ctx.fail('not_found', `Taxon key ${taxonKey} not found in the GBIF backbone.`, {
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|
+
...ctx.recoveryFor('not_found'),
|
|
60
|
+
});
|
|
61
|
+
}
|
|
62
|
+
throw err;
|
|
63
|
+
}
|
|
43
64
|
if (!raw.key) {
|
|
44
|
-
throw
|
|
65
|
+
throw ctx.fail('not_found', `Taxon key ${taxonKey} not found in the GBIF backbone.`, {
|
|
66
|
+
...ctx.recoveryFor('not_found'),
|
|
67
|
+
});
|
|
45
68
|
}
|
|
46
69
|
return {
|
|
47
70
|
key: raw.key,
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"gbif-species.resource.js","sourceRoot":"","sources":["../../../../src/mcp-server/resources/definitions/gbif-species.resource.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,EAAE,QAAQ,EAAE,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACrD,OAAO,EAAE,QAAQ,EAAE,eAAe,EAAE,MAAM,+BAA+B,CAAC;
|
|
1
|
+
{"version":3,"file":"gbif-species.resource.js","sourceRoot":"","sources":["../../../../src/mcp-server/resources/definitions/gbif-species.resource.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,EAAE,QAAQ,EAAE,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACrD,OAAO,EAAE,gBAAgB,EAAE,QAAQ,EAAE,eAAe,EAAE,MAAM,+BAA+B,CAAC;AAC5F,OAAO,EAAE,cAAc,EAAE,MAAM,iCAAiC,CAAC;AAGjE,MAAM,CAAC,MAAM,mBAAmB,GAAG,QAAQ,CAAC,2BAA2B,EAAE;IACvE,IAAI,EAAE,cAAc;IACpB,KAAK,EAAE,qBAAqB;IAC5B,WAAW,EACT,qFAAqF;QACrF,mEAAmE;IACrE,QAAQ,EAAE,kBAAkB;IAC5B,MAAM,EAAE,CAAC,CAAC,MAAM,CAAC;QACf,QAAQ,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,sCAAsC,CAAC;KACtE,CAAC;IACF,MAAM,EAAE,CAAC,CAAC,MAAM,CAAC;QACf,GAAG,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,0BAA0B,CAAC;QAC/D,cAAc,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,uCAAuC,CAAC;QACvF,aAAa,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,qCAAqC,CAAC;QACpF,UAAU,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,uBAAuB,CAAC;QACnE,cAAc,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,qCAAqC,CAAC;QACrF,IAAI,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,iBAAiB,CAAC;QACvD,eAAe,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,mCAAmC,CAAC;QACpF,OAAO,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,yBAAyB,CAAC;QAClE,MAAM,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,wBAAwB,CAAC;QAChE,KAAK,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,uBAAuB,CAAC;QAC9D,KAAK,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,uBAAuB,CAAC;QAC9D,MAAM,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,wBAAwB,CAAC;QAChE,KAAK,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,uBAAuB,CAAC;QAC9D,cAAc,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,kCAAkC,CAAC;QAClF,OAAO,EAAE,CAAC,CAAC,OAAO,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,0CAA0C,CAAC;QACpF,WAAW,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,kCAAkC,CAAC;QAC/E,QAAQ,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,6BAA6B,CAAC;KACxE,CAAC;IAEF,MAAM,EAAE;QACN;YACE,MAAM,EAAE,WAAW;YACnB,IAAI,EAAE,gBAAgB,CAAC,QAAQ;YAC/B,IAAI,EAAE,mDAAmD;YACzD,QAAQ,EACN,qGAAqG;SACxG;KACF;IAED,KAAK,CAAC,OAAO,CAAC,MAAM,EAAE,GAAG;QACvB,MAAM,QAAQ,GAAG,QAAQ,CAAC,MAAM,CAAC,QAAQ,EAAE,EAAE,CAAC,CAAC;QAC/C,IAAI,MAAM,CAAC,KAAK,CAAC,QAAQ,CAAC,EAAE,CAAC;YAC3B,MAAM,eAAe,CACnB,uBAAuB,MAAM,CAAC,QAAQ,oCAAoC,CAC3E,CAAC;QACJ,CAAC;QACD,GAAG,CAAC,GAAG,CAAC,KAAK,CAAC,2BAA2B,EAAE,EAAE,QAAQ,EAAE,CAAC,CAAC;QACzD,IAAI,GAAqB,CAAC;QAC1B,IAAI,CAAC;YACH,GAAG,GAAG,MAAM,cAAc,EAAE,CAAC,UAAU,CAAC,QAAQ,EAAE,GAAG,CAAC,CAAC;QACzD,CAAC;QAAC,OAAO,GAAG,EAAE,CAAC;YACb,4EAA4E;YAC5E,2EAA2E;YAC3E,IAAI,GAAG,YAAY,QAAQ,IAAI,GAAG,CAAC,IAAI,KAAK,gBAAgB,CAAC,QAAQ,EAAE,CAAC;gBACtE,MAAM,GAAG,CAAC,IAAI,CAAC,WAAW,EAAE,aAAa,QAAQ,kCAAkC,EAAE;oBACnF,GAAG,GAAG,CAAC,WAAW,CAAC,WAAW,CAAC;iBAChC,CAAC,CAAC;YACL,CAAC;YACD,MAAM,GAAG,CAAC;QACZ,CAAC;QAED,IAAI,CAAC,GAAG,CAAC,GAAG,EAAE,CAAC;YACb,MAAM,GAAG,CAAC,IAAI,CAAC,WAAW,EAAE,aAAa,QAAQ,kCAAkC,EAAE;gBACnF,GAAG,GAAG,CAAC,WAAW,CAAC,WAAW,CAAC;aAChC,CAAC,CAAC;QACL,CAAC;QAED,OAAO;YACL,GAAG,EAAE,GAAG,CAAC,GAAG;YACZ,cAAc,EAAE,GAAG,CAAC,cAAc;YAClC,aAAa,EAAE,GAAG,CAAC,aAAa;YAChC,UAAU,EAAE,GAAG,CAAC,UAAU;YAC1B,cAAc,EAAE,GAAG,CAAC,cAAc;YAClC,IAAI,EAAE,GAAG,CAAC,IAAI;YACd,eAAe,EAAE,GAAG,CAAC,eAAe;YACpC,OAAO,EAAE,GAAG,CAAC,OAAO;YACpB,MAAM,EAAE,GAAG,CAAC,MAAM;YAClB,KAAK,EAAE,GAAG,CAAC,KAAK;YAChB,KAAK,EAAE,GAAG,CAAC,KAAK;YAChB,MAAM,EAAE,GAAG,CAAC,MAAM;YAClB,KAAK,EAAE,GAAG,CAAC,KAAK;YAChB,cAAc,EAAE,GAAG,CAAC,cAAc;YAClC,WAAW,EAAE,GAAG,CAAC,WAAW;YAC5B,QAAQ,EAAE,GAAG,CAAC,QAAQ;YACtB,GAAG,CAAC,OAAO,GAAG,CAAC,OAAO,KAAK,SAAS,IAAI,EAAE,OAAO,EAAE,GAAG,CAAC,OAAO,EAAE,CAAC;SAClE,CAAC;IACJ,CAAC;CACF,CAAC,CAAC"}
|
|
@@ -6,6 +6,7 @@ import { z } from '@cyanheads/mcp-ts-core';
|
|
|
6
6
|
import { JsonRpcErrorCode } from '@cyanheads/mcp-ts-core/errors';
|
|
7
7
|
export declare const gbifGetDataset: import("@cyanheads/mcp-ts-core").ToolDefinition<z.ZodObject<{
|
|
8
8
|
datasetKey: z.ZodString;
|
|
9
|
+
contactLimit: z.ZodDefault<z.ZodNumber>;
|
|
9
10
|
}, z.core.$strip>, z.ZodObject<{
|
|
10
11
|
key: z.ZodOptional<z.ZodString>;
|
|
11
12
|
title: z.ZodOptional<z.ZodString>;
|
|
@@ -24,6 +25,8 @@ export declare const gbifGetDataset: import("@cyanheads/mcp-ts-core").ToolDefini
|
|
|
24
25
|
organization: z.ZodOptional<z.ZodString>;
|
|
25
26
|
email: z.ZodOptional<z.ZodArray<z.ZodString>>;
|
|
26
27
|
}, z.core.$strip>>>;
|
|
28
|
+
contactsTotal: z.ZodOptional<z.ZodNumber>;
|
|
29
|
+
contactsReturned: z.ZodOptional<z.ZodNumber>;
|
|
27
30
|
}, z.core.$strip>, readonly [{
|
|
28
31
|
readonly reason: "not_found";
|
|
29
32
|
readonly code: JsonRpcErrorCode.NotFound;
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"gbif-get-dataset.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/gbif-get-dataset.tool.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAY,MAAM,+BAA+B,CAAC;AAK3E,eAAO,MAAM,cAAc
|
|
1
|
+
{"version":3,"file":"gbif-get-dataset.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/gbif-get-dataset.tool.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAY,MAAM,+BAA+B,CAAC;AAK3E,eAAO,MAAM,cAAc;;;;;;;;;;;;;;;;;;;;;;;;;;;;cAkKzB,CAAC"}
|
|
@@ -10,12 +10,20 @@ export const gbifGetDataset = tool('gbif_get_dataset', {
|
|
|
10
10
|
title: 'Get Dataset',
|
|
11
11
|
description: 'Fetch full dataset metadata by UUID key — title, description, citation text, contacts, license, ' +
|
|
12
12
|
'DOI, numConstituents (sub-datasets), and temporal/geographic coverage. Use after gbif_search_datasets ' +
|
|
13
|
-
"or when an occurrence record's datasetKey needs provenance detail."
|
|
13
|
+
"or when an occurrence record's datasetKey needs provenance detail. " +
|
|
14
|
+
'Contacts are capped by contactLimit (default 10); contactsTotal and contactsReturned report the full count.',
|
|
14
15
|
annotations: { readOnlyHint: true, idempotentHint: true, openWorldHint: false },
|
|
15
16
|
input: z.object({
|
|
16
17
|
datasetKey: z
|
|
17
18
|
.string()
|
|
18
19
|
.describe('Dataset UUID from gbif_search_datasets or an occurrence record.'),
|
|
20
|
+
contactLimit: z
|
|
21
|
+
.number()
|
|
22
|
+
.int()
|
|
23
|
+
.min(0)
|
|
24
|
+
.max(100)
|
|
25
|
+
.default(10)
|
|
26
|
+
.describe('Maximum number of contacts to include (default 10, max 100). Set to 0 to omit contact detail while still reporting contactsTotal — useful when citation, license, and record count are all you need from a high-contact dataset like eBird.'),
|
|
19
27
|
}),
|
|
20
28
|
output: z.object({
|
|
21
29
|
key: z.string().optional().describe('Dataset UUID.'),
|
|
@@ -54,7 +62,15 @@ export const gbifGetDataset = tool('gbif_get_dataset', {
|
|
|
54
62
|
})
|
|
55
63
|
.describe('A dataset contact with role, name, organization, and email.'))
|
|
56
64
|
.optional()
|
|
57
|
-
.describe('Dataset contacts.
|
|
65
|
+
.describe('Dataset contacts, capped at contactLimit. Absent when the dataset has no contacts or contactLimit is 0.'),
|
|
66
|
+
contactsTotal: z
|
|
67
|
+
.number()
|
|
68
|
+
.optional()
|
|
69
|
+
.describe('Total contacts on the dataset before applying contactLimit. Present when the dataset has any contacts.'),
|
|
70
|
+
contactsReturned: z
|
|
71
|
+
.number()
|
|
72
|
+
.optional()
|
|
73
|
+
.describe('Number of contacts included in this response (≤ contactLimit). Present when the dataset has any contacts.'),
|
|
58
74
|
}),
|
|
59
75
|
errors: [
|
|
60
76
|
{
|
|
@@ -83,7 +99,9 @@ export const gbifGetDataset = tool('gbif_get_dataset', {
|
|
|
83
99
|
...ctx.recoveryFor('not_found'),
|
|
84
100
|
});
|
|
85
101
|
}
|
|
86
|
-
const
|
|
102
|
+
const allContacts = raw.contacts ?? [];
|
|
103
|
+
const contactsTotal = allContacts.length;
|
|
104
|
+
const contacts = allContacts.slice(0, input.contactLimit).map((c) => ({
|
|
87
105
|
type: c.type,
|
|
88
106
|
firstName: c.firstName,
|
|
89
107
|
lastName: c.lastName,
|
|
@@ -101,7 +119,10 @@ export const gbifGetDataset = tool('gbif_get_dataset', {
|
|
|
101
119
|
publishingCountry: raw.publishingCountry,
|
|
102
120
|
recordCount: raw.numRecords ?? raw.recordCount,
|
|
103
121
|
numConstituents: raw.numConstituents,
|
|
104
|
-
contacts: contacts
|
|
122
|
+
contacts: contacts.length ? contacts : undefined,
|
|
123
|
+
// Report the full count whenever the dataset has contacts, so contactLimit: 0
|
|
124
|
+
// suppresses the detail while preserving how many exist.
|
|
125
|
+
...(contactsTotal > 0 && { contactsTotal, contactsReturned: contacts.length }),
|
|
105
126
|
};
|
|
106
127
|
},
|
|
107
128
|
format: (result) => {
|
|
@@ -125,9 +146,9 @@ export const gbifGetDataset = tool('gbif_get_dataset', {
|
|
|
125
146
|
lines.push(`\n**Citation:**\n> ${result.citationText}`);
|
|
126
147
|
if (result.description)
|
|
127
148
|
lines.push(`\n${result.description}`);
|
|
128
|
-
if (result.
|
|
129
|
-
lines.push(
|
|
130
|
-
for (const c of result.contacts) {
|
|
149
|
+
if (result.contactsTotal != null) {
|
|
150
|
+
lines.push(`\n**Contacts:** ${result.contactsReturned ?? 0} of ${result.contactsTotal}`);
|
|
151
|
+
for (const c of result.contacts ?? []) {
|
|
131
152
|
const name = [c.firstName, c.lastName].filter(Boolean).join(' ');
|
|
132
153
|
const typeLabel = c.type ? ` [${c.type}]` : '';
|
|
133
154
|
lines.push(`- ${name || '(unnamed)'}${typeLabel}`);
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"gbif-get-dataset.tool.js","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/gbif-get-dataset.tool.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,EAAE,IAAI,EAAE,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,QAAQ,EAAE,MAAM,+BAA+B,CAAC;AAC3E,OAAO,EAAE,cAAc,EAAE,MAAM,iCAAiC,CAAC;AAEjE,OAAO,EAAE,SAAS,EAAE,MAAM,aAAa,CAAC;AAExC,MAAM,CAAC,MAAM,cAAc,GAAG,IAAI,CAAC,kBAAkB,EAAE;IACrD,KAAK,EAAE,aAAa;IACpB,WAAW,EACT,kGAAkG;QAClG,wGAAwG;QACxG,
|
|
1
|
+
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@@ -1 +1 @@
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1
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-
{"version":3,"file":"gbif-get-species.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/gbif-get-species.tool.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAY,MAAM,+BAA+B,CAAC;
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1
|
+
{"version":3,"file":"gbif-get-species.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/gbif-get-species.tool.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAY,MAAM,+BAA+B,CAAC;AAK3E,eAAO,MAAM,cAAc;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;cA6LzB,CAAC"}
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@@ -5,6 +5,7 @@
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|
|
5
5
|
import { tool, z } from '@cyanheads/mcp-ts-core';
|
|
6
6
|
import { JsonRpcErrorCode, McpError } from '@cyanheads/mcp-ts-core/errors';
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7
7
|
import { getGbifService } from '../../../services/gbif/gbif-service.js';
|
|
8
|
+
import { stripHtml } from '../utils.js';
|
|
8
9
|
export const gbifGetSpecies = tool('gbif_get_species', {
|
|
9
10
|
title: 'Get Species Record',
|
|
10
11
|
description: 'Fetch a single backbone taxon by its GBIF taxon key. Returns full classification, authorship, ' +
|
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@@ -101,7 +102,8 @@ export const gbifGetSpecies = tool('gbif_get_species', {
|
|
|
101
102
|
taxonomicStatus: raw.taxonomicStatus,
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|
102
103
|
numDescendants: raw.numDescendants,
|
|
103
104
|
numOccurrences: raw.numOccurrences,
|
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104
|
-
|
|
105
|
+
// GBIF embeds HTML (e.g. <em>) in the original-description citation; strip to plain text.
|
|
106
|
+
publishedIn: raw.publishedIn ? stripHtml(raw.publishedIn) : undefined,
|
|
105
107
|
kingdom: raw.kingdom,
|
|
106
108
|
phylum: raw.phylum,
|
|
107
109
|
// GBIF API uses 'clazz' to avoid reserved word; we normalize to 'class'
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@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"gbif-get-species.tool.js","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/gbif-get-species.tool.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,EAAE,IAAI,EAAE,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,QAAQ,EAAE,MAAM,+BAA+B,CAAC;AAC3E,OAAO,EAAE,cAAc,EAAE,MAAM,iCAAiC,CAAC;
|
|
1
|
+
{"version":3,"file":"gbif-get-species.tool.js","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/gbif-get-species.tool.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,EAAE,IAAI,EAAE,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,QAAQ,EAAE,MAAM,+BAA+B,CAAC;AAC3E,OAAO,EAAE,cAAc,EAAE,MAAM,iCAAiC,CAAC;AAEjE,OAAO,EAAE,SAAS,EAAE,MAAM,aAAa,CAAC;AAExC,MAAM,CAAC,MAAM,cAAc,GAAG,IAAI,CAAC,kBAAkB,EAAE;IACrD,KAAK,EAAE,oBAAoB;IAC3B,WAAW,EACT,gGAAgG;QAChG,kFAAkF;QAClF,gGAAgG;QAChG,gGAAgG;QAChG,oGAAoG;IACtG,WAAW,EAAE,EAAE,YAAY,EAAE,IAAI,EAAE,cAAc,EAAE,IAAI,EAAE,aAAa,EAAE,KAAK,EAAE;IAC/E,KAAK,EAAE,CAAC,CAAC,MAAM,CAAC;QACd,QAAQ,EAAE,CAAC;aACR,MAAM,EAAE;aACR,QAAQ,CAAC,2EAA2E,CAAC;KACzF,CAAC;IACF,MAAM,EAAE,CAAC,CAAC,MAAM,CAAC;QACf,GAAG,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,0BAA0B,CAAC;QAC/D,cAAc,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,uCAAuC,CAAC;QACvF,aAAa,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,qCAAqC,CAAC;QACpF,UAAU,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,mCAAmC,CAAC;QAC/E,cAAc,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,qCAAqC,CAAC;QACrF,IAAI,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,gDAAgD,CAAC;QACtF,eAAe,EAAE,CAAC;aACf,MAAM,EAAE;aACR,QAAQ,EAAE;aACV,QAAQ,CACP,qFAAqF,CACtF;QACH,cAAc,EAAE,CAAC;aACd,MAAM,EAAE;aACR,QAAQ,EAAE;aACV,QAAQ,CAAC,uDAAuD,CAAC;QACpE,cAAc,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,kCAAkC,CAAC;QAClF,WAAW,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,+CAA+C,CAAC;QAC5F,OAAO,EAAE,CAAC;aACP,OAAO,EAAE;aACT,QAAQ,EAAE;aACV,QAAQ,CAAC,+EAA+E,CAAC;QAC5F,OAAO,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,yBAAyB,CAAC;QAClE,MAAM,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,wBAAwB,CAAC;QAChE,KAAK,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,uBAAuB,CAAC;QAC9D,KAAK,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,uBAAuB,CAAC;QAC9D,MAAM,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,wBAAwB,CAAC;QAChE,KAAK,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,uBAAuB,CAAC;QAC9D,OAAO,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,yBAAyB,CAAC;QAClE,UAAU,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,4BAA4B,CAAC;QACxE,SAAS,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,2BAA2B,CAAC;QACtE,QAAQ,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,0BAA0B,CAAC;QACpE,QAAQ,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,0BAA0B,CAAC;QACpE,SAAS,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,2BAA2B,CAAC;QACtE,QAAQ,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,0BAA0B,CAAC;QACpE,UAAU,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,4BAA4B,CAAC;QACxE,WAAW,EAAE,CAAC;aACX,MAAM,EAAE;aACR,QAAQ,EAAE;aACV,QAAQ,CAAC,mEAAmE,CAAC;QAChF,QAAQ,EAAE,CAAC;aACR,MAAM,EAAE;aACR,QAAQ,EAAE;aACV,QAAQ,CAAC,sEAAsE,CAAC;QACnF,SAAS,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,oCAAoC,CAAC;QAC/E,MAAM,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,qCAAqC,CAAC;KAC9E,CAAC;IAEF,MAAM,EAAE;QACN;YACE,MAAM,EAAE,WAAW;YACnB,IAAI,EAAE,gBAAgB,CAAC,QAAQ;YAC/B,IAAI,EAAE,mDAAmD;YACzD,QAAQ,EACN,qGAAqG;SACxG;KACF;IAED,KAAK,CAAC,OAAO,CAAC,KAAK,EAAE,GAAG;QACtB,GAAG,CAAC,GAAG,CAAC,IAAI,CAAC,yBAAyB,EAAE,EAAE,QAAQ,EAAE,KAAK,CAAC,QAAQ,EAAE,CAAC,CAAC;QACtE,IAAI,GAAqB,CAAC;QAC1B,IAAI,CAAC;YACH,GAAG,GAAG,MAAM,cAAc,EAAE,CAAC,UAAU,CAAC,KAAK,CAAC,QAAQ,EAAE,GAAG,CAAC,CAAC;QAC/D,CAAC;QAAC,OAAO,GAAG,EAAE,CAAC;YACb,IAAI,GAAG,YAAY,QAAQ,IAAI,GAAG,CAAC,IAAI,KAAK,CAAC,KAAK,EAAE,CAAC;gBACnD,MAAM,GAAG,CAAC,IAAI,CAAC,WAAW,EAAE,aAAa,KAAK,CAAC,QAAQ,kCAAkC,EAAE;oBACzF,GAAG,GAAG,CAAC,WAAW,CAAC,WAAW,CAAC;iBAChC,CAAC,CAAC;YACL,CAAC;YACD,MAAM,GAAG,CAAC;QACZ,CAAC;QAED,IAAI,CAAC,GAAG,CAAC,GAAG,EAAE,CAAC;YACb,MAAM,GAAG,CAAC,IAAI,CAAC,WAAW,EAAE,aAAa,KAAK,CAAC,QAAQ,kCAAkC,EAAE;gBACzF,GAAG,GAAG,CAAC,WAAW,CAAC,WAAW,CAAC;aAChC,CAAC,CAAC;QACL,CAAC;QAED,OAAO;YACL,GAAG,EAAE,GAAG,CAAC,GAAG;YACZ,cAAc,EAAE,GAAG,CAAC,cAAc;YAClC,aAAa,EAAE,GAAG,CAAC,aAAa;YAChC,UAAU,EAAE,GAAG,CAAC,UAAU;YAC1B,cAAc,EAAE,GAAG,CAAC,cAAc;YAClC,IAAI,EAAE,GAAG,CAAC,IAAI;YACd,eAAe,EAAE,GAAG,CAAC,eAAe;YACpC,cAAc,EAAE,GAAG,CAAC,cAAc;YAClC,cAAc,EAAE,GAAG,CAAC,cAAc;YAClC,0FAA0F;YAC1F,WAAW,EAAE,GAAG,CAAC,WAAW,CAAC,CAAC,CAAC,SAAS,CAAC,GAAG,CAAC,WAAW,CAAC,CAAC,CAAC,CAAC,SAAS;YACrE,OAAO,EAAE,GAAG,CAAC,OAAO;YACpB,MAAM,EAAE,GAAG,CAAC,MAAM;YAClB,wEAAwE;YACxE,KAAK,EAAE,GAAG,CAAC,KAAK;YAChB,KAAK,EAAE,GAAG,CAAC,KAAK;YAChB,MAAM,EAAE,GAAG,CAAC,MAAM;YAClB,KAAK,EAAE,GAAG,CAAC,KAAK;YAChB,OAAO,EAAE,GAAG,CAAC,OAAO;YACpB,UAAU,EAAE,GAAG,CAAC,UAAU;YAC1B,SAAS,EAAE,GAAG,CAAC,SAAS;YACxB,QAAQ,EAAE,GAAG,CAAC,QAAQ;YACtB,QAAQ,EAAE,GAAG,CAAC,QAAQ;YACtB,SAAS,EAAE,GAAG,CAAC,SAAS;YACxB,QAAQ,EAAE,GAAG,CAAC,QAAQ;YACtB,UAAU,EAAE,GAAG,CAAC,UAAU;YAC1B,WAAW,EAAE,GAAG,CAAC,WAAW;YAC5B,QAAQ,EAAE,GAAG,CAAC,QAAQ;YACtB,SAAS,EAAE,GAAG,CAAC,SAAS;YACxB,MAAM,EAAE,GAAG,CAAC,MAAM;YAClB,GAAG,CAAC,OAAO,GAAG,CAAC,OAAO,KAAK,SAAS,IAAI,EAAE,OAAO,EAAE,GAAG,CAAC,OAAO,EAAE,CAAC;SAClE,CAAC;IACJ,CAAC;IAED,MAAM,EAAE,CAAC,MAAM,EAAE,EAAE;QACjB,MAAM,KAAK,GAAa,EAAE,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@@ -34,6 +34,7 @@ export declare const gbifOccurrenceFacets: import("@cyanheads/mcp-ts-core").Tool
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34
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LITERATURE: "LITERATURE";
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35
35
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}>>;
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36
36
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geometry: z.ZodOptional<z.ZodString>;
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37
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+
datasetKey: z.ZodOptional<z.ZodString>;
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facetLimit: z.ZodDefault<z.ZodNumber>;
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38
39
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}, z.core.$strip>, z.ZodObject<{
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39
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facet: z.ZodString;
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@@ -1 +1 @@
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1
|
-
{"version":3,"file":"gbif-occurrence-facets.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/gbif-occurrence-facets.tool.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AA+BjD,eAAO,MAAM,oBAAoB
|
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1
|
+
{"version":3,"file":"gbif-occurrence-facets.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/gbif-occurrence-facets.tool.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AA+BjD,eAAO,MAAM,oBAAoB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;EA6H/B,CAAC"}
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@@ -36,7 +36,7 @@ export const gbifOccurrenceFacets = tool('gbif_occurrence_facets', {
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36
36
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'KINGDOM_KEY, etc.). Returns the top-N facet values ranked by count — no record payloads returned. ' +
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37
37
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'Core tool for distribution analysis and trend queries: "which countries have the most records ' +
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38
38
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'for this species?", "how has observation volume changed since 2010?". ' +
|
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39
|
-
'Scope the aggregation with taxonKey, country, year, geometry, or
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39
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+
'Scope the aggregation with taxonKey, country, year, geometry, basisOfRecord, or datasetKey filters.',
|
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40
40
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annotations: { readOnlyHint: true, idempotentHint: true, openWorldHint: false },
|
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41
41
|
input: z.object({
|
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42
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facet: z
|
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@@ -62,6 +62,10 @@ export const gbifOccurrenceFacets = tool('gbif_occurrence_facets', {
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.string()
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63
63
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.optional()
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64
64
|
.describe('WKT polygon to scope the aggregation to a geographic area (e.g., POLYGON((8 47, 9 47, 9 48, 8 48, 8 47))). Coordinates are longitude latitude.'),
|
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65
|
+
datasetKey: z
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66
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+
.string()
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67
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+
.optional()
|
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68
|
+
.describe('Scope the aggregation to a single dataset by its GBIF dataset UUID. Obtain one from gbif_search_datasets, gbif_get_dataset, a DATASET_KEY facet, or the datasetKey field on an occurrence record.'),
|
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65
69
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facetLimit: z
|
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66
70
|
.number()
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67
71
|
.min(1)
|
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@@ -98,6 +102,7 @@ export const gbifOccurrenceFacets = tool('gbif_occurrence_facets', {
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|
98
102
|
...(input.year?.trim() && { year: input.year }),
|
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99
103
|
...(input.basisOfRecord && { basisOfRecord: input.basisOfRecord }),
|
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100
104
|
...(input.geometry?.trim() && { geometry: input.geometry }),
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105
|
+
...(input.datasetKey?.trim() && { datasetKey: input.datasetKey }),
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101
106
|
facetLimit: input.facetLimit,
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102
107
|
}, ctx);
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|
103
108
|
const facetData = raw.facets?.find((f) => f.field?.toUpperCase() === input.facet.toUpperCase());
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"gbif-occurrence-facets.tool.js","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/gbif-occurrence-facets.tool.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,EAAE,IAAI,EAAE,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,cAAc,EAAE,MAAM,iCAAiC,CAAC;AAEjE,MAAM,sBAAsB,GAAG;IAC7B,mBAAmB;IACnB,qBAAqB;IACrB,oBAAoB;IACpB,iBAAiB;IACjB,iBAAiB;IACjB,mBAAmB;IACnB,YAAY;IACZ,YAAY;CACJ,CAAC;AAEX,MAAM,YAAY,GAAG;IACnB,iBAAiB;IACjB,SAAS;IACT,gBAAgB;IAChB,MAAM;IACN,aAAa;IACb,aAAa;IACb,YAAY;IACZ,WAAW;IACX,WAAW;IACX,YAAY;IACZ,WAAW;IACX,aAAa;IACb,oBAAoB;IACpB,OAAO;CACC,CAAC;AAEX,MAAM,CAAC,MAAM,oBAAoB,GAAG,IAAI,CAAC,wBAAwB,EAAE;IACjE,KAAK,EAAE,8BAA8B;IACrC,WAAW,EACT,+GAA+G;QAC/G,oGAAoG;QACpG,gGAAgG;QAChG,wEAAwE;QACxE,
|
|
1
|
+
{"version":3,"file":"gbif-occurrence-facets.tool.js","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/gbif-occurrence-facets.tool.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,EAAE,IAAI,EAAE,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,cAAc,EAAE,MAAM,iCAAiC,CAAC;AAEjE,MAAM,sBAAsB,GAAG;IAC7B,mBAAmB;IACnB,qBAAqB;IACrB,oBAAoB;IACpB,iBAAiB;IACjB,iBAAiB;IACjB,mBAAmB;IACnB,YAAY;IACZ,YAAY;CACJ,CAAC;AAEX,MAAM,YAAY,GAAG;IACnB,iBAAiB;IACjB,SAAS;IACT,gBAAgB;IAChB,MAAM;IACN,aAAa;IACb,aAAa;IACb,YAAY;IACZ,WAAW;IACX,WAAW;IACX,YAAY;IACZ,WAAW;IACX,aAAa;IACb,oBAAoB;IACpB,OAAO;CACC,CAAC;AAEX,MAAM,CAAC,MAAM,oBAAoB,GAAG,IAAI,CAAC,wBAAwB,EAAE;IACjE,KAAK,EAAE,8BAA8B;IACrC,WAAW,EACT,+GAA+G;QAC/G,oGAAoG;QACpG,gGAAgG;QAChG,wEAAwE;QACxE,qGAAqG;IACvG,WAAW,EAAE,EAAE,YAAY,EAAE,IAAI,EAAE,cAAc,EAAE,IAAI,EAAE,aAAa,EAAE,KAAK,EAAE;IAC/E,KAAK,EAAE,CAAC,CAAC,MAAM,CAAC;QACd,KAAK,EAAE,CAAC;aACL,IAAI,CAAC,YAAY,CAAC;aAClB,QAAQ,CAAC,gFAAgF,CAAC;QAC7F,QAAQ,EAAE,CAAC;aACR,MAAM,EAAE;aACR,QAAQ,EAAE;aACV,QAAQ,CACP,6HAA6H,CAC9H;QACH,OAAO,EAAE,CAAC;aACP,MAAM,EAAE;aACR,QAAQ,EAAE;aACV,QAAQ,CAAC,0DAA0D,CAAC;QACvE,IAAI,EAAE,CAAC;aACJ,MAAM,EAAE;aACR,QAAQ,EAAE;aACV,QAAQ,CACP,4FAA4F,CAC7F;QACH,aAAa,EAAE,CAAC;aACb,IAAI,CAAC,sBAAsB,CAAC;aAC5B,QAAQ,EAAE;aACV,QAAQ,CAAC,sCAAsC,CAAC;QACnD,QAAQ,EAAE,CAAC;aACR,MAAM,EAAE;aACR,QAAQ,EAAE;aACV,QAAQ,CACP,gJAAgJ,CACjJ;QACH,UAAU,EAAE,CAAC;aACV,MAAM,EAAE;aACR,QAAQ,EAAE;aACV,QAAQ,CACP,mMAAmM,CACpM;QACH,UAAU,EAAE,CAAC;aACV,MAAM,EAAE;aACR,GAAG,CAAC,CAAC,CAAC;aACN,GAAG,CAAC,GAAG,CAAC;aACR,OAAO,CAAC,EAAE,CAAC;aACX,QAAQ,CAAC,iEAAiE,CAAC;KAC/E,CAAC;IACF,MAAM,EAAE,CAAC,CAAC,MAAM,CAAC;QACf,KAAK,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,iCAAiC,CAAC;QAC7D,gBAAgB,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,qDAAqD,CAAC;QAC5F,MAAM,EAAE,CAAC;aACN,KAAK,CACJ,CAAC;aACE,MAAM,CAAC;YACN,IAAI,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,wDAAwD,CAAC;YACnF,KAAK,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,wCAAwC,CAAC;SACrE,CAAC;aACD,QAAQ,CAAC,0CAA0C,CAAC,CACxD;aACA,QAAQ,CAAC,mEAAmE,CAAC;KACjF,CAAC;IAEF,uEAAuE;IACvE,UAAU,EAAE;QACV,UAAU,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,iCAAiC,CAAC;QAClE,MAAM,EAAE,CAAC;aACN,MAAM,EAAE;aACR,QAAQ,EAAE;aACV,QAAQ,CAAC,gFAAgF,CAAC;KAC9F;IAED,KAAK,CAAC,OAAO,CAAC,KAAK,EAAE,GAAG;QACtB,GAAG,CAAC,GAAG,CAAC,IAAI,CAAC,4BAA4B,EAAE,EAAE,KAAK,EAAE,KAAK,CAAC,KAAK,EAAE,QAAQ,EAAE,KAAK,CAAC,QAAQ,EAAE,CAAC,CAAC;QAC7F,MAAM,GAAG,GAAG,MAAM,cAAc,EAAE,CAAC,mBAAmB,CACpD;YACE,KAAK,EAAE,KAAK,CAAC,KAAK;YAClB,GAAG,CAAC,KAAK,CAAC,QAAQ,KAAK,SAAS,IAAI,EAAE,QAAQ,EAAE,KAAK,CAAC,QAAQ,EAAE,CAAC;YACjE,GAAG,CAAC,KAAK,CAAC,OAAO,EAAE,IAAI,EAAE,IAAI,EAAE,OAAO,EAAE,KAAK,CAAC,OAAO,EAAE,CAAC;YACxD,GAAG,CAAC,KAAK,CAAC,IAAI,EAAE,IAAI,EAAE,IAAI,EAAE,IAAI,EAAE,KAAK,CAAC,IAAI,EAAE,CAAC;YAC/C,GAAG,CAAC,KAAK,CAAC,aAAa,IAAI,EAAE,aAAa,EAAE,KAAK,CAAC,aAAa,EAAE,CAAC;YAClE,GAAG,CAAC,KAAK,CAAC,QAAQ,EAAE,IAAI,EAAE,IAAI,EAAE,QAAQ,EAAE,KAAK,CAAC,QAAQ,EAAE,CAAC;YAC3D,GAAG,CAAC,KAAK,CAAC,UAAU,EAAE,IAAI,EAAE,IAAI,EAAE,UAAU,EAAE,KAAK,CAAC,UAAU,EAAE,CAAC;YACjE,UAAU,EAAE,KAAK,CAAC,UAAU;SAC7B,EACD,GAAG,CACJ,CAAC;QAEF,MAAM,SAAS,GAAG,GAAG,CAAC,MAAM,EAAE,IAAI,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,KAAK,EAAE,WAAW,EAAE,KAAK,KAAK,CAAC,KAAK,CAAC,WAAW,EAAE,CAAC,CAAC;QAChG,MAAM,MAAM,GAAG,CAAC,SAAS,EAAE,MAAM,IAAI,EAAE,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC;YACnD,IAAI,EAAE,CAAC,CAAC,IAAI,IAAI,EAAE;YAClB,KAAK,EAAE,CAAC,CAAC,KAAK,IAAI,CAAC;SACpB,CAAC,CAAC,CAAC;QAEJ,GAAG,CAAC,MAAM,CAAC,EAAE,UAAU,EAAE,KAAK,CAAC,UAAU,EAAE,CAAC,CAAC;QAC7C,IAAI,MAAM,CAAC,MAAM,KAAK,CAAC,EAAE,CAAC;YACxB,GAAG,CAAC,MAAM,CAAC,MAAM,CACf,sIAAsI,CACvI,CAAC;QACJ,CAAC;QAED,OAAO;YACL,KAAK,EAAE,KAAK,CAAC,KAAK;YAClB,gBAAgB,EAAE,GAAG,CAAC,KAAK,IAAI,CAAC;YAChC,MAAM;SACP,CAAC;IACJ,CAAC;IAED,MAAM,EAAE,CAAC,MAAM,EAAE,EAAE;QACjB,MAAM,KAAK,GAAa;YACtB,MAAM,MAAM,CAAC,KAAK,QAAQ;YAC1B,mCAAmC,MAAM,CAAC,gBAAgB,EAAE;YAC5D,SAAS,MAAM,CAAC,MAAM,CAAC,MAAM,YAAY;SAC1C,CAAC;QACF,MAAM,KAAK,GAAG,MAAM,CAAC,gBAAgB,IAAI,CAAC,CAAC;QAC3C,KAAK,MAAM,KAAK,IAAI,MAAM,CAAC,MAAM,EAAE,CAAC;YAClC,MAAM,GAAG,GAAG,CAAC,CAAC,KAAK,CAAC,KAAK,GAAG,KAAK,CAAC,GAAG,GAAG,CAAC,CAAC,OAAO,CAAC,CAAC,CAAC,CAAC;YACrD,KAAK,CAAC,IAAI,CAAC,OAAO,KAAK,CAAC,IAAI,OAAO,KAAK,CAAC,KAAK,CAAC,cAAc,EAAE,KAAK,GAAG,aAAa,CAAC,CAAC;QACxF,CAAC;QACD,OAAO,CAAC,EAAE,IAAI,EAAE,MAAM,EAAE,IAAI,EAAE,KAAK,CAAC,IAAI,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;IACpD,CAAC;CACF,CAAC,CAAC"}
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@@ -26,6 +26,7 @@ export declare const gbifSearchOccurrences: import("@cyanheads/mcp-ts-core").Too
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26
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hasCoordinate: z.ZodOptional<z.ZodBoolean>;
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isInCluster: z.ZodOptional<z.ZodBoolean>;
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coordinateUncertaintyInMeters: z.ZodOptional<z.ZodString>;
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+
datasetKey: z.ZodOptional<z.ZodString>;
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limit: z.ZodDefault<z.ZodNumber>;
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offset: z.ZodDefault<z.ZodNumber>;
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}, z.core.$strip>, z.ZodObject<{
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@@ -1 +1 @@
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1
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-
{"version":3,"file":"gbif-search-occurrences.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/gbif-search-occurrences.tool.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AAqBjE,eAAO,MAAM,qBAAqB
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1
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+
{"version":3,"file":"gbif-search-occurrences.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/gbif-search-occurrences.tool.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AAqBjE,eAAO,MAAM,qBAAqB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;EA0UhC,CAAC"}
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@@ -22,7 +22,7 @@ export const gbifSearchOccurrences = tool('gbif_search_occurrences', {
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22
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description: 'Search 2.4B+ GBIF occurrence records with Darwin Core filters. Use taxonKey from gbif_match_species ' +
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23
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'for reliable results — it resolves synonyms automatically. Accepts country (ISO 3166-1 alpha-2), ' +
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24
24
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'bounding box (decimalLatitude/decimalLongitude ranges), WKT polygon geometry, year range, month, ' +
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25
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-
'basis of record, and
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25
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+
'basis of record, coordinate filter, and dataset key. Pagination is capped at approximately offset+limit=100,000 — ' +
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26
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'use gbif_occurrence_facets for aggregate counts across large result sets.',
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27
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annotations: { readOnlyHint: true, idempotentHint: true, openWorldHint: true },
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28
28
|
input: z.object({
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@@ -76,7 +76,7 @@ export const gbifSearchOccurrences = tool('gbif_search_occurrences', {
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76
76
|
hasCoordinate: z
|
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77
77
|
.boolean()
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78
78
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.optional()
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79
|
-
.describe('When true, return only georeferenced records. When false,
|
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79
|
+
.describe('When true, return only georeferenced records (those with coordinates). When false, return ONLY records without coordinates. Omit the parameter entirely to include all records regardless of coordinate presence.'),
|
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80
80
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isInCluster: z
|
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81
81
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.boolean()
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82
82
|
.optional()
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@@ -87,6 +87,10 @@ export const gbifSearchOccurrences = tool('gbif_search_occurrences', {
|
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|
87
87
|
.string()
|
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88
88
|
.optional()
|
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89
89
|
.describe('Filter by coordinate uncertainty radius in meters. Range format: "min,max" (e.g., "0,1000" for sub-kilometer precision). Both endpoints inclusive.'),
|
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90
|
+
datasetKey: z
|
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91
|
+
.string()
|
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92
|
+
.optional()
|
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93
|
+
.describe('Restrict results to a single dataset by its GBIF dataset UUID. Obtain one from gbif_search_datasets, gbif_get_dataset, a DATASET_KEY facet (gbif_occurrence_facets), or the datasetKey field on an occurrence record.'),
|
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90
94
|
limit: z
|
|
91
95
|
.number()
|
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92
96
|
.min(1)
|
|
@@ -213,6 +217,7 @@ export const gbifSearchOccurrences = tool('gbif_search_occurrences', {
|
|
|
213
217
|
...(input.coordinateUncertaintyInMeters?.trim() && {
|
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214
218
|
coordinateUncertaintyInMeters: input.coordinateUncertaintyInMeters,
|
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215
219
|
}),
|
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220
|
+
...(input.datasetKey?.trim() && { datasetKey: input.datasetKey }),
|
|
216
221
|
limit: input.limit,
|
|
217
222
|
offset: input.offset,
|
|
218
223
|
}, ctx);
|
|
@@ -1 +1 @@
|
|
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1
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-
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-
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|
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1
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+
{"version":3,"file":"gbif-service.d.ts","sourceRoot":"","sources":["../../../src/services/gbif/gbif-service.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,KAAK,EAAE,OAAO,EAAE,MAAM,wBAAwB,CAAC;AACtD,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,+BAA+B,CAAC;AAE/D,OAAO,KAAK,EAAE,cAAc,EAAE,MAAM,gCAAgC,CAAC;AAErE,OAAO,KAAK,EACV,aAAa,EACb,mBAAmB,EACnB,gBAAgB,EAChB,wBAAwB,EACxB,mBAAmB,EACnB,2BAA2B,EAC3B,6BAA6B,EAC7B,aAAa,EACb,eAAe,EACf,gBAAgB,EAChB,wBAAwB,EACzB,MAAM,YAAY,CAAC;AAIpB,qBAAa,WAAW;IACtB,OAAO,CAAC,QAAQ,CAAC,OAAO,CAAS;IACjC,OAAO,CAAC,QAAQ,CAAC,SAAS,CAAS;gBAGjC,OAAO,EAAE,SAAS,EAClB,QAAQ,EAAE,cAAc,EACxB,IAAI,EAAE;QAAE,OAAO,EAAE,MAAM,CAAC;QAAC,SAAS,EAAE,MAAM,CAAA;KAAE;IAQ9C,OAAO,CAAC,QAAQ;IAahB,OAAO,CAAC,OAAO;IAsCf,YAAY,CACV,MAAM,EAAE;QACN,IAAI,EAAE,MAAM,CAAC;QACb,MAAM,CAAC,EAAE,OAAO,CAAC;QACjB,OAAO,CAAC,EAAE,MAAM,CAAC;QACjB,IAAI,CAAC,EAAE,MAAM,CAAC;KACf,EACD,GAAG,EAAE,OAAO,GACX,OAAO,CAAC,eAAe,CAAC;IAU3B,UAAU,CAAC,QAAQ,EAAE,MAAM,EAAE,GAAG,EAAE,OAAO,GAAG,OAAO,CAAC,gBAAgB,CAAC;IAMrE,aAAa,CACX,MAAM,EAAE;QACN,CAAC,CAAC,EAAE,MAAM,CAAC;QACX,IAAI,CAAC,EAAE,MAAM,CAAC;QACd,OAAO,CAAC,EAAE,MAAM,CAAC;QACjB,MAAM,CAAC,EAAE,MAAM,CAAC;QAChB,KAAK,CAAC,EAAE,MAAM,CAAC;QACf,SAAS,CAAC,EAAE,OAAO,CAAC;QACpB,UAAU,CAAC,EAAE,MAAM,CAAC;QACpB,KAAK,CAAC,EAAE,MAAM,CAAC;QACf,MAAM,CAAC,EAAE,MAAM,CAAC;KACjB,EACD,GAAG,EAAE,OAAO,GACX,OAAO,CAAC,wBAAwB,CAAC;IAgBpC,iBAAiB,CAAC,QAAQ,EAAE,MAAM,EAAE,GAAG,EAAE,OAAO,GAAG,OAAO,CAAC,aAAa,EAAE,CAAC;IAM3E,kBAAkB,CAChB,QAAQ,EAAE,MAAM,EAChB,MAAM,EAAE;QAAE,KAAK,CAAC,EAAE,MAAM,CAAC;QAAC,MAAM,CAAC,EAAE,MAAM,CAAA;KAAE,EAC3C,GAAG,EAAE,OAAO,GACX,OAAO,CAAC,mBAAmB,CAAC;IAW/B,iBAAiB,CACf,MAAM,EAAE;QACN,QAAQ,CAAC,EAAE,MAAM,CAAC;QAClB,cAAc,CAAC,EAAE,MAAM,CAAC;QACxB,OAAO,CAAC,EAAE,MAAM,CAAC;QACjB,eAAe,CAAC,EAAE,MAAM,CAAC;QACzB,gBAAgB,CAAC,EAAE,MAAM,CAAC;QAC1B,QAAQ,CAAC,EAAE,MAAM,CAAC;QAClB,IAAI,CAAC,EAAE,MAAM,CAAC;QACd,KAAK,CAAC,EAAE,MAAM,CAAC;QACf,aAAa,CAAC,EAAE,aAAa,CAAC;QAC9B,aAAa,CAAC,EAAE,OAAO,CAAC;QACxB,WAAW,CAAC,EAAE,OAAO,CAAC;QACtB,6BAA6B,CAAC,EAAE,MAAM,CAAC;QACvC,UAAU,CAAC,EAAE,MAAM,CAAC;QACpB,KAAK,CAAC,EAAE,MAAM,CAAC;QACf,MAAM,CAAC,EAAE,MAAM,CAAC;KACjB,EACD,GAAG,EAAE,OAAO,GACX,OAAO,CAAC,2BAA2B,CAAC;IAuBvC,gBAAgB,CACd,MAAM,EAAE;QACN,QAAQ,CAAC,EAAE,MAAM,CAAC;QAClB,OAAO,CAAC,EAAE,MAAM,CAAC;QACjB,eAAe,CAAC,EAAE,OAAO,CAAC;QAC1B,UAAU,CAAC,EAAE,MAAM,CAAC;QACpB,IAAI,CAAC,EAAE,MAAM,CAAC;KACf,EACD,GAAG,EAAE,OAAO,GACX,OAAO,CAAC,MAAM,CAAC;IAYlB,aAAa,CAAC,aAAa,EAAE,MAAM,EAAE,GAAG,EAAE,OAAO,GAAG,OAAO,CAAC,mBAAmB,CAAC;IAMhF,mBAAmB,CACjB,MAAM,EAAE;QACN,QAAQ,CAAC,EAAE,MAAM,CAAC;QAClB,OAAO,CAAC,EAAE,MAAM,CAAC;QACjB,IAAI,CAAC,EAAE,MAAM,CAAC;QACd,aAAa,CAAC,EAAE,aAAa,CAAC;QAC9B,QAAQ,CAAC,EAAE,MAAM,CAAC;QAClB,UAAU,CAAC,EAAE,MAAM,CAAC;QACpB,KAAK,EAAE,MAAM,CAAC;QACd,UAAU,CAAC,EAAE,MAAM,CAAC;KACrB,EACD,GAAG,EAAE,OAAO,GACX,OAAO,CAAC,2BAA2B,CAAC;IAgBvC,cAAc,CACZ,MAAM,EAAE;QACN,CAAC,CAAC,EAAE,MAAM,CAAC;QACX,IAAI,CAAC,EAAE,MAAM,CAAC;QACd,iBAAiB,CAAC,EAAE,MAAM,CAAC;QAC3B,UAAU,CAAC,EAAE,MAAM,CAAC;QACpB,KAAK,CAAC,EAAE,MAAM,CAAC;QACf,MAAM,CAAC,EAAE,MAAM,CAAC;KACjB,EACD,GAAG,EAAE,OAAO,GACX,OAAO,CAAC,wBAAwB,CAAC;IAapC,UAAU,CAAC,UAAU,EAAE,MAAM,EAAE,GAAG,EAAE,OAAO,GAAG,OAAO,CAAC,gBAAgB,CAAC;IAQvE,gBAAgB,CACd,MAAM,EAAE;QACN,CAAC,CAAC,EAAE,MAAM,CAAC;QACX,OAAO,CAAC,EAAE,MAAM,CAAC;QACjB,KAAK,CAAC,EAAE,MAAM,CAAC;QACf,MAAM,CAAC,EAAE,MAAM,CAAC;KACjB,EACD,GAAG,EAAE,OAAO,GACX,OAAO,CAAC,6BAA6B,CAAC;CAU1C;AAMD,wBAAgB,eAAe,CAC7B,MAAM,EAAE,SAAS,EACjB,OAAO,EAAE,cAAc,EACvB,IAAI,EAAE;IAAE,OAAO,EAAE,MAAM,CAAC;IAAC,SAAS,EAAE,MAAM,CAAA;CAAE,GAC3C,IAAI,CAEN;AAED,wBAAgB,cAAc,IAAI,WAAW,CAK5C"}
|
|
@@ -186,6 +186,8 @@ export class GbifService {
|
|
|
186
186
|
queryParams.basisOfRecord = params.basisOfRecord;
|
|
187
187
|
if (params.geometry)
|
|
188
188
|
queryParams.geometry = params.geometry;
|
|
189
|
+
if (params.datasetKey)
|
|
190
|
+
queryParams.datasetKey = params.datasetKey;
|
|
189
191
|
if (params.facetLimit !== undefined)
|
|
190
192
|
queryParams.facetLimit = params.facetLimit;
|
|
191
193
|
const url = this.buildUrl('/occurrence/search', queryParams);
|
|
@@ -1 +1 @@
|
|
|
1
|
-
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+
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|
package/package.json
CHANGED
|
@@ -1,6 +1,6 @@
|
|
|
1
1
|
{
|
|
2
2
|
"name": "@cyanheads/gbif-biodiversity-mcp-server",
|
|
3
|
-
"version": "0.
|
|
3
|
+
"version": "0.4.0",
|
|
4
4
|
"mcpName": "io.github.cyanheads/gbif-biodiversity-mcp-server",
|
|
5
5
|
"description": "Search GBIF species taxonomy, occurrence records, datasets, and publishers via MCP. STDIO or Streamable HTTP.",
|
|
6
6
|
"type": "module",
|
|
@@ -27,7 +27,6 @@
|
|
|
27
27
|
"changelog:check": "bun run scripts/build-changelog.ts --check",
|
|
28
28
|
"release:github": "bun run scripts/release-github.ts",
|
|
29
29
|
"publish-mcp": "mcp-publisher login github -token \"$(security find-generic-password -a \"$USER\" -s mcp-publisher-github-pat -w)\" && mcp-publisher publish",
|
|
30
|
-
"publish:compat": "cd dist && jq '.name = \"@cyanheads/gbif-mcp-server\"' package.json > tmp.json && mv tmp.json package.json && npm publish --access public && jq '.name = \"@cyanheads/gbif-biodiversity-mcp-server\"' package.json > tmp.json && mv tmp.json package.json",
|
|
31
30
|
"start:stdio": "MCP_TRANSPORT_TYPE=stdio bun ./dist/index.js",
|
|
32
31
|
"start:http": "MCP_TRANSPORT_TYPE=http bun ./dist/index.js"
|
|
33
32
|
},
|
|
@@ -76,7 +75,7 @@
|
|
|
76
75
|
"access": "public"
|
|
77
76
|
},
|
|
78
77
|
"dependencies": {
|
|
79
|
-
"@cyanheads/mcp-ts-core": "^0.10.
|
|
78
|
+
"@cyanheads/mcp-ts-core": "^0.10.10",
|
|
80
79
|
"pino-pretty": "^13.1.3",
|
|
81
80
|
"zod": "^4.4.3"
|
|
82
81
|
},
|
package/server.json
CHANGED
|
@@ -12,14 +12,14 @@
|
|
|
12
12
|
"url": "https://gbif-biodiversity.caseyjhand.com/mcp"
|
|
13
13
|
}
|
|
14
14
|
],
|
|
15
|
-
"version": "0.
|
|
15
|
+
"version": "0.4.0",
|
|
16
16
|
"packages": [
|
|
17
17
|
{
|
|
18
18
|
"registryType": "npm",
|
|
19
19
|
"registryBaseUrl": "https://registry.npmjs.org",
|
|
20
20
|
"identifier": "@cyanheads/gbif-biodiversity-mcp-server",
|
|
21
21
|
"runtimeHint": "bun",
|
|
22
|
-
"version": "0.
|
|
22
|
+
"version": "0.4.0",
|
|
23
23
|
"packageArguments": [
|
|
24
24
|
{
|
|
25
25
|
"type": "positional",
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@@ -48,7 +48,7 @@
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48
48
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"registryBaseUrl": "https://registry.npmjs.org",
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49
49
|
"identifier": "@cyanheads/gbif-biodiversity-mcp-server",
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50
50
|
"runtimeHint": "bun",
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51
|
-
"version": "0.
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51
|
+
"version": "0.4.0",
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52
52
|
"packageArguments": [
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|
53
53
|
{
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|
54
54
|
"type": "positional",
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