@cyanheads/gbif-biodiversity-mcp-server 0.4.0 → 0.5.0
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 +1 -1
- package/README.md +16 -4
- package/dist/index.js +2 -0
- package/dist/index.js.map +1 -1
- package/dist/mcp-server/tools/definitions/gbif-bulk-match-species.tool.d.ts +22 -0
- package/dist/mcp-server/tools/definitions/gbif-bulk-match-species.tool.d.ts.map +1 -0
- package/dist/mcp-server/tools/definitions/gbif-bulk-match-species.tool.js +126 -0
- package/dist/mcp-server/tools/definitions/gbif-bulk-match-species.tool.js.map +1 -0
- package/dist/mcp-server/tools/definitions/gbif-get-species-children.tool.d.ts +3 -1
- package/dist/mcp-server/tools/definitions/gbif-get-species-children.tool.d.ts.map +1 -1
- package/dist/mcp-server/tools/definitions/gbif-get-species-children.tool.js +20 -4
- package/dist/mcp-server/tools/definitions/gbif-get-species-children.tool.js.map +1 -1
- package/dist/mcp-server/tools/definitions/gbif-match-species.tool.js +1 -1
- package/dist/mcp-server/tools/definitions/gbif-match-species.tool.js.map +1 -1
- package/dist/services/gbif/types.d.ts +5 -2
- package/dist/services/gbif/types.d.ts.map +1 -1
- package/package.json +1 -1
- package/server.json +3 -3
package/CLAUDE.md
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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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**Version:** 0.5.0
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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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package/README.md
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<div align="center">
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<h1>@cyanheads/gbif-biodiversity-mcp-server</h1>
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<p><b>Search GBIF species taxonomy, occurrence records, datasets, and publishers via MCP. STDIO or Streamable HTTP.</b>
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<div>
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<div>13 Tools • 2 Resources</div>
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</p>
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</div>
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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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## Tools
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13 tools for working with GBIF species taxonomy, occurrence records, datasets, and publishers:
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| Tool | Description |
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| `gbif_match_species` | Match a species name against the GBIF backbone taxonomy — returns taxonKey, confidence score, and full classification |
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| `gbif_bulk_match_species` | Match up to 50 scientific names to backbone taxon keys in one call — results in input order, per-name NONE/ERROR isolation |
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| `gbif_get_species` | Fetch a single backbone taxon by key — full classification, authorship, synonymy, vernacular name, descendant count |
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| `gbif_search_species` | Search or browse the GBIF backbone taxonomy by name fragment, rank, kingdom, family, or genus |
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| `gbif_get_species_classification` | Return the complete parent chain for a taxon — root-first ordered array from kingdom to immediate parent |
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---
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### `gbif_bulk_match_species`
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Match up to 50 scientific names against the GBIF backbone taxonomy in a single call.
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- The batch counterpart to `gbif_match_species` — built for checklist, inventory, and species-list workflows that would otherwise need one round trip per name
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- Returns one result per input name, in input order; each carries `taxonKey`, `matchType`, and confidence
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- Per-name isolation: an unmatched name yields `matchType NONE` and a per-name lookup failure yields `matchType ERROR` — neither sinks the rest of the batch
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- `strict: true` requires an exact match for every name; common names are not supported (use `gbif_search_species`)
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---
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### `gbif_get_species`
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Fetch a complete taxon record by GBIF backbone key.
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| Directory | Purpose |
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| `src/mcp-server/tools` | Tool definitions (`*.tool.ts`).
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| `src/mcp-server/tools` | Tool definitions (`*.tool.ts`). Thirteen tools across species taxonomy, occurrences, datasets, and publishers. |
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| `src/mcp-server/resources` | Resource definitions. Species and dataset stable-URI resources. |
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| `src/services/gbif` | GBIF REST API service layer — client, request handling, type definitions. |
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| `src/config` | Server-specific environment variable parsing and validation with Zod. |
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package/dist/index.js
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// Resources
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import { gbifDatasetResource } from './mcp-server/resources/definitions/gbif-dataset.resource.js';
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import { gbifSpeciesResource } from './mcp-server/resources/definitions/gbif-species.resource.js';
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import { gbifBulkMatchSpecies } from './mcp-server/tools/definitions/gbif-bulk-match-species.tool.js';
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import { gbifCountOccurrences } from './mcp-server/tools/definitions/gbif-count-occurrences.tool.js';
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import { gbifGetDataset } from './mcp-server/tools/definitions/gbif-get-dataset.tool.js';
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import { gbifGetOccurrence } from './mcp-server/tools/definitions/gbif-get-occurrence.tool.js';
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instructions: 'Use the gbif_* tools to query species taxonomy, occurrences, datasets, and publishers via the GBIF API. Keyless; an optional API key only raises rate limits. Resolve any name with gbif_match_species first — it returns the backbone taxonKey the occurrence tools expect and resolves synonyms, unlike the raw scientificName filter. Countries use ISO 3166-1 alpha-2; datasets and publishers are keyed by UUID, occurrences by integer key. Occurrence paging caps at offset+limit ≈ 100,000 — switch to gbif_occurrence_facets for larger aggregate analysis.',
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tools: [
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gbifMatchSpecies,
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gbifBulkMatchSpecies,
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gbifGetSpecies,
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gbifSearchSpecies,
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gbifGetSpeciesClassification,
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package/dist/index.js.map
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{"version":3,"file":"index.js","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":";AACA;;;GAGG;AAEH,OAAO,EAAE,SAAS,EAAE,MAAM,wBAAwB,CAAC;AACnD,OAAO,EAAE,eAAe,EAAE,MAAM,2BAA2B,CAAC;AAC5D,YAAY;AACZ,OAAO,EAAE,mBAAmB,EAAE,MAAM,6DAA6D,CAAC;AAClG,OAAO,EAAE,mBAAmB,EAAE,MAAM,6DAA6D,CAAC;AAClG,OAAO,EAAE,oBAAoB,EAAE,MAAM,gEAAgE,CAAC;AACtG,OAAO,EAAE,oBAAoB,EAAE,MAAM,+DAA+D,CAAC;AACrG,OAAO,EAAE,cAAc,EAAE,MAAM,yDAAyD,CAAC;AACzF,OAAO,EAAE,iBAAiB,EAAE,MAAM,4DAA4D,CAAC;AAC/F,OAAO,EAAE,cAAc,EAAE,MAAM,yDAAyD,CAAC;AACzF,OAAO,EAAE,sBAAsB,EAAE,MAAM,kEAAkE,CAAC;AAC1G,OAAO,EAAE,4BAA4B,EAAE,MAAM,wEAAwE,CAAC;AACtH,iBAAiB;AACjB,OAAO,EAAE,gBAAgB,EAAE,MAAM,2DAA2D,CAAC;AAC7F,OAAO,EAAE,oBAAoB,EAAE,MAAM,+DAA+D,CAAC;AACrG,8BAA8B;AAC9B,OAAO,EAAE,kBAAkB,EAAE,MAAM,6DAA6D,CAAC;AACjG,mBAAmB;AACnB,OAAO,EAAE,qBAAqB,EAAE,MAAM,gEAAgE,CAAC;AACvG,OAAO,EAAE,oBAAoB,EAAE,MAAM,+DAA+D,CAAC;AACrG,OAAO,EAAE,iBAAiB,EAAE,MAAM,4DAA4D,CAAC;AAC/F,OAAO,EAAE,eAAe,EAAE,MAAM,iCAAiC,CAAC;AAElE,MAAM,SAAS,CAAC;IACd,IAAI,EAAE,8BAA8B;IACpC,KAAK,EAAE,8BAA8B;IACrC,YAAY,EACV,siBAAsiB;IACxiB,KAAK,EAAE;QACL,gBAAgB;QAChB,oBAAoB;QACpB,cAAc;QACd,iBAAiB;QACjB,4BAA4B;QAC5B,sBAAsB;QACtB,qBAAqB;QACrB,oBAAoB;QACpB,iBAAiB;QACjB,oBAAoB;QACpB,kBAAkB;QAClB,cAAc;QACd,oBAAoB;KACrB;IACD,SAAS,EAAE,CAAC,mBAAmB,EAAE,mBAAmB,CAAC;IACrD,OAAO,EAAE,EAAE;IACX,6EAA6E;IAC7E,OAAO,EAAE,EAAE,WAAW,EAAE,KAAK,EAAE;IAC/B,KAAK,CAAC,IAAI;QACR,MAAM,GAAG,GAAG,eAAe,EAAE,CAAC;QAC9B,eAAe,CAAC,IAAI,CAAC,MAAM,EAAE,IAAI,CAAC,OAAO,EAAE;YACzC,OAAO,EAAE,GAAG,CAAC,OAAO;YACpB,SAAS,EAAE,GAAG,CAAC,gBAAgB;SAChC,CAAC,CAAC;IACL,CAAC;CACF,CAAC,CAAC"}
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/**
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* @fileoverview Resolve many scientific names to GBIF backbone taxon keys in one call.
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* @module mcp-server/tools/definitions/gbif-bulk-match-species
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*/
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import { z } from '@cyanheads/mcp-ts-core';
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export declare const gbifBulkMatchSpecies: import("@cyanheads/mcp-ts-core").ToolDefinition<z.ZodObject<{
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names: z.ZodArray<z.ZodString>;
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strict: z.ZodDefault<z.ZodBoolean>;
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}, z.core.$strip>, z.ZodObject<{
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results: z.ZodArray<z.ZodObject<{
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name: z.ZodString;
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taxonKey: z.ZodOptional<z.ZodNumber>;
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scientificName: z.ZodOptional<z.ZodString>;
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canonicalName: z.ZodOptional<z.ZodString>;
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rank: z.ZodOptional<z.ZodString>;
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status: z.ZodOptional<z.ZodString>;
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confidence: z.ZodOptional<z.ZodNumber>;
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matchType: z.ZodString;
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error: z.ZodOptional<z.ZodString>;
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}, z.core.$strip>>;
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}, z.core.$strip>, undefined, undefined>;
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//# sourceMappingURL=gbif-bulk-match-species.tool.d.ts.map
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{"version":3,"file":"gbif-bulk-match-species.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/gbif-bulk-match-species.tool.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AAGjD,eAAO,MAAM,oBAAoB;;;;;;;;;;;;;;;wCA+H/B,CAAC"}
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/**
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* @fileoverview Resolve many scientific names to GBIF backbone taxon keys in one call.
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* @module mcp-server/tools/definitions/gbif-bulk-match-species
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*/
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import { tool, z } from '@cyanheads/mcp-ts-core';
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import { getGbifService } from '../../../services/gbif/gbif-service.js';
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export const gbifBulkMatchSpecies = tool('gbif_bulk_match_species', {
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title: 'Bulk Match Species Names',
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description: 'Resolve up to 50 scientific names to GBIF backbone taxon keys in one call — the batch ' +
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'counterpart to gbif_match_species for checklist, inventory, and species-list workflows that ' +
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'would otherwise need one round trip per name. Each name is matched independently and results ' +
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'are returned in input order, one entry per name. A name with no backbone match yields ' +
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'matchType NONE (no taxonKey) instead of failing the batch; a per-name lookup failure yields ' +
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'matchType ERROR with the reason, leaving the rest of the batch intact. Resolves synonyms to ' +
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'the accepted backbone key. Common names are not supported — use gbif_search_species for ' +
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'vernacular searches. Below confidence 80, review the match.',
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annotations: { readOnlyHint: true, idempotentHint: true, openWorldHint: false },
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input: z.object({
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names: z
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.array(z.string().min(1).describe('A scientific name to match, e.g. "Panthera leo".'))
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.min(1)
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.max(50)
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.describe('Scientific names to match against the GBIF backbone. 1–50 per call, matched in parallel.'),
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strict: z
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.boolean()
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.default(false)
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.describe('When true, require an exact match for every name (no fuzzy matching). When false (default), GBIF applies fuzzy matching to tolerate minor misspellings.'),
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}),
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output: z.object({
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results: z
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.array(z
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.object({
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name: z.string().describe('The input name this entry corresponds to.'),
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taxonKey: z
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.number()
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.optional()
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.describe('Matched GBIF backbone taxon key — use in gbif_search_occurrences, gbif_count_occurrences, and gbif_occurrence_facets. Absent when matchType is NONE or ERROR.'),
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scientificName: z
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.string()
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.optional()
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.describe('Full matched scientific name with authorship. Absent when unmatched.'),
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canonicalName: z
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.string()
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.optional()
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.describe('Matched scientific name without authorship. Absent when unmatched.'),
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rank: z.string().optional().describe('Taxonomic rank of the matched taxon.'),
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status: z
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.string()
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.optional()
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.describe('Taxonomic status: ACCEPTED, SYNONYM, or DOUBTFUL.'),
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confidence: z
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.number()
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.optional()
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.describe('Match confidence 0–100. Below 80 warrants review. Absent on ERROR.'),
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matchType: z
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.string()
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.describe('EXACT, FUZZY, or HIGHERRANK for a match; NONE when GBIF found no usable match; ERROR when the lookup itself failed for this name (see error).'),
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error: z
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.string()
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.optional()
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.describe('Failure reason when matchType is ERROR. Absent otherwise.'),
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})
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+
.describe('Match outcome for one input name.'))
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.describe('One result per input name, in input order.'),
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}),
|
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+
async handler(input, ctx) {
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|
+
ctx.log.info('Bulk matching species names', {
|
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|
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count: input.names.length,
|
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|
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strict: input.strict,
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+
});
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const gbif = getGbifService();
|
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|
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// Per-name isolation: each lookup resolves to a result entry and never rejects, so a
|
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|
+
// single unmatched name (NONE) or transient failure (ERROR) cannot sink the batch.
|
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// Promise.all preserves input order. The in-loop try/catch is the deliberate batch-tool
|
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// exception to "handlers throw" — per-item isolation is the point.
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+
const results = await Promise.all(input.names.map(async (name) => {
|
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|
+
try {
|
|
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|
+
const raw = await gbif.matchSpecies({ name, strict: input.strict }, ctx);
|
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|
+
if (raw.usageKey == null || raw.matchType == null || raw.matchType === 'NONE') {
|
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return { name, matchType: 'NONE' };
|
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}
|
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return {
|
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name,
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taxonKey: raw.usageKey,
|
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scientificName: raw.scientificName ?? undefined,
|
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|
+
canonicalName: raw.canonicalName ?? undefined,
|
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|
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rank: raw.rank ?? undefined,
|
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status: raw.status ?? undefined,
|
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|
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confidence: raw.confidence ?? undefined,
|
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matchType: raw.matchType,
|
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+
};
|
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|
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}
|
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|
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catch (err) {
|
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return {
|
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|
+
name,
|
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matchType: 'ERROR',
|
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|
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error: err instanceof Error ? err.message : String(err),
|
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|
+
};
|
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|
+
}
|
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+
}));
|
|
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+
return { results };
|
|
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|
+
},
|
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|
+
format: (result) => {
|
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|
+
const lines = [];
|
|
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|
+
for (const r of result.results) {
|
|
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|
+
lines.push(`## ${r.name}`);
|
|
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|
+
if (r.canonicalName)
|
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|
+
lines.push(`**Canonical name:** ${r.canonicalName}`);
|
|
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|
+
if (r.scientificName)
|
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|
+
lines.push(`**Scientific name:** ${r.scientificName}`);
|
|
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|
+
if (r.taxonKey != null)
|
|
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|
+
lines.push(`**Taxon key:** ${r.taxonKey}`);
|
|
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|
+
if (r.rank)
|
|
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|
+
lines.push(`**Rank:** ${r.rank}`);
|
|
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|
+
if (r.status)
|
|
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|
+
lines.push(`**Status:** ${r.status}`);
|
|
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|
+
lines.push(`**Match type:** ${r.matchType}`);
|
|
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|
+
if (r.confidence != null)
|
|
119
|
+
lines.push(`**Confidence:** ${r.confidence}/100`);
|
|
120
|
+
if (r.error)
|
|
121
|
+
lines.push(`**Error:** ${r.error}`);
|
|
122
|
+
}
|
|
123
|
+
return [{ type: 'text', text: lines.join('\n') }];
|
|
124
|
+
},
|
|
125
|
+
});
|
|
126
|
+
//# sourceMappingURL=gbif-bulk-match-species.tool.js.map
|
|
@@ -0,0 +1 @@
|
|
|
1
|
+
{"version":3,"file":"gbif-bulk-match-species.tool.js","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/gbif-bulk-match-species.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,CAAC,MAAM,oBAAoB,GAAG,IAAI,CAAC,yBAAyB,EAAE;IAClE,KAAK,EAAE,0BAA0B;IACjC,WAAW,EACT,wFAAwF;QACxF,8FAA8F;QAC9F,+FAA+F;QAC/F,wFAAwF;QACxF,8FAA8F;QAC9F,8FAA8F;QAC9F,0FAA0F;QAC1F,6DAA6D;IAC/D,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,KAAK,CAAC,CAAC,CAAC,MAAM,EAAE,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,QAAQ,CAAC,kDAAkD,CAAC,CAAC;aACrF,GAAG,CAAC,CAAC,CAAC;aACN,GAAG,CAAC,EAAE,CAAC;aACP,QAAQ,CACP,0FAA0F,CAC3F;QACH,MAAM,EAAE,CAAC;aACN,OAAO,EAAE;aACT,OAAO,CAAC,KAAK,CAAC;aACd,QAAQ,CACP,yJAAyJ,CAC1J;KACJ,CAAC;IACF,MAAM,EAAE,CAAC,CAAC,MAAM,CAAC;QACf,OAAO,EAAE,CAAC;aACP,KAAK,CACJ,CAAC;aACE,MAAM,CAAC;YACN,IAAI,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,2CAA2C,CAAC;YACtE,QAAQ,EAAE,CAAC;iBACR,MAAM,EAAE;iBACR,QAAQ,EAAE;iBACV,QAAQ,CACP,+JAA+J,CAChK;YACH,cAAc,EAAE,CAAC;iBACd,MAAM,EAAE;iBACR,QAAQ,EAAE;iBACV,QAAQ,CAAC,sEAAsE,CAAC;YACnF,aAAa,EAAE,CAAC;iBACb,MAAM,EAAE;iBACR,QAAQ,EAAE;iBACV,QAAQ,CAAC,oEAAoE,CAAC;YACjF,IAAI,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,sCAAsC,CAAC;YAC5E,MAAM,EAAE,CAAC;iBACN,MAAM,EAAE;iBACR,QAAQ,EAAE;iBACV,QAAQ,CAAC,mDAAmD,CAAC;YAChE,UAAU,EAAE,CAAC;iBACV,MAAM,EAAE;iBACR,QAAQ,EAAE;iBACV,QAAQ,CAAC,oEAAoE,CAAC;YACjF,SAAS,EAAE,CAAC;iBACT,MAAM,EAAE;iBACR,QAAQ,CACP,+IAA+I,CAChJ;YACH,KAAK,EAAE,CAAC;iBACL,MAAM,EAAE;iBACR,QAAQ,EAAE;iBACV,QAAQ,CAAC,2DAA2D,CAAC;SACzE,CAAC;aACD,QAAQ,CAAC,mCAAmC,CAAC,CACjD;aACA,QAAQ,CAAC,4CAA4C,CAAC;KAC1D,CAAC;IAEF,KAAK,CAAC,OAAO,CAAC,KAAK,EAAE,GAAG;QACtB,GAAG,CAAC,GAAG,CAAC,IAAI,CAAC,6BAA6B,EAAE;YAC1C,KAAK,EAAE,KAAK,CAAC,KAAK,CAAC,MAAM;YACzB,MAAM,EAAE,KAAK,CAAC,MAAM;SACrB,CAAC,CAAC;QACH,MAAM,IAAI,GAAG,cAAc,EAAE,CAAC;QAE9B,qFAAqF;QACrF,mFAAmF;QACnF,wFAAwF;QACxF,mEAAmE;QACnE,MAAM,OAAO,GAAG,MAAM,OAAO,CAAC,GAAG,CAC/B,KAAK,CAAC,KAAK,CAAC,GAAG,CAAC,KAAK,EAAE,IAAI,EAAE,EAAE;YAC7B,IAAI,CAAC;gBACH,MAAM,GAAG,GAAG,MAAM,IAAI,CAAC,YAAY,CAAC,EAAE,IAAI,EAAE,MAAM,EAAE,KAAK,CAAC,MAAM,EAAE,EAAE,GAAG,CAAC,CAAC;gBACzE,IAAI,GAAG,CAAC,QAAQ,IAAI,IAAI,IAAI,GAAG,CAAC,SAAS,IAAI,IAAI,IAAI,GAAG,CAAC,SAAS,KAAK,MAAM,EAAE,CAAC;oBAC9E,OAAO,EAAE,IAAI,EAAE,SAAS,EAAE,MAAM,EAAE,CAAC;gBACrC,CAAC;gBACD,OAAO;oBACL,IAAI;oBACJ,QAAQ,EAAE,GAAG,CAAC,QAAQ;oBACtB,cAAc,EAAE,GAAG,CAAC,cAAc,IAAI,SAAS;oBAC/C,aAAa,EAAE,GAAG,CAAC,aAAa,IAAI,SAAS;oBAC7C,IAAI,EAAE,GAAG,CAAC,IAAI,IAAI,SAAS;oBAC3B,MAAM,EAAE,GAAG,CAAC,MAAM,IAAI,SAAS;oBAC/B,UAAU,EAAE,GAAG,CAAC,UAAU,IAAI,SAAS;oBACvC,SAAS,EAAE,GAAG,CAAC,SAAS;iBACzB,CAAC;YACJ,CAAC;YAAC,OAAO,GAAG,EAAE,CAAC;gBACb,OAAO;oBACL,IAAI;oBACJ,SAAS,EAAE,OAAO;oBAClB,KAAK,EAAE,GAAG,YAAY,KAAK,CAAC,CAAC,CAAC,GAAG,CAAC,OAAO,CAAC,CAAC,CAAC,MAAM,CAAC,GAAG,CAAC;iBACxD,CAAC;YACJ,CAAC;QACH,CAAC,CAAC,CACH,CAAC;QAEF,OAAO,EAAE,OAAO,EAAE,CAAC;IACrB,CAAC;IAED,MAAM,EAAE,CAAC,MAAM,EAAE,EAAE;QACjB,MAAM,KAAK,GAAa,EAAE,CAAC;QAC3B,KAAK,MAAM,CAAC,IAAI,MAAM,CAAC,OAAO,EAAE,CAAC;YAC/B,KAAK,CAAC,IAAI,CAAC,MAAM,CAAC,CAAC,IAAI,EAAE,CAAC,CAAC;YAC3B,IAAI,CAAC,CAAC,aAAa;gBAAE,KAAK,CAAC,IAAI,CAAC,uBAAuB,CAAC,CAAC,aAAa,EAAE,CAAC,CAAC;YAC1E,IAAI,CAAC,CAAC,cAAc;gBAAE,KAAK,CAAC,IAAI,CAAC,wBAAwB,CAAC,CAAC,cAAc,EAAE,CAAC,CAAC;YAC7E,IAAI,CAAC,CAAC,QAAQ,IAAI,IAAI;gBAAE,KAAK,CAAC,IAAI,CAAC,kBAAkB,CAAC,CAAC,QAAQ,EAAE,CAAC,CAAC;YACnE,IAAI,CAAC,CAAC,IAAI;gBAAE,KAAK,CAAC,IAAI,CAAC,aAAa,CAAC,CAAC,IAAI,EAAE,CAAC,CAAC;YAC9C,IAAI,CAAC,CAAC,MAAM;gBAAE,KAAK,CAAC,IAAI,CAAC,eAAe,CAAC,CAAC,MAAM,EAAE,CAAC,CAAC;YACpD,KAAK,CAAC,IAAI,CAAC,mBAAmB,CAAC,CAAC,SAAS,EAAE,CAAC,CAAC;YAC7C,IAAI,CAAC,CAAC,UAAU,IAAI,IAAI;gBAAE,KAAK,CAAC,IAAI,CAAC,mBAAmB,CAAC,CAAC,UAAU,MAAM,CAAC,CAAC;YAC5E,IAAI,CAAC,CAAC,KAAK;gBAAE,KAAK,CAAC,IAAI,CAAC,cAAc,CAAC,CAAC,KAAK,EAAE,CAAC,CAAC;QACnD,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"}
|
|
@@ -25,10 +25,12 @@ export declare const gbifGetSpeciesChildren: import("@cyanheads/mcp-ts-core").To
|
|
|
25
25
|
readonly when: "The taxonKey does not exist in the GBIF backbone.";
|
|
26
26
|
readonly recovery: "Use gbif_match_species to resolve a name to a valid backbone taxon key.";
|
|
27
27
|
}], {
|
|
28
|
-
readonly totalCount: z.ZodNumber;
|
|
29
28
|
readonly offset: z.ZodNumber;
|
|
30
29
|
readonly limit: z.ZodNumber;
|
|
31
30
|
readonly endOfRecords: z.ZodBoolean;
|
|
31
|
+
readonly truncated: z.ZodOptional<z.ZodBoolean>;
|
|
32
|
+
readonly shown: z.ZodOptional<z.ZodNumber>;
|
|
33
|
+
readonly cap: z.ZodOptional<z.ZodNumber>;
|
|
32
34
|
readonly notice: z.ZodOptional<z.ZodString>;
|
|
33
35
|
}>;
|
|
34
36
|
//# sourceMappingURL=gbif-get-species-children.tool.d.ts.map
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"gbif-get-species-children.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/gbif-get-species-children.tool.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAY,MAAM,+BAA+B,CAAC;AAY3E,eAAO,MAAM,sBAAsB
|
|
1
|
+
{"version":3,"file":"gbif-get-species-children.tool.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/gbif-get-species-children.tool.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,EAAQ,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAY,MAAM,+BAA+B,CAAC;AAY3E,eAAO,MAAM,sBAAsB;;;;;;;;;;;;;;;;;;;;;;;;;;;;EA4IjC,CAAC"}
|
|
@@ -48,15 +48,28 @@ export const gbifGetSpeciesChildren = tool('gbif_get_species_children', {
|
|
|
48
48
|
.describe('Direct child taxa.'),
|
|
49
49
|
}),
|
|
50
50
|
// Pagination context and recovery guidance — reaches both structuredContent and content[].
|
|
51
|
+
// GBIF's /species/{key}/children response carries no total count (only results, offset,
|
|
52
|
+
// limit, endOfRecords), so no totalCount is surfaced — see issue #3.
|
|
51
53
|
enrichment: {
|
|
52
|
-
totalCount: z.number().describe('Total direct children before pagination.'),
|
|
53
54
|
offset: z.number().describe('Current pagination offset.'),
|
|
54
55
|
limit: z.number().describe('Records returned in this page.'),
|
|
55
56
|
endOfRecords: z.boolean().describe('True when there are no more results after this page.'),
|
|
57
|
+
truncated: z
|
|
58
|
+
.boolean()
|
|
59
|
+
.optional()
|
|
60
|
+
.describe('True when more children exist beyond this page. Absent on the final page.'),
|
|
61
|
+
shown: z
|
|
62
|
+
.number()
|
|
63
|
+
.optional()
|
|
64
|
+
.describe('Children returned in this page when the result was truncated.'),
|
|
65
|
+
cap: z
|
|
66
|
+
.number()
|
|
67
|
+
.optional()
|
|
68
|
+
.describe('Limit applied when the result was truncated. Re-call with offset to page on.'),
|
|
56
69
|
notice: z
|
|
57
70
|
.string()
|
|
58
71
|
.optional()
|
|
59
|
-
.describe('
|
|
72
|
+
.describe('Agent guidance — a no-children note for a valid taxon, or a pagination note when the page was capped. Absent on a complete single page.'),
|
|
60
73
|
},
|
|
61
74
|
errors: [
|
|
62
75
|
{
|
|
@@ -79,7 +92,6 @@ export const gbifGetSpeciesChildren = tool('gbif_get_species_children', {
|
|
|
79
92
|
numOccurrences: r.numOccurrences,
|
|
80
93
|
numDescendants: r.numDescendants,
|
|
81
94
|
}));
|
|
82
|
-
const totalCount = raw.count ?? 0;
|
|
83
95
|
const offset = raw.offset ?? input.offset;
|
|
84
96
|
const limit = raw.limit ?? input.limit;
|
|
85
97
|
const endOfRecords = raw.endOfRecords ?? true;
|
|
@@ -96,7 +108,11 @@ export const gbifGetSpeciesChildren = tool('gbif_get_species_children', {
|
|
|
96
108
|
throw err;
|
|
97
109
|
}
|
|
98
110
|
}
|
|
99
|
-
ctx.enrich({
|
|
111
|
+
ctx.enrich({ offset, limit, endOfRecords });
|
|
112
|
+
// No upstream total exists for this endpoint (issue #3); disclose page truncation from
|
|
113
|
+
// the authoritative endOfRecords flag instead of fabricating a count.
|
|
114
|
+
if (!endOfRecords)
|
|
115
|
+
ctx.enrich.truncated({ shown: children.length, cap: limit });
|
|
100
116
|
const notice = buildNotice({ childCount: children.length, endOfRecords });
|
|
101
117
|
if (notice)
|
|
102
118
|
ctx.enrich.notice(notice);
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"gbif-get-species-children.tool.js","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/gbif-get-species-children.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,0DAA0D;AAC1D,SAAS,WAAW,CAAC,IAAmD;IACtE,MAAM,EAAE,UAAU,EAAE,YAAY,EAAE,GAAG,IAAI,CAAC;IAC1C,IAAI,UAAU,KAAK,CAAC,IAAI,YAAY,EAAE,CAAC;QACrC,OAAO,sEAAsE,CAAC;IAChF,CAAC;IACD,OAAO;AACT,CAAC;AAED,MAAM,CAAC,MAAM,sBAAsB,GAAG,IAAI,CAAC,2BAA2B,EAAE;IACtE,KAAK,EAAE,sBAAsB;IAC7B,WAAW,EACT,6FAA6F;QAC7F,4FAA4F;QAC5F,4CAA4C;IAC9C,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;QACxF,KAAK,EAAE,CAAC;aACL,MAAM,EAAE;aACR,GAAG,CAAC,CAAC,CAAC;aACN,GAAG,CAAC,IAAI,CAAC;aACT,OAAO,CAAC,EAAE,CAAC;aACX,QAAQ,CAAC,sDAAsD,CAAC;QACnE,MAAM,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,OAAO,CAAC,CAAC,CAAC,CAAC,QAAQ,CAAC,oBAAoB,CAAC;KACpE,CAAC;IACF,MAAM,EAAE,CAAC,CAAC,MAAM,CAAC;QACf,QAAQ,EAAE,CAAC;aACR,KAAK,CACJ,CAAC;aACE,MAAM,CAAC;YACN,GAAG,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,0BAA0B,CAAC;YAC/D,cAAc,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,uCAAuC,CAAC;YACvF,aAAa,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,qCAAqC,CAAC;YACpF,IAAI,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,iBAAiB,CAAC;YACvD,eAAe,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,mCAAmC,CAAC;YACpF,cAAc,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,6BAA6B,CAAC;YAC7E,cAAc,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,0BAA0B,CAAC;YAC1E,cAAc,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,sCAAsC,CAAC;SACvF,CAAC;aACD,QAAQ,CAAC,wDAAwD,CAAC,CACtE;aACA,QAAQ,CAAC,oBAAoB,CAAC;KAClC,CAAC;IAEF,2FAA2F;IAC3F,UAAU,EAAE;QACV,
|
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1
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+
{"version":3,"file":"gbif-get-species-children.tool.js","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/gbif-get-species-children.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,0DAA0D;AAC1D,SAAS,WAAW,CAAC,IAAmD;IACtE,MAAM,EAAE,UAAU,EAAE,YAAY,EAAE,GAAG,IAAI,CAAC;IAC1C,IAAI,UAAU,KAAK,CAAC,IAAI,YAAY,EAAE,CAAC;QACrC,OAAO,sEAAsE,CAAC;IAChF,CAAC;IACD,OAAO;AACT,CAAC;AAED,MAAM,CAAC,MAAM,sBAAsB,GAAG,IAAI,CAAC,2BAA2B,EAAE;IACtE,KAAK,EAAE,sBAAsB;IAC7B,WAAW,EACT,6FAA6F;QAC7F,4FAA4F;QAC5F,4CAA4C;IAC9C,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;QACxF,KAAK,EAAE,CAAC;aACL,MAAM,EAAE;aACR,GAAG,CAAC,CAAC,CAAC;aACN,GAAG,CAAC,IAAI,CAAC;aACT,OAAO,CAAC,EAAE,CAAC;aACX,QAAQ,CAAC,sDAAsD,CAAC;QACnE,MAAM,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,OAAO,CAAC,CAAC,CAAC,CAAC,QAAQ,CAAC,oBAAoB,CAAC;KACpE,CAAC;IACF,MAAM,EAAE,CAAC,CAAC,MAAM,CAAC;QACf,QAAQ,EAAE,CAAC;aACR,KAAK,CACJ,CAAC;aACE,MAAM,CAAC;YACN,GAAG,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,0BAA0B,CAAC;YAC/D,cAAc,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,uCAAuC,CAAC;YACvF,aAAa,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,qCAAqC,CAAC;YACpF,IAAI,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,iBAAiB,CAAC;YACvD,eAAe,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,mCAAmC,CAAC;YACpF,cAAc,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,6BAA6B,CAAC;YAC7E,cAAc,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,0BAA0B,CAAC;YAC1E,cAAc,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,sCAAsC,CAAC;SACvF,CAAC;aACD,QAAQ,CAAC,wDAAwD,CAAC,CACtE;aACA,QAAQ,CAAC,oBAAoB,CAAC;KAClC,CAAC;IAEF,2FAA2F;IAC3F,wFAAwF;IACxF,qEAAqE;IACrE,UAAU,EAAE;QACV,MAAM,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,4BAA4B,CAAC;QACzD,KAAK,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,CAAC,gCAAgC,CAAC;QAC5D,YAAY,EAAE,CAAC,CAAC,OAAO,EAAE,CAAC,QAAQ,CAAC,sDAAsD,CAAC;QAC1F,SAAS,EAAE,CAAC;aACT,OAAO,EAAE;aACT,QAAQ,EAAE;aACV,QAAQ,CAAC,2EAA2E,CAAC;QACxF,KAAK,EAAE,CAAC;aACL,MAAM,EAAE;aACR,QAAQ,EAAE;aACV,QAAQ,CAAC,+DAA+D,CAAC;QAC5E,GAAG,EAAE,CAAC;aACH,MAAM,EAAE;aACR,QAAQ,EAAE;aACV,QAAQ,CAAC,8EAA8E,CAAC;QAC3F,MAAM,EAAE,CAAC;aACN,MAAM,EAAE;aACR,QAAQ,EAAE;aACV,QAAQ,CACP,yIAAyI,CAC1I;KACJ;IAED,MAAM,EAAE;QACN;YACE,MAAM,EAAE,WAAW;YACnB,IAAI,EAAE,gBAAgB,CAAC,QAAQ;YAC/B,IAAI,EAAE,mDAAmD;YACzD,QAAQ,EAAE,yEAAyE;SACpF;KACF;IAED,KAAK,CAAC,OAAO,CAAC,KAAK,EAAE,GAAG;QACtB,GAAG,CAAC,GAAG,CAAC,IAAI,CAAC,2BAA2B,EAAE,EAAE,QAAQ,EAAE,KAAK,CAAC,QAAQ,EAAE,CAAC,CAAC;QACxE,MAAM,GAAG,GAAG,MAAM,cAAc,EAAE,CAAC,kBAAkB,CACnD,KAAK,CAAC,QAAQ,EACd,EAAE,KAAK,EAAE,KAAK,CAAC,KAAK,EAAE,MAAM,EAAE,KAAK,CAAC,MAAM,EAAE,EAC5C,GAAG,CACJ,CAAC;QAEF,MAAM,QAAQ,GAAG,CAAC,GAAG,CAAC,OAAO,IAAI,EAAE,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC;YAC/C,GAAG,EAAE,CAAC,CAAC,GAAG;YACV,cAAc,EAAE,CAAC,CAAC,cAAc;YAChC,aAAa,EAAE,CAAC,CAAC,aAAa;YAC9B,IAAI,EAAE,CAAC,CAAC,IAAI;YACZ,eAAe,EAAE,CAAC,CAAC,eAAe;YAClC,cAAc,EAAE,CAAC,CAAC,cAAc;YAChC,cAAc,EAAE,CAAC,CAAC,cAAc;YAChC,cAAc,EAAE,CAAC,CAAC,cAAc;SACjC,CAAC,CAAC,CAAC;QAEJ,MAAM,MAAM,GAAG,GAAG,CAAC,MAAM,IAAI,KAAK,CAAC,MAAM,CAAC;QAC1C,MAAM,KAAK,GAAG,GAAG,CAAC,KAAK,IAAI,KAAK,CAAC,KAAK,CAAC;QACvC,MAAM,YAAY,GAAG,GAAG,CAAC,YAAY,IAAI,IAAI,CAAC;QAE9C,+FAA+F;QAC/F,uFAAuF;QACvF,IAAI,QAAQ,CAAC,MAAM,KAAK,CAAC,IAAI,YAAY,EAAE,CAAC;YAC1C,IAAI,CAAC;gBACH,MAAM,cAAc,EAAE,CAAC,UAAU,CAAC,KAAK,CAAC,QAAQ,EAAE,GAAG,CAAC,CAAC;YACzD,CAAC;YAAC,OAAO,GAAG,EAAE,CAAC;gBACb,IAAI,GAAG,YAAY,QAAQ,IAAI,GAAG,CAAC,IAAI,KAAK,gBAAgB,CAAC,QAAQ,EAAE,CAAC;oBACtE,MAAM,GAAG,CAAC,IAAI,CACZ,WAAW,EACX,aAAa,KAAK,CAAC,QAAQ,kCAAkC,EAC7D,EAAE,GAAG,GAAG,CAAC,WAAW,CAAC,WAAW,CAAC,EAAE,CACpC,CAAC;gBACJ,CAAC;gBACD,MAAM,GAAG,CAAC;YACZ,CAAC;QACH,CAAC;QAED,GAAG,CAAC,MAAM,CAAC,EAAE,MAAM,EAAE,KAAK,EAAE,YAAY,EAAE,CAAC,CAAC;QAC5C,uFAAuF;QACvF,sEAAsE;QACtE,IAAI,CAAC,YAAY;YAAE,GAAG,CAAC,MAAM,CAAC,SAAS,CAAC,EAAE,KAAK,EAAE,QAAQ,CAAC,MAAM,EAAE,GAAG,EAAE,KAAK,EAAE,CAAC,CAAC;QAChF,MAAM,MAAM,GAAG,WAAW,CAAC,EAAE,UAAU,EAAE,QAAQ,CAAC,MAAM,EAAE,YAAY,EAAE,CAAC,CAAC;QAC1E,IAAI,MAAM;YAAE,GAAG,CAAC,MAAM,CAAC,MAAM,CAAC,MAAM,CAAC,CAAC;QAEtC,OAAO,EAAE,QAAQ,EAAE,CAAC;IACtB,CAAC;IAED,MAAM,EAAE,CAAC,MAAM,EAAE,EAAE;QACjB,MAAM,KAAK,GAAa,CAAC,gBAAgB,MAAM,CAAC,QAAQ,CAAC,MAAM,EAAE,CAAC,CAAC;QACnE,KAAK,MAAM,KAAK,IAAI,MAAM,CAAC,QAAQ,EAAE,CAAC;YACpC,MAAM,IAAI,GAAG,KAAK,CAAC,aAAa,IAAI,SAAS,CAAC;YAC9C,MAAM,GAAG,GACP,KAAK,CAAC,cAAc,IAAI,KAAK,CAAC,cAAc,KAAK,IAAI,CAAC,CAAC,CAAC,KAAK,KAAK,CAAC,cAAc,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC;YAC5F,KAAK,CAAC,IAAI,CAAC,SAAS,IAAI,KAAK,GAAG,EAAE,CAAC,CAAC;YACpC,IAAI,KAAK,CAAC,GAAG,IAAI,IAAI;gBAAE,KAAK,CAAC,IAAI,CAAC,UAAU,KAAK,CAAC,GAAG,EAAE,CAAC,CAAC;YACzD,IAAI,KAAK,CAAC,IAAI;gBAAE,KAAK,CAAC,IAAI,CAAC,WAAW,KAAK,CAAC,IAAI,EAAE,CAAC,CAAC;YACpD,IAAI,KAAK,CAAC,eAAe;gBAAE,KAAK,CAAC,IAAI,CAAC,aAAa,KAAK,CAAC,eAAe,EAAE,CAAC,CAAC;YAC5E,IAAI,KAAK,CAAC,cAAc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@@ -47,7 +47,7 @@ export const gbifMatchSpecies = tool('gbif_match_species', {
|
|
|
47
47
|
matchType: z
|
|
48
48
|
.string()
|
|
49
49
|
.optional()
|
|
50
|
-
.describe('EXACT, FUZZY,
|
|
50
|
+
.describe('EXACT, FUZZY, HIGHERRANK, or NONE. NONE means no usable match.'),
|
|
51
51
|
kingdom: z.string().optional().describe('Kingdom of the matched taxon.'),
|
|
52
52
|
phylum: z.string().optional().describe('Phylum of the matched taxon.'),
|
|
53
53
|
class: z.string().optional().describe('Class of the matched taxon.'),
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"gbif-match-species.tool.js","sourceRoot":"","sources":["../../../../src/mcp-server/tools/definitions/gbif-match-species.tool.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,EAAE,IAAI,EAAE,CAAC,EAAE,MAAM,wBAAwB,CAAC;AACjD,OAAO,EAAE,gBAAgB,EAAE,MAAM,+BAA+B,CAAC;AACjE,OAAO,EAAE,cAAc,EAAE,MAAM,iCAAiC,CAAC;AAEjE,MAAM,CAAC,MAAM,gBAAgB,GAAG,IAAI,CAAC,oBAAoB,EAAE;IACzD,KAAK,EAAE,oBAAoB;IAC3B,WAAW,EACT,8DAA8D;QAC9D,2FAA2F;QAC3F,4FAA4F;QAC5F,yFAAyF;QACzF,6EAA6E;QAC7E,uGAAuG;IACzG,WAAW,EAAE,EAAE,YAAY,EAAE,IAAI,EAAE,cAAc,EAAE,IAAI,EAAE,aAAa,EAAE,KAAK,EAAE;IAC/E,KAAK,EAAE,CAAC,CAAC,MAAM,CAAC;QACd,IAAI,EAAE,CAAC;aACJ,MAAM,EAAE;aACR,QAAQ,CACP,kOAAkO,CACnO;QACH,MAAM,EAAE,CAAC;aACN,OAAO,EAAE;aACT,OAAO,CAAC,KAAK,CAAC;aACd,QAAQ,CACP,wJAAwJ,CACzJ;QACH,OAAO,EAAE,CAAC;aACP,MAAM,EAAE;aACR,QAAQ,EAAE;aACV,QAAQ,CACP,uIAAuI,CACxI;QACH,IAAI,EAAE,CAAC;aACJ,IAAI,CAAC,CAAC,SAAS,EAAE,QAAQ,EAAE,OAAO,EAAE,OAAO,EAAE,QAAQ,EAAE,OAAO,EAAE,SAAS,EAAE,YAAY,CAAC,CAAC;aACzF,QAAQ,EAAE;aACV,QAAQ,CACP,mFAAmF,CACpF;KACJ,CAAC;IACF,MAAM,EAAE,CAAC,CAAC,MAAM,CAAC;QACf,QAAQ,EAAE,CAAC;aACR,MAAM,EAAE;aACR,QAAQ,EAAE;aACV,QAAQ,CACP,uFAAuF,CACxF;QACH,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,IAAI,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,sCAAsC,CAAC;QAC5E,MAAM,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,QAAQ,EAAE,CAAC,QAAQ,CAAC,mDAAmD,CAAC;QAC3F,UAAU,EAAE,CAAC;aACV,MAAM,EAAE;aACR,QAAQ,EAAE;aACV,QAAQ,CAAC,yDAAyD,CAAC;QACtE,SAAS,EAAE,CAAC;aACT,MAAM,EAAE;aACR,QAAQ,EAAE;aACV,QAAQ,CAAC,
|
|
1
|
+
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@@ -89,12 +89,15 @@ export type RawParentNode = {
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89
89
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scientificName?: string;
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90
90
|
nameKey?: number;
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91
91
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};
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92
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-
/**
|
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92
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+
/**
|
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93
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+
* Raw children response from /species/{key}/children.
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94
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+
* GBIF omits any `count` field here (unlike /species/search) — the endpoint returns
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95
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+
* only results, offset, limit, and endOfRecords. See issue #3.
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96
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+
*/
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93
97
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export type RawChildrenResponse = {
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98
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offset?: number;
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95
99
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limit?: number;
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96
100
|
endOfRecords?: boolean;
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97
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-
count?: number;
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98
101
|
results?: RawSpeciesRecord[];
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99
102
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};
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100
103
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export type BasisOfRecord = 'HUMAN_OBSERVATION' | 'MACHINE_OBSERVATION' | 'PRESERVED_SPECIMEN' | 'LIVING_SPECIMEN' | 'MATERIAL_SAMPLE' | 'MATERIAL_CITATION' | 'OCCURRENCE' | 'LITERATURE';
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@@ -1 +1 @@
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1
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-
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|
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1
|
+
{"version":3,"file":"types.d.ts","sourceRoot":"","sources":["../../../src/services/gbif/types.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAIH,MAAM,MAAM,aAAa,GACrB,SAAS,GACT,QAAQ,GACR,OAAO,GACP,OAAO,GACP,QAAQ,GACR,OAAO,GACP,SAAS,GACT,YAAY,GACZ,SAAS,GACT,MAAM,GACN,UAAU,CAAC;AAEf,MAAM,MAAM,eAAe,GACvB,UAAU,GACV,SAAS,GACT,mBAAmB,GACnB,qBAAqB,GACrB,UAAU,GACV,YAAY,GACZ,kBAAkB,CAAC;AAEvB,MAAM,MAAM,SAAS,GAAG,OAAO,GAAG,OAAO,GAAG,aAAa,GAAG,MAAM,CAAC;AAEnE,uCAAuC;AACvC,MAAM,MAAM,eAAe,GAAG;IAC5B,QAAQ,CAAC,EAAE,MAAM,CAAC;IAClB,cAAc,CAAC,EAAE,MAAM,CAAC;IACxB,aAAa,CAAC,EAAE,MAAM,CAAC;IACvB,IAAI,CAAC,EAAE,MAAM,CAAC;IACd,MAAM,CAAC,EAAE,MAAM,CAAC;IAChB,UAAU,CAAC,EAAE,MAAM,CAAC;IACpB,SAAS,CAAC,EAAE,MAAM,CAAC;IACnB,IAAI,CAAC,EAAE,MAAM,CAAC;IACd,OAAO,CAAC,EAAE,OAAO,CAAC;IAClB,OAAO,CAAC,EAAE,MAAM,CAAC;IACjB,MAAM,CAAC,EAAE,MAAM,CAAC;IAChB,KAAK,CAAC,EAAE,MAAM,CAAC;IACf,KAAK,CAAC,EAAE,MAAM,CAAC;IACf,MAAM,CAAC,EAAE,MAAM,CAAC;IAChB,KAAK,CAAC,EAAE,MAAM,CAAC;IACf,OAAO,CAAC,EAAE,MAAM,CAAC;IACjB,UAAU,CAAC,EAAE,MAAM,CAAC;IACpB,SAAS,CAAC,EAAE,MAAM,CAAC;IACnB,QAAQ,CAAC,EAAE,MAAM,CAAC;IAClB,QAAQ,CAAC,EAAE,MAAM,CAAC;IAClB,SAAS,CAAC,EAAE,MAAM,CAAC;IACnB,QAAQ,CAAC,EAAE,MAAM,CAAC;IAClB,UAAU,CAAC,EAAE,MAAM,CAAC;CACrB,CAAC;AAEF,uCAAuC;AACvC,MAAM,MAAM,gBAAgB,GAAG;IAC7B,GAAG,CAAC,EAAE,MAAM,CAAC;IACb,MAAM,CAAC,EAAE,MAAM,CAAC;IAChB,OAAO,CAAC,EAAE,MAAM,CAAC;IACjB,cAAc,CAAC,EAAE,MAAM,CAAC;IACxB,aAAa,CAAC,EAAE,MAAM,CAAC;IACvB,cAAc,CAAC,EAAE,MAAM,CAAC;IACxB,UAAU,CAAC,EAAE,MAAM,CAAC;IACpB,QAAQ,CAAC,EAAE,MAAM,CAAC;IAClB,IAAI,CAAC,EAAE,MAAM,CAAC;IACd,MAAM,CAAC,EAAE,MAAM,CAAC;IAChB,eAAe,CAAC,EAAE,MAAM,CAAC;IACzB,mBAAmB,CAAC,EAAE,MAAM,EAAE,CAAC;IAC/B,cAAc,CAAC,EAAE,MAAM,CAAC;IACxB,cAAc,CAAC,EAAE,MAAM,CAAC;IACxB,WAAW,CAAC,EAAE,MAAM,CAAC;IACrB,OAAO,CAAC,EAAE,MAAM,CAAC;IACjB,MAAM,CAAC,EAAE,MAAM,CAAC;IAChB,KAAK,CAAC,EAAE,MAAM,CAAC;IACf,KAAK,CAAC,EAAE,MAAM,CAAC;IACf,MAAM,CAAC,EAAE,MAAM,CAAC;IAChB,KAAK,CAAC,EAAE,MAAM,CAAC;IACf,OAAO,CAAC,EAAE,MAAM,CAAC;IACjB,UAAU,CAAC,EAAE,MAAM,CAAC;IACpB,SAAS,CAAC,EAAE,MAAM,CAAC;IACnB,QAAQ,CAAC,EAAE,MAAM,CAAC;IAClB,QAAQ,CAAC,EAAE,MAAM,CAAC;IAClB,SAAS,CAAC,EAAE,MAAM,CAAC;IACnB,QAAQ,CAAC,EAAE,MAAM,CAAC;IAClB,UAAU,CAAC,EAAE,MAAM,CAAC;IACpB,WAAW,CAAC,EAAE,MAAM,CAAC;IACrB,QAAQ,CAAC,EAAE,MAAM,CAAC;IAClB,SAAS,CAAC,EAAE,MAAM,CAAC;IACnB,MAAM,CAAC,EAAE,MAAM,CAAC;IAChB,WAAW,CAAC,EAAE,MAAM,CAAC;IACrB,QAAQ,CAAC,EAAE,MAAM,CAAC;IAClB,OAAO,CAAC,EAAE,OAAO,CAAC;IAClB,MAAM,CAAC,EAAE,OAAO,CAAC;IACjB,UAAU,CAAC,EAAE,OAAO,CAAC;IACrB,WAAW,CAAC,EAAE,OAAO,CAAC;CACvB,CAAC;AAEF,kDAAkD;AAClD,MAAM,MAAM,wBAAwB,GAAG;IACrC,MAAM,CAAC,EAAE,MAAM,CAAC;IAChB,KAAK,CAAC,EAAE,MAAM,CAAC;IACf,YAAY,CAAC,EAAE,OAAO,CAAC;IACvB,KAAK,CAAC,EAAE,MAAM,CAAC;IACf,OAAO,CAAC,EAAE,gBAAgB,EAAE,CAAC;CAC9B,CAAC;AAEF,kDAAkD;AAClD,MAAM,MAAM,aAAa,GAAG;IAC1B,GAAG,CAAC,EAAE,MAAM,CAAC;IACb,IAAI,CAAC,EAAE,MAAM,CAAC;IACd,aAAa,CAAC,EAAE,MAAM,CAAC;IACvB,cAAc,CAAC,EAAE,MAAM,CAAC;IACxB,OAAO,CAAC,EAAE,MAAM,CAAC;CAClB,CAAC;AAEF;;;;GAIG;AACH,MAAM,MAAM,mBAAmB,GAAG;IAChC,MAAM,CAAC,EAAE,MAAM,CAAC;IAChB,KAAK,CAAC,EAAE,MAAM,CAAC;IACf,YAAY,CAAC,EAAE,OAAO,CAAC;IACvB,OAAO,CAAC,EAAE,gBAAgB,EAAE,CAAC;CAC9B,CAAC;AAIF,MAAM,MAAM,aAAa,GACrB,mBAAmB,GACnB,qBAAqB,GACrB,oBAAoB,GACpB,iBAAiB,GACjB,iBAAiB,GACjB,mBAAmB,GACnB,YAAY,GACZ,YAAY,CAAC;AAEjB,yEAAyE;AACzE,MAAM,MAAM,mBAAmB,GAAG;IAChC,GAAG,CAAC,EAAE,MAAM,CAAC;IACb,UAAU,CAAC,EAAE,MAAM,CAAC;IACpB,YAAY,CAAC,EAAE,MAAM,CAAC;IACtB,UAAU,CAAC,EAAE,MAAM,CAAC;IACpB,SAAS,CAAC,EAAE,MAAM,CAAC;IACnB,QAAQ,CAAC,EAAE,MAAM,CAAC;IAClB,QAAQ,CAAC,EAAE,MAAM,CAAC;IAClB,SAAS,CAAC,EAAE,MAAM,CAAC;IACnB,QAAQ,CAAC,EAAE,MAAM,CAAC;IAClB,UAAU,CAAC,EAAE,MAAM,CAAC;IACpB,QAAQ,CAAC,EAAE,MAAM,CAAC;IAClB,cAAc,CAAC,EAAE,MAAM,CAAC;IACxB,aAAa,CAAC,EAAE,MAAM,CAAC;IACvB,OAAO,CAAC,EAAE,MAAM,CAAC;IACjB,MAAM,CAAC,EAAE,MAAM,CAAC;IAChB,KAAK,CAAC,EAAE,MAAM,CAAC;IACf,MAAM,CAAC,EAAE,MAAM,CAAC;IAChB,KAAK,CAAC,EAAE,MAAM,CAAC;IACf,OAAO,CAAC,EAAE,MAAM,CAAC;IACjB,WAAW,CAAC,EAAE,MAAM,CAAC;IACrB,eAAe,CAAC,EAAE,MAAM,CAAC;IACzB,SAAS,CAAC,EAAE,MAAM,CAAC;IACnB,eAAe,CAAC,EAAE,MAAM,CAAC;IACzB,eAAe,CAAC,EAAE,MAAM,CAAC;IACzB,gBAAgB,CAAC,EAAE,MAAM,CAAC;IAC1B,6BAA6B,CAAC,EAAE,MAAM,CAAC;IACvC,mBAAmB,CAAC,EAAE,MAAM,CAAC;IAC7B,SAAS,CAAC,EAAE,MAAM,CAAC;IACnB,aAAa,CAAC,EAAE,MAAM,CAAC;IACvB,OAAO,CAAC,EAAE,MAAM,CAAC;IACjB,WAAW,CAAC,EAAE,MAAM,CAAC;IACrB,QAAQ,CAAC,EAAE,MAAM,CAAC;IAClB,iBAAiB,CAAC,EAAE,MAAM,CAAC;IAC3B,SAAS,CAAC,EAAE,MAAM,CAAC;IACnB,iBAAiB,CAAC,EAAE,MAAM,CAAC;IAC3B,KAAK,CAAC,EAAE,MAAM,CAAC;IACf,SAAS,CAAC,EAAE,MAAM,CAAC;IACnB,SAAS,CAAC,EAAE,MAAM,CAAC;IACnB,IAAI,CAAC,EAAE,MAAM,CAAC;IACd,KAAK,CAAC,EAAE,MAAM,CAAC;IACf,GAAG,CAAC,EAAE,MAAM,CAAC;IACb,aAAa,CAAC,EAAE,MAAM,CAAC;IACvB,eAAe,CAAC,EAAE,MAAM,CAAC;IACzB,cAAc,CAAC,EAAE,MAAM,CAAC;IACxB,aAAa,CAAC,EAAE,MAAM,CAAC;IACvB,YAAY,CAAC,EAAE,MAAM,CAAC;IACtB,YAAY,CAAC,EAAE,MAAM,CAAC;IACtB,UAAU,CAAC,EAAE,MAAM,CAAC;IACpB,eAAe,CAAC,EAAE,MAAM,CAAC;IACzB,GAAG,CAAC,EAAE,MAAM,CAAC;IACb,SAAS,CAAC,EAAE,MAAM,CAAC;IACnB,kBAAkB,CAAC,EAAE,MAAM,CAAC;IAC5B,mBAAmB,CAAC,EAAE,MAAM,CAAC;IAC7B,WAAW,CAAC,EAAE,MAAM,CAAC;IACrB,MAAM,CAAC,EAAE,MAAM,EAAE,CAAC;IAClB,KAAK,CAAC,EAAE,QAAQ,EAAE,CAAC;IACnB,WAAW,CAAC,EAAE,aAAa,EAA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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": "0.5.0",
|
|
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",
|
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": "0.5.0",
|
|
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": "0.5.0",
|
|
23
23
|
"packageArguments": [
|
|
24
24
|
{
|
|
25
25
|
"type": "positional",
|
|
@@ -48,7 +48,7 @@
|
|
|
48
48
|
"registryBaseUrl": "https://registry.npmjs.org",
|
|
49
49
|
"identifier": "@cyanheads/gbif-biodiversity-mcp-server",
|
|
50
50
|
"runtimeHint": "bun",
|
|
51
|
-
"version": "0.
|
|
51
|
+
"version": "0.5.0",
|
|
52
52
|
"packageArguments": [
|
|
53
53
|
{
|
|
54
54
|
"type": "positional",
|