@cyanheads/pubmed-mcp-server
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Search PubMed/Europe PMC, fetch articles and full text (PMC/EPMC/Unpaywall), citations, MeSH terms via MCP. STDIO or Streamable HTTP.
55 lines • 2.72 kB
TypeScript
/**
* @fileoverview Article ID conversion tool. Converts between DOI, PMID, and PMCID
* using the NCBI PMC ID Converter API for deterministic, batch-friendly resolution.
* @module src/mcp-server/tools/definitions/convert-ids.tool
*/
import { z } from '@cyanheads/mcp-ts-core';
export declare const convertIdsTool: import("@cyanheads/mcp-ts-core").ToolDefinition<z.ZodObject<{
ids: z.ZodArray<z.ZodString>;
idType: z.ZodEnum<{
pmid: "pmid";
pmcid: "pmcid";
doi: "doi";
}>;
}, z.core.$strip>, z.ZodObject<{
records: z.ZodArray<z.ZodObject<{
requestedId: z.ZodString;
pmid: z.ZodOptional<z.ZodString>;
pmcid: z.ZodOptional<z.ZodString>;
doi: z.ZodOptional<z.ZodString>;
errmsg: z.ZodOptional<z.ZodString>;
}, z.core.$strip>>;
totalConverted: z.ZodNumber;
totalSubmitted: z.ZodNumber;
}, z.core.$strip>, readonly [{
readonly reason: "queue_full";
readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.RateLimited;
readonly when: "Local NCBI request queue is at capacity.";
readonly recovery: "Retry after 1-2 seconds; the request queue hit the NCBI rate limit.";
readonly retryable: true;
}, {
readonly reason: "ncbi_unreachable";
readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.ServiceUnavailable;
readonly when: "NCBI E-utilities is unreachable after all retry attempts.";
readonly recovery: "Retry after a brief delay; NCBI was unreachable across all retry attempts.";
readonly retryable: true;
}, {
readonly reason: "ncbi_deadline_exceeded";
readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.Timeout;
readonly when: "Total request deadline expired before NCBI returned a response.";
readonly recovery: "Reduce batch size or retry; NCBI may be under temporary load.";
readonly retryable: true;
}, {
readonly reason: "ncbi_invalid_response";
readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.SerializationError;
readonly when: "NCBI returned a body that could not be parsed (invalid XML/JSON).";
readonly recovery: "Retry the request; NCBI returned a malformed response that could not be parsed.";
readonly retryable: true;
}, {
readonly reason: "ncbi_resource_not_found";
readonly code: import("@cyanheads/mcp-ts-core/errors").JsonRpcErrorCode.NotFound;
readonly when: "NCBI returned a structured \"not found\" error for the requested ID(s).";
readonly recovery: "Verify the ID exists in PubMed; the resource was not found in NCBI and retrying will not help.";
readonly retryable: false;
}]>;
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