@cyanheads/pubmed-mcp-server 1.3.3 → 1.3.5

package/README.md

@@ -6,7 +6,7 @@
 
 [![TypeScript](https://img.shields.io/badge/TypeScript-^5.8.3-blue.svg?style=flat-square)](https://www.typescriptlang.org/)
 [![Model Context Protocol](https://img.shields.io/badge/MCP%20SDK-^1.17.0-green.svg?style=flat-square)](https://modelcontextprotocol.io/)
-[![Version](https://img.shields.io/badge/Version-1.3.2-blue.svg?style=flat-square)](./CHANGELOG.md)
+[![Version](https://img.shields.io/badge/Version-1.3.5-blue.svg?style=flat-square)](./CHANGELOG.md)
 [![License](https://img.shields.io/badge/License-Apache%202.0-blue.svg?style=flat-square)](https://opensource.org/licenses/Apache-2.0)
 [![Status](https://img.shields.io/badge/Status-Stable-green.svg?style=flat-square)](https://github.com/cyanheads/pubmed-mcp-server/issues)
 [![GitHub](https://img.shields.io/github/stars/cyanheads/pubmed-mcp-server?style=social)](https://github.com/cyanheads/pubmed-mcp-server)
@@ -84,13 +84,15 @@ Leverages the robust utilities provided by the `mcp-ts-template`:
 
 ### Prerequisites
 
-- [Node.js (>=18.0.0)](https://nodejs.org/)
+- [Node.js (>=20.0.0)](https://nodejs.org/)
 - [npm](https://www.npmjs.com/) (comes with Node.js)
 - **NCBI API Key** (recommended for higher rate limits) - [Get one here](https://ncbiinsights.ncbi.nlm.nih.gov/2017/11/02/new-api-keys-for-the-e-utilities/)
 
 ### MCP Client Settings
 
-Add the following to your MCP client's configuration file (e.g., `cline_mcp_settings.json`). This configuration uses `npx` to run the server, which will automatically install the package if not already present:
+Add the following to your MCP client's configuration file (e.g., `cline_mcp_settings.json`).
+This configuration uses `npx` to run the server, which will automatically install the package if not already present.
+All environment variables are optional, but recommended for production use. NCBI API key is recommended to avoid rate limiting issues.
 
 ```json
 {
@@ -99,7 +101,10 @@ Add the following to your MCP client's configuration file (e.g., `cline_mcp_sett
       "command": "npx",
       "args": ["@cyanheads/pubmed-mcp-server"],
       "env": {
-        "NCBI_API_KEY": "your_ncbi_api_key_here"
+        "MCP_LOG_LEVEL": "debug",
+        "MCP_TRANSPORT_TYPE": "http",
+        "MCP_HTTP_PORT": "3017",
+        "NCBI_API_KEY": "YOUR_NCBI_API_KEY_HERE"
       }
     }
   }
@@ -139,7 +144,7 @@ Configure the server using environment variables. For local development, these c
 | Variable              | Description                                                                              | Default       |
 | :-------------------- | :--------------------------------------------------------------------------------------- | :------------ |
 | `MCP_TRANSPORT_TYPE`  | Transport mechanism: `stdio` or `http`.                                                  | `stdio`       |
-| `MCP_HTTP_PORT`       | Port for the HTTP server (if `MCP_TRANSPORT_TYPE=http`).                                 | `3010`        |
+| `MCP_HTTP_PORT`       | Port for the HTTP server (if `MCP_TRANSPORT_TYPE=http`).                                 | `3017`        |
 | `MCP_HTTP_HOST`       | Host address for the HTTP server (if `MCP_TRANSPORT_TYPE=http`).                         | `127.0.0.1`   |
 | `MCP_ALLOWED_ORIGINS` | Comma-separated list of allowed origins for CORS (if `MCP_TRANSPORT_TYPE=http`).         | (none)        |
 | `MCP_LOG_LEVEL`       | Logging level (`debug`, `info`, `notice`, `warning`, `error`, `crit`, `alert`, `emerg`). | `debug`       |

package/dist/config/index.d.ts

@@ -40,3 +40,4 @@ export declare const config: {
 };
 export declare const logLevel: string;
 export declare const environment: string;
+//# sourceMappingURL=index.d.ts.map

package/dist/config/index.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../../src/config/index.ts"],"names":[],"mappings":"AAAA;;;;;;;GAOG;AAkPH,eAAO,MAAM,MAAM;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;CAiClB,CAAC;AAEF,eAAO,MAAM,QAAQ,EAAE,MAAwB,CAAC;AAChD,eAAO,MAAM,WAAW,EAAE,MAA2B,CAAC"}

package/dist/config/index.js

@@ -60,7 +60,7 @@ const EnvSchema = z
     // Transport
     MCP_TRANSPORT_TYPE: z.enum(["stdio", "http"]).default("stdio"),
     MCP_SESSION_MODE: z.enum(["stateless", "stateful", "auto"]).default("auto"),
-    MCP_HTTP_PORT: z.coerce.number().int().positive().default(3010),
+    MCP_HTTP_PORT: z.coerce.number().int().positive().default(3017),
     MCP_HTTP_HOST: z.string().default("127.0.0.1"),
     MCP_HTTP_ENDPOINT_PATH: z.string().default("/mcp"),
     MCP_HTTP_MAX_PORT_RETRIES: z.coerce
@@ -77,7 +77,7 @@ const EnvSchema = z
         .number()
         .int()
         .positive()
-        .default(1800000),
+        .default(1_800_000),
     MCP_ALLOWED_ORIGINS: z.string().optional(),
     // Authentication
     MCP_AUTH_MODE: z.enum(["jwt", "oauth", "none"]).default("none"),
@@ -228,3 +228,4 @@ export const config = {
 };
 export const logLevel = config.logLevel;
 export const environment = config.environment;
+//# sourceMappingURL=index.js.map

package/dist/config/index.js.map

@@ -0,0 +1 @@
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package/dist/index.d.ts

@@ -22,3 +22,4 @@
  * @module src/index
  */
 export {};
+//# sourceMappingURL=index.d.ts.map

package/dist/index.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":";AAEA;;;;;;;;;;;;;;;;;;;;;GAqBG"}

package/dist/index.js

@@ -172,7 +172,7 @@ const start = async () => {
             logger.error("FATAL: Uncaught exception detected. This indicates a bug or unexpected state. Initiating shutdown...", errorContext);
             await shutdown("uncaughtException");
         });
-        process.on("unhandledRejection", async (reason, promise) => {
+        process.on("unhandledRejection", async (reason) => {
             const rejectionContext = {
                 ...startupContext,
                 triggerEvent: "unhandledRejection",
@@ -206,3 +206,4 @@ const start = async () => {
         process.exit(1);
     }
 })();
+//# sourceMappingURL=index.js.map

package/dist/index.js.map

@@ -0,0 +1 @@
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package/dist/mcp-server/server.d.ts

@@ -9,9 +9,10 @@
  *
  * @module src/mcp-server/server
  */
-import { ServerType } from "@hono/node-server";
 import { McpServer } from "@modelcontextprotocol/sdk/server/mcp.js";
+import http from "http";
 /**
  * Main application entry point. Initializes and starts the MCP server.
  */
-export declare function initializeAndStartServer(): Promise<void | McpServer | ServerType>;
+export declare function initializeAndStartServer(): Promise<McpServer | http.Server>;
+//# sourceMappingURL=server.d.ts.map

package/dist/mcp-server/server.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"server.d.ts","sourceRoot":"","sources":["../../src/mcp-server/server.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;GAUG;AAEH,OAAO,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AACpE,OAAO,IAAI,MAAM,MAAM,CAAC;AAoGxB;;GAEG;AACH,wBAAsB,wBAAwB,IAAI,OAAO,CACvD,SAAS,GAAG,IAAI,CAAC,MAAM,CACxB,CA6BA"}

package/dist/mcp-server/server.js

@@ -12,7 +12,6 @@
 import { McpServer } from "@modelcontextprotocol/sdk/server/mcp.js";
 import { config, environment } from "../config/index.js";
 import { ErrorHandler, logger, requestContextService } from "../utils/index.js";
-import { BaseErrorCode } from "../types-global/errors.js";
 import { registerFetchPubMedContentTool } from "./tools/fetchPubMedContent/index.js";
 import { registerGeneratePubMedChartTool } from "./tools/generatePubMedChart/index.js";
 import { registerGetPubMedArticleConnectionsTool } from "./tools/getPubMedArticleConnections/index.js";
@@ -44,7 +43,7 @@ async function createMcpServerInstance() {
             tools: { listChanged: true },
         },
     });
-    await ErrorHandler.tryCatch(async () => {
+    try {
         logger.debug("Registering resources and tools...", context);
         // IMPORTANT: Keep tool registrations in alphabetical order.
         await registerFetchPubMedContentTool(server);
@@ -53,18 +52,21 @@ async function createMcpServerInstance() {
         await registerPubMedResearchAgentTool(server);
         await registerSearchPubMedArticlesTool(server);
         logger.info("Resources and tools registered successfully", context);
-    }, {
-        operation: "registerAllCapabilities",
-        context,
-        errorCode: BaseErrorCode.INITIALIZATION_FAILED,
-        critical: true,
-    });
+    }
+    catch (err) {
+        logger.error("Failed to register resources/tools", {
+            ...context,
+            error: err instanceof Error ? err.message : String(err),
+            stack: err instanceof Error ? err.stack : undefined,
+        });
+        throw err;
+    }
     return server;
 }
 /**
  * Selects, sets up, and starts the appropriate MCP transport layer based on configuration.
  *
- * @returns Resolves with `McpServer` for 'stdio', `http.Server` for 'http', or `void`.
+ * @returns Resolves with `McpServer` for 'stdio' or `http.Server` for 'http'.
  * @throws {Error} If transport type is unsupported or setup fails.
  * @private
  */
@@ -75,16 +77,16 @@ async function startTransport() {
         transport: transportType,
     });
     logger.info(`Starting transport: ${transportType}`, context);
-    const serverFactory = createMcpServerInstance;
     if (transportType === "http") {
-        const { server } = await startHttpTransport(serverFactory, context);
+        const { server } = await startHttpTransport(createMcpServerInstance, context);
         return server;
     }
     if (transportType === "stdio") {
-        const server = await serverFactory();
+        const server = await createMcpServerInstance();
         await startStdioTransport(server, context);
         return server;
     }
+    logger.fatal(`Unsupported transport type configured: ${transportType}`, context);
     throw new Error(`Unsupported transport type: ${transportType}. Must be 'stdio' or 'http'.`);
 }
 /**
@@ -101,13 +103,18 @@ export async function initializeAndStartServer() {
         return result;
     }
     catch (err) {
+        logger.fatal("Critical error during MCP server initialization.", {
+            ...context,
+            error: err instanceof Error ? err.message : String(err),
+            stack: err instanceof Error ? err.stack : undefined,
+        });
         ErrorHandler.handleError(err, {
-            operation: "initializeAndStartServer",
-            context: context,
+            ...context,
+            operation: "initializeAndStartServer_Catch",
             critical: true,
-            rethrow: false,
         });
         logger.info("Exiting process due to critical initialization error.", context);
         process.exit(1);
     }
 }
+//# sourceMappingURL=server.js.map

package/dist/mcp-server/server.js.map

@@ -0,0 +1 @@
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package/dist/mcp-server/tools/fetchPubMedContent/index.d.ts

@@ -4,3 +4,4 @@
  * @module src/mcp-server/tools/fetchPubMedContent/index
  */
 export { registerFetchPubMedContentTool } from "./registration.js";
+//# sourceMappingURL=index.d.ts.map

package/dist/mcp-server/tools/fetchPubMedContent/index.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/fetchPubMedContent/index.ts"],"names":[],"mappings":"AAAA;;;;GAIG;AAEH,OAAO,EAAE,8BAA8B,EAAE,MAAM,mBAAmB,CAAC"}

package/dist/mcp-server/tools/fetchPubMedContent/index.js

@@ -4,3 +4,4 @@
  * @module src/mcp-server/tools/fetchPubMedContent/index
  */
 export { registerFetchPubMedContentTool } from "./registration.js";
+//# sourceMappingURL=index.js.map

package/dist/mcp-server/tools/fetchPubMedContent/index.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"index.js","sourceRoot":"","sources":["../../../../src/mcp-server/tools/fetchPubMedContent/index.ts"],"names":[],"mappings":"AAAA;;;;GAIG;AAEH,OAAO,EAAE,8BAA8B,EAAE,MAAM,mBAAmB,CAAC"}

package/dist/mcp-server/tools/fetchPubMedContent/logic.d.ts

@@ -65,3 +65,4 @@ export type FetchPubMedContentOutput = {
     eFetchUrl: string;
 };
 export declare function fetchPubMedContentLogic(input: FetchPubMedContentInput, parentRequestContext: RequestContext): Promise<FetchPubMedContentOutput>;
+//# sourceMappingURL=logic.d.ts.map

package/dist/mcp-server/tools/fetchPubMedContent/logic.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"logic.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/fetchPubMedContent/logic.ts"],"names":[],"mappings":"AAAA;;;;;;GAMG;AAEH,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;AAQxB,OAAO,EAEL,cAAc,EAGf,MAAM,yBAAyB,CAAC;AAgBjC,eAAO,MAAM,6BAA6B;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;EA4GtC,CAAC;AAEL,MAAM,MAAM,uBAAuB,GAAG,CAAC,CAAC,KAAK,CAC3C,OAAO,6BAA6B,CACrC,CAAC;AAEF,MAAM,MAAM,wBAAwB,GAAG;IACrC,OAAO,EAAE,MAAM,CAAC;IAChB,gBAAgB,EAAE,MAAM,CAAC;IACzB,SAAS,EAAE,MAAM,CAAC;CACnB,CAAC;AA8GF,wBAAsB,uBAAuB,CAC3C,KAAK,EAAE,uBAAuB,EAC9B,oBAAoB,EAAE,cAAc,GACnC,OAAO,CAAC,wBAAwB,CAAC,CAwKnC"}

package/dist/mcp-server/tools/fetchPubMedContent/logic.js

@@ -181,9 +181,7 @@ export async function fetchPubMedContentLogic(input, parentRequestContext) {
     const ncbiService = getNcbiService();
     logger.info("Executing fetch_pubmed_content tool", toolLogicContext);
     const eFetchParams = { db: "pubmed" };
-    let usingHistory = false;
     if (input.queryKey && input.webEnv) {
-        usingHistory = true;
         eFetchParams.query_key = input.queryKey;
         eFetchParams.WebEnv = input.webEnv;
         if (input.retstart !== undefined)
@@ -225,7 +223,9 @@ export async function fetchPubMedContentLogic(input, parentRequestContext) {
         const pmidRegex = /^PMID- (\d+)/gm;
         let match;
         while ((match = pmidRegex.exec(medlineText)) !== null) {
-            foundPmidsInMedline.add(match[1]);
+            if (match[1]) {
+                foundPmidsInMedline.add(match[1]);
+            }
         }
         articlesCount = foundPmidsInMedline.size;
         if (input.outputFormat === "raw_text") {
@@ -309,3 +309,4 @@ export async function fetchPubMedContentLogic(input, parentRequestContext) {
         eFetchUrl,
     };
 }
+//# sourceMappingURL=logic.js.map

package/dist/mcp-server/tools/fetchPubMedContent/logic.js.map

@@ -0,0 +1 @@
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package/dist/mcp-server/tools/fetchPubMedContent/registration.d.ts

@@ -8,3 +8,4 @@ import { McpServer } from "@modelcontextprotocol/sdk/server/mcp.js";
  * @param server - The McpServer instance.
  */
 export declare function registerFetchPubMedContentTool(server: McpServer): Promise<void>;
+//# sourceMappingURL=registration.d.ts.map

package/dist/mcp-server/tools/fetchPubMedContent/registration.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"registration.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/fetchPubMedContent/registration.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AAepE;;;GAGG;AACH,wBAAsB,8BAA8B,CAClD,MAAM,EAAE,SAAS,GAChB,OAAO,CAAC,IAAI,CAAC,CAgFf"}

package/dist/mcp-server/tools/fetchPubMedContent/registration.js

@@ -67,3 +67,4 @@ export async function registerFetchPubMedContentTool(server) {
         critical: true,
     });
 }
+//# sourceMappingURL=registration.js.map

package/dist/mcp-server/tools/fetchPubMedContent/registration.js.map

@@ -0,0 +1 @@
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package/dist/mcp-server/tools/generatePubMedChart/index.d.ts

@@ -5,3 +5,4 @@
  * @module src/mcp-server/tools/generatePubMedChart/index
  */
 export * from "./registration.js";
+//# sourceMappingURL=index.d.ts.map

package/dist/mcp-server/tools/generatePubMedChart/index.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/generatePubMedChart/index.ts"],"names":[],"mappings":"AAAA;;;;;GAKG;AACH,cAAc,mBAAmB,CAAC"}

package/dist/mcp-server/tools/generatePubMedChart/index.js

@@ -5,3 +5,4 @@
  * @module src/mcp-server/tools/generatePubMedChart/index
  */
 export * from "./registration.js";
+//# sourceMappingURL=index.js.map

package/dist/mcp-server/tools/generatePubMedChart/index.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"index.js","sourceRoot":"","sources":["../../../../src/mcp-server/tools/generatePubMedChart/index.ts"],"names":[],"mappings":"AAAA;;;;;GAKG;AACH,cAAc,mBAAmB,CAAC"}

package/dist/mcp-server/tools/generatePubMedChart/logic.d.ts

@@ -41,3 +41,4 @@ export type GeneratePubMedChartOutput = {
     dataPoints: number;
 };
 export declare function generatePubMedChartLogic(input: GeneratePubMedChartInput, parentRequestContext: RequestContext): Promise<GeneratePubMedChartOutput>;
+//# sourceMappingURL=logic.d.ts.map

package/dist/mcp-server/tools/generatePubMedChart/logic.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"logic.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/generatePubMedChart/logic.ts"],"names":[],"mappings":"AAQA,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;AAExB,OAAO,EAEL,cAAc,EAGf,MAAM,yBAAyB,CAAC;AAEjC,eAAO,MAAM,8BAA8B;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;EAyEzC,CAAC;AAEH,MAAM,MAAM,wBAAwB,GAAG,CAAC,CAAC,KAAK,CAC5C,OAAO,8BAA8B,CACtC,CAAC;AAEF,MAAM,MAAM,yBAAyB,GAAG;IACtC,UAAU,EAAE,MAAM,CAAC;IACnB,SAAS,EAAE,MAAM,CAAC;IAClB,UAAU,EAAE,MAAM,CAAC;CACpB,CAAC;AAoBF,wBAAsB,wBAAwB,CAC5C,KAAK,EAAE,wBAAwB,EAC/B,oBAAoB,EAAE,cAAc,GACnC,OAAO,CAAC,yBAAyB,CAAC,CAkKpC"}

package/dist/mcp-server/tools/generatePubMedChart/logic.js

@@ -191,3 +191,4 @@ export async function generatePubMedChartLogic(input, parentRequestContext) {
         });
     }
 }
+//# sourceMappingURL=logic.js.map

package/dist/mcp-server/tools/generatePubMedChart/logic.js.map

@@ -0,0 +1 @@
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package/dist/mcp-server/tools/generatePubMedChart/registration.d.ts

@@ -5,3 +5,4 @@
  */
 import { McpServer } from "@modelcontextprotocol/sdk/server/mcp.js";
 export declare function registerGeneratePubMedChartTool(server: McpServer): Promise<void>;
+//# sourceMappingURL=registration.d.ts.map

package/dist/mcp-server/tools/generatePubMedChart/registration.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"registration.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/generatePubMedChart/registration.ts"],"names":[],"mappings":"AAAA;;;;GAIG;AACH,OAAO,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AAepE,wBAAsB,+BAA+B,CACnD,MAAM,EAAE,SAAS,GAChB,OAAO,CAAC,IAAI,CAAC,CAwFf"}

package/dist/mcp-server/tools/generatePubMedChart/registration.js

@@ -69,3 +69,4 @@ export async function registerGeneratePubMedChartTool(server) {
         critical: true,
     });
 }
+//# sourceMappingURL=registration.js.map

package/dist/mcp-server/tools/generatePubMedChart/registration.js.map

@@ -0,0 +1 @@
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package/dist/mcp-server/tools/getPubMedArticleConnections/index.d.ts

@@ -4,3 +4,4 @@
  * @module src/mcp-server/tools/getPubMedArticleConnections/index
  */
 export { registerGetPubMedArticleConnectionsTool } from "./registration.js";
+//# sourceMappingURL=index.d.ts.map

package/dist/mcp-server/tools/getPubMedArticleConnections/index.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/getPubMedArticleConnections/index.ts"],"names":[],"mappings":"AAAA;;;;GAIG;AAEH,OAAO,EAAE,uCAAuC,EAAE,MAAM,mBAAmB,CAAC"}

package/dist/mcp-server/tools/getPubMedArticleConnections/index.js

@@ -4,3 +4,4 @@
  * @module src/mcp-server/tools/getPubMedArticleConnections/index
  */
 export { registerGetPubMedArticleConnectionsTool } from "./registration.js";
+//# sourceMappingURL=index.js.map

package/dist/mcp-server/tools/getPubMedArticleConnections/index.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"index.js","sourceRoot":"","sources":["../../../../src/mcp-server/tools/getPubMedArticleConnections/index.ts"],"names":[],"mappings":"AAAA;;;;GAIG;AAEH,OAAO,EAAE,uCAAuC,EAAE,MAAM,mBAAmB,CAAC"}

package/dist/mcp-server/tools/getPubMedArticleConnections/logic/citationFormatter.d.ts

@@ -7,3 +7,4 @@ import { RequestContext } from "../../../../utils/index.js";
 import type { GetPubMedArticleConnectionsInput } from "./index.js";
 import type { ToolOutputData } from "./types.js";
 export declare function handleCitationFormats(input: GetPubMedArticleConnectionsInput, outputData: ToolOutputData, context: RequestContext): Promise<void>;
+//# sourceMappingURL=citationFormatter.d.ts.map

package/dist/mcp-server/tools/getPubMedArticleConnections/logic/citationFormatter.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"citationFormatter.d.ts","sourceRoot":"","sources":["../../../../../src/mcp-server/tools/getPubMedArticleConnections/logic/citationFormatter.ts"],"names":[],"mappings":"AAAA;;;;GAIG;AAKH,OAAO,EAEL,cAAc,EAEf,MAAM,4BAA4B,CAAC;AAQpC,OAAO,KAAK,EAAE,gCAAgC,EAAE,MAAM,YAAY,CAAC;AACnE,OAAO,KAAK,EAAE,cAAc,EAAE,MAAM,YAAY,CAAC;AAGjD,wBAAsB,qBAAqB,CACzC,KAAK,EAAE,gCAAgC,EACvC,UAAU,EAAE,cAAc,EAC1B,OAAO,EAAE,cAAc,GACtB,OAAO,CAAC,IAAI,CAAC,CAgDf"}

package/dist/mcp-server/tools/getPubMedArticleConnections/logic/citationFormatter.js

@@ -112,3 +112,4 @@ function pubmedArticleToCsl(article, context) {
     }
     return cslData;
 }
+//# sourceMappingURL=citationFormatter.js.map

package/dist/mcp-server/tools/getPubMedArticleConnections/logic/citationFormatter.js.map

@@ -0,0 +1 @@
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package/dist/mcp-server/tools/getPubMedArticleConnections/logic/elinkHandler.d.ts

@@ -7,3 +7,4 @@ import { RequestContext } from "../../../../utils/index.js";
 import type { GetPubMedArticleConnectionsInput } from "./index.js";
 import type { ToolOutputData } from "./types.js";
 export declare function handleELinkRelationships(input: GetPubMedArticleConnectionsInput, outputData: ToolOutputData, context: RequestContext): Promise<void>;
+//# sourceMappingURL=elinkHandler.d.ts.map

package/dist/mcp-server/tools/getPubMedArticleConnections/logic/elinkHandler.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"elinkHandler.d.ts","sourceRoot":"","sources":["../../../../../src/mcp-server/tools/getPubMedArticleConnections/logic/elinkHandler.ts"],"names":[],"mappings":"AAAA;;;;GAIG;AAOH,OAAO,EAAU,cAAc,EAAE,MAAM,4BAA4B,CAAC;AAGpE,OAAO,KAAK,EAAE,gCAAgC,EAAE,MAAM,YAAY,CAAC;AACnE,OAAO,KAAK,EAAE,cAAc,EAAE,MAAM,YAAY,CAAC;AAQjD,wBAAsB,wBAAwB,CAC5C,KAAK,EAAE,gCAAgC,EACvC,UAAU,EAAE,cAAc,EAC1B,OAAO,EAAE,cAAc,GACtB,OAAO,CAAC,IAAI,CAAC,CA2Pf"}

package/dist/mcp-server/tools/getPubMedArticleConnections/logic/elinkHandler.js

@@ -207,3 +207,4 @@ export async function handleELinkRelationships(input, outputData, context) {
     }
     outputData.retrievedCount = outputData.relatedArticles.length;
 }
+//# sourceMappingURL=elinkHandler.js.map

package/dist/mcp-server/tools/getPubMedArticleConnections/logic/elinkHandler.js.map

@@ -0,0 +1 @@
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package/dist/mcp-server/tools/getPubMedArticleConnections/logic/index.d.ts

@@ -36,3 +36,4 @@ export type GetPubMedArticleConnectionsInput = z.infer<typeof GetPubMedArticleCo
  * @returns {Promise<ToolOutputData>} The result of the tool call.
  */
 export declare function handleGetPubMedArticleConnections(input: GetPubMedArticleConnectionsInput, context: RequestContext): Promise<ToolOutputData>;
+//# sourceMappingURL=index.d.ts.map

package/dist/mcp-server/tools/getPubMedArticleConnections/logic/index.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../../../../../src/mcp-server/tools/getPubMedArticleConnections/logic/index.ts"],"names":[],"mappings":"AAAA;;;;GAIG;AAEH,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;AAExB,OAAO,EAEL,cAAc,EAGf,MAAM,4BAA4B,CAAC;AAGpC,OAAO,KAAK,EAAE,cAAc,EAAE,MAAM,YAAY,CAAC;AAEjD;;GAEG;AACH,eAAO,MAAM,sCAAsC;;;;;;;;;;;;;;;EAmCjD,CAAC;AAEH;;GAEG;AACH,MAAM,MAAM,gCAAgC,GAAG,CAAC,CAAC,KAAK,CACpD,OAAO,sCAAsC,CAC9C,CAAC;AAEF;;;;;GAKG;AACH,wBAAsB,iCAAiC,CACrD,KAAK,EAAE,gCAAgC,EACvC,OAAO,EAAE,cAAc,GACtB,OAAO,CAAC,cAAc,CAAC,CAyDzB"}

package/dist/mcp-server/tools/getPubMedArticleConnections/logic/index.js

@@ -88,3 +88,4 @@ export async function handleGetPubMedArticleConnections(input, context) {
     });
     return outputData;
 }
+//# sourceMappingURL=index.js.map

package/dist/mcp-server/tools/getPubMedArticleConnections/logic/index.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"index.js","sourceRoot":"","sources":["../../../../../src/mcp-server/tools/getPubMedArticleConnections/logic/index.ts"],"names":[],"mappings":"AAAA;;;;GAIG;AAEH,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;AACxB,OAAO,EAAE,aAAa,EAAE,QAAQ,EAAE,MAAM,oCAAoC,CAAC;AAC7E,OAAO,EACL,MAAM,EAEN,qBAAqB,EACrB,uBAAuB,GACxB,MAAM,4BAA4B,CAAC;AACpC,OAAO,EAAE,qBAAqB,EAAE,MAAM,wBAAwB,CAAC;AAC/D,OAAO,EAAE,wBAAwB,EAAE,MAAM,mBAAmB,CAAC;AAG7D;;GAEG;AACH,MAAM,CAAC,MAAM,sCAAsC,GAAG,CAAC,CAAC,MAAM,CAAC;IAC7D,UAAU,EAAE,CAAC;SACV,MAAM,EAAE;SACR,KAAK,CAAC,OAAO,CAAC;SACd,QAAQ,CACP,uJAAuJ,CACxJ;IACH,gBAAgB,EAAE,CAAC;SAChB,IAAI,CAAC;QACJ,yBAAyB;QACzB,gBAAgB;QAChB,mBAAmB;QACnB,kBAAkB;KACnB,CAAC;SACD,OAAO,CAAC,yBAAyB,CAAC;SAClC,QAAQ,CACP,ojBAAojB,CACrjB;IACH,iBAAiB,EAAE,CAAC;SACjB,MAAM,EAAE;SACR,GAAG,EAAE;SACL,QAAQ,EAAE;SACV,GAAG,CAAC,EAAE,EAAE,8CAA8C,CAAC;SACvD,QAAQ,EAAE;SACV,OAAO,CAAC,CAAC,CAAC;SACV,QAAQ,CACP,iQAAiQ,CAClQ;IACH,cAAc,EAAE,CAAC;SACd,KAAK,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,KAAK,EAAE,QAAQ,EAAE,YAAY,EAAE,YAAY,CAAC,CAAC,CAAC;SAC5D,QAAQ,EAAE;SACV,OAAO,CAAC,CAAC,KAAK,CAAC,CAAC;SAChB,QAAQ,CACP,uQAAuQ,CACxQ;CACJ,CAAC,CAAC;AASH;;;;;GAKG;AACH,MAAM,CAAC,KAAK,UAAU,iCAAiC,CACrD,KAAuC,EACvC,OAAuB;IAEvB,MAAM,gBAAgB,GAAG,qBAAqB,CAAC,oBAAoB,CAAC;QAClE,eAAe,EAAE,OAAO,CAAC,SAAS;QAClC,SAAS,EAAE,mCAAmC;QAC9C,QAAQ,EAAE,gCAAgC;QAC1C,KAAK,EAAE,uBAAuB,CAAC,KAAK,CAAC;KACtC,CAAC,CAAC;IAEH,MAAM,CAAC,IAAI,CACT,+CAA+C,EAC/C,gBAAgB,CACjB,CAAC;IAEF,MAAM,UAAU,GAAmB;QACjC,UAAU,EAAE,KAAK,CAAC,UAAU;QAC5B,gBAAgB,EAAE,KAAK,CAAC,gBAAgB;QACxC,eAAe,EAAE,EAAE;QACnB,SAAS,EAAE,EAAE;QACb,cAAc,EAAE,CAAC;QACjB,WAAW,EAAE,SAAS;QACtB,OAAO,EAAE,SAAS;KACnB,CAAC;IAEF,QAAQ,KAAK,CAAC,gBAAgB,EAAE,CAAC;QAC/B,KAAK,yBAAyB,CAAC;QAC/B,KAAK,gBAAgB,CAAC;QACtB,KAAK,mBAAmB;YACtB,MAAM,wBAAwB,CAAC,KAAK,EAAE,UAAU,EAAE,gBAAgB,CAAC,CAAC;YACpE,MAAM;QACR,KAAK,kBAAkB;YACrB,MAAM,qBAAqB,CAAC,KAAK,EAAE,UAAU,EAAE,gBAAgB,CAAC,CAAC;YACjE,MAAM;QACR;YACE,MAAM,IAAI,QAAQ,CAChB,aAAa,CAAC,gBAAgB,EAC9B,iCAAiC,KAAK,CAAC,gBAAgB,EAAE,EACzD,EAAE,GAAG,gBAAgB,EAAE,YAAY,EAAE,KAAK,CAAC,gBAAgB,EAAE,CAC9D,CAAC;IACN,CAAC;IAED,IACE,UAAU,CAAC,cAAc,KAAK,CAAC;QAC/B,CAAC,UAAU,CAAC,OAAO;QACnB,CAAC,KAAK,CAAC,gBAAgB,KAAK,kBAAkB;YAC5C,MAAM,CAAC,IAAI,CAAC,UAAU,CAAC,SAAS,CAAC,CAAC,MAAM,KAAK,CAAC,CAAC,EACjD,CAAC;QACD,UAAU,CAAC,OAAO,GAAG,4CAA4C,CAAC;IACpE,CAAC;IAED,MAAM,CAAC,MAAM,CAAC,4DAA4D,EAAE;QAC1E,GAAG,gBAAgB;QACnB,gBAAgB,EAAE,KAAK,CAAC,gBAAgB;QACxC,cAAc,EAAE,UAAU,CAAC,cAAc;QACzC,kBAAkB,EAAE,MAAM,CAAC,IAAI,CAAC,UAAU,CAAC,SAAS,CAAC,CAAC,MAAM;KAC7D,CAAC,CAAC;IAEH,OAAO,UAAU,CAAC;AACpB,CAAC"}

package/dist/mcp-server/tools/getPubMedArticleConnections/logic/types.d.ts

@@ -25,3 +25,4 @@ export interface ToolOutputData {
     eUtilityUrl?: string;
     message?: string;
 }
+//# sourceMappingURL=types.d.ts.map

package/dist/mcp-server/tools/getPubMedArticleConnections/logic/types.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"types.d.ts","sourceRoot":"","sources":["../../../../../src/mcp-server/tools/getPubMedArticleConnections/logic/types.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,OAAO,KAAK,EAAE,gCAAgC,EAAE,MAAM,YAAY,CAAC;AAGnE,MAAM,WAAW,cAAc;IAC7B,IAAI,EAAE,MAAM,CAAC;IACb,KAAK,CAAC,EAAE,MAAM,CAAC;IACf,OAAO,CAAC,EAAE,MAAM,CAAC;IACjB,KAAK,CAAC,EAAE,MAAM,CAAC;IACf,OAAO,EAAE,MAAM,CAAC;CACjB;AAED,MAAM,WAAW,cAAc;IAC7B,GAAG,CAAC,EAAE,MAAM,CAAC;IACb,MAAM,CAAC,EAAE,MAAM,CAAC;IAChB,UAAU,CAAC,EAAE,MAAM,CAAC;IACpB,UAAU,CAAC,EAAE,MAAM,CAAC;CACrB;AAED,MAAM,WAAW,cAAc;IAC7B,UAAU,EAAE,MAAM,CAAC;IACnB,gBAAgB,EAAE,gCAAgC,CAAC,kBAAkB,CAAC,CAAC;IACvE,eAAe,EAAE,cAAc,EAAE,CAAC;IAClC,SAAS,EAAE,cAAc,CAAC;IAC1B,cAAc,EAAE,MAAM,CAAC;IACvB,WAAW,CAAC,EAAE,MAAM,CAAC;IACrB,OAAO,CAAC,EAAE,MAAM,CAAC;CAClB"}

package/dist/mcp-server/tools/getPubMedArticleConnections/logic/types.js

@@ -3,3 +3,4 @@
  * @module src/mcp-server/tools/getPubMedArticleConnections/logic/types
  */
 export {};
+//# sourceMappingURL=types.js.map

package/dist/mcp-server/tools/getPubMedArticleConnections/logic/types.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"types.js","sourceRoot":"","sources":["../../../../../src/mcp-server/tools/getPubMedArticleConnections/logic/types.ts"],"names":[],"mappings":"AAAA;;;GAGG"}

package/dist/mcp-server/tools/getPubMedArticleConnections/registration.d.ts

@@ -9,3 +9,4 @@ import type { McpServer } from "@modelcontextprotocol/sdk/server/mcp.js";
  * @param {McpServer} server - The MCP server instance.
  */
 export declare function registerGetPubMedArticleConnectionsTool(server: McpServer): Promise<void>;
+//# sourceMappingURL=registration.d.ts.map

package/dist/mcp-server/tools/getPubMedArticleConnections/registration.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"registration.d.ts","sourceRoot":"","sources":["../../../../src/mcp-server/tools/getPubMedArticleConnections/registration.ts"],"names":[],"mappings":"AAAA;;;;GAIG;AAEH,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,yCAAyC,CAAC;AAezE;;;GAGG;AACH,wBAAsB,uCAAuC,CAC3D,MAAM,EAAE,SAAS,GAChB,OAAO,CAAC,IAAI,CAAC,CAmFf"}

package/dist/mcp-server/tools/getPubMedArticleConnections/registration.js

@@ -70,3 +70,4 @@ export async function registerGetPubMedArticleConnectionsTool(server) {
         critical: true,
     });
 }
+//# sourceMappingURL=registration.js.map