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<!doctype html> <html lang="en"> <head> <title>Code coverage report for src/mcp-server/tools/definitions/clinicaltrials-get-study.tool.ts</title> <meta charset="utf-8" /> <link rel="stylesheet" href="../../../../prettify.css" /> <link rel="stylesheet" href="../../../../base.css" /> <link rel="shortcut icon" type="image/x-icon" href="../../../../favicon.png" /> <meta name="viewport" content="width=device-width, initial-scale=1" /> <style type='text/css'> .coverage-summary .sorter { background-image: url(../../../../sort-arrow-sprite.png); } </style> </head> <body> <div class='wrapper'> <div class='pad1'> <h1><a href="../../../../index.html">All files</a> / <a href="index.html">src/mcp-server/tools/definitions</a> clinicaltrials-get-study.tool.ts</h1> <div class='clearfix'> <div class='fl pad1y space-right2'> 99.44% Statements 179/180 </div> <div class='fl pad1y space-right2'> 94.44% Branches 17/18 </div> <div class='fl pad1y space-right2'> 100% Functions 3/3 </div> <div class='fl pad1y space-right2'> 99.44% Lines 179/180 </div> </div> Press n or j to go to the next uncovered block, b, p or k for the previous block. <template id="filterTemplate"> <div class="quiet"> Filter: <input type="search" id="fileSearch"> </div> </template> </div> <div class='status-line high'></div> <pre><table class="coverage"> <tr><td class="line-count quiet"><a name='L1'></a><a href='#L1'>1</a> <a name='L2'></a><a href='#L2'>2</a> <a name='L3'></a><a href='#L3'>3</a> <a name='L4'></a><a href='#L4'>4</a> <a name='L5'></a><a href='#L5'>5</a> <a name='L6'></a><a href='#L6'>6</a> <a name='L7'></a><a href='#L7'>7</a> <a name='L8'></a><a href='#L8'>8</a> <a name='L9'></a><a href='#L9'>9</a> <a name='L10'></a><a href='#L10'>10</a> <a name='L11'></a><a href='#L11'>11</a> <a name='L12'></a><a href='#L12'>12</a> <a name='L13'></a><a href='#L13'>13</a> <a name='L14'></a><a href='#L14'>14</a> <a name='L15'></a><a href='#L15'>15</a> <a name='L16'></a><a href='#L16'>16</a> <a name='L17'></a><a 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5x 1x 1x 1x 1x 1x 1x   4x 5x 1x 1x   4x 4x           1x 1x 1x 1x 1x 1x 1x 1x         1x     1x 1x 1x 1x 1x 1x 1x 1x 1x 1x  </td><td class="text"><pre class="prettyprint lang-js">/** * @fileoverview Complete, declarative definition for the 'clinicaltrials_get_study' tool. * Fetches one or more clinical studies from ClinicalTrials.gov by their NCT IDs. * * @module src/mcp-server/tools/definitions/clinicaltrials-get-study.tool */   import type { ContentBlock } from '@modelcontextprotocol/sdk/types.js'; import { container } from 'tsyringe'; import { z } from 'zod';   import { ClinicalTrialsProvider } from '@/container/tokens.js'; import type { SdkContext, ToolAnnotations, ToolDefinition, } from '@/mcp-server/tools/utils/toolDefinition.js'; import { withToolAuth } from '@/mcp-server/transports/auth/lib/withAuth.js'; import type { IClinicalTrialsProvider } from '@/services/clinical-trials-gov/core/IClinicalTrialsProvider.js'; import { StudySchema, type Study, } from '@/services/clinical-trials-gov/types.js'; import { JsonRpcErrorCode, McpError } from '@/types-global/errors.js'; import { logger, type RequestContext } from '@/utils/index.js';   /** --------------------------------------------------------- */ /** Programmatic tool name (must be unique). */ const TOOL_NAME = 'clinicaltrials_get_study'; /** --------------------------------------------------------- */   /** Human-readable title used by UIs. */ const TOOL_TITLE = 'Get Clinical Study'; /** --------------------------------------------------------- */   /** * LLM-facing description of the tool. */ const TOOL_DESCRIPTION = 'Fetches one or more clinical trial studies from ClinicalTrials.gov by their NCT ID(s). Returns full study data or concise summaries.'; /** --------------------------------------------------------- */   /** UI/behavior hints for clients. */ const TOOL_ANNOTATIONS: ToolAnnotations = { readOnlyHint: true, idempotentHint: true, openWorldHint: true, // Accesses external ClinicalTrials.gov API }; /** --------------------------------------------------------- */   // // Schemas (input and output) // --------------------------   /** * Zod schema for a summarized study, containing only essential fields for a concise overview. */ const StudySummarySchema = z .object({ nctId: z.string().optional().describe('The NCT identifier of the study.'), title: z.string().optional().describe('The official title of the study.'), briefSummary: z .string() .optional() .describe('A brief summary of the study purpose.'), overallStatus: z .string() .optional() .describe('The current recruitment status of the study.'), conditions: z .array(z.string()) .optional() .describe('List of medical conditions being studied.'), interventions: z .array( z.object({ name: z.string().optional().describe('Name of the intervention.'), type: z.string().optional().describe('Type of intervention.'), }), ) .optional() .describe('List of interventions being tested.'), leadSponsor: z .string() .optional() .describe('The lead sponsor organization.'), }) .passthrough() .describe('Concise summary of a clinical trial study.');   const InputSchema = z .object({ nctIds: z .union([ z .string() .regex(/^[Nn][Cc][Tt]\d{8}$/, 'NCT ID must be 8 digits') .describe('A single NCT ID (e.g., "NCT12345678").'), z .array( z.string().regex(/^[Nn][Cc][Tt]\d{8}$/, 'NCT ID must be 8 digits'), ) .min(1, 'At least one NCT ID is required.') .max(5, 'Maximum 5 NCT IDs allowed per request.') .describe('An array of up to 5 NCT IDs.'), ]) .describe( 'A single NCT ID (e.g., "NCT12345678") or an array of up to 5 NCT IDs to fetch.', ), summaryOnly: z .boolean() .default(false) .describe( 'If true, returns concise summaries. If false (default), returns full study data.', ), }) .describe('Input parameters for fetching clinical trial studies.');   const OutputSchema = z .object({ studies: z .array(z.union([StudySchema, StudySummarySchema])) .describe('Array of full study data or summaries.'), errors: z .array( z.object({ nctId: z.string().describe('The NCT ID that failed.'), error: z.string().describe('Error message for this NCT ID.'), }), ) .optional() .describe('List of errors encountered for specific NCT IDs.'), }) .describe('Response containing study data and any errors.');   type GetStudyInput = z.infer<typeof InputSchema>; type StudySummary = z.infer<typeof StudySummarySchema>; type GetStudyOutput = z.infer<typeof OutputSchema>;   // // Pure business logic (no try/catch; throw McpError on failure) // -------------------------------------------------------------   /** * Extracts a concise summary from a full study object. */ function createStudySummary(study: Study): StudySummary { return { nctId: study.protocolSection?.identificationModule?.nctId, title: study.protocolSection?.identificationModule?.officialTitle, briefSummary: study.protocolSection?.descriptionModule?.briefSummary, overallStatus: study.protocolSection?.statusModule?.overallStatus, conditions: study.protocolSection?.conditionsModule?.conditions, interventions: study.protocolSection?.armsInterventionsModule?.interventions?.map( (i) => ({ name: i.name, type: i.type, }), ), leadSponsor: study.protocolSection?.sponsorCollaboratorsModule?.leadSponsor?.name, }; }   /** * Fetches one or more clinical studies from ClinicalTrials.gov by their NCT IDs. */ async function getStudyLogic( input: GetStudyInput, appContext: RequestContext, _sdkContext: SdkContext, ): Promise<GetStudyOutput> { const nctIds = Array.isArray(input.nctIds) ? input.nctIds : [input.nctIds];   logger.debug(`Executing getStudyLogic for NCT IDs: ${nctIds.join(', ')}`, { ...appContext, toolInput: input, });   const provider = container.resolve<IClinicalTrialsProvider>( ClinicalTrialsProvider, );   const studies: (Study | StudySummary)[] = []; const errors: { nctId: string; error: string }[] = [];   const studyPromises = nctIds.map(async (nctId) => { try { const study = await provider.fetchStudy(nctId, appContext);   logger.info(`Successfully fetched study ${nctId}`, { ...appContext });   if (input.summaryOnly) { logger.debug(`Creating summary for study ${nctId}`, { ...appContext }); studies.push(createStudySummary(study)); } else { studies.push(study); } } catch (error) { const errorMessage = error instanceof McpError ? error.message : 'An unexpected error occurred'; logger.warning(`Failed to fetch study ${nctId}: ${errorMessage}`, { ...appContext, nctId, error, }); errors.push({ nctId, error: errorMessage }); } });   await Promise.all(studyPromises);   // If all studies failed, throw an error if (studies.length === 0 && errors.length > 0) { throw new McpError( JsonRpcErrorCode.ServiceUnavailable, `Failed to fetch any studies. Errors: ${errors.map((e) => `${e.nctId}: ${e.error}`).join('; ')}`, { errors }, ); }   const result: GetStudyOutput = { studies }; if (errors.length > 0) { result.errors = errors; }   return result; }   /** * Formats the full tool output as a JSON string for the LLM. * The LLM requires the complete data, not just a human-readable summary. */ function responseFormatter(result: GetStudyOutput): ContentBlock[] { return [ { type: 'text', text: JSON.stringify(result, null, 2), }, ]; }   /** * The complete tool definition for fetching clinical trial studies. */ export const getStudyTool: ToolDefinition< typeof InputSchema, typeof OutputSchema > = { name: TOOL_NAME, title: TOOL_TITLE, description: TOOL_DESCRIPTION, inputSchema: InputSchema, outputSchema: OutputSchema, annotations: TOOL_ANNOTATIONS, logic: withToolAuth(['tool:clinicaltrials:read'], getStudyLogic), responseFormatter, };  </pre></td></tr></table></pre> <div class='push'></div> </div> <div class='footer quiet pad2 space-top1 center small'> Code coverage generated by <a href="https://istanbul.js.org/" target="_blank" rel="noopener noreferrer">istanbul</a> at 2025-10-15T17:09:47.939Z </div> <script src="../../../../prettify.js"></script> <script> window.onload = function () { prettyPrint(); }; </script> <script src="../../../../sorter.js"></script> <script src="../../../../block-navigation.js"></script> </body> </html>

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