Medical Research MCP Suite

#!/usr/bin/env node // Debug script to test PubMed API calls directly import axios from 'axios'; async function debugPubMed() { console.log('🔍 Debugging PubMed API...'); const baseURL = 'https://eutils.ncbi.nlm.nih.gov/entrez/eutils'; try { // Step 1: Test search (esearch) console.log('\n📡 Step 1: Testing esearch...'); const searchParams = new URLSearchParams(); searchParams.append('term', 'diabetes'); searchParams.append('db', 'pubmed'); searchParams.append('retmode', 'json'); searchParams.append('retmax', '3'); const searchResponse = await axios.get(`${baseURL}/esearch.fcgi`, { params: searchParams, }); console.log('Search response status:', searchResponse.status); console.log('Search data keys:', Object.keys(searchResponse.data)); if (searchResponse.data.esearchresult) { const result = searchResponse.data.esearchresult; console.log('Total count:', result.count); console.log('PMIDs found:', result.idlist?.length || 0); console.log('Sample PMIDs:', result.idlist?.slice(0, 3)); if (result.idlist && result.idlist.length > 0) { // Step 2: Test fetch (efetch) console.log('\n📚 Step 2: Testing efetch...'); const pmids = result.idlist.slice(0, 2); // Test with first 2 PMIDs const fetchParams = new URLSearchParams(); fetchParams.append('db', 'pubmed'); fetchParams.append('id', pmids.join(',')); fetchParams.append('retmode', 'json'); fetchParams.append('rettype', 'abstract'); const fetchResponse = await axios.get(`${baseURL}/efetch.fcgi`, { params: fetchParams, }); console.log('Fetch response status:', fetchResponse.status); console.log('Fetch data keys:', Object.keys(fetchResponse.data)); console.log('Response data type:', typeof fetchResponse.data); // Check if it's XML instead of JSON if (typeof fetchResponse.data === 'string') { console.log('❌ Response is XML string, not JSON!'); console.log('Sample XML:', fetchResponse.data.substring(0, 200) + '...'); } else { console.log('✅ Response is JSON'); if (fetchResponse.data.PubmedArticleSet) { console.log('PubmedArticleSet found'); console.log('Articles count:', fetchResponse.data.PubmedArticleSet.PubmedArticle?.length || 0); } else { console.log('❌ No PubmedArticleSet found'); console.log('Available keys:', Object.keys(fetchResponse.data)); } } } } } catch (error) { console.error('❌ Error:', error.message); if (error.response) { console.error('Response status:', error.response.status); console.error('Response data preview:', typeof error.response.data === 'string' ? error.response.data.substring(0, 200) + '...' : error.response.data ); } } } debugPubMed().catch(console.error);