heor-agent-mcp 0.1.6 → 0.2.0
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/dist/analytics.d.ts +5 -0
- package/dist/analytics.d.ts.map +1 -0
- package/dist/analytics.js +46 -0
- package/dist/analytics.js.map +1 -0
- package/dist/formatters/networkMarkdown.d.ts +3 -0
- package/dist/formatters/networkMarkdown.d.ts.map +1 -0
- package/dist/formatters/networkMarkdown.js +74 -0
- package/dist/formatters/networkMarkdown.js.map +1 -0
- package/dist/network/builder.d.ts +3 -0
- package/dist/network/builder.d.ts.map +1 -0
- package/dist/network/builder.js +155 -0
- package/dist/network/builder.js.map +1 -0
- package/dist/network/extractor.d.ts +5 -0
- package/dist/network/extractor.d.ts.map +1 -0
- package/dist/network/extractor.js +149 -0
- package/dist/network/extractor.js.map +1 -0
- package/dist/network/index.d.ts +4 -0
- package/dist/network/index.d.ts.map +1 -0
- package/dist/network/index.js +3 -0
- package/dist/network/index.js.map +1 -0
- package/dist/network/types.d.ts +42 -0
- package/dist/network/types.d.ts.map +1 -0
- package/dist/network/types.js +2 -0
- package/dist/network/types.js.map +1 -0
- package/dist/server.js +35 -5
- package/dist/server.js.map +1 -1
- package/dist/tools/evidenceNetwork.d.ts +54 -0
- package/dist/tools/evidenceNetwork.d.ts.map +1 -0
- package/dist/tools/evidenceNetwork.js +81 -0
- package/dist/tools/evidenceNetwork.js.map +1 -0
- package/package.json +2 -1
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export declare function trackEvent(event: string, properties?: Record<string, unknown>, sessionId?: string): void;
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export declare function trackToolCall(toolName: string, durationMs: number, status: "ok" | "error", sessionId?: string, properties?: Record<string, unknown>): void;
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export declare function trackSession(event: "session_start" | "session_end", sessionId: string, properties?: Record<string, unknown>): void;
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export declare function shutdownAnalytics(): Promise<void>;
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//# sourceMappingURL=analytics.d.ts.map
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{"version":3,"file":"analytics.d.ts","sourceRoot":"","sources":["../src/analytics.ts"],"names":[],"mappings":"AAgBA,wBAAgB,UAAU,CACxB,KAAK,EAAE,MAAM,EACb,UAAU,GAAE,MAAM,CAAC,MAAM,EAAE,OAAO,CAAM,EACxC,SAAS,CAAC,EAAE,MAAM,QAanB;AAED,wBAAgB,aAAa,CAC3B,QAAQ,EAAE,MAAM,EAChB,UAAU,EAAE,MAAM,EAClB,MAAM,EAAE,IAAI,GAAG,OAAO,EACtB,SAAS,CAAC,EAAE,MAAM,EAClB,UAAU,GAAE,MAAM,CAAC,MAAM,EAAE,OAAO,CAAM,QAQzC;AAED,wBAAgB,YAAY,CAC1B,KAAK,EAAE,eAAe,GAAG,aAAa,EACtC,SAAS,EAAE,MAAM,EACjB,UAAU,GAAE,MAAM,CAAC,MAAM,EAAE,OAAO,CAAM,QAGzC;AAED,wBAAsB,iBAAiB,kBAKtC"}
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import { PostHog } from "posthog-node";
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let client = null;
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function getClient() {
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if (client)
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return client;
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const key = process.env.POSTHOG_API_KEY;
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if (!key)
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return null;
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client = new PostHog(key, {
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host: "https://us.i.posthog.com",
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flushAt: 5,
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flushInterval: 10000,
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});
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return client;
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}
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export function trackEvent(event, properties = {}, sessionId) {
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const ph = getClient();
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if (!ph)
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return;
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ph.capture({
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distinctId: sessionId ?? "anonymous",
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event,
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properties: {
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server_version: process.env.npm_package_version ?? "unknown",
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...properties,
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},
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});
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}
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export function trackToolCall(toolName, durationMs, status, sessionId, properties = {}) {
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trackEvent("tool_call", {
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tool_name: toolName,
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duration_ms: durationMs,
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status,
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...properties,
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}, sessionId);
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}
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export function trackSession(event, sessionId, properties = {}) {
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trackEvent(event, properties, sessionId);
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}
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export async function shutdownAnalytics() {
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if (client) {
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await client.shutdown();
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client = null;
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}
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}
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//# sourceMappingURL=analytics.js.map
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{"version":3,"file":"analytics.js","sourceRoot":"","sources":["../src/analytics.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,OAAO,EAAE,MAAM,cAAc,CAAC;AAEvC,IAAI,MAAM,GAAmB,IAAI,CAAC;AAElC,SAAS,SAAS;IAChB,IAAI,MAAM;QAAE,OAAO,MAAM,CAAC;IAC1B,MAAM,GAAG,GAAG,OAAO,CAAC,GAAG,CAAC,eAAe,CAAC;IACxC,IAAI,CAAC,GAAG;QAAE,OAAO,IAAI,CAAC;IACtB,MAAM,GAAG,IAAI,OAAO,CAAC,GAAG,EAAE;QACxB,IAAI,EAAE,0BAA0B;QAChC,OAAO,EAAE,CAAC;QACV,aAAa,EAAE,KAAK;KACrB,CAAC,CAAC;IACH,OAAO,MAAM,CAAC;AAChB,CAAC;AAED,MAAM,UAAU,UAAU,CACxB,KAAa,EACb,aAAsC,EAAE,EACxC,SAAkB;IAElB,MAAM,EAAE,GAAG,SAAS,EAAE,CAAC;IACvB,IAAI,CAAC,EAAE;QAAE,OAAO;IAEhB,EAAE,CAAC,OAAO,CAAC;QACT,UAAU,EAAE,SAAS,IAAI,WAAW;QACpC,KAAK;QACL,UAAU,EAAE;YACV,cAAc,EAAE,OAAO,CAAC,GAAG,CAAC,mBAAmB,IAAI,SAAS;YAC5D,GAAG,UAAU;SACd;KACF,CAAC,CAAC;AACL,CAAC;AAED,MAAM,UAAU,aAAa,CAC3B,QAAgB,EAChB,UAAkB,EAClB,MAAsB,EACtB,SAAkB,EAClB,aAAsC,EAAE;IAExC,UAAU,CAAC,WAAW,EAAE;QACtB,SAAS,EAAE,QAAQ;QACnB,WAAW,EAAE,UAAU;QACvB,MAAM;QACN,GAAG,UAAU;KACd,EAAE,SAAS,CAAC,CAAC;AAChB,CAAC;AAED,MAAM,UAAU,YAAY,CAC1B,KAAsC,EACtC,SAAiB,EACjB,aAAsC,EAAE;IAExC,UAAU,CAAC,KAAK,EAAE,UAAU,EAAE,SAAS,CAAC,CAAC;AAC3C,CAAC;AAED,MAAM,CAAC,KAAK,UAAU,iBAAiB;IACrC,IAAI,MAAM,EAAE,CAAC;QACX,MAAM,MAAM,CAAC,QAAQ,EAAE,CAAC;QACxB,MAAM,GAAG,IAAI,CAAC;IAChB,CAAC;AACH,CAAC"}
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{"version":3,"file":"networkMarkdown.d.ts","sourceRoot":"","sources":["../../src/formatters/networkMarkdown.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,eAAe,EAAE,MAAM,qBAAqB,CAAC;AAE3D,wBAAgB,iBAAiB,CAAC,OAAO,EAAE,eAAe,GAAG,MAAM,CA8FlE"}
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export function networkToMarkdown(network) {
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const lines = [];
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lines.push("## Evidence Network Analysis");
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lines.push("");
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// Summary
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const { feasibility } = network;
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const verdict = feasibility.feasible ? "**Feasible**" : "**Not feasible**";
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lines.push(`**NMA Feasibility:** ${verdict}`);
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lines.push(`**Treatments:** ${feasibility.nodeCount} | **Comparisons:** ${feasibility.edgeCount} | **Connected:** ${feasibility.connected ? "Yes" : "No"}`);
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lines.push("");
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// Reasons
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lines.push("### Assessment");
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for (const reason of feasibility.reasons) {
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const icon = reason.includes("not") || reason.includes("Only") || reason.includes("disconnected")
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? "⚠️"
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: "✓";
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lines.push(`- ${icon} ${reason}`);
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}
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lines.push("");
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// Network graph (text)
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if (network.edges.length > 0) {
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lines.push("### Evidence Network");
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lines.push("| Comparison | Trials | Study Types | Confidence |");
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lines.push("|------------|--------|-------------|------------|");
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for (const edge of network.edges) {
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const sourceNode = network.nodes.find((n) => n.id === edge.source);
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const targetNode = network.nodes.find((n) => n.id === edge.target);
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const source = sourceNode?.label ?? edge.source;
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const target = targetNode?.label ?? edge.target;
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const types = [...new Set(edge.studyTypes)].join(", ");
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lines.push(`| ${source} ↔ ${target} | ${edge.trials.length} | ${types} | ${edge.confidence} |`);
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}
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lines.push("");
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}
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// Nodes
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if (network.nodes.length > 0) {
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lines.push("### Treatments Identified");
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lines.push("| Treatment | Role |");
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lines.push("|-----------|------|");
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for (const node of network.nodes) {
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lines.push(`| ${node.label} | ${node.type} |`);
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}
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lines.push("");
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}
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// Components (if disconnected)
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if (feasibility.componentCount > 1) {
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lines.push("### Disconnected Components");
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for (let i = 0; i < feasibility.components.length; i++) {
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lines.push(`- **Component ${i + 1}:** ${feasibility.components[i].join(", ")}`);
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}
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lines.push("");
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}
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// Gaps
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if (feasibility.gaps.length > 0) {
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lines.push("### Evidence Gaps");
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for (const gap of feasibility.gaps) {
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lines.push(`- ⚠️ ${gap.description}`);
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}
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lines.push("");
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}
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// Recommendation
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lines.push("### Recommendation");
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if (feasibility.feasible) {
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lines.push("The evidence network is connected with sufficient comparisons to support a network meta-analysis. " +
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"Consider Bayesian NMA (R/Stan or WinBUGS) with assessment of heterogeneity and inconsistency.");
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}
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else {
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lines.push("The evidence network does not currently support a valid NMA. " +
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"Consider: expanding the literature search, including indirect comparators, " +
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"or using pairwise meta-analysis for available direct comparisons.");
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}
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return lines.join("\n");
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}
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//# sourceMappingURL=networkMarkdown.js.map
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{"version":3,"file":"networkMarkdown.js","sourceRoot":"","sources":["../../src/formatters/networkMarkdown.ts"],"names":[],"mappings":"AAEA,MAAM,UAAU,iBAAiB,CAAC,OAAwB;IACxD,MAAM,KAAK,GAAa,EAAE,CAAC;IAE3B,KAAK,CAAC,IAAI,CAAC,8BAA8B,CAAC,CAAC;IAC3C,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;IAEf,UAAU;IACV,MAAM,EAAE,WAAW,EAAE,GAAG,OAAO,CAAC;IAChC,MAAM,OAAO,GAAG,WAAW,CAAC,QAAQ,CAAC,CAAC,CAAC,cAAc,CAAC,CAAC,CAAC,kBAAkB,CAAC;IAC3E,KAAK,CAAC,IAAI,CAAC,wBAAwB,OAAO,EAAE,CAAC,CAAC;IAC9C,KAAK,CAAC,IAAI,CACR,mBAAmB,WAAW,CAAC,SAAS,uBAAuB,WAAW,CAAC,SAAS,qBAAqB,WAAW,CAAC,SAAS,CAAC,CAAC,CAAC,KAAK,CAAC,CAAC,CAAC,IAAI,EAAE,CAChJ,CAAC;IACF,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;IAEf,UAAU;IACV,KAAK,CAAC,IAAI,CAAC,gBAAgB,CAAC,CAAC;IAC7B,KAAK,MAAM,MAAM,IAAI,WAAW,CAAC,OAAO,EAAE,CAAC;QACzC,MAAM,IAAI,GAAG,MAAM,CAAC,QAAQ,CAAC,KAAK,CAAC,IAAI,MAAM,CAAC,QAAQ,CAAC,MAAM,CAAC,IAAI,MAAM,CAAC,QAAQ,CAAC,cAAc,CAAC;YAC/F,CAAC,CAAC,IAAI;YACN,CAAC,CAAC,GAAG,CAAC;QACR,KAAK,CAAC,IAAI,CAAC,KAAK,IAAI,IAAI,MAAM,EAAE,CAAC,CAAC;IACpC,CAAC;IACD,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;IAEf,uBAAuB;IACvB,IAAI,OAAO,CAAC,KAAK,CAAC,MAAM,GAAG,CAAC,EAAE,CAAC;QAC7B,KAAK,CAAC,IAAI,CAAC,sBAAsB,CAAC,CAAC;QACnC,KAAK,CAAC,IAAI,CACR,oDAAoD,CACrD,CAAC;QACF,KAAK,CAAC,IAAI,CACR,oDAAoD,CACrD,CAAC;QACF,KAAK,MAAM,IAAI,IAAI,OAAO,CAAC,KAAK,EAAE,CAAC;YACjC,MAAM,UAAU,GAAG,OAAO,CAAC,KAAK,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,EAAE,KAAK,IAAI,CAAC,MAAM,CAAC,CAAC;YACnE,MAAM,UAAU,GAAG,OAAO,CAAC,KAAK,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,EAAE,KAAK,IAAI,CAAC,MAAM,CAAC,CAAC;YACnE,MAAM,MAAM,GAAG,UAAU,EAAE,KAAK,IAAI,IAAI,CAAC,MAAM,CAAC;YAChD,MAAM,MAAM,GAAG,UAAU,EAAE,KAAK,IAAI,IAAI,CAAC,MAAM,CAAC;YAChD,MAAM,KAAK,GAAG,CAAC,GAAG,IAAI,GAAG,CAAC,IAAI,CAAC,UAAU,CAAC,CAAC,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC;YACvD,KAAK,CAAC,IAAI,CACR,KAAK,MAAM,MAAM,MAAM,MAAM,IAAI,CAAC,MAAM,CAAC,MAAM,MAAM,KAAK,MAAM,IAAI,CAAC,UAAU,IAAI,CACpF,CAAC;QACJ,CAAC;QACD,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;IACjB,CAAC;IAED,QAAQ;IACR,IAAI,OAAO,CAAC,KAAK,CAAC,MAAM,GAAG,CAAC,EAAE,CAAC;QAC7B,KAAK,CAAC,IAAI,CAAC,2BAA2B,CAAC,CAAC;QACxC,KAAK,CAAC,IAAI,CAAC,sBAAsB,CAAC,CAAC;QACnC,KAAK,CAAC,IAAI,CAAC,sBAAsB,CAAC,CAAC;QACnC,KAAK,MAAM,IAAI,IAAI,OAAO,CAAC,KAAK,EAAE,CAAC;YACjC,KAAK,CAAC,IAAI,CAAC,KAAK,IAAI,CAAC,KAAK,MAAM,IAAI,CAAC,IAAI,IAAI,CAAC,CAAC;QACjD,CAAC;QACD,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;IACjB,CAAC;IAED,+BAA+B;IAC/B,IAAI,WAAW,CAAC,cAAc,GAAG,CAAC,EAAE,CAAC;QACnC,KAAK,CAAC,IAAI,CAAC,6BAA6B,CAAC,CAAC;QAC1C,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,WAAW,CAAC,UAAU,CAAC,MAAM,EAAE,CAAC,EAAE,EAAE,CAAC;YACvD,KAAK,CAAC,IAAI,CACR,iBAAiB,CAAC,GAAG,CAAC,OAAO,WAAW,CAAC,UAAU,CAAC,CAAC,CAAC,CAAC,IAAI,CAAC,IAAI,CAAC,EAAE,CACpE,CAAC;QACJ,CAAC;QACD,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;IACjB,CAAC;IAED,OAAO;IACP,IAAI,WAAW,CAAC,IAAI,CAAC,MAAM,GAAG,CAAC,EAAE,CAAC;QAChC,KAAK,CAAC,IAAI,CAAC,mBAAmB,CAAC,CAAC;QAChC,KAAK,MAAM,GAAG,IAAI,WAAW,CAAC,IAAI,EAAE,CAAC;YACnC,KAAK,CAAC,IAAI,CAAC,QAAQ,GAAG,CAAC,WAAW,EAAE,CAAC,CAAC;QACxC,CAAC;QACD,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;IACjB,CAAC;IAED,iBAAiB;IACjB,KAAK,CAAC,IAAI,CAAC,oBAAoB,CAAC,CAAC;IACjC,IAAI,WAAW,CAAC,QAAQ,EAAE,CAAC;QACzB,KAAK,CAAC,IAAI,CACR,oGAAoG;YAClG,+FAA+F,CAClG,CAAC;IACJ,CAAC;SAAM,CAAC;QACN,KAAK,CAAC,IAAI,CACR,+DAA+D;YAC7D,6EAA6E;YAC7E,mEAAmE,CACtE,CAAC;IACJ,CAAC;IAED,OAAO,KAAK,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC;AAC1B,CAAC"}
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{"version":3,"file":"builder.d.ts","sourceRoot":"","sources":["../../src/network/builder.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAGV,eAAe,EAGf,cAAc,EACf,MAAM,YAAY,CAAC;AAmCpB,wBAAgB,oBAAoB,CAAC,KAAK,EAAE,cAAc,EAAE,GAAG,eAAe,CAoJ7E"}
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import { normalizeDrugName } from "./extractor.js";
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// Union-Find for connected components
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class UnionFind {
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parent = new Map();
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find(x) {
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if (!this.parent.has(x))
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this.parent.set(x, x);
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const p = this.parent.get(x);
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if (p !== x) {
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const root = this.find(p);
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this.parent.set(x, root);
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return root;
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}
|
|
14
|
+
return x;
|
|
15
|
+
}
|
|
16
|
+
union(a, b) {
|
|
17
|
+
const ra = this.find(a);
|
|
18
|
+
const rb = this.find(b);
|
|
19
|
+
if (ra !== rb)
|
|
20
|
+
this.parent.set(ra, rb);
|
|
21
|
+
}
|
|
22
|
+
components() {
|
|
23
|
+
const groups = new Map();
|
|
24
|
+
for (const key of this.parent.keys()) {
|
|
25
|
+
const root = this.find(key);
|
|
26
|
+
if (!groups.has(root))
|
|
27
|
+
groups.set(root, []);
|
|
28
|
+
groups.get(root).push(key);
|
|
29
|
+
}
|
|
30
|
+
return groups;
|
|
31
|
+
}
|
|
32
|
+
}
|
|
33
|
+
export function buildEvidenceNetwork(pairs) {
|
|
34
|
+
// Build nodes
|
|
35
|
+
const nodeMap = new Map();
|
|
36
|
+
const edgeMap = new Map();
|
|
37
|
+
for (const pair of pairs) {
|
|
38
|
+
const intId = normalizeDrugName(pair.intervention);
|
|
39
|
+
const compId = normalizeDrugName(pair.comparator);
|
|
40
|
+
if (!nodeMap.has(intId)) {
|
|
41
|
+
nodeMap.set(intId, {
|
|
42
|
+
id: intId,
|
|
43
|
+
label: pair.intervention,
|
|
44
|
+
type: "intervention",
|
|
45
|
+
});
|
|
46
|
+
}
|
|
47
|
+
if (!nodeMap.has(compId)) {
|
|
48
|
+
nodeMap.set(compId, {
|
|
49
|
+
id: compId,
|
|
50
|
+
label: pair.comparator,
|
|
51
|
+
type: "comparator",
|
|
52
|
+
});
|
|
53
|
+
}
|
|
54
|
+
// Edge key is sorted to avoid duplicates (A→B = B→A)
|
|
55
|
+
const edgeKey = [intId, compId].sort().join("↔");
|
|
56
|
+
if (!edgeMap.has(edgeKey)) {
|
|
57
|
+
edgeMap.set(edgeKey, {
|
|
58
|
+
source: intId,
|
|
59
|
+
target: compId,
|
|
60
|
+
trials: [],
|
|
61
|
+
studyTypes: [],
|
|
62
|
+
direct: true,
|
|
63
|
+
confidence: pair.confidence,
|
|
64
|
+
});
|
|
65
|
+
}
|
|
66
|
+
const edge = edgeMap.get(edgeKey);
|
|
67
|
+
if (!edge.trials.includes(pair.trialId)) {
|
|
68
|
+
edge.trials.push(pair.trialId);
|
|
69
|
+
edge.studyTypes.push(pair.studyType);
|
|
70
|
+
}
|
|
71
|
+
// Upgrade confidence if higher
|
|
72
|
+
if (pair.confidence === "high" ||
|
|
73
|
+
(pair.confidence === "medium" && edge.confidence === "low")) {
|
|
74
|
+
edge.confidence = pair.confidence;
|
|
75
|
+
}
|
|
76
|
+
}
|
|
77
|
+
const nodes = Array.from(nodeMap.values());
|
|
78
|
+
const edges = Array.from(edgeMap.values());
|
|
79
|
+
// Connectivity analysis
|
|
80
|
+
const uf = new UnionFind();
|
|
81
|
+
for (const node of nodes) {
|
|
82
|
+
uf.find(node.id); // register
|
|
83
|
+
}
|
|
84
|
+
for (const edge of edges) {
|
|
85
|
+
uf.union(edge.source, edge.target);
|
|
86
|
+
}
|
|
87
|
+
const componentMap = uf.components();
|
|
88
|
+
const components = Array.from(componentMap.values()).filter((c) => c.length > 0);
|
|
89
|
+
const connected = components.length === 1;
|
|
90
|
+
// Find gaps: pairs of nodes in different components
|
|
91
|
+
const gaps = [];
|
|
92
|
+
if (!connected && components.length >= 2) {
|
|
93
|
+
for (let i = 0; i < components.length - 1; i++) {
|
|
94
|
+
for (let j = i + 1; j < components.length; j++) {
|
|
95
|
+
const nodeA = nodeMap.get(components[i][0]);
|
|
96
|
+
const nodeB = nodeMap.get(components[j][0]);
|
|
97
|
+
if (nodeA && nodeB) {
|
|
98
|
+
gaps.push({
|
|
99
|
+
from: nodeA.label,
|
|
100
|
+
to: nodeB.label,
|
|
101
|
+
description: `No direct or indirect evidence path between "${nodeA.label}" network and "${nodeB.label}" network`,
|
|
102
|
+
});
|
|
103
|
+
}
|
|
104
|
+
}
|
|
105
|
+
}
|
|
106
|
+
}
|
|
107
|
+
const minTrialsPerEdge = edges.length > 0 ? Math.min(...edges.map((e) => e.trials.length)) : 0;
|
|
108
|
+
// Feasibility assessment
|
|
109
|
+
const reasons = [];
|
|
110
|
+
let feasible = true;
|
|
111
|
+
if (nodes.length < 3) {
|
|
112
|
+
reasons.push(`Only ${nodes.length} treatments identified — NMA requires at least 3`);
|
|
113
|
+
feasible = false;
|
|
114
|
+
}
|
|
115
|
+
else {
|
|
116
|
+
reasons.push(`${nodes.length} treatments identified`);
|
|
117
|
+
}
|
|
118
|
+
if (!connected) {
|
|
119
|
+
reasons.push(`Network is disconnected (${components.length} components) — NMA requires a connected network`);
|
|
120
|
+
feasible = false;
|
|
121
|
+
}
|
|
122
|
+
else {
|
|
123
|
+
reasons.push("Network is fully connected");
|
|
124
|
+
}
|
|
125
|
+
if (minTrialsPerEdge < 1) {
|
|
126
|
+
reasons.push("Some comparisons have no supporting trials");
|
|
127
|
+
feasible = false;
|
|
128
|
+
}
|
|
129
|
+
else if (minTrialsPerEdge < 2) {
|
|
130
|
+
reasons.push("Some comparisons have only 1 trial — consider heterogeneity carefully");
|
|
131
|
+
}
|
|
132
|
+
else {
|
|
133
|
+
reasons.push(`All comparisons supported by ≥${minTrialsPerEdge} trials`);
|
|
134
|
+
}
|
|
135
|
+
if (edges.length < 2) {
|
|
136
|
+
reasons.push(`Only ${edges.length} comparison(s) found — NMA adds value with ≥3 comparisons`);
|
|
137
|
+
feasible = false;
|
|
138
|
+
}
|
|
139
|
+
else {
|
|
140
|
+
reasons.push(`${edges.length} direct comparisons found`);
|
|
141
|
+
}
|
|
142
|
+
const feasibility = {
|
|
143
|
+
feasible,
|
|
144
|
+
reasons,
|
|
145
|
+
nodeCount: nodes.length,
|
|
146
|
+
edgeCount: edges.length,
|
|
147
|
+
connected,
|
|
148
|
+
componentCount: components.length,
|
|
149
|
+
components: components.map((c) => c.map((id) => nodeMap.get(id)?.label ?? id)),
|
|
150
|
+
minTrialsPerEdge,
|
|
151
|
+
gaps,
|
|
152
|
+
};
|
|
153
|
+
return { nodes, edges, feasibility };
|
|
154
|
+
}
|
|
155
|
+
//# sourceMappingURL=builder.js.map
|
|
@@ -0,0 +1 @@
|
|
|
1
|
+
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|
|
@@ -0,0 +1,5 @@
|
|
|
1
|
+
import type { LiteratureResult } from "../providers/types.js";
|
|
2
|
+
import type { ComparatorPair } from "./types.js";
|
|
3
|
+
export declare function normalizeDrugName(name: string): string;
|
|
4
|
+
export declare function extractComparatorPairs(results: LiteratureResult[]): ComparatorPair[];
|
|
5
|
+
//# sourceMappingURL=extractor.d.ts.map
|
|
@@ -0,0 +1 @@
|
|
|
1
|
+
{"version":3,"file":"extractor.d.ts","sourceRoot":"","sources":["../../src/network/extractor.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,gBAAgB,EAAE,MAAM,uBAAuB,CAAC;AAC9D,OAAO,KAAK,EAAE,cAAc,EAAE,MAAM,YAAY,CAAC;AAqGjD,wBAAgB,iBAAiB,CAAC,IAAI,EAAE,MAAM,GAAG,MAAM,CAKtD;AAyCD,wBAAgB,sBAAsB,CACpC,OAAO,EAAE,gBAAgB,EAAE,GAC1B,cAAc,EAAE,CAsClB"}
|
|
@@ -0,0 +1,149 @@
|
|
|
1
|
+
// Pattern: captures a single drug name (4+ alpha chars, optionally followed by dose)
|
|
2
|
+
// Drug names: semaglutide, Liraglutide, sitagliptin, etc.
|
|
3
|
+
const DRUG_RE = "([A-Za-z]{4,25}(?:\\s+\\d+\\s*(?:mg|mcg|µg))?)";
|
|
4
|
+
// "Drug A vs/versus/compared with Drug B"
|
|
5
|
+
const VS_PATTERN = new RegExp(`\\b${DRUG_RE}\\s+(?:vs\\.?|versus|compared (?:with|to)|against)\\s+${DRUG_RE}\\b`, "gi");
|
|
6
|
+
// Pattern: "placebo-controlled"
|
|
7
|
+
const PLACEBO_PATTERN = /placebo[- ]controlled/i;
|
|
8
|
+
// Common noise words to filter out of extracted drug names
|
|
9
|
+
const NOISE_WORDS = new Set([
|
|
10
|
+
"the",
|
|
11
|
+
"a",
|
|
12
|
+
"an",
|
|
13
|
+
"in",
|
|
14
|
+
"for",
|
|
15
|
+
"with",
|
|
16
|
+
"and",
|
|
17
|
+
"or",
|
|
18
|
+
"of",
|
|
19
|
+
"to",
|
|
20
|
+
"this",
|
|
21
|
+
"that",
|
|
22
|
+
"these",
|
|
23
|
+
"those",
|
|
24
|
+
"was",
|
|
25
|
+
"were",
|
|
26
|
+
"been",
|
|
27
|
+
"being",
|
|
28
|
+
"study",
|
|
29
|
+
"trial",
|
|
30
|
+
"analysis",
|
|
31
|
+
"results",
|
|
32
|
+
"patients",
|
|
33
|
+
"treatment",
|
|
34
|
+
"therapy",
|
|
35
|
+
"efficacy",
|
|
36
|
+
"safety",
|
|
37
|
+
"outcomes",
|
|
38
|
+
"data",
|
|
39
|
+
"evidence",
|
|
40
|
+
"systematic",
|
|
41
|
+
"review",
|
|
42
|
+
"meta",
|
|
43
|
+
"randomized",
|
|
44
|
+
"controlled",
|
|
45
|
+
"double",
|
|
46
|
+
"blind",
|
|
47
|
+
"open",
|
|
48
|
+
"label",
|
|
49
|
+
"phase",
|
|
50
|
+
"clinical",
|
|
51
|
+
"daily",
|
|
52
|
+
"weekly",
|
|
53
|
+
"monthly",
|
|
54
|
+
"oral",
|
|
55
|
+
"injectable",
|
|
56
|
+
"subcutaneous",
|
|
57
|
+
"intravenous",
|
|
58
|
+
"standard",
|
|
59
|
+
"care",
|
|
60
|
+
"active",
|
|
61
|
+
"comparator",
|
|
62
|
+
"baseline",
|
|
63
|
+
"endpoint",
|
|
64
|
+
"primary",
|
|
65
|
+
"secondary",
|
|
66
|
+
"superior",
|
|
67
|
+
"inferior",
|
|
68
|
+
"noninferior",
|
|
69
|
+
"direct",
|
|
70
|
+
"indirect",
|
|
71
|
+
"comparison",
|
|
72
|
+
"comparing",
|
|
73
|
+
]);
|
|
74
|
+
function cleanDrugName(name) {
|
|
75
|
+
return name
|
|
76
|
+
.trim()
|
|
77
|
+
.replace(/\s+/g, " ")
|
|
78
|
+
.replace(/^(the|a|an|in|of)\s+/i, "")
|
|
79
|
+
.replace(/\s+(group|arm|treatment|therapy|regimen)$/i, "")
|
|
80
|
+
.trim();
|
|
81
|
+
}
|
|
82
|
+
function isValidDrugName(name) {
|
|
83
|
+
const cleaned = cleanDrugName(name).toLowerCase();
|
|
84
|
+
if (cleaned.length < 3 || cleaned.length > 40)
|
|
85
|
+
return false;
|
|
86
|
+
const words = cleaned.split(/\s+/);
|
|
87
|
+
if (words.every((w) => NOISE_WORDS.has(w)))
|
|
88
|
+
return false;
|
|
89
|
+
// Must start with a letter
|
|
90
|
+
if (!/^[a-z]/i.test(cleaned))
|
|
91
|
+
return false;
|
|
92
|
+
return true;
|
|
93
|
+
}
|
|
94
|
+
export function normalizeDrugName(name) {
|
|
95
|
+
return cleanDrugName(name)
|
|
96
|
+
.toLowerCase()
|
|
97
|
+
.replace(/\s+/g, "_")
|
|
98
|
+
.replace(/[^a-z0-9_]/g, "");
|
|
99
|
+
}
|
|
100
|
+
function extractFromText(text, patterns) {
|
|
101
|
+
const found = [];
|
|
102
|
+
for (const pattern of patterns) {
|
|
103
|
+
// Reset regex state
|
|
104
|
+
pattern.lastIndex = 0;
|
|
105
|
+
const matches = text.matchAll(pattern);
|
|
106
|
+
for (const match of matches) {
|
|
107
|
+
const intervention = cleanDrugName(match[1]);
|
|
108
|
+
const comparator = cleanDrugName(match[2]);
|
|
109
|
+
if (isValidDrugName(intervention) && isValidDrugName(comparator)) {
|
|
110
|
+
found.push({ intervention, comparator });
|
|
111
|
+
}
|
|
112
|
+
}
|
|
113
|
+
}
|
|
114
|
+
return found;
|
|
115
|
+
}
|
|
116
|
+
function addPair(pairs, intervention, comparator, trialId, studyType, confidence) {
|
|
117
|
+
const exists = pairs.some((p) => p.trialId === trialId &&
|
|
118
|
+
normalizeDrugName(p.intervention) === normalizeDrugName(intervention) &&
|
|
119
|
+
normalizeDrugName(p.comparator) === normalizeDrugName(comparator));
|
|
120
|
+
if (!exists) {
|
|
121
|
+
pairs.push({ intervention, comparator, trialId, studyType, confidence });
|
|
122
|
+
}
|
|
123
|
+
}
|
|
124
|
+
export function extractComparatorPairs(results) {
|
|
125
|
+
const pairs = [];
|
|
126
|
+
for (const result of results) {
|
|
127
|
+
const id = result.id;
|
|
128
|
+
const studyType = result.study_type;
|
|
129
|
+
// Title extraction (high confidence)
|
|
130
|
+
const titlePairs = extractFromText(result.title, [VS_PATTERN]);
|
|
131
|
+
for (const { intervention, comparator } of titlePairs) {
|
|
132
|
+
addPair(pairs, intervention, comparator, id, studyType, "high");
|
|
133
|
+
}
|
|
134
|
+
// Placebo-controlled pattern
|
|
135
|
+
if (PLACEBO_PATTERN.test(result.title)) {
|
|
136
|
+
const drugMatch = result.title.match(/\b([A-Z][a-z]{3,20}(?:\s+\d+\s*mg)?)\b.*?placebo/i);
|
|
137
|
+
if (drugMatch && isValidDrugName(drugMatch[1])) {
|
|
138
|
+
addPair(pairs, cleanDrugName(drugMatch[1]), "Placebo", id, studyType, "high");
|
|
139
|
+
}
|
|
140
|
+
}
|
|
141
|
+
// Abstract extraction (medium confidence)
|
|
142
|
+
const abstractPairs = extractFromText(result.abstract, [VS_PATTERN]);
|
|
143
|
+
for (const { intervention, comparator } of abstractPairs) {
|
|
144
|
+
addPair(pairs, intervention, comparator, id, studyType, "medium");
|
|
145
|
+
}
|
|
146
|
+
}
|
|
147
|
+
return pairs;
|
|
148
|
+
}
|
|
149
|
+
//# sourceMappingURL=extractor.js.map
|
|
@@ -0,0 +1 @@
|
|
|
1
|
+
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|
|
@@ -0,0 +1,4 @@
|
|
|
1
|
+
export { extractComparatorPairs, normalizeDrugName } from "./extractor.js";
|
|
2
|
+
export { buildEvidenceNetwork } from "./builder.js";
|
|
3
|
+
export type { EvidenceNode, EvidenceEdge, EvidenceNetwork, NMAFeasibility, NetworkGap, ComparatorPair, } from "./types.js";
|
|
4
|
+
//# sourceMappingURL=index.d.ts.map
|
|
@@ -0,0 +1 @@
|
|
|
1
|
+
{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../../src/network/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,sBAAsB,EAAE,iBAAiB,EAAE,MAAM,gBAAgB,CAAC;AAC3E,OAAO,EAAE,oBAAoB,EAAE,MAAM,cAAc,CAAC;AACpD,YAAY,EACV,YAAY,EACZ,YAAY,EACZ,eAAe,EACf,cAAc,EACd,UAAU,EACV,cAAc,GACf,MAAM,YAAY,CAAC"}
|
|
@@ -0,0 +1 @@
|
|
|
1
|
+
{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/network/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,sBAAsB,EAAE,iBAAiB,EAAE,MAAM,gBAAgB,CAAC;AAC3E,OAAO,EAAE,oBAAoB,EAAE,MAAM,cAAc,CAAC"}
|
|
@@ -0,0 +1,42 @@
|
|
|
1
|
+
export interface EvidenceNode {
|
|
2
|
+
id: string;
|
|
3
|
+
label: string;
|
|
4
|
+
type: "intervention" | "comparator";
|
|
5
|
+
}
|
|
6
|
+
export interface EvidenceEdge {
|
|
7
|
+
source: string;
|
|
8
|
+
target: string;
|
|
9
|
+
trials: string[];
|
|
10
|
+
studyTypes: string[];
|
|
11
|
+
direct: boolean;
|
|
12
|
+
confidence: "high" | "medium" | "low";
|
|
13
|
+
}
|
|
14
|
+
export interface NetworkGap {
|
|
15
|
+
from: string;
|
|
16
|
+
to: string;
|
|
17
|
+
description: string;
|
|
18
|
+
}
|
|
19
|
+
export interface NMAFeasibility {
|
|
20
|
+
feasible: boolean;
|
|
21
|
+
reasons: string[];
|
|
22
|
+
nodeCount: number;
|
|
23
|
+
edgeCount: number;
|
|
24
|
+
connected: boolean;
|
|
25
|
+
componentCount: number;
|
|
26
|
+
components: string[][];
|
|
27
|
+
minTrialsPerEdge: number;
|
|
28
|
+
gaps: NetworkGap[];
|
|
29
|
+
}
|
|
30
|
+
export interface EvidenceNetwork {
|
|
31
|
+
nodes: EvidenceNode[];
|
|
32
|
+
edges: EvidenceEdge[];
|
|
33
|
+
feasibility: NMAFeasibility;
|
|
34
|
+
}
|
|
35
|
+
export interface ComparatorPair {
|
|
36
|
+
intervention: string;
|
|
37
|
+
comparator: string;
|
|
38
|
+
trialId: string;
|
|
39
|
+
studyType: string;
|
|
40
|
+
confidence: "high" | "medium" | "low";
|
|
41
|
+
}
|
|
42
|
+
//# sourceMappingURL=types.d.ts.map
|
|
@@ -0,0 +1 @@
|
|
|
1
|
+
{"version":3,"file":"types.d.ts","sourceRoot":"","sources":["../../src/network/types.ts"],"names":[],"mappings":"AAAA,MAAM,WAAW,YAAY;IAC3B,EAAE,EAAE,MAAM,CAAC;IACX,KAAK,EAAE,MAAM,CAAC;IACd,IAAI,EAAE,cAAc,GAAG,YAAY,CAAC;CACrC;AAED,MAAM,WAAW,YAAY;IAC3B,MAAM,EAAE,MAAM,CAAC;IACf,MAAM,EAAE,MAAM,CAAC;IACf,MAAM,EAAE,MAAM,EAAE,CAAC;IACjB,UAAU,EAAE,MAAM,EAAE,CAAC;IACrB,MAAM,EAAE,OAAO,CAAC;IAChB,UAAU,EAAE,MAAM,GAAG,QAAQ,GAAG,KAAK,CAAC;CACvC;AAED,MAAM,WAAW,UAAU;IACzB,IAAI,EAAE,MAAM,CAAC;IACb,EAAE,EAAE,MAAM,CAAC;IACX,WAAW,EAAE,MAAM,CAAC;CACrB;AAED,MAAM,WAAW,cAAc;IAC7B,QAAQ,EAAE,OAAO,CAAC;IAClB,OAAO,EAAE,MAAM,EAAE,CAAC;IAClB,SAAS,EAAE,MAAM,CAAC;IAClB,SAAS,EAAE,MAAM,CAAC;IAClB,SAAS,EAAE,OAAO,CAAC;IACnB,cAAc,EAAE,MAAM,CAAC;IACvB,UAAU,EAAE,MAAM,EAAE,EAAE,CAAC;IACvB,gBAAgB,EAAE,MAAM,CAAC;IACzB,IAAI,EAAE,UAAU,EAAE,CAAC;CACpB;AAED,MAAM,WAAW,eAAe;IAC9B,KAAK,EAAE,YAAY,EAAE,CAAC;IACtB,KAAK,EAAE,YAAY,EAAE,CAAC;IACtB,WAAW,EAAE,cAAc,CAAC;CAC7B;AAED,MAAM,WAAW,cAAc;IAC7B,YAAY,EAAE,MAAM,CAAC;IACrB,UAAU,EAAE,MAAM,CAAC;IACnB,OAAO,EAAE,MAAM,CAAC;IAChB,SAAS,EAAE,MAAM,CAAC;IAClB,UAAU,EAAE,MAAM,GAAG,QAAQ,GAAG,KAAK,CAAC;CACvC"}
|
|
@@ -0,0 +1 @@
|
|
|
1
|
+
{"version":3,"file":"types.js","sourceRoot":"","sources":["../../src/network/types.ts"],"names":[],"mappings":""}
|
package/dist/server.js
CHANGED
|
@@ -1,4 +1,9 @@
|
|
|
1
1
|
#!/usr/bin/env node
|
|
2
|
+
import { readFileSync } from "node:fs";
|
|
3
|
+
import { join, dirname } from "node:path";
|
|
4
|
+
import { fileURLToPath } from "node:url";
|
|
5
|
+
const __pkgDir = dirname(fileURLToPath(import.meta.url));
|
|
6
|
+
const PKG_VERSION = JSON.parse(readFileSync(join(__pkgDir, "..", "package.json"), "utf-8")).version;
|
|
2
7
|
import { Server } from "@modelcontextprotocol/sdk/server/index.js";
|
|
3
8
|
import { StdioServerTransport } from "@modelcontextprotocol/sdk/server/stdio.js";
|
|
4
9
|
import { StreamableHTTPServerTransport } from "@modelcontextprotocol/sdk/server/streamableHttp.js";
|
|
@@ -10,13 +15,13 @@ import { handleKnowledgeSearch, knowledgeSearchToolSchema, } from "./tools/knowl
|
|
|
10
15
|
import { handleKnowledgeRead, knowledgeReadToolSchema, } from "./tools/knowledgeRead.js";
|
|
11
16
|
import { handleKnowledgeWrite, knowledgeWriteToolSchema, } from "./tools/knowledgeWrite.js";
|
|
12
17
|
import { handleProjectCreate, projectCreateToolSchema, } from "./tools/projectCreate.js";
|
|
18
|
+
import { handleEvidenceNetwork, evidenceNetworkToolSchema, } from "./tools/evidenceNetwork.js";
|
|
13
19
|
import { randomUUID } from "node:crypto";
|
|
20
|
+
import { trackToolCall, trackSession, shutdownAnalytics } from "./analytics.js";
|
|
14
21
|
import { createServer } from "node:http";
|
|
15
22
|
import { readFile } from "node:fs/promises";
|
|
16
|
-
import { join, dirname } from "node:path";
|
|
17
|
-
import { fileURLToPath } from "node:url";
|
|
18
23
|
function createMcpServer() {
|
|
19
|
-
const server = new Server({ name: "heor-agent-mcp", version:
|
|
24
|
+
const server = new Server({ name: "heor-agent-mcp", version: PKG_VERSION }, { capabilities: { tools: {} } });
|
|
20
25
|
server.setRequestHandler(ListToolsRequestSchema, async () => ({
|
|
21
26
|
tools: [
|
|
22
27
|
literatureSearchToolSchema,
|
|
@@ -26,10 +31,12 @@ function createMcpServer() {
|
|
|
26
31
|
knowledgeReadToolSchema,
|
|
27
32
|
knowledgeWriteToolSchema,
|
|
28
33
|
projectCreateToolSchema,
|
|
34
|
+
evidenceNetworkToolSchema,
|
|
29
35
|
],
|
|
30
36
|
}));
|
|
31
37
|
server.setRequestHandler(CallToolRequestSchema, async (request) => {
|
|
32
38
|
const { name, arguments: args } = request.params;
|
|
39
|
+
const callStart = Date.now();
|
|
33
40
|
try {
|
|
34
41
|
let result;
|
|
35
42
|
switch (name) {
|
|
@@ -54,12 +61,17 @@ function createMcpServer() {
|
|
|
54
61
|
case "project_create":
|
|
55
62
|
result = await handleProjectCreate(args);
|
|
56
63
|
break;
|
|
64
|
+
case "evidence_network":
|
|
65
|
+
result = await handleEvidenceNetwork(args);
|
|
66
|
+
break;
|
|
57
67
|
default:
|
|
68
|
+
trackToolCall(name, Date.now() - callStart, "error");
|
|
58
69
|
return {
|
|
59
70
|
content: [{ type: "text", text: `Unknown tool: ${name}` }],
|
|
60
71
|
isError: true,
|
|
61
72
|
};
|
|
62
73
|
}
|
|
74
|
+
trackToolCall(name, Date.now() - callStart, "ok");
|
|
63
75
|
const content = typeof result.content === "string"
|
|
64
76
|
? result.content
|
|
65
77
|
: JSON.stringify(result.content, null, 2);
|
|
@@ -69,6 +81,9 @@ function createMcpServer() {
|
|
|
69
81
|
}
|
|
70
82
|
catch (err) {
|
|
71
83
|
const message = err instanceof Error ? err.message : String(err);
|
|
84
|
+
trackToolCall(name, Date.now() - callStart, "error", undefined, {
|
|
85
|
+
error: message,
|
|
86
|
+
});
|
|
72
87
|
return {
|
|
73
88
|
content: [{ type: "text", text: `Error: ${message}` }],
|
|
74
89
|
isError: true,
|
|
@@ -117,7 +132,11 @@ async function runHttp(port) {
|
|
|
117
132
|
// Health check
|
|
118
133
|
if (req.method === "GET" && req.url === "/health") {
|
|
119
134
|
res.writeHead(200, { "Content-Type": "application/json" });
|
|
120
|
-
res.end(JSON.stringify({
|
|
135
|
+
res.end(JSON.stringify({
|
|
136
|
+
status: "ok",
|
|
137
|
+
server: "heor-agent-mcp",
|
|
138
|
+
version: PKG_VERSION,
|
|
139
|
+
}));
|
|
121
140
|
return;
|
|
122
141
|
}
|
|
123
142
|
// MCP endpoint
|
|
@@ -141,12 +160,15 @@ async function runHttp(port) {
|
|
|
141
160
|
sessionIdGenerator: () => randomUUID(),
|
|
142
161
|
onsessioninitialized: (id) => {
|
|
143
162
|
sessions[id] = transport;
|
|
163
|
+
trackSession("session_start", id);
|
|
144
164
|
},
|
|
145
165
|
});
|
|
146
166
|
transport.onclose = () => {
|
|
147
167
|
const id = Object.entries(sessions).find(([, t]) => t === transport)?.[0];
|
|
148
|
-
if (id)
|
|
168
|
+
if (id) {
|
|
169
|
+
trackSession("session_end", id);
|
|
149
170
|
delete sessions[id];
|
|
171
|
+
}
|
|
150
172
|
};
|
|
151
173
|
await server.connect(transport);
|
|
152
174
|
}
|
|
@@ -204,4 +226,12 @@ main().catch((err) => {
|
|
|
204
226
|
console.error("Fatal error:", err);
|
|
205
227
|
process.exit(1);
|
|
206
228
|
});
|
|
229
|
+
process.on("SIGTERM", async () => {
|
|
230
|
+
await shutdownAnalytics();
|
|
231
|
+
process.exit(0);
|
|
232
|
+
});
|
|
233
|
+
process.on("SIGINT", async () => {
|
|
234
|
+
await shutdownAnalytics();
|
|
235
|
+
process.exit(0);
|
|
236
|
+
});
|
|
207
237
|
//# sourceMappingURL=server.js.map
|
package/dist/server.js.map
CHANGED
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"server.js","sourceRoot":"","sources":["../src/server.ts"],"names":[],"mappings":";AACA,OAAO,EAAE,MAAM,EAAE,MAAM,2CAA2C,CAAC;AACnE,OAAO,EAAE,oBAAoB,EAAE,MAAM,2CAA2C,CAAC;AACjF,OAAO,EAAE,6BAA6B,EAAE,MAAM,oDAAoD,CAAC;AACnG,OAAO,EACL,qBAAqB,EACrB,sBAAsB,GACvB,MAAM,oCAAoC,CAAC;AAC5C,OAAO,EACL,sBAAsB,EACtB,0BAA0B,GAC3B,MAAM,6BAA6B,CAAC;AACrC,OAAO,EACL,4BAA4B,EAC5B,gCAAgC,GACjC,MAAM,mCAAmC,CAAC;AAC3C,OAAO,EACL,oBAAoB,EACpB,wBAAwB,GACzB,MAAM,2BAA2B,CAAC;AACnC,OAAO,EACL,qBAAqB,EACrB,yBAAyB,GAC1B,MAAM,4BAA4B,CAAC;AACpC,OAAO,EACL,mBAAmB,EACnB,uBAAuB,GACxB,MAAM,0BAA0B,CAAC;AAClC,OAAO,EACL,oBAAoB,EACpB,wBAAwB,GACzB,MAAM,2BAA2B,CAAC;AACnC,OAAO,EACL,mBAAmB,EACnB,uBAAuB,GACxB,MAAM,0BAA0B,CAAC;AAClC,OAAO,
|
|
1
|
+
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import type { ToolResult } from "../providers/types.js";
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export declare function handleEvidenceNetwork(rawParams: unknown): Promise<ToolResult>;
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export declare const evidenceNetworkToolSchema: {
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name: string;
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description: string;
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inputSchema: {
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type: string;
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properties: {
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results: {
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type: string;
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items: {
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type: string;
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properties: {
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id: {
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type: string;
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};
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source: {
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type: string;
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};
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title: {
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type: string;
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};
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authors: {
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type: string;
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items: {
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type: string;
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};
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};
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date: {
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type: string;
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};
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study_type: {
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type: string;
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};
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abstract: {
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type: string;
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};
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url: {
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type: string;
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};
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};
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required: string[];
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};
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description: string;
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};
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query: {
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type: string;
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description: string;
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};
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};
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required: string[];
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};
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};
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//# sourceMappingURL=evidenceNetwork.d.ts.map
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@@ -0,0 +1 @@
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1
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+
{"version":3,"file":"evidenceNetwork.d.ts","sourceRoot":"","sources":["../../src/tools/evidenceNetwork.ts"],"names":[],"mappings":"AACA,OAAO,KAAK,EAAE,UAAU,EAAE,MAAM,uBAAuB,CAAC;AA8BxD,wBAAsB,qBAAqB,CACzC,SAAS,EAAE,OAAO,GACjB,OAAO,CAAC,UAAU,CAAC,CA+BrB;AAED,eAAO,MAAM,yBAAyB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;CA0CrC,CAAC"}
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@@ -0,0 +1,81 @@
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1
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+
import { z } from "zod";
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2
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+
import { extractComparatorPairs, buildEvidenceNetwork, } from "../network/index.js";
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3
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+
import { networkToMarkdown } from "../formatters/networkMarkdown.js";
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4
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+
import { createAuditRecord, setMethodology } from "../audit/builder.js";
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|
5
|
+
const EvidenceNetworkSchema = z.object({
|
|
6
|
+
results: z
|
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7
|
+
.array(z.object({
|
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8
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id: z.string(),
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9
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source: z.string(),
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10
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title: z.string(),
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11
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authors: z.array(z.string()),
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12
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date: z.string(),
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13
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study_type: z.string(),
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abstract: z.string(),
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15
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url: z.string(),
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16
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}))
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17
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.max(500)
|
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18
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+
.describe("Array of LiteratureResult objects from a prior literature_search call"),
|
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19
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+
query: z.string().optional().describe("Original search query (for context)"),
|
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20
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+
});
|
|
21
|
+
export async function handleEvidenceNetwork(rawParams) {
|
|
22
|
+
const params = EvidenceNetworkSchema.parse(rawParams);
|
|
23
|
+
const results = params.results;
|
|
24
|
+
let audit = createAuditRecord("evidence_network", { query: params.query, resultCount: results.length }, "text");
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25
|
+
audit = setMethodology(audit, "Automated comparator extraction with NMA feasibility assessment");
|
|
26
|
+
// Extract comparator pairs
|
|
27
|
+
const pairs = extractComparatorPairs(results);
|
|
28
|
+
// Build network
|
|
29
|
+
const network = buildEvidenceNetwork(pairs);
|
|
30
|
+
// Format output
|
|
31
|
+
const markdown = networkToMarkdown(network);
|
|
32
|
+
const summary = [
|
|
33
|
+
markdown,
|
|
34
|
+
"",
|
|
35
|
+
"---",
|
|
36
|
+
`*Analyzed ${results.length} studies. Extracted ${pairs.length} comparator pairs.*`,
|
|
37
|
+
].join("\n");
|
|
38
|
+
return { content: summary, audit };
|
|
39
|
+
}
|
|
40
|
+
export const evidenceNetworkToolSchema = {
|
|
41
|
+
name: "evidence_network",
|
|
42
|
+
description: "Analyze literature search results to build an evidence network map. Extracts intervention-comparator pairs from titles and abstracts, constructs a treatment comparison network, and assesses NMA (network meta-analysis) feasibility. Pass the results array from a prior literature_search call.",
|
|
43
|
+
inputSchema: {
|
|
44
|
+
type: "object",
|
|
45
|
+
properties: {
|
|
46
|
+
results: {
|
|
47
|
+
type: "array",
|
|
48
|
+
items: {
|
|
49
|
+
type: "object",
|
|
50
|
+
properties: {
|
|
51
|
+
id: { type: "string" },
|
|
52
|
+
source: { type: "string" },
|
|
53
|
+
title: { type: "string" },
|
|
54
|
+
authors: { type: "array", items: { type: "string" } },
|
|
55
|
+
date: { type: "string" },
|
|
56
|
+
study_type: { type: "string" },
|
|
57
|
+
abstract: { type: "string" },
|
|
58
|
+
url: { type: "string" },
|
|
59
|
+
},
|
|
60
|
+
required: [
|
|
61
|
+
"id",
|
|
62
|
+
"source",
|
|
63
|
+
"title",
|
|
64
|
+
"authors",
|
|
65
|
+
"date",
|
|
66
|
+
"study_type",
|
|
67
|
+
"abstract",
|
|
68
|
+
"url",
|
|
69
|
+
],
|
|
70
|
+
},
|
|
71
|
+
description: "Array of LiteratureResult objects from a prior literature_search call (use output_format='json')",
|
|
72
|
+
},
|
|
73
|
+
query: {
|
|
74
|
+
type: "string",
|
|
75
|
+
description: "Original search query (optional, for context)",
|
|
76
|
+
},
|
|
77
|
+
},
|
|
78
|
+
required: ["results"],
|
|
79
|
+
},
|
|
80
|
+
};
|
|
81
|
+
//# sourceMappingURL=evidenceNetwork.js.map
|
|
@@ -0,0 +1 @@
|
|
|
1
|
+
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|
package/package.json
CHANGED
|
@@ -1,6 +1,6 @@
|
|
|
1
1
|
{
|
|
2
2
|
"name": "heor-agent-mcp",
|
|
3
|
-
"version": "0.
|
|
3
|
+
"version": "0.2.0",
|
|
4
4
|
"license": "MIT",
|
|
5
5
|
"author": "mnaumov",
|
|
6
6
|
"engines": {
|
|
@@ -59,6 +59,7 @@
|
|
|
59
59
|
"@modelcontextprotocol/sdk": "^1.0.0",
|
|
60
60
|
"docx": "^9.6.1",
|
|
61
61
|
"express": "^5.2.1",
|
|
62
|
+
"posthog-node": "^5.29.2",
|
|
62
63
|
"zod": "^3.22.4"
|
|
63
64
|
},
|
|
64
65
|
"devDependencies": {
|