@digital-science-dsl/dimensions-analytics-mcp 0.5.3

package/dist/examples/usage-scenarios.js

@@ -0,0 +1,173 @@
+/**
+ * Tool routing for natural-language prompts in docs/USAGE.md.
+ * @module examples/usage-scenarios
+ */
+export const USAGE_SCENARIOS = [
+    {
+        id: "top-publications",
+        goal: "Top papers on a topic",
+        prompt: "Find the 20 most-cited publications on CRISPR gene editing since 2020.",
+        tool: "search_publications",
+        args: {
+            query: "CRISPR gene editing",
+            yearFrom: 2020,
+            sortBy: "total_citations",
+            limit: 20,
+            fields: ["id", "title", "doi", "year", "total_citations"],
+        },
+        dslContains: [
+            "search publications",
+            "CRISPR gene editing",
+            "year >= 2020",
+            "sort by times_cited desc",
+            "limit 20",
+        ],
+    },
+    {
+        id: "nih-grants",
+        goal: "Grants from a funder",
+        prompt: "Search NIH grants about cancer immunotherapy started after 2020, limit 25.",
+        tool: "search_grants",
+        args: {
+            query: "cancer immunotherapy",
+            startYearFrom: 2020,
+            funderOrgName: "National Cancer Institute",
+            limit: 25,
+            fields: ["id", "title", "funding_usd", "funder_name", "start_year"],
+        },
+        dslContains: [
+            "search grants",
+            "cancer immunotherapy",
+            "start_year >= 2020",
+            'funder_org_name = "National Cancer Institute"',
+            "limit 25",
+        ],
+    },
+    {
+        id: "researchers-by-topic",
+        goal: "Who works on a topic",
+        prompt: "Who are the top researchers working on quantum computing?",
+        tool: "facet_query",
+        args: {
+            entityType: "publications",
+            facetField: "researchers",
+            query: "quantum computing",
+            limit: 10,
+        },
+        dslContains: ["search publications", "quantum computing", "return researchers"],
+    },
+    {
+        id: "researchers-by-name",
+        goal: "Find researchers by name",
+        prompt: "Search researchers named Jennifer Doudna, sort by publication count.",
+        tool: "search_researchers",
+        args: {
+            query: "Jennifer Doudna",
+            sortBy: "total_publications",
+            limit: 10,
+            fields: ["id", "first_name", "last_name", "total_publications"],
+        },
+        dslContains: ["search researchers", "Jennifer Doudna", "sort by total_publications"],
+    },
+    {
+        id: "doi-lookup",
+        goal: "Known paper",
+        prompt: "Look up DOI 10.1038/nature12373 and show title, citations, and journal.",
+        tool: "get_by_doi",
+        args: {
+            doi: "10.1038/nature12373",
+            fields: ["id", "title", "times_cited", "journal"],
+        },
+        dslContains: ["10.1038/nature12373"],
+    },
+    {
+        id: "author-profile",
+        goal: "Researcher deep-dive",
+        prompt: "Get an author profile for Jennifer Doudna with recent publications.",
+        tool: "author_profile",
+        args: {
+            name: "Jennifer Doudna",
+            includePublications: true,
+            publicationLimit: 10,
+        },
+    },
+    {
+        id: "org-profile",
+        goal: "Institution",
+        prompt: "Profile Stanford University — publications and grants.",
+        tool: "org_profile",
+        args: {
+            organizationId: "grid.168010.e",
+            name: "Stanford University",
+            includePublications: true,
+            includeGrants: true,
+        },
+    },
+    {
+        id: "facet-journals-since-year",
+        goal: "Topic breakdown",
+        prompt: "Which journals publish the most machine learning research since 2020?",
+        tool: "facet_query",
+        args: {
+            entityType: "publications",
+            facetField: "journal",
+            query: "machine learning",
+            yearFrom: 2020,
+            limit: 20,
+        },
+        dslContains: ["machine learning", "year >= 2020", "return journal"],
+    },
+    {
+        id: "funding-leaders",
+        goal: "Funding leaders",
+        prompt: "Which funders have the most grant funding on climate adaptation?",
+        tool: "aggregate_query",
+        args: {
+            entityType: "grants",
+            facetField: "funder_orgs",
+            indicators: ["funding"],
+            query: "climate adaptation",
+            sortBy: "funding",
+            sortOrder: "desc",
+            limit: 10,
+        },
+        dslContains: ["search grants", "climate adaptation", "return funder_orgs aggregate funding"],
+    },
+    {
+        id: "citation-trend",
+        goal: "Citations over time",
+        prompt: "Citation trend for large language model publications from 2018 to 2024.",
+        tool: "citation_trend",
+        args: {
+            query: "large language model",
+            startYear: 2018,
+            endYear: 2024,
+        },
+        dslContains: ["large language model", "citations_per_year(2018, 2024)"],
+    },
+    {
+        id: "build-complex-query",
+        goal: "Build a complex query",
+        prompt: "Build a DSL query for publications: include CRISPR or gene editing, exclude animal models, year ≥ 2020.",
+        tool: "build_query",
+        args: {
+            entity: "publications",
+            concept_groups: [
+                { terms: ["CRISPR", "gene editing"], role: "include" },
+                { terms: ["animal model", "animal models"], role: "exclude" },
+            ],
+            filters: [{ field: "year", op: ">=", value: 2020 }],
+            fields: ["id", "title", "doi", "times_cited"],
+            limit: 20,
+        },
+        buildDslContains: [
+            "search publications",
+            "CRISPR",
+            "gene editing",
+            "animal model",
+            "year >= 2020",
+            "limit 20",
+        ],
+    },
+];
+//# sourceMappingURL=usage-scenarios.js.map

package/dist/examples/usage-scenarios.js.map

@@ -0,0 +1 @@
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package/dist/funder-org-names.d.ts

@@ -0,0 +1,12 @@
+/**
+ * Resolves common funder acronyms and aliases to Dimensions funder_org_name values.
+ * @module funder-org-names
+ */
+/**
+ * Resolves a funder organization name or acronym to the canonical Dimensions value.
+ * Unknown names pass through unchanged.
+ * @param input - Funder name or acronym from tool arguments
+ * @returns Canonical Dimensions funder_org_name
+ */
+export declare function resolveFunderOrgName(input: string): string;
+//# sourceMappingURL=funder-org-names.d.ts.map

package/dist/funder-org-names.d.ts.map

@@ -0,0 +1 @@
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package/dist/funder-org-names.js

@@ -0,0 +1,30 @@
+/**
+ * Resolves common funder acronyms and aliases to Dimensions funder_org_name values.
+ * @module funder-org-names
+ */
+/** Case-insensitive acronym / alias → exact Dimensions funder_org_name */
+const FUNDER_ORG_ALIASES = {
+    nih: "National Institutes of Health",
+    nci: "National Cancer Institute",
+    nsf: "National Science Foundation",
+    neh: "National Endowment for the Humanities",
+    cdc: "Centers for Disease Control and Prevention",
+    dod: "Department of Defense",
+    usaid: "United States Agency for International Development",
+    "national institutes of health": "National Institutes of Health",
+    "national cancer institute": "National Cancer Institute",
+    "national science foundation": "National Science Foundation",
+};
+/**
+ * Resolves a funder organization name or acronym to the canonical Dimensions value.
+ * Unknown names pass through unchanged.
+ * @param input - Funder name or acronym from tool arguments
+ * @returns Canonical Dimensions funder_org_name
+ */
+export function resolveFunderOrgName(input) {
+    const trimmed = input.trim();
+    if (!trimmed)
+        return trimmed;
+    return FUNDER_ORG_ALIASES[trimmed.toLowerCase()] ?? trimmed;
+}
+//# sourceMappingURL=funder-org-names.js.map

package/dist/funder-org-names.js.map

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

@@ -0,0 +1,7 @@
+#!/usr/bin/env node
+/**
+ * HTTP MCP server entry for hosted deployment (Streamable HTTP at /mcp).
+ * @module http-main
+ */
+export {};
+//# sourceMappingURL=http-main.d.ts.map

package/dist/http-main.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"http-main.d.ts","sourceRoot":"","sources":["../src/http-main.ts"],"names":[],"mappings":";AACA;;;GAGG"}

package/dist/http-main.js

@@ -0,0 +1,36 @@
+#!/usr/bin/env node
+/**
+ * HTTP MCP server entry for hosted deployment (Streamable HTTP at /mcp).
+ * @module http-main
+ */
+import { loadDeploymentConfig } from "./client/deployment-config.js";
+import { startHostedHttpServer } from "./mcp/http-server.js";
+const deployment = loadDeploymentConfig();
+if (deployment.deploymentMode !== "hosted") {
+    console.error("http-main requires DEPLOYMENT_MODE=hosted");
+    process.exit(1);
+}
+const { close, ready } = startHostedHttpServer({
+    hosted: deployment,
+    port: deployment.httpPort,
+});
+ready
+    .then((port) => {
+    console.error(`Dimensions Analytics MCP HTTP server listening on port ${port}`);
+})
+    .catch((error) => {
+    const message = error instanceof Error ? error.message : String(error);
+    console.error(`Failed to start HTTP server: ${message}`);
+    process.exit(1);
+});
+async function shutdown() {
+    await close();
+    process.exit(0);
+}
+process.on("SIGTERM", () => {
+    void shutdown();
+});
+process.on("SIGINT", () => {
+    void shutdown();
+});
+//# sourceMappingURL=http-main.js.map

package/dist/http-main.js.map

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

@@ -0,0 +1,29 @@
+/**
+ * HTTP entry point for the Dimensions MCP server.
+ *
+ * Callers authenticate with their Dimensions API key — the same credential
+ * used for DSL API requests. Pass it on each `/mcp` POST as:
+ *
+ * - `Authorization: Bearer <dimensions-api-key>`, or
+ * - `X-Dimensions-Api-Key: <dimensions-api-key>`
+ *
+ * The server exchanges the key for a JWT via Dimensions `auth.json` and
+ * forwards queries upstream; keys are not stored server-side.
+ * @module mcp/http
+ */
+import { Hono } from "hono";
+/**
+ * Extracts a Dimensions API key from request headers.
+ * @param authorization - Raw Authorization header value
+ * @param dimensionsApiKey - Raw X-Dimensions-Api-Key header value
+ * @returns API key or null when missing
+ */
+export declare function extractDimensionsApiKey(authorization: string | undefined, dimensionsApiKey: string | undefined): string | null;
+/**
+ * Derives a stable, non-reversible telemetry distinct id from an API key.
+ * @param apiKey - Dimensions API key
+ * @returns Hex prefix of SHA-256 hash
+ */
+export declare function telemetryDistinctId(apiKey: string): string;
+export declare const app: Hono<import("hono/types").BlankEnv, import("hono/types").BlankSchema, "/">;
+//# sourceMappingURL=http.d.ts.map

package/dist/http.d.ts.map

@@ -0,0 +1 @@
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package/dist/http.js

@@ -0,0 +1,173 @@
+/**
+ * HTTP entry point for the Dimensions MCP server.
+ *
+ * Callers authenticate with their Dimensions API key — the same credential
+ * used for DSL API requests. Pass it on each `/mcp` POST as:
+ *
+ * - `Authorization: Bearer <dimensions-api-key>`, or
+ * - `X-Dimensions-Api-Key: <dimensions-api-key>`
+ *
+ * The server exchanges the key for a JWT via Dimensions `auth.json` and
+ * forwards queries upstream; keys are not stored server-side.
+ * @module mcp/http
+ */
+import { createHash, randomUUID } from "node:crypto";
+import { WebStandardStreamableHTTPServerTransport } from "@modelcontextprotocol/sdk/server/webStandardStreamableHttp.js";
+import { Hono } from "hono";
+import { html, raw } from "hono/html";
+import pkg from "../package.json";
+import { createMcpServerAsync } from "./server.js";
+import { getCachedSchemaStore } from "./schema/index.js";
+import { createTelemetry, initMixpanelClient } from "./telemetry.js";
+/** Shared Mixpanel client. Opt-in via `MIXPANEL_TOKEN`. */
+const MIXPANEL_CLIENT = initMixpanelClient(process.env.MIXPANEL_TOKEN, process.env.MIXPANEL_HOST);
+/** Optional stage label attached to telemetry events. */
+const TELEMETRY_STAGE = process.env.SST_STAGE;
+/** Public URL of this deployment (for setup page snippets only). */
+const MCP_PUBLIC_URL = (process.env.MCP_PUBLIC_URL ?? "").replace(/\/$/, "");
+/**
+ * Extracts a Dimensions API key from request headers.
+ * @param authorization - Raw Authorization header value
+ * @param dimensionsApiKey - Raw X-Dimensions-Api-Key header value
+ * @returns API key or null when missing
+ */
+export function extractDimensionsApiKey(authorization, dimensionsApiKey) {
+    const bearer = authorization ?? "";
+    if (bearer.startsWith("Bearer ")) {
+        const token = bearer.slice("Bearer ".length).trim();
+        if (token.length > 0)
+            return token;
+    }
+    const headerKey = dimensionsApiKey?.trim();
+    if (headerKey && headerKey.length > 0)
+        return headerKey;
+    return null;
+}
+/**
+ * Derives a stable, non-reversible telemetry distinct id from an API key.
+ * @param apiKey - Dimensions API key
+ * @returns Hex prefix of SHA-256 hash
+ */
+export function telemetryDistinctId(apiKey) {
+    return createHash("sha256").update(apiKey).digest("hex").slice(0, 16);
+}
+function wwwAuthenticate() {
+    return 'Bearer realm="Dimensions API key required"';
+}
+export const app = new Hono();
+app.get("/health", (c) => {
+    const store = getCachedSchemaStore();
+    if (!store) {
+        return c.json({ ok: true, schemaLoaded: false });
+    }
+    const stats = store.stats();
+    return c.json({
+        ok: true,
+        schemaLoaded: true,
+        dslVersion: stats.dslVersion,
+        sourceCount: stats.sourceCount,
+        schemaLoadedAt: stats.schemaLoadedAt,
+    });
+});
+app.get("/", (c) => {
+    const mcpUrl = MCP_PUBLIC_URL || new URL("/mcp", c.req.url).href;
+    return c.html(html `<!doctype html>
+      <html lang="en">
+        <head>
+          <meta charset="utf-8" />
+          <meta name="viewport" content="width=device-width, initial-scale=1" />
+          <title>Dimensions MCP Server — Setup</title>
+          <style>
+            *{box-sizing:border-box;margin:0;padding:0}
+            body{font-family:system-ui,-apple-system,sans-serif;max-width:640px;margin:2rem auto;padding:0 1rem;color:#1a1a1a;line-height:1.5}
+            h1{font-size:1.4rem;margin-bottom:.25rem}
+            p.sub{color:#666;margin-bottom:1.5rem;font-size:.9rem}
+            .note{font-size:.85rem;color:#444;margin-bottom:1.5rem;padding:.75rem 1rem;background:#f3f6fb;border-left:3px solid #2563eb;border-radius:3px}
+            pre{background:#f5f5f5;padding:1rem;border-radius:4px;overflow-x:auto;font-size:.8rem;line-height:1.6;white-space:pre-wrap;word-break:break-all;border:1px solid #e5e7eb}
+            h2{font-size:.95rem;margin:1.5rem 0 .5rem;color:#444}
+            ol{padding-left:1.25rem;font-size:.85rem;color:#444}
+            ol li{margin-bottom:.35rem}
+            code.inline{background:#eef1f5;padding:.1rem .35rem;border-radius:3px;font-size:.8rem}
+          </style>
+        </head>
+        <body>
+          <h1>Dimensions MCP Server</h1>
+          <p class="sub">Connect your AI assistant using your Dimensions API key.</p>
+
+          <div class="note">
+            <b>Your key stays yours.</b> Send it on each MCP request as
+            <code class="inline">Authorization: Bearer &lt;api-key&gt;</code> or
+            <code class="inline">X-Dimensions-Api-Key</code>. The server uses it
+            only to call Dimensions DSL endpoints — same auth flow as the REST API.
+          </div>
+
+          <h2>Endpoint</h2>
+          <pre>${raw(mcpUrl)}</pre>
+
+          <h2>Local stdio (recommended for single-user setups)</h2>
+          <pre>${raw(JSON.stringify({
+        mcpServers: {
+            dimensions: {
+                command: "dimensions-mcp",
+                env: { DIMENSIONS_API_KEY: "your-dimensions-api-key" },
+            },
+        },
+    }, null, 2))}</pre>
+
+          <h2>HTTP clients</h2>
+          <ol>
+            <li>Configure your MCP client to POST to the endpoint above.</li>
+            <li>Set <code class="inline">Authorization: Bearer &lt;your-api-key&gt;</code> on each request.</li>
+            <li>Obtain a key from your Dimensions account team if you do not have one.</li>
+          </ol>
+        </body>
+      </html>`);
+});
+app.all("/mcp", async (c) => {
+    if (c.req.method === "GET") {
+        return c.text("Method Not Allowed", 405, { Allow: "POST" });
+    }
+    const apiKey = extractDimensionsApiKey(c.req.header("Authorization"), c.req.header("X-Dimensions-Api-Key"));
+    if (!apiKey) {
+        return c.text("Dimensions API key required", 401, {
+            "WWW-Authenticate": wwwAuthenticate(),
+        });
+    }
+    let telemetry;
+    if (MIXPANEL_CLIENT) {
+        telemetry = createTelemetry({
+            client: MIXPANEL_CLIENT,
+            distinctId: telemetryDistinctId(apiKey),
+            transport: "http",
+            serverVersion: pkg.version,
+            stage: TELEMETRY_STAGE,
+            requestId: randomUUID(),
+        });
+    }
+    const { server } = await createMcpServerAsync({
+        apiKey,
+        baseUrl: process.env.DIMENSIONS_BASE_URL,
+        telemetry,
+    });
+    const transport = new WebStandardStreamableHTTPServerTransport({
+        sessionIdGenerator: undefined,
+        enableJsonResponse: true,
+    });
+    try {
+        await server.connect(transport);
+        return await transport.handleRequest(c.req.raw);
+    }
+    finally {
+        if (telemetry) {
+            try {
+                await telemetry.flush();
+            }
+            catch {
+                // telemetry must never affect the caller's response
+            }
+        }
+        await transport.close();
+        await server.close();
+    }
+});
+//# sourceMappingURL=http.js.map

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package/dist/index.d.ts

@@ -0,0 +1,9 @@
+/**
+ * @digital-science-dsl/dimensions-analytics-mcp - Dimensions Analytics MCP server for Dimensions Analytics API.
+ * @module @digital-science-dsl/dimensions-analytics-mcp
+ */
+export type { SchemaStore } from "./dsl/schema/index.js";
+export type { SchemaContext } from "./mcp/schema/context.js";
+export { createMcpServerAsync, type McpServerConfig, type McpServerHandle, startMcpServer, } from "./mcp/server.js";
+export { type McpLogLevel, mcpLog } from "./mcp/utils.js";
+//# sourceMappingURL=index.d.ts.map

package/dist/index.d.ts.map

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package/dist/index.js

@@ -0,0 +1,7 @@
+/**
+ * @digital-science-dsl/dimensions-analytics-mcp - Dimensions Analytics MCP server for Dimensions Analytics API.
+ * @module @digital-science-dsl/dimensions-analytics-mcp
+ */
+export { createMcpServerAsync, startMcpServer, } from "./mcp/server.js";
+export { mcpLog } from "./mcp/utils.js";
+//# sourceMappingURL=index.js.map

package/dist/index.js.map

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package/dist/kwq/build-query.d.ts

@@ -0,0 +1,26 @@
+/**
+ * Structured DSL construction for keyword queries (no AST).
+ *
+ * @module build-query
+ */
+import type { BuildResult, QuerySpec, SearchExpr } from "./types.js";
+/**
+ * Build a Dimensions DSL query from a structured specification.
+ *
+ * @example
+ * ```typescript
+ * const result = buildQuery({
+ *   entity: "publications",
+ *   search: { and: [{ or: ["cancer", "oncology"] }, "immune checkpoint"] },
+ *   exclude: "animal model",
+ *   filters: [{ field: "year", op: ">=", value: 2020 }],
+ *   fields: ["id", "title", "doi", "times_cited"],
+ *   limit: 100,
+ * });
+ * console.log(result.dsl);
+ * ```
+ */
+export declare function buildQuery(spec: QuerySpec): BuildResult;
+/** @deprecated Use {@link buildSearchClause} — kept for tests and backward compatibility. */
+export declare function buildSearchNode(expr: SearchExpr, defaultIndex: string | null): string;
+//# sourceMappingURL=build-query.d.ts.map

package/dist/kwq/build-query.d.ts.map

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package/dist/kwq/build-query.js

@@ -0,0 +1,37 @@
+/**
+ * Structured DSL construction for keyword queries (no AST).
+ *
+ * @module build-query
+ */
+import { assembleQueryDsl, buildSearchClause, querySpecComplexity } from "./dsl-assembler.js";
+/**
+ * Build a Dimensions DSL query from a structured specification.
+ *
+ * @example
+ * ```typescript
+ * const result = buildQuery({
+ *   entity: "publications",
+ *   search: { and: [{ or: ["cancer", "oncology"] }, "immune checkpoint"] },
+ *   exclude: "animal model",
+ *   filters: [{ field: "year", op: ">=", value: 2020 }],
+ *   fields: ["id", "title", "doi", "times_cited"],
+ *   limit: 100,
+ * });
+ * console.log(result.dsl);
+ * ```
+ */
+export function buildQuery(spec) {
+    const dsl = assembleQueryDsl(spec);
+    const validation = { _tag: "valid", warnings: [] };
+    return {
+        dsl,
+        validation,
+        description: dsl,
+        complexity: querySpecComplexity(spec),
+    };
+}
+/** @deprecated Use {@link buildSearchClause} — kept for tests and backward compatibility. */
+export function buildSearchNode(expr, defaultIndex) {
+    return buildSearchClause(expr, defaultIndex);
+}
+//# sourceMappingURL=build-query.js.map

package/dist/kwq/build-query.js.map

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package/dist/kwq/concept-groups.d.ts

@@ -0,0 +1,49 @@
+/**
+ * Converts concept groups (include/exclude term clusters) to a QuerySpec.
+ *
+ * Extracted from `apps/mcp/src/tools/kwq.ts` so both MCP tools and skills
+ * can import from one source.
+ *
+ * @module concept-groups
+ */
+import type { QuerySpec } from "./types.js";
+/**
+ * A group of synonym terms with a role (include or exclude).
+ *
+ * - **include**: group's terms are OR'd together, then AND'd with other include groups
+ * - **exclude**: group's terms are flattened into a single OR and negated (NOT)
+ */
+export interface ConceptGroup {
+    readonly terms: string[];
+    readonly role: "include" | "exclude";
+}
+/**
+ * Input for {@link conceptGroupsToQuerySpec}.
+ */
+export interface ConceptGroupsInput {
+    readonly entity: string;
+    readonly concept_groups?: readonly ConceptGroup[];
+    readonly search_json?: string;
+    readonly index?: string;
+    readonly filters?: ReadonlyArray<{
+        field: string;
+        op: string;
+        value: unknown;
+    }>;
+    readonly fields?: readonly string[];
+    readonly sort_by?: string;
+    readonly sort_order?: string;
+    readonly limit?: number;
+    readonly skip?: number;
+}
+/**
+ * Converts concept groups (or raw search JSON) to a {@link QuerySpec}.
+ *
+ * Include groups: each group's terms OR'd, groups AND'd together.
+ * Exclude groups: all terms flattened into a single OR, negated.
+ *
+ * @param input - Concept groups and query parameters
+ * @returns A fully-formed QuerySpec ready for `buildQuery()`
+ */
+export declare function conceptGroupsToQuerySpec(input: ConceptGroupsInput): QuerySpec;
+//# sourceMappingURL=concept-groups.d.ts.map

package/dist/kwq/concept-groups.d.ts.map

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