reasonix 0.41.0 → 0.44.0-rc.5

package/dist/cli/{chunk-SXLJBFIV.js → chunk-2V6EAEUW.js}

@@ -1,24 +1,30 @@
 #!/usr/bin/env node
+import { createRequire as __cr } from 'node:module'; if (typeof globalThis.require === 'undefined') { globalThis.require = __cr(import.meta.url); }
 import {
   formatMcpLifecycleEvent,
   formatMcpSlowToast
-} from "./chunk-LTXADNCO.js";
+} from "./chunk-7UCMM425.js";
 import {
   buildTransportFromSpec,
   preflightStdioSpec
-} from "./chunk-BOFL3T45.js";
+} from "./chunk-NVURFF27.js";
 import {
   bridgeMcpTools
-} from "./chunk-IEA6JOIP.js";
+} from "./chunk-OPFUUYHL.js";
 import {
   McpClient,
-  inspectMcpServer,
-  parseMcpSpec
-} from "./chunk-CFY2XLY6.js";
+  inspectMcpServer
+} from "./chunk-XSU4QVFW.js";
 import {
-  mcpEnvFor,
-  readConfig
-} from "./chunk-65Q5HQ26.js";
+  t
+} from "./chunk-CGDR2ELH.js";
+import {
+  normalizeMcpConfig,
+  overlayMatchedSpec,
+  parseMcpSpec,
+  readConfig,
+  specToRaw
+} from "./chunk-AVFXO2EZ.js";
 
 // src/mcp/summary.ts
 function buildMcpServerSummary(opts) {
@@ -50,7 +56,7 @@ var stderrLifecycleSink = (n) => {
   if (n.kind === "failed") {
     process.stderr.write(
       `${formatMcpLifecycleEvent({ state: "failed", name: n.name, reason: n.reason })}
-  \u2192 run \`reasonix setup\` to remove this entry, or fix the underlying issue (missing npm package, network, etc.).
+  \u2192 ${t("mcpLifecycle.failedSetupHint")}
 `
     );
     return;
@@ -69,8 +75,24 @@ var stderrLifecycleSink = (n) => {
     );
     return;
   }
-  process.stderr.write(`${formatMcpLifecycleEvent({ state: n.kind, name: n.name })}
-`);
+  if (n.kind === "tools-ready") {
+    process.stderr.write(
+      `${formatMcpLifecycleEvent({ state: "tools-ready", name: n.name, tools: n.tools, ms: n.ms })}
+`
+    );
+    return;
+  }
+  if (n.kind === "warn") {
+    process.stderr.write(
+      `${formatMcpLifecycleEvent({ state: "warn", name: n.name, reason: n.reason })}
+`
+    );
+    return;
+  }
+  process.stderr.write(
+    `${formatMcpLifecycleEvent({ state: n.kind, name: n.name })}
+`
+  );
 };
 function createMcpRuntime(ctx) {
   const records = /* @__PURE__ */ new Map();
@@ -82,7 +104,8 @@ function createMcpRuntime(ctx) {
     }
     const tools = ctx.getTools();
     if (!tools) return { ok: false, reason: "no tool registry available" };
-    const disabledNames = new Set(readConfig().mcpDisabled ?? []);
+    const cfg = readConfig();
+    const normalized = normalizeMcpConfig(cfg);
     let label = "anon";
     let mcp;
     let resolveReady;
@@ -93,9 +116,11 @@ function createMcpRuntime(ctx) {
     });
     ready.catch(() => void 0);
     try {
-      const spec = parseMcpSpec(raw);
-      label = spec.name ?? "anon";
-      if (spec.name && disabledNames.has(spec.name)) {
+      const parsed = parseMcpSpec(raw);
+      label = parsed.name ?? "anon";
+      const matched = parsed.name ? normalized.find((s) => s.name === parsed.name) : void 0;
+      const spec = overlayMatchedSpec(parsed, matched);
+      if (spec.disabled) {
         sink({ kind: "disabled", name: label });
         rejectReady(new Error(`MCP server "${label}" is disabled`));
         return { ok: false, reason: "disabled by user" };
@@ -104,7 +129,7 @@ function createMcpRuntime(ctx) {
       const t0 = Date.now();
       const namePrefix = spec.name ? `${spec.name}_` : ctx.getRequestedCount() === 1 && ctx.getMcpPrefix() ? ctx.getMcpPrefix() : "";
       if (spec.transport === "stdio") preflightStdioSpec(spec);
-      const transport = buildTransportFromSpec(spec, { env: mcpEnvFor(spec.name, readConfig()) });
+      const transport = buildTransportFromSpec(spec);
       mcp = new McpClient({ transport });
       await mcp.initialize();
       const host = { client: mcp };
@@ -122,6 +147,41 @@ function createMcpRuntime(ctx) {
           sampleSize: info.sampleSize
         })
       });
+      const ms = Date.now() - t0;
+      const allSpecs = tools.specs();
+      const registeredSpecs = allSpecs.filter(
+        (s) => bridge.registeredNames.includes(s.function.name)
+      );
+      records.set(raw, {
+        spec: raw,
+        client: mcp,
+        summary: buildMcpServerSummary({
+          label,
+          spec: raw,
+          toolCount: bridge.registeredNames.length,
+          report: {
+            protocolVersion: mcp.protocolVersion,
+            serverInfo: mcp.serverInfo,
+            capabilities: mcp.serverCapabilities ?? {},
+            tools: { supported: true, items: [] },
+            resources: { supported: false, reason: "still inspecting" },
+            prompts: { supported: false, reason: "still inspecting" },
+            elapsedMs: ms
+          },
+          host,
+          bridgeEnv: bridge.env
+        }),
+        registeredNames: bridge.registeredNames,
+        registeredSpecs
+      });
+      insertionOrder.push(raw);
+      resolveReady();
+      sink({
+        kind: "tools-ready",
+        name: label,
+        tools: bridge.registeredNames.length,
+        ms
+      });
       let report;
       try {
         report = await inspectMcpServer(mcp);
@@ -136,7 +196,6 @@ function createMcpRuntime(ctx) {
           elapsedMs: 0
         };
       }
-      const ms = Date.now() - t0;
       const resourceCount = report.resources.supported ? report.resources.items.length : 0;
       const promptCount = report.prompts.supported ? report.prompts.items.length : 0;
       sink({
@@ -147,7 +206,6 @@ function createMcpRuntime(ctx) {
         prompts: promptCount,
         ms
       });
-      resolveReady();
       const summary = buildMcpServerSummary({
         label,
         spec: raw,
@@ -156,10 +214,6 @@ function createMcpRuntime(ctx) {
         host,
         bridgeEnv: bridge.env
       });
-      const allSpecs = tools.specs();
-      const registeredSpecs = allSpecs.filter(
-        (s) => bridge.registeredNames.includes(s.function.name)
-      );
       records.set(raw, {
         spec: raw,
         client: mcp,
@@ -167,15 +221,28 @@ function createMcpRuntime(ctx) {
         registeredNames: bridge.registeredNames,
         registeredSpecs
       });
-      insertionOrder.push(raw);
-      if (loop) for (const s of registeredSpecs) loop.prefix.addTool(s);
+      if (loop)
+        for (const s of registeredSpecs)
+          try {
+            loop.prefix.addTool(s);
+          } catch (err) {
+            sink({
+              kind: "warn",
+              name: label,
+              reason: `addTool failed for ${s.function.name}: ${err.message}`
+            });
+          }
       return { ok: true, summary };
     } catch (err) {
-      await mcp?.close().catch(() => void 0);
       const reason = err.message;
-      sink({ kind: "failed", name: label, reason });
-      rejectReady(new Error(`MCP server "${label}" failed to start: ${reason}`));
-      return { ok: false, reason };
+      if (!records.has(raw)) {
+        await mcp?.close().catch(() => void 0);
+        rejectReady(new Error(`MCP server "${label}" failed to start: ${reason}`));
+        sink({ kind: "failed", name: label, reason });
+        return { ok: false, reason };
+      }
+      sink({ kind: "warn", name: label, reason });
+      return { ok: true, summary: records.get(raw).summary };
     }
   }
   async function removeSpec(raw, loop) {
@@ -193,7 +260,8 @@ function createMcpRuntime(ctx) {
     return true;
   }
   async function reloadFromConfig(loop) {
-    const desired = readConfig().mcp ?? [];
+    const normalized = normalizeMcpConfig(readConfig());
+    const desired = normalized.map(specToRaw);
     const desiredSet = new Set(desired);
     const currentSet = new Set(records.keys());
     const added = [];
@@ -242,4 +310,4 @@ function createMcpRuntime(ctx) {
 export {
   createMcpRuntime
 };
-//# sourceMappingURL=chunk-SXLJBFIV.js.map
+//# sourceMappingURL=chunk-2V6EAEUW.js.map

package/dist/cli/chunk-2V6EAEUW.js.map

@@ -0,0 +1 @@
+{"version":3,"sources":["../../src/mcp/summary.ts","../../src/cli/commands/mcp-runtime.ts"],"sourcesContent":["import type { InspectionReport } from \"./inspect.js\";\nimport type { BridgeEnv, McpClientHost } from \"./registry.js\";\nimport type { GetPromptResult, ReadResourceResult } from \"./types.js\";\n\nexport interface McpServerSummary {\n  label: string;\n  spec: string;\n  toolCount: number;\n  report: InspectionReport;\n  host: McpClientHost;\n  bridgeEnv: BridgeEnv;\n  readResource(uri: string): Promise<ReadResourceResult>;\n  getPrompt(name: string, args?: Record<string, string>): Promise<GetPromptResult>;\n}\n\nexport function buildMcpServerSummary(opts: {\n  label: string;\n  spec: string;\n  toolCount: number;\n  report: InspectionReport;\n  host: McpClientHost;\n  bridgeEnv: BridgeEnv;\n}): McpServerSummary {\n  return {\n    label: opts.label,\n    spec: opts.spec,\n    toolCount: opts.toolCount,\n    report: opts.report,\n    host: opts.host,\n    bridgeEnv: opts.bridgeEnv,\n    readResource(uri) {\n      return opts.host.client.readResource(uri);\n    },\n    getPrompt(name, args) {\n      return args !== undefined\n        ? opts.host.client.getPrompt(name, args)\n        : opts.host.client.getPrompt(name);\n    },\n  };\n}\n","import { normalizeMcpConfig, readConfig } from \"../../config.js\";\nimport { t } from \"../../i18n/index.js\";\nimport type { CacheFirstLoop } from \"../../loop.js\";\nimport { McpClient } from \"../../mcp/client.js\";\nimport { type InspectionReport, inspectMcpServer } from \"../../mcp/inspect.js\";\nimport { preflightStdioSpec } from \"../../mcp/preflight.js\";\nimport { type McpClientHost, bridgeMcpTools } from \"../../mcp/registry.js\";\nimport { overlayMatchedSpec, parseMcpSpec, specToRaw } from \"../../mcp/spec.js\";\nimport { buildMcpServerSummary } from \"../../mcp/summary.js\";\nimport { buildTransportFromSpec } from \"../../mcp/transport-from-spec.js\";\nimport type { ToolRegistry } from \"../../tools.js\";\nimport type { ToolSpec } from \"../../types.js\";\nimport { type McpLifecycleEvent, formatMcpLifecycleEvent } from \"../ui/mcp-lifecycle.js\";\nimport { formatMcpSlowToast } from \"../ui/mcp-toast.js\";\nimport type { McpServerSummary } from \"../ui/slash.js\";\n\nexport interface ProgressInfo {\n  toolName: string;\n  progress: number;\n  total?: number;\n  message?: string;\n}\n\ninterface SpecRecord {\n  spec: string;\n  client: McpClient;\n  summary: McpServerSummary;\n  /** Names of bridged tools — used for hot-unbridge. */\n  registeredNames: string[];\n  /** ToolSpec snapshots captured AFTER bridge — handed to loop.prefix.addTool on hot-add. */\n  registeredSpecs: ToolSpec[];\n}\n\nexport interface RuntimeContext {\n  getTools: () => ToolRegistry | undefined;\n  getMcpPrefix: () => string | undefined;\n  getRequestedCount: () => number;\n  progressSink: { current: ((info: ProgressInfo) => void) | null };\n}\n\nexport type McpLifecycleNotice =\n  | { kind: \"handshake\"; name: string }\n  | {\n      kind: \"connected\";\n      name: string;\n      tools: number;\n      resources: number;\n      prompts: number;\n      ms: number;\n    }\n  | { kind: \"disabled\"; name: string }\n  | { kind: \"failed\"; name: string; reason: string }\n  | { kind: \"slow\"; serverName: string; p95Ms: number; sampleSize: number }\n  | { kind: \"tools-ready\"; name: string; tools: number; ms: number }\n  | { kind: \"warn\"; name: string; reason: string };\n\nexport type McpLifecycleSink = (notice: McpLifecycleNotice) => void;\n\nexport const stderrLifecycleSink: McpLifecycleSink = (n) => {\n  if (n.kind === \"slow\") {\n    process.stderr.write(\n      `${formatMcpSlowToast({ name: n.serverName, p95Ms: n.p95Ms, sampleSize: n.sampleSize })}\\n`,\n    );\n    return;\n  }\n  if (n.kind === \"failed\") {\n    process.stderr.write(\n      `${formatMcpLifecycleEvent({ state: \"failed\", name: n.name, reason: n.reason })}\\n  → ${t(\"mcpLifecycle.failedSetupHint\")}\\n`,\n    );\n    return;\n  }\n  if (n.kind === \"connected\") {\n    process.stderr.write(\n      `${formatMcpLifecycleEvent({\n        state: \"connected\",\n        name: n.name,\n        tools: n.tools,\n        resources: n.resources,\n        prompts: n.prompts,\n        ms: n.ms,\n      })}\\n`,\n    );\n    return;\n  }\n  if (n.kind === \"tools-ready\") {\n    process.stderr.write(\n      `${formatMcpLifecycleEvent({ state: \"tools-ready\", name: n.name, tools: n.tools, ms: n.ms })}\\n`,\n    );\n    return;\n  }\n  if (n.kind === \"warn\") {\n    process.stderr.write(\n      `${formatMcpLifecycleEvent({ state: \"warn\", name: n.name, reason: n.reason })}\\n`,\n    );\n    return;\n  }\n  // handshake / disabled — no extra fields needed\n  process.stderr.write(\n    `${formatMcpLifecycleEvent({ state: n.kind as \"handshake\" | \"disabled\", name: n.name })}\\n`,\n  );\n};\n\nexport interface McpRuntime {\n  size(): number;\n  specs(): string[];\n  summaries(): McpServerSummary[];\n  addSpec(\n    raw: string,\n    loop?: CacheFirstLoop,\n  ): Promise<{ ok: true; summary: McpServerSummary } | { ok: false; reason: string }>;\n  removeSpec(raw: string, loop?: CacheFirstLoop): Promise<boolean>;\n  reloadFromConfig(loop?: CacheFirstLoop): Promise<{\n    added: string[];\n    removed: string[];\n    failed: Array<{ spec: string; reason: string }>;\n    summaries: McpServerSummary[];\n  }>;\n  closeAll(): Promise<void>;\n  /** Replace the sink that lifecycle events flow through — App.tsx swaps this in on mount so toasts land in the alt-screen UI instead of corrupting it via stderr. */\n  setLifecycleSink(sink: McpLifecycleSink): void;\n}\n\nexport function createMcpRuntime(ctx: RuntimeContext): McpRuntime {\n  const records = new Map<string, SpecRecord>();\n  const insertionOrder: string[] = [];\n  let sink: McpLifecycleSink = stderrLifecycleSink;\n\n  async function addSpec(\n    raw: string,\n    loop?: CacheFirstLoop,\n  ): Promise<{ ok: true; summary: McpServerSummary } | { ok: false; reason: string }> {\n    if (records.has(raw)) {\n      return { ok: true, summary: records.get(raw)!.summary };\n    }\n    const tools = ctx.getTools();\n    if (!tools) return { ok: false, reason: \"no tool registry available\" };\n    const cfg = readConfig();\n    const normalized = normalizeMcpConfig(cfg);\n    let label = \"anon\";\n    let mcp: McpClient | undefined;\n    // Per-server readiness gate — tool dispatches via the bridge await\n    // this before calling into `live.callTool`. Resolved on `connected`,\n    // rejected on `failed`, so a tool invoked mid-handshake waits\n    // (capped by `bridgeMcpTools`'s `readyTimeoutMs`) instead of\n    // surfacing a transport error.\n    let resolveReady!: () => void;\n    let rejectReady!: (err: Error) => void;\n    const ready = new Promise<void>((resolve, reject) => {\n      resolveReady = resolve;\n      rejectReady = reject;\n    });\n    // Avoid unhandledRejection if no consumer awaits `ready` yet.\n    ready.catch(() => undefined);\n    try {\n      const parsed = parseMcpSpec(raw);\n      label = parsed.name ?? \"anon\";\n      const matched = parsed.name ? normalized.find((s) => s.name === parsed.name) : undefined;\n      const spec = overlayMatchedSpec(parsed, matched);\n      if (spec.disabled) {\n        sink({ kind: \"disabled\", name: label });\n        rejectReady(new Error(`MCP server \"${label}\" is disabled`));\n        return { ok: false, reason: \"disabled by user\" };\n      }\n      sink({ kind: \"handshake\", name: label });\n      const t0 = Date.now();\n      const namePrefix = spec.name\n        ? `${spec.name}_`\n        : ctx.getRequestedCount() === 1 && ctx.getMcpPrefix()\n          ? (ctx.getMcpPrefix() as string)\n          : \"\";\n      if (spec.transport === \"stdio\") preflightStdioSpec(spec);\n      const transport = buildTransportFromSpec(spec);\n      mcp = new McpClient({ transport });\n      await mcp.initialize();\n      const host: McpClientHost = { client: mcp };\n      const bridge = await bridgeMcpTools(mcp, {\n        registry: tools,\n        namePrefix,\n        serverName: label,\n        host,\n        ready,\n        onProgress: (info) => ctx.progressSink.current?.(info),\n        onSlow: (info) =>\n          sink({\n            kind: \"slow\",\n            serverName: info.serverName,\n            p95Ms: info.p95Ms,\n            sampleSize: info.sampleSize,\n          }),\n      });\n      // Tools are registered — record the bridge NOW so the UI shows\n      // \"bridged\" even if later non-critical steps (inspect, hot-add) fail.\n      const ms = Date.now() - t0;\n      const allSpecs = tools.specs();\n      const registeredSpecs = allSpecs.filter((s) =>\n        bridge.registeredNames.includes(s.function.name),\n      );\n      // Create a provisional record immediately (tools already usable).\n      records.set(raw, {\n        spec: raw,\n        client: mcp,\n        summary: buildMcpServerSummary({\n          label,\n          spec: raw,\n          toolCount: bridge.registeredNames.length,\n          report: {\n            protocolVersion: mcp.protocolVersion,\n            serverInfo: mcp.serverInfo,\n            capabilities: mcp.serverCapabilities ?? {},\n            tools: { supported: true, items: [] },\n            resources: { supported: false, reason: \"still inspecting\" },\n            prompts: { supported: false, reason: \"still inspecting\" },\n            elapsedMs: ms,\n          },\n          host,\n          bridgeEnv: bridge.env,\n        }),\n        registeredNames: bridge.registeredNames,\n        registeredSpecs,\n      });\n      insertionOrder.push(raw);\n      resolveReady();\n      sink({\n        kind: \"tools-ready\",\n        name: label,\n        tools: bridge.registeredNames.length,\n        ms,\n      });\n\n      // Non-critical: inspect + hot-add. Failures here don't un-bridge.\n      let report: InspectionReport;\n      try {\n        report = await inspectMcpServer(mcp);\n      } catch {\n        report = {\n          protocolVersion: mcp.protocolVersion,\n          serverInfo: mcp.serverInfo,\n          capabilities: mcp.serverCapabilities ?? {},\n          tools: { supported: true, items: [] },\n          resources: { supported: false, reason: \"inspect failed\" },\n          prompts: { supported: false, reason: \"inspect failed\" },\n          elapsedMs: 0,\n        };\n      }\n      const resourceCount = report.resources.supported ? report.resources.items.length : 0;\n      const promptCount = report.prompts.supported ? report.prompts.items.length : 0;\n      // Re-emit with full inspection data (the provisional event reported 0).\n      sink({\n        kind: \"connected\",\n        name: label,\n        tools: bridge.registeredNames.length,\n        resources: resourceCount,\n        prompts: promptCount,\n        ms,\n      });\n      const summary = buildMcpServerSummary({\n        label,\n        spec: raw,\n        toolCount: bridge.registeredNames.length,\n        report,\n        host,\n        bridgeEnv: bridge.env,\n      });\n      // Replace the provisional record with the fully-inspected summary.\n      records.set(raw, {\n        spec: raw,\n        client: mcp,\n        summary,\n        registeredNames: bridge.registeredNames,\n        registeredSpecs,\n      });\n      // Hot-add: shift the prefix so the live loop sees the new tools\n      // on the very next turn. Each addTool is one cache-miss turn.\n      if (loop)\n        for (const s of registeredSpecs)\n          try {\n            loop.prefix.addTool(s);\n          } catch (err) {\n            sink({\n              kind: \"warn\",\n              name: label,\n              reason: `addTool failed for ${s.function.name}: ${(err as Error).message}`,\n            });\n          }\n      return { ok: true, summary };\n    } catch (err) {\n      // If we got far enough to create a provisional record, keep it —\n      // tools are already registered and usable even after a late failure.\n      const reason = (err as Error).message;\n      if (!records.has(raw)) {\n        await mcp?.close().catch(() => undefined);\n        rejectReady(new Error(`MCP server \"${label}\" failed to start: ${reason}`));\n        sink({ kind: \"failed\", name: label, reason });\n        return { ok: false, reason };\n      }\n      sink({ kind: \"warn\", name: label, reason });\n      return { ok: true, summary: records.get(raw)!.summary };\n    }\n  }\n\n  async function removeSpec(raw: string, loop?: CacheFirstLoop): Promise<boolean> {\n    const record = records.get(raw);\n    if (!record) return false;\n    await record.client.close().catch(() => undefined);\n    const tools = ctx.getTools();\n    for (const name of record.registeredNames) {\n      tools?.unregister(name);\n      loop?.prefix.removeTool(name);\n    }\n    records.delete(raw);\n    const idx = insertionOrder.indexOf(raw);\n    if (idx >= 0) insertionOrder.splice(idx, 1);\n    return true;\n  }\n\n  async function reloadFromConfig(loop?: CacheFirstLoop): Promise<{\n    added: string[];\n    removed: string[];\n    failed: Array<{ spec: string; reason: string }>;\n    summaries: McpServerSummary[];\n  }> {\n    const normalized = normalizeMcpConfig(readConfig());\n    const desired = normalized.map(specToRaw);\n    const desiredSet = new Set(desired);\n    const currentSet = new Set(records.keys());\n    const added: string[] = [];\n    const removed: string[] = [];\n    const failed: Array<{ spec: string; reason: string }> = [];\n\n    for (const spec of [...currentSet]) {\n      if (!desiredSet.has(spec)) {\n        await removeSpec(spec, loop);\n        removed.push(spec);\n      }\n    }\n    for (const spec of desired) {\n      if (currentSet.has(spec)) continue;\n      const result = await addSpec(spec, loop);\n      if (result.ok) added.push(spec);\n      else failed.push({ spec, reason: result.reason });\n    }\n    return { added, removed, failed, summaries: summaries() };\n  }\n\n  function specs(): string[] {\n    return [...insertionOrder];\n  }\n  function summaries(): McpServerSummary[] {\n    return insertionOrder\n      .map((s) => records.get(s)?.summary)\n      .filter((s): s is McpServerSummary => Boolean(s));\n  }\n  async function closeAll(): Promise<void> {\n    for (const r of records.values()) await r.client.close().catch(() => undefined);\n    records.clear();\n    insertionOrder.length = 0;\n  }\n  function setLifecycleSink(s: McpLifecycleSink): void {\n    sink = s;\n  }\n  return {\n    size: () => records.size,\n    specs,\n    summaries,\n    addSpec,\n    removeSpec,\n    reloadFromConfig,\n    closeAll,\n    setLifecycleSink,\n  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package/dist/cli/{chunk-4H3ZRJ2U.js → chunk-4CTDEJUF.js}

@@ -1,13 +1,14 @@
 #!/usr/bin/env node
+import { createRequire as __cr } from 'node:module'; if (typeof globalThis.require === 'undefined') { globalThis.require = __cr(import.meta.url); }
 import {
   ignoredByLayers,
   loadGitignoreAt
-} from "./chunk-5X7LZJDE.js";
+} from "./chunk-S4XVGLRW.js";
 import {
   compileFilters,
   defaultIndexConfig,
   resolveSemanticEmbeddingConfig
-} from "./chunk-65Q5HQ26.js";
+} from "./chunk-AVFXO2EZ.js";
 
 // src/index/semantic/builder.ts
 import { promises as fs3 } from "fs";
@@ -869,4 +870,4 @@ export {
   indexExists,
   indexCompatible
 };
-//# sourceMappingURL=chunk-4H3ZRJ2U.js.map
+//# sourceMappingURL=chunk-4CTDEJUF.js.map

package/dist/cli/{chunk-4H3ZRJ2U.js.map → chunk-4CTDEJUF.js.map}

@@ -1 +1 @@
-{"version":3,"sources":["../../src/index/semantic/builder.ts","../../src/index/semantic/chunker.ts","../../src/index/semantic/embedding.ts","../../src/index/semantic/store.ts"],"sourcesContent":["import { promises as fs } from \"node:fs\";\nimport path from \"node:path\";\nimport { type ResolvedEmbeddingConfig, resolveSemanticEmbeddingConfig } from \"../../config.js\";\nimport { type ResolvedIndexConfig, defaultIndexConfig } from \"../config.js\";\nimport { walkChunks } from \"./chunker.js\";\nimport type { CodeChunk, SkipReason } from \"./chunker.js\";\nimport { embed, embedAll, probeOllama } from \"./embedding.js\";\nimport type { EmbedOptions } from \"./embedding.js\";\nimport {\n  compareIndexIdentity,\n  normalize,\n  openStore,\n  readIndexMeta,\n  wipeStoreFiles,\n} from \"./store.js\";\nimport type { IndexEntry, IndexIdentity, IndexMismatch, SearchHit } from \"./store.js\";\n\nexport const INDEX_DIR_NAME = path.join(\".reasonix\", \"semantic\");\n\ntype BuildOptions = {\n  provider?: \"ollama\" | \"openai-compat\";\n  baseUrl?: string;\n  apiKey?: string;\n  model?: string;\n  extraBody?: Record<string, unknown>;\n  timeoutMs?: number;\n  signal?: AbortSignal;\n  windowLines?: number;\n  overlap?: number;\n  rebuild?: boolean;\n  indexConfig?: ResolvedIndexConfig;\n  onProgress?: (info: BuildProgress) => void;\n  configPath?: string;\n};\n\nexport type SkipBuckets = Record<SkipReason, number>;\n\nexport interface BuildProgress {\n  phase: \"setup\" | \"scan\" | \"embed\" | \"write\" | \"done\";\n  filesScanned?: number;\n  chunksTotal?: number;\n  chunksDone?: number;\n  filesSkipped?: number;\n  filesChanged?: number;\n  skipBuckets?: SkipBuckets;\n}\n\nexport interface BuildResult {\n  filesScanned: number;\n  filesChanged: number;\n  chunksAdded: number;\n  chunksRemoved: number;\n  chunksSkipped: number;\n  skipBuckets: SkipBuckets;\n  durationMs: number;\n}\n\nfunction emptyBuckets(): SkipBuckets {\n  return {\n    defaultDir: 0,\n    defaultFile: 0,\n    binaryExt: 0,\n    binaryContent: 0,\n    tooLarge: 0,\n    gitignore: 0,\n    pattern: 0,\n    readError: 0,\n  };\n}\n\nexport async function buildIndex(root: string, opts: BuildOptions = {}): Promise<BuildResult> {\n  const t0 = Date.now();\n  const indexDir = path.join(root, INDEX_DIR_NAME);\n  const resolved = resolveBuildEmbeddingConfig(opts);\n\n  opts.onProgress?.({ phase: \"setup\" });\n  throwIfAborted(opts.signal);\n  await probeEmbeddingProvider(resolved, opts.signal);\n  throwIfAborted(opts.signal);\n\n  if (opts.rebuild) await wipeStoreFiles(indexDir);\n  const store = await openStore(indexDir, {\n    provider: resolved.provider,\n    model: resolved.model,\n  });\n\n  const lastMtimes = store.fileMtimes();\n  const seenPaths = new Set<string>();\n  const fileChunks = new Map<string, { chunks: CodeChunk[]; mtimeMs: number }>();\n  let filesScanned = 0;\n  let filesSkipped = 0;\n  const skipBuckets = emptyBuckets();\n  for await (const chunk of walkChunks(root, {\n    windowLines: opts.windowLines,\n    overlap: opts.overlap,\n    config: opts.indexConfig ?? 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`${c.path}:${c.startLine}-${c.endLine}` : `chunk #${idx}`;\n        const msg = err instanceof Error ? err.message : String(err);\n        process.stderr.write(`\\n  ! skipped ${where}: ${msg}\\n`);\n      },\n    });\n    throwIfAborted(opts.signal);\n    const entries: IndexEntry[] = [];\n    for (let i = 0; i < bucket.chunks.length; i++) {\n      const vec = vectors[i];\n      if (!vec) continue;\n      const c = bucket.chunks[i];\n      if (!c) continue;\n      normalize(vec);\n      entries.push({\n        path: c.path,\n        startLine: c.startLine,\n        endLine: c.endLine,\n        text: c.text,\n        embedding: vec,\n        mtimeMs: bucket.mtimeMs,\n      });\n    }\n    throwIfAborted(opts.signal);\n    if (entries.length > 0) await store.add(entries);\n    chunksAdded += entries.length;\n  }\n\n  throwIfAborted(opts.signal);\n  opts.onProgress?.({\n    phase: \"done\",\n    filesScanned,\n    filesSkipped,\n    filesChanged,\n    chunksTotal,\n    chunksDone,\n    skipBuckets,\n  });\n\n  return {\n    filesScanned,\n    filesChanged,\n    chunksAdded,\n    chunksRemoved: removed,\n    chunksSkipped,\n    skipBuckets,\n    durationMs: Date.now() - t0,\n  };\n}\n\ntype QueryOptions = {\n  provider?: \"ollama\" | \"openai-compat\";\n  baseUrl?: string;\n  apiKey?: string;\n  model?: string;\n  extraBody?: Record<string, unknown>;\n  timeoutMs?: number;\n  signal?: AbortSignal;\n  topK?: number;\n  minScore?: number;\n  configPath?: string;\n};\n\nexport async function querySemantic(\n  root: string,\n  query: string,\n  opts: QueryOptions = {},\n): Promise<SearchHit[] | null> {\n  const indexDir = path.join(root, INDEX_DIR_NAME);\n  const resolved = resolveQueryEmbeddingConfig(opts);\n  const store = await openStore(indexDir, {\n    provider: resolved.provider,\n    model: resolved.model,\n  });\n  if (store.empty) return null;\n  const qvec = await embed(query, { ...resolved, signal: opts.signal });\n  normalize(qvec);\n  return store.search(qvec, opts.topK ?? 8, opts.minScore ?? 0.3);\n}\n\nexport async function indexExists(root: string): Promise<boolean> {\n  const meta = path.join(root, INDEX_DIR_NAME, \"index.meta.json\");\n  try {\n    await fs.access(meta);\n    return true;\n  } catch {\n    return false;\n  }\n}\n\nexport async function indexCompatible(\n  root: string,\n  opts: { provider?: \"ollama\" | \"openai-compat\"; model?: string; configPath?: string } = {},\n): Promise<boolean> {\n  const meta = await readIndexMeta(path.join(root, INDEX_DIR_NAME));\n  if (!meta) return false;\n  return compareIndexIdentity(meta, resolveIndexIdentity(opts)) === null;\n}\n\nfunction resolveBuildEmbeddingConfig(opts: BuildOptions): ResolvedEmbeddingConfig {\n  if (opts.provider === \"openai-compat\") {\n    if (!opts.baseUrl || !opts.apiKey || !opts.model) {\n      throw new Error(\n        \"OpenAI-compatible embeddings require baseUrl, apiKey, and model when passed directly.\",\n      );\n    }\n    return {\n      provider: \"openai-compat\",\n      baseUrl: opts.baseUrl,\n      apiKey: opts.apiKey,\n      model: opts.model,\n      extraBody: opts.extraBody ?? {},\n      timeoutMs: opts.timeoutMs ?? 30_000,\n    };\n  }\n  if (opts.baseUrl || opts.model) {\n    return {\n      provider: \"ollama\",\n      baseUrl: opts.baseUrl ?? process.env.OLLAMA_URL ?? \"http://localhost:11434\",\n      model: opts.model ?? process.env.REASONIX_EMBED_MODEL ?? \"nomic-embed-text\",\n      timeoutMs: opts.timeoutMs ?? 30_000,\n    };\n  }\n  return resolveSemanticEmbeddingConfig(opts.configPath);\n}\n\nfunction resolveIndexIdentity(opts: {\n  provider?: \"ollama\" | \"openai-compat\";\n  model?: string;\n  configPath?: string;\n}): IndexIdentity {\n  if (opts.provider && opts.model) {\n    return { provider: opts.provider, model: opts.model };\n  }\n  const resolved = resolveSemanticEmbeddingConfig(opts.configPath);\n  return { provider: resolved.provider, model: resolved.model };\n}\n\nfunction resolveQueryEmbeddingConfig(opts: QueryOptions): ResolvedEmbeddingConfig {\n  return resolveBuildEmbeddingConfig(opts);\n}\n\nasync function probeEmbeddingProvider(\n  config: ResolvedEmbeddingConfig,\n  signal: AbortSignal | undefined,\n): Promise<void> {\n  if (config.provider === \"openai-compat\") return;\n  const probe = await probeOllama({ baseUrl: config.baseUrl, signal });\n  if (!probe.ok) {\n    throw new Error(\n      `Ollama is not reachable: ${probe.error}. Install from https://ollama.com, then \\`ollama serve\\` and \\`ollama pull ${config.model}\\`.`,\n    );\n  }\n}\n\nfunction throwIfAborted(signal: AbortSignal | undefined): void {\n  if (signal?.aborted) {\n    throw new Error(\"semantic indexing aborted\");\n  }\n}\n","/** Line-window chunker (not AST) — language-agnostic, every chunk carries exact startLine/endLine for cite-back. */\n\nimport { promises as fs } from \"node:fs\";\nimport path from \"node:path\";\nimport { type GitignoreLayer, ignoredByLayers, loadGitignoreAt } from \"../../gitignore.js\";\nimport {\n  type IndexFilters,\n  type ResolvedIndexConfig,\n  compileFilters,\n  defaultIndexConfig,\n} from \"../config.js\";\n\nexport interface CodeChunk {\n  /** Path relative to the index root, forward slashes. Stable across OS. */\n  path: string;\n  /** 1-based, inclusive. */\n  startLine: number;\n  endLine: number;\n  text: string;\n}\n\nexport type SkipReason =\n  | \"defaultDir\"\n  | \"defaultFile\"\n  | \"binaryExt\"\n  | \"binaryContent\"\n  | \"tooLarge\"\n  | \"gitignore\"\n  | \"pattern\"\n  | \"readError\";\n\nexport interface ChunkOptions {\n  /** Lines per window. Default 60. */\n  windowLines?: number;\n  /** Lines of overlap between consecutive windows. Default 12. */\n  overlap?: number;\n  /** Default 4000 — keeps unicode-heavy slices under nomic-embed-text's 8K-token window. */\n  maxChunkChars?: number;\n  /** Resolved exclude/limit settings. Falls back to package defaults when omitted. */\n  config?: ResolvedIndexConfig;\n  /** Tally callback for files that didn't make it into the index. */\n  onSkip?: (relPath: string, reason: SkipReason) => void;\n}\n\n/** Default character cap per chunk — sized for nomic-embed-text. */\nexport const DEFAULT_MAX_CHUNK_CHARS = 4000;\n\nexport function chunkText(\n  text: string,\n  filePath: string,\n  windowLines: number,\n  overlap: number,\n  maxChunkChars: number = DEFAULT_MAX_CHUNK_CHARS,\n): CodeChunk[] {\n  const lines = text.split(/\\r?\\n/);\n  if (lines.length === 0 || (lines.length === 1 && lines[0] === \"\")) return [];\n  const stride = Math.max(1, windowLines - overlap);\n  const chunks: CodeChunk[] = [];\n  for (let start = 0; start < lines.length; start += stride) {\n    const end = Math.min(lines.length, start + windowLines);\n    const slice = lines.slice(start, end).join(\"\\n\").trim();\n    if (slice.length === 0) {\n      if (end >= lines.length) break;\n      continue;\n    }\n    const window: CodeChunk = {\n      path: filePath,\n      startLine: start + 1,\n      endLine: end,\n      text: slice,\n    };\n    for (const sub of safeSplit(window, maxChunkChars)) chunks.push(sub);\n    if (end >= lines.length) break;\n  }\n  return chunks;\n}\n\nfunction safeSplit(chunk: CodeChunk, maxChars: number): CodeChunk[] {\n  if (chunk.text.length <= maxChars) return [chunk];\n  const lines = chunk.text.split(\"\\n\");\n  const out: CodeChunk[] = [];\n  let bufLines: string[] = [];\n  let bufStart = chunk.startLine;\n  let bufLen = 0;\n  const flush = (untilLineNo: number): void => {\n    if (bufLines.length === 0) return;\n    out.push({\n      path: chunk.path,\n      startLine: bufStart,\n      endLine: untilLineNo,\n      text: bufLines.join(\"\\n\"),\n    });\n    bufLines = [];\n    bufLen = 0;\n  };\n  for (let i = 0; i < lines.length; i++) {\n    const line = lines[i] ?? \"\";\n    const lineLen = line.length + 1;\n    if (lineLen > maxChars) {\n      flush(chunk.startLine + i - 1);\n      out.push({\n        path: chunk.path,\n        startLine: chunk.startLine + i,\n        endLine: chunk.startLine + i,\n        text: line.slice(0, maxChars),\n      });\n      bufStart = chunk.startLine + i + 1;\n      continue;\n    }\n    if (bufLen + lineLen > maxChars && bufLines.length > 0) {\n      flush(chunk.startLine + i - 1);\n      bufStart = chunk.startLine + i;\n    }\n    bufLines.push(line);\n    bufLen += lineLen;\n  }\n  flush(chunk.endLine);\n  return out;\n}\n\nfunction toForwardRel(root: string, abs: string): string {\n  return path.relative(root, abs).split(path.sep).join(\"/\");\n}\n\ninterface WalkFrame {\n  dir: string;\n  layers: readonly GitignoreLayer[];\n}\n\nexport async function* walkChunks(\n  root: string,\n  opts: ChunkOptions = {},\n): AsyncGenerator<CodeChunk> {\n  const windowLines = opts.windowLines ?? 60;\n  const overlap = Math.min(opts.overlap ?? 12, Math.max(0, windowLines - 1));\n  const maxChunkChars = opts.maxChunkChars ?? DEFAULT_MAX_CHUNK_CHARS;\n  const filters: IndexFilters = compileFilters(opts.config ?? defaultIndexConfig());\n  const onSkip = opts.onSkip ?? (() => {});\n\n  const initial: GitignoreLayer[] = [];\n  if (filters.respectGitignore) {\n    const rootIg = await loadGitignoreAt(root);\n    if (rootIg) initial.push({ dirAbs: root, ig: rootIg });\n  }\n\n  const stack: WalkFrame[] = [{ dir: root, layers: initial }];\n  while (stack.length > 0) {\n    const frame = stack.pop();\n    if (!frame) break;\n    const { dir, layers } = frame;\n    let entries: import(\"node:fs\").Dirent[];\n    try {\n      entries = await fs.readdir(dir, { withFileTypes: true });\n    } catch {\n      continue;\n    }\n    for (const entry of entries) {\n      const name = entry.name;\n      const abs = path.join(dir, name);\n      const rel = toForwardRel(root, abs);\n      if (entry.isDirectory()) {\n        if (filters.dirSet.has(name)) {\n          onSkip(rel, \"defaultDir\");\n          continue;\n        }\n        if (filters.respectGitignore && ignoredByLayers(layers, abs, true)) {\n          onSkip(rel, \"gitignore\");\n          continue;\n        }\n        if (filters.patternMatch(`${rel}/`) || filters.patternMatch(rel)) {\n          onSkip(rel, \"pattern\");\n          continue;\n        }\n        const childLayers = filters.respectGitignore ? await extendLayers(layers, abs) : layers;\n        stack.push({ dir: abs, layers: childLayers });\n        continue;\n      }\n      if (!entry.isFile()) continue;\n      if (filters.fileSet.has(name)) {\n        onSkip(rel, \"defaultFile\");\n        continue;\n      }\n      const ext = path.extname(name).toLowerCase();\n      if (filters.extSet.has(ext)) {\n        onSkip(rel, \"binaryExt\");\n        continue;\n      }\n      if (filters.respectGitignore && ignoredByLayers(layers, abs, false)) {\n        onSkip(rel, \"gitignore\");\n        continue;\n      }\n      if (filters.patternMatch(rel)) {\n        onSkip(rel, \"pattern\");\n        continue;\n      }\n      // Open once and check size + read against the same fd. Skipping\n      // a path-based `fs.stat` upstream is intentional — stat→open is\n      // the TOCTOU shape CodeQL flags as js/file-system-race.\n      const result = await readSizeBoundedFile(abs, filters.maxFileBytes);\n      if (result.kind === \"skip\") {\n        onSkip(rel, result.reason);\n        continue;\n      }\n      const text = result.text;\n      if (text.indexOf(\"\\0\") !== -1) {\n        onSkip(rel, \"binaryContent\");\n        continue;\n      }\n      for (const chunk of chunkText(text, rel, windowLines, overlap, maxChunkChars)) {\n        yield chunk;\n      }\n    }\n  }\n}\n\nasync function extendLayers(\n  layers: readonly GitignoreLayer[],\n  dirAbs: string,\n): Promise<readonly GitignoreLayer[]> {\n  const ig = await loadGitignoreAt(dirAbs);\n  return ig ? [...layers, { dirAbs, ig }] : layers;\n}\n\nexport async function chunkDirectory(root: string, opts: ChunkOptions = {}): Promise<CodeChunk[]> {\n  const out: CodeChunk[] = [];\n  for await (const c of walkChunks(root, opts)) out.push(c);\n  return out;\n}\n\ntype ReadFileResult = { kind: \"ok\"; text: string } | { kind: \"skip\"; reason: SkipReason };\n\nasync function readSizeBoundedFile(abs: string, maxBytes: number): Promise<ReadFileResult> {\n  try {\n    const fh = await fs.open(abs, \"r\");\n    try {\n      const stat = await fh.stat();\n      if (stat.size > maxBytes) return { kind: \"skip\", reason: \"tooLarge\" };\n      return { kind: \"ok\", text: await fh.readFile(\"utf8\") };\n    } finally {\n      await fh.close();\n    }\n  } catch {\n    return { kind: \"skip\", reason: \"readError\" };\n  }\n}\n","const DEFAULT_OLLAMA_URL = \"http://localhost:11434\";\nconst DEFAULT_EMBED_MODEL = \"nomic-embed-text\";\nconst DEFAULT_TIMEOUT_MS = 30_000;\n\nexport type EmbedOptions =\n  | {\n      provider?: \"ollama\";\n      baseUrl?: string;\n      model?: string;\n      timeoutMs?: number;\n      signal?: AbortSignal;\n    }\n  | {\n      provider: \"openai-compat\";\n      baseUrl: string;\n      apiKey: string;\n      model: string;\n      extraBody?: Record<string, unknown>;\n      timeoutMs?: number;\n      signal?: AbortSignal;\n    };\n\nexport class EmbeddingError extends Error {\n  constructor(\n    message: string,\n    public override readonly cause?: unknown,\n  ) {\n    super(message);\n    this.name = \"EmbeddingError\";\n  }\n}\n\nexport async function embed(text: string, opts: EmbedOptions = {}): Promise<Float32Array> {\n  if (opts.provider === \"openai-compat\") return await embedOpenAICompat(text, opts);\n  return await embedOllama(text, opts);\n}\n\nexport async function embedAll(\n  texts: readonly string[],\n  opts: EmbedOptions & {\n    onProgress?: (done: number, total: number) => void;\n    onError?: (index: number, err: unknown) => void;\n  } = {},\n): Promise<Array<Float32Array | null>> {\n  if (opts.provider === \"openai-compat\") return await embedAllOpenAICompat(texts, opts);\n  const out: Array<Float32Array | null> = [];\n  for (let i = 0; i < texts.length; i++) {\n    if (opts.signal?.aborted) throw new EmbeddingError(\"embedding aborted\");\n    const text = texts[i];\n    if (text === undefined) continue;\n    try {\n      out.push(await embed(text, opts));\n    } catch (err) {\n      if (isAbortError(err) || opts.signal?.aborted) {\n        throw new EmbeddingError(\"embedding aborted\", err);\n      }\n      opts.onError?.(i, err);\n      out.push(null);\n    }\n    opts.onProgress?.(i + 1, texts.length);\n  }\n  return out;\n}\n\nexport async function probeOllama(\n  opts: { baseUrl?: string; signal?: AbortSignal } = {},\n): Promise<{ ok: true; models: string[] } | { ok: false; error: string }> {\n  const baseUrl = opts.baseUrl ?? process.env.OLLAMA_URL ?? DEFAULT_OLLAMA_URL;\n  try {\n    const res = await fetch(`${baseUrl}/api/tags`, { signal: opts.signal });\n    if (!res.ok) return { ok: false, error: `Ollama returned ${res.status}` };\n    const json = (await res.json()) as { models?: Array<{ name?: string }> };\n    const models = (json.models ?? [])\n      .map((m) => m.name)\n      .filter((n): n is string => typeof n === \"string\");\n    return { ok: true, models };\n  } catch (err) {\n    const msg = err instanceof Error ? err.message : String(err);\n    return { ok: false, error: msg };\n  }\n}\n\nasync function embedOllama(\n  text: string,\n  opts: Extract<EmbedOptions, { provider?: \"ollama\" }>,\n): Promise<Float32Array> {\n  const baseUrl = opts.baseUrl ?? process.env.OLLAMA_URL ?? DEFAULT_OLLAMA_URL;\n  const model = opts.model ?? process.env.REASONIX_EMBED_MODEL ?? DEFAULT_EMBED_MODEL;\n  const timeoutMs = opts.timeoutMs ?? DEFAULT_TIMEOUT_MS;\n  const { controller, cleanup } = composeAbort(opts.signal, timeoutMs, \"embedding timeout\");\n\n  let res: Response;\n  try {\n    res = await fetch(`${baseUrl}/api/embeddings`, {\n      method: \"POST\",\n      headers: { \"content-type\": \"application/json\" },\n      body: JSON.stringify({ model, prompt: text }),\n      signal: controller.signal,\n    });\n  } catch (err) {\n    cleanup();\n    const msg = err instanceof Error ? err.message : String(err);\n    if (/ECONNREFUSED|connect ECONNREFUSED|fetch failed/i.test(msg)) {\n      throw new EmbeddingError(\n        `Cannot reach Ollama at ${baseUrl}. Install from https://ollama.com, then run \\`ollama pull ${model}\\` and \\`ollama serve\\`. Override the URL via OLLAMA_URL.`,\n        err,\n      );\n    }\n    throw new EmbeddingError(`embedding request failed: ${msg}`, err);\n  } finally {\n    cleanup();\n  }\n\n  if (!res.ok) {\n    const body = await res.text().catch(() => \"\");\n    if (res.status === 404 && /model.*not found/i.test(body)) {\n      throw new EmbeddingError(\n        `Embedding model \"${model}\" not pulled. Run \\`ollama pull ${model}\\` once, then retry.`,\n      );\n    }\n    throw new EmbeddingError(`Ollama returned ${res.status}: ${body.slice(0, 200)}`);\n  }\n\n  const json = (await res.json()) as { embedding?: unknown };\n  if (!json.embedding || !Array.isArray(json.embedding)) {\n    throw new EmbeddingError(\"Ollama response missing 'embedding' array\");\n  }\n  return toFloat32Array(json.embedding, \"embedding\");\n}\n\nasync function embedOpenAICompat(\n  text: string,\n  opts: Extract<EmbedOptions, { provider: \"openai-compat\" }>,\n): Promise<Float32Array> {\n  const vectors = await requestOpenAICompatEmbeddings(text, opts);\n  const v = vectors[0];\n  if (!v) {\n    throw new EmbeddingError(\n      `Embedding provider returned no vector for the input (model ${opts.model})`,\n    );\n  }\n  return v;\n}\n\nasync function embedAllOpenAICompat(\n  texts: readonly string[],\n  opts: Extract<EmbedOptions, { provider: \"openai-compat\" }> & {\n    onProgress?: (done: number, total: number) => void;\n    onError?: (index: number, err: unknown) => void;\n  },\n): Promise<Array<Float32Array | null>> {\n  if (texts.length === 0) return [];\n  if (opts.signal?.aborted) throw new EmbeddingError(\"embedding aborted\");\n  const vectors = await requestOpenAICompatEmbeddings([...texts], opts);\n  for (let i = 0; i < vectors.length; i++) {\n    if (vectors[i] === null) {\n      opts.onError?.(\n        i,\n        new EmbeddingError(\n          `provider dropped input ${i} from the batch (model ${opts.model} returned no embedding for it)`,\n        ),\n      );\n    }\n  }\n  opts.onProgress?.(texts.length, texts.length);\n  return vectors;\n}\n\nasync function requestOpenAICompatEmbeddings(\n  input: string | string[],\n  opts: Extract<EmbedOptions, { provider: \"openai-compat\" }>,\n): Promise<Array<Float32Array | null>> {\n  const timeoutMs = opts.timeoutMs ?? DEFAULT_TIMEOUT_MS;\n  const { controller, cleanup } = composeAbort(opts.signal, timeoutMs, \"embedding timeout\");\n  const url = opts.baseUrl.trim();\n  const body = {\n    ...(opts.extraBody ?? {}),\n    model: opts.model,\n    input,\n    encoding_format: \"float\",\n  };\n\n  let res: Response;\n  try {\n    res = await fetch(url, {\n      method: \"POST\",\n      headers: {\n        authorization: `Bearer ${opts.apiKey}`,\n        \"content-type\": \"application/json\",\n      },\n      body: JSON.stringify(body),\n      signal: controller.signal,\n    });\n  } catch (err) {\n    cleanup();\n    if (isAbortError(err) || opts.signal?.aborted) {\n      throw new EmbeddingError(\"embedding aborted\", err);\n    }\n    const msg = err instanceof Error ? err.message : String(err);\n    throw new EmbeddingError(`Cannot reach OpenAI-compatible embeddings at ${url}: ${msg}`, err);\n  } finally {\n    cleanup();\n  }\n\n  if (!res.ok) {\n    const raw = await res.text().catch(() => \"\");\n    const bodyText = raw.slice(0, 300);\n    if (res.status === 401 || res.status === 403) {\n      throw new EmbeddingError(\n        `OpenAI-compatible API rejected the API key for ${url}. Response ${res.status}: ${bodyText}`,\n      );\n    }\n    if (res.status === 404) {\n      throw new EmbeddingError(\n        `Embeddings endpoint not found at ${url}. Check the configured API URL. Response ${res.status}: ${bodyText}`,\n      );\n    }\n    if (res.status === 400) {\n      throw new EmbeddingError(\n        `Embedding provider returned 400: ${bodyText}. Check model and custom request body fields.`,\n      );\n    }\n    throw new EmbeddingError(`OpenAI-compatible API returned ${res.status}: ${bodyText}`);\n  }\n\n  const json = (await res.json()) as {\n    data?: Array<{ index?: unknown; embedding?: unknown }>;\n  };\n  if (!Array.isArray(json.data)) {\n    throw new EmbeddingError(\"OpenAI-compatible response missing 'data' array\");\n  }\n  const size = Array.isArray(input) ? input.length : 1;\n  const out: Array<Float32Array | null> = new Array(size).fill(null);\n  for (const row of json.data) {\n    const rawIndex = row.index;\n    if (\n      typeof rawIndex !== \"number\" ||\n      !Number.isInteger(rawIndex) ||\n      rawIndex < 0 ||\n      rawIndex >= size\n    ) {\n      throw new EmbeddingError(\"OpenAI-compatible response returned an invalid embedding index\");\n    }\n    const index = rawIndex;\n    if (!Array.isArray(row.embedding)) {\n      throw new EmbeddingError(`OpenAI-compatible response missing embedding for index ${index}`);\n    }\n    out[index] = toFloat32Array(row.embedding, `data[${index}].embedding`);\n  }\n  return out;\n}\n\nfunction toFloat32Array(values: unknown[], label: string): Float32Array {\n  const out = new Float32Array(values.length);\n  for (let i = 0; i < values.length; i++) {\n    const value = values[i];\n    if (typeof value !== \"number\" || !Number.isFinite(value)) {\n      throw new EmbeddingError(`${label}[${i}] is not a finite number`);\n    }\n    out[i] = value;\n  }\n  return out;\n}\n\nfunction composeAbort(\n  signal: AbortSignal | undefined,\n  timeoutMs: number,\n  reason: string,\n): { controller: AbortController; cleanup: () => void } {\n  const controller = new AbortController();\n  const onCallerAbort = () => controller.abort(signal?.reason);\n  if (signal) {\n    if (signal.aborted) controller.abort(signal.reason);\n    else signal.addEventListener(\"abort\", onCallerAbort, { once: true });\n  }\n  const timer = setTimeout(() => controller.abort(new Error(reason)), timeoutMs);\n  return {\n    controller,\n    cleanup: () => {\n      clearTimeout(timer);\n      if (signal) signal.removeEventListener(\"abort\", onCallerAbort);\n    },\n  };\n}\n\nfunction isAbortError(err: unknown): boolean {\n  if (err instanceof Error) {\n    if (err.name === \"AbortError\") return true;\n    if (/aborted/i.test(err.message)) return true;\n  }\n  return false;\n}\n","/** JSONL append-only (Ctrl+C-safe) + linear cosine scan over unboxed Float32Array — fast enough for ≤10k chunks. */\n\nimport { promises as fs } from \"node:fs\";\nimport path from \"node:path\";\nimport type { EmbeddingProvider } from \"../../config.js\";\nimport type { CodeChunk } from \"./chunker.js\";\n\nexport interface IndexEntry extends CodeChunk {\n  embedding: Float32Array;\n  mtimeMs: number;\n}\n\nexport interface SearchHit {\n  entry: IndexEntry;\n  score: number;\n}\n\nexport type IndexMismatch = \"provider\" | \"model\";\n\nexport interface IndexIdentity {\n  provider: EmbeddingProvider;\n  model: string;\n}\n\nexport interface IndexMeta extends IndexIdentity {\n  version: number;\n  dim: number;\n  updatedAt: string;\n}\n\nexport const STORE_VERSION = 1;\n\nconst META_FILE = \"index.meta.json\";\nconst DATA_FILE = \"index.jsonl\";\n\nexport async function readIndexMeta(indexDir: string): Promise<IndexMeta | null> {\n  try {\n    const raw = await fs.readFile(path.join(indexDir, META_FILE), \"utf8\");\n    return normalizeMeta(JSON.parse(raw) as Partial<IndexMeta>);\n  } catch {\n    return null;\n  }\n}\n\nexport function compareIndexIdentity(\n  meta: IndexIdentity,\n  identity: IndexIdentity,\n): IndexMismatch | null {\n  if (meta.provider !== identity.provider) return \"provider\";\n  if (meta.model !== identity.model) return \"model\";\n  return null;\n}\n\nexport async function wipeStoreFiles(indexDir: string): Promise<void> {\n  await fs.rm(path.join(indexDir, DATA_FILE), { force: true });\n  await fs.rm(path.join(indexDir, META_FILE), { force: true });\n}\n\nexport class SemanticStore {\n  private entries: IndexEntry[] = [];\n  private byPath = new Map<string, IndexEntry[]>();\n  private dim = 0;\n\n  constructor(\n    public readonly indexDir: string,\n    public readonly identity: IndexIdentity,\n  ) {}\n\n  get provider(): EmbeddingProvider {\n    return this.identity.provider;\n  }\n\n  get model(): string {\n    return this.identity.model;\n  }\n\n  get empty(): boolean {\n    return this.entries.length === 0;\n  }\n\n  get size(): number {\n    return this.entries.length;\n  }\n\n  get all(): readonly IndexEntry[] {\n    return this.entries;\n  }\n\n  fileMtimes(): Map<string, number> {\n    const out = new Map<string, number>();\n    for (const [p, group] of this.byPath) {\n      const first = group[0];\n      if (first) out.set(p, first.mtimeMs);\n    }\n    return out;\n  }\n\n  async add(entries: readonly IndexEntry[]): Promise<void> {\n    if (entries.length === 0) return;\n    if (this.dim === 0) this.dim = entries[0]!.embedding.length;\n    const lines: string[] = [];\n    for (const e of entries) {\n      if (e.embedding.length !== this.dim) {\n        throw new Error(\n          `embedding dim mismatch: expected ${this.dim}, got ${e.embedding.length} for ${e.path}:${e.startLine}`,\n        );\n      }\n      this.entries.push(e);\n      const list = this.byPath.get(e.path);\n      if (list) list.push(e);\n      else this.byPath.set(e.path, [e]);\n      lines.push(serializeEntry(e));\n    }\n    await fs.mkdir(this.indexDir, { recursive: true });\n    await fs.appendFile(path.join(this.indexDir, DATA_FILE), `${lines.join(\"\\n\")}\\n`, \"utf8\");\n    await this.writeMeta();\n  }\n\n  async remove(paths: readonly string[]): Promise<number> {\n    if (paths.length === 0) return 0;\n    const drop = new Set(paths);\n    const before = this.entries.length;\n    this.entries = this.entries.filter((e) => !drop.has(e.path));\n    for (const p of paths) this.byPath.delete(p);\n    const removed = before - this.entries.length;\n    if (removed > 0) await this.flush();\n    return removed;\n  }\n\n  search(query: Float32Array, topK = 8, minScore = 0): SearchHit[] {\n    if (this.entries.length === 0) return [];\n    if (query.length !== this.dim && this.dim !== 0) {\n      throw new Error(`query dim ${query.length} ≠ index dim ${this.dim}`);\n    }\n    const heap: SearchHit[] = [];\n    for (const entry of this.entries) {\n      const score = dot(query, entry.embedding);\n      if (score < minScore) continue;\n      if (heap.length < topK) {\n        heap.push({ entry, score });\n        if (heap.length === topK) heap.sort((a, b) => a.score - b.score);\n      } else if (score > heap[0]!.score) {\n        heap[0] = { entry, score };\n        for (let i = 0; i < heap.length - 1; i++) {\n          if (heap[i]!.score > heap[i + 1]!.score) {\n            const tmp = heap[i]!;\n            heap[i] = heap[i + 1]!;\n            heap[i + 1] = tmp;\n          }\n        }\n      }\n    }\n    return heap.sort((a, b) => b.score - a.score);\n  }\n\n  private async flush(): Promise<void> {\n    await fs.mkdir(this.indexDir, { recursive: true });\n    const tmp = path.join(this.indexDir, `${DATA_FILE}.tmp`);\n    const final = path.join(this.indexDir, DATA_FILE);\n    const lines = this.entries.map(serializeEntry).join(\"\\n\");\n    await fs.writeFile(tmp, lines.length > 0 ? `${lines}\\n` : \"\", \"utf8\");\n    await fs.rename(tmp, final);\n    await this.writeMeta();\n  }\n\n  private async writeMeta(): Promise<void> {\n    const meta: IndexMeta = {\n      version: STORE_VERSION,\n      provider: this.provider,\n      model: this.model,\n      dim: this.dim,\n      updatedAt: new Date().toISOString(),\n    };\n    await fs.writeFile(\n      path.join(this.indexDir, META_FILE),\n      `${JSON.stringify(meta, null, 2)}\\n`,\n      \"utf8\",\n    );\n  }\n\n  async wipe(): Promise<void> {\n    this.entries = [];\n    this.byPath.clear();\n    this.dim = 0;\n    await wipeStoreFiles(this.indexDir);\n  }\n}\n\nexport async function openStore(indexDir: string, identity: IndexIdentity): Promise<SemanticStore> {\n  const store = new SemanticStore(indexDir, identity);\n  const dataPath = path.join(indexDir, DATA_FILE);\n\n  const meta = await readIndexMeta(indexDir);\n\n  if (meta) {\n    if (meta.version !== STORE_VERSION) {\n      throw new Error(\n        `Index format version ${meta.version} does not match current ${STORE_VERSION}. Run \\`reasonix index --rebuild\\`.`,\n      );\n    }\n    const mismatch = compareIndexIdentity(meta, identity);\n    if (mismatch !== null) {\n      throw new Error(\n        `Index was built with provider \"${meta.provider}\" model \"${meta.model}\" but current config is provider \"${identity.provider}\" model \"${identity.model}\". Run \\`reasonix index --rebuild\\`.`,\n      );\n    }\n  }\n\n  let raw: string;\n  try {\n    raw = await fs.readFile(dataPath, \"utf8\");\n  } catch {\n    return store;\n  }\n  for (const line of raw.split(\"\\n\")) {\n    if (line.length === 0) continue;\n    try {\n      const entry = deserializeEntry(line);\n      (store as unknown as { dim: number }).dim = entry.embedding.length;\n      (store as unknown as { entries: IndexEntry[] }).entries.push(entry);\n      const map = (store as unknown as { byPath: Map<string, IndexEntry[]> }).byPath;\n      const list = map.get(entry.path);\n      if (list) list.push(entry);\n      else map.set(entry.path, [entry]);\n    } catch {\n      /* tolerate malformed line */\n    }\n  }\n  return store;\n}\n\nexport function normalize(v: Float32Array): Float32Array {\n  let sum = 0;\n  for (let i = 0; i < v.length; i++) sum += v[i]! * v[i]!;\n  const inv = sum > 0 ? 1 / Math.sqrt(sum) : 0;\n  for (let i = 0; i < v.length; i++) v[i] = v[i]! * inv;\n  return v;\n}\n\nfunction dot(a: Float32Array, b: Float32Array): number {\n  let s = 0;\n  for (let i = 0; i < a.length; i++) s += a[i]! * b[i]!;\n  return s;\n}\n\nfunction serializeEntry(e: IndexEntry): string {\n  const buf = Buffer.from(e.embedding.buffer, e.embedding.byteOffset, e.embedding.byteLength);\n  return JSON.stringify({\n    p: e.path,\n    s: e.startLine,\n    e: e.endLine,\n    m: e.mtimeMs,\n    t: e.text,\n    v: buf.toString(\"base64\"),\n  });\n}\n\nfunction deserializeEntry(line: string): IndexEntry {\n  const parsed = JSON.parse(line) as {\n    p: string;\n    s: number;\n    e: number;\n    m: number;\n    t: string;\n    v: string;\n  };\n  const buf = Buffer.from(parsed.v, \"base64\");\n  const embedding = new Float32Array(\n    buf.buffer.slice(buf.byteOffset, buf.byteOffset + buf.byteLength),\n  );\n  return {\n    path: parsed.p,\n    startLine: parsed.s,\n    endLine: parsed.e,\n    mtimeMs: parsed.m,\n    text: parsed.t,\n    embedding: new 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defaultIndexConfig(),\n    onSkip: (_p, reason) => {\n      skipBuckets[reason]++;\n    },\n  })) {\n    throwIfAborted(opts.signal);\n    seenPaths.add(chunk.path);\n    let bucket = fileChunks.get(chunk.path);\n    if (!bucket) {\n      filesScanned++;\n      const abs = path.join(root, chunk.path);\n      let mtimeMs = 0;\n      try {\n        const stat = await fs.stat(abs);\n        mtimeMs = stat.mtimeMs;\n      } catch {\n        continue;\n      }\n      const last = lastMtimes.get(chunk.path);\n      if (last !== undefined && last === mtimeMs && !opts.rebuild) {\n        filesSkipped++;\n        continue;\n      }\n      bucket = { chunks: [], mtimeMs };\n      fileChunks.set(chunk.path, bucket);\n    }\n    bucket.chunks.push(chunk);\n    opts.onProgress?.({ phase: \"scan\", filesScanned });\n  }\n\n  throwIfAborted(opts.signal);\n  const deletedPaths: string[] = [];\n  for (const oldPath of lastMtimes.keys()) {\n    if (!seenPaths.has(oldPath)) deletedPaths.push(oldPath);\n  }\n  const replacePaths = [...fileChunks.keys()].filter((p) => lastMtimes.has(p));\n  throwIfAborted(opts.signal);\n  const removed = await store.remove([...deletedPaths, ...replacePaths]);\n\n  let chunksAdded = 0;\n  let chunksSkipped = 0;\n  const filesChanged = fileChunks.size;\n  let chunksTotal = 0;\n  for (const { chunks } of fileChunks.values()) chunksTotal += chunks.length;\n  let chunksDone = 0;\n  for (const [, bucket] of fileChunks) {\n    throwIfAborted(opts.signal);\n    if (bucket.chunks.length === 0) continue;\n    const texts = bucket.chunks.map((c) => c.text);\n    const vectors = await embedAll(texts, {\n      ...resolved,\n      signal: opts.signal,\n      onProgress: (done, total) => {\n        opts.onProgress?.({\n          phase: \"embed\",\n          filesScanned,\n          filesChanged,\n          chunksTotal,\n          chunksDone: chunksDone + done,\n        });\n        if (done === total) chunksDone += total;\n      },\n      onError: (idx, err) => {\n        chunksSkipped++;\n        const c = bucket.chunks[idx];\n        const where = c ? 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8, opts.minScore ?? 0.3);\n}\n\nexport async function indexExists(root: string): Promise<boolean> {\n  const meta = path.join(root, INDEX_DIR_NAME, \"index.meta.json\");\n  try {\n    await fs.access(meta);\n    return true;\n  } catch {\n    return false;\n  }\n}\n\nexport async function indexCompatible(\n  root: string,\n  opts: { provider?: \"ollama\" | \"openai-compat\"; model?: string; configPath?: string } = {},\n): Promise<boolean> {\n  const meta = await readIndexMeta(path.join(root, INDEX_DIR_NAME));\n  if (!meta) return false;\n  return compareIndexIdentity(meta, resolveIndexIdentity(opts)) === null;\n}\n\nfunction resolveBuildEmbeddingConfig(opts: BuildOptions): ResolvedEmbeddingConfig {\n  if (opts.provider === \"openai-compat\") {\n    if (!opts.baseUrl || !opts.apiKey || !opts.model) {\n      throw new Error(\n        \"OpenAI-compatible embeddings require baseUrl, apiKey, and model when passed directly.\",\n      );\n    }\n    return {\n      provider: \"openai-compat\",\n      baseUrl: opts.baseUrl,\n      apiKey: opts.apiKey,\n      model: opts.model,\n      extraBody: opts.extraBody ?? {},\n      timeoutMs: opts.timeoutMs ?? 30_000,\n    };\n  }\n  if (opts.baseUrl || opts.model) {\n    return {\n      provider: \"ollama\",\n      baseUrl: opts.baseUrl ?? process.env.OLLAMA_URL ?? \"http://localhost:11434\",\n      model: opts.model ?? process.env.REASONIX_EMBED_MODEL ?? \"nomic-embed-text\",\n      timeoutMs: opts.timeoutMs ?? 30_000,\n    };\n  }\n  return resolveSemanticEmbeddingConfig(opts.configPath);\n}\n\nfunction resolveIndexIdentity(opts: {\n  provider?: \"ollama\" | \"openai-compat\";\n  model?: string;\n  configPath?: string;\n}): IndexIdentity {\n  if (opts.provider && opts.model) {\n    return { provider: opts.provider, model: opts.model };\n  }\n  const resolved = resolveSemanticEmbeddingConfig(opts.configPath);\n  return { provider: resolved.provider, model: resolved.model };\n}\n\nfunction resolveQueryEmbeddingConfig(opts: QueryOptions): ResolvedEmbeddingConfig {\n  return resolveBuildEmbeddingConfig(opts);\n}\n\nasync function probeEmbeddingProvider(\n  config: ResolvedEmbeddingConfig,\n  signal: AbortSignal | undefined,\n): Promise<void> {\n  if (config.provider === \"openai-compat\") return;\n  const probe = await probeOllama({ baseUrl: config.baseUrl, signal });\n  if (!probe.ok) {\n    throw new Error(\n      `Ollama is not reachable: ${probe.error}. Install from https://ollama.com, then \\`ollama serve\\` and \\`ollama pull ${config.model}\\`.`,\n    );\n  }\n}\n\nfunction throwIfAborted(signal: AbortSignal | undefined): void {\n  if (signal?.aborted) {\n    throw new Error(\"semantic indexing aborted\");\n  }\n}\n","/** Line-window chunker (not AST) — language-agnostic, every chunk carries exact startLine/endLine for cite-back. */\n\nimport { promises as fs } from \"node:fs\";\nimport path from \"node:path\";\nimport { type GitignoreLayer, ignoredByLayers, loadGitignoreAt } from \"../../gitignore.js\";\nimport {\n  type IndexFilters,\n  type ResolvedIndexConfig,\n  compileFilters,\n  defaultIndexConfig,\n} from \"../config.js\";\n\nexport interface CodeChunk {\n  /** Path relative to the index root, forward slashes. Stable across OS. */\n  path: string;\n  /** 1-based, inclusive. */\n  startLine: number;\n  endLine: number;\n  text: string;\n}\n\nexport type SkipReason =\n  | \"defaultDir\"\n  | \"defaultFile\"\n  | \"binaryExt\"\n  | \"binaryContent\"\n  | \"tooLarge\"\n  | \"gitignore\"\n  | \"pattern\"\n  | \"readError\";\n\nexport interface ChunkOptions {\n  /** Lines per window. Default 60. */\n  windowLines?: number;\n  /** Lines of overlap between consecutive windows. Default 12. */\n  overlap?: number;\n  /** Default 4000 — keeps unicode-heavy slices under nomic-embed-text's 8K-token window. */\n  maxChunkChars?: number;\n  /** Resolved exclude/limit settings. Falls back to package defaults when omitted. */\n  config?: ResolvedIndexConfig;\n  /** Tally callback for files that didn't make it into the index. */\n  onSkip?: (relPath: string, reason: SkipReason) => void;\n}\n\n/** Default character cap per chunk — sized for nomic-embed-text. */\nexport const DEFAULT_MAX_CHUNK_CHARS = 4000;\n\nexport function chunkText(\n  text: string,\n  filePath: string,\n  windowLines: number,\n  overlap: number,\n  maxChunkChars: number = DEFAULT_MAX_CHUNK_CHARS,\n): CodeChunk[] {\n  const lines = text.split(/\\r?\\n/);\n  if (lines.length === 0 || (lines.length === 1 && lines[0] === \"\")) return [];\n  const stride = Math.max(1, windowLines - overlap);\n  const chunks: CodeChunk[] = [];\n  for (let start = 0; start < lines.length; start += stride) {\n    const end = Math.min(lines.length, start + windowLines);\n    const slice = lines.slice(start, end).join(\"\\n\").trim();\n    if (slice.length === 0) {\n      if (end >= lines.length) break;\n      continue;\n    }\n    const window: CodeChunk = {\n      path: filePath,\n      startLine: start + 1,\n      endLine: end,\n      text: slice,\n    };\n    for (const sub of safeSplit(window, maxChunkChars)) chunks.push(sub);\n    if (end >= lines.length) break;\n  }\n  return chunks;\n}\n\nfunction safeSplit(chunk: CodeChunk, maxChars: number): CodeChunk[] {\n  if (chunk.text.length <= maxChars) return [chunk];\n  const lines = chunk.text.split(\"\\n\");\n  const out: CodeChunk[] = [];\n  let bufLines: string[] = [];\n  let bufStart = chunk.startLine;\n  let bufLen = 0;\n  const flush = (untilLineNo: number): void => {\n    if (bufLines.length === 0) return;\n    out.push({\n      path: chunk.path,\n      startLine: bufStart,\n      endLine: untilLineNo,\n      text: bufLines.join(\"\\n\"),\n    });\n    bufLines = [];\n    bufLen = 0;\n  };\n  for (let i = 0; i < lines.length; i++) {\n    const line = lines[i] ?? \"\";\n    const lineLen = line.length + 1;\n    if (lineLen > maxChars) {\n      flush(chunk.startLine + i - 1);\n      out.push({\n        path: chunk.path,\n        startLine: chunk.startLine + i,\n        endLine: chunk.startLine + i,\n        text: line.slice(0, maxChars),\n      });\n      bufStart = chunk.startLine + i + 1;\n      continue;\n    }\n    if (bufLen + lineLen > maxChars && bufLines.length > 0) {\n      flush(chunk.startLine + i - 1);\n      bufStart = chunk.startLine + i;\n    }\n    bufLines.push(line);\n    bufLen += lineLen;\n  }\n  flush(chunk.endLine);\n  return out;\n}\n\nfunction toForwardRel(root: string, abs: string): string {\n  return path.relative(root, abs).split(path.sep).join(\"/\");\n}\n\ninterface WalkFrame {\n  dir: string;\n  layers: readonly GitignoreLayer[];\n}\n\nexport async function* walkChunks(\n  root: string,\n  opts: ChunkOptions = {},\n): AsyncGenerator<CodeChunk> {\n  const windowLines = opts.windowLines ?? 60;\n  const overlap = Math.min(opts.overlap ?? 12, Math.max(0, windowLines - 1));\n  const maxChunkChars = opts.maxChunkChars ?? DEFAULT_MAX_CHUNK_CHARS;\n  const filters: IndexFilters = compileFilters(opts.config ?? defaultIndexConfig());\n  const onSkip = opts.onSkip ?? (() => {});\n\n  const initial: GitignoreLayer[] = [];\n  if (filters.respectGitignore) {\n    const rootIg = await loadGitignoreAt(root);\n    if (rootIg) initial.push({ dirAbs: root, ig: rootIg });\n  }\n\n  const stack: WalkFrame[] = [{ dir: root, layers: initial }];\n  while (stack.length > 0) {\n    const frame = stack.pop();\n    if (!frame) break;\n    const { dir, layers } = frame;\n    let entries: import(\"node:fs\").Dirent[];\n    try {\n      entries = await fs.readdir(dir, { withFileTypes: true });\n    } catch {\n      continue;\n    }\n    for (const entry of entries) {\n      const name = entry.name;\n      const abs = path.join(dir, name);\n      const rel = toForwardRel(root, abs);\n      if (entry.isDirectory()) {\n        if (filters.dirSet.has(name)) {\n          onSkip(rel, \"defaultDir\");\n          continue;\n        }\n        if (filters.respectGitignore && ignoredByLayers(layers, abs, true)) {\n          onSkip(rel, \"gitignore\");\n          continue;\n        }\n        if (filters.patternMatch(`${rel}/`) || filters.patternMatch(rel)) {\n          onSkip(rel, \"pattern\");\n          continue;\n        }\n        const childLayers = filters.respectGitignore ? await extendLayers(layers, abs) : layers;\n        stack.push({ dir: abs, layers: childLayers });\n        continue;\n      }\n      if (!entry.isFile()) continue;\n      if (filters.fileSet.has(name)) {\n        onSkip(rel, \"defaultFile\");\n        continue;\n      }\n      const ext = path.extname(name).toLowerCase();\n      if (filters.extSet.has(ext)) {\n        onSkip(rel, \"binaryExt\");\n        continue;\n      }\n      if (filters.respectGitignore && ignoredByLayers(layers, abs, false)) {\n        onSkip(rel, \"gitignore\");\n        continue;\n      }\n      if (filters.patternMatch(rel)) {\n        onSkip(rel, \"pattern\");\n        continue;\n      }\n      // Open once and check size + read against the same fd. Skipping\n      // a path-based `fs.stat` upstream is intentional — stat→open is\n      // the TOCTOU shape CodeQL flags as js/file-system-race.\n      const result = await readSizeBoundedFile(abs, filters.maxFileBytes);\n      if (result.kind === \"skip\") {\n        onSkip(rel, result.reason);\n        continue;\n      }\n      const text = result.text;\n      if (text.indexOf(\"\\0\") !== -1) {\n        onSkip(rel, \"binaryContent\");\n        continue;\n      }\n      for (const chunk of chunkText(text, rel, windowLines, overlap, maxChunkChars)) {\n        yield chunk;\n      }\n    }\n  }\n}\n\nasync function extendLayers(\n  layers: readonly GitignoreLayer[],\n  dirAbs: string,\n): Promise<readonly GitignoreLayer[]> {\n  const ig = await loadGitignoreAt(dirAbs);\n  return ig ? [...layers, { dirAbs, ig }] : layers;\n}\n\nexport async function chunkDirectory(root: string, opts: ChunkOptions = {}): Promise<CodeChunk[]> {\n  const out: CodeChunk[] = [];\n  for await (const c of walkChunks(root, opts)) out.push(c);\n  return out;\n}\n\ntype ReadFileResult = { kind: \"ok\"; text: string } | { kind: \"skip\"; reason: SkipReason };\n\nasync function readSizeBoundedFile(abs: string, maxBytes: number): Promise<ReadFileResult> {\n  try {\n    const fh = await fs.open(abs, \"r\");\n    try {\n      const stat = await fh.stat();\n      if (stat.size > maxBytes) return { kind: \"skip\", reason: \"tooLarge\" };\n      return { kind: \"ok\", text: await fh.readFile(\"utf8\") };\n    } finally {\n      await fh.close();\n    }\n  } catch {\n    return { kind: \"skip\", reason: \"readError\" };\n  }\n}\n","const DEFAULT_OLLAMA_URL = \"http://localhost:11434\";\nconst DEFAULT_EMBED_MODEL = \"nomic-embed-text\";\nconst DEFAULT_TIMEOUT_MS = 30_000;\n\nexport type EmbedOptions =\n  | {\n      provider?: \"ollama\";\n      baseUrl?: string;\n      model?: string;\n      timeoutMs?: number;\n      signal?: AbortSignal;\n    }\n  | {\n      provider: \"openai-compat\";\n      baseUrl: string;\n      apiKey: string;\n      model: string;\n      extraBody?: Record<string, unknown>;\n      timeoutMs?: number;\n      signal?: AbortSignal;\n    };\n\nexport class EmbeddingError extends Error {\n  constructor(\n    message: string,\n    public override readonly cause?: unknown,\n  ) {\n    super(message);\n    this.name = \"EmbeddingError\";\n  }\n}\n\nexport async function embed(text: string, opts: EmbedOptions = {}): Promise<Float32Array> {\n  if (opts.provider === \"openai-compat\") return await embedOpenAICompat(text, opts);\n  return await embedOllama(text, opts);\n}\n\nexport async function embedAll(\n  texts: readonly string[],\n  opts: EmbedOptions & {\n    onProgress?: (done: number, total: number) => void;\n    onError?: (index: number, err: unknown) => void;\n  } = {},\n): Promise<Array<Float32Array | null>> {\n  if (opts.provider === \"openai-compat\") return await embedAllOpenAICompat(texts, opts);\n  const out: Array<Float32Array | null> = [];\n  for (let i = 0; i < texts.length; i++) {\n    if (opts.signal?.aborted) throw new EmbeddingError(\"embedding aborted\");\n    const text = texts[i];\n    if (text === undefined) continue;\n    try {\n      out.push(await embed(text, opts));\n    } catch (err) {\n      if (isAbortError(err) || opts.signal?.aborted) {\n        throw new EmbeddingError(\"embedding aborted\", err);\n      }\n      opts.onError?.(i, err);\n      out.push(null);\n    }\n    opts.onProgress?.(i + 1, texts.length);\n  }\n  return out;\n}\n\nexport async function probeOllama(\n  opts: { baseUrl?: string; signal?: AbortSignal } = {},\n): Promise<{ ok: true; models: string[] } | { ok: false; error: string }> {\n  const baseUrl = opts.baseUrl ?? process.env.OLLAMA_URL ?? DEFAULT_OLLAMA_URL;\n  try {\n    const res = await fetch(`${baseUrl}/api/tags`, { signal: opts.signal });\n    if (!res.ok) return { ok: false, error: `Ollama returned ${res.status}` };\n    const json = (await res.json()) as { models?: Array<{ name?: string }> };\n    const models = (json.models ?? [])\n      .map((m) => m.name)\n      .filter((n): n is string => typeof n === \"string\");\n    return { ok: true, models };\n  } catch (err) {\n    const msg = err instanceof Error ? err.message : String(err);\n    return { ok: false, error: msg };\n  }\n}\n\nasync function embedOllama(\n  text: string,\n  opts: Extract<EmbedOptions, { provider?: \"ollama\" }>,\n): Promise<Float32Array> {\n  const baseUrl = opts.baseUrl ?? process.env.OLLAMA_URL ?? DEFAULT_OLLAMA_URL;\n  const model = opts.model ?? process.env.REASONIX_EMBED_MODEL ?? DEFAULT_EMBED_MODEL;\n  const timeoutMs = opts.timeoutMs ?? DEFAULT_TIMEOUT_MS;\n  const { controller, cleanup } = composeAbort(opts.signal, timeoutMs, \"embedding timeout\");\n\n  let res: Response;\n  try {\n    res = await fetch(`${baseUrl}/api/embeddings`, {\n      method: \"POST\",\n      headers: { \"content-type\": \"application/json\" },\n      body: JSON.stringify({ model, prompt: text }),\n      signal: controller.signal,\n    });\n  } catch (err) {\n    cleanup();\n    const msg = err instanceof Error ? err.message : String(err);\n    if (/ECONNREFUSED|connect ECONNREFUSED|fetch failed/i.test(msg)) {\n      throw new EmbeddingError(\n        `Cannot reach Ollama at ${baseUrl}. Install from https://ollama.com, then run \\`ollama pull ${model}\\` and \\`ollama serve\\`. Override the URL via OLLAMA_URL.`,\n        err,\n      );\n    }\n    throw new EmbeddingError(`embedding request failed: ${msg}`, err);\n  } finally {\n    cleanup();\n  }\n\n  if (!res.ok) {\n    const body = await res.text().catch(() => \"\");\n    if (res.status === 404 && /model.*not found/i.test(body)) {\n      throw new EmbeddingError(\n        `Embedding model \"${model}\" not pulled. Run \\`ollama pull ${model}\\` once, then retry.`,\n      );\n    }\n    throw new EmbeddingError(`Ollama returned ${res.status}: ${body.slice(0, 200)}`);\n  }\n\n  const json = (await res.json()) as { embedding?: unknown };\n  if (!json.embedding || !Array.isArray(json.embedding)) {\n    throw new EmbeddingError(\"Ollama response missing 'embedding' array\");\n  }\n  return toFloat32Array(json.embedding, \"embedding\");\n}\n\nasync function embedOpenAICompat(\n  text: string,\n  opts: Extract<EmbedOptions, { provider: \"openai-compat\" }>,\n): Promise<Float32Array> {\n  const vectors = await requestOpenAICompatEmbeddings(text, opts);\n  const v = vectors[0];\n  if (!v) {\n    throw new EmbeddingError(\n      `Embedding provider returned no vector for the input (model ${opts.model})`,\n    );\n  }\n  return v;\n}\n\nasync function embedAllOpenAICompat(\n  texts: readonly string[],\n  opts: Extract<EmbedOptions, { provider: \"openai-compat\" }> & {\n    onProgress?: (done: number, total: number) => void;\n    onError?: (index: number, err: unknown) => void;\n  },\n): Promise<Array<Float32Array | null>> {\n  if (texts.length === 0) return [];\n  if (opts.signal?.aborted) throw new EmbeddingError(\"embedding aborted\");\n  const vectors = await requestOpenAICompatEmbeddings([...texts], opts);\n  for (let i = 0; i < vectors.length; i++) {\n    if (vectors[i] === null) {\n      opts.onError?.(\n        i,\n        new EmbeddingError(\n          `provider dropped input ${i} from the batch (model ${opts.model} returned no embedding for it)`,\n        ),\n      );\n    }\n  }\n  opts.onProgress?.(texts.length, texts.length);\n  return vectors;\n}\n\nasync function requestOpenAICompatEmbeddings(\n  input: string | string[],\n  opts: Extract<EmbedOptions, { provider: \"openai-compat\" }>,\n): Promise<Array<Float32Array | null>> {\n  const timeoutMs = opts.timeoutMs ?? DEFAULT_TIMEOUT_MS;\n  const { controller, cleanup } = composeAbort(opts.signal, timeoutMs, \"embedding timeout\");\n  const url = opts.baseUrl.trim();\n  const body = {\n    ...(opts.extraBody ?? {}),\n    model: opts.model,\n    input,\n    encoding_format: \"float\",\n  };\n\n  let res: Response;\n  try {\n    res = await fetch(url, {\n      method: \"POST\",\n      headers: {\n        authorization: `Bearer ${opts.apiKey}`,\n        \"content-type\": \"application/json\",\n      },\n      body: JSON.stringify(body),\n      signal: controller.signal,\n    });\n  } catch (err) {\n    cleanup();\n    if (isAbortError(err) || opts.signal?.aborted) {\n      throw new EmbeddingError(\"embedding aborted\", err);\n    }\n    const msg = err instanceof Error ? err.message : String(err);\n    throw new EmbeddingError(`Cannot reach OpenAI-compatible embeddings at ${url}: ${msg}`, err);\n  } finally {\n    cleanup();\n  }\n\n  if (!res.ok) {\n    const raw = await res.text().catch(() => \"\");\n    const bodyText = raw.slice(0, 300);\n    if (res.status === 401 || res.status === 403) {\n      throw new EmbeddingError(\n        `OpenAI-compatible API rejected the API key for ${url}. Response ${res.status}: ${bodyText}`,\n      );\n    }\n    if (res.status === 404) {\n      throw new EmbeddingError(\n        `Embeddings endpoint not found at ${url}. Check the configured API URL. Response ${res.status}: ${bodyText}`,\n      );\n    }\n    if (res.status === 400) {\n      throw new EmbeddingError(\n        `Embedding provider returned 400: ${bodyText}. Check model and custom request body fields.`,\n      );\n    }\n    throw new EmbeddingError(`OpenAI-compatible API returned ${res.status}: ${bodyText}`);\n  }\n\n  const json = (await res.json()) as {\n    data?: Array<{ index?: unknown; embedding?: unknown }>;\n  };\n  if (!Array.isArray(json.data)) {\n    throw new EmbeddingError(\"OpenAI-compatible response missing 'data' array\");\n  }\n  const size = Array.isArray(input) ? input.length : 1;\n  const out: Array<Float32Array | null> = new Array(size).fill(null);\n  for (const row of json.data) {\n    const rawIndex = row.index;\n    if (\n      typeof rawIndex !== \"number\" ||\n      !Number.isInteger(rawIndex) ||\n      rawIndex < 0 ||\n      rawIndex >= size\n    ) {\n      throw new EmbeddingError(\"OpenAI-compatible response returned an invalid embedding index\");\n    }\n    const index = rawIndex;\n    if (!Array.isArray(row.embedding)) {\n      throw new EmbeddingError(`OpenAI-compatible response missing embedding for index ${index}`);\n    }\n    out[index] = toFloat32Array(row.embedding, `data[${index}].embedding`);\n  }\n  return out;\n}\n\nfunction toFloat32Array(values: unknown[], label: string): Float32Array {\n  const out = new Float32Array(values.length);\n  for (let i = 0; i < values.length; i++) {\n    const value = values[i];\n    if (typeof value !== \"number\" || !Number.isFinite(value)) {\n      throw new EmbeddingError(`${label}[${i}] is not a finite number`);\n    }\n    out[i] = value;\n  }\n  return out;\n}\n\nfunction composeAbort(\n  signal: AbortSignal | undefined,\n  timeoutMs: number,\n  reason: string,\n): { controller: AbortController; cleanup: () => void } {\n  const controller = new AbortController();\n  const onCallerAbort = () => controller.abort(signal?.reason);\n  if (signal) {\n    if (signal.aborted) controller.abort(signal.reason);\n    else signal.addEventListener(\"abort\", onCallerAbort, { once: true });\n  }\n  const timer = setTimeout(() => controller.abort(new Error(reason)), timeoutMs);\n  return {\n    controller,\n    cleanup: () => {\n      clearTimeout(timer);\n      if (signal) signal.removeEventListener(\"abort\", onCallerAbort);\n    },\n  };\n}\n\nfunction isAbortError(err: unknown): boolean {\n  if (err instanceof Error) {\n    if (err.name === \"AbortError\") return true;\n    if (/aborted/i.test(err.message)) return true;\n  }\n  return false;\n}\n","/** JSONL append-only (Ctrl+C-safe) + linear cosine scan over unboxed Float32Array — fast enough for ≤10k chunks. */\n\nimport { promises as fs } from \"node:fs\";\nimport path from \"node:path\";\nimport type { EmbeddingProvider } from \"../../config.js\";\nimport type { CodeChunk } from \"./chunker.js\";\n\nexport interface IndexEntry extends CodeChunk {\n  embedding: Float32Array;\n  mtimeMs: number;\n}\n\nexport interface SearchHit {\n  entry: IndexEntry;\n  score: number;\n}\n\nexport type IndexMismatch = \"provider\" | \"model\";\n\nexport interface IndexIdentity {\n  provider: EmbeddingProvider;\n  model: string;\n}\n\nexport interface IndexMeta extends IndexIdentity {\n  version: number;\n  dim: number;\n  updatedAt: string;\n}\n\nexport const STORE_VERSION = 1;\n\nconst META_FILE = \"index.meta.json\";\nconst DATA_FILE = \"index.jsonl\";\n\nexport async function readIndexMeta(indexDir: string): Promise<IndexMeta | null> {\n  try {\n    const raw = await fs.readFile(path.join(indexDir, META_FILE), \"utf8\");\n    return normalizeMeta(JSON.parse(raw) as Partial<IndexMeta>);\n  } catch {\n    return null;\n  }\n}\n\nexport function compareIndexIdentity(\n  meta: IndexIdentity,\n  identity: IndexIdentity,\n): IndexMismatch | null {\n  if (meta.provider !== identity.provider) return \"provider\";\n  if (meta.model !== identity.model) return \"model\";\n  return null;\n}\n\nexport async function wipeStoreFiles(indexDir: string): Promise<void> {\n  await fs.rm(path.join(indexDir, DATA_FILE), { force: true });\n  await fs.rm(path.join(indexDir, META_FILE), { force: true });\n}\n\nexport class SemanticStore {\n  private entries: IndexEntry[] = [];\n  private byPath = new Map<string, IndexEntry[]>();\n  private dim = 0;\n\n  constructor(\n    public readonly indexDir: string,\n    public readonly identity: IndexIdentity,\n  ) {}\n\n  get provider(): EmbeddingProvider {\n    return this.identity.provider;\n  }\n\n  get model(): string {\n    return this.identity.model;\n  }\n\n  get empty(): boolean {\n    return this.entries.length === 0;\n  }\n\n  get size(): number {\n    return this.entries.length;\n  }\n\n  get all(): readonly IndexEntry[] {\n    return this.entries;\n  }\n\n  fileMtimes(): Map<string, number> {\n    const out = new Map<string, number>();\n    for (const [p, group] of this.byPath) {\n      const first = group[0];\n      if (first) out.set(p, first.mtimeMs);\n    }\n    return out;\n  }\n\n  async add(entries: readonly IndexEntry[]): Promise<void> {\n    if (entries.length === 0) return;\n    if (this.dim === 0) this.dim = entries[0]!.embedding.length;\n    const lines: string[] = [];\n    for (const e of entries) {\n      if (e.embedding.length !== this.dim) {\n        throw new Error(\n          `embedding dim mismatch: expected ${this.dim}, got ${e.embedding.length} for ${e.path}:${e.startLine}`,\n        );\n      }\n      this.entries.push(e);\n      const list = this.byPath.get(e.path);\n      if (list) list.push(e);\n      else this.byPath.set(e.path, [e]);\n      lines.push(serializeEntry(e));\n    }\n    await fs.mkdir(this.indexDir, { recursive: true });\n    await fs.appendFile(path.join(this.indexDir, DATA_FILE), `${lines.join(\"\\n\")}\\n`, \"utf8\");\n    await this.writeMeta();\n  }\n\n  async remove(paths: readonly string[]): Promise<number> {\n    if (paths.length === 0) return 0;\n    const drop = new Set(paths);\n    const before = this.entries.length;\n    this.entries = this.entries.filter((e) => !drop.has(e.path));\n    for (const p of paths) this.byPath.delete(p);\n    const removed = before - this.entries.length;\n    if (removed > 0) await this.flush();\n    return removed;\n  }\n\n  search(query: Float32Array, topK = 8, minScore = 0): SearchHit[] {\n    if (this.entries.length === 0) return [];\n    if (query.length !== this.dim && this.dim !== 0) {\n      throw new Error(`query dim ${query.length} ≠ index dim ${this.dim}`);\n    }\n    const heap: SearchHit[] = [];\n    for (const entry of this.entries) {\n      const score = dot(query, entry.embedding);\n      if (score < minScore) continue;\n      if (heap.length < topK) {\n        heap.push({ entry, score });\n        if (heap.length === topK) heap.sort((a, b) => a.score - b.score);\n      } else if (score > heap[0]!.score) {\n        heap[0] = { entry, score };\n        for (let i = 0; i < heap.length - 1; i++) {\n          if (heap[i]!.score > heap[i + 1]!.score) {\n            const tmp = heap[i]!;\n            heap[i] = heap[i + 1]!;\n            heap[i + 1] = tmp;\n          }\n        }\n      }\n    }\n    return heap.sort((a, b) => b.score - a.score);\n  }\n\n  private async flush(): Promise<void> {\n    await fs.mkdir(this.indexDir, { recursive: true });\n    const tmp = path.join(this.indexDir, `${DATA_FILE}.tmp`);\n    const final = path.join(this.indexDir, DATA_FILE);\n    const lines = this.entries.map(serializeEntry).join(\"\\n\");\n    await fs.writeFile(tmp, lines.length > 0 ? `${lines}\\n` : \"\", \"utf8\");\n    await fs.rename(tmp, final);\n    await this.writeMeta();\n  }\n\n  private async writeMeta(): Promise<void> {\n    const meta: IndexMeta = {\n      version: STORE_VERSION,\n      provider: this.provider,\n      model: this.model,\n      dim: this.dim,\n      updatedAt: new Date().toISOString(),\n    };\n    await fs.writeFile(\n      path.join(this.indexDir, META_FILE),\n      `${JSON.stringify(meta, null, 2)}\\n`,\n      \"utf8\",\n    );\n  }\n\n  async wipe(): Promise<void> {\n    this.entries = [];\n    this.byPath.clear();\n    this.dim = 0;\n    await wipeStoreFiles(this.indexDir);\n  }\n}\n\nexport async function openStore(indexDir: string, identity: IndexIdentity): Promise<SemanticStore> {\n  const store = new SemanticStore(indexDir, identity);\n  const dataPath = path.join(indexDir, DATA_FILE);\n\n  const meta = await readIndexMeta(indexDir);\n\n  if (meta) {\n    if (meta.version !== STORE_VERSION) {\n      throw new Error(\n        `Index format version ${meta.version} does not match current ${STORE_VERSION}. Run \\`reasonix index --rebuild\\`.`,\n      );\n    }\n    const mismatch = compareIndexIdentity(meta, identity);\n    if (mismatch !== null) {\n      throw new Error(\n        `Index was built with provider \"${meta.provider}\" model \"${meta.model}\" but current config is provider \"${identity.provider}\" model \"${identity.model}\". Run \\`reasonix index --rebuild\\`.`,\n      );\n    }\n  }\n\n  let raw: string;\n  try {\n    raw = await fs.readFile(dataPath, \"utf8\");\n  } catch {\n    return store;\n  }\n  for (const line of raw.split(\"\\n\")) {\n    if (line.length === 0) continue;\n    try {\n      const entry = deserializeEntry(line);\n      (store as unknown as { dim: number }).dim = entry.embedding.length;\n      (store as unknown as { entries: IndexEntry[] }).entries.push(entry);\n      const map = (store as unknown as { byPath: Map<string, IndexEntry[]> }).byPath;\n      const list = map.get(entry.path);\n      if (list) list.push(entry);\n      else map.set(entry.path, [entry]);\n    } catch {\n      /* tolerate malformed line */\n    }\n  }\n  return store;\n}\n\nexport function normalize(v: Float32Array): Float32Array {\n  let sum = 0;\n  for (let i = 0; i < v.length; i++) sum += v[i]! * v[i]!;\n  const inv = sum > 0 ? 1 / Math.sqrt(sum) : 0;\n  for (let i = 0; i < v.length; i++) v[i] = v[i]! * 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package/dist/cli/{chunk-7VFNPMKG.js → chunk-4QUNBQQ2.js}

@@ -1,8 +1,9 @@
 #!/usr/bin/env node
+import { createRequire as __cr } from 'node:module'; if (typeof globalThis.require === 'undefined') { globalThis.require = __cr(import.meta.url); }
 import {
   sanitizeName,
   sessionsDir
-} from "./chunk-YJFKFTAL.js";
+} from "./chunk-6PBZN4VI.js";
 
 // src/adapters/event-sink-jsonl.ts
 import { chmodSync, createWriteStream, mkdirSync } from "fs";
@@ -50,4 +51,4 @@ export {
   eventLogPath,
   openEventSink
 };
-//# sourceMappingURL=chunk-7VFNPMKG.js.map
+//# sourceMappingURL=chunk-4QUNBQQ2.js.map

package/dist/cli/{chunk-7VFNPMKG.js.map → chunk-4QUNBQQ2.js.map}

@@ -1 +1 @@
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