@fodx/codelens 2.2.0 → 2.2.1

package/README.md

@@ -78,11 +78,11 @@ instead. All writes are idempotent and removable with `codelens uninstall`.
 
 | Host | target id | Config file (global → local) | Entry shape |
 |---|---|---|---|
-| Claude Code | `claude` | `~/.claude.json` → `.mcp.json` | `mcpServers.codelens = { command, args: [] }` |
-| Cursor | `cursor` | `~/.cursor/mcp.json` → `.cursor/mcp.json` | `mcpServers.codelens = { command, args: ["--cwd", "${workspaceFolder}"] }` (Cursor expands the variable per-workspace) |
-| Gemini CLI | `gemini` | `~/.gemini/settings.json` → `.gemini/settings.json` | `mcpServers.codelens = { command, args: [] }` |
-| opencode | `opencode` | `~/.config/opencode/opencode.json` → `./opencode.json` | `mcp.codelens = { type: "local", command: [cmd], enabled: true }` |
-| Codex CLI | `codex` | `~/.codex/config.toml` → `.codex/config.toml` | TOML `[mcp_servers.codelens]` block (`command`, `args = []`) |
+| Claude Code | `claude` | `~/.claude.json` → `.mcp.json` | `mcpServers.codelens = { command, args: ["--auto-index", "missing"] }` (local also adds `--cwd <workspace>`) |
+| Cursor | `cursor` | `~/.cursor/mcp.json` → `.cursor/mcp.json` | `mcpServers.codelens = { command, args: ["--cwd", "${workspaceFolder}", "--auto-index", "missing"] }` (Cursor expands the variable per-workspace) |
+| Gemini CLI | `gemini` | `~/.gemini/settings.json` → `.gemini/settings.json` | `mcpServers.codelens = { command, args: ["--auto-index", "missing"] }` (local also adds `--cwd <workspace>`) |
+| opencode | `opencode` | `~/.config/opencode/opencode.json` → `./opencode.json` | `mcp.codelens = { type: "local", command: [cmd, "--auto-index", "missing"], enabled: true }` (local also adds `--cwd <workspace>`) |
+| Codex CLI | `codex` | `~/.codex/config.toml` → `.codex/config.toml` | TOML `[mcp_servers.codelens]` block (`command`, `args = ["--auto-index", "missing"]`; local also adds `--cwd <workspace>`) |
 | Pi Coding Agent | `pi` | `pi install npm:@fodx/codelens` (loads `adapters/pi/codelens.extension.ts`) | Pi extension that bridges the MCP server via `pi.registerTool` |
 
 `command` is the absolute path to the installed `codelens` launcher (written by
@@ -90,7 +90,9 @@ the installer); for a manual snippet use `npx -y @fodx/codelens`. CodeLens uses
 root priority `--cwd` → MCP Roots → process cwd. **Cursor** config (global or
 local) attaches to the active workspace via `--cwd ${workspaceFolder}`. Other
 hosts pin the concrete workspace path for local installs and rely on MCP Roots
-for global installs.
+for global installs. Installed MCP configs default to `--auto-index missing`, so
+CodeLens starts a detached background index when a workspace/branch has no
+complete index yet; pass `--auto-index never` to disable.
 
 **Routing instructions** are also written so the host prefers codelens tools for
 discovery over raw grep/read:
@@ -154,8 +156,11 @@ node build/src/server.js
 
 ## Quickstart
 
-1. In your repo, the agent calls `cl_current` (builds index if missing) or
-   `cl_refresh` explicitly.
+1. Open a repo in your agent/IDE. Installed MCP configs auto-index missing
+   branch indexes in the background; `cl_current` may show `status: "indexing"`
+   with `indexingStartedAt`/`indexingAgeMs` until it finishes. You can still run
+   `cl_refresh` explicitly; if auto-index is already running, `cl_refresh` reports
+   `status:"indexing"` instead of duplicating work.
 2. `cl_explore(query: "session validation flow")` → grouped previews + relationship map in one call.
 3. `cl_search(query: "session validation")` → lean ranked handles when you only need locations.
 4. `cl_impact(symbol: "validateSession", path: "src/auth/session.ts")` → callers/callees/affected tests before edits.
@@ -210,9 +215,11 @@ npm run eval:agent  # deterministic with/without-CodeLens discovery proxy
   signals. Code identifiers are matched via bounded subtoken expansion
   (e.g. `session` finds `validateSession`); a true semantic/vector layer is
   still out of scope.
-- **Lazy on-demand indexing for very large repos** is future work — `cl_refresh`
-  is eager. The recommended pattern for large repos is one `cl_refresh` then
-  incremental + the file watcher thereafter (cold index ~3.5s for 2000 files).
+- **Auto-index is eager per branch** — installed MCP configs start a detached
+  `--auto-index missing` build when a workspace/branch has no complete index.
+  `cl_refresh` remains available for explicit rebuilds and is guarded against
+  duplicating an active background index. The file watcher
+  handles incremental freshness thereafter (cold index ~3.5s for 2000 files).
 - **Routing hooks are advisory** (soft nudges, not hard blocks) per the no-
   throttling design decision — raw reads remain allowed for editing/verification.
 - **npm package** — published on npm as `@fodx/codelens`; releases are

package/build/src/cli.js

@@ -6,6 +6,7 @@ import { openDb } from "./db/db.js";
 import { openContextDb } from "./context/store.js";
 import { detectScope } from "./git/scope.js";
 import { buildIndex } from "./index/indexer.js";
+import { clearAutoIndexing } from "./index/autoindex.js";
 import { getActiveIndexId } from "./index/manager.js";
 import { ctxSearch } from "./tools/search.js";
 import { ctxRelated } from "./tools/related.js";
@@ -88,7 +89,8 @@ export async function cli(args) {
         return 0;
     }
     if (cmd === "install") {
-        const { target, location, yes, command, autoIndex } = parseInstallArgs(args.slice(1));
+        const { target, location, yes, command, autoIndex: installAutoIndex } = parseInstallArgs(args.slice(1));
+        const autoIndex = installAutoIndex ?? parsed.autoIndex;
         const serverCommand = command ?? defaultServerCommand();
         if (!serverCommand) {
             console.error("could not determine the server executable. Run install.sh first, or pass --command <path-to-launcher>.");
@@ -154,8 +156,14 @@ export async function cli(args) {
                     console.error("not inside a git repo");
                     return 1;
                 }
-                const r = buildIndex(coreDb, scope);
-                console.log(JSON.stringify(r, null, 2));
+                try {
+                    const r = buildIndex(coreDb, scope);
+                    console.log(JSON.stringify(r, null, 2));
+                }
+                finally {
+                    if (process.env.CODELENS_AUTO_INDEX_ID)
+                        clearAutoIndexing(process.env.CODELENS_AUTO_INDEX_ID);
+                }
                 break;
             }
             case "search": {

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package/build/src/index/autoindex.js

@@ -0,0 +1,95 @@
+import { spawn } from "node:child_process";
+import { createHash } from "node:crypto";
+import { existsSync, mkdirSync, readFileSync, rmSync, statSync, writeFileSync } from "node:fs";
+import { homedir } from "node:os";
+import { dirname, join } from "node:path";
+import { fileURLToPath } from "node:url";
+import { computeIndexId } from "./identity.js";
+import { getIndex, setActiveIndex } from "./manager.js";
+const MARKER_MAX_AGE_MS = 30 * 60 * 1000;
+export function normalizeAutoIndexMode(value, fallback = "missing") {
+    return value === "always" || value === "missing" || value === "never" ? value : fallback;
+}
+function markerDir() {
+    return join(homedir(), ".codelens", "indexing");
+}
+function markerName(indexId) {
+    return createHash("sha256").update(indexId).digest("hex").slice(0, 32) + ".json";
+}
+export function autoIndexMarkerPath(indexId) {
+    return join(markerDir(), markerName(indexId));
+}
+export function markAutoIndexing(indexId, repoRoot) {
+    mkdirSync(markerDir(), { recursive: true });
+    writeFileSync(autoIndexMarkerPath(indexId), JSON.stringify({ indexId, repoRoot, startedAt: Date.now() }) + "\n", "utf-8");
+}
+export function clearAutoIndexing(indexId) {
+    try {
+        rmSync(autoIndexMarkerPath(indexId), { force: true });
+    }
+    catch { /* best-effort */ }
+}
+export function getAutoIndexStatus(indexId) {
+    const marker = autoIndexMarkerPath(indexId);
+    if (!existsSync(marker))
+        return null;
+    try {
+        const stat = statSync(marker);
+        const ageMs = Date.now() - stat.mtimeMs;
+        if (ageMs > MARKER_MAX_AGE_MS) {
+            clearAutoIndexing(indexId);
+            return null;
+        }
+        const parsed = JSON.parse(readFileSync(marker, "utf-8"));
+        if (parsed.indexId !== indexId || typeof parsed.repoRoot !== "string" || typeof parsed.startedAt !== "number") {
+            clearAutoIndexing(indexId);
+            return null;
+        }
+        return { indexId, repoRoot: parsed.repoRoot, startedAt: parsed.startedAt, ageMs: Date.now() - parsed.startedAt };
+    }
+    catch { /* stale/broken marker */ }
+    clearAutoIndexing(indexId);
+    return null;
+}
+export function isAutoIndexing(indexId) {
+    return getAutoIndexStatus(indexId) !== null;
+}
+export function hasPersistentIndex(db, scope) {
+    const indexId = computeIndexId(scope);
+    if (!getIndex(db, indexId))
+        return false;
+    const row = db.prepare("SELECT COUNT(*) AS n FROM files WHERE index_id = ? AND deleted = 0").get(indexId);
+    return row.n > 0;
+}
+export function activatePersistentIndexIfReady(db, scope) {
+    const indexId = computeIndexId(scope);
+    if (!hasPersistentIndex(db, scope) || isAutoIndexing(indexId))
+        return null;
+    setActiveIndex(indexId);
+    return indexId;
+}
+/**
+ * Spawn a separate CodeLens CLI process to build the current branch index.
+ * This keeps the MCP server responsive and gives the child its own DB handle.
+ */
+export function spawnAutoIndex(repoRoot, indexId) {
+    try {
+        const serverJs = join(dirname(fileURLToPath(import.meta.url)), "..", "server.js");
+        if (!existsSync(serverJs))
+            return false;
+        markAutoIndexing(indexId, repoRoot);
+        const child = spawn(process.execPath, [serverJs, "--cwd", repoRoot, "--auto-index", "never", "index"], {
+            detached: true,
+            stdio: "ignore",
+            env: { ...process.env, CODELENS_AUTO_INDEX_ID: indexId },
+        });
+        child.once("error", () => clearAutoIndexing(indexId));
+        child.unref();
+        return true;
+    }
+    catch {
+        clearAutoIndexing(indexId);
+        return false;
+    }
+}
+//# sourceMappingURL=autoindex.js.map

package/build/src/index/autoindex.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"autoindex.js","sourceRoot":"","sources":["../../../src/index/autoindex.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,KAAK,EAAE,MAAM,oBAAoB,CAAC;AAC3C,OAAO,EAAE,UAAU,EAAE,MAAM,aAAa,CAAC;AACzC,OAAO,EAAE,UAAU,EAAE,SAAS,EAAE,YAAY,EAAE,MAAM,EAAE,QAAQ,EAAE,aAAa,EAAE,MAAM,SAAS,CAAC;AAC/F,OAAO,EAAE,OAAO,EAAE,MAAM,SAAS,CAAC;AAClC,OAAO,EAAE,OAAO,EAAE,IAAI,EAAE,MAAM,WAAW,CAAC;AAC1C,OAAO,EAAE,aAAa,EAAE,MAAM,UAAU,CAAC;AAEzC,OAAO,EAAE,cAAc,EAAE,MAAM,eAAe,CAAC;AAC/C,OAAO,EAAE,QAAQ,EAAE,cAAc,EAAE,MAAM,cAAc,CAAC;AAIxD,MAAM,iBAAiB,GAAG,EAAE,GAAG,EAAE,GAAG,IAAI,CAAC;AASzC,MAAM,UAAU,sBAAsB,CAAC,KAAyB,EAAE,WAA0B,SAAS;IACnG,OAAO,KAAK,KAAK,QAAQ,IAAI,KAAK,KAAK,SAAS,IAAI,KAAK,KAAK,OAAO,CAAC,CAAC,CAAC,KAAK,CAAC,CAAC,CAAC,QAAQ,CAAC;AAC3F,CAAC;AAED,SAAS,SAAS;IAChB,OAAO,IAAI,CAAC,OAAO,EAAE,EAAE,WAAW,EAAE,UAAU,CAAC,CAAC;AAClD,CAAC;AAED,SAAS,UAAU,CAAC,OAAe;IACjC,OAAO,UAAU,CAAC,QAAQ,CAAC,CAAC,MAAM,CAAC,OAAO,CAAC,CAAC,MAAM,CAAC,KAAK,CAAC,CAAC,KAAK,CAAC,CAAC,EAAE,EAAE,CAAC,GAAG,OAAO,CAAC;AACnF,CAAC;AAED,MAAM,UAAU,mBAAmB,CAAC,OAAe;IACjD,OAAO,IAAI,CAAC,SAAS,EAAE,EAAE,UAAU,CAAC,OAAO,CAAC,CAAC,CAAC;AAChD,CAAC;AAED,MAAM,UAAU,gBAAgB,CAAC,OAAe,EAAE,QAAgB;IAChE,SAAS,CAAC,SAAS,EAAE,EAAE,EAAE,SAAS,EAAE,IAAI,EAAE,CAAC,CAAC;IAC5C,aAAa,CAAC,mBAAmB,CAAC,OAAO,CAAC,EAAE,IAAI,CAAC,SAAS,CAAC,EAAE,OAAO,EAAE,QAAQ,EAAE,SAAS,EAAE,IAAI,CAAC,GAAG,EAAE,EAAE,CAAC,GAAG,IAAI,EAAE,OAAO,CAAC,CAAC;AAC5H,CAAC;AAED,MAAM,UAAU,iBAAiB,CAAC,OAAe;IAC/C,IAAI,CAAC;QAAC,MAAM,CAAC,mBAAmB,CAAC,OAAO,CAAC,EAAE,EAAE,KAAK,EAAE,IAAI,EAAE,CAAC,CAAC;IAAC,CAAC;IAAC,MAAM,CAAC,CAAC,iBAAiB,CAAC,CAAC;AAC5F,CAAC;AAED,MAAM,UAAU,kBAAkB,CAAC,OAAe;IAChD,MAAM,MAAM,GAAG,mBAAmB,CAAC,OAAO,CAAC,CAAC;IAC5C,IAAI,CAAC,UAAU,CAAC,MAAM,CAAC;QAAE,OAAO,IAAI,CAAC;IACrC,IAAI,CAAC;QACH,MAAM,IAAI,GAAG,QAAQ,CAAC,MAAM,CAAC,CAAC;QAC9B,MAAM,KAAK,GAAG,IAAI,CAAC,GAAG,EAAE,GAAG,IAAI,CAAC,OAAO,CAAC;QACxC,IAAI,KAAK,GAAG,iBAAiB,EAAE,CAAC;YAC9B,iBAAiB,CAAC,OAAO,CAAC,CAAC;YAC3B,OAAO,IAAI,CAAC;QACd,CAAC;QACD,MAAM,MAAM,GAAG,IAAI,CAAC,KAAK,CAAC,YAAY,CAAC,MAAM,EAAE,OAAO,CAAC,CAA6B,CAAC;QACrF,IAAI,MAAM,CAAC,OAAO,KAAK,OAAO,IAAI,OAAO,MAAM,CAAC,QAAQ,KAAK,QAAQ,IAAI,OAAO,MAAM,CAAC,SAAS,KAAK,QAAQ,EAAE,CAAC;YAC9G,iBAAiB,CAAC,OAAO,CAAC,CAAC;YAC3B,OAAO,IAAI,CAAC;QACd,CAAC;QACD,OAAO,EAAE,OAAO,EAAE,QAAQ,EAAE,MAAM,CAAC,QAAQ,EAAE,SAAS,EAAE,MAAM,CAAC,SAAS,EAAE,KAAK,EAAE,IAAI,CAAC,GAAG,EAAE,GAAG,MAAM,CAAC,SAAS,EAAE,CAAC;IACnH,CAAC;IAAC,MAAM,CAAC,CAAC,yBAAyB,CAAC,CAAC;IACrC,iBAAiB,CAAC,OAAO,CAAC,CAAC;IAC3B,OAAO,IAAI,CAAC;AACd,CAAC;AAED,MAAM,UAAU,cAAc,CAAC,OAAe;IAC5C,OAAO,kBAAkB,CAAC,OAAO,CAAC,KAAK,IAAI,CAAC;AAC9C,CAAC;AAED,MAAM,UAAU,kBAAkB,CAAC,EAAqB,EAAE,KAAe;IACvE,MAAM,OAAO,GAAG,cAAc,CAAC,KAAK,CAAC,CAAC;IACtC,IAAI,CAAC,QAAQ,CAAC,EAAE,EAAE,OAAO,CAAC;QAAE,OAAO,KAAK,CAAC;IACzC,MAAM,GAAG,GAAG,EAAE,CAAC,OAAO,CAAC,oEAAoE,CAAC,CAAC,GAAG,CAAC,OAAO,CAAkB,CAAC;IAC3H,OAAO,GAAG,CAAC,CAAC,GAAG,CAAC,CAAC;AACnB,CAAC;AAED,MAAM,UAAU,8BAA8B,CAAC,EAAqB,EAAE,KAAe;IACnF,MAAM,OAAO,GAAG,cAAc,CAAC,KAAK,CAAC,CAAC;IACtC,IAAI,CAAC,kBAAkB,CAAC,EAAE,EAAE,KAAK,CAAC,IAAI,cAAc,CAAC,OAAO,CAAC;QAAE,OAAO,IAAI,CAAC;IAC3E,cAAc,CAAC,OAAO,CAAC,CAAC;IACxB,OAAO,OAAO,CAAC;AACjB,CAAC;AAED;;;GAGG;AACH,MAAM,UAAU,cAAc,CAAC,QAAgB,EAAE,OAAe;IAC9D,IAAI,CAAC;QACH,MAAM,QAAQ,GAAG,IAAI,CAAC,OAAO,CAAC,aAAa,CAAC,MAAM,CAAC,IAAI,CAAC,GAAG,CAAC,CAAC,EAAE,IAAI,EAAE,WAAW,CAAC,CAAC;QAClF,IAAI,CAAC,UAAU,CAAC,QAAQ,CAAC;YAAE,OAAO,KAAK,CAAC;QACxC,gBAAgB,CAAC,OAAO,EAAE,QAAQ,CAAC,CAAC;QACpC,MAAM,KAAK,GAAG,KAAK,CAAC,OAAO,CAAC,QAAQ,EAAE,CAAC,QAAQ,EAAE,OAAO,EAAE,QAAQ,EAAE,cAAc,EAAE,OAAO,EAAE,OAAO,CAAC,EAAE;YACrG,QAAQ,EAAE,IAAI;YACd,KAAK,EAAE,QAAQ;YACf,GAAG,EAAE,EAAE,GAAG,OAAO,CAAC,GAAG,EAAE,sBAAsB,EAAE,OAAO,EAAE;SACzD,CAAC,CAAC;QACH,KAAK,CAAC,IAAI,CAAC,OAAO,EAAE,GAAG,EAAE,CAAC,iBAAiB,CAAC,OAAO,CAAC,CAAC,CAAC;QACtD,KAAK,CAAC,KAAK,EAAE,CAAC;QACd,OAAO,IAAI,CAAC;IACd,CAAC;IAAC,MAAM,CAAC;QACP,iBAAiB,CAAC,OAAO,CAAC,CAAC;QAC3B,OAAO,KAAK,CAAC;IACf,CAAC;AACH,CAAC"}

package/build/src/installer/agents.js

@@ -2,14 +2,15 @@ import { readFileSync, writeFileSync, existsSync, mkdirSync, rmSync } from "node
 import { join, dirname } from "node:path";
 import { homedir } from "node:os";
 import { VERSION } from "../version.js";
+import { normalizeAutoIndexMode } from "../index/autoindex.js";
 /**
  * Args that attach the server to the workspace. Cursor (and VS Code family)
  * expand `${workspaceFolder}` in BOTH global and local mcp.json, so Cursor gets
  * it at any location for a one-shot attach. Other hosts have no portable
  * workspace variable: local installs pin the concrete workspace root (the dir
  * the local config is written into = process.cwd() at install time), while
- * global installs return [] and rely on MCP Roots (a single global config must
- * not pin one repo).
+ * global installs rely on MCP Roots for the workspace and still include
+ * `--auto-index missing` by default.
  */
 function workspaceCwdArgs(hostId, loc, autoIndex) {
     const args = [];
@@ -45,6 +46,7 @@ Raw \`grep\`/\`find\`/\`read\` is fine when:
 If a result has \`stale:true\` or \`freshness:"partial"\`, read that file directly before relying on indexed snippets/edges.
 If \`cl_current.inGitRepo\` is false or the repo path is not this workspace, CodeLens isn't attached: tell the user to restart the IDE after upgrading (the global Cursor config attaches via \`\${workspaceFolder}\`), or run \`codelens install --target cursor --yes\`; do not silently fall back to raw find/grep.
 Always use \`cl_expand\` or a raw read for the exact file you're about to edit.
+If \`cl_current.status === "indexing"\`, wait/retry shortly; use \`indexingStartedAt\`/\`indexingAgeMs\` to decide if it looks stuck. Call \`cl_refresh\` when status remains \`missing\`, freshness is partial/stale and relationships matter, or the user asks for a rebuild. \`cl_refresh\` itself returns \`status:"indexing"\` instead of duplicating an active background index.
 Results are scoped to the current branch; call \`cl_current\` after a
 \`git checkout\`. See \`docs/routing.md\`. Remove with: \`codelens uninstall\`.`;
 // ── JSON helpers ──────────────────────────────────────────────
@@ -228,7 +230,7 @@ alwaysApply: true
     }
     detect() { return existsSync(join(homedir(), ".cursor")); }
     buildEntry(cmd, loc, autoIndex) { return { command: cmd, args: workspaceCwdArgs(this.id, loc, autoIndex) }; }
-    apply(cmd, loc) { return jsonApply(this.configPath(loc), "mcpServers", this.entryKey, this.buildEntry(cmd, loc)); }
+    apply(cmd, loc, autoIndex) { return jsonApply(this.configPath(loc), "mcpServers", this.entryKey, this.buildEntry(cmd, loc, autoIndex)); }
     remove(loc) { return jsonRemove(this.configPath(loc), "mcpServers", this.entryKey); }
 }
 class GeminiTarget {
@@ -243,7 +245,7 @@ class GeminiTarget {
     }
     detect() { return existsSync(join(homedir(), ".gemini")); }
     buildEntry(cmd, loc, autoIndex) { return { command: cmd, args: workspaceCwdArgs(this.id, loc, autoIndex) }; }
-    apply(cmd, loc) { return jsonApply(this.configPath(loc), "mcpServers", this.entryKey, this.buildEntry(cmd, loc)); }
+    apply(cmd, loc, autoIndex) { return jsonApply(this.configPath(loc), "mcpServers", this.entryKey, this.buildEntry(cmd, loc, autoIndex)); }
     remove(loc) { return jsonRemove(this.configPath(loc), "mcpServers", this.entryKey); }
 }
 class OpencodeTarget {
@@ -261,12 +263,12 @@ class OpencodeTarget {
     buildEntry(cmd, loc, autoIndex) {
         return { type: "local", command: [cmd, ...workspaceCwdArgs(this.id, loc, autoIndex)], enabled: true };
     }
-    apply(cmd, loc) {
+    apply(cmd, loc, autoIndex) {
         // opencode uses a "mcp" object whose values are {type, command, enabled}.
         const path = this.configPath(loc);
         const cfg = existsSync(path) ? readJson(path) : {};
         const mcp = (cfg["mcp"] ?? {});
-        const entry = this.buildEntry(cmd, loc);
+        const entry = this.buildEntry(cmd, loc, autoIndex);
         if (deepEqualJson(mcp[this.entryKey], entry))
             return { wrote: false, path, already: true };
         mcp[this.entryKey] = entry;
@@ -306,7 +308,7 @@ class CodexTarget {
         const args = workspaceCwdArgs(this.id, loc, autoIndex);
         return `${CODEX_START}\n[mcp_servers.codelens]\ncommand = "${cmd.replace(/"/g, '\\"')}"\nargs = ${JSON.stringify(args)}\n${CODEX_END}`;
     }
-    apply(cmd, loc) {
+    apply(cmd, loc, autoIndex) {
         const path = this.configPath(loc);
         mkdirSync(dirname(path), { recursive: true });
         let existing = "";
@@ -314,7 +316,7 @@ class CodexTarget {
             existing = readFileSync(path, "utf-8");
         }
         catch { /* none */ }
-        const block = this.tomlBlock(cmd, loc);
+        const block = this.tomlBlock(cmd, loc, autoIndex);
         const startIdx = existing.indexOf(CODEX_START);
         if (startIdx >= 0) {
             const endIdx = existing.indexOf(CODEX_END, startIdx);
@@ -379,6 +381,7 @@ export function writeServerPath(serverCommand) {
 }
 export function runInstall(opts) {
     writeServerPath(opts.serverCommand);
+    const autoIndex = normalizeAutoIndexMode(opts.autoIndex, "missing");
     const report = { configured: [], instructions: [], commands: [], skipped: [], serverCommand: opts.serverCommand };
     const targets = resolveTargets(opts.target);
     for (const h of HOSTS) {
@@ -388,7 +391,7 @@ export function runInstall(opts) {
             report.skipped.push(`${h.id} (print-config only)`);
             continue;
         }
-        const r = h.apply(opts.serverCommand, opts.location);
+        const r = h.apply(opts.serverCommand, opts.location, autoIndex);
         report.configured.push({ host: h.id, path: r.path, wrote: r.wrote, already: r.already });
         if (opts.instructions !== false) {
             const ip = h.instructionsPath(opts.location);
@@ -459,16 +462,16 @@ function resolveTargets(target) {
     return target;
 }
 /** Print the MCP config snippet for a host (no file writes). */
-export function printConfig(hostId, serverCommand, loc = "global") {
+export function printConfig(hostId, serverCommand, loc = "global", autoIndex = "missing") {
     const h = getHost(hostId);
     if (!h)
         return null;
     if (h.id === "codex")
-        return h.tomlBlock(serverCommand, loc);
+        return h.tomlBlock(serverCommand, loc, autoIndex);
     if (h.id === "pi") {
         return `# Pi supports MCP via a TS extension bridge. Add an MCP extension manifest\n# (see adapters/pi/extension.json) pointing at: ${serverCommand}`;
     }
-    const entry = h.buildEntry(serverCommand, loc);
+    const entry = h.buildEntry(serverCommand, loc, autoIndex);
     const key = h.id === "opencode" ? "mcp" : "mcpServers";
     const cfg = { [key]: { [h.entryKey]: entry } };
     return `${h.configPath(loc)}:\n${JSON.stringify(cfg, null, 2)}`;

package/build/src/installer/agents.js.map

@@ -1 +1 @@
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package/build/src/server.js

@@ -9,7 +9,8 @@ import { UsageTracker, openGlobalUsageDb, DISCOVERY_TOOLS, TRACKED_TOOLS, estima
 import { getActiveIndexId } from "./index/manager.js";
 import { scheduleAutoPrune } from "./index/autoprune.js";
 import { FileWatcher } from "./index/watcher.js";
-import { buildIndex } from "./index/indexer.js";
+import { activatePersistentIndexIfReady, hasPersistentIndex, normalizeAutoIndexMode, spawnAutoIndex } from "./index/autoindex.js";
+import { computeIndexId } from "./index/identity.js";
 import { cli } from "./cli.js";
 import { registerWatcher } from "./index/reindex.js";
 import { VERSION } from "./version.js";
@@ -101,26 +102,23 @@ export async function main() {
     // we fell back to process.cwd() and should still query MCP Roots.
     let rootsChecked = isUsableCwd(parsed.cwd);
     const serverRef = {};
-    let hasTriggeredAutoIndex = false;
-    async function checkAndTriggerAutoIndex() {
-        if (hasTriggeredAutoIndex || parsed.autoIndex === "never" || !ctx.repoRoot)
+    const autoIndexMode = normalizeAutoIndexMode(parsed.autoIndex, "missing");
+    let autoIndexTriggeredFor = null;
+    function activateReadyIndex(scope) {
+        activatePersistentIndexIfReady(ctx.coreDb, scope);
+    }
+    function checkAndTriggerAutoIndex(scope) {
+        if (!rootsChecked || autoIndexMode === "never" || !ctx.repoRoot)
             return;
-        hasTriggeredAutoIndex = true;
-        const scope = detectScope(ctx.repoRoot);
-        if (!scope)
+        const indexId = computeIndexId(scope);
+        if (autoIndexTriggeredFor === indexId)
             return;
-        const isMissing = !getActiveIndexId();
-        if (parsed.autoIndex === "always" || (parsed.autoIndex === "missing" && isMissing)) {
-            // background index
-            setTimeout(() => {
-                try {
-                    const s = detectScope(ctx.repoRoot);
-                    if (s)
-                        buildIndex(ctx.coreDb, s);
-                }
-                catch { /* background fail is fine */ }
-            }, 100);
-        }
+        activateReadyIndex(scope);
+        const shouldIndex = autoIndexMode === "always" || (autoIndexMode === "missing" && !hasPersistentIndex(ctx.coreDb, scope));
+        if (!shouldIndex)
+            return;
+        autoIndexTriggeredFor = indexId;
+        spawnAutoIndex(ctx.repoRoot, indexId);
     }
     async function switchRoot(repoRoot) {
         if (repoRoot === ctx.repoRoot)
@@ -138,22 +136,42 @@ export async function main() {
         watcher = next.watcher;
         stopPrune = next.stopPrune;
     }
+    async function tryResolveMcpRoots() {
+        if (rootsChecked || !serverRef.current)
+            return;
+        const capabilities = serverRef.current.server.getClientCapabilities();
+        if (!capabilities)
+            return;
+        rootsChecked = true;
+        const root = await rootFromMcpRoots(serverRef.current);
+        if (root)
+            await switchRoot(root);
+    }
+    async function settleRootAndTriggerAutoIndex() {
+        await tryResolveMcpRoots();
+        const scope = detectScope(ctx.repoRoot);
+        if (!scope)
+            return;
+        activateReadyIndex(scope);
+        checkAndTriggerAutoIndex(scope);
+    }
     async function beforeTool() {
-        if (!rootsChecked) {
-            rootsChecked = true;
-            if (serverRef.current) {
-                const root = await rootFromMcpRoots(serverRef.current);
-                if (root)
-                    await switchRoot(root);
-            }
-        }
-        // Now that root is finalized, trigger auto index if needed
-        checkAndTriggerAutoIndex();
+        await settleRootAndTriggerAutoIndex();
     }
     const server = createServer(ctx, beforeTool);
     serverRef.current = server;
     const transport = new StdioServerTransport();
     await server.connect(transport);
+    // Explicit --cwd roots (Cursor's ${workspaceFolder}) are ready immediately;
+    // roots-only clients may need initialize to complete first, so retry briefly.
+    void (async () => {
+        for (let i = 0; i < 10; i++) {
+            await settleRootAndTriggerAutoIndex();
+            if (rootsChecked)
+                break;
+            await new Promise((resolve) => setTimeout(resolve, 100));
+        }
+    })();
 }
 function openRuntime(repoRoot) {
     let coreDb;

package/build/src/server.js.map

@@ -1 +1 @@
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package/build/src/tools/current.js

@@ -1,5 +1,7 @@
 import { detectScope } from "../git/scope.js";
-import { getActiveIndexId, getIndex } from "../index/manager.js";
+import { getIndex, setActiveIndex } from "../index/manager.js";
+import { computeIndexId } from "../index/identity.js";
+import { getAutoIndexStatus, hasPersistentIndex } from "../index/autoindex.js";
 export function ctxCurrent(db, repoRoot, scope) {
     const s = scope ?? detectScope(repoRoot);
     if (!s) {
@@ -12,20 +14,28 @@ export function ctxCurrent(db, repoRoot, scope) {
             dirtyFiles: 0,
             lastIndexedAt: null,
             indexStatus: null,
+            indexingStartedAt: null,
+            indexingAgeMs: null,
             inGitRepo: false,
         };
     }
-    const activeId = getActiveIndexId();
-    const row = activeId ? getIndex(db, activeId) : undefined;
+    const indexId = computeIndexId(s);
+    const row = getIndex(db, indexId);
+    const indexing = getAutoIndexStatus(indexId);
+    const complete = hasPersistentIndex(db, s);
+    if (complete && !indexing)
+        setActiveIndex(indexId);
     return {
         repo: s.repoRoot,
         branch: s.branch,
         headSha: s.headSha,
-        indexId: activeId,
-        status: row ? (row.status === "active" ? "active" : "stale") : "missing",
+        indexId: complete ? indexId : null,
+        status: indexing ? "indexing" : complete ? (row?.status === "active" ? "active" : "stale") : "missing",
         dirtyFiles: s.dirtyFiles.length,
         lastIndexedAt: row?.last_accessed_at ?? null,
         indexStatus: row?.status ?? null,
+        indexingStartedAt: indexing?.startedAt ?? null,
+        indexingAgeMs: indexing?.ageMs ?? null,
         inGitRepo: true,
     };
 }

package/build/src/tools/current.js.map

@@ -1 +1 @@
-{"version":3,"file":"current.js","sourceRoot":"","sources":["../../../src/tools/current.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,WAAW,EAAiB,MAAM,iBAAiB,CAAC;AAC7D,OAAO,EAAE,gBAAgB,EAAE,QAAQ,EAAE,MAAM,qBAAqB,CAAC;AAoBjE,MAAM,UAAU,UAAU,CAAC,EAAqB,EAAE,QAAgB,EAAE,KAAuB;IACzF,MAAM,CAAC,GAAG,KAAK,IAAI,WAAW,CAAC,QAAQ,CAAC,CAAC;IACzC,IAAI,CAAC,CAAC,EAAE,CAAC;QACP,OAAO;YACL,IAAI,EAAE,QAAQ;YACd,MAAM,EAAE,EAAE;YACV,OAAO,EAAE,EAAE;YACX,OAAO,EAAE,IAAI;YACb,MAAM,EAAE,SAAS;YACjB,UAAU,EAAE,CAAC;YACb,aAAa,EAAE,IAAI;YACnB,WAAW,EAAE,IAAI;YACjB,SAAS,EAAE,KAAK;SACjB,CAAC;IACJ,CAAC;IACD,MAAM,QAAQ,GAAG,gBAAgB,EAAE,CAAC;IACpC,MAAM,GAAG,GAAG,QAAQ,CAAC,CAAC,CAAC,QAAQ,CAAC,EAAE,EAAE,QAAQ,CAAC,CAAC,CAAC,CAAC,SAAS,CAAC;IAC1D,OAAO;QACL,IAAI,EAAE,CAAC,CAAC,QAAQ;QAChB,MAAM,EAAE,CAAC,CAAC,MAAM;QAChB,OAAO,EAAE,CAAC,CAAC,OAAO;QAClB,OAAO,EAAE,QAAQ;QACjB,MAAM,EAAE,GAAG,CAAC,CAAC,CAAC,CAAC,GAAG,CAAC,MAAM,KAAK,QAAQ,CAAC,CAAC,CAAC,QAAQ,CAAC,CAAC,CAAC,OAAO,CAAC,CAAC,CAAC,CAAC,SAAS;QACxE,UAAU,EAAE,CAAC,CAAC,UAAU,CAAC,MAAM;QAC/B,aAAa,EAAE,GAAG,EAAE,gBAAgB,IAAI,IAAI;QAC5C,WAAW,EAAE,GAAG,EAAE,MAAM,IAAI,IAAI;QAChC,SAAS,EAAE,IAAI;KAChB,CAAC;AACJ,CAAC"}
+{"version":3,"file":"current.js","sourceRoot":"","sources":["../../../src/tools/current.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,WAAW,EAAiB,MAAM,iBAAiB,CAAC;AAC7D,OAAO,EAAE,QAAQ,EAAE,cAAc,EAAE,MAAM,qBAAqB,CAAC;AAC/D,OAAO,EAAE,cAAc,EAAE,MAAM,sBAAsB,CAAC;AACtD,OAAO,EAAE,kBAAkB,EAAE,kBAAkB,EAAE,MAAM,uBAAuB,CAAC;AAsB/E,MAAM,UAAU,UAAU,CAAC,EAAqB,EAAE,QAAgB,EAAE,KAAuB;IACzF,MAAM,CAAC,GAAG,KAAK,IAAI,WAAW,CAAC,QAAQ,CAAC,CAAC;IACzC,IAAI,CAAC,CAAC,EAAE,CAAC;QACP,OAAO;YACL,IAAI,EAAE,QAAQ;YACd,MAAM,EAAE,EAAE;YACV,OAAO,EAAE,EAAE;YACX,OAAO,EAAE,IAAI;YACb,MAAM,EAAE,SAAS;YACjB,UAAU,EAAE,CAAC;YACb,aAAa,EAAE,IAAI;YACnB,WAAW,EAAE,IAAI;YACjB,iBAAiB,EAAE,IAAI;YACvB,aAAa,EAAE,IAAI;YACnB,SAAS,EAAE,KAAK;SACjB,CAAC;IACJ,CAAC;IACD,MAAM,OAAO,GAAG,cAAc,CAAC,CAAC,CAAC,CAAC;IAClC,MAAM,GAAG,GAAG,QAAQ,CAAC,EAAE,EAAE,OAAO,CAAC,CAAC;IAClC,MAAM,QAAQ,GAAG,kBAAkB,CAAC,OAAO,CAAC,CAAC;IAC7C,MAAM,QAAQ,GAAG,kBAAkB,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC;IAC3C,IAAI,QAAQ,IAAI,CAAC,QAAQ;QAAE,cAAc,CAAC,OAAO,CAAC,CAAC;IACnD,OAAO;QACL,IAAI,EAAE,CAAC,CAAC,QAAQ;QAChB,MAAM,EAAE,CAAC,CAAC,MAAM;QAChB,OAAO,EAAE,CAAC,CAAC,OAAO;QAClB,OAAO,EAAE,QAAQ,CAAC,CAAC,CAAC,OAAO,CAAC,CAAC,CAAC,IAAI;QAClC,MAAM,EAAE,QAAQ,CAAC,CAAC,CAAC,UAAU,CAAC,CAAC,CAAC,QAAQ,CAAC,CAAC,CAAC,CAAC,GAAG,EAAE,MAAM,KAAK,QAAQ,CAAC,CAAC,CAAC,QAAQ,CAAC,CAAC,CAAC,OAAO,CAAC,CAAC,CAAC,CAAC,SAAS;QACtG,UAAU,EAAE,CAAC,CAAC,UAAU,CAAC,MAAM;QAC/B,aAAa,EAAE,GAAG,EAAE,gBAAgB,IAAI,IAAI;QAC5C,WAAW,EAAE,GAAG,EAAE,MAAM,IAAI,IAAI;QAChC,iBAAiB,EAAE,QAAQ,EAAE,SAAS,IAAI,IAAI;QAC9C,aAAa,EAAE,QAAQ,EAAE,KAAK,IAAI,IAAI;QACtC,SAAS,EAAE,IAAI;KAChB,CAAC;AACJ,CAAC"}

package/build/src/tools/refresh.js

@@ -1,5 +1,22 @@
 import { buildIndex } from "../index/indexer.js";
+import { computeIndexId } from "../index/identity.js";
+import { getAutoIndexStatus } from "../index/autoindex.js";
 export function ctxRefresh(db, scope) {
+    const indexId = computeIndexId(scope);
+    const indexing = getAutoIndexStatus(indexId);
+    if (indexing) {
+        return {
+            indexId,
+            branch: scope.branch,
+            headSha: scope.headSha,
+            indexedFiles: 0,
+            totalChunks: 0,
+            skipped: 0,
+            status: "indexing",
+            indexingStartedAt: indexing.startedAt,
+            indexingAgeMs: indexing.ageMs,
+        };
+    }
     const r = buildIndex(db, scope);
     return {
         indexId: r.indexId,

package/build/src/tools/refresh.js.map

@@ -1 +1 @@
-{"version":3,"file":"refresh.js","sourceRoot":"","sources":["../../../src/tools/refresh.ts"],"names":[],"mappings":"AAEA,OAAO,EAAE,UAAU,EAAE,MAAM,qBAAqB,CAAC;AAmBjD,MAAM,UAAU,UAAU,CAAC,EAAqB,EAAE,KAAe;IAC/D,MAAM,CAAC,GAAG,UAAU,CAAC,EAAE,EAAE,KAAK,CAAC,CAAC;IAChC,OAAO;QACL,OAAO,EAAE,CAAC,CAAC,OAAO;QAClB,MAAM,EAAE,KAAK,CAAC,MAAM;QACpB,OAAO,EAAE,KAAK,CAAC,OAAO;QACtB,YAAY,EAAE,CAAC,CAAC,YAAY;QAC5B,WAAW,EAAE,CAAC,CAAC,WAAW;QAC1B,OAAO,EAAE,CAAC,CAAC,OAAO;QAClB,MAAM,EAAE,OAAO;KAChB,CAAC;AACJ,CAAC"}
+{"version":3,"file":"refresh.js","sourceRoot":"","sources":["../../../src/tools/refresh.ts"],"names":[],"mappings":"AAEA,OAAO,EAAE,UAAU,EAAE,MAAM,qBAAqB,CAAC;AACjD,OAAO,EAAE,cAAc,EAAE,MAAM,sBAAsB,CAAC;AACtD,OAAO,EAAE,kBAAkB,EAAE,MAAM,uBAAuB,CAAC;AAqB3D,MAAM,UAAU,UAAU,CAAC,EAAqB,EAAE,KAAe;IAC/D,MAAM,OAAO,GAAG,cAAc,CAAC,KAAK,CAAC,CAAC;IACtC,MAAM,QAAQ,GAAG,kBAAkB,CAAC,OAAO,CAAC,CAAC;IAC7C,IAAI,QAAQ,EAAE,CAAC;QACb,OAAO;YACL,OAAO;YACP,MAAM,EAAE,KAAK,CAAC,MAAM;YACpB,OAAO,EAAE,KAAK,CAAC,OAAO;YACtB,YAAY,EAAE,CAAC;YACf,WAAW,EAAE,CAAC;YACd,OAAO,EAAE,CAAC;YACV,MAAM,EAAE,UAAU;YAClB,iBAAiB,EAAE,QAAQ,CAAC,SAAS;YACrC,aAAa,EAAE,QAAQ,CAAC,KAAK;SAC9B,CAAC;IACJ,CAAC;IACD,MAAM,CAAC,GAAG,UAAU,CAAC,EAAE,EAAE,KAAK,CAAC,CAAC;IAChC,OAAO;QACL,OAAO,EAAE,CAAC,CAAC,OAAO;QAClB,MAAM,EAAE,KAAK,CAAC,MAAM;QACpB,OAAO,EAAE,KAAK,CAAC,OAAO;QACtB,YAAY,EAAE,CAAC,CAAC,YAAY;QAC5B,WAAW,EAAE,CAAC,CAAC,WAAW;QAC1B,OAAO,EAAE,CAAC,CAAC,OAAO;QAClB,MAAM,EAAE,OAAO;KAChB,CAAC;AACJ,CAAC"}

package/build/src/tools/registry.js

@@ -16,6 +16,8 @@ import { detectScope } from "../git/scope.js";
 import { getOrCreateIndex, getActiveIndexId } from "../index/manager.js";
 import { buildIndex } from "../index/indexer.js";
 import { ensureFreshIndex } from "../index/reindex.js";
+import { activatePersistentIndexIfReady, getAutoIndexStatus } from "../index/autoindex.js";
+import { computeIndexId } from "../index/identity.js";
 function withScope(ctx) {
     return detectScope(ctx.repoRoot);
 }
@@ -24,10 +26,18 @@ function ensureActive(ctx) {
     const scope = withScope(ctx);
     if (!scope)
         throw new Error("not inside a git repo (or plain dir support not enabled)");
-    // Build the first index eagerly, then use budget-bounded reconciliation on
-    // subsequent query tools so out-of-band edits are not silently missed.
+    // Activate a completed background auto-index if one exists. If auto-index is
+    // still running, do not duplicate a blocking foreground build; ask the agent to
+    // retry shortly or call cl_current for progress.
     if (!getActiveIndexId()) {
-        buildIndex(ctx.coreDb, scope);
+        const activated = activatePersistentIndexIfReady(ctx.coreDb, scope);
+        if (!activated) {
+            const indexId = computeIndexId(scope);
+            const indexing = getAutoIndexStatus(indexId);
+            if (indexing)
+                throw new Error(`indexing in progress since ${new Date(indexing.startedAt).toISOString()} (${Math.round(indexing.ageMs / 1000)}s ago); retry shortly or call cl_current`);
+            buildIndex(ctx.coreDb, scope);
+        }
     }
     else {
         getOrCreateIndex(ctx.coreDb, scope);
@@ -38,13 +48,13 @@ function ensureActive(ctx) {
 export const TOOLS = [
     {
         name: "cl_current",
-        description: "Report current repo/branch/index status with freshness fields. Use first to check if an index is ready.\n\nRETURNS: {repo, branch, headSha, indexId, status, dirtyFiles, lastIndexedAt, inGitRepo}\n\nEXAMPLE: cl_current",
+        description: "Report current repo/branch/index status with freshness fields. Use first to check if an index is ready. If status is indexing, wait/retry shortly instead of refreshing immediately.\n\nRETURNS: {repo, branch, headSha, indexId, status, dirtyFiles, lastIndexedAt, indexingStartedAt?, indexingAgeMs?, inGitRepo}\n\nEXAMPLE: cl_current",
         schema: {},
         handler: (ctx) => ctxCurrent(ctx.coreDb, ctx.repoRoot),
     },
     {
         name: "cl_refresh",
-        description: "Create or update the current branch/worktree index. Scans files, indexes FTS, extracts symbols, builds graph.\n\nRETURNS: {indexId, branch, indexedFiles, totalChunks, skipped, status}\n\nEXAMPLE: cl_refresh",
+        description: "Create or update the current branch/worktree index. Scans files, indexes FTS, extracts symbols, builds graph. If background auto-index is already running, returns status:indexing instead of duplicating work.\n\nRETURNS: {indexId, branch, indexedFiles, totalChunks, skipped, status, indexingStartedAt?, indexingAgeMs?}\n\nEXAMPLE: cl_refresh",
         schema: {},
         handler: (ctx) => {
             const scope = withScope(ctx);

package/build/src/tools/registry.js.map

@@ -1 +1 @@
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package/docs/routing.md

@@ -9,8 +9,10 @@ Prefer the codelens tools for code **discovery** — they keep the context windo
 lean and are branch-scoped. They are guidance, not an absolute mandate: use the
 right tool for the job.
 
-0. Call `cl_current` to confirm the index is ready; if `status` is `missing`,
-   call `cl_refresh` to build it.
+0. Call `cl_current` to confirm the index state. Installed MCP configs auto-index
+   missing branch indexes in the background; if `status` is `indexing`, wait or
+   retry shortly and use `indexingStartedAt`/`indexingAgeMs` to decide whether it
+   looks stuck. If `status` remains `missing`, call `cl_refresh` explicitly.
 
 Prefer codelens when:
 - you don't know the exact name/string (semantic or conceptual search via `cl_search`)
@@ -47,9 +49,10 @@ you're looking for.
 
 Results are scoped to the **current branch/worktree index only** by default.
 After `git checkout`, results will not leak from the old branch. If you switch
-branches mid-task, call `cl_current` again; the tool activates/creates the new
-branch's index automatically. MCP clients that provide Roots let CodeLens attach
-to the active workspace even from a global MCP config; otherwise use `--cwd` or
+branches mid-task, call `cl_current` again; installed MCP configs auto-index the
+new branch in the background when its index is missing. MCP clients that provide
+Roots let CodeLens attach to the active workspace even from a global MCP config;
+Cursor uses `--cwd ${workspaceFolder}`, and other clients can use `--cwd` or
 project-local MCP config.
 
 ## Freshness
@@ -57,8 +60,11 @@ project-local MCP config.
 Query tools auto-refresh changed files before returning (budget-bounded). If
 the response carries `freshness: "partial"`, `pendingFiles > 0`, or per-result
 `stale:true`, some recent edits were not reindexed within the budget. Read those
-files directly with `cl_expand`/raw read, then call `cl_refresh` or re-query when
-you need indexed relationships to catch up.
+files directly with `cl_expand`/raw read. Call `cl_refresh` when you need indexed
+relationships to catch up, after large branch/file changes, when `cl_current`
+remains `missing`, or when the user explicitly asks for a rebuild. If `cl_refresh`
+returns `status:"indexing"`, a background auto-index is already running; wait or
+retry instead of launching more indexing work.
 
 ## Tool quick reference
 

package/docs/tools.md

@@ -5,13 +5,13 @@ JSON-serialized text content.
 
 ## cl_current
 - **Input**: none
-- **Returns**: `{ repo, branch, headSha, indexId, status, dirtyFiles, lastIndexedAt, inGitRepo }`
-- **Use**: first call to check index readiness.
+- **Returns**: `{ repo, branch, headSha, indexId, status, dirtyFiles, lastIndexedAt, indexingStartedAt, indexingAgeMs, inGitRepo }`
+- **Use**: first call to check index readiness. `status` is `active`, `missing`, `stale`, or `indexing` (background auto-index in progress). When `indexing`, use `indexingStartedAt`/`indexingAgeMs` to decide whether to wait, retry, or investigate a stuck index.
 
 ## cl_refresh
 - **Input**: none
-- **Returns**: `{ indexId, branch, indexedFiles, totalChunks, skipped, status }`
-- **Use**: build/update the current branch index.
+- **Returns**: `{ indexId, branch, indexedFiles, totalChunks, skipped, status, indexingStartedAt?, indexingAgeMs? }`
+- **Use**: build/update the current branch index. If background auto-index is already running, returns `status:"indexing"` instead of duplicating work.
 
 ## cl_search
 - **Input**: `{ query: string, limit?: number=5, cursor?: string, contentType?: "code"|"prose", related?: boolean, snippet?: "none"|"headline"|"compact"|"full" }`

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@fodx/codelens",
-  "version": "2.2.0",
+  "version": "2.2.1",
   "description": "Local, branch-aware code search & relation graph. SQLite FTS5 + tree-sitter symbols + source-graph edges, exposed as an MCP server and CLI. No chat LLM required.",
   "license": "MIT",
   "type": "module",