codesift-mcp 0.14.0 → 0.15.1

package/dist/storage/chunk-store.d.ts

@@ -9,6 +9,12 @@ export declare function getChunkPath(indexPath: string): string;
  * {hash}.index.json → {hash}.chunk-embeddings.ndjson
  */
 export declare function getChunkEmbeddingPath(indexPath: string): string;
+export interface ResolvedChunkIndexPaths {
+    chunks: string;
+    embeddings: string;
+}
+/** Resolve both files from one manifest snapshot so a query cannot straddle generations. */
+export declare function resolveChunkIndexPaths(chunkPath: string, embeddingPath: string): Promise<ResolvedChunkIndexPaths>;
 /**
  * Save all chunks atomically as ndjson.
  * File: ~/.codesift/{hash}.chunks.ndjson
@@ -18,15 +24,21 @@ export declare function saveChunks(chunkPath: string, chunks: CodeChunk[]): Prom
  * Load all chunks from an ndjson file.
  * Returns a Map of chunkId → CodeChunk, or null if file not found.
  */
-export declare function loadChunks(chunkPath: string): Promise<Map<string, CodeChunk> | null>;
+export declare function loadChunks(chunkPath: string, resolvedPath?: string): Promise<Map<string, CodeChunk> | null>;
 /**
  * Save all chunk embeddings atomically as ndjson.
  * File: ~/.codesift/{hash}.chunk-embeddings.ndjson
  */
 export declare function saveChunkEmbeddings(embeddingPath: string, embeddings: Map<string, Float32Array>): Promise<void>;
+/**
+ * Publish chunk metadata and vectors by atomically switching one manifest.
+ * A crash or concurrent writer can leave unreferenced generation files, but
+ * readers observe either the complete old pair or the complete new pair.
+ */
+export declare function saveChunkIndex(chunkPath: string, chunks: CodeChunk[], embeddingPath: string, embeddings: Map<string, Float32Array>): Promise<void>;
 /**
  * Load all chunk embeddings from an ndjson file.
  * Returns a Map of chunkId → Float32Array, or null if file not found / empty.
  */
-export declare function loadChunkEmbeddings(embeddingPath: string): Promise<Map<string, Float32Array> | null>;
+export declare function loadChunkEmbeddings(embeddingPath: string, maxResidentBytes?: number, resolvedPath?: string): Promise<Map<string, Float32Array> | null>;
 //# sourceMappingURL=chunk-store.d.ts.map

package/dist/storage/chunk-store.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"chunk-store.d.ts","sourceRoot":"","sources":["../../src/storage/chunk-store.ts"],"names":[],"mappings":"AACA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,aAAa,CAAC;AAO7C;;;GAGG;AACH,wBAAgB,YAAY,CAAC,SAAS,EAAE,MAAM,GAAG,MAAM,CAEtD;AAED;;;GAGG;AACH,wBAAgB,qBAAqB,CAAC,SAAS,EAAE,MAAM,GAAG,MAAM,CAE/D;AA4BD;;;GAGG;AACH,wBAAsB,UAAU,CAC9B,SAAS,EAAE,MAAM,EACjB,MAAM,EAAE,SAAS,EAAE,GAClB,OAAO,CAAC,IAAI,CAAC,CAcf;AAiCD;;;GAGG;AACH,wBAAsB,UAAU,CAC9B,SAAS,EAAE,MAAM,GAChB,OAAO,CAAC,GAAG,CAAC,MAAM,EAAE,SAAS,CAAC,GAAG,IAAI,CAAC,CAMxC;AAWD;;;GAGG;AACH,wBAAsB,mBAAmB,CACvC,aAAa,EAAE,MAAM,EACrB,UAAU,EAAE,GAAG,CAAC,MAAM,EAAE,YAAY,CAAC,GACpC,OAAO,CAAC,IAAI,CAAC,CAmCf;AAQD;;;GAGG;AACH,wBAAsB,mBAAmB,CACvC,aAAa,EAAE,MAAM,GACpB,OAAO,CAAC,GAAG,CAAC,MAAM,EAAE,YAAY,CAAC,GAAG,IAAI,CAAC,CAM3C"}
+{"version":3,"file":"chunk-store.d.ts","sourceRoot":"","sources":["../../src/storage/chunk-store.ts"],"names":[],"mappings":"AAMA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,aAAa,CAAC;AAO7C;;;GAGG;AACH,wBAAgB,YAAY,CAAC,SAAS,EAAE,MAAM,GAAG,MAAM,CAEtD;AAED;;;GAGG;AACH,wBAAgB,qBAAqB,CAAC,SAAS,EAAE,MAAM,GAAG,MAAM,CAE/D;AAwDD,MAAM,WAAW,uBAAuB;IACtC,MAAM,EAAE,MAAM,CAAC;IACf,UAAU,EAAE,MAAM,CAAC;CACpB;AAED,4FAA4F;AAC5F,wBAAsB,sBAAsB,CAC1C,SAAS,EAAE,MAAM,EACjB,aAAa,EAAE,MAAM,GACpB,OAAO,CAAC,uBAAuB,CAAC,CAWlC;AAuBD;;;GAGG;AACH,wBAAsB,UAAU,CAC9B,SAAS,EAAE,MAAM,EACjB,MAAM,EAAE,SAAS,EAAE,GAClB,OAAO,CAAC,IAAI,CAAC,CA2Cf;AA4FD;;;GAGG;AACH,wBAAsB,UAAU,CAC9B,SAAS,EAAE,MAAM,EACjB,YAAY,CAAC,EAAE,MAAM,GACpB,OAAO,CAAC,GAAG,CAAC,MAAM,EAAE,SAAS,CAAC,GAAG,IAAI,CAAC,CAOxC;AAWD;;;GAGG;AACH,wBAAsB,mBAAmB,CACvC,aAAa,EAAE,MAAM,EACrB,UAAU,EAAE,GAAG,CAAC,MAAM,EAAE,YAAY,CAAC,GACpC,OAAO,CAAC,IAAI,CAAC,CAgCf;AAED;;;;GAIG;AACH,wBAAsB,cAAc,CAClC,SAAS,EAAE,MAAM,EACjB,MAAM,EAAE,SAAS,EAAE,EACnB,aAAa,EAAE,MAAM,EACrB,UAAU,EAAE,GAAG,CAAC,MAAM,EAAE,YAAY,CAAC,GACpC,OAAO,CAAC,IAAI,CAAC,CAyBf;AAQD;;;GAGG;AACH,wBAAsB,mBAAmB,CACvC,aAAa,EAAE,MAAM,EACrB,gBAAgB,SAA2B,EAC3C,YAAY,CAAC,EAAE,MAAM,GACpB,OAAO,CAAC,GAAG,CAAC,MAAM,EAAE,YAAY,CAAC,GAAG,IAAI,CAAC,CAa3C"}

package/dist/storage/chunk-store.js

@@ -1,5 +1,10 @@
-import { readFile } from "node:fs/promises";
-import { atomicWriteFile, cleanupOrphanTempFiles } from "./_shared.js";
+import { createReadStream } from "node:fs";
+import { randomUUID } from "node:crypto";
+import { once } from "node:events";
+import { createInterface } from "node:readline";
+import { finished } from "node:stream/promises";
+import { basename, dirname, join } from "node:path";
+import { cleanupOrphanTempFiles } from "./_shared.js";
 // ---------------------------------------------------------------------------
 // Path helpers
 // ---------------------------------------------------------------------------
@@ -17,6 +22,57 @@ export function getChunkPath(indexPath) {
 export function getChunkEmbeddingPath(indexPath) {
     return indexPath.replace(/\.index\.json$/, ".chunk-embeddings.ndjson");
 }
+function getChunkManifestPath(filePath) {
+    if (filePath.endsWith(".chunks.ndjson")) {
+        return filePath.replace(/\.chunks\.ndjson$/, ".chunk-index.json");
+    }
+    if (filePath.endsWith(".chunk-embeddings.ndjson")) {
+        return filePath.replace(/\.chunk-embeddings\.ndjson$/, ".chunk-index.json");
+    }
+    return `${filePath}.chunk-index.json`;
+}
+async function loadChunkManifest(filePath) {
+    let raw;
+    try {
+        const { readFile } = await import("node:fs/promises");
+        raw = await readFile(getChunkManifestPath(filePath), "utf8");
+    }
+    catch (err) {
+        if (err.code === "ENOENT")
+            return null;
+        throw err;
+    }
+    const parsed = JSON.parse(raw);
+    const safeName = (value) => typeof value === "string" &&
+        value !== "." &&
+        value !== ".." &&
+        !value.includes("/") &&
+        !value.includes("\\") &&
+        basename(value) === value;
+    if (parsed.version !== 1 ||
+        !safeName(parsed.chunks) ||
+        !safeName(parsed.embeddings))
+        throw new Error(`Invalid chunk index manifest: ${getChunkManifestPath(filePath)}`);
+    return parsed;
+}
+/** Resolve both files from one manifest snapshot so a query cannot straddle generations. */
+export async function resolveChunkIndexPaths(chunkPath, embeddingPath) {
+    if (getChunkManifestPath(chunkPath) !== getChunkManifestPath(embeddingPath)) {
+        throw new Error("Chunk and embedding paths must share one index manifest");
+    }
+    const manifest = await loadChunkManifest(chunkPath);
+    if (!manifest)
+        return { chunks: chunkPath, embeddings: embeddingPath };
+    const directory = dirname(chunkPath);
+    return {
+        chunks: join(directory, manifest.chunks),
+        embeddings: join(directory, manifest.embeddings),
+    };
+}
+async function resolveActiveChunkFile(filePath, kind) {
+    const manifest = await loadChunkManifest(filePath);
+    return manifest ? join(dirname(filePath), manifest[kind]) : filePath;
+}
 function isChunkLine(value) {
     if (typeof value !== "object" || value === null)
         return false;
@@ -33,49 +89,141 @@ function isChunkLine(value) {
  * File: ~/.codesift/{hash}.chunks.ndjson
  */
 export async function saveChunks(chunkPath, chunks) {
-    const lines = chunks.map((c) => JSON.stringify({
-        id: c.id,
-        file: c.file,
-        startLine: c.startLine,
-        endLine: c.endLine,
-        text: c.text,
-        tokenCount: c.tokenCount,
-    }));
-    const data = lines.join("\n") + "\n";
-    await atomicWriteFile(chunkPath, data);
+    // Streams for the same reason saveChunkEmbeddings does, one function below: a
+    // single `lines.join("\n")` throws `RangeError: Invalid string length` once the
+    // combined ndjson passes V8's max string length (~512 MiB), and this file holds
+    // the chunk TEXT, so it is the larger of the two. The sibling was fixed and this
+    // one was not — the largest chunks.ndjson on this machine is 154 MB (30% of the
+    // ceiling), so it is a latent failure, and one that would land at the END of a
+    // multi-hour embedding run with the vectors already computed.
+    await cleanupOrphanTempFiles(chunkPath);
+    const tmpPath = `${chunkPath}.tmp.${process.pid}.${randomUUID()}`;
+    const { createWriteStream } = await import("node:fs");
+    const stream = createWriteStream(tmpPath, { encoding: "utf-8" });
+    // Observe errors from the first write, including writes that did not apply
+    // backpressure and therefore never installed a temporary drain listener.
+    const completion = finished(stream);
+    try {
+        for (const c of chunks) {
+            const line = JSON.stringify({
+                id: c.id,
+                file: c.file,
+                startLine: c.startLine,
+                endLine: c.endLine,
+                text: c.text,
+                tokenCount: c.tokenCount,
+            }) + "\n";
+            if (!stream.write(line)) {
+                // events.once rejects when a writable emits "error" before "drain".
+                // A resolve-only drain waiter hangs forever on ENOSPC/EIO.
+                await once(stream, "drain");
+            }
+        }
+        stream.end();
+        await completion;
+        const { rename } = await import("node:fs/promises");
+        await rename(tmpPath, chunkPath);
+    }
+    catch (err) {
+        stream.destroy();
+        await completion.catch(() => undefined);
+        try {
+            const { unlink } = await import("node:fs/promises");
+            await unlink(tmpPath);
+        }
+        catch { /* ignore */ }
+        throw err;
+    }
 }
 /** Generic NDJSON loader — reads file, parses each line, filters with a type guard, maps to value. */
-async function loadNdjsonMap(filePath, guard, toEntry) {
+/**
+ * Read an ndjson file into a Map, one line at a time.
+ *
+ * This used to be `await readFile(path, "utf-8")` followed by `raw.split("\n")` — the whole file as
+ * one string, then a second full copy as an array. Both die above V8's hard MAX_STRING_LENGTH
+ * (536,870,888 chars), and the `catch { return null }` around it turned that into "this repo has no
+ * embeddings".
+ *
+ * That is not hypothetical. Measured 2026-08-09 against the live data dir, two chunk-embedding files
+ * are ALREADY unreadable and silently return null:
+ *
+ *     3,223.3 MB -> ERR_FS_FILE_TOO_LARGE      (fails in 2 ms)
+ *       765.6 MB -> "Invalid string length"    (fails in 625 ms)
+ *
+ * 3.99 GB of embeddings that cost hours of model time, present on disk, reported as absent. A
+ * control file at 497.4 MB loads fine, which is exactly what makes it invisible: it works until a
+ * repo crosses half a gigabyte, and then it stops working without saying so.
+ *
+ * Streaming has no ceiling and holds one line at a time. It is also the same shape
+ * `loadSharedCache` already uses — this file was the outlier.
+ */
+async function loadNdjsonMap(filePath, guard, toEntry, maxResidentBytes = Number.POSITIVE_INFINITY, parsedEntryBytes = () => 0, parsedKey) {
+    const map = new Map();
+    const entryBytes = new Map();
+    let residentBytes = 0;
+    let exceededBudget = false;
     try {
-        const raw = await readFile(filePath, "utf-8");
-        const map = new Map();
-        for (const line of raw.split("\n")) {
+        const input = createReadStream(filePath, { encoding: "utf-8" });
+        const rl = createInterface({
+            input,
+            crlfDelay: Infinity,
+        });
+        for await (const line of rl) {
             const trimmed = line.trim();
             if (!trimmed)
                 continue;
             try {
+                // Refuse a single oversized JSON record before materialising its
+                // transient number[] alongside the resident Float32Array map.
+                if (Number.isFinite(maxResidentBytes) &&
+                    Buffer.byteLength(trimmed, "utf8") > maxResidentBytes - residentBytes) {
+                    exceededBudget = true;
+                    rl.close();
+                    input.destroy();
+                    break;
+                }
                 const parsed = JSON.parse(trimmed);
                 if (guard(parsed)) {
+                    const estimatedBytes = parsedEntryBytes(parsed);
+                    const knownKey = parsedKey?.(parsed);
+                    const previousBytes = knownKey === undefined ? 0 : (entryBytes.get(knownKey) ?? 0);
+                    if (residentBytes - previousBytes + estimatedBytes > maxResidentBytes) {
+                        exceededBudget = true;
+                        map.clear();
+                        rl.close();
+                        input.destroy();
+                        console.error(`[codesift] chunk embeddings skipped: resident vectors exceed ` +
+                            `${Math.round(maxResidentBytes / 1024 / 1024)} MB budget`);
+                        break;
+                    }
                     const [key, value] = toEntry(parsed);
+                    residentBytes += estimatedBytes - previousBytes;
+                    entryBytes.set(key, estimatedBytes);
                     map.set(key, value);
                 }
             }
             catch {
-                // Skip malformed lines
+                // Skip a malformed line rather than abandoning the whole file. A truncated tail is the
+                // expected failure — a writer killed mid-append leaves one.
             }
         }
-        return map.size > 0 ? map : null;
     }
     catch {
-        return null;
+        // Missing or unreadable file. Anything already parsed is still worth returning: under the old
+        // whole-file read a single bad byte cost the entire map.
+        return map.size > 0 ? map : null;
     }
+    if (exceededBudget)
+        return null;
+    return map.size > 0 ? map : null;
 }
 /**
  * Load all chunks from an ndjson file.
  * Returns a Map of chunkId → CodeChunk, or null if file not found.
  */
-export async function loadChunks(chunkPath) {
-    return loadNdjsonMap(chunkPath, isChunkLine, (parsed) => [parsed.id, parsed]);
+export async function loadChunks(chunkPath, resolvedPath) {
+    const activePath = resolvedPath ?? await resolveActiveChunkFile(chunkPath, "chunks");
+    return loadNdjsonMap(activePath, isChunkLine, (parsed) => [parsed.id, parsed]);
 }
 /**
  * Save all chunk embeddings atomically as ndjson.
@@ -90,29 +238,25 @@ export async function saveChunkEmbeddings(embeddingPath, embeddings) {
     // mirrors saveEmbeddings, which already streams for the same reason.
     // Same orphan sweep as saveEmbeddings — a killed process leaves these behind.
     await cleanupOrphanTempFiles(embeddingPath);
-    const tmpPath = `${embeddingPath}.tmp.${Date.now()}`;
+    const tmpPath = `${embeddingPath}.tmp.${process.pid}.${randomUUID()}`;
     const { createWriteStream } = await import("node:fs");
     const stream = createWriteStream(tmpPath, { encoding: "utf-8" });
-    let streamError = null;
-    stream.on("error", (err) => { streamError = err; });
+    const completion = finished(stream);
     try {
         for (const [id, vec] of embeddings) {
-            if (streamError)
-                throw streamError;
             const line = JSON.stringify({ id, vec: Array.from(vec) }) + "\n";
             if (!stream.write(line)) {
-                await new Promise((resolve) => stream.once("drain", resolve));
+                await once(stream, "drain");
             }
         }
-        if (streamError)
-            throw streamError;
-        await new Promise((resolve, reject) => {
-            stream.end(() => streamError ? reject(streamError) : resolve());
-        });
+        stream.end();
+        await completion;
         const { rename } = await import("node:fs/promises");
         await rename(tmpPath, embeddingPath);
     }
     catch (err) {
+        stream.destroy();
+        await completion.catch(() => undefined);
         try {
             const { unlink } = await import("node:fs/promises");
             await unlink(tmpPath);
@@ -121,6 +265,38 @@ export async function saveChunkEmbeddings(embeddingPath, embeddings) {
         throw err;
     }
 }
+/**
+ * Publish chunk metadata and vectors by atomically switching one manifest.
+ * A crash or concurrent writer can leave unreferenced generation files, but
+ * readers observe either the complete old pair or the complete new pair.
+ */
+export async function saveChunkIndex(chunkPath, chunks, embeddingPath, embeddings) {
+    const generation = `${process.pid}.${randomUUID()}`;
+    const generationChunkPath = `${chunkPath}.generation.${generation}`;
+    const generationEmbeddingPath = `${embeddingPath}.generation.${generation}`;
+    const manifestPath = getChunkManifestPath(chunkPath);
+    const manifestTmpPath = `${manifestPath}.tmp.${generation}`;
+    const { rename, unlink, writeFile } = await import("node:fs/promises");
+    try {
+        await saveChunks(generationChunkPath, chunks);
+        await saveChunkEmbeddings(generationEmbeddingPath, embeddings);
+        const manifest = {
+            version: 1,
+            chunks: basename(generationChunkPath),
+            embeddings: basename(generationEmbeddingPath),
+        };
+        await writeFile(manifestTmpPath, `${JSON.stringify(manifest)}\n`, "utf8");
+        await rename(manifestTmpPath, manifestPath);
+    }
+    catch (err) {
+        await Promise.all([
+            unlink(generationChunkPath).catch(() => undefined),
+            unlink(generationEmbeddingPath).catch(() => undefined),
+            unlink(manifestTmpPath).catch(() => undefined),
+        ]);
+        throw err;
+    }
+}
 function isChunkEmbeddingLine(parsed) {
     return typeof parsed === "object" && parsed !== null &&
         typeof parsed["id"] === "string" &&
@@ -130,7 +306,11 @@ function isChunkEmbeddingLine(parsed) {
  * Load all chunk embeddings from an ndjson file.
  * Returns a Map of chunkId → Float32Array, or null if file not found / empty.
  */
-export async function loadChunkEmbeddings(embeddingPath) {
-    return loadNdjsonMap(embeddingPath, isChunkEmbeddingLine, (parsed) => [parsed.id, new Float32Array(parsed.vec)]);
+export async function loadChunkEmbeddings(embeddingPath, maxResidentBytes = Number.POSITIVE_INFINITY, resolvedPath) {
+    const activePath = resolvedPath ?? await resolveActiveChunkFile(embeddingPath, "embeddings");
+    return loadNdjsonMap(activePath, isChunkEmbeddingLine, (parsed) => [parsed.id, new Float32Array(parsed.vec)], maxResidentBytes, (parsed) => {
+        const entry = parsed;
+        return entry.vec.length * Float32Array.BYTES_PER_ELEMENT + entry.id.length * 2 + 128;
+    }, (parsed) => parsed.id);
 }
 //# sourceMappingURL=chunk-store.js.map

package/dist/storage/chunk-store.js.map

@@ -1 +1 @@
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package/dist/storage/embedding-store.d.ts

@@ -37,18 +37,6 @@ export declare function loadEmbeddingMeta(metaPath: string): Promise<EmbeddingMe
 export declare function primeContentHashes(cacheKey: string, hashes: ReadonlyMap<string, number>): void;
 /** Hashes currently known for `cacheKey`, for persisting beside the vectors. */
 export declare function contentHashesFor(cacheKey: string): ReadonlyMap<string, number>;
-/**
- * Batch-embed symbols using the given provider, appending to existing embeddings.
- * Skips symbols whose ID exists AND content hash hasn't changed.
- * Re-embeds symbols whose content changed even if ID is the same.
- *
- * @param symbolTexts - Map of symbolId → text to embed
- * @param existing - Existing embeddings to skip
- * @param embedFn - The provider's embed function
- * @param batchSize - How many texts per API call
- * @param cacheKey - Optional key to track content hashes across calls
- * @returns Map of symbolId → Float32Array (existing + new)
- */
 export declare function batchEmbed(symbolTexts: Map<string, string>, existing: Map<string, Float32Array>, embedFn: (texts: string[]) => Promise<number[][]>, batchSize: number, cacheKey?: string, 
 /**
  * Model identity for the cross-repo cache. A vector is a pure function of

package/dist/storage/embedding-store.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"embedding-store.d.ts","sourceRoot":"","sources":["../../src/storage/embedding-store.ts"],"names":[],"mappings":"AACA,OAAO,KAAK,EAAE,aAAa,EAAE,MAAM,aAAa,CAAC;AAIjD;;;GAGG;AACH,wBAAgB,gBAAgB,CAAC,SAAS,EAAE,MAAM,GAAG,MAAM,CAE1D;AAED;;;GAGG;AACH,wBAAgB,oBAAoB,CAAC,SAAS,EAAE,MAAM,GAAG,MAAM,CAE9D;AAkCD,4EAA4E;AAC5E,wBAAgB,oBAAoB,CAAC,aAAa,EAAE,MAAM,GAAG,GAAG,CAAC,MAAM,EAAE,MAAM,CAAC,CAE/E;AAED,wBAAsB,cAAc,CAClC,aAAa,EAAE,MAAM,EACrB,QAAQ,GAAE,MAAiC,GAC1C,OAAO,CAAC,GAAG,CAAC,MAAM,EAAE,YAAY,CAAC,CAAC,CAgGpC;AAED;;;GAGG;AACH,wBAAsB,cAAc,CAClC,aAAa,EAAE,MAAM,EACrB,UAAU,EAAE,GAAG,CAAC,MAAM,EAAE,YAAY,CAAC,EACrC,MAAM,CAAC,EAAE,WAAW,CAAC,MAAM,EAAE,MAAM,CAAC,GACnC,OAAO,CAAC,IAAI,CAAC,CAsCf;AAED;;GAEG;AACH,wBAAsB,iBAAiB,CACrC,QAAQ,EAAE,MAAM,EAChB,IAAI,EAAE,aAAa,GAClB,OAAO,CAAC,IAAI,CAAC,CAGf;AAED;;;GAGG;AACH,wBAAsB,iBAAiB,CACrC,QAAQ,EAAE,MAAM,GACf,OAAO,CAAC,aAAa,GAAG,IAAI,CAAC,CAgB/B;AAeD;;;;;;;GAOG;AACH,wBAAgB,kBAAkB,CAAC,QAAQ,EAAE,MAAM,EAAE,MAAM,EAAE,WAAW,CAAC,MAAM,EAAE,MAAM,CAAC,GAAG,IAAI,CAK9F;AAED,gFAAgF;AAChF,wBAAgB,gBAAgB,CAAC,QAAQ,EAAE,MAAM,GAAG,WAAW,CAAC,MAAM,EAAE,MAAM,CAAC,CAE9E;AAgFD,wBAAsB,UAAU,CAC9B,WAAW,EAAE,GAAG,CAAC,MAAM,EAAE,MAAM,CAAC,EAChC,QAAQ,EAAE,GAAG,CAAC,MAAM,EAAE,YAAY,CAAC,EACnC,OAAO,EAAE,CAAC,KAAK,EAAE,MAAM,EAAE,KAAK,OAAO,CAAC,MAAM,EAAE,EAAE,CAAC,EACjD,SAAS,EAAE,MAAM,EACjB,QAAQ,CAAC,EAAE,MAAM;AACjB;;;;;;GAMG;AACH,WAAW,CAAC,EAAE;IAAE,KAAK,EAAE,MAAM,CAAC;IAAC,UAAU,EAAE,MAAM,CAAA;CAAE,GAClD,OAAO,CAAC,GAAG,CAAC,MAAM,EAAE,YAAY,CAAC,CAAC,CAwEpC"}

package/dist/storage/embedding-store.js

@@ -241,6 +241,65 @@ export function contentHashesFor(cacheKey) {
  * @param cacheKey - Optional key to track content hashes across calls
  * @returns Map of symbolId → Float32Array (existing + new)
  */
+/**
+ * A failure that says nothing about the INPUT — the request never got an answer.
+ * An HTTP 4xx did get one and must not be retried: the model rejected the batch,
+ * and sending it again, or in halves, just fails more slowly.
+ */
+function isTransientStall(err) {
+    if (err instanceof DOMException && err.name === "AbortError")
+        return false;
+    if (err instanceof Error && err.name === "AbortError")
+        return false;
+    if (err instanceof DOMException && err.name === "TimeoutError")
+        return true;
+    const message = err instanceof Error ? err.message : String(err);
+    return /aborted|timed? ?out|ECONNRESET|socket hang up|fetch failed|other side closed/i.test(message);
+}
+/** How many times a stalled batch may be split before the failure is real. */
+const MAX_STALL_SPLITS = 4;
+/** Below this, splitting buys nothing — a stall on 8 items is not a size problem. */
+const MIN_SPLITTABLE_BATCH = 8;
+/**
+ * Issue one batch, surviving a request that stalls instead of answering.
+ *
+ * Without this a single stalled request throws all the way out of batchEmbed, the
+ * caller logs it, and the ENTIRE repo's pass is discarded — including every batch
+ * that already succeeded. Measured 2026-08-10 while re-embedding: ResearchShieldNew
+ * lost 1226s of work to one such request, and designer's chunk pass lost 1871s,
+ * both after hundreds of healthy batches. With retry in place the same repo
+ * finished 379,808 vectors in 65 minutes, having hit two stalls on the way.
+ *
+ * Halving rather than repeating: a batch that stalled once will usually stall again
+ * unchanged, and the halves are also the diagnosis — if one half sails through, the
+ * problem was volume, not content.
+ */
+async function embedBatchWithStallRetry(embedFn, texts, depth = 0) {
+    try {
+        const vectors = await embedFn(texts);
+        if (vectors.length !== texts.length) {
+            throw new Error(`embedding provider returned ${vectors.length} vectors for ${texts.length} texts`);
+        }
+        const dimensions = vectors[0]?.length ?? 0;
+        if (dimensions === 0 || vectors.some((vector) => vector.length !== dimensions || vector.some((value) => !Number.isFinite(value) || !Number.isFinite(Math.fround(value))))) {
+            throw new Error("embedding provider returned malformed vectors");
+        }
+        return vectors;
+    }
+    catch (err) {
+        if (!isTransientStall(err) || depth >= MAX_STALL_SPLITS || texts.length < MIN_SPLITTABLE_BATCH) {
+            throw err;
+        }
+        const half = Math.ceil(texts.length / 2);
+        const reason = err instanceof Error ? err.message : String(err);
+        console.error(`[codesift] embed batch of ${texts.length} stalled (${reason}) — retrying as ${half}+${texts.length - half}`);
+        const first = await embedBatchWithStallRetry(embedFn, texts.slice(0, half), depth + 1);
+        const second = await embedBatchWithStallRetry(embedFn, texts.slice(half), depth + 1);
+        // concat, not spread: a batch is small enough that `[...a, ...b]` would be safe, but the
+        // argument-stack overflow fixed in this same function is a good reason not to keep the habit.
+        return first.concat(second);
+    }
+}
 export async function batchEmbed(symbolTexts, existing, embedFn, batchSize, cacheKey, 
 /**
  * Model identity for the cross-repo cache. A vector is a pure function of
@@ -283,22 +342,23 @@ sharedModel) {
             stillToEmbed.push({ ...item, key });
         }
     }
-    toEmbed.length = 0;
-    toEmbed.push(...stillToEmbed);
-    // Process in batches (only symbols that need embedding)
-    for (let i = 0; i < toEmbed.length; i += batchSize) {
-        const batch = toEmbed.slice(i, i + batchSize);
+    // Iterate `stillToEmbed` directly. Copying it back into `toEmbed` via
+    // `push(...stillToEmbed)` spread one argument per symbol onto the call stack,
+    // which V8 overflows somewhere between 100k and 125k arguments — so every repo
+    // above ~100k symbols threw "Maximum call stack size exceeded" here and could
+    // never be embedded at all (12 repos on this machine, the four largest first).
+    for (let i = 0; i < stillToEmbed.length; i += batchSize) {
+        const batch = stillToEmbed.slice(i, i + batchSize);
         const texts = batch.map((b) => b.text);
-        const vectors = await embedFn(texts);
+        const vectors = await embedBatchWithStallRetry(embedFn, texts);
         for (let j = 0; j < batch.length; j++) {
             const entry = batch[j];
             const vec = vectors[j];
             if (entry && vec) {
                 const f32 = new Float32Array(vec);
                 result.set(entry.id, f32);
-                const key = entry.key;
-                if (key)
-                    freshlyEmbedded.push({ key, vec: f32 });
+                if (entry.key)
+                    freshlyEmbedded.push({ key: entry.key, vec: f32 });
             }
         }
     }

package/dist/storage/embedding-store.js.map

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package/dist/storage/index-cache.d.ts

@@ -0,0 +1,12 @@
+import type { CodeIndex } from "../types.js";
+import type { IndexSummary } from "./sqlite-index-store.js";
+export declare function resetSummaryCacheForTesting(): void;
+export declare function getCachedSummary(dbPath: string, dataVersion: number): IndexSummary | null;
+export declare function cacheLoadedSummary(dbPath: string, summary: IndexSummary, dataVersion: number): IndexSummary;
+export declare function getCachedIndex(dbPath: string, dataVersion: number): CodeIndex | null;
+export declare function cacheLoadedIndex(dbPath: string, index: CodeIndex, dataVersion: number): CodeIndex;
+export declare function invalidateIndexCache(dbPath: string): void;
+export declare function resetIndexCacheForTesting(): void;
+export declare function getIndexCacheSizeForTesting(): number;
+export declare function getIndexCacheBytesForTesting(): number;
+//# sourceMappingURL=index-cache.d.ts.map

package/dist/storage/index-cache.d.ts.map

@@ -0,0 +1 @@
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