@getrift/rift 0.1.0-beta.21 → 0.1.0-beta.22

package/dist/src/ingestion/cursor/enrich-roots.js

@@ -0,0 +1,22 @@
+import { resolveProjectRootByWorkspaceId } from "./workspace-root.js";
+export function enrichCursorProjectRoots(candidates, cursorDir) {
+    return candidates.map((c) => {
+        if (c.projectRootStatus !== "unresolved" || !c.workspaceId)
+            return c;
+        const r = resolveProjectRootByWorkspaceId(cursorDir, c.workspaceId);
+        if (r.status === "resolved") {
+            return {
+                ...c,
+                projectRoot: r.root,
+                projectRootSource: r.source,
+                projectRootStatus: r.status,
+            };
+        }
+        // A non-`resolved`, non-`unresolved` on-disk outcome (empty_window /
+        // multi_root / remote) is still more informative than bare `unresolved`.
+        if (r.status !== "unresolved")
+            return { ...c, projectRootStatus: r.status };
+        return c;
+    });
+}
+//# sourceMappingURL=enrich-roots.js.map

package/dist/src/ingestion/cursor/enrich-roots.js.map

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package/dist/src/ingestion/cursor/vscdb-reader.d.ts

@@ -0,0 +1,32 @@
+import type { CursorRawRows } from "./cursor-store.js";
+/** Default macOS location of Cursor's per-user application support dir. */
+export declare function defaultCursorDir(): string;
+/** Global KV store path under a Cursor application-support dir. */
+export declare function globalStatePath(cursorDir: string): string;
+export interface CursorReadResult {
+    /** Absolute path of the db that was read. */
+    dbPath: string;
+    /** Raw rows for the pure discovery layer. */
+    rows: CursorRawRows;
+}
+export declare class CursorReaderError extends Error {
+    readonly code: "sqlite_missing" | "db_missing" | "query_failed";
+    constructor(message: string, code: "sqlite_missing" | "db_missing" | "query_failed");
+}
+export interface ReadOptions {
+    /** Cursor application-support dir; defaults to the standard macOS path. */
+    cursorDir?: string;
+    /**
+     * When true, ALSO fetch bubble bodies (`bubbleId:*`) — the actual message
+     * text. Off by default: discovery never needs private content. Only enable
+     * when the caller has acknowledged it will read prose (e.g. parse round-trip).
+     */
+    includeBubbles?: boolean;
+}
+/**
+ * Read the global Cursor state.vscdb read-only and return raw rows for the pure
+ * discovery layer. Throws {@link CursorReaderError} with a stable `code` for the
+ * three expected failure modes so callers can render friendly guidance.
+ */
+export declare function readCursorGlobalState(options?: ReadOptions): CursorReadResult;
+//# sourceMappingURL=vscdb-reader.d.ts.map

package/dist/src/ingestion/cursor/vscdb-reader.d.ts.map

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package/dist/src/ingestion/cursor/vscdb-reader.js

@@ -0,0 +1,113 @@
+/**
+ * Read-only reader for Cursor's `state.vscdb` SQLite stores.
+ *
+ * DISCOVERY SLICE ONLY — this is the single I/O boundary for Cursor capture.
+ * It is deliberately read-only by THREE independent guarantees:
+ *   1. SQLite is opened with the `immutable=1` URI flag, which forbids any
+ *      write and never creates/touches the -wal/-shm sidecar files.
+ *   2. Only SELECT statements are ever issued.
+ *   3. We shell out to the system `sqlite3` binary rather than linking a
+ *      writable driver. (Cursor itself holds the db open under WAL; immutable
+ *      lets us read a consistent snapshot without contending for the lock.)
+ *
+ * Why shell out instead of a native dep: Rift's Node engine floor still
+ * includes Node 20 (no `node:sqlite`), and we don't want to pull a native
+ * addon (better-sqlite3) into the tree for a read-only probe. macOS always
+ * ships `/usr/bin/sqlite3`, and Cursor is macOS-first. The future capture slice
+ * can revisit this (node:sqlite once the floor rises). See the discovery doc.
+ *
+ * PRIVACY: by default we fetch only the session index + per-session metadata
+ * (`composer.composerHeaders`, `composerData:*`). We never SELECT `cursorAuth/*`
+ * (access/refresh tokens) or `secret://*` (MCP OAuth secrets), and we do not
+ * fetch bubble bodies (`bubbleId:*`, the actual message text) unless the caller
+ * explicitly opts in.
+ */
+import { execFileSync } from "node:child_process";
+import fs from "node:fs";
+import os from "node:os";
+import path from "node:path";
+/** Default macOS location of Cursor's per-user application support dir. */
+export function defaultCursorDir() {
+    return path.join(os.homedir(), "Library", "Application Support", "Cursor");
+}
+/** Global KV store path under a Cursor application-support dir. */
+export function globalStatePath(cursorDir) {
+    return path.join(cursorDir, "User", "globalStorage", "state.vscdb");
+}
+export class CursorReaderError extends Error {
+    code;
+    constructor(message, code) {
+        super(message);
+        this.code = code;
+        this.name = "CursorReaderError";
+    }
+}
+function sqlite3Available() {
+    try {
+        execFileSync("sqlite3", ["--version"], { stdio: ["ignore", "ignore", "ignore"] });
+        return true;
+    }
+    catch {
+        return false;
+    }
+}
+/**
+ * Run a single SELECT against an immutable (read-only) view of the db and
+ * return rows as objects. Uses `.mode json` so values come back as strings.
+ */
+function selectJson(dbPath, sql) {
+    const uri = `file:${dbPath}?immutable=1`;
+    let stdout;
+    try {
+        stdout = execFileSync("sqlite3", ["-cmd", ".mode json", uri, sql], {
+            encoding: "utf-8",
+            maxBuffer: 256 * 1024 * 1024, // composer blobs can be large
+        });
+    }
+    catch (err) {
+        throw new CursorReaderError(`sqlite3 query failed: ${err instanceof Error ? err.message : String(err)}`, "query_failed");
+    }
+    const trimmed = stdout.trim();
+    if (!trimmed)
+        return [];
+    try {
+        return JSON.parse(trimmed);
+    }
+    catch (err) {
+        throw new CursorReaderError(`failed to parse sqlite3 JSON output: ${err instanceof Error ? err.message : String(err)}`, "query_failed");
+    }
+}
+function toKvRows(records) {
+    const rows = [];
+    for (const rec of records) {
+        if (typeof rec.key === "string" && typeof rec.value === "string") {
+            rows.push({ key: rec.key, value: rec.value });
+        }
+    }
+    return rows;
+}
+/**
+ * Read the global Cursor state.vscdb read-only and return raw rows for the pure
+ * discovery layer. Throws {@link CursorReaderError} with a stable `code` for the
+ * three expected failure modes so callers can render friendly guidance.
+ */
+export function readCursorGlobalState(options = {}) {
+    const cursorDir = options.cursorDir ?? defaultCursorDir();
+    const dbPath = globalStatePath(cursorDir);
+    if (!fs.existsSync(dbPath)) {
+        throw new CursorReaderError(`Cursor state.vscdb not found at ${dbPath}`, "db_missing");
+    }
+    if (!sqlite3Available()) {
+        throw new CursorReaderError("The `sqlite3` binary is required to read Cursor's store but was not found on PATH.", "sqlite_missing");
+    }
+    // Session index (ItemTable). Single, small row.
+    const itemTable = toKvRows(selectJson(dbPath, "SELECT key, value FROM ItemTable WHERE key = 'composer.composerHeaders'"));
+    // Per-session metadata (cursorDiskKV). Small; never tokens/secrets.
+    const composerData = toKvRows(selectJson(dbPath, "SELECT key, value FROM cursorDiskKV WHERE key LIKE 'composerData:%'"));
+    const cursorDiskKV = [...composerData];
+    if (options.includeBubbles) {
+        cursorDiskKV.push(...toKvRows(selectJson(dbPath, "SELECT key, value FROM cursorDiskKV WHERE key LIKE 'bubbleId:%'")));
+    }
+    return { dbPath, rows: { itemTable, cursorDiskKV } };
+}
+//# sourceMappingURL=vscdb-reader.js.map

package/dist/src/ingestion/cursor/vscdb-reader.js.map

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package/dist/src/ingestion/cursor/workspace-root.d.ts

@@ -0,0 +1,96 @@
+/** Sentinel `workspaceIdentifier.id` Cursor uses when no folder is open. */
+export declare const EMPTY_WINDOW_ID = "empty-window";
+/** The `uri` object Cursor embeds in a folder-bound composer header. */
+export interface CursorWorkspaceUri {
+    scheme?: string;
+    fsPath?: string;
+    path?: string;
+    external?: string;
+}
+/** A composer header's `workspaceIdentifier` (id + optional inline uri). */
+export interface CursorWorkspaceIdentifier {
+    id?: string;
+    uri?: CursorWorkspaceUri | null;
+}
+/**
+ * Outcome of resolving a workspace identifier to a project root. Every
+ * non-`resolved` status is a deliberate, named outcome — the capture slice must
+ * branch on these rather than ever fabricate a root.
+ */
+export type ProjectRootResolution = {
+    status: "resolved";
+    /** Absolute filesystem path of the project root. */
+    root: string;
+    /** Which link produced the root. */
+    source: "header_uri" | "workspace_json";
+    workspaceId: string | null;
+}
+/** No folder open (`empty-window`). Expected; not attributable. */
+ | {
+    status: "empty_window";
+    workspaceId: "empty-window";
+}
+/** Multi-root `.code-workspace`; root ambiguous. */
+ | {
+    status: "multi_root";
+    workspaceId: string;
+    configPath: string | null;
+}
+/** Non-`file` scheme (remote/ssh/wsl/devcontainer); not a local path. */
+ | {
+    status: "remote";
+    workspaceId: string | null;
+    scheme: string;
+}
+/** Id present but no inline uri and no readable `workspace.json`. */
+ | {
+    status: "unresolved";
+    workspaceId: string | null;
+};
+/**
+ * Parse a `workspace.json` file's text. Returns the folder root (single-folder
+ * window), a multi-root marker (`.code-workspace`), or unknown. Pure.
+ */
+export declare function parseWorkspaceJson(text: string): {
+    kind: "folder";
+    scheme: string | null;
+    root: string | null;
+} | {
+    kind: "multi_root";
+    configPath: string | null;
+} | {
+    kind: "unknown";
+};
+/** Injected dependencies for the pure resolver. */
+export interface ResolveOptions {
+    /**
+     * Returns the raw text of `workspaceStorage/<id>/workspace.json`, or null if
+     * absent. Injected so the resolver stays pure and fully fixture-testable.
+     * Used only as a fallback when the header carries no inline uri.
+     */
+    readWorkspaceJson?: (workspaceId: string) => string | null;
+}
+/**
+ * Resolve a composer header's `workspaceIdentifier` to a project root. Pure:
+ * the only I/O is the injected {@link ResolveOptions.readWorkspaceJson}. Tries
+ * the inline header uri first (current builds), then the on-disk
+ * `workspace.json` join (legacy builds / uri stripped). Never guesses — every
+ * non-resolvable case maps to an explicit status.
+ */
+export declare function resolveProjectRoot(identifier: CursorWorkspaceIdentifier | null | undefined, options?: ResolveOptions): ProjectRootResolution;
+/** Path to a workspace's `workspace.json` under a Cursor app-support dir. */
+export declare function workspaceJsonPath(cursorDir: string, workspaceId: string): string;
+/** Read `workspace.json` text read-only; null if it does not exist / unreadable. */
+export declare function readWorkspaceJsonFromDisk(cursorDir: string, workspaceId: string): string | null;
+/**
+ * Filesystem-backed resolution: resolve a header's identifier against a real
+ * Cursor app-support dir, reading `workspace.json` read-only when needed.
+ */
+export declare function resolveCursorProjectRoot(identifier: CursorWorkspaceIdentifier | null | undefined, cursorDir: string): ProjectRootResolution;
+/**
+ * Resolve a project root from a workspace id alone (no inline uri available).
+ * Used by the probe to upgrade `unresolved` discovery candidates on legacy
+ * builds via the on-disk `workspace.json` join.
+ */
+export declare function resolveProjectRootByWorkspaceId(cursorDir: string, workspaceId: string): ProjectRootResolution;
+//# sourceMappingURL=workspace-root.d.ts.map

package/dist/src/ingestion/cursor/workspace-root.d.ts.map

@@ -0,0 +1 @@
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package/dist/src/ingestion/cursor/workspace-root.js

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+/**
+ * Resolve a native Cursor session's `workspaceIdentifier` to a filesystem
+ * project root — the missing half of Cursor project-root attribution.
+ *
+ * DISCOVERY SLICE ONLY. Read-only, no LanceDB writes, no daemon, no capture.
+ * The pure resolver ({@link resolveProjectRoot}) takes an injected
+ * `readWorkspaceJson` so it is exhaustively unit-testable from synthetic
+ * metadata with no filesystem and no real Cursor install. The fs-backed wrapper
+ * ({@link resolveCursorProjectRoot}) only reads `workspace.json` (a tiny
+ * `{ "folder": "file://…" }` file) — never the workspace's `state.vscdb`,
+ * never tokens, never message content.
+ *
+ * ## The join contract (empirically verified, macOS Cursor "glass", 2026-06)
+ *
+ * On opening a folder window, Cursor writes the composer header's
+ * `workspaceIdentifier` with TWO independent links to the project root:
+ *
+ *   "workspaceIdentifier": {
+ *     "id": "<workspaceStorageHash>",          // e.g. "11ed9332b5bd79fd69ad93a7636abd28"
+ *     "uri": { "scheme": "file",
+ *              "fsPath": "/Users/me/projects/foo",
+ *              "path":   "/Users/me/projects/foo",
+ *              "external": "file:///Users/me/projects/foo" }
+ *   }
+ *
+ *   1. INLINE (primary, current builds): `uri.fsPath` IS the project root.
+ *      No disk lookup needed.
+ *   2. ON-DISK (authoritative fallback): `id` equals the directory name under
+ *      `~/Library/Application Support/Cursor/User/workspaceStorage/<id>/`,
+ *      whose `workspace.json` holds `{ "folder": "file://<root>" }`. Verified:
+ *      the same hash appears as both `workspaceIdentifier.id` and the storage
+ *      dir name, and its `workspace.json.folder` matches `uri.fsPath`.
+ *
+ * The storage hash is NOT a recomputable md5 of the folder URI (checked: no
+ * simple encoding reproduces it) — so resolution MUST read `workspace.json` (or
+ * trust the inline uri), never re-derive the hash.
+ *
+ * ## Failure modes (all first-class — never guessed)
+ *   - `id === "empty-window"` and no `uri`  → no folder open. NOT attributable.
+ *     This is the common case on a machine with only empty windows.
+ *   - `workspace.json` has `"workspace": "…code-workspace"` (multi-root) instead
+ *     of `"folder"` → project root is ambiguous. Do not pick one.
+ *   - `uri.scheme` / `folder` scheme is not `file` (ssh-remote, wsl, devcontainer)
+ *     → not a local path.
+ *   - `id` present but `workspace.json` missing/purged and no inline `uri`
+ *     → unresolved.
+ *
+ * The capture slice should scope to a project root ONLY on `resolved`; for every
+ * other status, capture WITHOUT project scoping (or behind a user-confirmed
+ * fallback). See docs/cursor-capture-discovery.md.
+ */
+import fs from "node:fs";
+import path from "node:path";
+/** Sentinel `workspaceIdentifier.id` Cursor uses when no folder is open. */
+export const EMPTY_WINDOW_ID = "empty-window";
+/** Parse a URI string into `{ scheme, path }`; `path` is null for non-file. */
+function parseUriString(uri) {
+    let parsed;
+    try {
+        parsed = new URL(uri);
+    }
+    catch {
+        return { scheme: null, path: null };
+    }
+    const scheme = parsed.protocol.replace(/:$/, "");
+    if (scheme !== "file")
+        return { scheme, path: null };
+    // file:///abs/path -> decode percent-encoding (spaces, accents in client dirs)
+    return { scheme, path: decodeURIComponent(parsed.pathname) };
+}
+/** Derive `{ scheme, root }` from an inline header `uri` object. */
+function rootFromInlineUri(uri) {
+    if (!uri || typeof uri !== "object")
+        return { scheme: null, root: null };
+    const scheme = typeof uri.scheme === "string" ? uri.scheme : null;
+    if (scheme && scheme !== "file")
+        return { scheme, root: null };
+    // fsPath / path are already decoded absolute paths in Cursor's serialization.
+    const direct = (typeof uri.fsPath === "string" && uri.fsPath) ||
+        (typeof uri.path === "string" && uri.path) ||
+        null;
+    if (direct)
+        return { scheme: scheme ?? "file", root: direct };
+    if (typeof uri.external === "string") {
+        const ext = parseUriString(uri.external);
+        return { scheme: ext.scheme ?? scheme, root: ext.path };
+    }
+    return { scheme, root: null };
+}
+/**
+ * Parse a `workspace.json` file's text. Returns the folder root (single-folder
+ * window), a multi-root marker (`.code-workspace`), or unknown. Pure.
+ */
+export function parseWorkspaceJson(text) {
+    let obj;
+    try {
+        obj = JSON.parse(text);
+    }
+    catch {
+        return { kind: "unknown" };
+    }
+    if (!obj || typeof obj !== "object")
+        return { kind: "unknown" };
+    const rec = obj;
+    if (typeof rec.folder === "string") {
+        const { scheme, path: p } = parseUriString(rec.folder);
+        return { kind: "folder", scheme, root: p };
+    }
+    if (typeof rec.workspace === "string") {
+        const { path: p } = parseUriString(rec.workspace);
+        return { kind: "multi_root", configPath: p };
+    }
+    return { kind: "unknown" };
+}
+/**
+ * Resolve a composer header's `workspaceIdentifier` to a project root. Pure:
+ * the only I/O is the injected {@link ResolveOptions.readWorkspaceJson}. Tries
+ * the inline header uri first (current builds), then the on-disk
+ * `workspace.json` join (legacy builds / uri stripped). Never guesses — every
+ * non-resolvable case maps to an explicit status.
+ */
+export function resolveProjectRoot(identifier, options = {}) {
+    const id = typeof identifier?.id === "string" ? identifier.id : null;
+    // 1. Sentinel: no folder open. Common, expected, not attributable.
+    if (id === EMPTY_WINDOW_ID) {
+        return { status: "empty_window", workspaceId: EMPTY_WINDOW_ID };
+    }
+    // 2. Inline uri (Cursor embeds the folder directly on the header).
+    const inline = rootFromInlineUri(identifier?.uri);
+    if (inline.scheme && inline.scheme !== "file") {
+        return { status: "remote", workspaceId: id, scheme: inline.scheme };
+    }
+    if (inline.root) {
+        return { status: "resolved", root: inline.root, source: "header_uri", workspaceId: id };
+    }
+    // 3. On-disk fallback: join id -> workspaceStorage/<id>/workspace.json.
+    if (id && options.readWorkspaceJson) {
+        const text = options.readWorkspaceJson(id);
+        if (text) {
+            const parsed = parseWorkspaceJson(text);
+            if (parsed.kind === "folder") {
+                if (parsed.scheme && parsed.scheme !== "file") {
+                    return { status: "remote", workspaceId: id, scheme: parsed.scheme };
+                }
+                if (parsed.root) {
+                    return { status: "resolved", root: parsed.root, source: "workspace_json", workspaceId: id };
+                }
+            }
+            else if (parsed.kind === "multi_root") {
+                return { status: "multi_root", workspaceId: id, configPath: parsed.configPath };
+            }
+        }
+    }
+    // 4. Nothing reliable — do not guess.
+    return { status: "unresolved", workspaceId: id };
+}
+/** Path to a workspace's `workspace.json` under a Cursor app-support dir. */
+export function workspaceJsonPath(cursorDir, workspaceId) {
+    return path.join(cursorDir, "User", "workspaceStorage", workspaceId, "workspace.json");
+}
+/** Read `workspace.json` text read-only; null if it does not exist / unreadable. */
+export function readWorkspaceJsonFromDisk(cursorDir, workspaceId) {
+    try {
+        return fs.readFileSync(workspaceJsonPath(cursorDir, workspaceId), "utf-8");
+    }
+    catch {
+        return null;
+    }
+}
+/**
+ * Filesystem-backed resolution: resolve a header's identifier against a real
+ * Cursor app-support dir, reading `workspace.json` read-only when needed.
+ */
+export function resolveCursorProjectRoot(identifier, cursorDir) {
+    return resolveProjectRoot(identifier, {
+        readWorkspaceJson: (workspaceId) => readWorkspaceJsonFromDisk(cursorDir, workspaceId),
+    });
+}
+/**
+ * Resolve a project root from a workspace id alone (no inline uri available).
+ * Used by the probe to upgrade `unresolved` discovery candidates on legacy
+ * builds via the on-disk `workspace.json` join.
+ */
+export function resolveProjectRootByWorkspaceId(cursorDir, workspaceId) {
+    return resolveCursorProjectRoot({ id: workspaceId }, cursorDir);
+}
+//# sourceMappingURL=workspace-root.js.map

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+{"version":3,"file":"indexer.d.ts","sourceRoot":"","sources":["../../../src/ingestion/indexer.ts"],"names":[],"mappings":"AAQA,OAAO,KAAK,EAAE,iBAAiB,EAAE,UAAU,EAAE,WAAW,EAAE,MAAM,uBAAuB,CAAC;AAYxF,MAAM,WAAW,SAAS;IACxB,IAAI,EAAE,KAAK,GAAG,QAAQ,GAAG,QAAQ,CAAC;IAClC,IAAI,EAAE,MAAM,CAAC;CACd;AAED,MAAM,WAAW,aAAa;IAC5B,UAAU,EAAE,UAAU,CAAC;IACvB,WAAW,EAAE,WAAW,CAAC;IACzB,UAAU,EAAE,MAAM,CAAC;IACnB,YAAY,EAAE,SAAS,MAAM,EAAE,CAAC;IAChC,wEAAwE;IACxE,SAAS,CAAC,EAAE,iBAAiB,GAAG,uBAAuB,CAAC;IACxD;;;;;OAKG;IACH,OAAO,EAAE,MAAM,CAAC;CACjB;AAED;;;GAGG;AACH,wBAAgB,MAAM,CAAC,UAAU,EAAE,MAAM,GAAG,MAAM,CAEjD;AAED,qBAAa,OAAO;IAClB,OAAO,CAAC,QAAQ,CAAC,SAAS,CAAoB;IAC9C,OAAO,CAAC,QAAQ,CAAC,MAAM,CAAgB;gBAE3B,SAAS,EAAE,iBAAiB,EAAE,MAAM,EAAE,aAAa;IAK/D;;;;OAIG;IACG,WAAW,CAAC,KAAK,EAAE,SAAS,GAAG,OAAO,CAAC,IAAI,CAAC;YAcpC,YAAY;YAuEZ,YAAY;CAK3B"}

package/dist/src/ingestion/indexer.js

@@ -12,6 +12,9 @@ import { validatePath, validateUnlinkPath } from "../security/paths.js";
 import { writeSkipQuarantine } from "./skip-quarantine.js";
 import { recordEmbed } from "../observability/embedding-events.js";
 import { recordIndexWrite } from "../observability/index-events.js";
+import { chunkText, chunkingEnabled } from "./chunk-text.js";
+import { docChunkId, docChunkMetadata } from "./chunk-meta.js";
+import { eqFilter } from "../storage/filter.js";
 /**
  * Deterministic row ID from the canonical source path.
  * Same file always gets the same ID, enabling upsert via delete+add.
@@ -48,10 +51,11 @@ export class Indexer {
         // strings with HTTP 400, and indexing an empty row produces nothing
         // searchable anyway. Quarantine the skip so it's visible (not stderr-only)
         // and remove any stale row from a prior good extraction of the same path.
+        const table = getTable(this.config.tableName ?? "structured_docs");
+        const sourcePathFilter = eqFilter("source_path", filePath);
         if (isBlank(doc.content)) {
-            const id = fileId(filePath);
-            const table = getTable(this.config.tableName ?? "structured_docs");
-            await table.delete(`id = '${id}'`);
+            // Remove the whole prior set (single row or chunk set) for this path.
+            await table.delete(sourcePathFilter);
             await writeSkipQuarantine(this.config.dataDir, {
                 reason: "empty_extracted_content",
                 source_path: filePath,
@@ -59,41 +63,46 @@ export class Indexer {
             });
             return;
         }
-        const embeddingVec = await recordEmbed(this.config.dataDir, this.embedding, {
-            pipeline: this.config.sourceType === "filesystem_watched"
-                ? "watcher"
-                : "scheduled_scan",
-            operation: "document_embedding",
-            input_count: 1,
-        }, () => this.embedding.embed(doc.content));
-        const id = fileId(filePath);
-        const table = getTable(this.config.tableName ?? "structured_docs");
-        // Upsert: delete existing row (if any), then add new one.
-        await table.delete(`id = '${id}'`);
-        const row = {
-            id,
-            source_path: filePath,
-            content: doc.content,
-            embedding: embeddingVec,
-            source_type: this.config.sourceType,
-            source_scope: this.config.sourceScope,
-            client_name: this.config.clientName,
-            indexed_at: new Date().toISOString(),
-            metadata: JSON.stringify(doc.metadata),
-        };
+        const pipeline = this.config.sourceType === "filesystem_watched" ? "watcher" : "scheduled_scan";
+        const baseId = fileId(filePath);
+        // Chunk (flag-gated). chunkText short-circuits small docs to a single
+        // chunk, so a below-threshold doc — and every doc with the flag off —
+        // produces exactly one unmarked row, byte-identical to the prior behavior.
+        const chunks = chunkingEnabled() ? chunkText(doc.content) : [doc.content];
+        const count = chunks.length;
+        // Data-safety: embed the FULL new set BEFORE the destructive delete, so a
+        // failure leaves the old set intact (filesystem is the source of truth).
+        const indexedAt = new Date().toISOString();
+        const rows = [];
+        for (let i = 0; i < count; i++) {
+            const chunk = chunks[i];
+            const embeddingVec = await recordEmbed(this.config.dataDir, this.embedding, { pipeline, operation: "document_embedding", input_count: 1 }, () => this.embedding.embed(chunk));
+            rows.push({
+                id: count > 1 ? docChunkId(baseId, i) : baseId,
+                source_path: filePath,
+                content: chunk,
+                embedding: embeddingVec,
+                source_type: this.config.sourceType,
+                source_scope: this.config.sourceScope,
+                client_name: this.config.clientName,
+                indexed_at: indexedAt,
+                metadata: JSON.stringify(docChunkMetadata(doc.metadata, i, count)),
+            });
+        }
+        // Upsert by source_path: removes any prior chunk set AND any legacy
+        // single row for this file before writing the new set (no dup/stale chunks).
+        await table.delete(sourcePathFilter);
         await recordIndexWrite(this.config.dataDir, {
             table: this.config.tableName ?? "structured_docs",
-            pipeline: this.config.sourceType === "filesystem_watched"
-                ? "watcher"
-                : "scheduled_scan",
+            pipeline,
             operation: "structured_doc_upsert",
-            row_count: 1,
-        }, () => table.add([row]));
+            row_count: rows.length,
+        }, () => table.add(rows));
     }
     async handleDelete(filePath) {
-        const id = fileId(filePath);
         const table = getTable(this.config.tableName ?? "structured_docs");
-        await table.delete(`id = '${id}'`);
+        // Delete by source_path so all chunks of the file are removed together.
+        await table.delete(eqFilter("source_path", filePath));
     }
 }
 function isBlank(s) {

package/dist/src/ingestion/indexer.js.map

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package/dist/src/jobs/handlers/compact.d.ts.map

@@ -1 +1 @@
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