@quolu/lattice 0.43.0 → 0.44.0

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@quolu/lattice",
-  "version": "0.43.0",
+  "version": "0.44.0",
   "description": "Schedulability compiler for multi-agent development: observe real code boundaries, refactor the conflicting seam, recompile the plan for parallel execution",
   "author": {
     "name": "Quo / クオ at kitepon.dev",
@@ -74,7 +74,9 @@
     "verify:todo-store": "node bin/lattice.mjs todo verify --json",
     "check:cli-surface": "node scripts/verify-cli-surface.mjs",
     "check:open-questions": "node scripts/verify-open-questions.mjs",
-    "check:reachability": "node scripts/verify-product-reachability.mjs"
+    "check:reachability": "node scripts/verify-product-reachability.mjs",
+    "upstream:check": "node scripts/upstream-check.mjs",
+    "upstream:sync": "node scripts/upstream-sync.mjs"
   },
   "homepage": "https://github.com/kitepon-rgb/Lattice#readme",
   "bugs": {

package/sensor/dist/bin/lattice-sensor.js

@@ -878,6 +878,7 @@ function main() {
                     nodeCount: stats.nodeCount,
                     edgeCount: stats.edgeCount,
                     dbSizeBytes: stats.dbSizeBytes,
+                    walSizeBytes: stats.walSizeBytes,
                     backend,
                     journalMode,
                     nodesByKind: stats.nodesByKind,
@@ -933,6 +934,19 @@ function main() {
             console.log(`  Nodes:     ${formatNumber(stats.nodeCount)}`);
             console.log(`  Edges:     ${formatNumber(stats.edgeCount)}`);
             console.log(`  DB Size:   ${(stats.dbSizeBytes / 1024 / 1024).toFixed(2)} MB`);
+            // Surface the WAL sidecar (#1431): a WAL that dwarfs the DB at rest is
+            // the killed-session leak — invisible before this line, it only showed
+            // up as a mysteriously full disk. open() above already kicked off the
+            // automatic heal for the oversized case.
+            if (stats.walSizeBytes > 0) {
+                const { WAL_HEAL_THRESHOLD_BYTES } = await Promise.resolve().then(() => __importStar(require('../db/index')));
+                const oversized = stats.walSizeBytes > Math.max(WAL_HEAL_THRESHOLD_BYTES, stats.dbSizeBytes);
+                const walLabel = `${(stats.walSizeBytes / 1024 / 1024).toFixed(2)} MB`;
+                console.log(`  WAL Size:  ${oversized ? chalk.yellow(walLabel) : walLabel}`);
+                if (oversized) {
+                    warn('The write-ahead log is larger than the database — killed sessions left it behind. It is reclaimed automatically on open; if it persists across runs, another live LatticeSensor process is holding it.');
+                }
+            }
             // Surface the active SQLite backend (node:sqlite — Node's built-in real
             // SQLite, full WAL + FTS5, no native build).
             const backendLabel = chalk.green(`node:sqlite ${(0, glyphs_1.getGlyphs)().dash} built-in (full WAL)`);

package/sensor/dist/db/index.d.ts

@@ -6,6 +6,20 @@
 import { SqliteDatabase, SqliteBackend } from './sqlite-adapter';
 import { SchemaVersion } from '../types';
 export { SqliteDatabase, SqliteBackend } from './sqlite-adapter';
+/**
+ * WAL size past which `healOversizedWal` (run at every `open`) checkpoints and
+ * truncates the file, and to which `journal_size_limit` clips the WAL after any
+ * resetting checkpoint. A SIGKILL'd process (the #850 liveness watchdog, OOM,
+ * crash) can leave an arbitrarily large WAL behind — a whole deferred-sync
+ * run's worth (#1248) — and before #1431 no later session ever shrank it: the
+ * file just grew, killed session after killed session, until the disk filled
+ * (25.6 GB observed). 64 MB is far above anything a healthy open ever sees
+ * (a clean close deletes the WAL) yet small enough to cap the leak.
+ * Override with `LATTICE_SENSOR_WAL_HEAL_MB` (also feeds `journal_size_limit`).
+ */
+export declare const WAL_HEAL_THRESHOLD_BYTES: number;
+/** Resolve the heal threshold from the env override (MB); invalid ⇒ 64 MB. */
+export declare function resolveWalHealBytes(envVal: string | undefined): number;
 /**
  * Database connection wrapper with lifecycle management
  */
@@ -52,6 +66,64 @@ export declare class DatabaseConnection {
      * IF NOT EXISTS).
      */
     endBulkNodeLoad(): void;
+    /**
+     * NON-UNIQUE secondary indexes maintained per-row during the parse phase's
+     * bulk inserts — the store-architecture arc's first lever (plan §4d: dubbo's
+     * parse-loop wall is 94% store-writer busy, and the #1320 post-mortem showed
+     * statement batching and sorted inserts are ~zero on this path because
+     * B-TREE MAINTENANCE is the floor). A fresh init writes every row of
+     * nodes/unresolved_refs/files exactly once and reads none of them until
+     * resolution, so the parse window can drop all of these and rebuild each in
+     * one table scan afterwards — the same measured trade as the resolution
+     * phase's edge-index window (2.8s → 1.1s inserting, ~0.3s recreating).
+     * Primary keys and UNIQUE constraints stay (upserts and OR-IGNORE dedup
+     * conflict on them).
+     */
+    private static readonly BULK_PARSE_INDEX_NAMES;
+    /**
+     * Enter bulk-parse-load mode (FRESH-INIT ONLY — the caller gates on a fresh
+     * DB, because an incremental index deletes per-file rows mid-phase and needs
+     * the file_path indexes): drop every parse-lane secondary index, including
+     * the four non-unique edge indexes (parse inserts contains-edges too; the
+     * UNIQUE identity index stays for INSERT OR IGNORE dedup, and its `source`
+     * prefix keeps source-keyed reads indexed, as in the edge window). MUST be
+     * paired with endBulkParseLoad(); a crash inside the window is healed on the
+     * next DatabaseConnection open (schema.sql re-applies CREATE INDEX IF NOT
+     * EXISTS).
+     */
+    beginBulkParseLoad(): void;
+    /**
+     * Leave bulk-parse-load mode: recreate everything the window dropped, one
+     * table scan per index, with a yield between statements (same
+     * liveness-watchdog rationale as endBulkEdgeLoad — at kernel scale each
+     * build is a long synchronous scan). The edge indexes are rebuilt here too,
+     * so paths that never enter the resolution phase's own bulk-edge window
+     * (small runs) are left with a complete schema; the batched resolver's
+     * beginBulkEdgeLoad simply re-drops them (DROP IF EXISTS — idempotent).
+     */
+    endBulkParseLoad(): Promise<void>;
+    /**
+     * unresolved_refs secondary indexes NOT read by the batched resolution
+     * loop. The loop pages pending refs by keyset (`status='pending' AND id>?`
+     * — the status index + PK), deletes resolved rows by id, and parks failures
+     * with a status UPDATE; every other ref index serves SYNC-time paths
+     * (per-file re-index deletes, name-keyed retry, failed-tail heal). Each
+     * per-batch DELETE maintains all of them — the biggest single main-thread
+     * stage on the dubbo profile (deletes 1.2s of a 5.4s resolution phase) —
+     * so the batched loop drops them and rebuilds at the end, where the table
+     * holds only the surviving FAILED refs (resolved rows are gone), making
+     * the recreate near-free.
+     */
+    private static readonly BULK_REF_INDEX_NAMES;
+    /**
+     * Enter bulk-ref mode for the batched resolution loop — see
+     * BULK_REF_INDEX_NAMES. MUST be paired with endBulkRefLoad(); a crash
+     * inside the window heals on the next open (schema.sql re-applies
+     * CREATE INDEX IF NOT EXISTS).
+     */
+    beginBulkRefLoad(): void;
+    /** Leave bulk-ref mode: recreate each index in one scan (yield between). */
+    endBulkRefLoad(): Promise<void>;
     /**
      * Names of the NON-UNIQUE edge indexes dropped for a bulk edge load.
      * idx_edges_identity deliberately stays: INSERT OR IGNORE's dedup conflicts
@@ -136,6 +208,9 @@ export declare class DatabaseConnection {
      * journal mode, in-memory DB, or no write since the last checkpoint+reset).
      */
     getWalSizeBytes(): number;
+    /** Size of the main DB file in bytes (0 for in-memory/unknown) — the WAL
+     * valve scales its fold caps with it (resolveWalValveMb). */
+    getDbFileSizeBytes(): number;
     /** Current `wal_autocheckpoint` interval in pages (0 = disabled). */
     getWalAutocheckpoint(): number;
     /**
@@ -169,6 +244,45 @@ export declare class DatabaseConnection {
         log: number;
         checkpointed: number;
     } | null>;
+    /**
+     * `PRAGMA wal_checkpoint(TRUNCATE)` — same off-thread pattern as PASSIVE,
+     * but on success the WAL FILE is chopped to zero. A completed passive
+     * backfill bounds the un-checkpointed backlog, yet the FILE only stops
+     * growing when a commit finds ZERO readers holding WAL marks — rare while
+     * pool workers cycle, so at kernel scale a fully-backfilled WAL still
+     * accreted the phase's whole write volume on disk (§7a.1: 22GB). The valve
+     * calls this exactly at a parked barrier (writer parked, pool drained,
+     * backfill complete) where the no-reader condition is guaranteed rather
+     * than lucky. The worker sets a short busy_timeout so a racing reader
+     * degrades this to a no-op (busy=1) instead of a stall.
+     */
+    checkpointWalTruncate(): Promise<{
+        busy: number;
+        log: number;
+        checkpointed: number;
+    } | null>;
+    /**
+     * Shrink a leftover oversized WAL (#1431). A SIGKILL'd session — the #850
+     * liveness watchdog, OOM, a crash — leaves its WAL on disk, the next session
+     * appends to the same file, and (pre-#1431) nothing ever truncated it:
+     * PASSIVE checkpoints fold frames but keep the file at its high-water mark,
+     * and the one shrinking path (a clean last-connection close) is exactly what
+     * the killed world never takes. Unbounded growth until the disk fills.
+     *
+     * Called fire-and-forget from every `open()`: cost is one statSync when the
+     * WAL is small (the overwhelmingly common case). Past the threshold it runs
+     * the off-thread PASSIVE fold then TRUNCATE — both on worker connections
+     * with a busy_timeout, so a racing writer degrades this to a no-op that the
+     * next open retries rather than a stall.
+     */
+    healOversizedWal(): Promise<{
+        healed: boolean;
+        beforeBytes: number;
+        afterBytes: number;
+    }>;
+    private walHeal;
+    private runWalHeal;
+    private checkpointWal;
     /**
      * Optimize database (vacuum and analyze)
      */

package/sensor/dist/db/index.d.ts.map

@@ -1 +1 @@
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package/sensor/dist/db/index.js

@@ -38,7 +38,8 @@ var __importStar = (this && this.__importStar) || (function () {
     };
 })();
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.DATABASE_FILENAME = exports.DatabaseConnection = void 0;
+exports.DATABASE_FILENAME = exports.DatabaseConnection = exports.WAL_HEAL_THRESHOLD_BYTES = void 0;
+exports.resolveWalHealBytes = resolveWalHealBytes;
 exports.getDatabasePath = getDatabasePath;
 exports.removeDatabaseFiles = removeDatabaseFiles;
 const sqlite_adapter_1 = require("./sqlite-adapter");
@@ -68,6 +69,34 @@ function configureConnection(db) {
     db.pragma('cache_size = -64000'); // 64 MB page cache
     db.pragma('temp_store = MEMORY'); // temp tables in memory
     db.pragma('mmap_size = 268435456'); // 256 MB memory-mapped I/O
+    // Without a journal_size_limit the -wal file never shrinks below its
+    // high-water mark while a connection lives: checkpoints fold frames back but
+    // leave the file at full size, so one giant deferred-sync WAL stays giant
+    // forever. With the limit set, any checkpoint that resets the WAL truncates
+    // the file back down. Killed-process leftovers are handled separately by
+    // healOversizedWal() at open. (#1431)
+    db.pragma(`journal_size_limit = ${exports.WAL_HEAL_THRESHOLD_BYTES}`);
+}
+/**
+ * WAL size past which `healOversizedWal` (run at every `open`) checkpoints and
+ * truncates the file, and to which `journal_size_limit` clips the WAL after any
+ * resetting checkpoint. A SIGKILL'd process (the #850 liveness watchdog, OOM,
+ * crash) can leave an arbitrarily large WAL behind — a whole deferred-sync
+ * run's worth (#1248) — and before #1431 no later session ever shrank it: the
+ * file just grew, killed session after killed session, until the disk filled
+ * (25.6 GB observed). 64 MB is far above anything a healthy open ever sees
+ * (a clean close deletes the WAL) yet small enough to cap the leak.
+ * Override with `LATTICE_SENSOR_WAL_HEAL_MB` (also feeds `journal_size_limit`).
+ */
+exports.WAL_HEAL_THRESHOLD_BYTES = resolveWalHealBytes(process.env.LATTICE_SENSOR_WAL_HEAL_MB);
+/** Resolve the heal threshold from the env override (MB); invalid ⇒ 64 MB. */
+function resolveWalHealBytes(envVal) {
+    if (envVal !== undefined && envVal !== '') {
+        const n = Number(envVal);
+        if (Number.isFinite(n) && n > 0)
+            return Math.floor(n * 1024 * 1024);
+    }
+    return 64 * 1024 * 1024;
 }
 /**
  * Database connection wrapper with lifecycle management
@@ -133,6 +162,9 @@ class DatabaseConnection {
         // beginBulkNodeLoad and endBulkNodeLoad): the FTS triggers are missing and
         // nodes_fts is stale. Rebuild + recreate so search stays in sync.
         conn.healBulkNodeLoad();
+        // Self-heal a killed session's leftover oversized WAL (#1431) — one
+        // statSync when healthy, off-thread checkpoint+truncate when not.
+        void conn.healOversizedWal();
         return conn;
     }
     /**
@@ -163,6 +195,116 @@ class DatabaseConnection {
         this.db.exec(`INSERT INTO nodes_fts(nodes_fts) VALUES('rebuild')`);
         this.recreateFtsTriggers();
     }
+    /**
+     * NON-UNIQUE secondary indexes maintained per-row during the parse phase's
+     * bulk inserts — the store-architecture arc's first lever (plan §4d: dubbo's
+     * parse-loop wall is 94% store-writer busy, and the #1320 post-mortem showed
+     * statement batching and sorted inserts are ~zero on this path because
+     * B-TREE MAINTENANCE is the floor). A fresh init writes every row of
+     * nodes/unresolved_refs/files exactly once and reads none of them until
+     * resolution, so the parse window can drop all of these and rebuild each in
+     * one table scan afterwards — the same measured trade as the resolution
+     * phase's edge-index window (2.8s → 1.1s inserting, ~0.3s recreating).
+     * Primary keys and UNIQUE constraints stay (upserts and OR-IGNORE dedup
+     * conflict on them).
+     */
+    static BULK_PARSE_INDEX_NAMES = [
+        'idx_nodes_kind',
+        'idx_nodes_name',
+        'idx_nodes_qualified_name',
+        'idx_nodes_file_path',
+        'idx_nodes_language',
+        'idx_nodes_file_line',
+        'idx_nodes_lower_name',
+        'idx_unresolved_from_node',
+        'idx_unresolved_name',
+        'idx_unresolved_file_path',
+        'idx_unresolved_from_name',
+        'idx_unresolved_status',
+        'idx_unresolved_failed_tail',
+        'idx_files_language',
+        'idx_files_modified_at',
+    ];
+    /**
+     * Enter bulk-parse-load mode (FRESH-INIT ONLY — the caller gates on a fresh
+     * DB, because an incremental index deletes per-file rows mid-phase and needs
+     * the file_path indexes): drop every parse-lane secondary index, including
+     * the four non-unique edge indexes (parse inserts contains-edges too; the
+     * UNIQUE identity index stays for INSERT OR IGNORE dedup, and its `source`
+     * prefix keeps source-keyed reads indexed, as in the edge window). MUST be
+     * paired with endBulkParseLoad(); a crash inside the window is healed on the
+     * next DatabaseConnection open (schema.sql re-applies CREATE INDEX IF NOT
+     * EXISTS).
+     */
+    beginBulkParseLoad() {
+        for (const idx of DatabaseConnection.BULK_PARSE_INDEX_NAMES) {
+            this.db.exec(`DROP INDEX IF EXISTS ${idx}`);
+        }
+        this.beginBulkEdgeLoad();
+    }
+    /**
+     * Leave bulk-parse-load mode: recreate everything the window dropped, one
+     * table scan per index, with a yield between statements (same
+     * liveness-watchdog rationale as endBulkEdgeLoad — at kernel scale each
+     * build is a long synchronous scan). The edge indexes are rebuilt here too,
+     * so paths that never enter the resolution phase's own bulk-edge window
+     * (small runs) are left with a complete schema; the batched resolver's
+     * beginBulkEdgeLoad simply re-drops them (DROP IF EXISTS — idempotent).
+     */
+    async endBulkParseLoad() {
+        const schemaPath = path.join(__dirname, 'schema.sql');
+        const schema = fs.readFileSync(schemaPath, 'utf-8');
+        for (const idx of DatabaseConnection.BULK_PARSE_INDEX_NAMES) {
+            const m = schema.match(new RegExp(`CREATE INDEX IF NOT EXISTS ${idx}\\b[^;]*;`));
+            if (!m)
+                throw new Error(`schema.sql: parse index ${idx} not found for bulk-load recreation`);
+            this.db.exec(m[0]);
+            await new Promise((resolve) => setImmediate(resolve));
+        }
+        await this.endBulkEdgeLoad();
+    }
+    /**
+     * unresolved_refs secondary indexes NOT read by the batched resolution
+     * loop. The loop pages pending refs by keyset (`status='pending' AND id>?`
+     * — the status index + PK), deletes resolved rows by id, and parks failures
+     * with a status UPDATE; every other ref index serves SYNC-time paths
+     * (per-file re-index deletes, name-keyed retry, failed-tail heal). Each
+     * per-batch DELETE maintains all of them — the biggest single main-thread
+     * stage on the dubbo profile (deletes 1.2s of a 5.4s resolution phase) —
+     * so the batched loop drops them and rebuilds at the end, where the table
+     * holds only the surviving FAILED refs (resolved rows are gone), making
+     * the recreate near-free.
+     */
+    static BULK_REF_INDEX_NAMES = [
+        'idx_unresolved_from_node',
+        'idx_unresolved_name',
+        'idx_unresolved_file_path',
+        'idx_unresolved_from_name',
+        'idx_unresolved_failed_tail',
+    ];
+    /**
+     * Enter bulk-ref mode for the batched resolution loop — see
+     * BULK_REF_INDEX_NAMES. MUST be paired with endBulkRefLoad(); a crash
+     * inside the window heals on the next open (schema.sql re-applies
+     * CREATE INDEX IF NOT EXISTS).
+     */
+    beginBulkRefLoad() {
+        for (const idx of DatabaseConnection.BULK_REF_INDEX_NAMES) {
+            this.db.exec(`DROP INDEX IF EXISTS ${idx}`);
+        }
+    }
+    /** Leave bulk-ref mode: recreate each index in one scan (yield between). */
+    async endBulkRefLoad() {
+        const schemaPath = path.join(__dirname, 'schema.sql');
+        const schema = fs.readFileSync(schemaPath, 'utf-8');
+        for (const idx of DatabaseConnection.BULK_REF_INDEX_NAMES) {
+            const m = schema.match(new RegExp(`CREATE INDEX IF NOT EXISTS ${idx}\\b[^;]*;`));
+            if (!m)
+                throw new Error(`schema.sql: ref index ${idx} not found for bulk-load recreation`);
+            this.db.exec(m[0]);
+            await new Promise((resolve) => setImmediate(resolve));
+        }
+    }
     /**
      * Names of the NON-UNIQUE edge indexes dropped for a bulk edge load.
      * idx_edges_identity deliberately stays: INSERT OR IGNORE's dedup conflicts
@@ -321,6 +463,18 @@ class DatabaseConnection {
             return 0;
         }
     }
+    /** Size of the main DB file in bytes (0 for in-memory/unknown) — the WAL
+     * valve scales its fold caps with it (resolveWalValveMb). */
+    getDbFileSizeBytes() {
+        if (!this.dbPath || this.dbPath === ':memory:')
+            return 0;
+        try {
+            return fs.statSync(this.dbPath).size;
+        }
+        catch {
+            return 0;
+        }
+    }
     /** Current `wal_autocheckpoint` interval in pages (0 = disabled). */
     getWalAutocheckpoint() {
         const v = this.db.pragma('wal_autocheckpoint', { simple: true });
@@ -356,9 +510,72 @@ class DatabaseConnection {
      * never run inline on the main thread).
      */
     async checkpointWalPassive() {
+        return this.checkpointWal('PASSIVE');
+    }
+    /**
+     * `PRAGMA wal_checkpoint(TRUNCATE)` — same off-thread pattern as PASSIVE,
+     * but on success the WAL FILE is chopped to zero. A completed passive
+     * backfill bounds the un-checkpointed backlog, yet the FILE only stops
+     * growing when a commit finds ZERO readers holding WAL marks — rare while
+     * pool workers cycle, so at kernel scale a fully-backfilled WAL still
+     * accreted the phase's whole write volume on disk (§7a.1: 22GB). The valve
+     * calls this exactly at a parked barrier (writer parked, pool drained,
+     * backfill complete) where the no-reader condition is guaranteed rather
+     * than lucky. The worker sets a short busy_timeout so a racing reader
+     * degrades this to a no-op (busy=1) instead of a stall.
+     */
+    async checkpointWalTruncate() {
+        return this.checkpointWal('TRUNCATE');
+    }
+    /**
+     * Shrink a leftover oversized WAL (#1431). A SIGKILL'd session — the #850
+     * liveness watchdog, OOM, a crash — leaves its WAL on disk, the next session
+     * appends to the same file, and (pre-#1431) nothing ever truncated it:
+     * PASSIVE checkpoints fold frames but keep the file at its high-water mark,
+     * and the one shrinking path (a clean last-connection close) is exactly what
+     * the killed world never takes. Unbounded growth until the disk fills.
+     *
+     * Called fire-and-forget from every `open()`: cost is one statSync when the
+     * WAL is small (the overwhelmingly common case). Past the threshold it runs
+     * the off-thread PASSIVE fold then TRUNCATE — both on worker connections
+     * with a busy_timeout, so a racing writer degrades this to a no-op that the
+     * next open retries rather than a stall.
+     */
+    async healOversizedWal() {
+        const beforeBytes = this.getWalSizeBytes();
+        if (beforeBytes <= exports.WAL_HEAL_THRESHOLD_BYTES) {
+            return { healed: false, beforeBytes, afterBytes: beforeBytes };
+        }
+        // Single-flight: open() fires this fire-and-forget and callers may also
+        // invoke it explicitly. Two concurrent passes DEFEAT each other — each
+        // checkpoint worker sees the other as a busy reader and no-ops — so share
+        // one in-flight pass instead of racing.
+        this.walHeal ??= this.runWalHeal(beforeBytes).finally(() => { this.walHeal = null; });
+        return this.walHeal;
+    }
+    walHeal = null;
+    async runWalHeal(beforeBytes) {
+        // A racing reader/writer (another session healing the same file, a query
+        // pool warming up) degrades a checkpoint pass to a busy no-op — retry a
+        // few times before leaving the rest to the next open.
+        for (let attempt = 0; attempt < 3; attempt++) {
+            if (attempt > 0)
+                await new Promise((r) => setTimeout(r, 300));
+            await this.checkpointWalPassive();
+            await this.checkpointWalTruncate();
+            if (this.getWalSizeBytes() <= exports.WAL_HEAL_THRESHOLD_BYTES)
+                break;
+        }
+        const afterBytes = this.getWalSizeBytes();
+        if (process.env.LATTICE_SENSOR_WAL_VALVE_DEBUG) {
+            console.error(`[wal-heal] oversized WAL at open: ${Math.round(beforeBytes / (1024 * 1024))}MB -> ${Math.round(afterBytes / (1024 * 1024))}MB`);
+        }
+        return { healed: afterBytes < beforeBytes, beforeBytes, afterBytes };
+    }
+    async checkpointWal(mode) {
         if (!this.dbPath || this.dbPath === ':memory:') {
             try {
-                const row = this.db.prepare('PRAGMA wal_checkpoint(PASSIVE)').get();
+                const row = this.db.prepare(`PRAGMA wal_checkpoint(${mode})`).get();
                 return row ? { busy: Number(row.busy), log: Number(row.log), checkpointed: Number(row.checkpointed) } : null;
             }
             catch {
@@ -370,13 +587,18 @@ class DatabaseConnection {
             const workerSource = `
         const { workerData, parentPort } = require('node:worker_threads');
         let row = null;
+        let err = null;
         try {
           const { DatabaseSync } = require('node:sqlite');
           const db = new DatabaseSync(workerData.dbPath);
-          try { row = db.prepare('PRAGMA wal_checkpoint(PASSIVE)').get(); } catch {}
+          const mode = workerData.mode === 'TRUNCATE' ? 'TRUNCATE' : 'PASSIVE';
+          try {
+            if (mode === 'TRUNCATE') db.exec('PRAGMA busy_timeout = 2000');
+            row = db.prepare('PRAGMA wal_checkpoint(' + mode + ')').get();
+          } catch (e) { err = String(e && e.message || e); }
           try { db.close(); } catch {}
-        } catch {}
-        parentPort.postMessage({ row });
+        } catch (e) { err = err || String(e && e.message || e); }
+        parentPort.postMessage({ row, err });
       `;
             return await new Promise((resolve) => {
                 let settled = false;
@@ -387,8 +609,14 @@ class DatabaseConnection {
                     resolve(row ? { busy: Number(row.busy), log: Number(row.log), checkpointed: Number(row.checkpointed) } : null);
                 };
                 try {
-                    const worker = new Worker(workerSource, { eval: true, workerData: { dbPath: this.dbPath } });
-                    worker.once('message', (m) => { void worker.terminate(); finish(m?.row ?? null); });
+                    const worker = new Worker(workerSource, { eval: true, workerData: { dbPath: this.dbPath, mode } });
+                    worker.once('message', (m) => {
+                        if (m?.err && process.env.LATTICE_SENSOR_WAL_VALVE_DEBUG) {
+                            console.error(`[wal-valve] checkpoint worker (${mode}): ${m.err}`);
+                        }
+                        void worker.terminate();
+                        finish(m?.row ?? null);
+                    });
                     worker.once('error', () => { void worker.terminate(); finish(null); });
                     worker.once('exit', () => finish(null));
                 }

package/sensor/dist/db/index.js.map

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package/sensor/dist/db/queries.d.ts

@@ -24,6 +24,19 @@ export declare class QueryBuilder {
      */
     private runBatched;
     constructor(db: SqliteDatabase);
+    /**
+     * Swap the underlying connection in place. Used by pool workers'
+     * connection recycling (plan §7a.6, writes-under-readers): a long-lived
+     * read connection pins WAL checkpoint progress, and the deep WAL that
+     * accumulates behind it taxes every main-thread B-tree page operation
+     * (deletes measured 42.6s → 118.8s from 0 to 4 attached readers on
+     * identical hardware). Workers therefore close and reopen their read-only
+     * connection at the pool-idle boundary; everything above the connection —
+     * this QueryBuilder, the resolver and its warm caches — survives, and only
+     * connection-derived state (prepared statements) resets, re-preparing
+     * lazily on next use.
+     */
+    rebind(db: SqliteDatabase): void;
     /** Set the normalized project-name tokens used to down-weight non-discriminative
      * query words in path scoring (#720). Called once when the project opens. */
     setProjectNameTokens(tokens: Set<string>): void;
@@ -449,6 +462,15 @@ export declare class QueryBuilder {
      * has been attempted.
      */
     getUnresolvedReferencesBatch(offset: number, limit: number): UnresolvedReference[];
+    /**
+     * Keyset variant of {@link getUnresolvedReferencesBatch} for the batched
+     * resolution loop: seek past the last-seen row id instead of OFFSET-walking.
+     * OFFSET reads re-scan the accumulated failed-row prefix on every batch —
+     * O(failed rows) per read, measured at 54.6s of the kernel-scale batch loop
+     * (§7a.2) — while the seek is O(batch) forever. `id` is the rowid alias, so
+     * the enumeration order is identical to the OFFSET reader's.
+     */
+    getUnresolvedReferencesBatchAfter(afterRowId: number, limit: number): UnresolvedReference[];
     /**
      * Get all tracked file paths (lightweight — no full FileRecord objects)
      */
@@ -495,7 +517,7 @@ export declare class QueryBuilder {
         fromNodeId: string;
         referenceName: string;
         referenceKind: string;
-    }>): void;
+    }>): number;
     /**
      * Delete unresolved-ref rows by row id — the precise cleanup for refs a
      * resolution pass actually processed. The key-tuple variant above also
@@ -504,7 +526,7 @@ export declare class QueryBuilder {
      * caller's same-named call sites, the later sites' edges were silently never
      * created (#1269).
      */
-    deleteReferencesByRowIds(rowIds: number[]): void;
+    deleteReferencesByRowIds(rowIds: number[]): number;
     /**
      * Mark refs a completed resolution pass could not resolve as status='failed'
      * instead of deleting them (#1240). Failed rows are invisible to the pending
@@ -518,7 +540,7 @@ export declare class QueryBuilder {
         fromNodeId: string;
         referenceName: string;
         referenceKind: string;
-    }>): void;
+    }>): number;
     /**
      * Park refs as status='failed' by row id — the precise counterpart of
      * markReferencesFailed, for the same reason as deleteReferencesByRowIds:
@@ -530,7 +552,7 @@ export declare class QueryBuilder {
     markReferencesFailedByRowIds(refs: Array<{
         rowId: number;
         referenceName: string;
-    }>): void;
+    }>): number;
     /**
      * Failed refs whose name tail matches one of the given symbol names — the
      * candidates a sync should retry after files carrying those names changed