@cleocode/core 2026.5.134 → 2026.6.1

package/dist/store/signaldock-sqlite.js

@@ -1,445 +0,0 @@
-/**
- * SQLite store for global-tier signaldock.db — canonical agent identity database.
- *
- * Post-T310 (ADR-037), signaldock.db lives at `$XDG_DATA_HOME/cleo/signaldock.db`
- * (resolved via getCleoHome()). It holds cross-project agent identity, capabilities
- * catalog, and cloud-sync tables. Project-local messaging state has moved to
- * conduit.db (managed by conduit-sqlite.ts, T344).
- *
- * Migration runner: standard drizzle pipeline via migrateSanitized + reconcileJournal
- * (migration-manager.ts). Replaces the bare-SQL GLOBAL_EMBEDDED_MIGRATIONS runner
- * that was previously embedded here (T1166 / T1150 Wave 2A-04).
- *
- * Migration folder: packages/core/migrations/drizzle-signaldock/
- *
- * GLOBAL-TIER ONLY. This module MUST NOT resolve paths under any project's .cleo/
- * directory. The path guard in getGlobalSignaldockDbPath() enforces this invariant.
- *
- * @task T346
- * @task T1166
- * @epic T310
- * @epic T1150
- * @related ADR-037
- */
-import { existsSync, mkdirSync } from 'node:fs';
-import { join } from 'node:path';
-import { drizzle } from 'drizzle-orm/node-sqlite';
-import { getCleoHome } from '../paths.js';
-import { migrateSanitized, reconcileJournal } from './migration-manager.js';
-import { resolveCorePackageMigrationsFolder } from './resolve-migrations-folder.js';
-import * as signaldockSchema from './schema/signaldock-schema.js';
-// Import openNativeDatabase directly from the leaf module (sqlite-native.ts) to
-// avoid any static import from sqlite.ts that could re-enter the circular chain
-// agent-resolver → ... → memory-sqlite → sqlite.ts (T1325/T1331 v3).
-import { openNativeDatabase } from './sqlite-native.js';
-/**
- * Database file name within the global cleo home directory.
- *
- * @task T346
- * @epic T310
- */
-export const GLOBAL_SIGNALDOCK_DB_FILENAME = 'signaldock.db';
-/**
- * Schema version for global signaldock databases.
- *
- * @task T346
- * @epic T310
- */
-export const GLOBAL_SIGNALDOCK_SCHEMA_VERSION = '2026.4.12';
-/**
- * @deprecated Use GLOBAL_SIGNALDOCK_SCHEMA_VERSION. T310 is done (archived).
- * Retained only because packages/core/src/internal.ts re-exports this name.
- * Removal blocked until internal.ts export is cleaned up.
- * Tracking: T355 / T1508 P2-NEW-2 — remove in v2026.5.0.
- */
-export const SIGNALDOCK_SCHEMA_VERSION = GLOBAL_SIGNALDOCK_SCHEMA_VERSION;
-// ---------------------------------------------------------------------------
-// Path helpers
-// ---------------------------------------------------------------------------
-/**
- * Returns the GLOBAL-tier signaldock.db path. Post-T310, signaldock.db
- * holds canonical agent identity + cloud-sync tables. Project-local
- * messaging state lives in conduit.db (T344).
- *
- * Resolves to `getCleoHome() + '/signaldock.db'`.
- * Guard: asserts the resolved path starts with getCleoHome() (defense in depth,
- * mirrors the ADR-036 pattern used by getNexusDbPath in nexus-sqlite.ts).
- *
- * @task T346
- * @epic T310
- * @why ADR-037 split single signaldock.db into project conduit + global signaldock
- * @throws {Error} If resolved path is not under getCleoHome() — indicates a code
- *   path that bypasses canonical path resolution. Fix the caller, do not suppress.
- */
-export function getGlobalSignaldockDbPath() {
-    const cleoHome = getCleoHome();
-    const dbPath = join(cleoHome, GLOBAL_SIGNALDOCK_DB_FILENAME);
-    if (!dbPath.startsWith(cleoHome)) {
-        throw new Error(`BUG: getGlobalSignaldockDbPath() resolved to "${dbPath}" which is NOT under ` +
-            `getCleoHome() ("${cleoHome}"). signaldock.db is global-only per ADR-037. ` +
-            `This indicates a code path that bypasses path resolution — ` +
-            `fix the caller, do not suppress this error.`);
-    }
-    return dbPath;
-}
-/**
- * @deprecated Use getGlobalSignaldockDbPath() directly. T310 is done (archived).
- * Blocked from deletion: two callers still use this shim and require migration:
- *   - packages/core/src/store/cross-db-cleanup.ts (calls with cwd — will throw)
- *   - packages/core/src/internal.ts (re-exports this name)
- * Fix: migrate cross-db-cleanup.ts to use getConduitDbPath() and remove from
- * internal.ts. Tracking: T355 / T1508 P2-NEW-2 — remove in v2026.5.0.
- *
- * When called WITHOUT arguments: returns the global-tier path (forwards to
- * getGlobalSignaldockDbPath()).
- *
- * When called WITH a non-undefined `cwd` argument: throws a migration error
- * immediately. The project-tier path is now owned by conduit-sqlite.ts (T344).
- *
- * @param cwd - Must be undefined. Any other value throws a migration error.
- * @task T346
- * @epic T310
- */
-export function getSignaldockDbPath(cwd) {
-    if (cwd !== undefined) {
-        throw new Error('getSignaldockDbPath(cwd) is removed as of T310 (v2026.4.12). ' +
-            'signaldock.db is now global-only at $XDG_DATA_HOME/cleo/signaldock.db. ' +
-            'Use getGlobalSignaldockDbPath(), or for project-local messaging use ' +
-            'getConduitDbPath() from conduit-sqlite.ts (T344).');
-    }
-    return getGlobalSignaldockDbPath();
-}
-// ---------------------------------------------------------------------------
-// Migration folder resolution
-// ---------------------------------------------------------------------------
-/**
- * Resolve the absolute path to the drizzle-signaldock migrations folder inside
- * @cleocode/core, using ESM-native module resolution (T1177).
- *
- * Delegates to {@link resolveCorePackageMigrationsFolder} which handles
- * bundled dist/, workspace dev, and global-install layouts uniformly via
- * `import.meta.resolve()` + `createRequire().resolve()` fallback.
- *
- * @task T1166
- * @epic T1150
- */
-export function resolveSignaldockMigrationsFolder() {
-    return resolveCorePackageMigrationsFolder('drizzle-signaldock');
-}
-// ---------------------------------------------------------------------------
-// Migration runner
-// ---------------------------------------------------------------------------
-/**
- * Run drizzle migrations to create/update signaldock.db tables.
- *
- * Uses reconcileJournal + migrateSanitized for backwards compatibility with
- * existing signaldock.db files in the wild. The reconciler's Scenario 1 and
- * Scenario 3 probe-and-mark-applied logic detects when the schema already
- * matches (e.g., an existing DB that had the T897 migration applied via the
- * old bare-SQL runner) and inserts journal rows without re-running DDL.
- *
- * Replaces the former applyGlobalSignaldockSchema() / GLOBAL_EMBEDDED_MIGRATIONS
- * bare-SQL runner (T1166 / T1150 Wave 2A-04).
- *
- * @param nativeDb - An open DatabaseSync handle at the global signaldock path
- * @task T1166
- * @epic T1150
- */
-function runSignaldockMigrations(nativeDb) {
-    const migrationsFolder = resolveSignaldockMigrationsFolder();
-    // Reconcile the Drizzle journal before running migrations.
-    // Handles:
-    //   Scenario 1: agents table exists but __drizzle_migrations does not
-    //               → bootstrap the baseline as applied
-    //   Scenario 3: column exists but journal entry absent
-    //               → insert missing journal entry to avoid duplicate-column errors
-    //   Scenario 4: null name in journal entries
-    //               → backfill names so Drizzle v1 beta can detect applied migrations
-    reconcileJournal(nativeDb, migrationsFolder, 'agents', 'signaldock');
-    // Create the drizzle ORM wrapper and run pending migrations.
-    const db = drizzle({ client: nativeDb, schema: signaldockSchema });
-    migrateSanitized(db, { migrationsFolder });
-}
-// ---------------------------------------------------------------------------
-// Database lifecycle
-// ---------------------------------------------------------------------------
-/** Singleton native DatabaseSync handle for the current process. */
-let _globalSignaldockNativeDb = null;
-/**
- * Ensure global signaldock.db exists with the full global schema applied.
- * Creates the global cleo home directory if it doesn't exist.
- * Idempotent — safe to call multiple times.
- *
- * @returns Object with action ('created' | 'exists') and the database path
- * @task T346
- * @task T1166
- * @epic T310
- */
-/**
- * Read the `schema_version` row from `_signaldock_meta` if it exists.
- *
- * Used by {@link ensureGlobalSignaldockDb} as a fast-path sentinel: when the
- * value matches {@link GLOBAL_SIGNALDOCK_SCHEMA_VERSION} we know the DB is
- * fully bootstrapped and migrated to the in-process code version, so we can
- * skip the {@link runSignaldockMigrations} pipeline (reconcileJournal +
- * migrateSanitized) on every CLI invocation (T9027 — epic T9026, CLI startup
- * tax reduction).
- *
- * Defensive: returns `null` if the meta table is missing (very old / partially
- * initialized DBs) or the row is absent. Any throw is swallowed — a sentinel
- * miss simply forces the fall-through migration replay path which is safe.
- *
- * @param db - An open signaldock.db handle.
- * @returns The schema_version string, or `null` if absent / unreadable.
- * @task T9027
- * @epic T9026
- */
-function readSignaldockSchemaVersionSentinel(db) {
-    try {
-        const row = db
-            .prepare("SELECT value FROM _signaldock_meta WHERE key = 'schema_version'")
-            .get();
-        return row?.value ?? null;
-    }
-    catch {
-        return null;
-    }
-}
-/**
- * Write the in-process schema version into `_signaldock_meta`.
- *
- * Creates the meta table if missing (older signaldock.db files predate any
- * meta-table guarantee) and stamps the current version so the next process
- * can short-circuit via {@link readSignaldockSchemaVersionSentinel}.
- *
- * @param db - An open signaldock.db handle (post-migration).
- * @task T9027
- * @epic T9026
- */
-function writeSignaldockSchemaVersionSentinel(db) {
-    try {
-        db.exec(`CREATE TABLE IF NOT EXISTS _signaldock_meta (
-         key TEXT PRIMARY KEY,
-         value TEXT NOT NULL,
-         updated_at INTEGER NOT NULL DEFAULT (strftime('%s', 'now'))
-       );
-       INSERT OR REPLACE INTO _signaldock_meta (key, value, updated_at)
-       VALUES ('schema_version', '${GLOBAL_SIGNALDOCK_SCHEMA_VERSION}', strftime('%s', 'now'));`);
-    }
-    catch {
-        // Non-fatal: if the meta write fails, ensure() still succeeds. Next
-        // invocation will simply take the fall-through path (sentinel miss).
-    }
-}
-export async function ensureGlobalSignaldockDb() {
-    const dbPath = getGlobalSignaldockDbPath();
-    const alreadyExists = existsSync(dbPath);
-    // Ensure global cleo home directory exists
-    const cleoHome = getCleoHome();
-    if (!existsSync(cleoHome)) {
-        mkdirSync(cleoHome, { recursive: true });
-    }
-    const nativeDb = openNativeDatabase(dbPath);
-    try {
-        // Check if schema already applied (agents table as sentinel)
-        const hasSchema = (() => {
-            try {
-                const result = nativeDb
-                    .prepare("SELECT name FROM sqlite_master WHERE type='table' AND name='agents'")
-                    .get();
-                return !!result;
-            }
-            catch {
-                return false;
-            }
-        })();
-        // T9027 — Schema-version sentinel fast path (epic T9026, CLI startup tax).
-        //
-        // If the DB already has the global signaldock schema applied AND its
-        // `_signaldock_meta.schema_version` row exactly equals the in-process
-        // `GLOBAL_SIGNALDOCK_SCHEMA_VERSION` constant, we can skip
-        // `runSignaldockMigrations()` entirely. That function performs a
-        // reconcileJournal() + migrateSanitized() pass that, while a no-op for an
-        // up-to-date DB, still pays a non-trivial cost on every CLI invocation
-        // (journal SELECT, regex sanitization, drizzle migrator probe).
-        //
-        // Fall-through (sentinel missing, stale, or mismatched) preserves the
-        // full migration replay path so fresh DBs and version bumps still work.
-        if (alreadyExists &&
-            hasSchema &&
-            readSignaldockSchemaVersionSentinel(nativeDb) === GLOBAL_SIGNALDOCK_SCHEMA_VERSION) {
-            _globalSignaldockNativeDb = nativeDb;
-            return { action: 'exists', path: dbPath };
-        }
-        // Run drizzle migrations (reconcileJournal + migrateSanitized).
-        // For existing DBs that used the old bare-SQL runner, reconcileJournal
-        // Scenario 1 bootstraps the __drizzle_migrations journal from the existing
-        // agents table, and Scenario 3 marks T897 ALTER columns as applied without
-        // re-running the DDL.
-        runSignaldockMigrations(nativeDb);
-        // Stamp schema_version sentinel so the next process can take the fast path.
-        writeSignaldockSchemaVersionSentinel(nativeDb);
-        // Store native handle for backup integration (getGlobalSignaldockNativeDb)
-        _globalSignaldockNativeDb = nativeDb;
-        return {
-            action: alreadyExists && hasSchema ? 'exists' : 'created',
-            path: dbPath,
-        };
-    }
-    catch (err) {
-        nativeDb.close();
-        _globalSignaldockNativeDb = null;
-        throw err;
-    }
-    // NOTE: We intentionally do NOT close `nativeDb` here — the native handle is
-    // retained as _globalSignaldockNativeDb for backup integration. Callers
-    // that need a short-lived open/close pattern should open the DB themselves.
-}
-/**
- * @deprecated Use ensureGlobalSignaldockDb(). T310 is done (archived).
- * Blocked from deletion: caller still uses this shim and requires migration:
- *   - packages/core/src/upgrade.ts calls ensureSignaldockDb(projectRootForMaint)
- *     (with cwd arg — will throw at runtime). Must migrate to ensureConduitDb(cwd).
- *   - packages/core/src/internal.ts re-exports this name.
- * Tracking: T355 / T1508 P2-NEW-2 — remove in v2026.5.0.
- *
- * When called WITHOUT arguments: forwards to ensureGlobalSignaldockDb().
- * When called WITH a non-undefined `cwd` argument: throws a migration error.
- *
- * @param cwd - Must be undefined. Any other value throws a migration error.
- * @task T346
- * @epic T310
- */
-export async function ensureSignaldockDb(cwd) {
-    if (cwd !== undefined) {
-        throw new Error('ensureSignaldockDb(cwd) is removed as of T310 (v2026.4.12). ' +
-            'signaldock.db is now global-only. ' +
-            'Use ensureGlobalSignaldockDb() for global identity, or ' +
-            'ensureConduitDb(cwd) from conduit-sqlite.ts for project messaging (T344).');
-    }
-    return ensureGlobalSignaldockDb();
-}
-/**
- * Check global signaldock.db health: table count, WAL mode, schema version.
- * Used by `cleo doctor` to verify global signaldock.db integrity.
- *
- * @returns Health report object, or object with exists=false if the DB does not exist.
- * @task T346
- * @epic T310
- */
-export async function checkGlobalSignaldockDbHealth() {
-    const dbPath = getGlobalSignaldockDbPath();
-    if (!existsSync(dbPath)) {
-        return {
-            exists: false,
-            path: dbPath,
-            tableCount: 0,
-            walMode: false,
-            schemaVersion: null,
-            foreignKeysEnabled: false,
-        };
-    }
-    const nativeDb = openNativeDatabase(dbPath, { readonly: true });
-    try {
-        const tables = nativeDb
-            .prepare("SELECT COUNT(*) as count FROM sqlite_master WHERE type='table' AND name NOT LIKE 'sqlite_%'")
-            .get();
-        const journalMode = nativeDb.prepare('PRAGMA journal_mode').get();
-        const fkEnabled = nativeDb.prepare('PRAGMA foreign_keys').get();
-        // Schema version: check the __drizzle_migrations journal for evidence of
-        // migrations applied. Fallback to _signaldock_meta for pre-T1166 DBs.
-        let schemaVersion = null;
-        try {
-            // Post-T1166 path: check if drizzle journal has entries
-            const journalRow = nativeDb
-                .prepare('SELECT COUNT(*) as cnt FROM "__drizzle_migrations"')
-                .get();
-            if (journalRow && journalRow.cnt > 0) {
-                schemaVersion = GLOBAL_SIGNALDOCK_SCHEMA_VERSION;
-            }
-        }
-        catch {
-            // __drizzle_migrations does not exist yet — fall through to _signaldock_meta
-        }
-        if (!schemaVersion) {
-            try {
-                // Pre-T1166 path: _signaldock_meta table (old bare-SQL runner)
-                const meta = nativeDb
-                    .prepare("SELECT value FROM _signaldock_meta WHERE key = 'schema_version'")
-                    .get();
-                schemaVersion = meta?.value ?? null;
-            }
-            catch {
-                // _signaldock_meta may not exist on very old or partially-initialized DBs
-            }
-        }
-        return {
-            exists: true,
-            path: dbPath,
-            tableCount: tables.count,
-            walMode: journalMode.journal_mode === 'wal',
-            schemaVersion,
-            foreignKeysEnabled: fkEnabled.foreign_keys === 1,
-        };
-    }
-    finally {
-        nativeDb.close();
-    }
-}
-/**
- * @deprecated Use checkGlobalSignaldockDbHealth(). T310 is done (archived).
- * Retained only because packages/core/src/internal.ts re-exports this name.
- * Removal blocked until internal.ts export is cleaned up.
- * Tracking: T355 / T1508 P2-NEW-2 — remove in v2026.5.0.
- *
- * When called WITHOUT arguments: forwards to checkGlobalSignaldockDbHealth().
- * When called WITH a non-undefined `cwd` argument: throws a migration error.
- *
- * @param cwd - Must be undefined. Any other value throws a migration error.
- * @task T346
- * @epic T310
- */
-export async function checkSignaldockDbHealth(cwd) {
-    if (cwd !== undefined) {
-        throw new Error('checkSignaldockDbHealth(cwd) is removed as of T310 (v2026.4.12). ' +
-            'signaldock.db is now global-only. ' +
-            'Use checkGlobalSignaldockDbHealth() for global signaldock health, or ' +
-            'checkConduitDbHealth(cwd) from conduit-sqlite.ts for project conduit health (T344).');
-    }
-    return checkGlobalSignaldockDbHealth();
-}
-/**
- * Get the underlying node:sqlite DatabaseSync instance for global signaldock.db.
- * Returns the handle stored by the most recent ensureGlobalSignaldockDb() call,
- * or null if the database has not yet been initialized in this process.
- *
- * Used by sqlite-backup.ts to activate the signaldock GLOBAL_SNAPSHOT_TARGET
- * (spec §6.2, T310).
- *
- * @task T346
- * @epic T310
- */
-export function getGlobalSignaldockNativeDb() {
-    return _globalSignaldockNativeDb;
-}
-/**
- * Reset the in-process global signaldock.db singleton.
- * ONLY for use in test isolation — never call in production code.
- *
- * @task T346
- * @epic T310
- */
-export function _resetGlobalSignaldockDb_TESTING_ONLY() {
-    if (_globalSignaldockNativeDb) {
-        try {
-            if (_globalSignaldockNativeDb.isOpen) {
-                _globalSignaldockNativeDb.close();
-            }
-        }
-        catch {
-            // Ignore close errors
-        }
-        _globalSignaldockNativeDb = null;
-    }
-}
-//# sourceMappingURL=signaldock-sqlite.js.map

package/dist/store/signaldock-sqlite.js.map

@@ -1 +0,0 @@
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package/migrations/drizzle-nexus/20260318205558_initial/migration.sql

@@ -1,46 +0,0 @@
-CREATE TABLE IF NOT EXISTS `nexus_audit_log` (
-	`id` text PRIMARY KEY,
-	`timestamp` text DEFAULT (datetime('now')) NOT NULL,
-	`action` text NOT NULL,
-	`project_hash` text,
-	`project_id` text,
-	`domain` text,
-	`operation` text,
-	`session_id` text,
-	`request_id` text,
-	`source` text,
-	`gateway` text,
-	`success` integer,
-	`duration_ms` integer,
-	`details_json` text DEFAULT '{}',
-	`error_message` text
-);
---> statement-breakpoint
-CREATE TABLE IF NOT EXISTS `nexus_schema_meta` (
-	`key` text PRIMARY KEY,
-	`value` text NOT NULL
-);
---> statement-breakpoint
-CREATE TABLE IF NOT EXISTS `project_registry` (
-	`project_id` text PRIMARY KEY,
-	`project_hash` text NOT NULL UNIQUE,
-	`project_path` text NOT NULL UNIQUE,
-	`name` text NOT NULL,
-	`registered_at` text DEFAULT (datetime('now')) NOT NULL,
-	`last_seen` text DEFAULT (datetime('now')) NOT NULL,
-	`health_status` text DEFAULT 'unknown' NOT NULL,
-	`health_last_check` text,
-	`permissions` text DEFAULT 'read' NOT NULL,
-	`last_sync` text DEFAULT (datetime('now')) NOT NULL,
-	`task_count` integer DEFAULT 0 NOT NULL,
-	`labels_json` text DEFAULT '[]' NOT NULL
-);
---> statement-breakpoint
-CREATE INDEX IF NOT EXISTS `idx_nexus_audit_timestamp` ON `nexus_audit_log` (`timestamp`);--> statement-breakpoint
-CREATE INDEX IF NOT EXISTS `idx_nexus_audit_action` ON `nexus_audit_log` (`action`);--> statement-breakpoint
-CREATE INDEX IF NOT EXISTS `idx_nexus_audit_project_hash` ON `nexus_audit_log` (`project_hash`);--> statement-breakpoint
-CREATE INDEX IF NOT EXISTS `idx_nexus_audit_project_id` ON `nexus_audit_log` (`project_id`);--> statement-breakpoint
-CREATE INDEX IF NOT EXISTS `idx_nexus_audit_session` ON `nexus_audit_log` (`session_id`);--> statement-breakpoint
-CREATE INDEX IF NOT EXISTS `idx_project_registry_hash` ON `project_registry` (`project_hash`);--> statement-breakpoint
-CREATE INDEX IF NOT EXISTS `idx_project_registry_health` ON `project_registry` (`health_status`);--> statement-breakpoint
-CREATE INDEX IF NOT EXISTS `idx_project_registry_name` ON `project_registry` (`name`);

package/migrations/drizzle-nexus/20260412000001_t529-nexus-graph-tables/migration.sql

@@ -1,49 +0,0 @@
-CREATE TABLE IF NOT EXISTS `nexus_nodes` (
-	`id` text PRIMARY KEY,
-	`project_id` text NOT NULL,
-	`kind` text NOT NULL,
-	`label` text NOT NULL,
-	`name` text,
-	`file_path` text,
-	`start_line` integer,
-	`end_line` integer,
-	`language` text,
-	`is_exported` integer DEFAULT false NOT NULL,
-	`parent_id` text,
-	`parameters_json` text,
-	`return_type` text,
-	`doc_summary` text,
-	`community_id` text,
-	`meta_json` text,
-	`indexed_at` text DEFAULT (datetime('now')) NOT NULL
-);
---> statement-breakpoint
-CREATE TABLE IF NOT EXISTS `nexus_relations` (
-	`id` text PRIMARY KEY,
-	`project_id` text NOT NULL,
-	`source_id` text NOT NULL,
-	`target_id` text NOT NULL,
-	`type` text NOT NULL,
-	`confidence` real NOT NULL,
-	`reason` text,
-	`step` integer,
-	`indexed_at` text DEFAULT (datetime('now')) NOT NULL
-);
---> statement-breakpoint
-CREATE INDEX IF NOT EXISTS `idx_nexus_nodes_project` ON `nexus_nodes` (`project_id`);--> statement-breakpoint
-CREATE INDEX IF NOT EXISTS `idx_nexus_nodes_kind` ON `nexus_nodes` (`kind`);--> statement-breakpoint
-CREATE INDEX IF NOT EXISTS `idx_nexus_nodes_file` ON `nexus_nodes` (`file_path`);--> statement-breakpoint
-CREATE INDEX IF NOT EXISTS `idx_nexus_nodes_name` ON `nexus_nodes` (`name`);--> statement-breakpoint
-CREATE INDEX IF NOT EXISTS `idx_nexus_nodes_project_kind` ON `nexus_nodes` (`project_id`,`kind`);--> statement-breakpoint
-CREATE INDEX IF NOT EXISTS `idx_nexus_nodes_project_file` ON `nexus_nodes` (`project_id`,`file_path`);--> statement-breakpoint
-CREATE INDEX IF NOT EXISTS `idx_nexus_nodes_community` ON `nexus_nodes` (`community_id`);--> statement-breakpoint
-CREATE INDEX IF NOT EXISTS `idx_nexus_nodes_parent` ON `nexus_nodes` (`parent_id`);--> statement-breakpoint
-CREATE INDEX IF NOT EXISTS `idx_nexus_nodes_exported` ON `nexus_nodes` (`is_exported`);--> statement-breakpoint
-CREATE INDEX IF NOT EXISTS `idx_nexus_relations_project` ON `nexus_relations` (`project_id`);--> statement-breakpoint
-CREATE INDEX IF NOT EXISTS `idx_nexus_relations_source` ON `nexus_relations` (`source_id`);--> statement-breakpoint
-CREATE INDEX IF NOT EXISTS `idx_nexus_relations_target` ON `nexus_relations` (`target_id`);--> statement-breakpoint
-CREATE INDEX IF NOT EXISTS `idx_nexus_relations_type` ON `nexus_relations` (`type`);--> statement-breakpoint
-CREATE INDEX IF NOT EXISTS `idx_nexus_relations_project_type` ON `nexus_relations` (`project_id`,`type`);--> statement-breakpoint
-CREATE INDEX IF NOT EXISTS `idx_nexus_relations_source_type` ON `nexus_relations` (`source_id`,`type`);--> statement-breakpoint
-CREATE INDEX IF NOT EXISTS `idx_nexus_relations_target_type` ON `nexus_relations` (`target_id`,`type`);--> statement-breakpoint
-CREATE INDEX IF NOT EXISTS `idx_nexus_relations_confidence` ON `nexus_relations` (`confidence`);

package/migrations/drizzle-nexus/20260415000001_t622-project-registry-paths/migration.sql

@@ -1,12 +0,0 @@
--- T622: Multi-Project Registry — add brain_db_path, tasks_db_path, last_indexed, stats_json
--- to project_registry so Studio can switch between project contexts and display per-project stats.
-
-ALTER TABLE `project_registry` ADD COLUMN `brain_db_path` text;
---> statement-breakpoint
-ALTER TABLE `project_registry` ADD COLUMN `tasks_db_path` text;
---> statement-breakpoint
-ALTER TABLE `project_registry` ADD COLUMN `last_indexed` text;
---> statement-breakpoint
-ALTER TABLE `project_registry` ADD COLUMN `stats_json` text DEFAULT '{}' NOT NULL;
---> statement-breakpoint
-CREATE INDEX IF NOT EXISTS `idx_project_registry_last_indexed` ON `project_registry` (`last_indexed`);

package/migrations/drizzle-nexus/20260419000001_t998-nexus-plasticity/migration.sql

@@ -1,13 +0,0 @@
--- T998: NEXUS plasticity columns — Hebbian co-access strengthening.
--- Adds weight, last_accessed_at, and co_accessed_count to nexus_relations so
--- edges can be strengthened each time the connected nodes are co-accessed
--- during retrieval (fire-together-wire-together principle).
--- Migration is idempotent: ALTER TABLE ADD COLUMN is a no-op if column exists (via ensureColumns band-aid in nexus-sqlite.ts).
-
-ALTER TABLE `nexus_relations` ADD COLUMN `weight` real DEFAULT 0.0;
---> statement-breakpoint
-ALTER TABLE `nexus_relations` ADD COLUMN `last_accessed_at` text;
---> statement-breakpoint
-ALTER TABLE `nexus_relations` ADD COLUMN `co_accessed_count` integer DEFAULT 0;
---> statement-breakpoint
-CREATE INDEX IF NOT EXISTS `idx_nexus_relations_last_accessed` ON `nexus_relations` (`last_accessed_at`);

package/migrations/drizzle-nexus/20260423052640_t1077-add-user-profile-table/migration.sql

@@ -1,16 +0,0 @@
-CREATE TABLE `user_profile` (
-	`trait_key` text PRIMARY KEY,
-	`trait_value` text NOT NULL,
-	`confidence` real NOT NULL,
-	`source` text NOT NULL,
-	`derived_from_message_id` text,
-	`first_observed_at` integer NOT NULL,
-	`last_reinforced_at` integer NOT NULL,
-	`reinforcement_count` integer DEFAULT 1 NOT NULL,
-	`superseded_by` text
-);
---> statement-breakpoint
-CREATE INDEX `idx_user_profile_confidence` ON `user_profile` (`confidence`);--> statement-breakpoint
-CREATE INDEX `idx_user_profile_source` ON `user_profile` (`source`);--> statement-breakpoint
-CREATE INDEX `idx_user_profile_last_reinforced` ON `user_profile` (`last_reinforced_at`);--> statement-breakpoint
-CREATE INDEX `idx_user_profile_superseded` ON `user_profile` (`superseded_by`);