@cleocode/core 2026.8.1 → 2026.8.3

package/dist/store/ports/fk-integrity.js

@@ -0,0 +1,182 @@
+/**
+ * Foreign-key integrity verification for the consolidated dual-scope
+ * `cleo.db` files.
+ *
+ * ## Why this exists (E6-L10 · T11530)
+ *
+ * The E6 cutover consolidated eight standalone databases into two files
+ * (project `cleo.db` and global `cleo.db`) and re-pointed every cross-domain
+ * foreign key at the PREFIXED consolidated tables. Two properties must hold
+ * afterwards and neither is self-evident:
+ *
+ * 1. **Referential integrity survived the move.** Exodus copies tables in
+ *    dependency order, but a partially-applied migration, a hand-edited row,
+ *    or a legacy DB restored from a pre-consolidation backup can leave an
+ *    orphan whose parent row never made the trip.
+ * 2. **The FKs point at the right tables.** SQLite resolves a `REFERENCES`
+ *    clause lazily, so an FK naming a table that no longer exists is not an
+ *    error at DDL time — it fails only when a write touches it. A schema that
+ *    still references the retired bare `tasks` table looks fine until
+ *    something inserts.
+ *
+ * `PRAGMA foreign_key_check` answers both: it walks every FK in the schema and
+ * returns one row per violation, including one whose `parent` names a table
+ * that does not exist. So a structural defect and a row-level orphan surface
+ * through the same path.
+ *
+ * The verification runs against the LIVE consolidated files, not a fixture —
+ * this is the check that proves a real installation is sound.
+ *
+ * @packageDocumentation
+ * @task T11530 (E6-L10)
+ * @epic T11249 (E6)
+ * @saga T11242 (SG-DB-SUBSTRATE-V2)
+ */
+import { bindGlobalDomain, bindProjectDomain } from './domain-binding.js';
+/**
+ * Run `PRAGMA foreign_key_check` against one open connection.
+ *
+ * @param native - An open consolidated `cleo.db` connection.
+ * @param scope - The scope label to attribute violations to.
+ * @returns Every violation the pragma reported.
+ */
+export function checkForeignKeys(native, scope) {
+    let rows;
+    try {
+        rows = native.prepare('PRAGMA foreign_key_check').all();
+    }
+    catch (err) {
+        // The pragma normally reports a dangling parent table as an ordinary
+        // violation row, so this path is defensive: it covers the cases where
+        // SQLite raises instead (a malformed schema row, an unreadable page).
+        // Surfacing the error as a violation keeps a failure from reading as
+        // "no violations found".
+        const message = err instanceof Error ? err.message : String(err);
+        return [
+            {
+                scope,
+                table: '(schema)',
+                rowid: null,
+                parent: message,
+                fkid: -1,
+            },
+        ];
+    }
+    return rows.map((row) => ({
+        scope,
+        table: row.table,
+        rowid: row.rowid,
+        parent: row.parent,
+        fkid: row.fkid,
+    }));
+}
+/**
+ * Verify foreign-key integrity across the consolidated dual-scope databases.
+ *
+ * Opens each requested scope through the ProjectStore/GlobalStore ports — the
+ * same chokepoint the runtime uses — so the check runs against exactly the
+ * connection (and therefore the schema and pragmas) production code sees.
+ *
+ * The `establish` callbacks are deliberately inert: this is a read-only probe
+ * and must not reconcile or migrate anything as a side effect of checking.
+ *
+ * @param options - Which scopes to check and which project.
+ * @returns A report; `ok` is `true` only when ZERO violations were found.
+ *
+ * @example
+ * ```ts
+ * const report = await verifyForeignKeyIntegrity({ cwd: projectRoot });
+ * if (!report.ok) {
+ *   for (const v of report.violations) {
+ *     console.error(`${v.scope}: ${v.table} row ${v.rowid} → missing ${v.parent}`);
+ *   }
+ * }
+ * ```
+ *
+ * @task T11530
+ */
+export async function verifyForeignKeyIntegrity(options) {
+    const scopes = options?.scopes ?? ['project', 'global'];
+    const violations = [];
+    for (const scope of scopes) {
+        const binding = scope === 'project'
+            ? await bindProjectDomain('fk-check', options?.cwd, (native) => native)
+            : await bindGlobalDomain('fk-check', (native) => native);
+        violations.push(...checkForeignKeys(binding.native, scope));
+    }
+    return { ok: violations.length === 0, scopes, violations };
+}
+/**
+ * Whether the child table's failing foreign key declares `ON DELETE CASCADE`.
+ *
+ * This is the authorisation rule for automatic repair. A `CASCADE` FK is the
+ * schema stating "this row exists only while its parent does" — so an orphan
+ * is a row that SHOULD already have been deleted and removing it restores the
+ * intended state rather than discarding meaningful data. Any other
+ * `ON DELETE` action (`NO ACTION`, `RESTRICT`, `SET NULL`) means the schema
+ * expects the row to outlive or block the parent's removal, and deleting it
+ * would be destroying data the operator never authorised.
+ *
+ * @param native - The open connection.
+ * @param table - The child table.
+ * @param fkid - Index into the child's `PRAGMA foreign_key_list`.
+ */
+function isCascadeDelete(native, table, fkid) {
+    try {
+        const fks = native.prepare(`PRAGMA foreign_key_list(${JSON.stringify(table)})`).all();
+        return fks.some((fk) => fk.id === fkid && fk.on_delete.toUpperCase() === 'CASCADE');
+    }
+    catch {
+        return false;
+    }
+}
+/**
+ * Delete orphan rows whose foreign key declares `ON DELETE CASCADE`.
+ *
+ * These rows are the residue of a parent deletion that happened while FK
+ * enforcement was off — most commonly a pre-consolidation legacy database that
+ * exodus then copied verbatim. The schema already says they should not exist;
+ * this restores that invariant.
+ *
+ * Rows whose FK is NOT `CASCADE` are reported in `skipped` and left untouched.
+ *
+ * @param options - Which scopes to repair and which project.
+ * @returns What was found, repaired, and deliberately skipped.
+ *
+ * @task T11530
+ */
+export async function repairForeignKeyViolations(options) {
+    const scopes = options?.scopes ?? ['project', 'global'];
+    const found = [];
+    const repaired = [];
+    const skipped = [];
+    for (const scope of scopes) {
+        const binding = scope === 'project'
+            ? await bindProjectDomain('fk-check', options?.cwd, (native) => native)
+            : await bindGlobalDomain('fk-check', (native) => native);
+        const native = binding.native;
+        const violations = checkForeignKeys(native, scope);
+        found.push(...violations);
+        for (const v of violations) {
+            // A structural violation has no single row to delete.
+            if (v.rowid === null || v.fkid < 0) {
+                skipped.push(v);
+                continue;
+            }
+            if (!isCascadeDelete(native, v.table, v.fkid)) {
+                skipped.push(v);
+                continue;
+            }
+            native
+                .prepare(`DELETE FROM ${JSON.stringify(v.table)} WHERE rowid = ?`)
+                .run(v.rowid);
+            repaired.push(v);
+        }
+    }
+    const after = await verifyForeignKeyIntegrity({
+        ...(options?.cwd === undefined ? {} : { cwd: options.cwd }),
+        scopes,
+    });
+    return { found, repaired, skipped, ok: after.ok };
+}
+//# sourceMappingURL=fk-integrity.js.map

package/dist/store/ports/fk-integrity.js.map

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package/dist/store/role-accessors-impl.js

@@ -28,7 +28,7 @@ export function createConduitAccessor(projectRoot) {
         async publish(topic, payload) {
             const { ensureConduitDb, getConduitNativeDb } = await import('./conduit-sqlite.js');
             await ensureConduitDb(cwd);
-            const db = getConduitNativeDb();
+            const db = getConduitNativeDb(cwd);
             if (!db)
                 throw new Error('ConduitAccessor: conduit.db not initialized');
             // Best-effort publish into the prefixed conduit_messages table (T11578 ·
@@ -50,7 +50,7 @@ export function createConduitAccessor(projectRoot) {
             try {
                 const { ensureConduitDb, getConduitNativeDb } = await import('./conduit-sqlite.js');
                 await ensureConduitDb(cwd);
-                const db = getConduitNativeDb();
+                const db = getConduitNativeDb(cwd);
                 if (!db)
                     return false;
                 db.prepare('SELECT 1').get();

package/dist/store/role-accessors-impl.js.map

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package/dist/store/skills-db.d.ts

@@ -42,6 +42,8 @@
  */
 import type { DatabaseSync } from 'node:sqlite';
 import type { NodeSQLiteDatabase } from 'drizzle-orm/node-sqlite';
+import { type GlobalStore } from './dual-scope-db.js';
+import { type DomainBinding } from './ports/domain-binding.js';
 import * as skillsSchema from './schema/skills-schema.js';
 import { type NewSkillRow, type SkillRow, type SkillSourceType } from './schema/skills-schema.js';
 /**
@@ -112,6 +114,23 @@ export interface OpenSkillsDbOptions {
  * @task T11525
  */
 export declare function openSkillsDb(options?: OpenSkillsDbOptions): Promise<NodeSQLiteDatabase>;
+/**
+ * Bind the skills registry schema to a {@link GlobalStore}.
+ *
+ * ## E6-L15 cutover (T12039)
+ *
+ * Replaces this module's singleton quartet. The skills registry shares ONE
+ * `DatabaseSync` with the other global-tier domains (nexus registry,
+ * agent registry) — binding them all to the same store makes that explicit,
+ * so a sibling's reset invalidates every global binding together instead of
+ * leaving skills holding a closed handle.
+ *
+ * @param options - Open options; `{ path }` redirects to a sandbox file.
+ * @returns The live skills-domain binding.
+ *
+ * @task T12039 (E6-L15)
+ */
+export declare function bindSkillsDomain(options?: OpenSkillsDbOptions): Promise<DomainBinding<NodeSQLiteDatabase, GlobalStore>>;
 /**
  * Drop the skills-domain singleton references and trigger the coordinated close
  * of the shared GLOBAL `cleo.db` handle via the dual-scope cache.

package/dist/store/skills-db.d.ts.map

@@ -1 +1 @@
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package/dist/store/skills-db.js

@@ -50,7 +50,10 @@ import { getCurrentWriteOrigin } from '../sentient/skill-provenance.js';
 // DatabaseSync lifecycle, pragmas, and consolidated migrations (which create the
 // prefixed `skills_*` tables). We extract the native handle and re-wrap it with
 // the prefix-renamed skills schema so existing callers compile unchanged.
-import { _resetDualScopeDbCache, openDualScopeDb, openDualScopeDbAtPath } from './dual-scope-db.js';
+import { _resetDualScopeDbCache } from './dual-scope-db.js';
+// T12039: the skills registry no longer owns a singleton — the path-keyed
+// binding registry does. This module contributes only its schema wrapping.
+import { bindGlobalDomain, bindGlobalDomainAtPath, peekDomainAtPath, peekGlobalDomain, releaseDomainBindings, } from './ports/domain-binding.js';
 import * as skillsSchema from './schema/skills-schema.js';
 import { skills as skillsTable, } from './schema/skills-schema.js';
 /**
@@ -64,12 +67,22 @@ export const SKILLS_DB_FILENAME = 'skills.db';
 /** Schema version constant. Retained for compatibility with external re-exporters. */
 export const SKILLS_SCHEMA_VERSION = '2026.5.81';
 // ---------------------------------------------------------------------------
-// Singleton state — one open handle per process, reset across tests.
+// No singleton state (E6-L15 · T12039)
 // ---------------------------------------------------------------------------
-let _skillsDb = null;
-let _skillsNativeDb = null;
-let _skillsDbPath = null;
-let _skillsInitPromise = null;
+// `_skillsDb` / `_skillsNativeDb` / `_skillsInitPromise` are gone. Caching, path
+// keying, single-flight, and handle liveness belong to the path-keyed binding
+// registry in `ports/domain-binding.ts`.
+/**
+ * The path an explicit `{ path }` open redirected this domain to, if any.
+ *
+ * This is NOT a cache — it holds no handle and no schema. It is the sandbox
+ * REDIRECTION that tests rely on: after opening the registry at a `mkdtemp`
+ * file, a later bare `openSkillsDb()` from a helper must resolve back to that
+ * sandbox rather than swapping to the real consolidated `cleo.db` and leaking
+ * writes outside the test. Cleared by {@link closeSkillsDb} /
+ * {@link resetSkillsDbState}.
+ */
+let _skillsOverridePath = null;
 // ---------------------------------------------------------------------------
 // Path resolution
 // ---------------------------------------------------------------------------
@@ -130,61 +143,54 @@ export function getDefaultSkillsDbPath() {
  * @task T11525
  */
 export async function openSkillsDb(options) {
-    // Fast-path: if no explicit override was requested AND a singleton already
-    // exists, return it without re-resolving `getDefaultSkillsDbPath()`. This
-    // is important for tests that open the DB at a tmpdir via `{path:...}` and
-    // then exercise helpers that call `openSkillsDb()` with no args; without
-    // this guard the helper call would swap the singleton over to the real
-    // consolidated cleo.db path and leak writes outside the test sandbox.
-    if (_skillsDb && !options?.path)
-        return _skillsDb;
-    const requestedPath = options?.path ?? getDefaultSkillsDbPath();
-    // If singleton points at a different file, reset cleanly.
-    if (_skillsDb && _skillsDbPath !== requestedPath) {
-        resetSkillsDbState();
-    }
-    // Liveness guard (T11525): the skills registry SHARES the consolidated GLOBAL
-    // `cleo.db` handle with the nexus / signaldock domains. A sibling may have
-    // closed + re-opened the shared handle while our singleton still references the
-    // now-closed one. Detect a stale (closed) handle and drop the singleton so we
-    // re-derive from the live dual-scope cache below.
-    if (_skillsDb && (_skillsNativeDb === null || !_skillsNativeDb.isOpen)) {
-        resetSkillsDbState();
-    }
-    if (_skillsDb)
-        return _skillsDb;
-    if (_skillsInitPromise)
-        return _skillsInitPromise;
-    _skillsInitPromise = (async () => {
-        _skillsDbPath = requestedPath;
-        // ── Dual-scope chokepoint delegation (T11525 · E6-L5) ───────────────────
-        // openDualScopeDb('global') applies the pragma SSoT, creates the directory,
-        // runs the consolidated cleo-global migrations (which create the prefixed
-        // `skills_*` tables), and manages the singleton cache. The `{ path }` test
-        // override routes through the path-aware sibling against an isolated file.
-        const dualHandle = options?.path
-            ? await openDualScopeDbAtPath('global', options.path)
-            : await openDualScopeDb('global');
-        // Extract the underlying DatabaseSync. Drizzle exposes it via `$client`.
-        const nativeDb = dualHandle.db.$client ?? null;
-        if (!nativeDb) {
-            throw new Error('E6-L5: openDualScopeDb returned a handle without $client — ' +
-                'cannot extract DatabaseSync for the skills-schema wrapping.');
-        }
-        _skillsNativeDb = nativeDb;
-        // Wrap the native handle with the prefix-renamed skills schema so existing
-        // callers (skillsSchema.* queries) bind to the consolidated `skills_*`
-        // tables the dual-scope migration already created.
-        const db = drizzle({ client: nativeDb });
-        _skillsDb = db;
-        return db;
-    })();
-    try {
-        return await _skillsInitPromise;
-    }
-    finally {
-        _skillsInitPromise = null;
+    return (await bindSkillsDomain(options)).db;
+}
+/**
+ * Resolve which file the skills registry should bind to.
+ *
+ * An explicit `{ path }` wins and becomes the sticky sandbox redirection; a
+ * bare call honours a previously-set redirection before falling back to the
+ * canonical consolidated `cleo.db` under `getCleoHome()`.
+ *
+ * @param options - The caller's open options.
+ * @returns The absolute path to bind, and whether it is the canonical global.
+ *
+ * @task T12039 (E6-L15)
+ */
+function resolveSkillsBindPath(options) {
+    if (options?.path) {
+        _skillsOverridePath = options.path;
+        return { path: options.path, canonical: false };
     }
+    if (_skillsOverridePath)
+        return { path: _skillsOverridePath, canonical: false };
+    return { path: getDefaultSkillsDbPath(), canonical: true };
+}
+/**
+ * Bind the skills registry schema to a {@link GlobalStore}.
+ *
+ * ## E6-L15 cutover (T12039)
+ *
+ * Replaces this module's singleton quartet. The skills registry shares ONE
+ * `DatabaseSync` with the other global-tier domains (nexus registry,
+ * agent registry) — binding them all to the same store makes that explicit,
+ * so a sibling's reset invalidates every global binding together instead of
+ * leaving skills holding a closed handle.
+ *
+ * @param options - Open options; `{ path }` redirects to a sandbox file.
+ * @returns The live skills-domain binding.
+ *
+ * @task T12039 (E6-L15)
+ */
+export async function bindSkillsDomain(options) {
+    const { path, canonical } = resolveSkillsBindPath(options);
+    // Wrap the native handle with the prefix-renamed skills schema so existing
+    // callers (skillsSchema.* queries) bind to the consolidated `skills_*`
+    // tables the dual-scope migration already created.
+    const establish = (nativeDb) => drizzle({ client: nativeDb });
+    return canonical
+        ? bindGlobalDomain('skills', establish)
+        : bindGlobalDomainAtPath('skills', path, establish);
 }
 /**
  * Drop the skills-domain singleton references and trigger the coordinated close
@@ -206,12 +212,10 @@ export async function openSkillsDb(options) {
  * @task T11525
  */
 export function closeSkillsDb() {
-    // Drop only the local references. The scope-filtered cache reset performs the
-    // single coordinated close of the shared GLOBAL handle.
-    _skillsNativeDb = null;
-    _skillsDb = null;
-    _skillsDbPath = null;
-    _skillsInitPromise = null;
+    // Drop the bindings + the sandbox redirection. The scope-filtered cache reset
+    // performs the single coordinated close of the shared GLOBAL handle.
+    _skillsOverridePath = null;
+    releaseDomainBindings({ scope: 'global', domain: 'skills' });
     _resetDualScopeDbCache('global');
 }
 /**
@@ -224,10 +228,8 @@ export function closeSkillsDb() {
  * @task T11525
  */
 export function resetSkillsDbState() {
-    _skillsNativeDb = null;
-    _skillsDb = null;
-    _skillsDbPath = null;
-    _skillsInitPromise = null;
+    _skillsOverridePath = null;
+    releaseDomainBindings({ scope: 'global', domain: 'skills' });
     _resetDualScopeDbCache('global');
 }
 /**
@@ -235,7 +237,10 @@ export function resetSkillsDbState() {
  * not yet initialised). Exposed for the backup/restore pipeline.
  */
 export function getSkillsNativeDb() {
-    return _skillsNativeDb;
+    const bound = _skillsOverridePath
+        ? peekDomainAtPath('global', _skillsOverridePath, 'skills')
+        : peekGlobalDomain('skills');
+    return bound?.native ?? null;
 }
 /**
  * Return the absolute path of the currently open skills.db handle, or
@@ -248,7 +253,10 @@ export function getSkillsNativeDb() {
  * @task T9693
  */
 export function getOpenSkillsDbPath() {
-    return _skillsDbPath;
+    const bound = _skillsOverridePath
+        ? peekDomainAtPath('global', _skillsOverridePath, 'skills')
+        : peekGlobalDomain('skills');
+    return bound?.store.dbPath ?? null;
 }
 // ---------------------------------------------------------------------------
 // Read / write helpers (acceptance criterion 4)

package/dist/store/skills-db.js.map

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package/dist/store/sqlite-backup.js

@@ -109,7 +109,7 @@ function resolveInventoryPath(entry, cwd) {
 async function openBrainDbForSnapshot(cwd) {
     await getBrainDb(cwd);
     // After getBrainDb resolves, the native singleton MUST be populated.
-    return getBrainNativeDb();
+    return getBrainNativeDb(cwd);
 }
 /**
  * Open the canonical tasks.db singleton via {@link getDb} and return its
@@ -117,7 +117,7 @@ async function openBrainDbForSnapshot(cwd) {
  */
 async function openTasksDbForSnapshot(cwd) {
     await getDb(cwd);
-    return getNativeDb();
+    return getNativeDb(cwd);
 }
 /**
  * Open the canonical conduit.db singleton via {@link ensureConduitDb}

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

@@ -1 +1 @@
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package/dist/store/sqlite-data-accessor.js

@@ -880,7 +880,7 @@ export async function createSqliteDataAccessor(cwd) {
             // another async cleanup could close the DB during the await, leaving us
             // with a stale (closed) nativeDb reference. (T1718 flake fix)
             const db = await getDb(cwd);
-            const nativeDb = getNativeTasksDb();
+            const nativeDb = getNativeTasksDb(cwd);
             if (!nativeDb) {
                 throw new Error('Native database not initialized');
             }