@cleocode/core 2026.9.7 → 2026.9.9

package/dist/workgraph/scaffold-apply.js

@@ -9,6 +9,7 @@
  * @saga T10538
  * @epic T10547
  */
+import { captureProjectScope, getProjectRoot, worktreeScope } from '../project-scope.js';
 import { getDb, getNativeDb } from '../store/sqlite.js';
 import * as schema from '../store/tasks-schema.js';
 import { validateWorkGraphScaffold } from './scaffold-validate.js';
@@ -111,87 +112,91 @@ export async function applyWorkGraphScaffold(params) {
             edgesChanged: 0,
         };
     }
-    // Step 2: apply to storage in a transaction
-    const db = await getDb();
-    const nativeDb = getNativeDb();
-    if (!nativeDb) {
-        return {
-            ...baseResult,
-            applied: false,
-            nodesChanged: 0,
-            edgesChanged: 0,
-            issues: [
-                ...baseResult.issues,
-                makeIssue(E_WORKGRAPH_SCAFFOLD_APPLY_NO_DB, 'Database not initialized — cannot apply scaffold'),
-            ],
-        };
-    }
-    nativeDb.exec('BEGIN IMMEDIATE');
-    try {
-        let nodesChanged = 0;
-        let edgesChanged = 0;
-        // Insert nodes — onConflictDoNothing for idempotency (AC2)
-        for (const node of params.nodes) {
-            const row = nodeToInsertRow(node);
-            const result = db.insert(schema.tasks).values(row).onConflictDoNothing().run();
-            if (result.changes > 0) {
-                nodesChanged++;
-            }
+    // Capture the project once before either handle acquisition can yield.
+    const scope = captureProjectScope(getProjectRoot(), worktreeScope.getStore());
+    return worktreeScope.run(scope, async () => {
+        // Step 2: apply to storage in a transaction
+        const db = await getDb(scope.worktreeRoot);
+        const nativeDb = getNativeDb(scope.worktreeRoot);
+        if (!nativeDb) {
+            return {
+                ...baseResult,
+                applied: false,
+                nodesChanged: 0,
+                edgesChanged: 0,
+                issues: [
+                    ...baseResult.issues,
+                    makeIssue(E_WORKGRAPH_SCAFFOLD_APPLY_NO_DB, 'Database not initialized — cannot apply scaffold'),
+                ],
+            };
         }
-        // Insert edges
-        if (params.edges && params.edges.length > 0) {
-            for (const edge of params.edges) {
-                if (edge.source === 'dependency') {
-                    // Dependency edge → task_dependencies
-                    const result = db
-                        .insert(schema.taskDependencies)
-                        .values({ taskId: edge.fromId, dependsOn: edge.toId })
-                        .onConflictDoNothing()
-                        .run();
-                    if (result.changes > 0) {
-                        edgesChanged++;
-                    }
+        nativeDb.exec('BEGIN IMMEDIATE');
+        try {
+            let nodesChanged = 0;
+            let edgesChanged = 0;
+            // Insert nodes — onConflictDoNothing for idempotency (AC2)
+            for (const node of params.nodes) {
+                const row = nodeToInsertRow(node);
+                const result = db.insert(schema.tasks).values(row).onConflictDoNothing().run();
+                if (result.changes > 0) {
+                    nodesChanged++;
                 }
-                else {
-                    // Relation edge → task_relations
-                    const relationType = edge.relationType ?? edgeKindToRelationType(edge.kind) ?? 'related';
-                    const result = db
-                        .insert(schema.taskRelations)
-                        .values({
-                        taskId: edge.fromId,
-                        relatedTo: edge.toId,
-                        relationType,
-                        reason: edge.reason ?? null,
-                    })
-                        .onConflictDoNothing()
-                        .run();
-                    if (result.changes > 0) {
-                        edgesChanged++;
+            }
+            // Insert edges
+            if (params.edges && params.edges.length > 0) {
+                for (const edge of params.edges) {
+                    if (edge.source === 'dependency') {
+                        // Dependency edge → task_dependencies
+                        const result = db
+                            .insert(schema.taskDependencies)
+                            .values({ taskId: edge.fromId, dependsOn: edge.toId })
+                            .onConflictDoNothing()
+                            .run();
+                        if (result.changes > 0) {
+                            edgesChanged++;
+                        }
+                    }
+                    else {
+                        // Relation edge → task_relations
+                        const relationType = edge.relationType ?? edgeKindToRelationType(edge.kind) ?? 'related';
+                        const result = db
+                            .insert(schema.taskRelations)
+                            .values({
+                            taskId: edge.fromId,
+                            relatedTo: edge.toId,
+                            relationType,
+                            reason: edge.reason ?? null,
+                        })
+                            .onConflictDoNothing()
+                            .run();
+                        if (result.changes > 0) {
+                            edgesChanged++;
+                        }
                     }
                 }
             }
+            nativeDb.exec('COMMIT');
+            return {
+                ...baseResult,
+                applied: true,
+                nodesChanged,
+                edgesChanged,
+            };
         }
-        nativeDb.exec('COMMIT');
-        return {
-            ...baseResult,
-            applied: true,
-            nodesChanged,
-            edgesChanged,
-        };
-    }
-    catch (err) {
-        nativeDb.exec('ROLLBACK');
-        const message = err instanceof Error ? err.message : String(err);
-        return {
-            ...baseResult,
-            applied: false,
-            nodesChanged: 0,
-            edgesChanged: 0,
-            issues: [
-                ...baseResult.issues,
-                makeIssue(E_WORKGRAPH_SCAFFOLD_APPLY_INVALID, `Apply failed and was rolled back: ${message}`),
-            ],
-        };
-    }
+        catch (err) {
+            nativeDb.exec('ROLLBACK');
+            const message = err instanceof Error ? err.message : String(err);
+            return {
+                ...baseResult,
+                applied: false,
+                nodesChanged: 0,
+                edgesChanged: 0,
+                issues: [
+                    ...baseResult.issues,
+                    makeIssue(E_WORKGRAPH_SCAFFOLD_APPLY_INVALID, `Apply failed and was rolled back: ${message}`),
+                ],
+            };
+        }
+    });
 }
 //# sourceMappingURL=scaffold-apply.js.map

package/dist/workgraph/scaffold-apply.js.map

@@ -1 +1 @@
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package/dist/workgraph/structure-validation.d.ts

@@ -77,7 +77,7 @@ export type WorkGraphStructureFinding = WorkGraphStructureCycleFinding | WorkGra
 export interface WorkGraphStructureValidationOptions {
     /** Scope ID to echo on scope-wide findings such as missing Wave 0. */
     readonly scopeId?: string;
-    /** Maximum allowed containment depth. Defaults to CLEO's epic→task→subtask depth (2). */
+    /** Maximum allowed containment depth. Defaults to CLEO's saga→epic→task→subtask depth (3). */
     readonly maxDepth?: number;
     /** Maximum allowed direct children per parent. Defaults to unlimited. */
     readonly maxFanout?: number;

package/dist/workgraph/structure-validation.d.ts.map

@@ -1 +1 @@
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package/dist/workgraph/structure-validation.js

@@ -15,7 +15,12 @@ export const E_WORKGRAPH_ORPHANED_NODE = 'E_WORKGRAPH_ORPHANED_NODE';
 export const E_WORKGRAPH_FANOUT_EXCEEDED = 'E_WORKGRAPH_FANOUT_EXCEEDED';
 /** Stable error code for wave-partitioned scopes with no Wave 0 row. */
 export const E_WORKGRAPH_MISSING_WAVE_ZERO = 'E_WORKGRAPH_MISSING_WAVE_ZERO';
-const DEFAULT_MAX_DEPTH = 2;
+// Depth VALUE of the deepest legal tier, inclusive: saga(0) → epic(1) → task(2)
+// → subtask(3). Was 2 — the pre-saga epic→task→subtask spine — and was never
+// recalibrated when ADR-083 §2.5 / ADR-088 made `saga` a real `parent_id`
+// container. `cleo workgraph validate` passes `{}`, so the stale default flagged
+// every legitimate depth-3 subtask (163 of them live in this repo's own store).
+const DEFAULT_MAX_DEPTH = 3;
 function normalizeLimit(limit) {
     if (limit === undefined)
         return 100;

package/dist/workgraph/structure-validation.js.map

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package/migrations/drizzle-tasks/20260919180000_t12263-job-ownership-fences/migration.sql

@@ -0,0 +1,34 @@
+-- T12263: extend the established active runtime table without moving historical rows.
+-- Epoch-ms timestamps and all existing values remain unchanged. NULL ownership
+-- means unresolved legacy work, not an expired claim. The separate prefixed
+-- tasks_background_jobs historical surface is intentionally untouched.
+-- Some fresh consolidated stores never created the active legacy job table.
+-- Bootstrap only its established shape before applying the same additive steps.
+CREATE TABLE IF NOT EXISTS background_jobs (
+  id TEXT PRIMARY KEY, operation TEXT NOT NULL, status TEXT NOT NULL DEFAULT 'pending',
+  started_at INTEGER NOT NULL, completed_at INTEGER, result TEXT, error TEXT,
+  progress INTEGER, heartbeat_at INTEGER NOT NULL, claimed_by TEXT
+);
+--> statement-breakpoint
+ALTER TABLE background_jobs ADD COLUMN project_id TEXT;
+--> statement-breakpoint
+ALTER TABLE background_jobs ADD COLUMN owner_id TEXT;
+--> statement-breakpoint
+ALTER TABLE background_jobs ADD COLUMN lease_expires_at INTEGER;
+--> statement-breakpoint
+ALTER TABLE background_jobs ADD COLUMN fencing_epoch INTEGER NOT NULL DEFAULT 0;
+--> statement-breakpoint
+ALTER TABLE background_jobs ADD COLUMN attempts INTEGER NOT NULL DEFAULT 0;
+--> statement-breakpoint
+ALTER TABLE background_jobs ADD COLUMN cancellation_requested_at INTEGER;
+--> statement-breakpoint
+ALTER TABLE background_jobs ADD COLUMN checkpoint_json TEXT;
+--> statement-breakpoint
+ALTER TABLE background_jobs ADD COLUMN checkpoint_at INTEGER;
+--> statement-breakpoint
+ALTER TABLE background_jobs ADD COLUMN idempotency_key TEXT;
+--> statement-breakpoint
+ALTER TABLE background_jobs ADD COLUMN proposal_hash TEXT;
+--> statement-breakpoint
+CREATE UNIQUE INDEX uq_background_jobs_scoped_idempotency
+  ON background_jobs(project_id, operation, idempotency_key);

package/migrations/drizzle-tasks/20260919184500_t12265-durable-pending-proposals/migration.sql

@@ -0,0 +1,4 @@
+-- T12265: preserve authentic resumable inputs in the existing active job table.
+-- Historical rows retain NULL payload: a hash cannot reconstruct original bytes.
+-- The separate tasks_background_jobs history and its timestamp encoding are untouched.
+ALTER TABLE background_jobs ADD COLUMN proposal_json TEXT;

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@cleocode/core",
-  "version": "2026.9.7",
+  "version": "2026.9.9",
   "description": "CLEO core business logic kernel — tasks, sessions, memory, orchestration, lifecycle, with bundled SQLite store",
   "type": "module",
   "main": "./dist/index.js",
@@ -376,6 +376,11 @@
       "import": "./dist/llm/*.js",
       "require": "./dist/llm/*.js"
     },
+    "./paths.js": {
+      "types": "./dist/paths.d.ts",
+      "import": "./dist/paths.js",
+      "require": "./dist/paths.js"
+    },
     "./paths": {
       "types": "./dist/paths-export.d.ts",
       "import": "./dist/paths-export.js",
@@ -456,16 +461,16 @@
     "write-file-atomic": "^7.0.1",
     "yaml": "^2.8.3",
     "zod": "^4.3.6",
-    "@cleocode/adapters": "2026.9.7",
-    "@cleocode/caamp": "2026.9.7",
-    "@cleocode/git-shim": "2026.9.7",
-    "@cleocode/agents": "2026.9.7",
-    "@cleocode/contracts": "2026.9.7",
-    "@cleocode/lafs": "2026.9.7",
-    "@cleocode/nexus": "2026.9.7",
-    "@cleocode/paths": "2026.9.7",
-    "@cleocode/skills": "2026.9.7",
-    "@cleocode/worktree": "2026.9.7"
+    "@cleocode/adapters": "2026.9.9",
+    "@cleocode/agents": "2026.9.9",
+    "@cleocode/caamp": "2026.9.9",
+    "@cleocode/contracts": "2026.9.9",
+    "@cleocode/git-shim": "2026.9.9",
+    "@cleocode/nexus": "2026.9.9",
+    "@cleocode/paths": "2026.9.9",
+    "@cleocode/lafs": "2026.9.9",
+    "@cleocode/skills": "2026.9.9",
+    "@cleocode/worktree": "2026.9.9"
   },
   "engines": {
     "node": ">=24.16.0"
@@ -491,7 +496,7 @@
     "@types/proper-lockfile": "^4.1.4",
     "@types/tar": "^6.1.13",
     "@types/write-file-atomic": "^4.0.3",
-    "@cleocode/utils": "2026.9.7"
+    "@cleocode/utils": "2026.9.9"
   },
   "repository": {
     "type": "git",
@@ -500,7 +505,7 @@
   },
   "optionalDependencies": {
     "llmtxt": "^2026.5.15",
-    "@cleocode/studio": "^2026.9.7"
+    "@cleocode/studio": "^2026.9.9"
   },
   "scripts": {
     "build": "tsc && node scripts/copy-selfimprove-fixtures.mjs",

package/schemas/config.schema.json

@@ -602,7 +602,7 @@
     },
     "hierarchy": {
       "type": "object",
-      "description": "Hierarchy constraints for Epic → Task → Subtask structure. LLM-Agent-First design: limits are organizational, not cognitive.",
+      "description": "Hierarchy constraints for the Saga → Epic → Task → Subtask structure. LLM-Agent-First design: limits are organizational, not cognitive.",
       "additionalProperties": false,
       "properties": {
         "maxSiblings": {
@@ -617,7 +617,7 @@
           "minimum": 1,
           "maximum": 10,
           "default": 3,
-          "description": "Maximum hierarchy depth (epic=0, task=1, subtask=2). Rarely needs changing."
+          "description": "Maximum containment depth VALUE, inclusive (saga=0, epic=1, task=2, subtask=3). The default 3 admits the full canonical spine. Rarely needs changing."
         },
         "countDoneInLimit": {
           "type": "boolean",