@shepai/cli 1.135.2-pr438.f43bc1e → 1.135.2-pr439.e1871c8

package/dist/packages/core/src/infrastructure/di/container.js

@@ -28,7 +28,6 @@ import { DaemonPidService } from '../services/daemon/daemon-pid.service.js';
 import { DeploymentService } from '../services/deployment/deployment.service.js';
 import { AttachmentStorageService } from '../services/attachment-storage.service.js';
 import { GitHubRepositoryService } from '../services/external/github-repository.service.js';
-import { GitHubIssueCreatorService } from '../services/external/github-issue-creator.service.js';
 import { AgentExecutorFactory } from '../services/agents/common/agent-executor-factory.service.js';
 import { AgentExecutorProvider } from '../services/agents/common/agent-executor-provider.service.js';
 import { StructuredAgentCallerService } from '../services/agents/common/structured-agent-caller.service.js';
@@ -85,7 +84,6 @@ import { CheckAndUnblockFeaturesUseCase } from '../../application/use-cases/feat
 import { UpdateFeatureLifecycleUseCase } from '../../application/use-cases/features/update/update-feature-lifecycle.use-case.js';
 import { CleanupFeatureWorktreeUseCase } from '../../application/use-cases/features/cleanup-feature-worktree.use-case.js';
 import { UpgradeCliUseCase } from '../../application/use-cases/upgrade/upgrade-cli.use-case.js';
-import { DoctorDiagnoseUseCase } from '../../application/use-cases/doctor/doctor-diagnose.use-case.js';
 // Session listing
 import { ClaudeCodeSessionRepository } from '../services/agents/sessions/claude-code-session.repository.js';
 import { StubSessionRepository } from '../services/agents/sessions/stub-session.repository.js';
@@ -171,7 +169,6 @@ export async function initializeContainer() {
     container.registerSingleton('IToolInstallerService', ToolInstallerServiceImpl);
     container.registerSingleton('IGitPrService', GitPrService);
     container.registerSingleton('IGitHubRepositoryService', GitHubRepositoryService);
-    container.registerSingleton('IGitHubIssueService', GitHubIssueCreatorService);
     container.registerSingleton('IIdeLauncherService', JsonDrivenIdeLauncherService);
     container.registerSingleton('IDaemonService', DaemonPidService);
     container.registerSingleton(AttachmentStorageService);
@@ -308,7 +305,6 @@ export async function initializeContainer() {
     container.registerSingleton(UpdateFeatureLifecycleUseCase);
     container.registerSingleton(CleanupFeatureWorktreeUseCase);
     container.registerSingleton(UpgradeCliUseCase);
-    container.registerSingleton(DoctorDiagnoseUseCase);
     // Session repositories (per-AgentType string tokens)
     container.register(`IAgentSessionRepository:${AgentType.ClaudeCode}`, {
         useFactory: () => new ClaudeCodeSessionRepository(),

package/dist/packages/core/src/infrastructure/persistence/sqlite/mappers/repository.mapper.d.ts

@@ -16,6 +16,7 @@ export interface RepositoryRow {
     name: string;
     path: string;
     remote_url: string | null;
+    spec_storage_mode: string | null;
     created_at: number;
     updated_at: number;
     deleted_at: number | null;

package/dist/packages/core/src/infrastructure/persistence/sqlite/mappers/repository.mapper.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"repository.mapper.d.ts","sourceRoot":"","sources":["../../../../../../../../packages/core/src/infrastructure/persistence/sqlite/mappers/repository.mapper.ts"],"names":[],"mappings":"AAAA;;;;;;;;GAQG;AAEH,OAAO,KAAK,EAAE,UAAU,EAAE,MAAM,wCAAwC,CAAC;AAEzE;;GAEG;AACH,MAAM,WAAW,aAAa;IAC5B,EAAE,EAAE,MAAM,CAAC;IACX,IAAI,EAAE,MAAM,CAAC;IACb,IAAI,EAAE,MAAM,CAAC;IACb,UAAU,EAAE,MAAM,GAAG,IAAI,CAAC;IAC1B,UAAU,EAAE,MAAM,CAAC;IACnB,UAAU,EAAE,MAAM,CAAC;IACnB,UAAU,EAAE,MAAM,GAAG,IAAI,CAAC;CAC3B;AAED;;GAEG;AACH,wBAAgB,UAAU,CAAC,IAAI,EAAE,UAAU,GAAG,aAAa,CAc1D;AAED;;GAEG;AACH,wBAAgB,YAAY,CAAC,GAAG,EAAE,aAAa,GAAG,UAAU,CAU3D"}
+{"version":3,"file":"repository.mapper.d.ts","sourceRoot":"","sources":["../../../../../../../../packages/core/src/infrastructure/persistence/sqlite/mappers/repository.mapper.ts"],"names":[],"mappings":"AAAA;;;;;;;;GAQG;AAEH,OAAO,KAAK,EAAE,UAAU,EAAE,MAAM,wCAAwC,CAAC;AAEzE;;GAEG;AACH,MAAM,WAAW,aAAa;IAC5B,EAAE,EAAE,MAAM,CAAC;IACX,IAAI,EAAE,MAAM,CAAC;IACb,IAAI,EAAE,MAAM,CAAC;IACb,UAAU,EAAE,MAAM,GAAG,IAAI,CAAC;IAC1B,iBAAiB,EAAE,MAAM,GAAG,IAAI,CAAC;IACjC,UAAU,EAAE,MAAM,CAAC;IACnB,UAAU,EAAE,MAAM,CAAC;IACnB,UAAU,EAAE,MAAM,GAAG,IAAI,CAAC;CAC3B;AAED;;GAEG;AACH,wBAAgB,UAAU,CAAC,IAAI,EAAE,UAAU,GAAG,aAAa,CAe1D;AAED;;GAEG;AACH,wBAAgB,YAAY,CAAC,GAAG,EAAE,aAAa,GAAG,UAAU,CAW3D"}

package/dist/packages/core/src/infrastructure/persistence/sqlite/mappers/repository.mapper.js

@@ -16,6 +16,7 @@ export function toDatabase(repo) {
         name: repo.name,
         path: repo.path,
         remote_url: repo.remoteUrl ?? null,
+        spec_storage_mode: repo.specStorageMode ?? null,
         created_at: repo.createdAt instanceof Date ? repo.createdAt.getTime() : repo.createdAt,
         updated_at: repo.updatedAt instanceof Date ? repo.updatedAt.getTime() : repo.updatedAt,
         deleted_at: repo.deletedAt
@@ -34,6 +35,7 @@ export function fromDatabase(row) {
         name: row.name,
         path: row.path,
         remoteUrl: row.remote_url ?? undefined,
+        specStorageMode: row.spec_storage_mode ?? 'in-repo',
         createdAt: new Date(row.created_at),
         updatedAt: new Date(row.updated_at),
         deletedAt: row.deleted_at ? new Date(row.deleted_at) : undefined,

package/dist/packages/core/src/infrastructure/persistence/sqlite/migrations/044-add-spec-storage-mode.d.ts

@@ -0,0 +1,12 @@
+/**
+ * Migration 044: Add spec_storage_mode column to repositories table.
+ *
+ * Adds a TEXT column with DEFAULT 'in-repo' to control where new feature
+ * specs are stored: 'in-repo' (<worktree>/.shep/specs/) or 'shep-managed'
+ * (~/.shep/repos/<hash>/specs/).
+ */
+import type { MigrationParams } from 'umzug';
+import type Database from 'better-sqlite3';
+export declare function up({ context: db }: MigrationParams<Database.Database>): Promise<void>;
+export declare function down({ context: db }: MigrationParams<Database.Database>): Promise<void>;
+//# sourceMappingURL=044-add-spec-storage-mode.d.ts.map

package/dist/packages/core/src/infrastructure/persistence/sqlite/migrations/044-add-spec-storage-mode.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"044-add-spec-storage-mode.d.ts","sourceRoot":"","sources":["../../../../../../../../packages/core/src/infrastructure/persistence/sqlite/migrations/044-add-spec-storage-mode.ts"],"names":[],"mappings":"AAAA;;;;;;GAMG;AAEH,OAAO,KAAK,EAAE,eAAe,EAAE,MAAM,OAAO,CAAC;AAC7C,OAAO,KAAK,QAAQ,MAAM,gBAAgB,CAAC;AAE3C,wBAAsB,EAAE,CAAC,EAAE,OAAO,EAAE,EAAE,EAAE,EAAE,eAAe,CAAC,QAAQ,CAAC,QAAQ,CAAC,GAAG,OAAO,CAAC,IAAI,CAAC,CAO3F;AAED,wBAAsB,IAAI,CAAC,EAAE,OAAO,EAAE,EAAE,EAAE,EAAE,eAAe,CAAC,QAAQ,CAAC,QAAQ,CAAC,GAAG,OAAO,CAAC,IAAI,CAAC,CAI7F"}

package/dist/packages/core/src/infrastructure/persistence/sqlite/migrations/044-add-spec-storage-mode.js

@@ -0,0 +1,19 @@
+/**
+ * Migration 044: Add spec_storage_mode column to repositories table.
+ *
+ * Adds a TEXT column with DEFAULT 'in-repo' to control where new feature
+ * specs are stored: 'in-repo' (<worktree>/.shep/specs/) or 'shep-managed'
+ * (~/.shep/repos/<hash>/specs/).
+ */
+export async function up({ context: db }) {
+    const columns = db.pragma('table_info(repositories)');
+    const existing = new Set(columns.map((c) => c.name));
+    if (!existing.has('spec_storage_mode')) {
+        db.exec("ALTER TABLE repositories ADD COLUMN spec_storage_mode TEXT DEFAULT 'in-repo'");
+    }
+}
+export async function down({ context: db }) {
+    // SQLite does not support DROP COLUMN before 3.35.0.
+    // The column remains but is unused after rollback.
+    void db;
+}

package/dist/packages/core/src/infrastructure/repositories/sqlite-repository.repository.d.ts

@@ -16,7 +16,7 @@ export declare class SQLiteRepositoryRepository implements IRepositoryRepository
     remove(id: string): Promise<void>;
     findByPathIncludingDeleted(path: string): Promise<Repository | null>;
     findByRemoteUrl(url: string): Promise<Repository | null>;
-    update(id: string, fields: Partial<Pick<Repository, 'name' | 'path' | 'remoteUrl'>>): Promise<Repository>;
+    update(id: string, fields: Partial<Pick<Repository, 'name' | 'path' | 'remoteUrl' | 'specStorageMode'>>): Promise<Repository>;
     softDelete(id: string): Promise<void>;
     restore(id: string): Promise<void>;
     static normalizeRemoteUrl(url: string): string;

package/dist/packages/core/src/infrastructure/repositories/sqlite-repository.repository.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"sqlite-repository.repository.d.ts","sourceRoot":"","sources":["../../../../../../packages/core/src/infrastructure/repositories/sqlite-repository.repository.ts"],"names":[],"mappings":"AAAA;;;;GAIG;AAEH,OAAO,KAAK,QAAQ,MAAM,gBAAgB,CAAC;AAE3C,OAAO,KAAK,EAAE,qBAAqB,EAAE,MAAM,gFAAgF,CAAC;AAC5H,OAAO,KAAK,EAAE,UAAU,EAAE,MAAM,kCAAkC,CAAC;AAOnE,qBACa,0BAA2B,YAAW,qBAAqB;IAC1D,OAAO,CAAC,QAAQ,CAAC,EAAE;gBAAF,EAAE,EAAE,QAAQ,CAAC,QAAQ;IAE5C,MAAM,CAAC,UAAU,EAAE,UAAU,GAAG,OAAO,CAAC,UAAU,CAAC;IAYnD,QAAQ,CAAC,EAAE,EAAE,MAAM,GAAG,OAAO,CAAC,UAAU,GAAG,IAAI,CAAC;IAMhD,UAAU,CAAC,IAAI,EAAE,MAAM,GAAG,OAAO,CAAC,UAAU,GAAG,IAAI,CAAC;IAQpD,IAAI,IAAI,OAAO,CAAC,UAAU,EAAE,CAAC;IAQ7B,MAAM,CAAC,EAAE,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC;IAKjC,0BAA0B,CAAC,IAAI,EAAE,MAAM,GAAG,OAAO,CAAC,UAAU,GAAG,IAAI,CAAC;IAMpE,eAAe,CAAC,GAAG,EAAE,MAAM,GAAG,OAAO,CAAC,UAAU,GAAG,IAAI,CAAC;IASxD,MAAM,CACV,EAAE,EAAE,MAAM,EACV,MAAM,EAAE,OAAO,CAAC,IAAI,CAAC,UAAU,EAAE,MAAM,GAAG,MAAM,GAAG,WAAW,CAAC,CAAC,GAC/D,OAAO,CAAC,UAAU,CAAC;IA+BhB,UAAU,CAAC,EAAE,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC;IAQrC,OAAO,CAAC,EAAE,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC;IAQxC,MAAM,CAAC,kBAAkB,CAAC,GAAG,EAAE,MAAM,GAAG,MAAM;CAG/C"}
+{"version":3,"file":"sqlite-repository.repository.d.ts","sourceRoot":"","sources":["../../../../../../packages/core/src/infrastructure/repositories/sqlite-repository.repository.ts"],"names":[],"mappings":"AAAA;;;;GAIG;AAEH,OAAO,KAAK,QAAQ,MAAM,gBAAgB,CAAC;AAE3C,OAAO,KAAK,EAAE,qBAAqB,EAAE,MAAM,gFAAgF,CAAC;AAC5H,OAAO,KAAK,EAAE,UAAU,EAAE,MAAM,kCAAkC,CAAC;AAOnE,qBACa,0BAA2B,YAAW,qBAAqB;IAC1D,OAAO,CAAC,QAAQ,CAAC,EAAE;gBAAF,EAAE,EAAE,QAAQ,CAAC,QAAQ;IAE5C,MAAM,CAAC,UAAU,EAAE,UAAU,GAAG,OAAO,CAAC,UAAU,CAAC;IAYnD,QAAQ,CAAC,EAAE,EAAE,MAAM,GAAG,OAAO,CAAC,UAAU,GAAG,IAAI,CAAC;IAMhD,UAAU,CAAC,IAAI,EAAE,MAAM,GAAG,OAAO,CAAC,UAAU,GAAG,IAAI,CAAC;IAQpD,IAAI,IAAI,OAAO,CAAC,UAAU,EAAE,CAAC;IAQ7B,MAAM,CAAC,EAAE,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC;IAKjC,0BAA0B,CAAC,IAAI,EAAE,MAAM,GAAG,OAAO,CAAC,UAAU,GAAG,IAAI,CAAC;IAMpE,eAAe,CAAC,GAAG,EAAE,MAAM,GAAG,OAAO,CAAC,UAAU,GAAG,IAAI,CAAC;IASxD,MAAM,CACV,EAAE,EAAE,MAAM,EACV,MAAM,EAAE,OAAO,CAAC,IAAI,CAAC,UAAU,EAAE,MAAM,GAAG,MAAM,GAAG,WAAW,GAAG,iBAAiB,CAAC,CAAC,GACnF,OAAO,CAAC,UAAU,CAAC;IAmChB,UAAU,CAAC,EAAE,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC;IAQrC,OAAO,CAAC,EAAE,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC;IAQxC,MAAM,CAAC,kBAAkB,CAAC,GAAG,EAAE,MAAM,GAAG,MAAM;CAG/C"}

package/dist/packages/core/src/infrastructure/repositories/sqlite-repository.repository.js

@@ -23,8 +23,8 @@ let SQLiteRepositoryRepository = SQLiteRepositoryRepository_1 = class SQLiteRepo
     async create(repository) {
         const row = toDatabase(repository);
         const insertStmt = this.db.prepare(`
-      INSERT OR IGNORE INTO repositories (id, name, path, created_at, updated_at)
-      VALUES (@id, @name, @path, @created_at, @updated_at)
+      INSERT OR IGNORE INTO repositories (id, name, path, spec_storage_mode, created_at, updated_at)
+      VALUES (@id, @name, @path, @spec_storage_mode, @created_at, @updated_at)
     `);
         insertStmt.run(row);
         const selectStmt = this.db.prepare('SELECT * FROM repositories WHERE path = ?');
@@ -77,6 +77,10 @@ let SQLiteRepositoryRepository = SQLiteRepositoryRepository_1 = class SQLiteRepo
             setClauses.push('remote_url = ?');
             values.push(fields.remoteUrl);
         }
+        if (fields.specStorageMode !== undefined) {
+            setClauses.push('spec_storage_mode = ?');
+            values.push(fields.specStorageMode);
+        }
         values.push(id);
         const stmt = this.db.prepare(`UPDATE repositories SET ${setClauses.join(', ')} WHERE id = ?`);
         const result = stmt.run(...values);

package/dist/packages/core/src/infrastructure/services/agents/feature-agent/nodes/prompts/evidence-prompts.d.ts

@@ -5,8 +5,10 @@
  * (screenshots, test outputs, terminal recordings) proving that
  * completed tasks work as expected. Evidence files are saved to the
  * shep home folder (~/.shep/repos/<hash>/evidence/). When commitEvidence
- * is enabled, files are also committed to specs/<NNN>-<feature>/evidence/
- * in the worktree. The agent outputs a structured JSON manifest of
+ * is enabled, files are also committed to .shep/specs/<NNN>-<feature>/evidence/
+ * in the worktree. When the spec directory is outside the worktree
+ * (shep-managed mode), commitEvidence is forced to false since git
+ * cannot track files outside the worktree. The agent outputs a structured JSON manifest of
  * evidence records that the evidence-output-parser extracts for the
  * graph state.
  */

package/dist/packages/core/src/infrastructure/services/agents/feature-agent/nodes/prompts/evidence-prompts.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"evidence-prompts.d.ts","sourceRoot":"","sources":["../../../../../../../../../../packages/core/src/infrastructure/services/agents/feature-agent/nodes/prompts/evidence-prompts.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;GAWG;AAIH,OAAO,KAAK,EAAE,iBAAiB,EAAE,MAAM,gBAAgB,CAAC;AACxD,OAAO,KAAK,EAAE,eAAe,EAAE,MAAM,8BAA8B,CAAC;AAEpE,MAAM,WAAW,qBAAqB;IACpC,kEAAkE;IAClE,cAAc,EAAE,OAAO,CAAC;CACzB;AAED,wBAAgB,mBAAmB,CACjC,KAAK,EAAE,iBAAiB,EACxB,OAAO,GAAE,qBAAiD,GACzD,MAAM,CAoNR;AAgCD;;;;;;;;;GASG;AACH,wBAAgB,wBAAwB,CACtC,KAAK,EAAE,iBAAiB,EACxB,MAAM,EAAE,eAAe,EAAE,EACzB,OAAO,GAAE,qBAAiD,GACzD,MAAM,CAsBR"}
+{"version":3,"file":"evidence-prompts.d.ts","sourceRoot":"","sources":["../../../../../../../../../../packages/core/src/infrastructure/services/agents/feature-agent/nodes/prompts/evidence-prompts.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;;GAaG;AAIH,OAAO,KAAK,EAAE,iBAAiB,EAAE,MAAM,gBAAgB,CAAC;AACxD,OAAO,KAAK,EAAE,eAAe,EAAE,MAAM,8BAA8B,CAAC;AAEpE,MAAM,WAAW,qBAAqB;IACpC,kEAAkE;IAClE,cAAc,EAAE,OAAO,CAAC;CACzB;AAED,wBAAgB,mBAAmB,CACjC,KAAK,EAAE,iBAAiB,EACxB,OAAO,GAAE,qBAAiD,GACzD,MAAM,CA0NR;AAgCD;;;;;;;;;GASG;AACH,wBAAgB,wBAAwB,CACtC,KAAK,EAAE,iBAAiB,EACxB,MAAM,EAAE,eAAe,EAAE,EACzB,OAAO,GAAE,qBAAiD,GACzD,MAAM,CAsBR"}

package/dist/packages/core/src/infrastructure/services/agents/feature-agent/nodes/prompts/evidence-prompts.js

@@ -5,8 +5,10 @@
  * (screenshots, test outputs, terminal recordings) proving that
  * completed tasks work as expected. Evidence files are saved to the
  * shep home folder (~/.shep/repos/<hash>/evidence/). When commitEvidence
- * is enabled, files are also committed to specs/<NNN>-<feature>/evidence/
- * in the worktree. The agent outputs a structured JSON manifest of
+ * is enabled, files are also committed to .shep/specs/<NNN>-<feature>/evidence/
+ * in the worktree. When the spec directory is outside the worktree
+ * (shep-managed mode), commitEvidence is forced to false since git
+ * cannot track files outside the worktree. The agent outputs a structured JSON manifest of
  * evidence records that the evidence-output-parser extracts for the
  * graph state.
  */
@@ -45,7 +47,12 @@ ${tasksContent}
     const relativeSpecDir = relative(cwd, state.specDir).replaceAll('\\', '/');
     const specEvidenceRelPath = `${relativeSpecDir}/evidence`;
     const specEvidenceAbsPath = join(state.specDir, 'evidence').replaceAll('\\', '/');
-    const storageSection = options.commitEvidence
+    // When specDir is outside the worktree (shep-managed mode), force commitEvidence=false.
+    // In shep-managed mode, relative() produces paths starting with '..' which escape
+    // the worktree boundary, making git operations invalid.
+    const isSpecDirOutsideWorktree = relativeSpecDir.startsWith('..');
+    const effectiveCommitEvidence = isSpecDirOutsideWorktree ? false : options.commitEvidence;
+    const storageSection = effectiveCommitEvidence
         ? `## Evidence Storage
 
 Save all evidence files to BOTH locations:
@@ -67,7 +74,7 @@ Save all evidence files to the shep home folder:
 1. Create the directory if it does not exist: \`mkdir -p ${shepEvidenceDir}/\`
 2. Save each evidence file with a descriptive name (e.g., \`homepage-screenshot.png\`, \`unit-test-results.txt\`)
 3. In the output JSON, set relativePath to the absolute path in the shep home folder (e.g., \`${shepEvidenceDir}/homepage-screenshot.png\`)`;
-    const commitSection = options.commitEvidence
+    const commitSection = effectiveCommitEvidence
         ? `\n${buildCommitPushBlock({
             push: state.push,
             files: [`${specEvidenceRelPath}/`],
@@ -79,7 +86,7 @@ Do NOT commit or push any evidence files. Evidence is stored locally only.
 However, if you make code fixes during evidence collection, those fixes MUST be committed (see "Handling Code Fixes" above).`;
     return `You are a senior software engineer performing the EVIDENCE COLLECTION phase of feature development.
 
-Your goal is to capture visual and textual evidence proving that the implemented tasks work as expected.${options.commitEvidence ? ' This evidence will be embedded in the pull request body for reviewer verification.' : ' This evidence will be available for review locally.'}
+Your goal is to capture visual and textual evidence proving that the implemented tasks work as expected.${effectiveCommitEvidence ? ' This evidence will be embedded in the pull request body for reviewer verification.' : ' This evidence will be available for review locally.'}
 
 ${specSection}
 ${tasksSection}
@@ -175,14 +182,14 @@ After capturing all evidence, output a JSON array of evidence records in a fence
     "type": "Screenshot",
     "capturedAt": "2026-01-01T12:00:00Z",
     "description": "Homepage showing new feature banner",
-    "relativePath": "${options.commitEvidence ? `${specEvidenceRelPath}/homepage-banner.png` : `${shepEvidenceDir}/homepage-banner.png`}",
+    "relativePath": "${effectiveCommitEvidence ? `${specEvidenceRelPath}/homepage-banner.png` : `${shepEvidenceDir}/homepage-banner.png`}",
     "taskRef": "task-1"
   },
   {
     "type": "TestOutput",
     "capturedAt": "2026-01-01T12:01:00Z",
     "description": "Unit test results — all 42 tests passing",
-    "relativePath": "${options.commitEvidence ? `${specEvidenceRelPath}/unit-test-results.txt` : `${shepEvidenceDir}/unit-test-results.txt`}",
+    "relativePath": "${effectiveCommitEvidence ? `${specEvidenceRelPath}/unit-test-results.txt` : `${shepEvidenceDir}/unit-test-results.txt`}",
     "taskRef": "task-2"
   }
 ]
@@ -192,7 +199,7 @@ Each evidence record must have:
 - **type**: One of Screenshot, Video, TestOutput, TerminalRecording
 - **capturedAt**: ISO 8601 timestamp of when the evidence was captured
 - **description**: Human-readable description of what this evidence proves
-- **relativePath**: ${options.commitEvidence ? `Path relative to the repo root (must start with \`${specEvidenceRelPath}/\`)` : `Absolute path in the shep home evidence folder (must start with \`${shepEvidenceDir}/\`)`}
+- **relativePath**: ${effectiveCommitEvidence ? `Path relative to the repo root (must start with \`${specEvidenceRelPath}/\`)` : `Absolute path in the shep home evidence folder (must start with \`${shepEvidenceDir}/\`)`}
 - **taskRef**: (optional) Reference to the task ID this evidence proves
 
 If no evidence can be captured (e.g., no UI to screenshot, no tests to run), output an empty JSON array:

package/dist/packages/core/src/infrastructure/services/external/github-repository.service.d.ts

@@ -5,7 +5,7 @@
  * checks, repository listing, cloning (with progress streaming), and URL parsing.
  */
 import type { ExecFunction } from '../git/worktree.service.js';
-import type { IGitHubRepositoryService, GitHubRepo, ListUserRepositoriesOptions, CloneOptions, ParsedGitHubUrl, ForkResult } from '../../../application/ports/output/services/github-repository-service.interface.js';
+import type { IGitHubRepositoryService, GitHubRepo, ListUserRepositoriesOptions, CloneOptions, ParsedGitHubUrl } from '../../../application/ports/output/services/github-repository-service.interface.js';
 export declare class GitHubRepositoryService implements IGitHubRepositoryService {
     private readonly execFile;
     constructor(execFile: ExecFunction);
@@ -13,8 +13,6 @@ export declare class GitHubRepositoryService implements IGitHubRepositoryService
     listUserRepositories(options?: ListUserRepositoriesOptions): Promise<GitHubRepo[]>;
     cloneRepository(nameWithOwner: string, destination: string, options?: CloneOptions): Promise<void>;
     parseGitHubUrl(url: string): ParsedGitHubUrl;
-    checkPushAccess(repoNameWithOwner: string): Promise<boolean>;
-    forkRepository(repoNameWithOwner: string): Promise<ForkResult>;
     private cleanupPartialClone;
 }
 //# sourceMappingURL=github-repository.service.d.ts.map

package/dist/packages/core/src/infrastructure/services/external/github-repository.service.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"github-repository.service.d.ts","sourceRoot":"","sources":["../../../../../../../packages/core/src/infrastructure/services/external/github-repository.service.ts"],"names":[],"mappings":"AAAA;;;;;GAKG;AAMH,OAAO,KAAK,EAAE,YAAY,EAAE,MAAM,4BAA4B,CAAC;AAC/D,OAAO,KAAK,EACV,wBAAwB,EACxB,UAAU,EACV,2BAA2B,EAC3B,YAAY,EACZ,eAAe,EACf,UAAU,EACX,MAAM,mFAAmF,CAAC;AAyB3F,qBACa,uBAAwB,YAAW,wBAAwB;IAClC,OAAO,CAAC,QAAQ,CAAC,QAAQ;gBAAR,QAAQ,EAAE,YAAY;IAErE,SAAS,IAAI,OAAO,CAAC,IAAI,CAAC;IAyB1B,oBAAoB,CAAC,OAAO,CAAC,EAAE,2BAA2B,GAAG,OAAO,CAAC,UAAU,EAAE,CAAC;IAsClF,eAAe,CACnB,aAAa,EAAE,MAAM,EACrB,WAAW,EAAE,MAAM,EACnB,OAAO,CAAC,EAAE,YAAY,GACrB,OAAO,CAAC,IAAI,CAAC;IAgDhB,cAAc,CAAC,GAAG,EAAE,MAAM,GAAG,eAAe;IA2CtC,eAAe,CAAC,iBAAiB,EAAE,MAAM,GAAG,OAAO,CAAC,OAAO,CAAC;IAe5D,cAAc,CAAC,iBAAiB,EAAE,MAAM,GAAG,OAAO,CAAC,UAAU,CAAC;YAwBtD,mBAAmB;CAOlC"}
+{"version":3,"file":"github-repository.service.d.ts","sourceRoot":"","sources":["../../../../../../../packages/core/src/infrastructure/services/external/github-repository.service.ts"],"names":[],"mappings":"AAAA;;;;;GAKG;AAMH,OAAO,KAAK,EAAE,YAAY,EAAE,MAAM,4BAA4B,CAAC;AAC/D,OAAO,KAAK,EACV,wBAAwB,EACxB,UAAU,EACV,2BAA2B,EAC3B,YAAY,EACZ,eAAe,EAChB,MAAM,mFAAmF,CAAC;AAwB3F,qBACa,uBAAwB,YAAW,wBAAwB;IAClC,OAAO,CAAC,QAAQ,CAAC,QAAQ;gBAAR,QAAQ,EAAE,YAAY;IAErE,SAAS,IAAI,OAAO,CAAC,IAAI,CAAC;IAyB1B,oBAAoB,CAAC,OAAO,CAAC,EAAE,2BAA2B,GAAG,OAAO,CAAC,UAAU,EAAE,CAAC;IAsClF,eAAe,CACnB,aAAa,EAAE,MAAM,EACrB,WAAW,EAAE,MAAM,EACnB,OAAO,CAAC,EAAE,YAAY,GACrB,OAAO,CAAC,IAAI,CAAC;IAgDhB,cAAc,CAAC,GAAG,EAAE,MAAM,GAAG,eAAe;YA2C9B,mBAAmB;CAOlC"}

package/dist/packages/core/src/infrastructure/services/external/github-repository.service.js

@@ -20,7 +20,7 @@ import { injectable, inject } from 'tsyringe';
 import { resolve, normalize } from 'node:path';
 import { rm } from 'node:fs/promises';
 import { spawn } from 'node:child_process';
-import { GitHubAuthError, GitHubCloneError, GitHubForkError, GitHubRepoListError, GitHubUrlParseError, } from '../../../application/ports/output/services/github-repository-service.interface.js';
+import { GitHubAuthError, GitHubCloneError, GitHubRepoListError, GitHubUrlParseError, } from '../../../application/ports/output/services/github-repository-service.interface.js';
 // ---------------------------------------------------------------------------
 // URL regex patterns
 // ---------------------------------------------------------------------------
@@ -154,42 +154,6 @@ let GitHubRepositoryService = class GitHubRepositoryService {
             'Supported formats: https://github.com/owner/repo, ' +
             'git@github.com:owner/repo.git, or owner/repo shorthand.');
     }
-    async checkPushAccess(repoNameWithOwner) {
-        try {
-            const { stdout } = await this.execFile('gh', [
-                'api',
-                `repos/${repoNameWithOwner}`,
-                '--jq',
-                '.permissions.push',
-            ]);
-            return stdout.trim() === 'true';
-        }
-        catch {
-            // Safe fallback: assume no push access on any error (NFR-9)
-            return false;
-        }
-    }
-    async forkRepository(repoNameWithOwner) {
-        try {
-            const { stdout } = await this.execFile('gh', [
-                'repo',
-                'fork',
-                repoNameWithOwner,
-                '--clone=false',
-                '--json',
-                'nameWithOwner,url',
-            ]);
-            const parsed = JSON.parse(stdout);
-            return {
-                nameWithOwner: parsed.nameWithOwner,
-                cloneUrl: parsed.url.endsWith('.git') ? parsed.url : `${parsed.url}.git`,
-            };
-        }
-        catch (error) {
-            const cause = error instanceof Error ? error : undefined;
-            throw new GitHubForkError(`Failed to fork ${repoNameWithOwner}: ${cause?.message ?? String(error)}`, cause);
-        }
-    }
     async cleanupPartialClone(destination) {
         try {
             await rm(destination, { recursive: true, force: true });

package/dist/packages/core/src/infrastructure/services/filesystem/repo-hash.d.ts

@@ -0,0 +1,17 @@
+/**
+ * Repository Hash Utility
+ *
+ * Computes a deterministic hash prefix from a repository path.
+ * Used to create unique per-repo directories under ~/.shep/repos/<hash>/.
+ *
+ * Normalizes path separators before hashing so the same repository
+ * produces the same hash on both Unix and Windows.
+ */
+/**
+ * Compute a 16-character hex hash prefix for a repository path.
+ *
+ * @param repoPath - Absolute path to the repository root
+ * @returns First 16 hex characters of the SHA-256 hash
+ */
+export declare function computeRepoHash(repoPath: string): string;
+//# sourceMappingURL=repo-hash.d.ts.map

package/dist/packages/core/src/infrastructure/services/filesystem/repo-hash.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"repo-hash.d.ts","sourceRoot":"","sources":["../../../../../../../packages/core/src/infrastructure/services/filesystem/repo-hash.ts"],"names":[],"mappings":"AAAA;;;;;;;;GAQG;AAIH;;;;;GAKG;AACH,wBAAgB,eAAe,CAAC,QAAQ,EAAE,MAAM,GAAG,MAAM,CAIxD"}

package/dist/packages/core/src/infrastructure/services/filesystem/repo-hash.js

@@ -0,0 +1,21 @@
+/**
+ * Repository Hash Utility
+ *
+ * Computes a deterministic hash prefix from a repository path.
+ * Used to create unique per-repo directories under ~/.shep/repos/<hash>/.
+ *
+ * Normalizes path separators before hashing so the same repository
+ * produces the same hash on both Unix and Windows.
+ */
+import { createHash } from 'node:crypto';
+/**
+ * Compute a 16-character hex hash prefix for a repository path.
+ *
+ * @param repoPath - Absolute path to the repository root
+ * @returns First 16 hex characters of the SHA-256 hash
+ */
+export function computeRepoHash(repoPath) {
+    // Normalize separators before hashing so C:\foo and C:/foo produce the same hash
+    const normalizedRepoPath = repoPath.replace(/\\/g, '/');
+    return createHash('sha256').update(normalizedRepoPath).digest('hex').slice(0, 16);
+}

package/dist/packages/core/src/infrastructure/services/git/git-pr.service.d.ts

@@ -5,7 +5,7 @@
  * Uses constructor dependency injection for the command executor.
  */
 import type { IGitPrService } from '../../../application/ports/output/services/git-pr-service.interface.js';
-import type { CiStatusResult, DiffSummary, FileDiff, MergeStrategy, PrCreateArgs, PrCreateResult, PrStatusInfo } from '../../../application/ports/output/services/git-pr-service.interface.js';
+import type { CiStatusResult, DiffSummary, FileDiff, MergeStrategy, PrCreateResult, PrStatusInfo } from '../../../application/ports/output/services/git-pr-service.interface.js';
 import type { ExecFunction } from './worktree.service.js';
 export declare class GitPrService implements IGitPrService {
     private readonly execFile;
@@ -18,7 +18,6 @@ export declare class GitPrService implements IGitPrService {
     commitAll(cwd: string, message: string): Promise<string>;
     push(cwd: string, branch: string, setUpstream?: boolean): Promise<void>;
     createPr(cwd: string, prYamlPath: string): Promise<PrCreateResult>;
-    createPrFromArgs(cwd: string, args: PrCreateArgs): Promise<PrCreateResult>;
     mergePr(cwd: string, prNumber: number, strategy?: MergeStrategy): Promise<void>;
     private getPrHeadBranch;
     localMergeSquash(cwd: string, featureBranch: string, baseBranch: string, commitMessage: string, hasRemote?: boolean): Promise<void>;

package/dist/packages/core/src/infrastructure/services/git/git-pr.service.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"git-pr.service.d.ts","sourceRoot":"","sources":["../../../../../../../packages/core/src/infrastructure/services/git/git-pr.service.ts"],"names":[],"mappings":"AAAA;;;;;GAKG;AAGH,OAAO,KAAK,EAAE,aAAa,EAAE,MAAM,wEAAwE,CAAC;AAC5G,OAAO,KAAK,EACV,cAAc,EAGd,WAAW,EACX,QAAQ,EACR,aAAa,EACb,YAAY,EACZ,cAAc,EACd,YAAY,EACb,MAAM,wEAAwE,CAAC;AAUhF,OAAO,KAAK,EAAE,YAAY,EAAE,MAAM,uBAAuB,CAAC;AAE1D,qBACa,YAAa,YAAW,aAAa;IACZ,OAAO,CAAC,QAAQ,CAAC,QAAQ;gBAAR,QAAQ,EAAE,YAAY;IAErE,SAAS,CAAC,GAAG,EAAE,MAAM,GAAG,OAAO,CAAC,OAAO,CAAC;IAKxC,YAAY,CAAC,GAAG,EAAE,MAAM,GAAG,OAAO,CAAC,MAAM,GAAG,IAAI,CAAC;IAgBjD,gBAAgB,CAAC,GAAG,EAAE,MAAM,GAAG,OAAO,CAAC,MAAM,CAAC;IAgF9C,QAAQ,CAAC,GAAG,EAAE,MAAM,EAAE,GAAG,EAAE,MAAM,GAAG,OAAO,CAAC,MAAM,CAAC;IAKnD,qBAAqB,CAAC,GAAG,EAAE,MAAM,GAAG,OAAO,CAAC,OAAO,CAAC;IAKpD,SAAS,CAAC,GAAG,EAAE,MAAM,EAAE,OAAO,EAAE,MAAM,GAAG,OAAO,CAAC,MAAM,CAAC;IAWxD,IAAI,CAAC,GAAG,EAAE,MAAM,EAAE,MAAM,EAAE,MAAM,EAAE,WAAW,CAAC,EAAE,OAAO,GAAG,OAAO,CAAC,IAAI,CAAC;IAYvE,QAAQ,CAAC,GAAG,EAAE,MAAM,EAAE,UAAU,EAAE,MAAM,GAAG,OAAO,CAAC,cAAc,CAAC;IAuClE,gBAAgB,CAAC,GAAG,EAAE,MAAM,EAAE,IAAI,EAAE,YAAY,GAAG,OAAO,CAAC,cAAc,CAAC;IAuB1E,OAAO,CAAC,GAAG,EAAE,MAAM,EAAE,QAAQ,EAAE,MAAM,EAAE,QAAQ,GAAE,aAAwB,GAAG,OAAO,CAAC,IAAI,CAAC;YA6BjF,eAAe;IASvB,gBAAgB,CACpB,GAAG,EAAE,MAAM,EACX,aAAa,EAAE,MAAM,EACrB,UAAU,EAAE,MAAM,EAClB,aAAa,EAAE,MAAM,EACrB,SAAS,UAAQ,GAChB,OAAO,CAAC,IAAI,CAAC;IA4EV,WAAW,CAAC,GAAG,EAAE,MAAM,EAAE,YAAY,EAAE,MAAM,EAAE,YAAY,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC;IAUnF,WAAW,CAAC,GAAG,EAAE,MAAM,EAAE,MAAM,EAAE,MAAM,GAAG,OAAO,CAAC,cAAc,CAAC;IAsBjE,OAAO,CACX,GAAG,EAAE,MAAM,EACX,MAAM,EAAE,MAAM,EACd,SAAS,CAAC,EAAE,MAAM,EAClB,eAAe,CAAC,EAAE,MAAM,GACvB,OAAO,CAAC,cAAc,CAAC;IAiEpB,YAAY,CAAC,GAAG,EAAE,MAAM,EAAE,MAAM,EAAE,MAAM,EAAE,YAAY,CAAC,EAAE,OAAO,GAAG,OAAO,CAAC,IAAI,CAAC;IAWhF,gBAAgB,CAAC,GAAG,EAAE,MAAM,EAAE,UAAU,EAAE,MAAM,GAAG,OAAO,CAAC,WAAW,CAAC;IAevE,YAAY,CAAC,GAAG,EAAE,MAAM,EAAE,UAAU,EAAE,MAAM,GAAG,OAAO,CAAC,QAAQ,EAAE,CAAC;IAaxE,OAAO,CAAC,gBAAgB;IAexB,OAAO,CAAC,aAAa;IAmFf,cAAc,CAAC,GAAG,EAAE,MAAM,GAAG,OAAO,CAAC,YAAY,EAAE,CAAC;IAoCpD,kBAAkB,CAAC,GAAG,EAAE,MAAM,EAAE,QAAQ,EAAE,MAAM,GAAG,OAAO,CAAC,OAAO,GAAG,SAAS,CAAC;IAc/E,WAAW,CACf,GAAG,EAAE,MAAM,EACX,aAAa,EAAE,MAAM,EACrB,UAAU,EAAE,MAAM,EAClB,eAAe,CAAC,EAAE,MAAM,GACvB,OAAO,CAAC,OAAO,CAAC;IA6CnB;;;OAGG;YACW,UAAU;IAmBlB,cAAc,CAClB,GAAG,EAAE,MAAM,EACX,KAAK,EAAE,MAAM,EACb,OAAO,EAAE,MAAM,EACf,WAAW,SAAS,GACnB,OAAO,CAAC,MAAM,CAAC;IAWlB,OAAO,CAAC,WAAW;IAQnB,OAAO,CAAC,cAAc;IAMtB,OAAO,CAAC,gBAAgB;IAKxB,OAAO,CAAC,aAAa;IAcrB,OAAO,CAAC,YAAY;IAepB,OAAO,CAAC,oBAAoB;IAK5B,OAAO,CAAC,aAAa;CAiBtB"}
+{"version":3,"file":"git-pr.service.d.ts","sourceRoot":"","sources":["../../../../../../../packages/core/src/infrastructure/services/git/git-pr.service.ts"],"names":[],"mappings":"AAAA;;;;;GAKG;AAGH,OAAO,KAAK,EAAE,aAAa,EAAE,MAAM,wEAAwE,CAAC;AAC5G,OAAO,KAAK,EACV,cAAc,EAGd,WAAW,EACX,QAAQ,EACR,aAAa,EACb,cAAc,EACd,YAAY,EACb,MAAM,wEAAwE,CAAC;AAUhF,OAAO,KAAK,EAAE,YAAY,EAAE,MAAM,uBAAuB,CAAC;AAE1D,qBACa,YAAa,YAAW,aAAa;IACZ,OAAO,CAAC,QAAQ,CAAC,QAAQ;gBAAR,QAAQ,EAAE,YAAY;IAErE,SAAS,CAAC,GAAG,EAAE,MAAM,GAAG,OAAO,CAAC,OAAO,CAAC;IAKxC,YAAY,CAAC,GAAG,EAAE,MAAM,GAAG,OAAO,CAAC,MAAM,GAAG,IAAI,CAAC;IAgBjD,gBAAgB,CAAC,GAAG,EAAE,MAAM,GAAG,OAAO,CAAC,MAAM,CAAC;IAgF9C,QAAQ,CAAC,GAAG,EAAE,MAAM,EAAE,GAAG,EAAE,MAAM,GAAG,OAAO,CAAC,MAAM,CAAC;IAKnD,qBAAqB,CAAC,GAAG,EAAE,MAAM,GAAG,OAAO,CAAC,OAAO,CAAC;IAKpD,SAAS,CAAC,GAAG,EAAE,MAAM,EAAE,OAAO,EAAE,MAAM,GAAG,OAAO,CAAC,MAAM,CAAC;IAWxD,IAAI,CAAC,GAAG,EAAE,MAAM,EAAE,MAAM,EAAE,MAAM,EAAE,WAAW,CAAC,EAAE,OAAO,GAAG,OAAO,CAAC,IAAI,CAAC;IAYvE,QAAQ,CAAC,GAAG,EAAE,MAAM,EAAE,UAAU,EAAE,MAAM,GAAG,OAAO,CAAC,cAAc,CAAC;IAuClE,OAAO,CAAC,GAAG,EAAE,MAAM,EAAE,QAAQ,EAAE,MAAM,EAAE,QAAQ,GAAE,aAAwB,GAAG,OAAO,CAAC,IAAI,CAAC;YA6BjF,eAAe;IASvB,gBAAgB,CACpB,GAAG,EAAE,MAAM,EACX,aAAa,EAAE,MAAM,EACrB,UAAU,EAAE,MAAM,EAClB,aAAa,EAAE,MAAM,EACrB,SAAS,UAAQ,GAChB,OAAO,CAAC,IAAI,CAAC;IA4EV,WAAW,CAAC,GAAG,EAAE,MAAM,EAAE,YAAY,EAAE,MAAM,EAAE,YAAY,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC;IAUnF,WAAW,CAAC,GAAG,EAAE,MAAM,EAAE,MAAM,EAAE,MAAM,GAAG,OAAO,CAAC,cAAc,CAAC;IAsBjE,OAAO,CACX,GAAG,EAAE,MAAM,EACX,MAAM,EAAE,MAAM,EACd,SAAS,CAAC,EAAE,MAAM,EAClB,eAAe,CAAC,EAAE,MAAM,GACvB,OAAO,CAAC,cAAc,CAAC;IAiEpB,YAAY,CAAC,GAAG,EAAE,MAAM,EAAE,MAAM,EAAE,MAAM,EAAE,YAAY,CAAC,EAAE,OAAO,GAAG,OAAO,CAAC,IAAI,CAAC;IAWhF,gBAAgB,CAAC,GAAG,EAAE,MAAM,EAAE,UAAU,EAAE,MAAM,GAAG,OAAO,CAAC,WAAW,CAAC;IAevE,YAAY,CAAC,GAAG,EAAE,MAAM,EAAE,UAAU,EAAE,MAAM,GAAG,OAAO,CAAC,QAAQ,EAAE,CAAC;IAaxE,OAAO,CAAC,gBAAgB;IAexB,OAAO,CAAC,aAAa;IAmFf,cAAc,CAAC,GAAG,EAAE,MAAM,GAAG,OAAO,CAAC,YAAY,EAAE,CAAC;IAoCpD,kBAAkB,CAAC,GAAG,EAAE,MAAM,EAAE,QAAQ,EAAE,MAAM,GAAG,OAAO,CAAC,OAAO,GAAG,SAAS,CAAC;IAc/E,WAAW,CACf,GAAG,EAAE,MAAM,EACX,aAAa,EAAE,MAAM,EACrB,UAAU,EAAE,MAAM,EAClB,eAAe,CAAC,EAAE,MAAM,GACvB,OAAO,CAAC,OAAO,CAAC;IA6CnB;;;OAGG;YACW,UAAU;IAmBlB,cAAc,CAClB,GAAG,EAAE,MAAM,EACX,KAAK,EAAE,MAAM,EACb,OAAO,EAAE,MAAM,EACf,WAAW,SAAS,GACnB,OAAO,CAAC,MAAM,CAAC;IAWlB,OAAO,CAAC,WAAW;IAQnB,OAAO,CAAC,cAAc;IAMtB,OAAO,CAAC,gBAAgB;IAKxB,OAAO,CAAC,aAAa;IAcrB,OAAO,CAAC,YAAY;IAepB,OAAO,CAAC,oBAAoB;IAK5B,OAAO,CAAC,aAAa;CAiBtB"}

package/dist/packages/core/src/infrastructure/services/git/git-pr.service.js

@@ -184,27 +184,6 @@ let GitPrService = class GitPrService {
             throw this.parseGhError(error);
         }
     }
-    async createPrFromArgs(cwd, args) {
-        try {
-            const ghArgs = ['pr', 'create', '--title', args.title, '--body', args.body];
-            if (args.base) {
-                ghArgs.push('--base', args.base);
-            }
-            if (args.labels?.length) {
-                ghArgs.push('--label', args.labels.join(','));
-            }
-            if (args.repo) {
-                ghArgs.push('--repo', args.repo);
-            }
-            const { stdout } = await this.execFile('gh', ghArgs, { cwd });
-            const url = stdout.trim();
-            const number = this.parsePrNumberFromUrl(url);
-            return { url, number };
-        }
-        catch (error) {
-            throw this.parseGhError(error);
-        }
-    }
     async mergePr(cwd, prNumber, strategy = 'squash') {
         try {
             await this.execFile('gh', ['pr', 'merge', String(prNumber), `--${strategy}`], {

package/dist/packages/core/src/infrastructure/services/git/worktree.service.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"worktree.service.d.ts","sourceRoot":"","sources":["../../../../../../../packages/core/src/infrastructure/services/git/worktree.service.ts"],"names":[],"mappings":"AAAA;;;;;;GAMG;AASH,OAAO,KAAK,EACV,gBAAgB,EAChB,YAAY,EACb,MAAM,0EAA0E,CAAC;AAQlF;;;GAGG;AACH,MAAM,MAAM,YAAY,GAAG,CACzB,IAAI,EAAE,MAAM,EACZ,IAAI,EAAE,MAAM,EAAE,EACd,OAAO,CAAC,EAAE,MAAM,KACb,OAAO,CAAC;IAAE,MAAM,EAAE,MAAM,CAAC;IAAC,MAAM,EAAE,MAAM,CAAA;CAAE,CAAC,CAAC;AAEjD,qBACa,eAAgB,YAAW,gBAAgB;IAClB,OAAO,CAAC,QAAQ,CAAC,QAAQ;gBAAR,QAAQ,EAAE,YAAY;IAErE,MAAM,CACV,QAAQ,EAAE,MAAM,EAChB,MAAM,EAAE,MAAM,EACd,YAAY,EAAE,MAAM,EACpB,UAAU,CAAC,EAAE,MAAM,GAClB,OAAO,CAAC,YAAY,CAAC;IAuBlB,WAAW,CAAC,QAAQ,EAAE,MAAM,EAAE,MAAM,EAAE,MAAM,EAAE,YAAY,EAAE,MAAM,GAAG,OAAO,CAAC,YAAY,CAAC;IAoB1F,MAAM,CAAC,QAAQ,EAAE,MAAM,EAAE,YAAY,EAAE,MAAM,EAAE,KAAK,CAAC,EAAE,OAAO,GAAG,OAAO,CAAC,IAAI,CAAC;IAW9E,KAAK,CAAC,QAAQ,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC;IAQtC,IAAI,CAAC,QAAQ,EAAE,MAAM,GAAG,OAAO,CAAC,YAAY,EAAE,CAAC;IAO/C,MAAM,CAAC,QAAQ,EAAE,MAAM,EAAE,MAAM,EAAE,MAAM,GAAG,OAAO,CAAC,OAAO,CAAC;IAK1D,YAAY,CAAC,QAAQ,EAAE,MAAM,EAAE,MAAM,EAAE,MAAM,GAAG,OAAO,CAAC,OAAO,CAAC;IAWhE,kBAAkB,CAAC,QAAQ,EAAE,MAAM,EAAE,MAAM,EAAE,MAAM,GAAG,OAAO,CAAC,OAAO,CAAC;IAWtE,YAAY,CAAC,QAAQ,EAAE,MAAM,GAAG,OAAO,CAAC,MAAM,EAAE,CAAC;IAuBjD,mBAAmB,CAAC,QAAQ,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC;IAwC1D,eAAe,CAAC,QAAQ,EAAE,MAAM,EAAE,MAAM,EAAE,MAAM,GAAG,MAAM;IAMzD,OAAO,CAAC,mBAAmB;IA2B3B,OAAO,CAAC,aAAa;IAgCrB,OAAO,CAAC,kBAAkB;IAI1B,OAAO,CAAC,qBAAqB;CAsB9B"}

package/dist/packages/core/src/infrastructure/services/git/worktree.service.js

@@ -17,10 +17,10 @@ var __metadata = (this && this.__metadata) || function (k, v) {
 var __param = (this && this.__param) || function (paramIndex, decorator) {
     return function (target, key) { decorator(target, key, paramIndex); }
 };
-import { createHash } from 'node:crypto';
 import { mkdirSync, realpathSync } from 'node:fs';
 import path from 'node:path';
 import { injectable, inject } from 'tsyringe';
+import { computeRepoHash } from '../filesystem/repo-hash.js';
 const GIT_AUTO_INIT_USER = 'shep-ai[bot]';
 const GIT_AUTO_INIT_EMAIL = 'bot@shep.bot';
 import { WorktreeError, WorktreeErrorCode, } from '../../../application/ports/output/services/worktree-service.interface.js';
@@ -178,9 +178,7 @@ let WorktreeService = class WorktreeService {
         }
     }
     getWorktreePath(repoPath, branch) {
-        // Normalize separators before hashing so C:\foo and C:/foo produce the same hash
-        const normalizedRepoPath = repoPath.replace(/\\/g, '/');
-        const repoHash = createHash('sha256').update(normalizedRepoPath).digest('hex').slice(0, 16);
+        const repoHash = computeRepoHash(repoPath);
         const slug = branch.replace(/\//g, '-');
         return path.join(getShepHomeDir(), 'repos', repoHash, 'wt', slug).replace(/\\/g, '/');
     }

package/dist/packages/core/src/infrastructure/services/ide-launchers/compute-worktree-path.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"compute-worktree-path.d.ts","sourceRoot":"","sources":["../../../../../../../packages/core/src/infrastructure/services/ide-launchers/compute-worktree-path.ts"],"names":[],"mappings":"AAAA;;;;;;;GAOG;AAMH;;;;;;GAMG;AACH,wBAAgB,mBAAmB,CAAC,QAAQ,EAAE,MAAM,EAAE,MAAM,EAAE,MAAM,GAAG,MAAM,CAM5E"}
+{"version":3,"file":"compute-worktree-path.d.ts","sourceRoot":"","sources":["../../../../../../../packages/core/src/infrastructure/services/ide-launchers/compute-worktree-path.ts"],"names":[],"mappings":"AAAA;;;;;;;GAOG;AAMH;;;;;;GAMG;AACH,wBAAgB,mBAAmB,CAAC,QAAQ,EAAE,MAAM,EAAE,MAAM,EAAE,MAAM,GAAG,MAAM,CAI5E"}

package/dist/packages/core/src/infrastructure/services/ide-launchers/compute-worktree-path.js

@@ -6,9 +6,9 @@
  *
  * Path format: ~/.shep/repos/<sha256-hash-prefix>/wt/<branch-slug>
  */
-import { createHash } from 'node:crypto';
 import { join } from 'node:path';
 import { getShepHomeDir } from '../filesystem/shep-directory.service.js';
+import { computeRepoHash } from '../filesystem/repo-hash.js';
 /**
  * Compute the worktree path for a given repository and branch.
  *
@@ -17,9 +17,7 @@ import { getShepHomeDir } from '../filesystem/shep-directory.service.js';
  * @returns Absolute path to the worktree directory under ~/.shep/repos/
  */
 export function computeWorktreePath(repoPath, branch) {
-    // Normalize separators before hashing so C:\foo and C:/foo produce the same hash
-    const normalizedRepoPath = repoPath.replace(/\\/g, '/');
-    const repoHash = createHash('sha256').update(normalizedRepoPath).digest('hex').slice(0, 16);
+    const repoHash = computeRepoHash(repoPath);
     const slug = branch.replace(/\//g, '-');
     return join(getShepHomeDir(), 'repos', repoHash, 'wt', slug).replace(/\\/g, '/');
 }

package/dist/packages/core/src/infrastructure/services/spec/spec-initializer.service.d.ts

@@ -5,13 +5,27 @@
  * Templates match exactly what /shep-kit:new-feature produces,
  * enabling dogfooding — the CLI and the skill use the same spec format.
  */
-import type { ISpecInitializerService, SpecInitializerResult } from '../../../application/ports/output/services/spec-initializer.interface.js';
+import type { ISpecInitializerService, SpecInitializerOptions, SpecInitializerResult } from '../../../application/ports/output/services/spec-initializer.interface.js';
 export declare class SpecInitializerService implements ISpecInitializerService {
-    initialize(basePath: string, slug: string, featureNumber: number, description: string, mode?: 'fast'): Promise<SpecInitializerResult>;
+    initialize(basePath: string, slug: string, featureNumber: number, description: string, mode?: 'fast', options?: SpecInitializerOptions): Promise<SpecInitializerResult>;
     /**
-     * Scan specs/ for existing NNN-* directories and return the next available number.
+     * Compute the spec directory path based on storage mode.
+     */
+    private computeSpecDir;
+    /**
+     * Scan spec directories for existing NNN-* entries and return the next available number.
+     * Scans up to 3 locations to prevent collisions during the transition period:
+     * 1. specs/ (legacy location)
+     * 2. .shep/specs/ (new in-repo location)
+     * 3. ~/.shep/repos/<hash>/specs/ (shep-managed location, when repositoryPath provided)
+     *
      * Uses the DB-derived hint as a minimum, but always respects filesystem state.
      */
     private resolveNextNumber;
+    /**
+     * Scan a single directory for NNN-* prefixed entries and return the max number found.
+     * Returns 0 if the directory does not exist or is empty.
+     */
+    private scanDirForMaxNumber;
 }
 //# sourceMappingURL=spec-initializer.service.d.ts.map

package/dist/packages/core/src/infrastructure/services/spec/spec-initializer.service.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"spec-initializer.service.d.ts","sourceRoot":"","sources":["../../../../../../../packages/core/src/infrastructure/services/spec/spec-initializer.service.ts"],"names":[],"mappings":"AAAA;;;;;;GAMG;AAIH,OAAO,KAAK,EACV,uBAAuB,EACvB,sBAAsB,EACtB,qBAAqB,EACtB,MAAM,mEAAmE,CAAC;AAgQ3E,qBAAa,sBAAuB,YAAW,uBAAuB;IAC9D,UAAU,CACd,QAAQ,EAAE,MAAM,EAChB,IAAI,EAAE,MAAM,EACZ,aAAa,EAAE,MAAM,EACrB,WAAW,EAAE,MAAM,EACnB,IAAI,CAAC,EAAE,MAAM,EACb,OAAO,CAAC,EAAE,sBAAsB,GAC/B,OAAO,CAAC,qBAAqB,CAAC;IAgDjC;;OAEG;IACH,OAAO,CAAC,cAAc;IAgBtB;;;;;;;;OAQG;YACW,iBAAiB;IAqB/B;;;OAGG;YACW,mBAAmB;CAiBlC"}