@pennyfarthing/core 11.4.0 → 11.5.0-alpha.0

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@pennyfarthing/core",
-  "version": "11.4.0",
+  "version": "11.5.0-alpha.0",
   "description": "Claude Code agent framework with TDD workflow and persona system",
   "type": "module",
   "main": "./packages/core/dist/index.js",

package/packages/core/dist/cli/commands/cyclist.js

@@ -128,7 +128,7 @@ export async function cyclistCommand(options, deps) {
     const port = options.port ?? 3000;
     // Find cyclist installation
     const cyclistPath = options.cyclistPath ?? findCyclist();
-    const serverPath = join(cyclistPath, 'dist', 'server.js');
+    const serverPath = join(cyclistPath, 'dist', 'bikerack.js');
     // Load theme configuration
     const themeConfig = loadThemeConfig(projectDir);
     const themePath = resolveThemePath(themeConfig.theme, projectDir);

package/packages/core/dist/cli/commands/cyclist.js.map

@@ -1 +1 @@
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+{"version":3,"file":"cyclist.js","sourceRoot":"","sources":["../../../src/cli/commands/cyclist.ts"],"names":[],"mappings":"AAAA;;;;GAIG;AAEH,OAAO,EAAE,UAAU,EAAE,YAAY,EAAE,MAAM,IAAI,CAAC;AAC9C,OAAO,EAAE,IAAI,EAAE,OAAO,EAAE,MAAM,MAAM,CAAC;AACrC,OAAO,EAAE,KAAK,IAAI,SAAS,EAAqB,MAAM,eAAe,CAAC;AACtE,OAAO,EAAE,KAAK,IAAI,SAAS,EAAE,MAAM,MAAM,CAAC;AAC1C,OAAO,EAAE,aAAa,EAAE,MAAM,KAAK,CAAC;AAEpC,MAAM,UAAU,GAAG,aAAa,CAAC,MAAM,CAAC,IAAI,CAAC,GAAG,CAAC,CAAC;AAClD,MAAM,SAAS,GAAG,OAAO,CAAC,UAAU,CAAC,CAAC;AAsBtC;;;;;;;GAOG;AACH,MAAM,UAAU,WAAW,CAAC,OAA4B;IACtD,mCAAmC;IACnC,IAAI,OAAO,CAAC,GAAG,CAAC,YAAY,EAAE,CAAC;QAC7B,OAAO,OAAO,CAAC,GAAG,CAAC,YAAY,CAAC;IAClC,CAAC;IAED,2CAA2C;IAC3C,MAAM,GAAG,GAAG,OAAO,CAAC,GAAG,EAAE,CAAC;IAC1B,MAAM,SAAS,GAAG,OAAO,CAAC,GAAG,CAAC,CAAC;IAC/B,MAAM,cAAc,GAAG,IAAI,CAAC,SAAS,EAAE,SAAS,CAAC,CAAC;IAClD,IAAI,UAAU,CAAC,IAAI,CAAC,cAAc,EAAE,cAAc,CAAC,CAAC,EAAE,CAAC;QACrD,OAAO,cAAc,CAAC;IACxB,CAAC;IAED,4DAA4D;IAC5D,6DAA6D;IAC7D,MAAM,WAAW,GAAG,OAAO,EAAE,mBAAmB,IAAI;QAClD,IAAI,CAAC,SAAS,EAAE,qBAAqB,CAAC,EAAO,sDAAsD;QACnG,IAAI,CAAC,SAAS,EAAE,iCAAiC,CAAC,EAAG,gCAAgC;QACrF,IAAI,CAAC,SAAS,EAAE,kBAAkB,CAAC,EAAU,WAAW;KACzD,CAAC;IAEF,KAAK,MAAM,WAAW,IAAI,WAAW,EAAE,CAAC;QACtC,IAAI,UAAU,CAAC,IAAI,CAAC,WAAW,EAAE,cAAc,CAAC,CAAC,EAAE,CAAC;YAClD,OAAO,WAAW,CAAC;QACrB,CAAC;IACH,CAAC;IAED,6DAA6D;IAC7D,MAAM,cAAc,GAAG,IAAI,CAAC,GAAG,EAAE,qCAAqC,CAAC,CAAC;IACxE,IAAI,UAAU,CAAC,IAAI,CAAC,cAAc,EAAE,cAAc,CAAC,CAAC,EAAE,CAAC;QACrD,OAAO,cAAc,CAAC;IACxB,CAAC;IAED,MAAM,IAAI,KAAK,CACb,4EAA4E;QAC5E,uEAAuE;QACvE,0CAA0C;QAC1C,+CAA+C,CAChD,CAAC;AACJ,CAAC;AAED;;;;GAIG;AACH,MAAM,UAAU,eAAe,CAAC,UAAkB;IAChD,MAAM,WAAW,GAAG;QAClB,IAAI,CAAC,UAAU,EAAE,kCAAkC,CAAC;QACpD,IAAI,CAAC,UAAU,EAAE,oCAAoC,CAAC;KACvD,CAAC;IAEF,KAAK,MAAM,UAAU,IAAI,WAAW,EAAE,CAAC;QACrC,IAAI,UAAU,CAAC,UAAU,CAAC,EAAE,CAAC;YAC3B,IAAI,CAAC;gBACH,MAAM,OAAO,GAAG,YAAY,CAAC,UAAU,EAAE,OAAO,CAAC,CAAC;gBAClD,MAAM,MAAM,GAAG,SAAS,CAAC,OAAO,CAAuB,CAAC;gBACxD,IAAI,MAAM,EAAE,KAAK,EAAE,CAAC;oBAClB,OAAO,EAAE,KAAK,EAAE,MAAM,CAAC,KAAK,EAAE,CAAC;gBACjC,CAAC;YACH,CAAC;YAAC,MAAM,CAAC;gBACP,uBAAuB;YACzB,CAAC;QACH,CAAC;IACH,CAAC;IAED,gBAAgB;IAChB,OAAO,EAAE,KAAK,EAAE,YAAY,EAAE,CAAC;AACjC,CAAC;AAED;;;;GAIG;AACH,MAAM,UAAU,gBAAgB,CAAC,KAAa,EAAE,UAAkB;IAChE,MAAM,SAAS,GAAG,IAAI,CAAC,UAAU,EAAE,SAAS,CAAC,CAAC;IAC9C,MAAM,gBAAgB,GAAG,IAAI,CAAC,SAAS,EAAE,UAAU,EAAE,GAAG,KAAK,OAAO,CAAC,CAAC;IAEtE,mCAAmC;IACnC,IAAI,UAAU,CAAC,gBAAgB,CAAC,EAAE,CAAC;QACjC,OAAO,gBAAgB,CAAC;IAC1B,CAAC;IAED,4EAA4E;IAC5E,MAAM,YAAY,GAAG;QACnB,8DAA8D;QAC9D,wDAAwD;KACzD,CAAC;IACF,KAAK,MAAM,OAAO,IAAI,YAAY,EAAE,CAAC;QACnC,MAAM,eAAe,GAAG,IAAI,CAAC,UAAU,EAAE,OAAO,EAAE,GAAG,KAAK,OAAO,CAAC,CAAC;QACnE,IAAI,UAAU,CAAC,eAAe,CAAC,EAAE,CAAC;YAChC,OAAO,eAAe,CAAC;QACzB,CAAC;IACH,CAAC;IAED,8CAA8C;IAC9C,MAAM,YAAY,GAAG,IAAI,CAAC,SAAS,EAAE,mCAAmC,EAAE,GAAG,KAAK,OAAO,CAAC,CAAC;IAC3F,IAAI,UAAU,CAAC,YAAY,CAAC,EAAE,CAAC;QAC7B,OAAO,YAAY,CAAC;IACtB,CAAC;IAED,oDAAoD;IACpD,uCAAuC;IACvC,OAAO,IAAI,CAAC,SAAS,EAAE,UAAU,EAAE,GAAG,KAAK,OAAO,CAAC,CAAC;AACtD,CAAC;AAED;;GAEG;AACH,KAAK,UAAU,WAAW,CAAC,GAAW;IACpC,MAAM,IAAI,GAAG,CAAC,MAAM,MAAM,CAAC,MAAM,CAAC,CAAC,CAAC,OAAO,CAAC;IAC5C,MAAM,IAAI,CAAC,GAAG,CAAC,CAAC;AAClB,CAAC;AAED;;;;GAIG;AACH,MAAM,CAAC,KAAK,UAAU,cAAc,CAClC,OAAuB,EACvB,IAAkB;IAElB,MAAM,UAAU,GAAG,OAAO,CAAC,GAAG,EAAE,CAAC;IACjC,MAAM,IAAI,GAAG,OAAO,CAAC,IAAI,IAAI,IAAI,CAAC;IAElC,4BAA4B;IAC5B,MAAM,WAAW,GAAG,OAAO,CAAC,WAAW,IAAI,WAAW,EAAE,CAAC;IACzD,MAAM,UAAU,GAAG,IAAI,CAAC,WAAW,EAAE,MAAM,EAAE,aAAa,CAAC,CAAC;IAE5D,2BAA2B;IAC3B,MAAM,WAAW,GAAG,eAAe,CAAC,UAAU,CAAC,CAAC;IAChD,MAAM,SAAS,GAAG,gBAAgB,CAAC,WAAW,CAAC,KAAK,EAAE,UAAU,CAAC,CAAC;IAElE,gCAAgC;IAChC,MAAM,GAAG,GAA2B;QAClC,GAAG,OAAO,CAAC,GAA6B;QACxC,mBAAmB,EAAE,UAAU;QAC/B,aAAa,EAAE,WAAW,CAAC,KAAK;QAChC,kBAAkB,EAAE,SAAS;QAC7B,IAAI,EAAE,MAAM,CAAC,IAAI,CAAC;KACnB,CAAC;IAEF,sEAAsE;IACtE,IAAI,OAAO,CAAC,GAAG,CAAC,UAAU,EAAE,CAAC;QAC3B,GAAG,CAAC,kBAAkB,GAAG,OAAO,CAAC,GAAG,CAAC,UAAU,CAAC;IAClD,CAAC;IAED,uDAAuD;IACvD,MAAM,OAAO,GAAG,IAAI,EAAE,KAAK,IAAI,SAAS,CAAC;IAEzC,kFAAkF;IAClF,MAAM,KAAK,GAAiB,OAAO,CAAC,MAAM,EAAE,CAAC,UAAU,CAAC,EAAE;QACxD,GAAG,EAAE,WAAW;QAChB,GAAG;QACH,KAAK,EAAE,SAAS;KACjB,CAAC,CAAC;IAEH,wBAAwB;IACxB,KAAK,CAAC,EAAE,CAAC,OAAO,EAAE,CAAC,GAAU,EAAE,EAAE;QAC/B,OAAO,CAAC,KAAK,CAAC,0BAA0B,EAAE,GAAG,CAAC,OAAO,CAAC,CAAC;QACvD,OAAO,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC;IAClB,CAAC,CAAC,CAAC;IAEH,gCAAgC;IAChC,IAAI,CAAC,OAAO,CAAC,MAAM,EAAE,CAAC;QACpB,MAAM,MAAM,GAAG,IAAI,EAAE,IAAI,IAAI,WAAW,CAAC;QACzC,MAAM,GAAG,GAAG,oBAAoB,IAAI,EAAE,CAAC;QAEvC,IAAI,IAAI,EAAE,IAAI,EAAE,CAAC;YACf,sDAAsD;YACtD,IAAI,CAAC;gBACH,MAAM,MAAM,CAAC,GAAG,CAAC,CAAC;YACpB,CAAC;YAAC,MAAM,CAAC;gBACP,6BAA6B;YAC/B,CAAC;QACH,CAAC;aAAM,CAAC;YACN,2CAA2C;YAC3C,UAAU,CAAC,KAAK,IAAI,EAAE;gBACpB,IAAI,CAAC;oBACH,MAAM,MAAM,CAAC,GAAG,CAAC,CAAC;gBACpB,CAAC;gBAAC,MAAM,CAAC;oBACP,6BAA6B;gBAC/B,CAAC;YACH,CAAC,EAAE,IAAI,CAAC,CAAC;QACX,CAAC;IACH,CAAC;AACH,CAAC"}

package/packages/core/dist/cli/commands/cyclist.test.js

@@ -136,7 +136,7 @@ describe('Story 15-1: Cyclist Launcher Command', () => {
             mkdirSync(siblingCyclist, { recursive: true });
             mkdirSync(join(siblingCyclist, 'dist'), { recursive: true });
             writeFileSync(join(siblingCyclist, 'package.json'), JSON.stringify({ name: 'cyclist' }));
-            writeFileSync(join(siblingCyclist, 'dist', 'server.js'), '// mock server');
+            writeFileSync(join(siblingCyclist, 'dist', 'bikerack.js'), '// mock bikerack entry');
             // Create theme config at canonical location
             const pennyfarthingDir = join(testDir, '.pennyfarthing');
             mkdirSync(pennyfarthingDir, { recursive: true });
@@ -191,7 +191,7 @@ describe('Story 15-1: Cyclist Launcher Command', () => {
             const command = spawnCall.arguments[0];
             const args = spawnCall.arguments[1];
             assert.strictEqual(command, 'node', 'Should spawn node process');
-            assert.ok(args[0].includes('server.js'), 'Should spawn cyclist server.js');
+            assert.ok(args[0].includes('bikerack.js'), 'Should spawn cyclist bikerack.js entry point');
         });
         it('should open browser by default', async () => {
             // AC: Opens browser
@@ -217,7 +217,7 @@ describe('Story 15-1: Cyclist Launcher Command', () => {
             const customPath = join(testDir, 'custom-cyclist');
             mkdirSync(join(customPath, 'dist'), { recursive: true });
             writeFileSync(join(customPath, 'package.json'), JSON.stringify({ name: 'cyclist' }));
-            writeFileSync(join(customPath, 'dist', 'server.js'), '// mock');
+            writeFileSync(join(customPath, 'dist', 'bikerack.js'), '// mock');
             await cyclistCommand({ cyclistPath: customPath, noOpen: true }, { spawn: spawnMock, open: openMock });
             const spawnCall = spawnMock.mock.calls[0];
             const args = spawnCall.arguments[1];

package/packages/core/dist/cli/commands/cyclist.test.js.map

@@ -1 +1 @@
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package/packages/core/dist/cli/commands/doctor-persona-config-false-negative.test.d.ts

@@ -0,0 +1,22 @@
+/**
+ * Tests for Story 117-10: Doctor persona-config check false negative
+ * when config.local.yaml missing
+ *
+ * Bug: Doctor's persona-config check only looks for .pennyfarthing/config.local.yaml
+ * existence. When only .pennyfarthing/persona-config.yaml exists (set by /pf-setup),
+ * doctor falsely reports "No theme configured" even though getCurrentTheme()
+ * correctly falls back to persona-config.yaml.
+ *
+ * Fix: Doctor should use getCurrentTheme() (or replicate its fallback) to determine
+ * whether a theme is configured, not just check config.local.yaml existence.
+ *
+ * Acceptance Criteria:
+ * AC1: Doctor persona-config check passes when theme set in persona-config.yaml only
+ * AC2: Doctor persona-config check still passes when theme set in config.local.yaml
+ * AC3: config.local.yaml overrides persona-config.yaml when both exist
+ * AC4: Doctor correctly warns when NO theme is configured anywhere
+ *
+ * Run with: cd packages/core && pnpm run build && pnpm test
+ */
+export {};
+//# sourceMappingURL=doctor-persona-config-false-negative.test.d.ts.map

package/packages/core/dist/cli/commands/doctor-persona-config-false-negative.test.d.ts.map

@@ -0,0 +1 @@
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package/packages/core/dist/cli/commands/doctor-persona-config-false-negative.test.js

@@ -0,0 +1,161 @@
+/**
+ * Tests for Story 117-10: Doctor persona-config check false negative
+ * when config.local.yaml missing
+ *
+ * Bug: Doctor's persona-config check only looks for .pennyfarthing/config.local.yaml
+ * existence. When only .pennyfarthing/persona-config.yaml exists (set by /pf-setup),
+ * doctor falsely reports "No theme configured" even though getCurrentTheme()
+ * correctly falls back to persona-config.yaml.
+ *
+ * Fix: Doctor should use getCurrentTheme() (or replicate its fallback) to determine
+ * whether a theme is configured, not just check config.local.yaml existence.
+ *
+ * Acceptance Criteria:
+ * AC1: Doctor persona-config check passes when theme set in persona-config.yaml only
+ * AC2: Doctor persona-config check still passes when theme set in config.local.yaml
+ * AC3: config.local.yaml overrides persona-config.yaml when both exist
+ * AC4: Doctor correctly warns when NO theme is configured anywhere
+ *
+ * Run with: cd packages/core && pnpm run build && pnpm test
+ */
+import { describe, it, beforeEach, afterEach } from 'node:test';
+import assert from 'node:assert';
+import { existsSync, mkdirSync, writeFileSync, rmSync, } from 'fs';
+import { join } from 'path';
+import { tmpdir } from 'os';
+import { stringify as yamlStringify } from 'yaml';
+import { checkUserFilesBasic, checkFileLayout } from './doctor.js';
+import { getCurrentTheme } from '../utils/themes.js';
+describe('Story 117-10: Doctor persona-config false negative', () => {
+    let testDir;
+    let pennyfarthingDir;
+    let claudeDir;
+    beforeEach(() => {
+        testDir = join(tmpdir(), `pf-doctor-persona-${Date.now()}-${Math.random().toString(36).slice(2)}`);
+        pennyfarthingDir = join(testDir, '.pennyfarthing');
+        claudeDir = join(testDir, '.claude');
+        mkdirSync(pennyfarthingDir, { recursive: true });
+        mkdirSync(claudeDir, { recursive: true });
+    });
+    afterEach(() => {
+        if (existsSync(testDir)) {
+            rmSync(testDir, { recursive: true, force: true });
+        }
+    });
+    // ─── AC1: persona-config.yaml fallback ──────────────────────────────
+    describe('AC1: Doctor passes when theme set in persona-config.yaml only', () => {
+        it('checkUserFilesBasic persona-config should pass with only persona-config.yaml', () => {
+            // This is the core false negative: persona-config.yaml has a valid theme
+            // but config.local.yaml does not exist
+            writeFileSync(join(pennyfarthingDir, 'persona-config.yaml'), yamlStringify({ theme: 'firefly' }));
+            // Sanity: getCurrentTheme already handles this correctly
+            const theme = getCurrentTheme(testDir);
+            assert.strictEqual(theme, 'firefly', 'getCurrentTheme should find theme in persona-config.yaml');
+            // Bug: checkUserFilesBasic only checks config.local.yaml existence
+            const results = checkUserFilesBasic(testDir);
+            const personaResult = results.find((r) => r.name === 'persona-config');
+            assert.ok(personaResult, 'Should have persona-config check result');
+            assert.strictEqual(personaResult.status, 'pass', 'Should PASS when theme is set in persona-config.yaml (even without config.local.yaml)');
+        });
+        it('checkFileLayout config check should pass with only persona-config.yaml', () => {
+            // Same false negative in checkFileLayout
+            writeFileSync(join(pennyfarthingDir, 'persona-config.yaml'), yamlStringify({ theme: 'firefly' }));
+            // Also need manifest for checkFileLayout
+            writeFileSync(join(pennyfarthingDir, 'manifest.json'), JSON.stringify({ version: '11.0.0' }));
+            const results = checkFileLayout(testDir);
+            const configResult = results.find((r) => r.name === 'layout/config');
+            assert.ok(configResult, 'Should have layout/config check result');
+            assert.strictEqual(configResult.status, 'pass', 'Should PASS when theme is set in persona-config.yaml (even without config.local.yaml)');
+        });
+    });
+    // ─── AC2: config.local.yaml still works ────────────────────────────
+    describe('AC2: Doctor still passes when theme set in config.local.yaml', () => {
+        it('checkUserFilesBasic should pass with config.local.yaml (existing behavior)', () => {
+            writeFileSync(join(pennyfarthingDir, 'config.local.yaml'), yamlStringify({ theme: 'game-of-thrones' }));
+            const results = checkUserFilesBasic(testDir);
+            const personaResult = results.find((r) => r.name === 'persona-config');
+            assert.ok(personaResult, 'Should have persona-config check result');
+            assert.strictEqual(personaResult.status, 'pass', 'Should pass with config.local.yaml');
+        });
+        it('checkFileLayout should pass with config.local.yaml (existing behavior)', () => {
+            writeFileSync(join(pennyfarthingDir, 'config.local.yaml'), yamlStringify({ theme: 'game-of-thrones' }));
+            const results = checkFileLayout(testDir);
+            const configResult = results.find((r) => r.name === 'layout/config');
+            assert.ok(configResult, 'Should have layout/config check result');
+            assert.strictEqual(configResult.status, 'pass', 'Should pass with config.local.yaml');
+        });
+    });
+    // ─── AC3: config.local.yaml overrides persona-config.yaml ──────────
+    describe('AC3: config.local.yaml takes priority over persona-config.yaml', () => {
+        it('getCurrentTheme prefers config.local.yaml when both exist', () => {
+            writeFileSync(join(pennyfarthingDir, 'config.local.yaml'), yamlStringify({ theme: 'star-trek' }));
+            writeFileSync(join(pennyfarthingDir, 'persona-config.yaml'), yamlStringify({ theme: 'firefly' }));
+            const theme = getCurrentTheme(testDir);
+            assert.strictEqual(theme, 'star-trek', 'config.local.yaml should override persona-config.yaml');
+        });
+        it('doctor should pass when both config files exist', () => {
+            writeFileSync(join(pennyfarthingDir, 'config.local.yaml'), yamlStringify({ theme: 'star-trek' }));
+            writeFileSync(join(pennyfarthingDir, 'persona-config.yaml'), yamlStringify({ theme: 'firefly' }));
+            const results = checkUserFilesBasic(testDir);
+            const personaResult = results.find((r) => r.name === 'persona-config');
+            assert.ok(personaResult, 'Should have persona-config check result');
+            assert.strictEqual(personaResult.status, 'pass', 'Should pass when both configs exist');
+        });
+    });
+    // ─── AC4: Correctly warns when NO theme configured ─────────────────
+    describe('AC4: Doctor warns when no theme is configured anywhere', () => {
+        it('checkUserFilesBasic should warn when neither config file has a theme', () => {
+            // No config.local.yaml, no persona-config.yaml
+            const results = checkUserFilesBasic(testDir);
+            const personaResult = results.find((r) => r.name === 'persona-config');
+            assert.ok(personaResult, 'Should have persona-config check result');
+            assert.strictEqual(personaResult.status, 'warn', 'Should warn when no theme configured anywhere');
+            assert.ok(personaResult.detail?.includes('No theme configured'), 'Detail should mention no theme configured');
+        });
+        it('checkFileLayout should warn when neither config file has a theme', () => {
+            const results = checkFileLayout(testDir);
+            const configResult = results.find((r) => r.name === 'layout/config');
+            assert.ok(configResult, 'Should have layout/config check result');
+            assert.strictEqual(configResult.status, 'warn', 'Should warn when no theme configured anywhere');
+        });
+        it('should warn when persona-config.yaml exists but has no theme field', () => {
+            // persona-config.yaml exists but without a theme
+            writeFileSync(join(pennyfarthingDir, 'persona-config.yaml'), yamlStringify({ output_style: 'terse' }));
+            const results = checkUserFilesBasic(testDir);
+            const personaResult = results.find((r) => r.name === 'persona-config');
+            assert.ok(personaResult, 'Should have persona-config check result');
+            assert.strictEqual(personaResult.status, 'warn', 'Should warn when persona-config.yaml exists but has no theme');
+        });
+        it('should warn when config.local.yaml exists but has no theme field', () => {
+            // config.local.yaml exists but without a theme
+            writeFileSync(join(pennyfarthingDir, 'config.local.yaml'), yamlStringify({ bell_mode: true }));
+            const results = checkUserFilesBasic(testDir);
+            const personaResult = results.find((r) => r.name === 'persona-config');
+            assert.ok(personaResult, 'Should have persona-config check result');
+            assert.strictEqual(personaResult.status, 'warn', 'Should warn when config.local.yaml exists but has no theme');
+        });
+    });
+    // ─── Consistency: Doctor agrees with getCurrentTheme ───────────────
+    describe('Doctor and getCurrentTheme should agree', () => {
+        it('doctor should pass whenever getCurrentTheme returns a non-null value', () => {
+            // The repro scenario: /pf-setup sets theme in persona-config.yaml
+            writeFileSync(join(pennyfarthingDir, 'persona-config.yaml'), yamlStringify({ theme: 'firefly' }));
+            const theme = getCurrentTheme(testDir);
+            assert.ok(theme, 'getCurrentTheme should find the theme');
+            const results = checkUserFilesBasic(testDir);
+            const personaResult = results.find((r) => r.name === 'persona-config');
+            assert.ok(personaResult, 'Should have persona-config check result');
+            assert.strictEqual(personaResult.status, 'pass', `Doctor says "${personaResult.status}" but getCurrentTheme returns "${theme}" — they disagree!`);
+        });
+        it('doctor should warn whenever getCurrentTheme returns null', () => {
+            // No theme anywhere
+            const theme = getCurrentTheme(testDir);
+            assert.strictEqual(theme, null, 'getCurrentTheme should return null');
+            const results = checkUserFilesBasic(testDir);
+            const personaResult = results.find((r) => r.name === 'persona-config');
+            assert.ok(personaResult, 'Should have persona-config check result');
+            assert.strictEqual(personaResult.status, 'warn', 'Doctor should warn when getCurrentTheme returns null');
+        });
+    });
+});
+//# sourceMappingURL=doctor-persona-config-false-negative.test.js.map

package/packages/core/dist/cli/commands/doctor-persona-config-false-negative.test.js.map

@@ -0,0 +1 @@
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package/packages/core/dist/cli/commands/doctor.d.ts.map

@@ -1 +1 @@
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package/packages/core/dist/cli/commands/doctor.js

@@ -8,10 +8,11 @@ import { logger } from '../utils/logger.js';
 import { readManifest } from '../utils/manifest.js';
 import { pathExists, isDirectory, isSymlink, fileMatchesHash, filesMatch } from '../utils/files.js';
 import { getPackageVersion, getAssetsPath } from '../utils/version.js';
-import { findNodeModulesPath } from '../utils/node-modules.js';
+import { findNodeModulesPath, findLocalSymlinkTargets } from '../utils/node-modules.js';
 import { ALL_SYMLINKS, CORE_AGENTS } from '../utils/constants.js';
 import { getPfVersion, installPfCli } from '../utils/python.js';
 import { LEGACY_HOOK_MIGRATIONS, migrateHookPaths } from '../utils/settings.js';
+import { getCurrentTheme } from '../utils/themes.js';
 /**
  * Category-to-check-function mapping for --category filtering.
  * Each category maps to the check functions that produce results in that group.
@@ -467,23 +468,45 @@ function refreshSkillsCopy(projectRoot, builtInSkillsPath) {
  */
 function checkSymlinks(projectRoot, nodeModulesPath) {
     const results = [];
-    // Check if node_modules is available
-    if (!nodeModulesPath) {
+    const localTargets = findLocalSymlinkTargets(projectRoot);
+    // Check if we have any source available
+    if (!nodeModulesPath && !localTargets) {
         results.push({
             name: 'core/node_modules',
             status: 'fail',
-            detail: 'pennyfarthing not found in node_modules - run npm install'
+            detail: 'pennyfarthing not found in node_modules and no local symlink targets in repos.yaml'
         });
         return results;
     }
-    results.push({
-        name: 'core/node_modules',
-        status: 'pass',
-        detail: relative(projectRoot, nodeModulesPath)
-    });
+    if (localTargets) {
+        results.push({
+            name: 'core/source',
+            status: 'pass',
+            detail: 'repos.yaml local symlink targets'
+        });
+    }
+    if (nodeModulesPath) {
+        results.push({
+            name: 'core/node_modules',
+            status: 'pass',
+            detail: relative(projectRoot, nodeModulesPath)
+        });
+    }
     for (const { name, link } of ALL_SYMLINKS) {
         const linkPath = join(projectRoot, link);
-        const targetPath = join(nodeModulesPath, name);
+        // Determine the correct target: local source preferred, node_modules fallback
+        const localTarget = localTargets?.get(link);
+        const targetPath = localTarget
+            ? localTarget
+            : nodeModulesPath ? join(nodeModulesPath, name) : null;
+        if (!targetPath) {
+            results.push({
+                name: `symlink/${name}`,
+                status: 'warn',
+                detail: 'No source path available'
+            });
+            continue;
+        }
         const expectedRelative = relative(dirname(linkPath), targetPath);
         if (!isSymlink(linkPath)) {
             // Not a symlink
@@ -527,7 +550,7 @@ function checkSymlinks(projectRoot, nodeModulesPath) {
                 results.push({
                     name: `symlink/${name}`,
                     status: 'fail',
-                    detail: 'Broken symlink - run npm install',
+                    detail: `Broken symlink (${resolved}) - run update to fix`,
                     fix: () => {
                         unlinkSync(linkPath);
                         symlinkSync(expectedRelative, linkPath);
@@ -571,12 +594,13 @@ export function checkUserFilesBasic(projectRoot) {
             detail: `${existingSidecars.length} agent sidecars configured`
         });
     }
-    // Check persona config at canonical location
-    const personaConfig = join(projectRoot, '.pennyfarthing/config.local.yaml');
+    // Check persona config — use getCurrentTheme() which checks both
+    // config.local.yaml (priority 1) and persona-config.yaml (priority 2)
+    const detectedTheme = getCurrentTheme(projectRoot);
     results.push({
         name: 'persona-config',
-        status: pathExists(personaConfig) ? 'pass' : 'warn',
-        detail: pathExists(personaConfig) ? undefined : 'No theme configured'
+        status: detectedTheme ? 'pass' : 'warn',
+        detail: detectedTheme ? undefined : 'No theme configured'
     });
     // Check settings.local.json exists (CRITICAL - registers hooks with Claude Code)
     const settingsLocal = join(projectRoot, '.claude/settings.local.json');
@@ -652,12 +676,13 @@ function checkUserFiles(projectRoot) {
             detail: `${existingSidecars.length} agent sidecars configured`
         });
     }
-    // Check persona config at canonical location
-    const personaConfig = join(projectRoot, '.pennyfarthing/config.local.yaml');
+    // Check persona config — use getCurrentTheme() which checks both
+    // config.local.yaml (priority 1) and persona-config.yaml (priority 2)
+    const detectedTheme = getCurrentTheme(projectRoot);
     results.push({
         name: 'persona-config',
-        status: pathExists(personaConfig) ? 'pass' : 'warn',
-        detail: pathExists(personaConfig) ? undefined : 'No theme configured'
+        status: detectedTheme ? 'pass' : 'warn',
+        detail: detectedTheme ? undefined : 'No theme configured'
     });
     // Check settings.local.json exists (CRITICAL - registers hooks with Claude Code)
     const settingsLocal = join(projectRoot, '.claude/settings.local.json');
@@ -1834,11 +1859,21 @@ export function checkGitHooks(projectRoot, nodeModulesPath) {
     if (!pathExists(gitHooksDir)) {
         return results;
     }
-    // Detect framework/orchestrator repo (has pennyfarthing-dist/ at project root)
+    // Detect framework repo (has pennyfarthing-dist/ at root)
     const isFrameworkRepo = pathExists(join(projectRoot, 'pennyfarthing-dist'));
-    const frameworkHooksDir = isFrameworkRepo
-        ? join(projectRoot, 'pennyfarthing-dist/scripts/hooks')
-        : null;
+    // Detect orchestrator repo (has pennyfarthing/pennyfarthing-dist/ — inlined framework)
+    const isOrchestratorRepo = !isFrameworkRepo
+        && pathExists(join(projectRoot, 'pennyfarthing/pennyfarthing-dist'));
+    // Either pattern means hooks should be symlinks, not copies
+    const isDevRepo = isFrameworkRepo || isOrchestratorRepo;
+    // Resolve hooks source directory
+    let frameworkHooksDir = null;
+    if (isFrameworkRepo) {
+        frameworkHooksDir = join(projectRoot, 'pennyfarthing-dist/scripts/hooks');
+    }
+    else if (isOrchestratorRepo) {
+        frameworkHooksDir = join(projectRoot, 'pennyfarthing/pennyfarthing-dist/scripts/hooks');
+    }
     // Need either node_modules or framework source to compare against
     if (!nodeModulesPath && !frameworkHooksDir) {
         return results;
@@ -1869,9 +1904,9 @@ export function checkGitHooks(projectRoot, nodeModulesPath) {
                 status: 'warn',
                 detail: 'Not installed',
                 fix: () => {
-                    if (isFrameworkRepo) {
-                        // Framework repos: create symlink (relative from hooks dir to source)
-                        const absSource = join(projectRoot, 'pennyfarthing-dist/scripts/hooks', hook.source);
+                    if (isDevRepo) {
+                        // Dev repos (framework or orchestrator): create symlink from hooks dir to source
+                        const absSource = join(frameworkHooksDir, hook.source);
                         const relTarget = relative(gitHooksDir, absSource);
                         symlinkSync(relTarget, destPath);
                     }
@@ -1886,15 +1921,15 @@ export function checkGitHooks(projectRoot, nodeModulesPath) {
         }
         // Check if hook is a symlink (framework repos should use symlinks)
         const hookIsSymlink = isSymlink(destPath);
-        if (isFrameworkRepo && !hookIsSymlink) {
-            // Framework repo has a copied hook instead of a symlink — it will go stale
+        if (isDevRepo && !hookIsSymlink) {
+            // Dev repo has a copied hook instead of a symlink — it will go stale
             results.push({
                 name: `git-hook/${hook.dest}`,
                 status: 'warn',
                 detail: 'Copy instead of symlink (will go stale)',
                 fix: () => {
                     // Backup existing, replace with symlink
-                    const absSource = join(projectRoot, 'pennyfarthing-dist/scripts/hooks', hook.source);
+                    const absSource = join(frameworkHooksDir, hook.source);
                     const relTarget = relative(gitHooksDir, absSource);
                     renameSync(destPath, `${destPath}.backup`);
                     symlinkSync(relTarget, destPath);
@@ -1921,7 +1956,7 @@ export function checkGitHooks(projectRoot, nodeModulesPath) {
                         detail: `Broken symlink → ${target}`,
                         fix: () => {
                             unlinkSync(destPath);
-                            const absSource = join(projectRoot, 'pennyfarthing-dist/scripts/hooks', hook.source);
+                            const absSource = join(frameworkHooksDir ?? join(nodeModulesPath, 'scripts/hooks'), hook.source);
                             const relTarget = relative(gitHooksDir, absSource);
                             symlinkSync(relTarget, destPath);
                         }
@@ -2506,12 +2541,14 @@ export function checkFileLayout(projectRoot) {
         status: existsSync(manifestPath) ? 'pass' : 'fail',
         detail: existsSync(manifestPath) ? undefined : 'Missing .pennyfarthing/manifest.json'
     });
-    // 2. Config at .pennyfarthing/config.local.yaml
+    // 2. Theme config — use getCurrentTheme() which checks both
+    // config.local.yaml (priority 1) and persona-config.yaml (priority 2)
     const configPath = join(projectRoot, '.pennyfarthing/config.local.yaml');
+    const layoutTheme = getCurrentTheme(projectRoot);
     results.push({
         name: 'layout/config',
-        status: existsSync(configPath) ? 'pass' : 'warn',
-        detail: existsSync(configPath) ? undefined : 'No theme configured at .pennyfarthing/config.local.yaml'
+        status: layoutTheme ? 'pass' : 'warn',
+        detail: layoutTheme ? undefined : 'No theme configured at .pennyfarthing/config.local.yaml'
     });
     // 3. Old config at .claude/persona-config.yaml
     const oldConfigPath = join(projectRoot, '.claude/persona-config.yaml');
@@ -2591,6 +2628,26 @@ export function checkFileLayout(projectRoot) {
             status: 'pass',
             detail: undefined
         });
+        // Check execute permission on each shell script in project hooks
+        try {
+            const hookFiles = readdirSync(projectHooksPath).filter(f => f.endsWith('.sh'));
+            for (const file of hookFiles) {
+                const hookPath = join(projectHooksPath, file);
+                const stats = statSync(hookPath);
+                const isExecutable = (stats.mode & 0o111) !== 0;
+                results.push({
+                    name: `layout/project-hooks/${file}`,
+                    status: isExecutable ? 'pass' : 'warn',
+                    detail: isExecutable ? undefined : 'Not executable — will cause Permission denied on session start',
+                    fix: isExecutable ? undefined : () => {
+                        chmodSync(hookPath, 0o755);
+                    }
+                });
+            }
+        }
+        catch {
+            // Ignore read errors
+        }
     }
     // 8. Old project hooks at .claude/project/hooks/
     const oldProjectHooksPath = join(projectRoot, '.claude/project/hooks');
@@ -2620,6 +2677,17 @@ export function checkFileLayout(projectRoot) {
                     }
                     removeSync(oldProjectHooksPath);
                 }
+                // Ensure migrated shell scripts are executable
+                try {
+                    for (const file of readdirSync(projectHooksPath)) {
+                        if (file.endsWith('.sh')) {
+                            chmodSync(join(projectHooksPath, file), 0o755);
+                        }
+                    }
+                }
+                catch {
+                    // Ignore
+                }
             }
         });
     }