@cleocode/core 2026.4.13 → 2026.4.15

package/dist/scaffold.js

@@ -1,1759 +0,0 @@
-/**
- * Directory & file scaffolding utilities.
- *
- * Shared ensure/check functions extracted from init.ts for reuse
- * by init.ts, upgrade.ts, and doctor health checks.
- *
- * Rules:
- *   - All ensure functions are idempotent (safe to call multiple times)
- *   - All check functions are read-only (no side effects)
- *   - Uses imports from ./paths.js for path resolution
- */
-import { execFile } from 'node:child_process';
-import { randomUUID } from 'node:crypto';
-import { existsSync, constants as fsConstants, readFileSync, statSync } from 'node:fs';
-import { access, copyFile, mkdir, readdir, readFile, rm, writeFile } from 'node:fs/promises';
-import { homedir as getHomedir } from 'node:os';
-import { dirname, join, resolve } from 'node:path';
-import { fileURLToPath } from 'node:url';
-import { promisify } from 'node:util';
-import { generateProjectHash } from './nexus/hash.js';
-import { getCleoCantWorkflowsDir, getCleoDirAbsolute, getCleoGlobalAgentsDir, getCleoGlobalRecipesDir, getCleoHome, getCleoPiExtensionsDir, getCleoTemplatesDir, getConfigPath, } from './paths.js';
-import { saveJson } from './store/json.js';
-const execFileAsync = promisify(execFile);
-// ── Constants ────────────────────────────────────────────────────────
-/** Required subdirectories under .cleo/. */
-export const REQUIRED_CLEO_SUBDIRS = [
-    'backups/operational',
-    'backups/safety',
-    'agent-outputs',
-    'logs',
-    'rcasd',
-    'adrs',
-];
-/**
- * Embedded fallback for .cleo/.gitignore content (deny-by-default).
- *
- * Must stay in sync with `packages/core/templates/cleo-gitignore`. The
- * template file is the source of truth; this constant is only used when
- * the template file cannot be located at runtime (bundled binary edge
- * cases, air-gapped installs, etc.).
- *
- * ADR-013 §9 (2026-04-07, T5158): config.json / project-info.json are
- * NOT re-included here. Runtime state files (tasks.db, brain.db,
- * config.json, project-info.json) are protected by explicit deny rules
- * so that nested-.gitignore allow rules cannot unignore them at the
- * project repository level.
- */
-export const CLEO_GITIGNORE_FALLBACK = `# .cleo/.gitignore — Deny-by-default for CLEO project data
-# Ignore everything, then explicitly allow only tracked files.
-#
-# ADR-013 §9 (2026-04-07, T5158): config.json + project-info.json are
-# runtime snapshots regenerated by \`cleo init\`, not tracked in git.
-# Recovery for all four runtime files (tasks.db, brain.db, config.json,
-# project-info.json) is provided by \`cleo backup add\` snapshots under
-# .cleo/backups/. See .cleo/adrs/ADR-013 for the full recovery story.
-
-# Step 1: Ignore everything
-*
-
-# Allow list
-!.gitignore
-!project-context.json
-!setup-otel.sh
-!DATA-SAFETY-IMPLEMENTATION-SUMMARY.md
-!adrs/
-!adrs/**
-!rcasd/
-!rcasd/**
-!agent-outputs/
-!agent-outputs/**
-
-# Explicit deny safety net
-*.db
-*.db-shm
-*.db-wal
-*.db-journal
-config.json
-project-info.json
-log.json
-bypass-log.json
-qa-log.json
-.deps-cache/
-.context-alert-state.json
-.context-state*.json
-context-states/
-.git-checkpoint-state
-.migration-state.json
-migrations.json
-sync/
-metrics/
-.backups/
-backups/
-`;
-// ── Pure helpers ─────────────────────────────────────────────────────
-/**
- * Check if a file exists and is readable.
- *
- * @param path - Absolute path to the file to check
- * @returns True if the file exists and is readable, false otherwise
- *
- * @remarks
- * Uses `fs.access` with `R_OK` to verify both existence and read permission.
- * Swallows all errors and returns false on failure.
- *
- * @example
- * ```typescript
- * if (await fileExists('/project/.cleo/config.json')) {
- *   // safe to read
- * }
- * ```
- */
-export async function fileExists(path) {
-    try {
-        await access(path, fsConstants.R_OK);
-        return true;
-    }
-    catch {
-        return false;
-    }
-}
-/**
- * Strip legacy CLEO:START/CLEO:END blocks from a file.
- * Called before CAAMP injection to prevent competing blocks.
- *
- * @param filePath - Absolute path to the file to strip
- *
- * @remarks
- * Handles both bare markers (`<!-- CLEO:START -->`) and versioned markers
- * (`<!-- CLEO:START v0.53.4 -->`). No-op if the file does not exist or
- * contains no CLEO blocks.
- *
- * @example
- * ```typescript
- * await stripCLEOBlocks('/project/CLAUDE.md');
- * ```
- */
-export async function stripCLEOBlocks(filePath) {
-    if (!existsSync(filePath))
-        return;
-    const content = await readFile(filePath, 'utf8');
-    const stripped = content.replace(/\n?<!-- CLEO:START[^>]*-->[\s\S]*?<!-- CLEO:END -->\n?/g, '');
-    if (stripped !== content)
-        await writeFile(filePath, stripped, 'utf8');
-}
-/**
- * Remove .cleo/ or .cleo entries from the project root .gitignore.
- *
- * @param projectRoot - Absolute path to the project root directory
- * @returns Whether any lines were removed from the .gitignore
- *
- * @remarks
- * Filters out lines matching `/.cleo/`, `.cleo/`, `.cleo`, etc. from the
- * root-level `.gitignore`. Returns `{ removed: false }` if the file does not
- * exist or contains no matching entries.
- *
- * @example
- * ```typescript
- * const { removed } = await removeCleoFromRootGitignore('/project');
- * if (removed) console.log('.cleo entries cleaned from .gitignore');
- * ```
- */
-export async function removeCleoFromRootGitignore(projectRoot) {
-    const rootGitignorePath = join(projectRoot, '.gitignore');
-    if (!(await fileExists(rootGitignorePath))) {
-        return { removed: false };
-    }
-    const content = await readFile(rootGitignorePath, 'utf-8');
-    const lines = content.split('\n');
-    const filtered = lines.filter((line) => {
-        const trimmed = line.trim();
-        return !/^\/?\.cleo\/?(\*)?$/.test(trimmed);
-    });
-    if (filtered.length === lines.length) {
-        return { removed: false };
-    }
-    await writeFile(rootGitignorePath, filtered.join('\n'));
-    return { removed: true };
-}
-// generateProjectHash moved to src/core/nexus/hash.ts (canonical location)
-export { generateProjectHash } from './nexus/hash.js';
-/**
- * Resolve the package root directory (where schemas/ and templates/ live).
- * scaffold.ts lives in packages/core/src/, so 1 level up reaches the package root.
- *
- * @returns Absolute path to the @cleocode/core package root
- *
- * @remarks
- * Uses `import.meta.url` to determine the file location at runtime, which
- * works correctly in both development and installed npm package contexts.
- *
- * @example
- * ```typescript
- * const root = getPackageRoot();
- * const schemaPath = join(root, 'schemas', 'config.schema.json');
- * ```
- */
-export function getPackageRoot() {
-    const thisFile = fileURLToPath(import.meta.url);
-    return resolve(dirname(thisFile), '..');
-}
-/**
- * Load the gitignore template from the package's templates/ directory.
- * Falls back to embedded content if file not found.
- *
- * @returns The .cleo/.gitignore template content string
- *
- * @remarks
- * First attempts to read from the package's `templates/cleo-gitignore` file.
- * Falls back to the embedded `CLEO_GITIGNORE_FALLBACK` constant if the
- * template file is missing or unreadable.
- *
- * @example
- * ```typescript
- * const content = getGitignoreContent();
- * await writeFile('.cleo/.gitignore', content);
- * ```
- */
-export function getGitignoreContent() {
-    try {
-        const packageRoot = getPackageRoot();
-        const templatePath = join(packageRoot, 'templates', 'cleo-gitignore');
-        if (existsSync(templatePath)) {
-            return readFileSync(templatePath, 'utf-8');
-        }
-    }
-    catch {
-        // fallback
-    }
-    return CLEO_GITIGNORE_FALLBACK;
-}
-/**
- * Read CLEO version from package.json.
- *
- * @returns Semver version string, or "0.0.0" if unavailable
- *
- * @remarks
- * Reads the `version` field from the @cleocode/core package.json at runtime.
- * Returns "0.0.0" if the file cannot be read or parsed.
- *
- * @example
- * ```typescript
- * const version = getCleoVersion(); // "2026.4.0"
- * ```
- */
-export function getCleoVersion() {
-    try {
-        const pkgPath = join(getPackageRoot(), 'package.json');
-        const pkg = JSON.parse(readFileSync(pkgPath, 'utf-8'));
-        return pkg.version ?? '0.0.0';
-    }
-    catch {
-        return '0.0.0';
-    }
-}
-/**
- * Detect whether projectRoot is the CLEO source repository itself.
- * Verified by fingerprinting the expected source layout and package identity.
- * Only the canonical CLEO repository matches all criteria (ADR-029).
- */
-function isCleoContributorProject(projectRoot) {
-    const exists = (p) => existsSync(join(projectRoot, p));
-    // Must have all three canonical source directories
-    if (!exists('src/dispatch') || !exists('src/core'))
-        return false;
-    // Must have package.json identifying as @cleocode/cleo
-    try {
-        const pkg = JSON.parse(readFileSync(join(projectRoot, 'package.json'), 'utf-8'));
-        return pkg.name === '@cleocode/cleo';
-    }
-    catch {
-        return false;
-    }
-}
-/**
- * Create default config.json content.
- *
- * @returns A plain object with the default CLEO configuration structure
- *
- * @remarks
- * Returns a version-stamped config with defaults for output formatting, backup
- * limits, hierarchy depth, session behavior, and lifecycle mode.
- *
- * @example
- * ```typescript
- * const config = createDefaultConfig();
- * await saveJson(configPath, config);
- * ```
- */
-export function createDefaultConfig() {
-    return {
-        version: '2.10.0',
-        output: {
-            defaultFormat: 'json',
-            showColor: true,
-            showUnicode: true,
-            dateFormat: 'relative',
-        },
-        backup: {
-            maxOperationalBackups: 10,
-            maxSafetyBackups: 5,
-        },
-        hierarchy: {
-            maxDepth: 3,
-            maxSiblings: 0,
-        },
-        session: {
-            autoStart: false,
-            multiSession: false,
-        },
-        lifecycle: {
-            mode: 'strict',
-        },
-    };
-}
-// ── ensure* functions (idempotent) ───────────────────────────────────
-/**
- * Create .cleo/ directory and all required subdirectories.
- * Idempotent: skips directories that already exist.
- *
- * @param projectRoot - Absolute path to the project root directory
- * @returns Scaffold result indicating whether the directory was created or already existed
- *
- * @remarks
- * Refuses to scaffold inside the global CLEO home to prevent pollution.
- * Creates all directories listed in `REQUIRED_CLEO_SUBDIRS`.
- *
- * @example
- * ```typescript
- * const result = await ensureCleoStructure('/my/project');
- * console.log(result.action); // "created" or "skipped"
- * ```
- */
-export async function ensureCleoStructure(projectRoot) {
-    // Guard: reject global home as project root to prevent project-level
-    // subdirectories (adrs/, rcasd/, backups/, etc.) from polluting ~/.cleo/
-    const resolvedRoot = resolve(projectRoot);
-    if (resolvedRoot === resolve(getCleoHome())) {
-        return {
-            action: 'skipped',
-            path: join(resolvedRoot, '.cleo'),
-            details: 'Refused to scaffold project structure inside global CLEO home',
-        };
-    }
-    const cleoDir = getCleoDirAbsolute(projectRoot);
-    const alreadyExists = existsSync(cleoDir);
-    await mkdir(cleoDir, { recursive: true });
-    for (const subdir of REQUIRED_CLEO_SUBDIRS) {
-        await mkdir(join(cleoDir, subdir), { recursive: true });
-    }
-    return {
-        action: alreadyExists ? 'skipped' : 'created',
-        path: cleoDir,
-        details: alreadyExists
-            ? 'Directory already existed, ensured subdirs'
-            : `Created .cleo/ with ${REQUIRED_CLEO_SUBDIRS.length} subdirectories`,
-    };
-}
-/**
- * Create or repair .cleo/.gitignore from template.
- * Idempotent: skips if file already exists with correct content.
- *
- * @param projectRoot - Absolute path to the project root directory
- * @returns Scaffold result indicating whether the gitignore was created, repaired, or skipped
- *
- * @remarks
- * Compares normalized content (trimmed, LF line endings) against the template.
- * If the file exists but differs, it is overwritten with the canonical template.
- *
- * @example
- * ```typescript
- * const result = await ensureGitignore('/my/project');
- * if (result.action === 'repaired') console.log('Gitignore updated');
- * ```
- */
-export async function ensureGitignore(projectRoot) {
-    const cleoDir = getCleoDirAbsolute(projectRoot);
-    const gitignorePath = join(cleoDir, '.gitignore');
-    const templateContent = getGitignoreContent();
-    if (existsSync(gitignorePath)) {
-        const existing = readFileSync(gitignorePath, 'utf-8');
-        const normalize = (s) => s.trim().replace(/\r\n/g, '\n');
-        if (normalize(existing) === normalize(templateContent)) {
-            return { action: 'skipped', path: gitignorePath, details: 'Already matches template' };
-        }
-        await writeFile(gitignorePath, templateContent);
-        return { action: 'repaired', path: gitignorePath, details: 'Updated to match template' };
-    }
-    await writeFile(gitignorePath, templateContent);
-    return { action: 'created', path: gitignorePath };
-}
-/**
- * Create default config.json if missing.
- * Idempotent: skips if file already exists.
- *
- * @param projectRoot - Absolute path to the project root directory
- * @param opts - Optional configuration
- * @param opts.force - When true, overwrite the existing config
- * @returns Scaffold result indicating the action taken
- *
- * @remarks
- * On skip, still checks for and backfills the ADR-029 contributor block
- * if the project is detected as the CLEO source repository.
- *
- * @example
- * ```typescript
- * const result = await ensureConfig('/my/project', { force: true });
- * console.log(result.path);
- * ```
- */
-export async function ensureConfig(projectRoot, opts) {
-    const configPath = getConfigPath(projectRoot);
-    if (existsSync(configPath) && !opts?.force) {
-        // Backfill contributor block for existing configs that predate ADR-029
-        try {
-            const existing = JSON.parse(readFileSync(configPath, 'utf-8'));
-            if (!existing['contributor'] && isCleoContributorProject(projectRoot)) {
-                existing['contributor'] = {
-                    isContributorProject: true,
-                    devCli: 'cleo-dev',
-                    verifiedAt: new Date().toISOString(),
-                };
-                await writeFile(configPath, JSON.stringify(existing, null, 2));
-                return {
-                    action: 'repaired',
-                    path: configPath,
-                    details: 'Added contributor block (ADR-029)',
-                };
-            }
-        }
-        catch {
-            /* non-fatal */
-        }
-        return { action: 'skipped', path: configPath, details: 'Config already exists' };
-    }
-    const config = createDefaultConfig();
-    if (isCleoContributorProject(projectRoot)) {
-        config['contributor'] = {
-            isContributorProject: true,
-            devCli: 'cleo-dev',
-            verifiedAt: new Date().toISOString(),
-        };
-    }
-    await saveJson(configPath, config);
-    return {
-        action: existsSync(configPath) ? 'repaired' : 'created',
-        path: configPath,
-    };
-}
-/**
- * Create or refresh project-info.json.
- * Idempotent: skips if file already exists (unless force).
- *
- * @param projectRoot - Absolute path to the project root directory
- * @param opts - Optional configuration
- * @param opts.force - When true, regenerate even if the file exists
- * @returns Scaffold result indicating the action taken
- *
- * @remarks
- * Backfills a `projectId` (UUID) on existing files that lack one (T5333).
- * The generated file includes project hash, CLEO version, schema versions,
- * and initial health/feature flags.
- *
- * @example
- * ```typescript
- * const result = await ensureProjectInfo('/my/project');
- * console.log(result.action); // "created", "repaired", or "skipped"
- * ```
- */
-export async function ensureProjectInfo(projectRoot, opts) {
-    const cleoDir = getCleoDirAbsolute(projectRoot);
-    const projectInfoPath = join(cleoDir, 'project-info.json');
-    // Backfill projectId on existing files that lack it (T5333)
-    if (existsSync(projectInfoPath) && !opts?.force) {
-        try {
-            const existing = JSON.parse(readFileSync(projectInfoPath, 'utf-8'));
-            if (typeof existing.projectId !== 'string' || existing.projectId.length === 0) {
-                existing.projectId = randomUUID();
-                existing.lastUpdated = new Date().toISOString();
-                await writeFile(projectInfoPath, JSON.stringify(existing, null, 2));
-                return { action: 'repaired', path: projectInfoPath, details: 'Added projectId' };
-            }
-        }
-        catch {
-            // If parse fails, fall through to regenerate
-        }
-        return { action: 'skipped', path: projectInfoPath, details: 'Already exists' };
-    }
-    const projectHash = generateProjectHash(projectRoot);
-    const cleoVersion = getCleoVersion();
-    const now = new Date().toISOString();
-    const { readSchemaVersionFromFile } = await import('./validation/schema-integrity.js');
-    const { SQLITE_SCHEMA_VERSION } = await import('./store/sqlite.js');
-    const configSchemaVersion = readSchemaVersionFromFile('config.schema.json') ?? cleoVersion;
-    const projectContextSchemaVersion = readSchemaVersionFromFile('project-context.schema.json') ?? '1.0.0';
-    const projectInfo = {
-        $schema: './schemas/project-info.schema.json',
-        schemaVersion: '1.0.0',
-        projectId: randomUUID(),
-        projectHash,
-        cleoVersion,
-        lastUpdated: now,
-        schemas: {
-            config: configSchemaVersion,
-            sqlite: SQLITE_SCHEMA_VERSION,
-            projectContext: projectContextSchemaVersion,
-        },
-        injection: {
-            'CLAUDE.md': null,
-            'AGENTS.md': null,
-            'GEMINI.md': null,
-        },
-        health: {
-            status: 'unknown',
-            lastCheck: null,
-            issues: [],
-        },
-        features: {
-            multiSession: false,
-            verification: false,
-            contextAlerts: false,
-        },
-    };
-    await writeFile(projectInfoPath, JSON.stringify(projectInfo, null, 2));
-    return { action: 'created', path: projectInfoPath };
-}
-/**
- * No-op. Kept for API compatibility.
- *
- * @param projectRoot - Absolute path to the project root directory
- * @returns Scaffold result with action "skipped"
- *
- * @remarks
- * This function was removed in Phase 2 production readiness but the export
- * is preserved to avoid breaking downstream callers.
- *
- * @example
- * ```typescript
- * const result = await ensureContributorMcp('/my/project');
- * // result.action === 'skipped'
- * ```
- */
-export async function ensureContributorMcp(projectRoot) {
-    return {
-        action: 'skipped',
-        path: projectRoot,
-        details: 'Removed (Phase 2 production readiness)',
-    };
-}
-/**
- * Detect and write project-context.json.
- * Idempotent: skips if file exists and is less than staleDays old (default: 30).
- *
- * @param projectRoot - Absolute path to the project root directory
- * @param opts - Optional configuration
- * @param opts.force - When true, regenerate even if the file is fresh
- * @param opts.staleDays - Age threshold in days before regeneration (default: 30)
- * @returns Scaffold result indicating the action taken
- *
- * @remarks
- * Runs project type detection (Node, Python, Rust, etc.) and writes the result.
- * Validates against the project-context schema before writing (best-effort).
- *
- * @example
- * ```typescript
- * const result = await ensureProjectContext('/my/project', { staleDays: 7 });
- * if (result.action === 'repaired') console.log('Context refreshed');
- * ```
- */
-export async function ensureProjectContext(projectRoot, opts) {
-    const cleoDir = getCleoDirAbsolute(projectRoot);
-    const contextPath = join(cleoDir, 'project-context.json');
-    const staleDays = opts?.staleDays ?? 30;
-    if (existsSync(contextPath) && !opts?.force) {
-        try {
-            const content = JSON.parse(readFileSync(contextPath, 'utf-8'));
-            if (content.detectedAt) {
-                const detectedAt = new Date(content.detectedAt);
-                const ageMs = Date.now() - detectedAt.getTime();
-                const ageDays = ageMs / (1000 * 60 * 60 * 24);
-                if (ageDays < staleDays) {
-                    return {
-                        action: 'skipped',
-                        path: contextPath,
-                        details: `Fresh (${Math.floor(ageDays)}d old)`,
-                    };
-                }
-            }
-        }
-        catch {
-            // If we can't parse it, regenerate
-        }
-    }
-    const { detectProjectType } = await import('./store/project-detect.js');
-    const context = detectProjectType(projectRoot);
-    // Validate against schema before writing (best-effort, never blocks write)
-    try {
-        const schemaPath = join(dirname(fileURLToPath(import.meta.url)), '../schemas/project-context.schema.json');
-        if (existsSync(schemaPath)) {
-            const AjvModule = await import('ajv');
-            const ajvMod = AjvModule;
-            const AjvClass = (typeof ajvMod.default === 'function' ? ajvMod.default : AjvModule.default);
-            const schema = JSON.parse(readFileSync(schemaPath, 'utf-8'));
-            const ajv = new AjvClass({ strict: false });
-            const valid = ajv.validate(schema, context);
-            if (!valid) {
-                // eslint-disable-next-line no-console
-                console.warn('[CLEO] project-context.json schema validation warnings:', ajv.errors);
-            }
-        }
-    }
-    catch {
-        // Schema validation is best-effort — never block the write
-    }
-    await writeFile(contextPath, JSON.stringify(context, null, 2));
-    return {
-        action: existsSync(contextPath) ? 'repaired' : 'created',
-        path: contextPath,
-    };
-}
-/**
- * Initialize isolated .cleo/.git checkpoint repository.
- * Idempotent: skips if .cleo/.git already exists.
- *
- * @param projectRoot - Absolute path to the project root directory
- * @returns Scaffold result indicating the action taken
- *
- * @remarks
- * Creates an isolated git repository inside .cleo/ for checkpoint tracking.
- * The repo uses `GIT_DIR` and `GIT_WORK_TREE` environment variables to avoid
- * interfering with the project's own git repository.
- *
- * @example
- * ```typescript
- * const result = await ensureCleoGitRepo('/my/project');
- * console.log(result.action); // "created" or "skipped"
- * ```
- */
-export async function ensureCleoGitRepo(projectRoot) {
-    const cleoDir = getCleoDirAbsolute(projectRoot);
-    const cleoGitDir = join(cleoDir, '.git');
-    if (existsSync(cleoGitDir)) {
-        return { action: 'skipped', path: cleoGitDir, details: 'Already initialized' };
-    }
-    const gitEnv = {
-        ...process.env,
-        GIT_DIR: cleoGitDir,
-        GIT_WORK_TREE: cleoDir,
-    };
-    await execFileAsync('git', ['init', '--quiet'], { cwd: cleoDir, env: gitEnv });
-    await execFileAsync('git', ['config', 'user.email', 'cleo@local'], { cwd: cleoDir, env: gitEnv });
-    await execFileAsync('git', ['config', 'user.name', 'CLEO'], { cwd: cleoDir, env: gitEnv });
-    return { action: 'created', path: cleoGitDir, details: 'Isolated checkpoint repository' };
-}
-/**
- * Create SQLite database if missing.
- * Idempotent: skips if tasks.db already exists.
- *
- * @param projectRoot - Absolute path to the project root directory
- * @returns Scaffold result indicating the action taken
- *
- * @remarks
- * Initializes the tasks.db SQLite database by calling `getDb()` which runs
- * schema migrations. Returns a skipped result with error details if initialization fails.
- *
- * @example
- * ```typescript
- * const result = await ensureSqliteDb('/my/project');
- * if (result.action === 'created') console.log('Database ready');
- * ```
- */
-export async function ensureSqliteDb(projectRoot) {
-    const cleoDir = getCleoDirAbsolute(projectRoot);
-    const dbPath = join(cleoDir, 'tasks.db');
-    if (existsSync(dbPath)) {
-        return { action: 'skipped', path: dbPath, details: 'tasks.db already exists' };
-    }
-    try {
-        const { getDb } = await import('./store/sqlite.js');
-        await getDb(projectRoot);
-        return { action: 'created', path: dbPath, details: 'SQLite database initialized' };
-    }
-    catch (err) {
-        return {
-            action: 'skipped',
-            path: dbPath,
-            details: `Failed to initialize SQLite: ${err instanceof Error ? err.message : String(err)}`,
-        };
-    }
-}
-// ── check* functions (read-only) ─────────────────────────────────────
-/**
- * Verify all required .cleo/ subdirectories exist.
- *
- * @param projectRoot - Absolute path to the project root directory
- * @returns Check result with status and list of any missing subdirectories
- *
- * @remarks
- * Read-only diagnostic. Checks for the .cleo/ directory and all entries
- * in `REQUIRED_CLEO_SUBDIRS`. Reports "failed" if .cleo/ is missing,
- * "warning" if subdirectories are missing, "passed" otherwise.
- *
- * @example
- * ```typescript
- * const check = checkCleoStructure('/my/project');
- * if (check.status === 'failed') console.log(check.fix);
- * ```
- */
-export function checkCleoStructure(projectRoot) {
-    const cleoDir = getCleoDirAbsolute(projectRoot);
-    const missing = [];
-    if (!existsSync(cleoDir)) {
-        return {
-            id: 'cleo_structure',
-            category: 'scaffold',
-            status: 'failed',
-            message: '.cleo/ directory does not exist',
-            details: { path: cleoDir, exists: false },
-            fix: 'cleo init',
-        };
-    }
-    for (const subdir of REQUIRED_CLEO_SUBDIRS) {
-        if (!existsSync(join(cleoDir, subdir))) {
-            missing.push(subdir);
-        }
-    }
-    if (missing.length > 0) {
-        return {
-            id: 'cleo_structure',
-            category: 'scaffold',
-            status: 'warning',
-            message: `Missing subdirectories: ${missing.join(', ')}`,
-            details: { path: cleoDir, missing },
-            fix: 'cleo init',
-        };
-    }
-    return {
-        id: 'cleo_structure',
-        category: 'scaffold',
-        status: 'passed',
-        message: 'All required .cleo/ subdirectories exist',
-        details: { path: cleoDir, subdirs: [...REQUIRED_CLEO_SUBDIRS] },
-        fix: null,
-    };
-}
-/**
- * Verify .cleo/.gitignore exists and matches template.
- *
- * @param projectRoot - Absolute path to the project root directory
- * @returns Check result indicating whether the gitignore matches the template
- *
- * @remarks
- * Read-only diagnostic. Normalizes whitespace before comparison.
- * Reports "warning" if the file is missing or drifted from the template.
- *
- * @example
- * ```typescript
- * const check = checkGitignore('/my/project');
- * if (check.status === 'warning') console.log('Gitignore drifted');
- * ```
- */
-export function checkGitignore(projectRoot) {
-    const cleoDir = getCleoDirAbsolute(projectRoot);
-    const gitignorePath = join(cleoDir, '.gitignore');
-    if (!existsSync(gitignorePath)) {
-        return {
-            id: 'cleo_gitignore',
-            category: 'scaffold',
-            status: 'warning',
-            message: '.cleo/.gitignore not found',
-            details: { path: gitignorePath, exists: false },
-            fix: 'cleo init --force',
-        };
-    }
-    const installed = readFileSync(gitignorePath, 'utf-8');
-    const template = getGitignoreContent();
-    const normalize = (s) => s.trim().replace(/\r\n/g, '\n');
-    const matches = normalize(installed) === normalize(template);
-    return {
-        id: 'cleo_gitignore',
-        category: 'scaffold',
-        status: matches ? 'passed' : 'warning',
-        message: matches
-            ? '.cleo/.gitignore matches template'
-            : '.cleo/.gitignore has drifted from template',
-        details: { path: gitignorePath, matchesTemplate: matches },
-        fix: matches ? null : 'cleo upgrade',
-    };
-}
-/**
- * Verify config.json exists and is valid JSON.
- *
- * @param projectRoot - Absolute path to the project root directory
- * @returns Check result indicating whether config.json is present and valid
- *
- * @remarks
- * Read-only diagnostic. Reports "failed" if the file is missing or contains
- * invalid JSON. Does not validate config schema, only JSON syntax.
- *
- * @example
- * ```typescript
- * const check = checkConfig('/my/project');
- * if (check.status === 'passed') console.log('Config OK');
- * ```
- */
-export function checkConfig(projectRoot) {
-    const configPath = getConfigPath(projectRoot);
-    if (!existsSync(configPath)) {
-        return {
-            id: 'cleo_config',
-            category: 'scaffold',
-            status: 'failed',
-            message: 'config.json not found',
-            details: { path: configPath, exists: false },
-            fix: 'cleo init',
-        };
-    }
-    try {
-        JSON.parse(readFileSync(configPath, 'utf-8'));
-    }
-    catch (err) {
-        return {
-            id: 'cleo_config',
-            category: 'scaffold',
-            status: 'failed',
-            message: `config.json is not valid JSON: ${err instanceof Error ? err.message : String(err)}`,
-            details: { path: configPath, valid: false },
-            fix: 'cleo init --force',
-        };
-    }
-    return {
-        id: 'cleo_config',
-        category: 'scaffold',
-        status: 'passed',
-        message: 'config.json exists and is valid JSON',
-        details: { path: configPath, valid: true },
-        fix: null,
-    };
-}
-/**
- * Verify project-info.json exists with required fields.
- *
- * @param projectRoot - Absolute path to the project root directory
- * @returns Check result indicating whether project-info.json is valid
- *
- * @remarks
- * Read-only diagnostic. Checks for presence and required fields: projectHash,
- * cleoVersion, and lastUpdated. Reports "warning" on missing fields, "failed" on
- * missing file or invalid JSON.
- *
- * @example
- * ```typescript
- * const check = checkProjectInfo('/my/project');
- * if (check.status !== 'passed') console.log(check.fix);
- * ```
- */
-export function checkProjectInfo(projectRoot) {
-    const cleoDir = getCleoDirAbsolute(projectRoot);
-    const infoPath = join(cleoDir, 'project-info.json');
-    if (!existsSync(infoPath)) {
-        return {
-            id: 'cleo_project_info',
-            category: 'scaffold',
-            status: 'warning',
-            message: 'project-info.json not found',
-            details: { path: infoPath, exists: false },
-            fix: 'cleo init',
-        };
-    }
-    try {
-        const content = JSON.parse(readFileSync(infoPath, 'utf-8'));
-        const requiredFields = ['projectHash', 'cleoVersion', 'lastUpdated'];
-        const missing = requiredFields.filter((f) => !(f in content));
-        if (missing.length > 0) {
-            return {
-                id: 'cleo_project_info',
-                category: 'scaffold',
-                status: 'warning',
-                message: `project-info.json missing fields: ${missing.join(', ')}`,
-                details: { path: infoPath, missingFields: missing },
-                fix: 'cleo init --force',
-            };
-        }
-        return {
-            id: 'cleo_project_info',
-            category: 'scaffold',
-            status: 'passed',
-            message: 'project-info.json exists with all required fields',
-            details: { path: infoPath, valid: true },
-            fix: null,
-        };
-    }
-    catch (err) {
-        return {
-            id: 'cleo_project_info',
-            category: 'scaffold',
-            status: 'failed',
-            message: `project-info.json is not valid JSON: ${err instanceof Error ? err.message : String(err)}`,
-            details: { path: infoPath, valid: false },
-            fix: 'cleo init --force',
-        };
-    }
-}
-/**
- * Verify project-context.json exists and is not stale (default: 30 days).
- *
- * @param projectRoot - Absolute path to the project root directory
- * @param staleDays - Age threshold in days before reporting as stale (default: 30)
- * @returns Check result with freshness assessment
- *
- * @remarks
- * Read-only diagnostic. Checks for the `detectedAt` timestamp and compares
- * its age against the staleness threshold. Reports "warning" if stale or
- * missing, "failed" if the file contains invalid JSON.
- *
- * @example
- * ```typescript
- * const check = checkProjectContext('/my/project', 14);
- * if (check.status === 'warning') console.log('Context is stale');
- * ```
- */
-export function checkProjectContext(projectRoot, staleDays = 30) {
-    const cleoDir = getCleoDirAbsolute(projectRoot);
-    const contextPath = join(cleoDir, 'project-context.json');
-    if (!existsSync(contextPath)) {
-        return {
-            id: 'cleo_project_context',
-            category: 'scaffold',
-            status: 'warning',
-            message: 'project-context.json not found',
-            details: { path: contextPath, exists: false },
-            fix: 'cleo init --detect',
-        };
-    }
-    try {
-        const content = JSON.parse(readFileSync(contextPath, 'utf-8'));
-        if (!content.detectedAt) {
-            return {
-                id: 'cleo_project_context',
-                category: 'scaffold',
-                status: 'warning',
-                message: 'project-context.json missing detectedAt timestamp',
-                details: { path: contextPath, hasTimestamp: false },
-                fix: 'cleo init --detect',
-            };
-        }
-        const detectedAt = new Date(content.detectedAt);
-        const ageMs = Date.now() - detectedAt.getTime();
-        const ageDays = ageMs / (1000 * 60 * 60 * 24);
-        if (ageDays > staleDays) {
-            return {
-                id: 'cleo_project_context',
-                category: 'scaffold',
-                status: 'warning',
-                message: `project-context.json is stale (${Math.floor(ageDays)} days old, threshold: ${staleDays})`,
-                details: { path: contextPath, ageDays: Math.floor(ageDays), staleDays },
-                fix: 'cleo init --detect',
-            };
-        }
-        return {
-            id: 'cleo_project_context',
-            category: 'scaffold',
-            status: 'passed',
-            message: `project-context.json is fresh (${Math.floor(ageDays)} days old)`,
-            details: { path: contextPath, ageDays: Math.floor(ageDays), staleDays },
-            fix: null,
-        };
-    }
-    catch (err) {
-        return {
-            id: 'cleo_project_context',
-            category: 'scaffold',
-            status: 'failed',
-            message: `project-context.json is not valid JSON: ${err instanceof Error ? err.message : String(err)}`,
-            details: { path: contextPath, valid: false },
-            fix: 'cleo init --detect',
-        };
-    }
-}
-/**
- * Verify .cleo/.git checkpoint repository exists.
- *
- * @param projectRoot - Absolute path to the project root directory
- * @returns Check result indicating whether the checkpoint repo is present
- *
- * @remarks
- * Read-only diagnostic. Reports "warning" if the .cleo/.git directory is missing.
- *
- * @example
- * ```typescript
- * const check = checkCleoGitRepo('/my/project');
- * console.log(check.status); // "passed" or "warning"
- * ```
- */
-export function checkCleoGitRepo(projectRoot) {
-    const cleoDir = getCleoDirAbsolute(projectRoot);
-    const cleoGitDir = join(cleoDir, '.git');
-    if (!existsSync(cleoGitDir)) {
-        return {
-            id: 'cleo_git_repo',
-            category: 'scaffold',
-            status: 'warning',
-            message: '.cleo/.git checkpoint repository not found',
-            details: { path: cleoGitDir, exists: false },
-            fix: 'cleo init',
-        };
-    }
-    return {
-        id: 'cleo_git_repo',
-        category: 'scaffold',
-        status: 'passed',
-        message: '.cleo/.git checkpoint repository exists',
-        details: { path: cleoGitDir, exists: true },
-        fix: null,
-    };
-}
-/**
- * Verify .cleo/tasks.db exists and is non-empty.
- *
- * @param projectRoot - Absolute path to the project root directory
- * @returns Check result with database existence and size information
- *
- * @remarks
- * Read-only diagnostic. Reports "failed" if the file is missing, "warning" if
- * the file exists but is 0 bytes, "passed" otherwise.
- *
- * @example
- * ```typescript
- * const check = checkSqliteDb('/my/project');
- * if (check.status === 'failed') console.log('No database:', check.fix);
- * ```
- */
-export function checkSqliteDb(projectRoot) {
-    const cleoDir = getCleoDirAbsolute(projectRoot);
-    const dbPath = join(cleoDir, 'tasks.db');
-    if (!existsSync(dbPath)) {
-        return {
-            id: 'sqlite_db',
-            category: 'scaffold',
-            status: 'failed',
-            message: 'tasks.db not found',
-            details: { path: dbPath, exists: false },
-            fix: 'cleo init',
-        };
-    }
-    const stat = statSync(dbPath);
-    if (stat.size === 0) {
-        return {
-            id: 'sqlite_db',
-            category: 'scaffold',
-            status: 'warning',
-            message: 'tasks.db exists but is empty (0 bytes)',
-            details: { path: dbPath, exists: true, size: 0 },
-            fix: 'cleo upgrade',
-        };
-    }
-    return {
-        id: 'sqlite_db',
-        category: 'scaffold',
-        status: 'passed',
-        message: `tasks.db exists (${stat.size} bytes)`,
-        details: { path: dbPath, exists: true, size: stat.size },
-        fix: null,
-    };
-}
-/**
- * Create brain.db if missing.
- * Idempotent: skips if brain.db already exists.
- *
- * @param projectRoot - Absolute path to the project root directory
- * @returns Scaffold result indicating the action taken
- *
- * @remarks
- * Initializes brain.db with Drizzle schema and eagerly creates FTS5 virtual
- * tables for full-text search (T5698). Also ensures FTS5 tables on pre-existing
- * databases that may lack them.
- *
- * @example
- * ```typescript
- * const result = await ensureBrainDb('/my/project');
- * if (result.action === 'created') console.log('Brain database ready');
- * ```
- */
-export async function ensureBrainDb(projectRoot) {
-    const cleoDir = getCleoDirAbsolute(projectRoot);
-    const dbPath = join(cleoDir, 'brain.db');
-    if (existsSync(dbPath)) {
-        // Ensure FTS5 tables exist even for pre-existing brain.db (T5698)
-        try {
-            const { getBrainNativeDb } = await import('./store/brain-sqlite.js');
-            const nativeDb = getBrainNativeDb();
-            if (nativeDb) {
-                const { ensureFts5Tables } = await import('./memory/brain-search.js');
-                ensureFts5Tables(nativeDb);
-            }
-        }
-        catch {
-            // Non-fatal — FTS5 may not be available
-        }
-        return { action: 'skipped', path: dbPath, details: 'brain.db already exists' };
-    }
-    try {
-        const { getBrainDb, getBrainNativeDb } = await import('./store/brain-sqlite.js');
-        await getBrainDb(projectRoot);
-        // Create FTS5 virtual tables eagerly so search works immediately (T5698)
-        try {
-            const nativeDb = getBrainNativeDb();
-            if (nativeDb) {
-                const { ensureFts5Tables } = await import('./memory/brain-search.js');
-                ensureFts5Tables(nativeDb);
-            }
-        }
-        catch {
-            // FTS5 may not be available in all SQLite builds — non-fatal
-        }
-        return { action: 'created', path: dbPath, details: 'Brain database initialized with FTS5' };
-    }
-    catch (err) {
-        return {
-            action: 'skipped',
-            path: dbPath,
-            details: `Failed to initialize brain.db: ${err instanceof Error ? err.message : String(err)}`,
-        };
-    }
-}
-/**
- * Verify .cleo/brain.db exists and is non-empty.
- *
- * @param projectRoot - Absolute path to the project root directory
- * @returns Check result with database existence and size information
- *
- * @remarks
- * Read-only diagnostic. Reports "failed" if the file is missing, "warning" if
- * the file exists but is 0 bytes, "passed" otherwise.
- *
- * @example
- * ```typescript
- * const check = checkBrainDb('/my/project');
- * console.log(check.status);
- * ```
- */
-export function checkBrainDb(projectRoot) {
-    const cleoDir = getCleoDirAbsolute(projectRoot);
-    const dbPath = join(cleoDir, 'brain.db');
-    if (!existsSync(dbPath)) {
-        return {
-            id: 'brain_db',
-            category: 'scaffold',
-            status: 'failed',
-            message: 'brain.db not found',
-            details: { path: dbPath, exists: false },
-            fix: 'cleo init',
-        };
-    }
-    const stat = statSync(dbPath);
-    if (stat.size === 0) {
-        return {
-            id: 'brain_db',
-            category: 'scaffold',
-            status: 'warning',
-            message: 'brain.db exists but is empty (0 bytes)',
-            details: { path: dbPath, exists: true, size: 0 },
-            fix: 'cleo upgrade',
-        };
-    }
-    return {
-        id: 'brain_db',
-        category: 'scaffold',
-        status: 'passed',
-        message: `brain.db exists (${stat.size} bytes)`,
-        details: { path: dbPath, exists: true, size: stat.size },
-        fix: null,
-    };
-}
-/**
- * Verify .cleo/memory-bridge.md exists.
- * Warning level if missing (not failure) -- it is auto-generated.
- *
- * @param projectRoot - Absolute path to the project root directory
- * @returns Check result indicating presence of the memory bridge file
- *
- * @remarks
- * Read-only diagnostic. The memory bridge is auto-generated from brain.db
- * content, so its absence is only a warning (not a failure).
- *
- * @example
- * ```typescript
- * const check = checkMemoryBridge('/my/project');
- * if (check.status === 'warning') console.log('Run: cleo refresh-memory');
- * ```
- */
-export function checkMemoryBridge(projectRoot) {
-    const cleoDir = getCleoDirAbsolute(projectRoot);
-    const bridgePath = join(cleoDir, 'memory-bridge.md');
-    if (!existsSync(bridgePath)) {
-        return {
-            id: 'memory_bridge',
-            category: 'scaffold',
-            status: 'warning',
-            message: 'memory-bridge.md not found',
-            details: { path: bridgePath, exists: false },
-            fix: 'cleo init or cleo refresh-memory',
-        };
-    }
-    return {
-        id: 'memory_bridge',
-        category: 'scaffold',
-        status: 'passed',
-        message: 'memory-bridge.md exists',
-        details: { path: bridgePath, exists: true },
-        fix: null,
-    };
-}
-// ── Global (~/.cleo) scaffold functions ──────────────────────────────
-/**
- * Required subdirectories under the global ~/.cleo/ home.
- * These are infrastructure directories managed by CLEO itself,
- * not project-specific data.
- *
- * Truly global:
- *   - logs      — global log output
- *   - templates — CLEO-INJECTION.md symlink target
- *
- * Note: nexus.db lives directly in ~/.cleo/, not a subdir.
- * Schemas are read at runtime from getPackageRoot()/schemas/ — no copy needed.
- * Project-level dirs (adrs/, rcasd/, agent-outputs/, backups/) live in .cleo/ only.
- */
-export const REQUIRED_GLOBAL_SUBDIRS = [
-    'logs',
-    'templates',
-    // CleoOS hub (Phase 1): cross-project recipe library, Pi extensions, CANT workflows
-    'global-recipes',
-    'pi-extensions',
-    'cant-workflows',
-    'agents',
-];
-/**
- * Stale entries that must NOT exist at the global ~/.cleo/ level.
- * These were project-level artefacts accidentally placed in the global home
- * by old versions of CLEO. They are safe to remove because:
- *   - adrs/, rcasd/, agent-outputs/, backups/ — project-level, live in .cleo/
- *   - sandbox/                                — unused
- *   - tasks.db / tasks.db-shm / tasks.db-wal  — project-level database files
- *   - brain-worker.pid                         — stale PID file
- *   - VERSION                                  — redundant (read from package.json)
- *   - schemas/                                 — now read from npm binary at runtime
- *   - bin/                                     — stale dev symlink directory
- */
-export const STALE_GLOBAL_ENTRIES = [
-    'adrs',
-    'rcasd',
-    'agent-outputs',
-    'backups',
-    'sandbox',
-    'tasks.db',
-    'tasks.db-shm',
-    'tasks.db-wal',
-    'brain-worker.pid',
-    'VERSION',
-    'schemas',
-    'bin',
-    '.install-state',
-    'templates/templates',
-];
-/**
- * Ensure the global ~/.cleo/ home directory and its required
- * subdirectories exist. Idempotent: skips directories that already exist.
- *
- * Also removes known stale project-level entries that old CLEO versions
- * incorrectly placed at the global level (see STALE_GLOBAL_ENTRIES).
- *
- * This is the SSoT for global home scaffolding, replacing raw mkdirSync
- * calls that were previously scattered across global-bootstrap.ts.
- *
- * @returns Scaffold result indicating the action taken
- *
- * @remarks
- * Also creates a global config.json from template if absent. Cleans up
- * stale entries from both the current and legacy (~/.cleo/) global home paths.
- *
- * @example
- * ```typescript
- * const result = await ensureGlobalHome();
- * console.log(result.action); // "created" or "skipped"
- * ```
- */
-export async function ensureGlobalHome() {
-    const cleoHome = getCleoHome();
-    const alreadyExists = existsSync(cleoHome);
-    await mkdir(cleoHome, { recursive: true });
-    for (const subdir of REQUIRED_GLOBAL_SUBDIRS) {
-        await mkdir(join(cleoHome, subdir), { recursive: true });
-    }
-    // Create global config.json from template if it doesn't exist
-    const globalConfigPath = join(cleoHome, 'config.json');
-    if (!existsSync(globalConfigPath)) {
-        const templatePath = join(getPackageRoot(), 'templates', 'global-config.template.json');
-        if (existsSync(templatePath)) {
-            const template = readFileSync(templatePath, 'utf-8');
-            const resolved = template.replace('{{SCHEMA_VERSION_GLOBAL_CONFIG}}', '1.0.0');
-            await writeFile(globalConfigPath, resolved);
-        }
-    }
-    // Remove stale project-level entries from both the current global home
-    // AND the legacy ~/.cleo/ path (old CLEO versions used ~/.cleo/ before
-    // env-paths moved it to the XDG-compliant location).
-    const homedir = (await import('node:os')).homedir();
-    const legacyCleoHome = join(homedir, '.cleo');
-    const cleanupPaths = [cleoHome];
-    if (legacyCleoHome !== cleoHome && existsSync(legacyCleoHome)) {
-        cleanupPaths.push(legacyCleoHome);
-    }
-    for (const homeDir of cleanupPaths) {
-        for (const stale of STALE_GLOBAL_ENTRIES) {
-            const stalePath = join(homeDir, stale);
-            if (existsSync(stalePath)) {
-                try {
-                    await rm(stalePath, { recursive: true, force: true });
-                    // eslint-disable-next-line no-console
-                    console.warn(`[CLEO] Removed stale global entry: ${stalePath}`);
-                }
-                catch (err) {
-                    // eslint-disable-next-line no-console
-                    console.warn(`[CLEO] Could not remove stale global entry ${stalePath}: ${err instanceof Error ? err.message : String(err)}`);
-                }
-            }
-        }
-    }
-    return {
-        action: alreadyExists ? 'skipped' : 'created',
-        path: cleoHome,
-        details: alreadyExists
-            ? 'Global home already existed, ensured subdirs'
-            : `Created ~/.cleo/ with ${REQUIRED_GLOBAL_SUBDIRS.length} subdirectories`,
-    };
-}
-/**
- * Ensure the global CLEO injection template is installed.
- * Delegates to injection.ts for the template content, but owns the
- * filesystem write to maintain SSoT for scaffolding.
- *
- * Idempotent: skips if the template already exists with correct content.
- *
- * @returns Scaffold result indicating the action taken
- *
- * @remarks
- * Lazy-imports injection.ts to avoid circular dependencies. Compares file
- * content byte-for-byte; repairs if the installed version differs from the
- * bundled template.
- *
- * @example
- * ```typescript
- * const result = await ensureGlobalTemplates();
- * if (result.action === 'repaired') console.log('Template updated');
- * ```
- */
-export async function ensureGlobalTemplates() {
-    // Lazy import to avoid circular dependency (injection imports scaffold)
-    const { getInjectionTemplateContent } = await import('./injection.js');
-    const templatesDir = getCleoTemplatesDir();
-    const injectionPath = join(templatesDir, 'CLEO-INJECTION.md');
-    // Ensure directory exists (idempotent via ensureGlobalHome, but defensive)
-    await mkdir(templatesDir, { recursive: true });
-    const templateContent = getInjectionTemplateContent();
-    if (!templateContent) {
-        return {
-            action: 'skipped',
-            path: injectionPath,
-            details: 'Bundled injection template not found; skipped',
-        };
-    }
-    if (existsSync(injectionPath)) {
-        const existing = readFileSync(injectionPath, 'utf-8');
-        if (existing === templateContent) {
-            return { action: 'skipped', path: injectionPath, details: 'Template already current' };
-        }
-        // Content differs — repair
-        await writeFile(injectionPath, templateContent, 'utf-8');
-        return {
-            action: 'repaired',
-            path: injectionPath,
-            details: 'Updated injection template to match bundled version',
-        };
-    }
-    await writeFile(injectionPath, templateContent, 'utf-8');
-    return { action: 'created', path: injectionPath };
-}
-/**
- * Perform a complete global scaffold operation: ensure home and templates
- * are all present and current. This is the single entry point for global
- * infrastructure scaffolding.
- *
- * Schemas are NOT copied here — they are read at runtime from the npm
- * package path (getPackageRoot() + '/schemas/'). Use ensureGlobalSchemas()
- * explicitly from init or upgrade if a copy is needed for a specific workflow.
- *
- * Used by:
- *   - CLI startup (via startupHealthCheck in health.ts)
- *   - init (for first-time global setup)
- *   - upgrade (for global repair)
- *
- * @returns Combined scaffold results for home and templates
- *
- * @remarks
- * Calls ensureGlobalHome and ensureGlobalTemplates in sequence.
- * Schemas are NOT copied here -- they are read at runtime from the npm
- * package path.
- *
- * @example
- * ```typescript
- * const { home, templates } = await ensureGlobalScaffold();
- * console.log(home.action, templates.action);
- * ```
- */
-export async function ensureGlobalScaffold() {
-    const home = await ensureGlobalHome();
-    const templates = await ensureGlobalTemplates();
-    const cleoosHub = await ensureCleoOsHub();
-    return { home, templates, cleoosHub };
-}
-// ── CleoOS Hub scaffolding (Phase 1) ─────────────────────────────────
-/**
- * Recursively copy a template tree from {@link srcDir} into {@link dstDir}.
- *
- * Never overwrites existing files: any file that already exists at the
- * destination is left untouched, preserving user/agent edits. Missing
- * subdirectories are created on demand. Symbolic links and special files
- * are skipped silently.
- *
- * @param srcDir - Absolute path to the template source directory
- * @param dstDir - Absolute path to the destination directory
- * @returns Counts of files copied vs files that already existed and were kept
- *
- * @remarks
- * Returns `{ copied: 0, kept: 0 }` if the source directory does not exist.
- * Designed as the workhorse for {@link ensureCleoOsHub} and any other
- * idempotent template scaffolding that ships with the npm package.
- *
- * @example
- * ```typescript
- * const { copied, kept } = await copyTemplateTree(
- *   '/usr/lib/node_modules/@cleocode/cleo/templates/cleoos-hub/pi-extensions',
- *   '/home/me/.local/share/cleo/pi-extensions',
- * );
- * console.log(`copied ${copied}, kept ${kept}`);
- * ```
- */
-async function copyTemplateTree(srcDir, dstDir) {
-    if (!existsSync(srcDir)) {
-        return { copied: 0, kept: 0 };
-    }
-    await mkdir(dstDir, { recursive: true });
-    let copied = 0;
-    let kept = 0;
-    let entries;
-    try {
-        entries = await readdir(srcDir, { withFileTypes: true });
-    }
-    catch (err) {
-        // eslint-disable-next-line no-console
-        console.warn(`[CLEO] Could not read template dir ${srcDir}: ${err instanceof Error ? err.message : String(err)}`);
-        return { copied: 0, kept: 0 };
-    }
-    for (const entry of entries) {
-        const srcPath = join(srcDir, entry.name);
-        const dstPath = join(dstDir, entry.name);
-        if (entry.isDirectory()) {
-            const sub = await copyTemplateTree(srcPath, dstPath);
-            copied += sub.copied;
-            kept += sub.kept;
-            continue;
-        }
-        if (!entry.isFile()) {
-            // Skip symlinks, sockets, devices, etc.
-            continue;
-        }
-        if (existsSync(dstPath)) {
-            kept += 1;
-            continue;
-        }
-        try {
-            await copyFile(srcPath, dstPath);
-            copied += 1;
-        }
-        catch (err) {
-            // eslint-disable-next-line no-console
-            console.warn(`[CLEO] Could not copy template file ${srcPath} -> ${dstPath}: ${err instanceof Error ? err.message : String(err)}`);
-        }
-    }
-    return { copied, kept };
-}
-/**
- * Resolve the absolute root directory of the bundled CleoOS hub templates.
- *
- * The templates ship inside the `@cleocode/cleo` package at
- * `templates/cleoos-hub/`. Because `scaffold.ts` is authored in
- * `@cleocode/core` but is also esbuilt directly into the `@cleocode/cleo`
- * CLI bundle, the runtime location of `import.meta.url` (and therefore
- * {@link getPackageRoot}) varies across deployment shapes. The candidate
- * list below covers every layout we ship:
- *
- *   1. **Bundled cleo (npm install)** — `dist/cli/index.js` lives at
- *      `node_modules/@cleocode/cleo/dist/cli/index.js`, so
- *      `getPackageRoot()` resolves to `node_modules/@cleocode/cleo/dist`
- *      and `../templates/cleoos-hub` reaches the package's templates dir.
- *   2. **Bundled cleo (dev workspace via build.mjs)** — `dist/cli/index.js`
- *      lives at `packages/cleo/dist/cli/index.js`; same `../templates/...`
- *      candidate as above.
- *   3. **Unbundled core (workspace tsc)** — scaffold.ts is loaded as
- *      `packages/core/src/scaffold.ts`, so `getPackageRoot()` resolves to
- *      `packages/core/` and `../cleo/templates/cleoos-hub` reaches the
- *      sibling cleo package.
- *   4. **Unbundled core (npm install of just @cleocode/core)** — the
- *      scope-sibling layout puts both packages under
- *      `node_modules/@cleocode/`, so the same `../cleo/templates/...`
- *      candidate works.
- *   5. **Legacy fallback** — if the cleo package ever bundles the templates
- *      directly under core, fall through to
- *      `getPackageRoot()/templates/cleoos-hub`.
- *
- * @returns Absolute path to the existing template root, or `null` if none found
- *
- * @remarks
- * Returning `null` allows callers to skip the scaffold gracefully instead of
- * crashing — important for the never-crash scaffold contract.
- */
-function resolveCleoOsHubTemplateRoot() {
-    const packageRoot = getPackageRoot();
-    const candidates = [
-        // Bundled cleo: getPackageRoot() = .../@cleocode/cleo/dist
-        join(packageRoot, '..', 'templates', 'cleoos-hub'),
-        // Unbundled core in workspace or scope-sibling install
-        join(packageRoot, '..', 'cleo', 'templates', 'cleoos-hub'),
-        // Workspace from monorepo root resolution (defensive)
-        join(packageRoot, '..', '..', 'packages', 'cleo', 'templates', 'cleoos-hub'),
-        // Legacy in-place fallback
-        join(packageRoot, 'templates', 'cleoos-hub'),
-    ];
-    return candidates.find((p) => existsSync(p)) ?? null;
-}
-/**
- * Ensure the CleoOS Hub subdirectories exist under the global CLEO home,
- * and seed all bundled hub templates if they are not already present.
- *
- * This is the Phase 1 scaffolding entry point. Idempotent: re-running is
- * safe and will never overwrite a file that already exists — human and
- * agent edits to the installed copies are always preserved.
- *
- * @returns Scaffold result for the CleoOS hub root
- *
- * @remarks
- * The CleoOS hub currently consists of:
- *   - `global-recipes/` (Justfile Hub: justfile + README)
- *   - `pi-extensions/`  (Pi extensions: orchestrator, stage-guide, cant-bridge)
- *   - `cant-workflows/` (CANT workflow library — created empty for agents)
- *   - `agents/`         (Global CANT agent definitions — created empty)
- *
- * Templates are sourced from the `@cleocode/cleo` package's bundled
- * `templates/cleoos-hub/` tree. The directory is resolved at runtime through
- * {@link resolveCleoOsHubTemplateRoot} so the same code path works in the
- * monorepo workspace and in an installed npm package layout.
- *
- * @example
- * ```typescript
- * const result = await ensureCleoOsHub();
- * console.log(result.action); // "created" or "skipped"
- * ```
- */
-export async function ensureCleoOsHub() {
-    const recipesDir = getCleoGlobalRecipesDir();
-    const piExtDir = getCleoPiExtensionsDir();
-    const cantWorkflowsDir = getCleoCantWorkflowsDir();
-    const agentsDir = getCleoGlobalAgentsDir();
-    // Always make sure the hub directory skeleton exists, even if templates
-    // can't be located (so downstream tools writing into them don't ENOENT).
-    try {
-        await mkdir(recipesDir, { recursive: true });
-        await mkdir(piExtDir, { recursive: true });
-        await mkdir(cantWorkflowsDir, { recursive: true });
-        await mkdir(agentsDir, { recursive: true });
-    }
-    catch (err) {
-        return {
-            action: 'skipped',
-            path: recipesDir,
-            details: `Failed to create CleoOS hub directories: ${err instanceof Error ? err.message : String(err)}`,
-        };
-    }
-    const templateRoot = resolveCleoOsHubTemplateRoot();
-    if (!templateRoot) {
-        return {
-            action: 'skipped',
-            path: recipesDir,
-            details: 'CleoOS hub template directory not found in any expected location',
-        };
-    }
-    let piResult;
-    let recipesResult;
-    try {
-        piResult = await copyTemplateTree(join(templateRoot, 'pi-extensions'), piExtDir);
-        recipesResult = await copyTemplateTree(join(templateRoot, 'global-recipes'), recipesDir);
-    }
-    catch (err) {
-        return {
-            action: 'skipped',
-            path: recipesDir,
-            details: `Failed to seed CleoOS hub templates: ${err instanceof Error ? err.message : String(err)}`,
-        };
-    }
-    const totalCopied = piResult.copied + recipesResult.copied;
-    return {
-        action: totalCopied > 0 ? 'created' : 'skipped',
-        path: recipesDir,
-        details: `pi-extensions: ${piResult.copied} created/${piResult.kept} kept, global-recipes: ${recipesResult.copied} created/${recipesResult.kept} kept`,
-    };
-}
-// ── Global check* functions (read-only diagnostics) ──────────────────
-/**
- * Check that the global ~/.cleo/ home and its required subdirectories exist.
- * Read-only: no side effects.
- *
- * @returns Check result with status and missing subdirectory details
- *
- * @remarks
- * Reports "failed" if the home directory itself is absent, "warning" if
- * subdirectories are missing, "passed" if all infrastructure is present.
- *
- * @example
- * ```typescript
- * const check = checkGlobalHome();
- * if (check.status !== 'passed') console.log(check.fix);
- * ```
- */
-export function checkGlobalHome() {
-    const cleoHome = getCleoHome();
-    if (!existsSync(cleoHome)) {
-        return {
-            id: 'global_home',
-            category: 'global',
-            status: 'failed',
-            message: 'Global ~/.cleo/ directory not found',
-            details: { path: cleoHome, exists: false },
-            fix: 'cleo init',
-        };
-    }
-    const missingDirs = REQUIRED_GLOBAL_SUBDIRS.filter((dir) => !existsSync(join(cleoHome, dir)));
-    if (missingDirs.length > 0) {
-        return {
-            id: 'global_home',
-            category: 'global',
-            status: 'warning',
-            message: `Global home exists but missing subdirs: ${missingDirs.join(', ')}`,
-            details: { path: cleoHome, exists: true, missingDirs },
-            fix: 'cleo upgrade --include-global',
-        };
-    }
-    return {
-        id: 'global_home',
-        category: 'global',
-        status: 'passed',
-        message: 'Global ~/.cleo/ home and subdirectories present',
-        details: { path: cleoHome, exists: true, subdirs: REQUIRED_GLOBAL_SUBDIRS.length },
-        fix: null,
-    };
-}
-/**
- * Check that the global injection template is present and current.
- * Read-only: no side effects.
- *
- * @returns Check result with template version and sync status
- *
- * @remarks
- * Also checks for version drift between the XDG-compliant path and the
- * legacy ~/.cleo/templates/ path. Reports "warning" if versions differ.
- *
- * @example
- * ```typescript
- * const check = checkGlobalTemplates();
- * console.log(check.details.version);
- * ```
- */
-export function checkGlobalTemplates() {
-    const templatesDir = getCleoTemplatesDir();
-    const injectionPath = join(templatesDir, 'CLEO-INJECTION.md');
-    if (!existsSync(injectionPath)) {
-        return {
-            id: 'global_templates',
-            category: 'global',
-            status: 'failed',
-            message: 'CLEO-INJECTION.md template not found in global templates',
-            details: { path: injectionPath, exists: false },
-            fix: 'cleo init',
-        };
-    }
-    // Check version sync between XDG and legacy paths
-    const xdgContent = readFileSync(injectionPath, 'utf-8');
-    const xdgVersion = xdgContent.match(/^Version:\s*(.+)$/m)?.[1]?.trim();
-    const home = getHomedir();
-    const legacyPath = join(home, '.cleo', 'templates', 'CLEO-INJECTION.md');
-    if (existsSync(legacyPath)) {
-        const legacyContent = readFileSync(legacyPath, 'utf-8');
-        const legacyVersion = legacyContent.match(/^Version:\s*(.+)$/m)?.[1]?.trim();
-        if (legacyVersion && xdgVersion && legacyVersion !== xdgVersion) {
-            return {
-                id: 'global_templates',
-                category: 'global',
-                status: 'warning',
-                message: `Legacy template version (${legacyVersion}) out of sync with XDG (${xdgVersion})`,
-                details: { path: injectionPath, exists: true, xdgVersion, legacyVersion, legacyPath },
-                fix: 'npm install -g @cleocode/cleo (reinstall syncs both paths)',
-            };
-        }
-    }
-    return {
-        id: 'global_templates',
-        category: 'global',
-        status: 'passed',
-        message: `Global injection template present (v${xdgVersion ?? 'unknown'})`,
-        details: { path: injectionPath, exists: true, version: xdgVersion },
-        fix: null,
-    };
-}
-/**
- * Check that the project log directory exists.
- * Read-only: no side effects.
- *
- * @param projectRoot - Absolute path to the project root directory
- * @returns Check result indicating whether .cleo/logs/ is present
- *
- * @remarks
- * Reports "warning" if the log directory is absent, "passed" otherwise.
- *
- * @example
- * ```typescript
- * const check = checkLogDir('/my/project');
- * console.log(check.status);
- * ```
- */
-export function checkLogDir(projectRoot) {
-    const logDir = join(getCleoDirAbsolute(projectRoot), 'logs');
-    if (!existsSync(logDir)) {
-        return {
-            id: 'log_dir',
-            category: 'scaffold',
-            status: 'warning',
-            message: 'Log directory .cleo/logs/ not found',
-            details: { path: logDir, exists: false },
-            fix: 'cleo upgrade',
-        };
-    }
-    return {
-        id: 'log_dir',
-        category: 'scaffold',
-        status: 'passed',
-        message: 'Log directory .cleo/logs/ present',
-        details: { path: logDir, exists: true },
-        fix: null,
-    };
-}
-//# sourceMappingURL=scaffold.js.map