@cleocode/core 2026.3.37 → 2026.3.39

package/dist/init.js

@@ -1,599 +0,0 @@
-/**
- * Core init logic - project initialization and maintenance.
- *
- * Single source of truth for all init operations. Both CLI and MCP
- * delegate here (shared-core pattern).
- *
- * Handles:
- *   1. .cleo/ directory structure creation
- *   2. Core data files (config.json, tasks.db)
- *   3. Schema file installation (~/.cleo/schemas/)
- *   4. Sequence counter (SQLite schema_meta)
- *   5. Project info (.cleo/project-info.json)
- *   6. CAAMP injection into agent instruction files (AGENTS.md hub pattern)
- *   7. MCP server installation to detected providers
- *   8. Agent definition installation (cleo-subagent)
- *   9. Core skill installation via CAAMP
- *  10. NEXUS project registration
- *  11. Project type detection (--detect)
- *  12. Injection refresh (--update-docs)
- *  13. Git hook installation (commit-msg, pre-commit)
- *
- * @task T4681
- * @task T4682
- * @task T4684
- * @task T4685
- * @task T4686
- * @task T4687
- * @task T4689
- * @task T4706
- * @task T4707
- * @epic T4663
- */
-import { existsSync, readdirSync, readFileSync } from 'node:fs';
-import { copyFile, lstat, mkdir, readFile, symlink, unlink } from 'node:fs/promises';
-import { basename, dirname, join } from 'node:path';
-import { readJson } from './store/json.js';
-import { ExitCode } from '@cleocode/contracts';
-import { CleoError } from './errors.js';
-import { ensureGitHooks } from './hooks.js';
-import { ensureInjection } from './injection.js';
-import { writeMemoryBridge } from './memory/memory-bridge.js';
-import { migrateAgentOutputs } from './migration/agent-outputs.js';
-import { getAgentsHome, getCleoDirAbsolute, getProjectRoot } from './paths.js';
-// Shared utility imports
-import { ensureBrainDb, ensureCleoGitRepo, ensureCleoStructure, ensureConfig, ensureGitignore, ensureProjectContext, ensureProjectInfo, getPackageRoot, removeCleoFromRootGitignore, } from './scaffold.js';
-import { ensureGlobalSchemas } from './schema-management.js';
-// ── Init-specific operations ─────────────────────────────────────────
-/**
- * Install cleo-subagent agent definition to ~/.agents/agents/.
- * @task T4685
- */
-export async function initAgentDefinition(created, warnings) {
-    const packageRoot = getPackageRoot();
-    const agentSourceDir = join(packageRoot, 'agents', 'cleo-subagent');
-    if (!existsSync(agentSourceDir)) {
-        warnings.push('agents/cleo-subagent/ not found in package, skipping agent definition install');
-        return;
-    }
-    const globalAgentsDir = join(getAgentsHome(), 'agents', 'cleo-subagent');
-    await mkdir(dirname(globalAgentsDir), { recursive: true });
-    try {
-        // Check if symlink already exists
-        try {
-            const stat = await lstat(globalAgentsDir);
-            if (stat.isSymbolicLink() || stat.isDirectory()) {
-                // Already installed
-                return;
-            }
-        }
-        catch {
-            // Doesn't exist, proceed to create
-        }
-        // Create symlink from ~/.agents/agents/cleo-subagent -> package agents/cleo-subagent/
-        await symlink(agentSourceDir, globalAgentsDir, 'dir');
-        created.push('agent: cleo-subagent (symlinked)');
-    }
-    catch (_err) {
-        // If symlink fails (e.g., permissions), try copying
-        try {
-            await mkdir(globalAgentsDir, { recursive: true });
-            const files = readdirSync(agentSourceDir);
-            for (const file of files) {
-                await copyFile(join(agentSourceDir, file), join(globalAgentsDir, file));
-            }
-            created.push('agent: cleo-subagent (copied)');
-        }
-        catch (copyErr) {
-            warnings.push(`Agent definition install: ${copyErr instanceof Error ? copyErr.message : String(copyErr)}`);
-        }
-    }
-}
-/**
- * Install MCP server config to all detected providers via CAAMP.
- * @task T4706
- */
-export async function initMcpServer(projectRoot, created, warnings) {
-    try {
-        const { detectEnvMode, generateMcpServerEntry, getMcpServerName } = await import('./mcp/index.js');
-        const { getInstalledProviders, installMcpServerToAll } = await import('@cleocode/caamp');
-        const env = detectEnvMode();
-        const serverEntry = generateMcpServerEntry(env);
-        const serverName = getMcpServerName(env);
-        const providers = getInstalledProviders();
-        if (providers.length === 0) {
-            return;
-        }
-        // MCP server config is a system-level tool setup by default.
-        // Project-level CLEO data still lives in per-project .cleo/.
-        const results = await installMcpServerToAll(providers, serverName, serverEntry, 'global', projectRoot);
-        const successes = results.filter((r) => r.success);
-        const failures = results.filter((r) => !r.success);
-        if (successes.length > 0) {
-            created.push(`MCP server: ${successes.map((r) => r.provider.id).join(', ')}`);
-        }
-        for (const f of failures) {
-            if (f.error) {
-                warnings.push(`MCP install to ${f.provider.id}: ${f.error}`);
-            }
-        }
-    }
-    catch (err) {
-        warnings.push(`MCP server install: ${err instanceof Error ? err.message : String(err)}`);
-    }
-}
-/**
- * Install CLEO core skills to the canonical skills directory via CAAMP.
- * @task T4707
- * @task T4689
- */
-export async function initCoreSkills(created, warnings) {
-    try {
-        const { getInstalledProviders, installSkill, registerSkillLibraryFromPath } = await import('@cleocode/caamp');
-        const providers = getInstalledProviders();
-        if (providers.length === 0) {
-            return;
-        }
-        // Find skills package: bundled first, then node_modules fallback
-        const packageRoot = getPackageRoot();
-        let ctSkillsRoot = null;
-        try {
-            // Check bundled package first (packages/skills/)
-            const bundledPath = join(packageRoot, 'packages', 'skills');
-            if (existsSync(join(bundledPath, 'skills.json'))) {
-                ctSkillsRoot = bundledPath;
-            }
-            else {
-                // Fallback to node_modules
-                const ctSkillsPath = join(packageRoot, 'node_modules', '@cleocode', 'skills');
-                if (existsSync(join(ctSkillsPath, 'skills.json'))) {
-                    ctSkillsRoot = ctSkillsPath;
-                }
-            }
-        }
-        catch {
-            // not found
-        }
-        if (!ctSkillsRoot) {
-            warnings.push('skills package not found, skipping core skill installation');
-            return;
-        }
-        // Register bundled skill library with CAAMP
-        try {
-            registerSkillLibraryFromPath(ctSkillsRoot);
-        }
-        catch {
-            warnings.push('Failed to register skill library with CAAMP');
-        }
-        // Read the skills catalog to find core skills
-        const catalogPath = join(ctSkillsRoot, 'skills.json');
-        const catalog = JSON.parse(readFileSync(catalogPath, 'utf-8'));
-        const skills = catalog.skills ?? [];
-        // Install core and recommended skills (tier 0, 1, 2)
-        const coreSkills = skills.filter((s) => s.tier <= 2);
-        const installed = [];
-        for (const skill of coreSkills) {
-            const skillSourceDir = dirname(join(ctSkillsRoot, skill.path));
-            if (!existsSync(skillSourceDir)) {
-                continue;
-            }
-            try {
-                const result = await installSkill(skillSourceDir, skill.name, providers, true);
-                if (result.success) {
-                    installed.push(skill.name);
-                }
-            }
-            catch {
-                // Skill may already be installed, continue
-            }
-        }
-        if (installed.length > 0) {
-            created.push(`skills: ${installed.length} core skills installed`);
-        }
-    }
-    catch (err) {
-        warnings.push(`Core skill install: ${err instanceof Error ? err.message : String(err)}`);
-    }
-}
-/**
- * Register/reconcile project with NEXUS.
- * Uses nexusReconcile for idempotent handshake — auto-registers if new,
- * updates path if moved, confirms identity if unchanged.
- * @task T4684
- * @task T5368
- */
-export async function initNexusRegistration(projectRoot, created, warnings) {
-    try {
-        const { nexusReconcile } = await import('./nexus/registry.js');
-        const result = await nexusReconcile(projectRoot);
-        if (result.status === 'auto_registered') {
-            created.push('NEXUS registration (auto-registered new project)');
-        }
-        else if (result.status === 'path_updated') {
-            created.push(`NEXUS registration (path updated: ${result.oldPath} → ${result.newPath})`);
-        }
-        else if (result.status === 'ok') {
-            created.push('NEXUS registration (project verified and active)');
-        }
-    }
-    catch (err) {
-        const errStr = String(err);
-        if (errStr.includes('NEXUS_PROJECT_EXISTS')) {
-            warnings.push('NEXUS registration: Project already registered');
-        }
-        else if (errStr.includes('NEXUS_REGISTRY_CORRUPT')) {
-            warnings.push(`NEXUS registration: Identity conflict - ${err instanceof Error ? err.message : errStr}. Run 'cleo nexus unregister' and re-register.`);
-        }
-        else {
-            warnings.push(`NEXUS registration: ${err instanceof Error ? err.message : errStr}`);
-        }
-    }
-}
-// ── Public API ───────────────────────────────────────────────────────
-/**
- * Run update-docs only: refresh all injections without reinitializing.
- * Re-injects CLEO-INJECTION.md into all detected agent instruction files.
- *
- * @task T4686
- */
-export async function updateDocs() {
-    const cleoDir = getCleoDirAbsolute();
-    const projRoot = getProjectRoot();
-    const created = [];
-    const warnings = [];
-    // Re-inject into all provider instruction files (and AGENTS.md hub)
-    try {
-        const result = await ensureInjection(projRoot);
-        if (result.action !== 'skipped') {
-            created.push(`injection: ${result.details ?? result.action}`);
-        }
-    }
-    catch (err) {
-        warnings.push(`CAAMP injection: ${err instanceof Error ? err.message : String(err)}`);
-    }
-    return {
-        initialized: true,
-        directory: cleoDir,
-        created,
-        skipped: [],
-        warnings,
-        updateDocsOnly: true,
-    };
-}
-/**
- * Run full project initialization.
- *
- * Creates the .cleo/ directory structure, installs schemas, templates,
- * agent definitions, MCP server configs, skills, and registers with NEXUS.
- *
- * @task T4681
- * @task T4682
- * @task T4684
- * @task T4685
- * @task T4686
- * @task T4687
- * @task T4689
- * @task T4706
- * @task T4707
- */
-export async function initProject(opts = {}) {
-    // Handle --update-docs (T4686)
-    if (opts.updateDocs) {
-        return updateDocs();
-    }
-    const cleoDir = getCleoDirAbsolute();
-    const projRoot = getProjectRoot();
-    // Guard: fail if project already initialized (unless --force)
-    const alreadyInitialized = existsSync(cleoDir) &&
-        (existsSync(join(cleoDir, 'tasks.db')) || existsSync(join(cleoDir, 'config.json')));
-    if (alreadyInitialized && !opts.force) {
-        throw new CleoError(ExitCode.GENERAL_ERROR, 'Project already initialized. DANGER ZONE: use --force to wipe and re-init.', { fix: 'cleo init --force' });
-    }
-    const force = !!opts.force;
-    const created = [];
-    const skipped = [];
-    const warnings = [];
-    // T4681: Create .cleo/ directory structure
-    const structureResult = await ensureCleoStructure(projRoot);
-    if (structureResult.action === 'created') {
-        created.push('.cleo/ directory structure');
-    }
-    // T4681: Create config.json
-    const configResult = await ensureConfig(projRoot, { force });
-    if (configResult.action === 'skipped') {
-        skipped.push('config.json');
-    }
-    else {
-        created.push('config.json');
-    }
-    // Initialize SQLite database (tasks, sessions, archive, audit log all live here)
-    try {
-        const { getDb } = await import('./store/sqlite.js');
-        await getDb(join(cleoDir, '..'));
-        created.push('tasks.db');
-    }
-    catch (err) {
-        // SQLite init failure is not fatal — will be created on first access
-        created.push(`tasks.db (deferred: ${err instanceof Error ? err.message : String(err)})`);
-    }
-    // Initialize brain.db for BRAIN memory system
-    try {
-        const brainResult = await ensureBrainDb(projRoot);
-        if (brainResult.action === 'created') {
-            created.push('brain.db');
-        }
-    }
-    catch (err) {
-        created.push(`brain.db (deferred: ${err instanceof Error ? err.message : String(err)})`);
-    }
-    // T4681: Create .cleo/.gitignore (respect force flag)
-    if (force) {
-        // When force is set, always overwrite — ensureGitignore does content-comparison only
-        const gitignoreResult = await ensureGitignore(projRoot);
-        if (gitignoreResult.action === 'skipped') {
-            skipped.push('.gitignore');
-        }
-        else {
-            created.push('.gitignore');
-        }
-    }
-    else {
-        const gitignorePath = join(cleoDir, '.gitignore');
-        if (existsSync(gitignorePath)) {
-            skipped.push('.gitignore');
-        }
-        else {
-            const gitignoreResult = await ensureGitignore(projRoot);
-            if (gitignoreResult.action !== 'skipped') {
-                created.push('.gitignore');
-            }
-            else {
-                skipped.push('.gitignore');
-            }
-        }
-    }
-    // Remove legacy sequence files if they exist (migration)
-    const legacySequencePath = join(cleoDir, '.sequence');
-    try {
-        await unlink(legacySequencePath);
-    }
-    catch {
-        /* ignore if absent */
-    }
-    const legacySequenceJsonPath = join(cleoDir, '.sequence.json');
-    try {
-        await unlink(legacySequenceJsonPath);
-    }
-    catch {
-        /* ignore if absent */
-    }
-    // T4872: Isolated .cleo/.git checkpoint repository
-    try {
-        const gitRepoResult = await ensureCleoGitRepo(projRoot);
-        if (gitRepoResult.action === 'created') {
-            created.push('.cleo/.git (isolated checkpoint repository)');
-        }
-    }
-    catch (err) {
-        warnings.push(`Could not initialize .cleo/.git: ${err instanceof Error ? err.message : String(err)}`);
-    }
-    // T4700: Migrate legacy agent-output directories before proceeding
-    try {
-        const migrationResult = migrateAgentOutputs(projRoot, cleoDir);
-        if (migrationResult.migrated) {
-            created.push(`agent-outputs migration: ${migrationResult.summary}`);
-        }
-    }
-    catch {
-        warnings.push('Agent-outputs migration failed (best-effort, run cleo upgrade to retry)');
-    }
-    // T4681: Schema files (~/.cleo/schemas/)
-    try {
-        const schemaResult = ensureGlobalSchemas({ force });
-        const total = schemaResult.installed + schemaResult.updated;
-        if (total > 0) {
-            created.push(`schemas/ (${total} files)`);
-        }
-    }
-    catch (err) {
-        warnings.push(`Schema installation: ${err instanceof Error ? err.message : String(err)}`);
-    }
-    // Git hooks (commit-msg, pre-commit)
-    try {
-        const hooksResult = await ensureGitHooks(projRoot, { force });
-        if (hooksResult.action === 'created') {
-            created.push(hooksResult.details ?? 'git hooks installed');
-        }
-        else if (hooksResult.action === 'skipped' && hooksResult.details?.includes('No .git/')) {
-            warnings.push(hooksResult.details);
-        }
-        else if (hooksResult.action === 'skipped' &&
-            hooksResult.details?.includes('not found in package root')) {
-            warnings.push(hooksResult.details);
-        }
-        else if (hooksResult.action === 'repaired' && hooksResult.details?.includes('error')) {
-            // Hook errors reported via details in 'repaired' action
-            const match = hooksResult.details.match(/Installed (\d+)/);
-            if (match && parseInt(match[1], 10) > 0) {
-                created.push(`git hooks (${match[1]} installed)`);
-            }
-            warnings.push(hooksResult.details);
-        }
-    }
-    catch (err) {
-        warnings.push(`Git hook installation: ${err instanceof Error ? err.message : String(err)}`);
-    }
-    // T4684: Project info (.cleo/project-info.json)
-    const projectInfoResult = await ensureProjectInfo(projRoot, { force });
-    if (projectInfoResult.action === 'skipped') {
-        skipped.push('project-info.json');
-    }
-    else {
-        created.push('project-info.json');
-    }
-    // Project context detection (always run during init)
-    try {
-        const detectResult = await ensureProjectContext(projRoot, { force: !!opts.detect });
-        if (detectResult.action !== 'skipped') {
-            created.push('project-context.json');
-        }
-    }
-    catch (err) {
-        warnings.push(`Project detection failed: ${err instanceof Error ? err.message : String(err)}`);
-    }
-    // Codebase analysis and brain.db storage (brownfield auto-mapping)
-    if (opts.mapCodebase) {
-        try {
-            const { mapCodebase } = await import('./codebase-map/index.js');
-            const mapResult = await mapCodebase(projRoot, { storeToBrain: true });
-            created.push(`codebase-map: ${mapResult.stack.languages.length} languages, ${mapResult.architecture.layers.length} layers analyzed`);
-        }
-        catch (err) {
-            warnings.push(`Codebase mapping: ${err instanceof Error ? err.message : String(err)}`);
-        }
-    }
-    // Generate memory-bridge.md from brain.db BEFORE injection so AGENTS.md can reference it
-    try {
-        const bridgeResult = await writeMemoryBridge(projRoot);
-        if (bridgeResult.written) {
-            created.push('memory-bridge.md');
-        }
-    }
-    catch (err) {
-        warnings.push(`Memory bridge: ${err instanceof Error ? err.message : String(err)}`);
-    }
-    // T4682: Inject into agent instruction files via CAAMP (AGENTS.md hub pattern)
-    try {
-        const injectionResult = await ensureInjection(projRoot);
-        if (injectionResult.action !== 'skipped') {
-            // Parse the details to get individual file actions for backward-compatible output
-            if (injectionResult.details) {
-                created.push(`injection: ${injectionResult.details}`);
-            }
-        }
-        else if (injectionResult.details) {
-            warnings.push(injectionResult.details);
-        }
-    }
-    catch (err) {
-        warnings.push(`CAAMP injection: ${err instanceof Error ? err.message : String(err)}`);
-    }
-    // ADR-029: Contributor project MCP registration
-    try {
-        const { ensureContributorMcp } = await import('./scaffold.js');
-        const mcpResult = await ensureContributorMcp(projRoot);
-        if (mcpResult.action !== 'skipped') {
-            created.push(`contributor MCP: ${mcpResult.details ?? mcpResult.action}`);
-        }
-    }
-    catch (err) {
-        warnings.push(`Contributor MCP setup: ${err instanceof Error ? err.message : String(err)}`);
-    }
-    // T4685: Agent definition (cleo-subagent)
-    await initAgentDefinition(created, warnings);
-    // T4707 + T4689: Core skills installation
-    await initCoreSkills(created, warnings);
-    // T4684: NEXUS registration (reconcile-based handshake, T5368)
-    await initNexusRegistration(projRoot, created, warnings);
-    // T5240: Adapter discovery, activation, and install
-    try {
-        const { AdapterManager } = await import('./adapters/index.js');
-        const mgr = AdapterManager.getInstance(projRoot);
-        const manifests = mgr.discover();
-        if (manifests.length > 0) {
-            created.push(`adapters: ${manifests.length} adapter(s) discovered`);
-            const detected = mgr.detectActive();
-            if (detected.length > 0) {
-                created.push(`adapters: active provider detected (${detected.join(', ')})`);
-                // Activate and install detected adapters
-                for (const adapterId of detected) {
-                    try {
-                        const adapter = await mgr.activate(adapterId);
-                        const installResult = await adapter.install.install({
-                            projectDir: projRoot,
-                        });
-                        if (installResult.success) {
-                            created.push(`adapter install (${adapterId}): installed`);
-                        }
-                        else {
-                            warnings.push(`adapter install (${adapterId}): failed`);
-                        }
-                    }
-                    catch (err) {
-                        warnings.push(`adapter activate/install (${adapterId}): ${err instanceof Error ? err.message : String(err)}`);
-                    }
-                }
-            }
-        }
-    }
-    catch (err) {
-        warnings.push(`Adapter discovery: ${err instanceof Error ? err.message : String(err)}`);
-    }
-    // Remove .cleo/ from root .gitignore if present
-    const rootGitignoreResult = await removeCleoFromRootGitignore(projRoot);
-    if (rootGitignoreResult.removed) {
-        warnings.push('.cleo/ was found in root .gitignore and has been removed. CLEO uses .cleo/.gitignore for selective tracking.');
-    }
-    return {
-        initialized: true,
-        directory: cleoDir,
-        created,
-        skipped,
-        warnings,
-    };
-}
-/**
- * Check if auto-init is enabled via environment variable.
- * @task T4789
- */
-export function isAutoInitEnabled() {
-    return process.env.CLEO_AUTO_INIT === 'true';
-}
-/**
- * Check if a project is initialized and auto-init if configured.
- * Returns { initialized: true } if ready, throws otherwise.
- * @task T4789
- */
-export async function ensureInitialized(projectRoot) {
-    const root = projectRoot ?? getProjectRoot();
-    const cleoDir = join(root, '.cleo');
-    const isInit = existsSync(cleoDir) &&
-        (existsSync(join(cleoDir, 'tasks.db')) || existsSync(join(cleoDir, 'config.json')));
-    if (isInit) {
-        return { initialized: true };
-    }
-    if (isAutoInitEnabled()) {
-        await initProject({ name: basename(root) });
-        return { initialized: true };
-    }
-    throw new Error('CLEO project not initialized. Run system.init or set CLEO_AUTO_INIT=true');
-}
-/**
- * Get the current CLEO/project version.
- * Checks VERSION file, then package.json.
- * @task T4789
- */
-export async function getVersion(projectRoot) {
-    const root = projectRoot ?? getProjectRoot();
-    // Try VERSION file
-    const versionPaths = [join(root, 'VERSION'), join(root, '..', 'VERSION')];
-    for (const versionPath of versionPaths) {
-        try {
-            const content = await readFile(versionPath, 'utf-8');
-            const version = content.trim();
-            if (version) {
-                return { version };
-            }
-        }
-        catch {
-            // Try next path
-        }
-    }
-    // Fallback: package.json
-    const pkg = await readJson(join(root, 'package.json'));
-    if (pkg?.version) {
-        return { version: pkg.version };
-    }
-    return { version: '0.0.0' };
-}
-//# sourceMappingURL=init.js.map

package/dist/init.js.map

@@ -1 +0,0 @@
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package/dist/inject/index.d.ts

@@ -1,24 +0,0 @@
-/**
- * TodoWrite injection core module.
- *
- * ARCHITECTURE NOTE: Instruction injection is a CAAMP domain responsibility.
- * Once @cleocode/caamp is available as a dependency, the injection formatting
- * and template resolution should delegate to CAAMP's injection provider.
- * CLEO's role here is task selection and filtering (what to inject),
- * while CAAMP handles the injection format (how to inject).
- *
- * @task T4539
- * @epic T4454
- */
-import type { DataAccessor } from '../store/data-accessor.js';
-/** Inject tasks into TodoWrite format. */
-export declare function injectTasks(opts: {
-    maxTasks?: number;
-    focusedOnly?: boolean;
-    phase?: string;
-    output?: string;
-    saveState?: boolean;
-    dryRun?: boolean;
-    cwd?: string;
-}, accessor?: DataAccessor): Promise<Record<string, unknown>>;
-//# sourceMappingURL=index.d.ts.map

package/dist/inject/index.d.ts.map

@@ -1 +0,0 @@
-{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../../src/inject/index.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;GAWG;AAEH,OAAO,KAAK,EAAE,YAAY,EAAE,MAAM,2BAA2B,CAAC;AA6D9D,0CAA0C;AAC1C,wBAAsB,WAAW,CAC/B,IAAI,EAAE;IACJ,QAAQ,CAAC,EAAE,MAAM,CAAC;IAClB,WAAW,CAAC,EAAE,OAAO,CAAC;IACtB,KAAK,CAAC,EAAE,MAAM,CAAC;IACf,MAAM,CAAC,EAAE,MAAM,CAAC;IAChB,SAAS,CAAC,EAAE,OAAO,CAAC;IACpB,MAAM,CAAC,EAAE,OAAO,CAAC;IACjB,GAAG,CAAC,EAAE,MAAM,CAAC;CACd,EACD,QAAQ,CAAC,EAAE,YAAY,GACtB,OAAO,CAAC,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,CAAC,CAwBlC"}