milens 0.6.4 → 0.6.5

package/dist/agents-md.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"agents-md.d.ts","sourceRoot":"","sources":["../src/agents-md.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,QAAQ,EAAE,MAAM,eAAe,CAAC;AA0CzC,wBAAgB,gBAAgB,CAAC,EAAE,EAAE,QAAQ,EAAE,QAAQ,EAAE,MAAM,GAAG,MAAM,CA+EvE"}
+{"version":3,"file":"agents-md.d.ts","sourceRoot":"","sources":["../src/agents-md.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,QAAQ,EAAE,MAAM,eAAe,CAAC;AA0CzC,wBAAgB,gBAAgB,CAAC,EAAE,EAAE,QAAQ,EAAE,QAAQ,EAAE,MAAM,GAAG,MAAM,CAgFvE"}

package/dist/agents-md.js

@@ -100,12 +100,14 @@ export function generateAgentsMd(db, rootPath) {
     lines.push('- `/milens:tdd <symbol>` — write tests with coverage analysis');
     lines.push('- `/milens:security` — security audit');
     lines.push('- `/milens:refactor <symbol>` — safe refactor with blast radius check');
+    lines.push('- `/milens:architect` — analyze architecture, domains, coupling');
+    lines.push('- `/milens:debugger <symbol>` — root cause analysis with execution tracing');
     lines.push('');
     lines.push('## Session Startup');
     lines.push('When starting work, call:');
-    lines.push('1. session_start({agent: "your-agent-name"})');
-    lines.push('2. recall({}) — retrieve past annotations');
-    lines.push('3. codebase_summary({}) — refresh context');
+    lines.push('1. mcp_milens_session_start({agent: "your-agent-name", repo: "<workspaceRoot>"})');
+    lines.push('2. mcp_milens_recall({repo: "<workspaceRoot>"}) — retrieve past annotations');
+    lines.push('3. mcp_milens_codebase_summary({repo: "<workspaceRoot>"}) — refresh context');
     lines.push('');
     return lines.join('\n');
 }

package/dist/agents-md.js.map

@@ -1 +1 @@
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package/dist/analyzer/engine.d.ts

@@ -6,6 +6,7 @@ interface EngineOptions {
     force?: boolean;
     aliases?: Record<string, string>;
     embeddings?: boolean;
+    files?: string[];
 }
 export declare function analyze(opts: EngineOptions): Promise<AnalysisStats>;
 export {};

package/dist/analyzer/engine.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"engine.d.ts","sourceRoot":"","sources":["../../src/analyzer/engine.ts"],"names":[],"mappings":"AAeA,OAAO,KAAK,EAAyJ,aAAa,EAAE,MAAM,aAAa,CAAC;AAgExM,UAAU,aAAa;IACrB,QAAQ,EAAE,MAAM,CAAC;IACjB,MAAM,EAAE,MAAM,CAAC;IACf,OAAO,CAAC,EAAE,OAAO,CAAC;IAClB,KAAK,CAAC,EAAE,OAAO,CAAC;IAChB,OAAO,CAAC,EAAE,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;IACjC,UAAU,CAAC,EAAE,OAAO,CAAC;IACrB,KAAK,CAAC,EAAE,MAAM,EAAE,CAAC;CAClB;AAqCD,wBAAsB,OAAO,CAAC,IAAI,EAAE,aAAa,GAAG,OAAO,CAAC,aAAa,CAAC,CA0TzE"}

package/dist/analyzer/engine.js

@@ -1,8 +1,8 @@
-import { readFileSync } from 'node:fs';
+import { readFileSync, statSync } from 'node:fs';
 import { readFile } from 'node:fs/promises';
 import { resolve } from 'node:path';
 import { scanFiles } from './scanner.js';
-import { langForFile } from '../parser/languages.js';
+import { langForFile, supportedExtensions } from '../parser/languages.js';
 import { getParser, loadLanguage } from '../parser/loader.js';
 import { extractFromTree, clearQueryCache } from '../parser/extract.js';
 import { extractVueScript, extractVueTemplateRefs } from '../parser/lang-vue.js';
@@ -70,15 +70,45 @@ function buildChunks(files) {
         chunks.push(current);
     return chunks;
 }
+function scanFilesWithFilter(rootPath, filePaths, verbose = false) {
+    const exts = new Set(supportedExtensions());
+    const results = [];
+    for (const relPath of filePaths) {
+        const abs = resolve(rootPath, relPath);
+        try {
+            const stat = statSync(abs);
+            if (!stat.isFile())
+                continue;
+        }
+        catch {
+            continue;
+        }
+        const ext = '.' + relPath.split('.').pop()?.toLowerCase();
+        if (exts.has(ext)) {
+            results.push({ relativePath: relPath.replace(/\\/g, '/'), absolutePath: abs });
+        }
+    }
+    if (verbose)
+        console.log(`[scan] Filtered to ${results.length} of ${filePaths.length} specified files`);
+    return results;
+}
 export async function analyze(opts) {
     const t0 = Date.now();
     const rootPath = resolve(opts.rootPath);
     const db = new Database(opts.dbPath);
     const aliases = opts.aliases ?? {};
-    if (opts.force)
-        db.clear();
-    // Phase 1: Scan files
-    const files = scanFiles(rootPath, opts.verbose);
+    if (opts.force) {
+        if (opts.files && opts.files.length > 0) {
+            db.clearFiles(opts.files);
+        }
+        else {
+            db.clear();
+        }
+    }
+    // Phase 1: Scan files (or use explicit file list for incremental)
+    const files = opts.files && opts.files.length > 0
+        ? scanFilesWithFilter(rootPath, opts.files, opts.verbose)
+        : scanFiles(rootPath, opts.verbose);
     if (opts.verbose)
         console.log(`[scan] Found ${files.length} source files`);
     // Phase 2: Group files by language for cache-friendly processing

package/dist/analyzer/engine.js.map

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package/dist/cli.js

@@ -1,7 +1,7 @@
 #!/usr/bin/env node
 import { Command } from 'commander';
 import { resolve, join, dirname, basename } from 'node:path';
-import { mkdirSync, readFileSync, rmSync } from 'node:fs';
+import { mkdirSync, readFileSync, rmSync, existsSync } from 'node:fs';
 import { createHash } from 'node:crypto';
 import { fileURLToPath } from 'node:url';
 import { loadAliases } from './analyzer/config.js';
@@ -19,6 +19,7 @@ program
     .option('-o, --output <dir>', 'Output directory for database')
     .option('-v, --verbose', 'Show detailed progress')
     .option('-f, --force', 'Force full re-index')
+    .option('--files <paths...>', 'Only re-index specific files (relative to root)')
     .option('-s, --skills', 'Generate skill files for all supported editors')
     .option('--skills-copilot', 'Generate skill files for GitHub Copilot only')
     .option('--skills-cursor', 'Generate skill files for Cursor only')
@@ -41,6 +42,7 @@ program
         force: opts.force,
         aliases,
         embeddings: opts.embeddings,
+        files: opts.files,
     });
     // Register in global registry
     const contentHash = createHash('sha256').update(JSON.stringify(stats)).digest('hex').slice(0, 12);
@@ -195,15 +197,19 @@ program
 program
     .command('list')
     .description('List all indexed repositories')
-    .action(async () => {
+    .option('-p, --path <path>', 'Repository root path (filter by path prefix)')
+    .action(async (opts) => {
     const { RepoRegistry } = await import('./store/registry.js');
     const entries = new RepoRegistry().listAll();
-    if (entries.length === 0) {
+    const filtered = opts.path
+        ? entries.filter((e) => e.rootPath.startsWith(resolve(opts.path)))
+        : entries;
+    if (filtered.length === 0) {
         console.log('No indexed repositories.');
         return;
     }
-    console.log(`${entries.length} indexed repositories:\n`);
-    for (const entry of entries) {
+    console.log(`${filtered.length} indexed repositories:\n`);
+    for (const entry of filtered) {
         console.log(`  ${entry.rootPath}`);
         console.log(`    DB:      ${entry.dbPath}`);
         console.log(`    Indexed: ${entry.analyzedAt}`);
@@ -506,12 +512,22 @@ program
             `# Milens Evolved ${key.toUpperCase()} Rules`,
             `# Auto-generated from ${anns.length} high-confidence annotations`,
             '',
+            '## Discovered Knowledge',
+            '',
         ];
         for (const a of anns) {
-            lines.push(`- **${a.symbol}**: ${a.value}`);
+            lines.push(`- **\`${a.symbol}\`**: ${a.value}`);
         }
-        // Write to .agents/skills/{key}.md
-        const skillDir = pathJoin(resolve(opts.path), '.agents', 'skills', `milens-${key}`);
+        lines.push('');
+        lines.push('## Using This Knowledge');
+        lines.push('Before editing any symbol mentioned above:');
+        lines.push('1. `mcp_milens_impact({target: "<symbol>", repo: "<workspaceRoot>"})` — check blast radius');
+        lines.push('2. `mcp_milens_context({name: "<symbol>", repo: "<workspaceRoot>"})` — see callers/callees');
+        lines.push('3. If depth-1 dependents > 5 → **STOP and warn** before proceeding');
+        lines.push('');
+        lines.push('> See `milens/SKILL.md` for full mandatory workflows and tool reference.');
+        // Write to .agents/skills/milens-evolved-{key}.md (avoid collision with domain skills)
+        const skillDir = pathJoin(resolve(opts.path), '.agents', 'skills', `milens-evolved-${key}`);
         if (!existsSync(skillDir))
             mkdirSync(skillDir, { recursive: true });
         writeFileSync(pathJoin(skillDir, 'SKILL.md'), lines.join('\n'));
@@ -569,9 +585,34 @@ program
     switch (name) {
         case 'tdd': {
             const coverage = db.getTestCoverage();
-            console.log(`Test Coverage Gaps:`);
-            console.log(`  Exported: ${coverage.exportedProductionSymbols} | Tested: ${coverage.testedSymbols} | Coverage: ${Math.round(coverage.testedSymbols / Math.max(1, coverage.exportedProductionSymbols) * 100)}%`);
-            console.log(`\nRun test_coverage_gaps() via MCP for prioritized list.`);
+            const coveragePct = Math.round(coverage.testedSymbols / Math.max(1, coverage.exportedProductionSymbols) * 100);
+            console.log('╔══════════════════════════════════╗');
+            console.log('║     TDD Workflow — Coverage     ║');
+            console.log('╠══════════════════════════════════╣');
+            console.log(`║ Exported: ${String(coverage.exportedProductionSymbols).padEnd(5)} | Tested: ${String(coverage.testedSymbols).padEnd(5)}  ║`);
+            console.log(`║ Coverage:  ${String(coveragePct).padStart(3)}%${''.padEnd(20)}║`);
+            console.log('╚══════════════════════════════════╝');
+            const gaps = db.getTestCoverageGaps(15);
+            if (gaps.length > 0) {
+                console.log(`\n🧪 Top ${gaps.length} Untested Symbols (by risk):`);
+                for (let i = 0; i < gaps.length; i++) {
+                    const s = gaps[i];
+                    const incoming = db.getIncomingLinks(s.id).filter((l) => l.type !== 'contains');
+                    const risk = s.heat && s.heat > 80 ? '🔴 CRITICAL' : s.heat && s.heat > 50 ? '🟠 HIGH' : s.heat && s.heat > 30 ? '🟡 MEDIUM' : '🟢 LOW';
+                    console.log(`  ${i + 1}. ${s.name} [${s.kind}] ${s.filePath}:${s.startLine} — heat:${s.heat ?? 0}, deps:${incoming.length} → ${risk}`);
+                }
+            }
+            else {
+                console.log(`\n✅ All exported symbols have test coverage.`);
+            }
+            const testFiles = coverage.testFiles > 0
+                ? `  Test files found: ${coverage.testFiles}`
+                : `  ⚠ No test files detected in index.`;
+            console.log(`\n${testFiles}`);
+            console.log(`\n📋 Next steps:`);
+            console.log(`  1. Run \`milens workflow tdd\` after each change to track gaps`);
+            console.log(`  2. Use \`milens serve\` + MCP \`test_plan({name: "symbol"})\` for per-symbol test strategy`);
+            console.log(`  3. Use MCP \`test_generate({symbol: "symbol"})\` to auto-generate test file`);
             break;
         }
         case 'review': {
@@ -625,11 +666,204 @@ program
         }
         case 'onboard': {
             const summary = db.getCodebaseSummary();
-            console.log(`Milens Onboarding Report:`);
-            console.log(`  Symbols: ${summary.symbols} | Links: ${summary.links} | Files: ${summary.files}`);
-            console.log(`  Coverage: ${summary.coveragePct}%`);
-            console.log(`\nSession startup — call:`);
-            console.log(`  1. session_start() → codebase_summary() → recall()`);
+            const coverage = db.getTestCoverage();
+            console.log('╔══════════════════════════════════╗');
+            console.log('║   Milens Onboarding Report      ║');
+            console.log('╚══════════════════════════════════╝\n');
+            console.log(`📊 Codebase: ${summary.symbols} symbols, ${summary.links} links, ${summary.files} files`);
+            console.log(`🧪 Test coverage: ${summary.coveragePct}% (${summary.testedSymbols}/${summary.exportedSymbols} exported)\n`);
+            if (summary.domains.length > 0) {
+                console.log('🗂️  Domain clusters:');
+                for (const d of summary.domains.slice(0, 8)) {
+                    const pct = summary.symbols > 0 ? Math.round(d.symbols / summary.symbols * 100) : 0;
+                    console.log(`  ${d.domain}: ${d.files}f, ${d.symbols}s (${pct}%)`);
+                }
+                console.log();
+            }
+            if (summary.topHubs.length > 0) {
+                console.log('⭐ Key entry points:');
+                for (const h of summary.topHubs.slice(0, 8)) {
+                    const incoming = db.getIncomingLinks(h.id).filter((l) => l.type !== 'contains');
+                    console.log(`  ${h.name} [${h.kind}] ${h.filePath}:${h.startLine} — heat:${h.heat ?? 0}, deps:${incoming.length}`);
+                }
+                console.log();
+            }
+            const deadCode = db.findDeadCode(undefined, 5);
+            if (deadCode.length > 0) {
+                console.log(`⚠ Dead code candidates: ${deadCode.length}`);
+                for (const s of deadCode.slice(0, 3)) {
+                    console.log(`  ${s.name} [${s.kind}] ${s.filePath}:${s.startLine}`);
+                }
+                console.log();
+            }
+            console.log('📋 Getting started:');
+            console.log('  1. Run `milens workflow tdd` to see coverage gaps');
+            console.log('  2. Run `milens workflow review` before committing changes');
+            console.log('  3. Run `milens serve` for MCP integration with your AI agent');
+            break;
+        }
+        case 'security-scan': {
+            console.log('╔══════════════════════════════════╗');
+            console.log('║   Security Scan Workflow        ║');
+            console.log('╚══════════════════════════════════╝\n');
+            try {
+                const { loadRules } = await import('./security/rules.js');
+                const { readFileSync, readdirSync, statSync } = await import('node:fs');
+                const { join: pathJoin, relative: pathRel } = await import('node:path');
+                const rules = loadRules().filter(r => r.enabled);
+                console.log(`Loaded ${rules.length} active security rules\n`);
+                const findings = [];
+                const MAX_FILE_SIZE = 200 * 1024;
+                function scanDir(dir) {
+                    try {
+                        for (const entry of readdirSync(dir, { withFileTypes: true })) {
+                            const fullPath = pathJoin(dir, entry.name);
+                            if (entry.isDirectory()) {
+                                if (['node_modules', '.git', 'dist', 'build', '.next', '__pycache__', '.venv', 'vendor', 'coverage'].includes(entry.name))
+                                    continue;
+                                scanDir(fullPath);
+                            }
+                            else if (entry.isFile()) {
+                                const ext = entry.name.split('.').pop()?.toLowerCase() || '';
+                                if (!['ts', 'js', 'tsx', 'jsx', 'py', 'go', 'rs', 'java', 'rb', 'php', 'sql', 'sh', 'yaml', 'yml', 'json', 'html', 'css', 'vue'].includes(ext))
+                                    continue;
+                                try {
+                                    const stat = statSync(fullPath);
+                                    if (stat.size > MAX_FILE_SIZE)
+                                        return;
+                                    const content = readFileSync(fullPath, 'utf-8');
+                                    for (const rule of rules) {
+                                        for (const pattern of rule.patterns) {
+                                            pattern.lastIndex = 0;
+                                            let match;
+                                            while ((match = pattern.exec(content)) !== null) {
+                                                const lineNum = content.substring(0, match.index).split('\n').length;
+                                                findings.push({
+                                                    severity: rule.severity,
+                                                    rule: rule.id,
+                                                    file: pathRel(root, fullPath).replace(/\\/g, '/'),
+                                                    line: lineNum,
+                                                    match: match[0].length > 80 ? match[0].slice(0, 77) + '...' : match[0],
+                                                    category: rule.category,
+                                                    fix: rule.fix,
+                                                });
+                                            }
+                                        }
+                                    }
+                                }
+                                catch { /* skip unreadable */ }
+                            }
+                        }
+                    }
+                    catch { /* skip unreadable dir */ }
+                }
+                scanDir(root);
+                const bySeverity = {};
+                const byCategory = {};
+                for (const f of findings) {
+                    bySeverity[f.severity] = (bySeverity[f.severity] || 0) + 1;
+                    byCategory[f.category] = (byCategory[f.category] || 0) + 1;
+                }
+                console.log(`📊 Summary: ${findings.length} findings`);
+                if (findings.length > 0) {
+                    for (const s of ['CRITICAL', 'HIGH', 'MEDIUM', 'LOW']) {
+                        if (bySeverity[s])
+                            console.log(`  ${s}: ${bySeverity[s]}`);
+                    }
+                    console.log();
+                    // Show top findings by severity
+                    const sorted = [...findings].sort((a, b) => {
+                        const order = { CRITICAL: 0, HIGH: 1, MEDIUM: 2, LOW: 3 };
+                        return (order[a.severity] ?? 4) - (order[b.severity] ?? 4);
+                    });
+                    for (const f of sorted.slice(0, 20)) {
+                        const sevIcon = f.severity === 'CRITICAL' ? '🔴' : f.severity === 'HIGH' ? '🟠' : f.severity === 'MEDIUM' ? '🟡' : '🟢';
+                        console.log(`${sevIcon} [${f.severity}] ${f.rule} — ${f.file}:${f.line}`);
+                        console.log(`   ${f.match.slice(0, 100)}`);
+                        if (f.fix)
+                            console.log(`   💡 Fix: ${f.fix}`);
+                    }
+                    if (findings.length > 20) {
+                        console.log(`\n... and ${findings.length - 20} more (limit to 20). Run \`milens security scan\` for full output.`);
+                    }
+                }
+                else {
+                    console.log('✅ No security issues found.');
+                }
+            }
+            catch (e) {
+                console.error(`Security scan failed: ${e.message || e}`);
+            }
+            break;
+        }
+        case 'refactor': {
+            const deadCode = db.findDeadCode(undefined, 20);
+            console.log('Refactor Workflow — Dead Code Candidates:');
+            if (deadCode.length === 0) {
+                console.log('  No dead code found.');
+            }
+            else {
+                for (const s of deadCode) {
+                    console.log(`  ${s.name} [${s.kind}] ${s.filePath}:${s.startLine}`);
+                }
+            }
+            console.log(`\nRun 'milens analyze --force' to refresh the index before refactoring.`);
+            break;
+        }
+        case 'handoff': {
+            const store = new AnnotationStore(db.connection);
+            console.log('╔══════════════════════════════════╗');
+            console.log('║    Handoff Workflow             ║');
+            console.log('╚══════════════════════════════════╝\n');
+            // Show recent sessions
+            const recentAnns = store.recall({ limit: 30 });
+            const sessions = new Set();
+            for (const a of recentAnns) {
+                if (a.sessionId)
+                    sessions.add(a.sessionId);
+            }
+            console.log(`📋 Indexed annotations: ${store.getAnnotationCount()}`);
+            console.log(`📂 Recent sessions: ${sessions.size}`);
+            try {
+                const allAnnotations = store.recall({ limit: 100 });
+                // Group by key for summary
+                const byKey = new Map();
+                for (const a of allAnnotations) {
+                    const group = byKey.get(a.key) || { count: 0, symbols: [], topConfidence: 0 };
+                    group.count++;
+                    if (group.symbols.length < 5)
+                        group.symbols.push(a.symbol);
+                    if (a.confidence > group.topConfidence)
+                        group.topConfidence = a.confidence;
+                    byKey.set(a.key, group);
+                }
+                if (byKey.size > 0) {
+                    console.log(`\n🗂️  Knowledge by category:`);
+                    for (const [key, group] of byKey) {
+                        const pct = Math.round(group.topConfidence * 100);
+                        const bar = '█'.repeat(Math.round(group.topConfidence * 10));
+                        console.log(`  [${key}] ${group.count} annotations, top confidence: ${bar} ${pct}%`);
+                        if (group.symbols.length > 0) {
+                            console.log(`    Symbols: ${group.symbols.join(', ')}`);
+                        }
+                    }
+                }
+                // Promotable annotations (high confidence)
+                const promotable = allAnnotations.filter(a => a.confidence >= 0.8);
+                if (promotable.length > 0) {
+                    console.log(`\n⭐ ${promotable.length} high-confidence annotations ready for promotion:`);
+                    for (const a of promotable.slice(0, 5)) {
+                        console.log(`  [${a.key}] ${a.symbol}: ${a.value.slice(0, 80)}`);
+                    }
+                    console.log(`\n  Run \`milens evolve -p "${root}"\` to promote these to rules/skills.`);
+                }
+            }
+            catch { /* annotations may not be available */ }
+            console.log(`\n📋 CLI handoff commands:`);
+            console.log(`  1. milens workflow onboard --path <path>  → fresh agent onboarding`);
+            console.log(`  2. milens workflow review --path <path>    → pre-handoff review`);
+            console.log(`  3. milens evolve -p <path>                 → promote knowledge to rules`);
+            console.log(`\n💡 Tip: Use \`milens serve\` + MCP for full session_start() → annotate() → handoff() flow.`);
             break;
         }
         default:
@@ -878,11 +1112,14 @@ securityCmd
     .option('-p, --path <path>', 'Repository root path', '.')
     .option('--scope <scope>', 'all|secrets|injection|unicode|dangerous|config|data-leak|crypto|auth|file-access', 'all')
     .option('--severity <severity>', 'CRITICAL|HIGH|MEDIUM|LOW')
+    .option('--limit <limit>', 'Max findings to report', '30')
     .option('--format <format>', 'table|json|markdown', 'table')
     .action(async (opts) => {
     const root = resolve(opts.path);
+    const maxFindings = parseInt(opts.limit) || 30;
+    const MAX_FILE_SIZE = 200 * 1024; // skip files >200KB to avoid regex timeout
     const { loadRules } = await import('./security/rules.js');
-    const { readFileSync, existsSync, readdirSync } = await import('node:fs');
+    const { readFileSync, existsSync, readdirSync, statSync } = await import('node:fs');
     const { join: pathJoin, relative: pathRelative } = await import('node:path');
     const rules = loadRules();
     const filtered = rules.filter(r => {
@@ -911,6 +1148,12 @@ securityCmd
                     if (!['ts', 'js', 'tsx', 'jsx', 'py', 'go', 'rs', 'java', 'rb', 'php', 'sql', 'sh', 'yaml', 'yml', 'json', 'html', 'css'].includes(ext))
                         continue;
                     try {
+                        const stat = statSync(fullPath);
+                        if (stat.size > MAX_FILE_SIZE) {
+                            if (opts.format === 'table')
+                                console.log(`  Skipping large file: ${pathRelative(root, fullPath)} (${(stat.size / 1024).toFixed(0)}KB)`);
+                            return;
+                        }
                         const content = readFileSync(fullPath, 'utf-8');
                         const lines = content.split('\n');
                         for (const rule of filtered) {
@@ -949,7 +1192,7 @@ securityCmd
         console.log(`  ${s}: ${c}`);
     }
     console.log();
-    for (const f of findings.slice(0, 30)) {
+    for (const f of findings.slice(0, maxFindings)) {
         console.log(`[${f.severity}] ${f.rule} ${f.file}:${f.line} — ${f.match}`);
     }
 });
@@ -993,7 +1236,11 @@ program
         console.log(`\nRe-indexing ${files.length} changed file(s)...`);
         const { execSync } = await import('node:child_process');
         try {
-            execSync(`npx milens analyze -p "${root}" --force`, { stdio: 'pipe', cwd: root });
+            const fileArgs = files.map(f => `"${f}"`).join(' ');
+            const cmd = process.argv[1]
+                ? `node ${process.argv[1]} analyze -p "${root}" --force --files ${fileArgs}`
+                : `npx milens analyze -p "${root}" --force --files ${fileArgs}`;
+            execSync(cmd, { stdio: 'pipe', cwd: root });
             console.log(`✓ Index updated`);
         }
         catch {
@@ -1021,6 +1268,36 @@ program
         console.error('File watching failed. Use `milens analyze -p . --force` to manually re-index.');
     }
 });
+program
+    .command('orchestrate')
+    .description('Run full review cycle: detect changes → risk → coverage gaps → dead code')
+    .option('-p, --path <path>', 'Repository root path', '.')
+    .option('--emoji', 'Use emoji in output')
+    .action(async (opts) => {
+    const root = resolve(opts.path);
+    const dbPath = join(root, '.milens', 'milens.db');
+    if (!existsSync(dbPath)) {
+        console.error(`No milens database found. Run \`milens analyze\` first.`);
+        process.exit(1);
+    }
+    const { Orchestrator } = await import('./orchestrator/orchestrator.js');
+    const orchestrator = new Orchestrator({ rootPath: root, dbPath, useEmoji: opts.emoji });
+    // Mark changed files from git diff
+    try {
+        const { execFileSync } = await import('node:child_process');
+        const diffOut = execFileSync('git', ['diff', '--name-only', 'HEAD'], { cwd: root, encoding: 'utf-8' });
+        const staged = execFileSync('git', ['diff', '--cached', '--name-only'], { cwd: root, encoding: 'utf-8' });
+        const changed = [...new Set([...diffOut.trim().split('\n'), ...staged.trim().split('\n')])].filter(Boolean);
+        for (const f of changed)
+            orchestrator.subscribe(f);
+    }
+    catch {
+        console.error('Not a git repository or git not available.');
+        process.exit(1);
+    }
+    const report = await orchestrator.runAndFormat();
+    console.log(report);
+});
 program.parse();
 // ── Helpers ──
 function deleteIndex(dbPath) {