gitnexus 1.1.9 → 1.2.0

package/dist/cli/eval-server.js

@@ -0,0 +1,372 @@
+/**
+ * Eval Server — Lightweight HTTP server for SWE-bench evaluation
+ *
+ * Keeps KuzuDB warm in memory so tool calls from the agent are near-instant.
+ * Designed to run inside Docker containers during SWE-bench evaluation.
+ *
+ * KEY DESIGN: Returns LLM-friendly text, not raw JSON.
+ * Raw JSON wastes tokens and is hard for models to parse. The text formatter
+ * converts structured results into compact, readable output that models
+ * can immediately act on. Next-step hints guide the agent through a
+ * productive tool-chaining workflow (query → context → impact → fix).
+ *
+ * Architecture:
+ *   Agent bash cmd → curl localhost:PORT/tool/query → eval-server → LocalBackend → format → text
+ *
+ * Usage:
+ *   gitnexus eval-server                    # default port 4848
+ *   gitnexus eval-server --port 4848        # explicit port
+ *   gitnexus eval-server --idle-timeout 300 # auto-shutdown after 300s idle
+ *
+ * API:
+ *   POST /tool/:name   — Call a tool. Body is JSON arguments. Returns formatted text.
+ *   GET  /health       — Health check. Returns {"status":"ok","repos":[...]}
+ *   POST /shutdown     — Graceful shutdown.
+ */
+import http from 'http';
+import { LocalBackend } from '../mcp/local/local-backend.js';
+// ─── Text Formatters ──────────────────────────────────────────────────
+// Convert structured JSON results into compact, LLM-friendly text.
+// Design: minimize tokens, maximize actionability.
+function formatQueryResult(result) {
+    if (result.error)
+        return `Error: ${result.error}`;
+    const lines = [];
+    const processes = result.processes || [];
+    const symbols = result.process_symbols || [];
+    const defs = result.definitions || [];
+    if (processes.length === 0 && defs.length === 0) {
+        return 'No matching execution flows found. Try a different search term or use grep.';
+    }
+    lines.push(`Found ${processes.length} execution flow(s):\n`);
+    for (let i = 0; i < processes.length; i++) {
+        const p = processes[i];
+        lines.push(`${i + 1}. ${p.summary} (${p.step_count} steps, ${p.symbol_count} symbols)`);
+        // Show symbols belonging to this process
+        const procSymbols = symbols.filter((s) => s.process_id === p.id);
+        for (const s of procSymbols.slice(0, 6)) {
+            const loc = s.startLine ? `:${s.startLine}` : '';
+            lines.push(`   ${s.type} ${s.name} → ${s.filePath}${loc}`);
+        }
+        if (procSymbols.length > 6) {
+            lines.push(`   ... and ${procSymbols.length - 6} more`);
+        }
+        lines.push('');
+    }
+    if (defs.length > 0) {
+        lines.push(`Standalone definitions:`);
+        for (const d of defs.slice(0, 8)) {
+            lines.push(`  ${d.type || 'Symbol'} ${d.name} → ${d.filePath || '?'}`);
+        }
+        if (defs.length > 8)
+            lines.push(`  ... and ${defs.length - 8} more`);
+    }
+    return lines.join('\n').trim();
+}
+function formatContextResult(result) {
+    if (result.error)
+        return `Error: ${result.error}`;
+    if (result.status === 'ambiguous') {
+        const lines = [`Multiple symbols named '${result.candidates?.[0]?.name || '?'}'. Disambiguate with file path:\n`];
+        for (const c of result.candidates || []) {
+            lines.push(`  ${c.kind} ${c.name} → ${c.filePath}:${c.line || '?'}  (uid: ${c.uid})`);
+        }
+        lines.push(`\nRe-run: gitnexus-context "${result.candidates?.[0]?.name}" "<file_path>"`);
+        return lines.join('\n');
+    }
+    const sym = result.symbol;
+    if (!sym)
+        return 'Symbol not found.';
+    const lines = [];
+    const loc = sym.startLine ? `:${sym.startLine}-${sym.endLine}` : '';
+    lines.push(`${sym.kind} ${sym.name} → ${sym.filePath}${loc}`);
+    lines.push('');
+    // Incoming refs (who calls/imports/extends this)
+    const incoming = result.incoming || {};
+    const incomingCount = Object.values(incoming).reduce((sum, arr) => sum + arr.length, 0);
+    if (incomingCount > 0) {
+        lines.push(`Called/imported by (${incomingCount}):`);
+        for (const [relType, refs] of Object.entries(incoming)) {
+            for (const ref of refs.slice(0, 10)) {
+                lines.push(`  ← [${relType}] ${ref.kind} ${ref.name} → ${ref.filePath}`);
+            }
+        }
+        lines.push('');
+    }
+    // Outgoing refs (what this calls/imports)
+    const outgoing = result.outgoing || {};
+    const outgoingCount = Object.values(outgoing).reduce((sum, arr) => sum + arr.length, 0);
+    if (outgoingCount > 0) {
+        lines.push(`Calls/imports (${outgoingCount}):`);
+        for (const [relType, refs] of Object.entries(outgoing)) {
+            for (const ref of refs.slice(0, 10)) {
+                lines.push(`  → [${relType}] ${ref.kind} ${ref.name} → ${ref.filePath}`);
+            }
+        }
+        lines.push('');
+    }
+    // Processes
+    const procs = result.processes || [];
+    if (procs.length > 0) {
+        lines.push(`Participates in ${procs.length} execution flow(s):`);
+        for (const p of procs) {
+            lines.push(`  • ${p.name} (step ${p.step_index}/${p.step_count})`);
+        }
+    }
+    if (sym.content) {
+        lines.push('');
+        lines.push(`Source:`);
+        lines.push(sym.content);
+    }
+    return lines.join('\n').trim();
+}
+function formatImpactResult(result) {
+    if (result.error)
+        return `Error: ${result.error}`;
+    const target = result.target;
+    const direction = result.direction;
+    const byDepth = result.byDepth || {};
+    const total = result.impactedCount || 0;
+    if (total === 0) {
+        return `${target?.name || '?'}: No ${direction} dependencies found. This symbol appears isolated.`;
+    }
+    const lines = [];
+    const dirLabel = direction === 'upstream' ? 'depends on this (will break if changed)' : 'this depends on';
+    lines.push(`Blast radius for ${target?.kind || ''} ${target?.name} (${direction}): ${total} symbol(s) ${dirLabel}\n`);
+    const depthLabels = {
+        1: 'WILL BREAK (direct)',
+        2: 'LIKELY AFFECTED (indirect)',
+        3: 'MAY NEED TESTING (transitive)',
+    };
+    for (const depth of [1, 2, 3]) {
+        const items = byDepth[depth];
+        if (!items || items.length === 0)
+            continue;
+        lines.push(`d=${depth}: ${depthLabels[depth] || ''} (${items.length})`);
+        for (const item of items.slice(0, 12)) {
+            const conf = item.confidence < 1 ? ` (conf: ${item.confidence})` : '';
+            lines.push(`  ${item.type} ${item.name} → ${item.filePath} [${item.relationType}]${conf}`);
+        }
+        if (items.length > 12) {
+            lines.push(`  ... and ${items.length - 12} more`);
+        }
+        lines.push('');
+    }
+    return lines.join('\n').trim();
+}
+function formatCypherResult(result) {
+    if (result.error)
+        return `Error: ${result.error}`;
+    if (Array.isArray(result)) {
+        if (result.length === 0)
+            return 'Query returned 0 rows.';
+        // Format as simple table
+        const keys = Object.keys(result[0]);
+        const lines = [`${result.length} row(s):\n`];
+        for (const row of result.slice(0, 30)) {
+            const parts = keys.map(k => `${k}: ${row[k]}`);
+            lines.push(`  ${parts.join(' | ')}`);
+        }
+        if (result.length > 30) {
+            lines.push(`  ... ${result.length - 30} more rows`);
+        }
+        return lines.join('\n');
+    }
+    return typeof result === 'string' ? result : JSON.stringify(result, null, 2);
+}
+function formatDetectChangesResult(result) {
+    if (result.error)
+        return `Error: ${result.error}`;
+    const summary = result.summary || {};
+    const lines = [];
+    if (summary.changed_count === 0) {
+        return 'No changes detected.';
+    }
+    lines.push(`Changes: ${summary.changed_files || 0} files, ${summary.changed_count || 0} symbols`);
+    lines.push(`Affected processes: ${summary.affected_count || 0}`);
+    lines.push(`Risk level: ${summary.risk_level || 'unknown'}\n`);
+    const changed = result.changed_symbols || [];
+    if (changed.length > 0) {
+        lines.push(`Changed symbols:`);
+        for (const s of changed.slice(0, 15)) {
+            lines.push(`  ${s.type} ${s.name} → ${s.filePath}`);
+        }
+        if (changed.length > 15)
+            lines.push(`  ... and ${changed.length - 15} more`);
+        lines.push('');
+    }
+    const affected = result.affected_processes || [];
+    if (affected.length > 0) {
+        lines.push(`Affected execution flows:`);
+        for (const p of affected.slice(0, 10)) {
+            const steps = (p.changed_steps || []).map((s) => s.symbol).join(', ');
+            lines.push(`  • ${p.name} (${p.step_count} steps) — changed: ${steps}`);
+        }
+    }
+    return lines.join('\n').trim();
+}
+function formatListReposResult(result) {
+    if (!Array.isArray(result) || result.length === 0) {
+        return 'No indexed repositories.';
+    }
+    const lines = ['Indexed repositories:\n'];
+    for (const r of result) {
+        const stats = r.stats || {};
+        lines.push(`  ${r.name} — ${stats.nodes || '?'} symbols, ${stats.edges || '?'} relationships, ${stats.processes || '?'} flows`);
+        lines.push(`    Path: ${r.path}`);
+        lines.push(`    Indexed: ${r.indexedAt}`);
+    }
+    return lines.join('\n');
+}
+/**
+ * Format a tool result as compact, LLM-friendly text.
+ */
+function formatToolResult(toolName, result) {
+    switch (toolName) {
+        case 'query': return formatQueryResult(result);
+        case 'context': return formatContextResult(result);
+        case 'impact': return formatImpactResult(result);
+        case 'cypher': return formatCypherResult(result);
+        case 'detect_changes': return formatDetectChangesResult(result);
+        case 'list_repos': return formatListReposResult(result);
+        default: return typeof result === 'string' ? result : JSON.stringify(result, null, 2);
+    }
+}
+// ─── Next-Step Hints ──────────────────────────────────────────────────
+// Guide the agent to the logical next tool call.
+// Critical for tool chaining: query → context → impact → fix.
+function getNextStepHint(toolName) {
+    switch (toolName) {
+        case 'query':
+            return '\n---\nNext: Pick a symbol above and run gitnexus-context "<name>" to see all its callers, callees, and execution flows.';
+        case 'context':
+            return '\n---\nNext: To check what breaks if you change this, run gitnexus-impact "<name>" upstream';
+        case 'impact':
+            return '\n---\nNext: Review d=1 items first (WILL BREAK). Read the source with cat to understand the code, then make your fix.';
+        case 'cypher':
+            return '\n---\nNext: To explore a result symbol in depth, run gitnexus-context "<name>"';
+        case 'detect_changes':
+            return '\n---\nNext: Run gitnexus-context "<symbol>" on high-risk changed symbols to check their callers.';
+        default:
+            return '';
+    }
+}
+// ─── Server ───────────────────────────────────────────────────────────
+export async function evalServerCommand(options) {
+    const port = parseInt(options?.port || '4848');
+    const idleTimeoutSec = parseInt(options?.idleTimeout || '0');
+    const backend = new LocalBackend();
+    const ok = await backend.init();
+    if (!ok) {
+        console.error('GitNexus eval-server: No indexed repositories found. Run: gitnexus analyze');
+        process.exit(1);
+    }
+    const repos = backend.listRepos();
+    console.error(`GitNexus eval-server: ${repos.length} repo(s) loaded: ${repos.map(r => r.name).join(', ')}`);
+    let idleTimer = null;
+    function resetIdleTimer() {
+        if (idleTimeoutSec <= 0)
+            return;
+        if (idleTimer)
+            clearTimeout(idleTimer);
+        idleTimer = setTimeout(async () => {
+            console.error('GitNexus eval-server: Idle timeout reached, shutting down');
+            await backend.disconnect();
+            process.exit(0);
+        }, idleTimeoutSec * 1000);
+    }
+    const server = http.createServer(async (req, res) => {
+        resetIdleTimer();
+        try {
+            // Health check
+            if (req.method === 'GET' && req.url === '/health') {
+                res.setHeader('Content-Type', 'application/json');
+                res.writeHead(200);
+                res.end(JSON.stringify({ status: 'ok', repos: repos.map(r => r.name) }));
+                return;
+            }
+            // Shutdown
+            if (req.method === 'POST' && req.url === '/shutdown') {
+                res.setHeader('Content-Type', 'application/json');
+                res.writeHead(200);
+                res.end(JSON.stringify({ status: 'shutting_down' }));
+                setTimeout(async () => {
+                    await backend.disconnect();
+                    server.close();
+                    process.exit(0);
+                }, 100);
+                return;
+            }
+            // Tool calls: POST /tool/:name
+            const toolMatch = req.url?.match(/^\/tool\/(\w+)$/);
+            if (req.method === 'POST' && toolMatch) {
+                const toolName = toolMatch[1];
+                const body = await readBody(req);
+                let args = {};
+                if (body.trim()) {
+                    try {
+                        args = JSON.parse(body);
+                    }
+                    catch {
+                        res.setHeader('Content-Type', 'text/plain');
+                        res.writeHead(400);
+                        res.end('Error: Invalid JSON body');
+                        return;
+                    }
+                }
+                // Call tool, format result as text, append next-step hint
+                const result = await backend.callTool(toolName, args);
+                const formatted = formatToolResult(toolName, result);
+                const hint = getNextStepHint(toolName);
+                res.setHeader('Content-Type', 'text/plain');
+                res.writeHead(200);
+                res.end(formatted + hint);
+                return;
+            }
+            // 404
+            res.setHeader('Content-Type', 'text/plain');
+            res.writeHead(404);
+            res.end('Not found. Use POST /tool/:name or GET /health');
+        }
+        catch (err) {
+            res.setHeader('Content-Type', 'text/plain');
+            res.writeHead(500);
+            res.end(`Error: ${err.message || 'Internal error'}`);
+        }
+    });
+    server.listen(port, '127.0.0.1', () => {
+        console.error(`GitNexus eval-server: listening on http://127.0.0.1:${port}`);
+        console.error(`  POST /tool/query    — search execution flows`);
+        console.error(`  POST /tool/context  — 360-degree symbol view`);
+        console.error(`  POST /tool/impact   — blast radius analysis`);
+        console.error(`  POST /tool/cypher   — raw Cypher query`);
+        console.error(`  GET  /health        — health check`);
+        console.error(`  POST /shutdown      — graceful shutdown`);
+        if (idleTimeoutSec > 0) {
+            console.error(`  Auto-shutdown after ${idleTimeoutSec}s idle`);
+        }
+        try {
+            process.stdout.write(`GITNEXUS_EVAL_SERVER_READY:${port}\n`);
+        }
+        catch {
+            // stdout may not be available
+        }
+    });
+    resetIdleTimer();
+    const shutdown = async () => {
+        console.error('GitNexus eval-server: shutting down...');
+        await backend.disconnect();
+        server.close();
+        process.exit(0);
+    };
+    process.on('SIGINT', shutdown);
+    process.on('SIGTERM', shutdown);
+}
+function readBody(req) {
+    return new Promise((resolve, reject) => {
+        const chunks = [];
+        req.on('data', (chunk) => chunks.push(chunk));
+        req.on('end', () => resolve(Buffer.concat(chunks).toString('utf-8')));
+        req.on('error', reject);
+    });
+}

package/dist/cli/index.js

@@ -8,11 +8,14 @@ import { mcpCommand } from './mcp.js';
 import { cleanCommand } from './clean.js';
 import { setupCommand } from './setup.js';
 import { augmentCommand } from './augment.js';
+import { wikiCommand } from './wiki.js';
+import { queryCommand, contextCommand, impactCommand, cypherCommand } from './tool.js';
+import { evalServerCommand } from './eval-server.js';
 const program = new Command();
 program
     .name('gitnexus')
     .description('GitNexus local CLI and MCP server')
-    .version('1.1.1');
+    .version('1.1.9');
 program
     .command('setup')
     .description('One-time setup: configure MCP for Cursor, Claude Code, OpenCode')
@@ -46,8 +49,55 @@ program
     .option('-f, --force', 'Skip confirmation prompt')
     .option('--all', 'Clean all indexed repos')
     .action(cleanCommand);
+program
+    .command('wiki [path]')
+    .description('Generate repository wiki from knowledge graph')
+    .option('-f, --force', 'Force full regeneration even if up to date')
+    .option('--model <model>', 'LLM model name (default: gpt-4o-mini)')
+    .option('--base-url <url>', 'LLM API base URL (default: OpenAI)')
+    .option('--api-key <key>', 'LLM API key (saved to ~/.gitnexus/config.json)')
+    .action(wikiCommand);
 program
     .command('augment <pattern>')
     .description('Augment a search pattern with knowledge graph context (used by hooks)')
     .action(augmentCommand);
+// ─── Direct Tool Commands (no MCP overhead) ────────────────────────
+// These invoke LocalBackend directly for use in eval, scripts, and CI.
+program
+    .command('query <search_query>')
+    .description('Search the knowledge graph for execution flows related to a concept')
+    .option('-r, --repo <name>', 'Target repository (omit if only one indexed)')
+    .option('-c, --context <text>', 'Task context to improve ranking')
+    .option('-g, --goal <text>', 'What you want to find')
+    .option('-l, --limit <n>', 'Max processes to return (default: 5)')
+    .option('--content', 'Include full symbol source code')
+    .action(queryCommand);
+program
+    .command('context [name]')
+    .description('360-degree view of a code symbol: callers, callees, processes')
+    .option('-r, --repo <name>', 'Target repository')
+    .option('-u, --uid <uid>', 'Direct symbol UID (zero-ambiguity lookup)')
+    .option('-f, --file <path>', 'File path to disambiguate common names')
+    .option('--content', 'Include full symbol source code')
+    .action(contextCommand);
+program
+    .command('impact <target>')
+    .description('Blast radius analysis: what breaks if you change a symbol')
+    .option('-d, --direction <dir>', 'upstream (dependants) or downstream (dependencies)', 'upstream')
+    .option('-r, --repo <name>', 'Target repository')
+    .option('--depth <n>', 'Max relationship depth (default: 3)')
+    .option('--include-tests', 'Include test files in results')
+    .action(impactCommand);
+program
+    .command('cypher <query>')
+    .description('Execute raw Cypher query against the knowledge graph')
+    .option('-r, --repo <name>', 'Target repository')
+    .action(cypherCommand);
+// ─── Eval Server (persistent daemon for SWE-bench) ─────────────────
+program
+    .command('eval-server')
+    .description('Start lightweight HTTP server for fast tool calls during evaluation')
+    .option('-p, --port <port>', 'Port number', '4848')
+    .option('--idle-timeout <seconds>', 'Auto-shutdown after N seconds idle (0 = disabled)', '0')
+    .action(evalServerCommand);
 program.parse(process.argv);

package/dist/cli/mcp.js

@@ -9,6 +9,15 @@ import { startMCPServer } from '../mcp/server.js';
 import { LocalBackend } from '../mcp/local/local-backend.js';
 import { listRegisteredRepos } from '../storage/repo-manager.js';
 export const mcpCommand = async () => {
+    // Prevent unhandled errors from crashing the MCP server process.
+    // KuzuDB lock conflicts and transient errors should degrade gracefully.
+    process.on('uncaughtException', (err) => {
+        console.error(`GitNexus MCP: uncaught exception — ${err.message}`);
+    });
+    process.on('unhandledRejection', (reason) => {
+        const msg = reason instanceof Error ? reason.message : String(reason);
+        console.error(`GitNexus MCP: unhandled rejection — ${msg}`);
+    });
     // Load all registered repos
     const entries = await listRegisteredRepos({ validate: true });
     if (entries.length === 0) {

package/dist/cli/setup.js

@@ -196,25 +196,62 @@ const SKILL_NAMES = ['exploring', 'debugging', 'impact-analysis', 'refactoring']
  * Install GitNexus skills to a target directory.
  * Each skill is installed as {targetDir}/gitnexus-{skillName}/SKILL.md
  * following the Agent Skills standard (both Cursor and Claude Code).
+ *
+ * Supports two source layouts:
+ *   - Flat file:  skills/{name}.md           → copied as SKILL.md
+ *   - Directory:  skills/{name}/SKILL.md     → copied recursively (includes references/, etc.)
  */
 async function installSkillsTo(targetDir) {
     const installed = [];
+    const skillsRoot = path.join(__dirname, '..', '..', 'skills');
     for (const skillName of SKILL_NAMES) {
-        const sourcePath = path.join(__dirname, '..', '..', 'skills', `${skillName}.md`);
         const skillDir = path.join(targetDir, `gitnexus-${skillName}`);
-        const destPath = path.join(skillDir, 'SKILL.md');
         try {
-            const content = await fs.readFile(sourcePath, 'utf-8');
-            await fs.mkdir(skillDir, { recursive: true });
-            await fs.writeFile(destPath, content, 'utf-8');
-            installed.push(skillName);
+            // Try directory-based skill first (skills/{name}/SKILL.md)
+            const dirSource = path.join(skillsRoot, skillName);
+            const dirSkillFile = path.join(dirSource, 'SKILL.md');
+            let isDirectory = false;
+            try {
+                const stat = await fs.stat(dirSource);
+                isDirectory = stat.isDirectory();
+            }
+            catch { /* not a directory */ }
+            if (isDirectory) {
+                await copyDirRecursive(dirSource, skillDir);
+                installed.push(skillName);
+            }
+            else {
+                // Fall back to flat file (skills/{name}.md)
+                const flatSource = path.join(skillsRoot, `${skillName}.md`);
+                const content = await fs.readFile(flatSource, 'utf-8');
+                await fs.mkdir(skillDir, { recursive: true });
+                await fs.writeFile(path.join(skillDir, 'SKILL.md'), content, 'utf-8');
+                installed.push(skillName);
+            }
         }
         catch {
-            // Source skill file not found — skip
+            // Source skill not found — skip
         }
     }
     return installed;
 }
+/**
+ * Recursively copy a directory tree.
+ */
+async function copyDirRecursive(src, dest) {
+    await fs.mkdir(dest, { recursive: true });
+    const entries = await fs.readdir(src, { withFileTypes: true });
+    for (const entry of entries) {
+        const srcPath = path.join(src, entry.name);
+        const destPath = path.join(dest, entry.name);
+        if (entry.isDirectory()) {
+            await copyDirRecursive(srcPath, destPath);
+        }
+        else {
+            await fs.copyFile(srcPath, destPath);
+        }
+    }
+}
 /**
  * Install global Cursor skills to ~/.cursor/skills/gitnexus/
  */

package/dist/cli/tool.d.ts

@@ -0,0 +1,37 @@
+/**
+ * Direct CLI Tool Commands
+ *
+ * Exposes GitNexus tools (query, context, impact, cypher) as direct CLI commands.
+ * Bypasses MCP entirely — invokes LocalBackend directly for minimal overhead.
+ *
+ * Usage:
+ *   gitnexus query "authentication flow"
+ *   gitnexus context --name "validateUser"
+ *   gitnexus impact --target "AuthService" --direction upstream
+ *   gitnexus cypher "MATCH (n:Function) RETURN n.name LIMIT 10"
+ *
+ * Note: Output goes to stderr because KuzuDB's native module captures stdout
+ * at the OS level during init. This is consistent with augment.ts.
+ */
+export declare function queryCommand(queryText: string, options?: {
+    repo?: string;
+    context?: string;
+    goal?: string;
+    limit?: string;
+    content?: boolean;
+}): Promise<void>;
+export declare function contextCommand(name: string, options?: {
+    repo?: string;
+    file?: string;
+    uid?: string;
+    content?: boolean;
+}): Promise<void>;
+export declare function impactCommand(target: string, options?: {
+    direction?: string;
+    repo?: string;
+    depth?: string;
+    includeTests?: boolean;
+}): Promise<void>;
+export declare function cypherCommand(query: string, options?: {
+    repo?: string;
+}): Promise<void>;

package/dist/cli/tool.js

@@ -0,0 +1,91 @@
+/**
+ * Direct CLI Tool Commands
+ *
+ * Exposes GitNexus tools (query, context, impact, cypher) as direct CLI commands.
+ * Bypasses MCP entirely — invokes LocalBackend directly for minimal overhead.
+ *
+ * Usage:
+ *   gitnexus query "authentication flow"
+ *   gitnexus context --name "validateUser"
+ *   gitnexus impact --target "AuthService" --direction upstream
+ *   gitnexus cypher "MATCH (n:Function) RETURN n.name LIMIT 10"
+ *
+ * Note: Output goes to stderr because KuzuDB's native module captures stdout
+ * at the OS level during init. This is consistent with augment.ts.
+ */
+import { LocalBackend } from '../mcp/local/local-backend.js';
+let _backend = null;
+async function getBackend() {
+    if (_backend)
+        return _backend;
+    _backend = new LocalBackend();
+    const ok = await _backend.init();
+    if (!ok) {
+        console.error('GitNexus: No indexed repositories found. Run: gitnexus analyze');
+        process.exit(1);
+    }
+    return _backend;
+}
+function output(data) {
+    const text = typeof data === 'string' ? data : JSON.stringify(data, null, 2);
+    // stderr because KuzuDB captures stdout at OS level
+    process.stderr.write(text + '\n');
+}
+export async function queryCommand(queryText, options) {
+    if (!queryText?.trim()) {
+        console.error('Usage: gitnexus query <search_query>');
+        process.exit(1);
+    }
+    const backend = await getBackend();
+    const result = await backend.callTool('query', {
+        query: queryText,
+        task_context: options?.context,
+        goal: options?.goal,
+        limit: options?.limit ? parseInt(options.limit) : undefined,
+        include_content: options?.content ?? false,
+        repo: options?.repo,
+    });
+    output(result);
+}
+export async function contextCommand(name, options) {
+    if (!name?.trim() && !options?.uid) {
+        console.error('Usage: gitnexus context <symbol_name> [--uid <uid>] [--file <path>]');
+        process.exit(1);
+    }
+    const backend = await getBackend();
+    const result = await backend.callTool('context', {
+        name: name || undefined,
+        uid: options?.uid,
+        file_path: options?.file,
+        include_content: options?.content ?? false,
+        repo: options?.repo,
+    });
+    output(result);
+}
+export async function impactCommand(target, options) {
+    if (!target?.trim()) {
+        console.error('Usage: gitnexus impact <symbol_name> [--direction upstream|downstream]');
+        process.exit(1);
+    }
+    const backend = await getBackend();
+    const result = await backend.callTool('impact', {
+        target,
+        direction: options?.direction || 'upstream',
+        maxDepth: options?.depth ? parseInt(options.depth) : undefined,
+        includeTests: options?.includeTests ?? false,
+        repo: options?.repo,
+    });
+    output(result);
+}
+export async function cypherCommand(query, options) {
+    if (!query?.trim()) {
+        console.error('Usage: gitnexus cypher <cypher_query>');
+        process.exit(1);
+    }
+    const backend = await getBackend();
+    const result = await backend.callTool('cypher', {
+        query,
+        repo: options?.repo,
+    });
+    output(result);
+}

package/dist/cli/wiki.d.ts

@@ -0,0 +1,13 @@
+/**
+ * Wiki Command
+ *
+ * Generates repository documentation from the knowledge graph.
+ * Usage: gitnexus wiki [path] [options]
+ */
+export interface WikiCommandOptions {
+    force?: boolean;
+    model?: string;
+    baseUrl?: string;
+    apiKey?: string;
+}
+export declare const wikiCommand: (inputPath?: string, options?: WikiCommandOptions) => Promise<void>;