Files
codegraph/src/bin/codegraph.ts
T
Colby McHenryandClaude Fable 5 490791c07a feat(installer): GitHub Copilot targets — VS Code, Copilot CLI, JetBrains
Adds three new installer targets so `codegraph install` can wire the
MCP server into GitHub Copilot surfaces:

- copilot-vscode: .vscode/mcp.json (local) or the VS Code User-dir
  mcp.json (global), JSONC-surgical edits, `--path` pinned via
  ${workspaceFolder} for global installs
- copilot-cli: ~/.copilot/mcp-config.json
- copilot-jetbrains: github-copilot config dir (XDG / %LOCALAPPDATA%)

Detection, install, uninstall, and --print-config are covered for all
three in installer-targets.test.ts, including platform-specific path
resolution.

Co-Authored-By: Claude Fable 5 <noreply@anthropic.com>
2026-07-23 17:29:38 -05:00

2470 lines
98 KiB
JavaScript

#!/usr/bin/env node
/**
* CodeGraph CLI
*
* Command-line interface for CodeGraph code intelligence.
*
* Usage:
* codegraph Run interactive installer (when no args)
* codegraph install Run interactive installer
* codegraph uninstall Remove CodeGraph from your agents
* codegraph init [path] Initialize CodeGraph in a project
* codegraph uninit [path] Remove CodeGraph from a project
* codegraph index [path] Index all files in the project
* codegraph sync [path] Sync changes since last index
* codegraph status [path] Show index status
* codegraph query <search> Search for symbols
* codegraph files [options] Show project file structure
* codegraph context <task> Build context for a task
* codegraph callers <symbol> Find what calls a function/method
* codegraph callees <symbol> Find what a function/method calls
* codegraph impact <symbol> Analyze what code is affected by changing a symbol
* codegraph affected [files] Find test files affected by changes
* codegraph upgrade [version] Update CodeGraph to the latest release
*/
// FIRST import, before anything else loads: capture process.ppid while our
// launcher is (almost certainly) still alive. A launcher killed mid-startup
// otherwise blinds the PPID watchdog forever (#1185) — see early-ppid.ts.
import '../mcp/early-ppid';
// Persist V8 compile artifacts across runs (Node ≥22.8). Every invocation —
// and every worker thread, which re-requires the whole extraction module
// graph — skips recompiling unchanged sources. Worth hundreds of ms of
// worker-boot latency per bulk index; harmless no-op when unavailable.
try {
// eslint-disable-next-line @typescript-eslint/no-require-imports
(require('node:module') as { enableCompileCache?: () => void }).enableCompileCache?.();
} catch { /* cache is best-effort */ }
import { Command } from 'commander';
import * as path from 'path';
import * as fs from 'fs';
import { getCodeGraphDir, isInitialized, unsafeIndexRootReason, findNearestCodeGraphRoot, planFrontload, hasStructuralKeyword, extractCodeTokens } from '../directory';
import { extractProseCandidates } from '../search/identifier-segments';
import { detectWorktreeIndexMismatch, worktreeMismatchWarning } from '../sync/worktree';
import { createShimmerProgress } from '../ui/shimmer-progress';
import { getGlyphs } from '../ui/glyphs';
import { ansiColorsEnabled } from '../ui/color';
import { buildNode25BlockBanner, buildNodeTooOldBanner, MIN_NODE_MAJOR } from './node-version-check';
import { installFatalHandlers } from './fatal-handler';
import { relaunchWithWasmRuntimeFlagsIfNeeded } from '../extraction/wasm-runtime-flags';
import { installCommandSupervision } from './command-supervision';
import { EXTRACTION_VERSION } from '../extraction/extraction-version';
import { getTelemetry, TELEMETRY_DOCS, recordIndexEvent } from '../telemetry';
// Decided once, before `--color`/`--no-color` are stripped from argv below
// (#1281). Piped/redirected stdout, NO_COLOR, or --no-color -> plain output.
const COLORS_ENABLED = ansiColorsEnabled();
// Lazy-load heavy modules (CodeGraph, runInstaller) to keep CLI startup fast.
async function loadCodeGraph(): Promise<typeof import('../index')> {
try {
return await import('../index');
} catch (err) {
const msg = err instanceof Error ? err.message : String(err);
const [red, reset] = COLORS_ENABLED ? ['\x1b[31m', '\x1b[0m'] : ['', ''];
console.error(`${red}${getGlyphs().err}${reset} Failed to load CodeGraph modules.`);
console.error(`\n Node: ${process.version} Platform: ${process.platform} ${process.arch}`);
console.error(`\n Error: ${msg}`);
console.error('\n Try reinstalling with: npm install -g @colbymchenry/codegraph\n');
process.exit(1);
}
}
// Dynamic import helper — tsc compiles import() to require() in CJS mode,
// which fails for ESM-only packages. This bypasses the transformation.
// eslint-disable-next-line @typescript-eslint/no-implied-eval
const importESM = new Function('specifier', 'return import(specifier)') as
(specifier: string) => Promise<typeof import('@clack/prompts')>;
// Block CodeGraph on Node.js 25.x — V8's turboshaft WASM JIT has a Zone
// allocator bug that reliably crashes when compiling tree-sitter
// grammars (see #54, #81, #140). The previous behaviour was a soft
// console.warn that scrolls off-screen before the OOM crash 30 seconds
// later, leading to a steady stream of "what is this OOM" reports.
// Hard-exit before any WASM work; allow override via env var for users
// who patched V8 themselves or want to test a future fix.
const nodeVersion = process.versions.node;
const nodeMajor = parseInt(nodeVersion.split('.')[0] ?? '0', 10);
if (nodeMajor >= 25) {
process.stderr.write(buildNode25BlockBanner(nodeVersion) + '\n');
if (!process.env.CODEGRAPH_ALLOW_UNSAFE_NODE) {
process.exit(1);
}
// Override active — banner shown for visibility, continuing.
}
// Enforce the supported Node floor. `engines` in package.json only *warns* on
// install (unless engine-strict), so hard-block here to actually keep users off
// unsupported versions. Mirrors the 25+ block above. See package.json `engines`.
if (nodeMajor < MIN_NODE_MAJOR) {
process.stderr.write(buildNodeTooOldBanner(nodeVersion) + '\n');
if (!process.env.CODEGRAPH_ALLOW_UNSAFE_NODE) {
process.exit(1);
}
// Override active — banner shown for visibility, continuing.
}
// Re-exec with V8's `--liftoff-only` if it isn't already set, so tree-sitter's
// large WASM grammars never hit the turboshaft Zone OOM (`Fatal process out of
// memory: Zone`) on Node >= 22. No-op under the bundled launcher, which already
// passes the flag. Must run before any grammar (in the parse worker, which
// inherits this process's flags) is compiled. See ../extraction/wasm-runtime-flags.
relaunchWithWasmRuntimeFlagsIfNeeded(__filename);
// Last-resort fatal handlers: log a bounded line and exit non-zero. A fault
// that reaches here escaped every boundary, so the process is in an undefined
// state — keeping it alive is what let the detached MCP daemon orphan and pin a
// CPU core with no recovery (#799, #850). Installed before the command branch
// so it also covers a synchronous throw during startup. See ./fatal-handler.
installFatalHandlers();
// Check if running with no arguments - run installer
if (process.argv.length === 2) {
import('../installer').then(({ runInstaller }) =>
runInstaller()
).catch((err) => {
console.error('Installation failed:', err instanceof Error ? err.message : String(err));
process.exit(1);
});
} else {
// Normal CLI flow
main();
}
function main() {
const program = new Command();
// Version from package.json
const packageJson = JSON.parse(
fs.readFileSync(path.join(__dirname, '..', '..', 'package.json'), 'utf-8')
);
// Make the version trivial to reach. commander's `.version()` (below) wires up
// `--version` and `-V`; intercept the spellings it can't — lowercase `-v` and
// single-dash `-version` — before any parsing. (commander's version short flag
// is the capital `-V`, and its parser rejects a multi-character single-dash
// flag.) The bare `codegraph version` subcommand is registered further down so
// the affordance also shows up in `codegraph --help`.
const firstArg = process.argv[2];
if (firstArg === '-v' || firstArg === '-version') {
console.log(packageJson.version);
return;
}
// =============================================================================
// ANSI Color Helpers (avoid chalk ESM issues)
// =============================================================================
// `--color` / `--no-color` are global and position-independent — they were
// already read by ansiColorsEnabled() at module load, so strip them before
// commander parses (a subcommand would otherwise reject the unknown flag).
process.argv = process.argv.filter((a) => a !== '--color' && a !== '--no-color');
const colors = COLORS_ENABLED
? {
reset: '\x1b[0m',
bold: '\x1b[1m',
dim: '\x1b[2m',
red: '\x1b[31m',
green: '\x1b[32m',
yellow: '\x1b[33m',
blue: '\x1b[34m',
cyan: '\x1b[36m',
white: '\x1b[37m',
gray: '\x1b[90m',
}
: {
reset: '',
bold: '',
dim: '',
red: '',
green: '',
yellow: '',
blue: '',
cyan: '',
white: '',
gray: '',
};
const chalk = {
bold: (s: string) => `${colors.bold}${s}${colors.reset}`,
dim: (s: string) => `${colors.dim}${s}${colors.reset}`,
red: (s: string) => `${colors.red}${s}${colors.reset}`,
green: (s: string) => `${colors.green}${s}${colors.reset}`,
yellow: (s: string) => `${colors.yellow}${s}${colors.reset}`,
blue: (s: string) => `${colors.blue}${s}${colors.reset}`,
cyan: (s: string) => `${colors.cyan}${s}${colors.reset}`,
white: (s: string) => `${colors.white}${s}${colors.reset}`,
gray: (s: string) => `${colors.gray}${s}${colors.reset}`,
};
program
.name('codegraph')
.description('Code intelligence and knowledge graph for any codebase')
.version(packageJson.version)
// Parsed manually before commander runs (any argv position works); declared
// here so they show up in --help. NO_COLOR / FORCE_COLOR env vars are also
// honored, and piped output defaults to no color (#1281).
.option('--color', 'force ANSI colors even when stdout is not a TTY')
.option('--no-color', 'disable ANSI colors (NO_COLOR env is also honored)');
// Anonymous usage telemetry (see TELEMETRY.md): record the invoked subcommand
// NAME only — never arguments or paths. Counts buffer locally; network sends
// piggyback on commands that run long anyway (quick commands only append to
// the local buffer at exit, costing nothing).
// install/uninstall are absent on purpose: the installer flushes at its own
// end, AFTER its consent prompt — a flush here would fire the first-run
// notice before the user ever sees the toggle.
const TELEMETRY_FLUSH_COMMANDS = new Set(['init', 'uninit', 'index', 'sync', 'upgrade']);
program.hook('preAction', (_thisCommand, actionCommand) => {
try {
// The detached daemon re-invokes `serve --mcp` internally — not a user action.
if (process.env.CODEGRAPH_DAEMON_INTERNAL) return;
const name = actionCommand.name();
if (name === 'telemetry') return; // managing telemetry is not usage
getTelemetry().recordUsage('cli_command', name, true);
if (TELEMETRY_FLUSH_COMMANDS.has(name)) getTelemetry().maybeFlush();
} catch {
/* telemetry must never break the CLI */
}
});
// =============================================================================
// Helper Functions
// =============================================================================
/**
* Resolve project path from argument or current directory
* Walks up parent directories to find nearest initialized CodeGraph project
* (must have .codegraph/codegraph.db, not just .codegraph/lessons.db)
*/
function resolveProjectPath(pathArg?: string): string {
const absolutePath = path.resolve(pathArg || process.cwd());
// If exact path is initialized (has codegraph.db), use it
if (isInitialized(absolutePath)) {
return absolutePath;
}
// Walk up to find nearest parent with CodeGraph initialized
// Note: findNearestCodeGraphRoot finds any .codegraph folder, but we need one with codegraph.db
let current = absolutePath;
const root = path.parse(current).root;
while (current !== root) {
const parent = path.dirname(current);
if (parent === current) break;
current = parent;
if (isInitialized(current)) {
return current;
}
}
// Not found - return original path (will fail later with helpful error)
return absolutePath;
}
/**
* Format a number with commas
*/
function formatNumber(n: number): string {
return n.toLocaleString();
}
/**
* Format duration in milliseconds to human readable
*/
function formatDuration(ms: number): string {
if (ms < 1000) {
return `${ms}ms`;
}
const seconds = ms / 1000;
if (seconds < 60) {
return `${seconds.toFixed(1)}s`;
}
const minutes = Math.floor(seconds / 60);
const remainingSeconds = seconds % 60;
return `${minutes}m ${remainingSeconds.toFixed(0)}s`;
}
// Shimmer progress renderer (runs in a worker thread for smooth animation)
// Imported at top of file from '../ui/shimmer-progress'
/**
* Create a plain-text progress callback for --verbose mode.
* No animations, no ANSI tricks — just timestamped lines to stdout.
*/
function createVerboseProgress(): (progress: { phase: string; current: number; total: number; currentFile?: string }) => void {
let lastPhase = '';
let lastPct = -1;
const startTime = Date.now();
return (progress) => {
const elapsed = ((Date.now() - startTime) / 1000).toFixed(1);
if (progress.phase !== lastPhase) {
lastPhase = progress.phase;
lastPct = -1;
console.log(`[${elapsed}s] Phase: ${progress.phase}`);
}
if (progress.total > 0) {
const pct = Math.floor((progress.current / progress.total) * 100);
// Log every 5% to keep output manageable
if (pct >= lastPct + 5 || progress.current === progress.total) {
lastPct = pct;
console.log(`[${elapsed}s] ${progress.current}/${progress.total} (${pct}%)${progress.currentFile ? ` ${getGlyphs().dash} ${progress.currentFile}` : ''}`);
}
} else if (progress.current > 0) {
// Scanning phase (no total yet) — log periodically
if (progress.current % 1000 === 0 || progress.current === 1) {
console.log(`[${elapsed}s] ${formatNumber(progress.current)} files found`);
}
}
};
}
/**
* Print success message
*/
function success(message: string): void {
console.log(chalk.green(getGlyphs().ok) + ' ' + message);
}
/**
* Print error message
*/
function error(message: string): void {
console.error(chalk.red(getGlyphs().err) + ' ' + message);
}
/**
* Print info message
*/
function info(message: string): void {
console.log(chalk.blue(getGlyphs().info) + ' ' + message);
}
/**
* Print warning message
*/
function warn(message: string): void {
console.log(chalk.yellow(getGlyphs().warn) + ' ' + message);
}
type IndexResult = {
success: boolean;
filesIndexed: number;
filesSkipped: number;
filesErrored: number;
nodesCreated: number;
edgesCreated: number;
errors: Array<{ message: string; filePath?: string; severity: string; code?: string }>;
durationMs: number;
};
/**
* Print indexing results using clack log methods
*/
function printIndexResult(clack: typeof import('@clack/prompts'), result: IndexResult, projectPath?: string): void {
const hasErrors = result.filesErrored > 0;
// Surface non-file-level failures (e.g. lock-acquisition failure
// when another indexer is running) before the file-count branches.
// Without this the CLI falls through to "No files found to index",
// which is actively misleading — the index DID run, it just couldn't
// get the lock.
//
// If success is false but no severity:'error' entry exists in
// `result.errors` (degenerate case — shouldn't happen in practice
// but worth guarding because the result shape is plumbed through
// multiple call sites), fall back to a generic message rather than
// continuing to the misleading "No files found" branch or throwing.
if (!result.success && !hasErrors && result.filesIndexed === 0) {
const generic = result.errors.find((e) => e.severity === 'error');
clack.log.error(generic?.message ?? `Indexing failed ${getGlyphs().dash} no further details available`);
return;
}
if (result.filesIndexed > 0) {
if (hasErrors) {
clack.log.success(`Indexed ${formatNumber(result.filesIndexed)} files (${formatNumber(result.filesErrored)} could not be parsed)`);
} else {
clack.log.success(`Indexed ${formatNumber(result.filesIndexed)} files`);
}
clack.log.info(`${formatNumber(result.nodesCreated)} nodes, ${formatNumber(result.edgesCreated)} edges in ${formatDuration(result.durationMs)}`);
// A PARTIAL index (files silently dropped mid-pipeline) must not pass
// as a clean run — it's the difference between "indexed the repo" and
// "indexed most of the repo, quietly". Only the completeness
// reconciliation warning; per-file extractor warnings stay in the
// error-code summary below.
for (const w of result.errors.filter((e) => e.code === 'index_partial')) {
clack.log.warn(w.message);
}
} else if (hasErrors) {
clack.log.error(`Indexing failed ${getGlyphs().dash} all ${formatNumber(result.filesErrored)} files had errors`);
} else {
clack.log.warn('No files found to index');
}
if (hasErrors) {
const errorsByCode = new Map<string, number>();
for (const err of result.errors) {
if (err.severity === 'error') {
const code = err.code || 'unknown';
errorsByCode.set(code, (errorsByCode.get(code) || 0) + 1);
}
}
const codeLabels: Record<string, string> = {
parse_error: 'files failed to parse',
read_error: 'files could not be read',
size_exceeded: 'files exceeded size limit',
path_traversal: 'blocked paths',
unsupported_language: 'unsupported language',
parser_error: 'parser initialization failures',
};
const breakdown = Array.from(errorsByCode)
.map(([code, count]) => `${formatNumber(count)} ${codeLabels[code] || code}`)
.join('\n');
clack.note(breakdown, 'Error breakdown');
if (projectPath) {
writeErrorLog(projectPath, result.errors);
clack.log.info('See .codegraph/errors.log for details');
}
if (result.filesIndexed > 0) {
clack.log.info(`The index is fully usable ${getGlyphs().dash} only the failed files are missing.`);
}
} else if (projectPath) {
const logPath = path.join(getCodeGraphDir(projectPath), 'errors.log');
if (fs.existsSync(logPath)) {
fs.unlinkSync(logPath);
}
}
}
/**
* When an `init`/`index` produced an EMPTY graph and the reason is that the
* project's own `.gitignore` excludes nested git repositories — the "super-repo
* gitignores its child repos" layout (#1156), where `init` at the parent
* correctly indexes ~nothing while `init` inside each child works — name those
* repos and offer to index them. An interactive terminal gets a yes/no prompt
* that writes `includeIgnored` to codegraph.json and re-indexes; a
* non-interactive run just prints the one-line opt-in snippet. The caller gates
* this on `nodesCreated === 0`, so a project that DID index real content is
* never nagged about the gitignored reference clones it deliberately keeps out
* (#970, #1065). Best-effort throughout: detection never breaks the command.
*/
async function offerIndexIgnoredRepos(
clack: typeof import('@clack/prompts'),
projectPath: string,
reindex: () => Promise<IndexResult>,
opts: { interactive: boolean },
): Promise<IndexResult | undefined> {
let repos: string[];
try {
const { findUnindexedIgnoredRepos } = await import('../extraction');
repos = findUnindexedIgnoredRepos(projectPath);
} catch {
return; // detection is advisory — never let it break the command
}
if (repos.length === 0) return;
const { PROJECT_CONFIG_FILENAME } = await import('../project-config');
const isOne = repos.length === 1;
const SHOWN = 6;
const names = repos.slice(0, SHOWN).map((r) => r.replace(/\/$/, ''));
const extra = repos.length > SHOWN ? ` (+${formatNumber(repos.length - SHOWN)} more)` : '';
const snippet = `{ "includeIgnored": [${repos.map((p) => JSON.stringify(p)).join(', ')}] }`;
clack.log.warn(
`Your .gitignore excludes ${isOne ? 'a nested git repository' : `${formatNumber(repos.length)} nested git repositories`} here, ` +
`so ${isOne ? 'it was' : 'they were'} not indexed: ${names.join(', ')}${extra}.`,
);
const manualHint = () => {
clack.log.info(
`If ${isOne ? "it's" : "they're"} your code, add ${isOne ? 'it' : 'them'} to ${PROJECT_CONFIG_FILENAME} and re-index:`,
);
clack.log.info(` ${snippet}`);
};
if (!opts.interactive || !process.stdin.isTTY) {
manualHint();
return;
}
const yes = await clack.confirm({
message: `Index ${isOne ? 'it' : `these ${formatNumber(repos.length)}`} now? Adds ${isOne ? 'it' : 'them'} to ${PROJECT_CONFIG_FILENAME}.`,
initialValue: true,
});
if (clack.isCancel(yes) || !yes) {
manualHint();
return;
}
let added: number;
try {
const { addIncludeIgnoredPatterns } = await import('../project-config');
added = addIncludeIgnoredPatterns(projectPath, repos);
} catch (err) {
clack.log.error(`Could not update ${PROJECT_CONFIG_FILENAME}: ${err instanceof Error ? err.message : String(err)}`);
manualHint();
return;
}
clack.log.success(`Added ${formatNumber(added)} ${added === 1 ? 'entry' : 'entries'} to ${PROJECT_CONFIG_FILENAME} ${getGlyphs().dash} re-indexing…`);
const result = await reindex();
printIndexResult(clack, result, projectPath);
return result;
}
/**
* Write detailed error log to .codegraph/errors.log
*/
function writeErrorLog(projectPath: string, errors: Array<{ message: string; filePath?: string; severity: string; code?: string }>): void {
const cgDir = getCodeGraphDir(projectPath);
if (!fs.existsSync(cgDir)) return;
const logPath = path.join(cgDir, 'errors.log');
// Group errors by file path
const errorsByFile = new Map<string, Array<{ message: string; code?: string }>>();
const noFileErrors: Array<{ message: string; code?: string }> = [];
for (const err of errors) {
if (err.severity !== 'error') continue;
if (err.filePath) {
let list = errorsByFile.get(err.filePath);
if (!list) {
list = [];
errorsByFile.set(err.filePath, list);
}
list.push({ message: err.message, code: err.code });
} else {
noFileErrors.push({ message: err.message, code: err.code });
}
}
const lines: string[] = [
`CodeGraph Error Log - ${new Date().toISOString()}`,
`${errorsByFile.size} files with errors`,
'',
];
for (const [filePath, fileErrors] of errorsByFile) {
for (const err of fileErrors) {
lines.push(`${filePath}: ${err.message}`);
}
}
for (const err of noFileErrors) {
lines.push(err.message);
}
fs.writeFileSync(logPath, lines.join('\n') + '\n');
}
/**
* Telemetry for a completed full index (see TELEMETRY.md). The bounded flush
* keeps init/index responsive (these commands just ran for seconds anyway)
* while delivering the event promptly.
*/
async function recordIndexTelemetry(
cg: { getStats(): { filesByLanguage: Record<string, number> }; getBackend(): string },
result: IndexResult,
): Promise<void> {
recordIndexEvent(cg, result);
await getTelemetry().flushNow();
}
// =============================================================================
// Commands
// =============================================================================
/**
* codegraph init [path]
*/
program
.command('init [path]')
.description('Initialize CodeGraph in a project directory and build the initial index')
.option('-i, --index', 'Deprecated: indexing now runs by default; flag accepted for backward compatibility')
.option('-f, --force', 'Initialize even if the path looks like your home directory or a filesystem root')
.option('-v, --verbose', 'Show detailed worker lifecycle and memory info')
.action(async (pathArg: string | undefined, options: { index?: boolean; force?: boolean; verbose?: boolean }) => {
const projectPath = path.resolve(pathArg || process.cwd());
const clack = await importESM('@clack/prompts');
clack.intro('Initializing CodeGraph');
try {
// Refuse to index your home directory / a filesystem root — it pulls in
// caches, other projects, and your whole tree (a multi-GB index + watcher
// churn, and on pre-1.0 macOS a machine-crashing fd blowup, #845).
const unsafe = unsafeIndexRootReason(projectPath);
if (unsafe && !options.force) {
clack.log.error(`Refusing to initialize in ${projectPath} — it looks like ${unsafe}.`);
clack.log.info('Run this inside a specific project directory, or pass --force if you really mean to index everything under it.');
clack.outro('');
process.exitCode = 1;
return;
}
if (isInitialized(projectPath)) {
clack.log.warn(`Already initialized in ${projectPath}`);
clack.log.info('Use "codegraph index" to re-index or "codegraph sync" to update');
try {
const { offerWatchFallback } = await import('../installer');
await offerWatchFallback(clack, projectPath);
} catch { /* non-fatal */ }
clack.outro('');
return;
}
const { default: CodeGraph, getDatabasePath } = await loadCodeGraph();
const cg = await CodeGraph.init(projectPath, { index: false });
clack.log.success(`Initialized in ${projectPath}`);
// Indexing runs by default now. The legacy -i/--index flag is still
// accepted (so existing muscle memory and scripts don't break) but is a
// no-op — initializing always builds the initial index.
// Supervise the index: self-terminate if orphaned or wedged (#999).
// The DB + WAL paths let the liveness watchdog tell a slow store on
// degraded storage from a true wedge (#1231).
// A closure so we can re-run the exact same supervised, progress-rendered
// index if the user opts gitignored child repos in below (#1156).
const dbPath = getDatabasePath(projectPath);
const runIndex = async (): Promise<IndexResult> => {
const supervision = installCommandSupervision('init', { progressPaths: [dbPath, `${dbPath}-wal`] });
try {
if (options.verbose) {
return await cg.indexAll({ onProgress: createVerboseProgress(), verbose: true });
}
process.stdout.write(`${colors.dim}${getGlyphs().rail}${colors.reset}\n`);
const progress = createShimmerProgress();
const r = await cg.indexAll({ onProgress: progress.onProgress });
await progress.stop();
return r;
} finally {
supervision.stop();
}
};
const result = await runIndex();
printIndexResult(clack, result, projectPath);
await recordIndexTelemetry(cg, result);
// An empty graph at a git super-repo usually means `.gitignore` excludes
// the child repos that hold the code — surface them and offer to opt in
// rather than leaving the user with a silent 0-node "Done". (#1156)
if (result.nodesCreated === 0) {
await offerIndexIgnoredRepos(clack, projectPath, runIndex, { interactive: true });
}
try {
const { offerWatchFallback } = await import('../installer');
await offerWatchFallback(clack, projectPath);
} catch { /* non-fatal */ }
clack.outro('Done');
cg.destroy();
} catch (err) {
clack.log.error(`Failed: ${err instanceof Error ? err.message : String(err)}`);
process.exit(1);
}
});
/**
* codegraph uninit [path]
*/
program
.command('uninit [path]')
.description('Remove CodeGraph from a project (deletes .codegraph/ directory)')
.option('-f, --force', 'Skip confirmation prompt')
.action(async (pathArg: string | undefined, options: { force?: boolean }) => {
const projectPath = resolveProjectPath(pathArg);
try {
if (!isInitialized(projectPath)) {
warn(`CodeGraph is not initialized in ${projectPath}`);
return;
}
if (!options.force) {
// Confirm with user
const readline = await import('readline');
const rl = readline.createInterface({ input: process.stdin, output: process.stdout });
const answer = await new Promise<string>((resolve) => {
rl.question(
chalk.yellow(`${getGlyphs().warn} This will permanently delete all CodeGraph data. Continue? (y/N) `),
resolve
);
});
rl.close();
if (answer.toLowerCase() !== 'y') {
info('Cancelled');
return;
}
}
const { default: CodeGraph } = await loadCodeGraph();
const cg = CodeGraph.openSync(projectPath);
cg.uninitialize();
// Clean up any git sync hooks we installed (no-op if none / not a repo).
try {
const { removeGitSyncHook } = await import('../sync/git-hooks');
const removed = removeGitSyncHook(projectPath);
if (removed.installed.length > 0) {
info(`Removed git ${removed.installed.join(', ')} sync hook${removed.installed.length > 1 ? 's' : ''}`);
}
} catch { /* non-fatal */ }
success(`Removed CodeGraph from ${projectPath}`);
// Churn signal — and flush now, since after an uninit there may be no
// "next run" to deliver it.
try {
getTelemetry().recordLifecycle('uninstall', {});
await getTelemetry().flushNow();
} catch { /* non-fatal */ }
} catch (err) {
error(`Failed to uninitialize: ${err instanceof Error ? err.message : String(err)}`);
process.exit(1);
}
});
/**
* codegraph index [path]
*/
program
.command('index [path]')
.description('Rebuild the full index from scratch (same result as a fresh init)')
.option('-f, --force', 'Index even if the path looks like your home directory or a filesystem root')
.option('-q, --quiet', 'Suppress progress output')
.option('-v, --verbose', 'Show detailed worker lifecycle and memory info')
.action(async (pathArg: string | undefined, options: { force?: boolean; quiet?: boolean; verbose?: boolean }) => {
const projectPath = resolveProjectPath(pathArg);
try {
// Don't (re)index your home directory / a filesystem root (#845). --force
// doubles as the override.
const unsafe = unsafeIndexRootReason(projectPath);
if (unsafe && !options.force) {
error(`Refusing to index ${projectPath} — it looks like ${unsafe}. Pass --force to override.`);
process.exit(1);
}
if (!isInitialized(projectPath)) {
error(`CodeGraph not initialized in ${projectPath}`);
info('Run "codegraph init" first');
process.exit(1);
}
const { default: CodeGraph, getDatabasePath } = await loadCodeGraph();
// `index` is a FULL re-index — identical to a fresh `init`. RECREATE the
// database from scratch (discard .codegraph/codegraph.db + its WAL) rather
// than opening the old graph and DELETE-ing every row. The clear-then-index
// approach reported "0 nodes" without the clear (#874); the recreate keeps
// that fixed AND avoids the failure mode where, on a large or pre-fix
// poisoned index, the per-row FTS delete churn wedged the main thread long
// enough to trip the liveness watchdog before scanning even began (#1067).
// recreate() hands back a fresh, empty instance — no clear() needed. For
// fast incremental updates use `sync`.
const cg = await CodeGraph.recreate(projectPath);
// Supervise the indexer: self-terminate if orphaned (parent shim killed)
// or if the main thread wedges — neither was guarded on this path (#999).
// The DB + WAL paths let the liveness watchdog tell a slow store on
// degraded storage from a true wedge (#1231).
const dbPath = getDatabasePath(projectPath);
const supervision = installCommandSupervision('index', { progressPaths: [dbPath, `${dbPath}-wal`] });
try {
if (options.quiet) {
// Quiet mode: no UI, just run against the freshly-recreated graph.
const result = await cg.indexAll();
if (!result.success) process.exit(1);
cg.destroy();
return;
}
const clack = await importESM('@clack/prompts');
clack.intro('Indexing project');
// A closure so a re-index (after opting gitignored child repos in, #1156)
// renders identically. Supervision already wraps the whole command.
const renderIndex = async (): Promise<IndexResult> => {
if (options.verbose) {
return await cg.indexAll({ onProgress: createVerboseProgress(), verbose: true });
}
process.stdout.write(`${colors.dim}${getGlyphs().rail}${colors.reset}\n`);
const progress = createShimmerProgress();
const r = await cg.indexAll({ onProgress: progress.onProgress });
await progress.stop();
return r;
};
const result = await renderIndex();
printIndexResult(clack, result, projectPath);
await recordIndexTelemetry(cg, result);
// Empty graph at a git super-repo → likely `.gitignore`d child repos;
// name them and offer to opt in instead of a silent 0-node result (#1156).
let finalResult = result;
if (result.nodesCreated === 0) {
finalResult = (await offerIndexIgnoredRepos(clack, projectPath, renderIndex, { interactive: true })) ?? result;
}
if (!finalResult.success) {
process.exit(1);
}
clack.outro('Done');
cg.destroy();
} finally {
supervision.stop();
}
} catch (err) {
error(`Failed to index: ${err instanceof Error ? err.message : String(err)}`);
process.exit(1);
}
});
/**
* codegraph sync [path]
*/
program
.command('sync [path]')
.description('Sync changes since last index')
.option('-q, --quiet', 'Suppress output (for git hooks)')
.action(async (pathArg: string | undefined, options: { quiet?: boolean }) => {
const projectPath = resolveProjectPath(pathArg);
try {
if (!isInitialized(projectPath)) {
if (!options.quiet) {
error(`CodeGraph not initialized in ${projectPath}`);
}
process.exit(1);
}
const { default: CodeGraph } = await loadCodeGraph();
const cg = await CodeGraph.open(projectPath);
if (options.quiet) {
await cg.sync();
cg.destroy();
return;
}
const clack = await importESM('@clack/prompts');
clack.intro('Syncing CodeGraph');
process.stdout.write(`${colors.dim}${getGlyphs().rail}${colors.reset}\n`);
const progress = createShimmerProgress();
const result = await cg.sync({
onProgress: progress.onProgress,
});
await progress.stop();
const totalChanges = result.filesAdded + result.filesModified + result.filesRemoved;
if (totalChanges === 0) {
clack.log.info('Already up to date');
} else {
clack.log.success(`Synced ${formatNumber(totalChanges)} changed files`);
const details: string[] = [];
if (result.filesAdded > 0) details.push(`Added: ${result.filesAdded}`);
if (result.filesModified > 0) details.push(`Modified: ${result.filesModified}`);
if (result.filesRemoved > 0) details.push(`Removed: ${result.filesRemoved}`);
clack.log.info(`${details.join(', ')} ${getGlyphs().dash} ${formatNumber(result.nodesUpdated)} nodes in ${formatDuration(result.durationMs)}`);
}
clack.outro('Done');
cg.destroy();
} catch (err) {
if (!options.quiet) {
error(`Failed to sync: ${err instanceof Error ? err.message : String(err)}`);
}
process.exit(1);
}
});
/**
* codegraph status [path]
*/
program
.command('status [path]')
.description('Show index status and statistics')
.option('-j, --json', 'Output as JSON')
.action(async (pathArg: string | undefined, options: { json?: boolean }) => {
const projectPath = resolveProjectPath(pathArg);
// The directory the user actually ran from, before walking up to the index
// root. Used to detect when the resolved index lives in a different git
// working tree (e.g. a nested worktree borrowing the main checkout's index).
const startPath = path.resolve(pathArg || process.cwd());
const worktreeMismatch = detectWorktreeIndexMismatch(startPath, projectPath);
try {
if (!isInitialized(projectPath)) {
if (options.json) {
console.log(JSON.stringify({
initialized: false,
version: packageJson.version,
projectPath,
indexPath: getCodeGraphDir(projectPath),
lastIndexed: null,
}));
return;
}
console.log(chalk.bold('\nCodeGraph Status\n'));
info(`Project: ${projectPath}`);
warn('Not initialized');
info('Run "codegraph init" to initialize');
return;
}
const { default: CodeGraph } = await loadCodeGraph();
const cg = await CodeGraph.open(projectPath);
const stats = cg.getStats();
const changes = cg.getChangedFiles();
const backend = cg.getBackend();
const journalMode = cg.getJournalMode();
const buildInfo = cg.getIndexBuildInfo();
const reindexRecommended = cg.isIndexStale();
const indexState = cg.getIndexState();
// Zero on a healthy index; non-zero at rest means a resolution pass was
// interrupted, so some files' call edges are missing (#1187).
const pendingRefs = cg.getPendingReferenceCount();
// JSON output mode
if (options.json) {
const lastIndexedMs = cg.getLastIndexedAt();
console.log(JSON.stringify({
initialized: true,
version: packageJson.version,
projectPath,
indexPath: getCodeGraphDir(projectPath),
lastIndexed: lastIndexedMs != null ? new Date(lastIndexedMs).toISOString() : null,
fileCount: stats.fileCount,
nodeCount: stats.nodeCount,
edgeCount: stats.edgeCount,
dbSizeBytes: stats.dbSizeBytes,
backend,
journalMode,
nodesByKind: stats.nodesByKind,
languages: Object.entries(stats.filesByLanguage).filter(([, count]) => count > 0).map(([lang]) => lang),
pendingChanges: {
added: changes.added.length,
modified: changes.modified.length,
removed: changes.removed.length,
},
worktreeMismatch: worktreeMismatch
? { worktreeRoot: worktreeMismatch.worktreeRoot, indexRoot: worktreeMismatch.indexRoot }
: null,
index: {
builtWithVersion: buildInfo.version,
builtWithExtractionVersion: buildInfo.extractionVersion,
currentExtractionVersion: EXTRACTION_VERSION,
reindexRecommended,
// 'complete' | 'partial' (files silently dropped) | 'indexing'
// (a run was killed mid-index — the index is truncated) |
// 'failed' | null (predates the marker).
state: indexState,
// References awaiting resolution. Non-zero at rest means an
// interrupted resolution pass left edges missing; the next
// sync sweeps them (#1187).
pendingRefs,
},
}));
cg.destroy();
return;
}
console.log(chalk.bold('\nCodeGraph Status\n'));
// Project info
console.log(chalk.cyan('Project:'), projectPath);
if (worktreeMismatch) {
warn(worktreeMismatchWarning(worktreeMismatch));
}
if (indexState === 'indexing') {
warn('The last index run never finished (killed mid-index?) — the index is truncated. Re-run "codegraph index".');
} else if (indexState === 'partial') {
warn('The last index run silently dropped files — the index is partial. Re-run "codegraph index".');
} else if (indexState === 'failed') {
warn('The last index run failed — results may be incomplete. Re-run "codegraph index".');
}
if (pendingRefs > 0) {
warn(`${formatNumber(pendingRefs)} references from an interrupted run are awaiting resolution — some callers/impact edges are missing. Run "codegraph sync" to resolve them.`);
}
console.log();
// Index stats
console.log(chalk.bold('Index Statistics:'));
console.log(` Files: ${formatNumber(stats.fileCount)}`);
console.log(` Nodes: ${formatNumber(stats.nodeCount)}`);
console.log(` Edges: ${formatNumber(stats.edgeCount)}`);
console.log(` DB Size: ${(stats.dbSizeBytes / 1024 / 1024).toFixed(2)} MB`);
// Surface the active SQLite backend (node:sqlite — Node's built-in real
// SQLite, full WAL + FTS5, no native build).
const backendLabel = chalk.green(`node:sqlite ${getGlyphs().dash} built-in (full WAL)`);
console.log(` Backend: ${backendLabel}`);
// Effective journal mode: 'wal' means concurrent reads never block on a
// writer; anything else means they can ("database is locked"). node:sqlite
// supports WAL everywhere, so a non-wal mode means the filesystem can't
// (network mounts, WSL2 /mnt). See issue #238.
const journalLabel = journalMode === 'wal'
? chalk.green('wal')
: chalk.yellow(`${journalMode || 'unknown'} ${getGlyphs().dash} WAL inactive; reads can block on writes`);
console.log(` Journal: ${journalLabel}`);
console.log();
// Node breakdown
console.log(chalk.bold('Nodes by Kind:'));
const nodesByKind = Object.entries(stats.nodesByKind)
.filter(([, count]) => count > 0)
.sort((a, b) => b[1] - a[1]);
for (const [kind, count] of nodesByKind) {
console.log(` ${kind.padEnd(15)} ${formatNumber(count)}`);
}
console.log();
// Language breakdown
console.log(chalk.bold('Files by Language:'));
const filesByLang = Object.entries(stats.filesByLanguage)
.filter(([, count]) => count > 0)
.sort((a, b) => b[1] - a[1]);
for (const [lang, count] of filesByLang) {
console.log(` ${lang.padEnd(15)} ${formatNumber(count)}`);
}
console.log();
// Pending changes
const totalChanges = changes.added.length + changes.modified.length + changes.removed.length;
if (totalChanges > 0) {
console.log(chalk.bold('Pending Changes:'));
if (changes.added.length > 0) {
console.log(` Added: ${changes.added.length} files`);
}
if (changes.modified.length > 0) {
console.log(` Modified: ${changes.modified.length} files`);
}
if (changes.removed.length > 0) {
console.log(` Removed: ${changes.removed.length} files`);
}
info('Run "codegraph sync" to update the index');
} else {
success('Index is up to date');
}
console.log();
// Re-index hint: the index was built by an older engine than the one now
// running, so a rebuild would add data a migration can't backfill.
if (reindexRecommended) {
const builtWith = buildInfo.version ? `v${buildInfo.version.replace(/^v/, '')}` : 'an earlier version';
warn(`Index was built by ${builtWith}; re-index to pick up this engine's improvements.`);
info('Run "codegraph index" (full rebuild) or "codegraph sync"');
console.log();
}
cg.destroy();
} catch (err) {
error(`Failed to get status: ${err instanceof Error ? err.message : String(err)}`);
process.exit(1);
}
});
/**
* codegraph query <search>
*/
program
.command('query <search>')
.description('Search for symbols in the codebase')
.option('-p, --path <path>', 'Project path')
.option('-l, --limit <number>', 'Maximum results', '10')
.option('-k, --kind <kind>', 'Filter by node kind (function, class, etc.)')
.option('-j, --json', 'Output as JSON')
.action(async (search: string, options: { path?: string; limit?: string; kind?: string; json?: boolean }) => {
const projectPath = resolveProjectPath(options.path);
try {
if (!isInitialized(projectPath)) {
error(`CodeGraph not initialized in ${projectPath}`);
process.exit(1);
}
const { default: CodeGraph } = await loadCodeGraph();
const cg = await CodeGraph.open(projectPath);
const limit = parseInt(options.limit || '10', 10);
const rawResults = cg.searchNodes(search, {
limit,
kinds: options.kind ? [options.kind as any] : undefined,
});
// Mirror the MCP search down-rank so the CLI also surfaces the
// hand-written implementation before protobuf/gRPC scaffolding
// when both share a name. See extraction/generated-detection.ts.
const { isGeneratedFile } = await import('../extraction/generated-detection');
const results = [...rawResults].sort((a, b) => {
const aGen = isGeneratedFile(a.node.filePath) ? 1 : 0;
const bGen = isGeneratedFile(b.node.filePath) ? 1 : 0;
return aGen - bGen;
});
if (options.json) {
console.log(JSON.stringify(results, null, 2));
} else {
if (results.length === 0) {
info(`No results found for "${search}"`);
} else {
console.log(chalk.bold(`\nSearch Results for "${search}":\n`));
// Results arrive already ranked by relevance, so the order conveys
// it. We don't print the raw score: it's an unbounded BM25/FTS value
// (relative-ranking only), and the old `(score * 100)%` rendered it
// as nonsensical percentages like "12042%" (#1045). The MCP search
// tool likewise shows no score. Raw `score` stays in --json output.
for (const result of results) {
const node = result.node;
const location = `${node.filePath}:${node.startLine}`;
console.log(
chalk.cyan(node.kind.padEnd(12)) +
chalk.white(node.name)
);
console.log(chalk.dim(` ${location}`));
if (node.signature) {
console.log(chalk.dim(` ${node.signature}`));
}
console.log();
}
}
}
cg.destroy();
} catch (err) {
error(`Search failed: ${err instanceof Error ? err.message : String(err)}`);
process.exit(1);
}
});
/**
* codegraph explore <query...>
*
* The CLI face of the MCP codegraph_explore tool — same handler, same
* output (source of the relevant symbols grouped by file + the call path
* among them). Exists so agents WITHOUT the MCP tools — Task-tool
* subagents (which don't inherit MCP tools, #704) and non-MCP harnesses —
* can reach the graph through a plain shell command.
*/
program
.command('explore <query...>')
.description('Explore an area: relevant symbols\' source + call paths in one shot (same output as the codegraph_explore MCP tool)')
.option('-p, --path <path>', 'Project path')
.option('--max-files <number>', 'Maximum number of files to include source from')
.action(async (queryParts: string[], options: { path?: string; maxFiles?: string }) => {
const projectPath = resolveProjectPath(options.path);
try {
if (!isInitialized(projectPath)) {
error(`CodeGraph isn't available here — no .codegraph/ index exists in ${projectPath}. If you are an AI agent: continue with your usual tools; indexing is the user's decision, do not run it yourself. (The project owner can enable CodeGraph with 'codegraph init'.)`);
process.exit(1);
}
const { default: CodeGraph } = await loadCodeGraph();
const cg = await CodeGraph.open(projectPath);
const { ToolHandler } = await import('../mcp/tools');
const handler = new ToolHandler(cg);
const args: Record<string, unknown> = { query: queryParts.join(' ') };
if (options.maxFiles) args.maxFiles = parseInt(options.maxFiles, 10);
const result = await handler.execute('codegraph_explore', args);
console.log(result.content[0]?.text ?? '');
cg.destroy();
if (result.isError) process.exit(1);
} catch (err) {
error(`Explore failed: ${err instanceof Error ? err.message : String(err)}`);
process.exit(1);
}
});
/**
* codegraph prompt-hook (hidden)
*
* A Claude Code `UserPromptSubmit` hook entry point. Reads `{prompt, cwd}` JSON
* on stdin; for a structural/flow/impact prompt it runs `codegraph_explore` on
* the indexed project and prints the result to stdout, which Claude injects into
* the agent's context — so the agent's reflex grep/read has nothing left to find
* and reliably uses CodeGraph (the adoption problem). Installed by the installer
* into Claude's settings.json (opt-in, default-yes).
*
* LOAD-BEARING: this must NEVER break the user's prompt. Every failure path —
* kill-switch, non-structural prompt, no index, engine error — exits 0 with no
* output. The only effect is additive context when it can confidently provide it.
*/
program
.command('prompt-hook', { hidden: true })
.description('Claude UserPromptSubmit hook: inject CodeGraph context for structural prompts (reads {prompt,cwd} JSON on stdin)')
.action(async () => {
try {
// Kill-switch: lets a user disable the nudge without uninstalling /
// editing settings.json (CI, low-power machines, personal preference).
if (process.env.CODEGRAPH_NO_PROMPT_HOOK === '1' || process.env.CODEGRAPH_PROMPT_HOOK === '0') return;
if (process.stdin.isTTY) return; // invoked by hand, no piped payload
const raw = await new Promise<string>((resolve) => {
let data = '';
process.stdin.setEncoding('utf8');
process.stdin.on('data', (c) => { data += c; });
process.stdin.on('end', () => resolve(data));
process.stdin.on('error', () => resolve(data));
});
let input: { prompt?: string; cwd?: string } = {};
try { input = JSON.parse(raw); } catch { return; }
const prompt = String(input.prompt || '');
// Gate telemetry: how often each tier fires vs. no-ops — counter names
// only, NEVER prompt content (see TELEMETRY.md). This is the data that
// turns "is the gate any good" from vibes into a measured recall rate.
const gate = (outcome: string): void => {
try { getTelemetry().recordUsage('cli_command', `prompt-hook-gate-${outcome}`, true); } catch { /* never break the hook */ }
};
// Gate, tiered by confidence (#994, #1126):
// HIGH — a structural keyword (any covered language), or a code-shaped
// token verified in the index → full explore injection.
// MEDIUM — no keyword/token, but prose words match indexed symbol-name
// SEGMENTS ("state machine" → OrderStateMachine, in any
// language): inject a short list of the matching symbols and
// let the AGENT write the explore query — the graph-derived
// tier, no vocabulary involved.
// silent — nothing verified. Every other prompt ("fix this typo")
// stays a zero-cost no-op.
// Keywords fire on their own; a token or prose word is only a CANDIDATE
// verified against the graph below, so a tech brand ("JavaScript") that
// merely looks like code doesn't inject spurious context.
const keyworded = hasStructuralKeyword(prompt);
const codeTokens = keyworded ? [] : extractCodeTokens(prompt);
const proseWords = keyworded ? [] : extractProseCandidates(prompt);
if (!keyworded && codeTokens.length === 0 && proseWords.length === 0) { gate('noop-shape'); return; }
// Decide what to inject, shaped by WHERE the index(es) are: the nearest
// indexed ancestor of cwd, or — when cwd is an un-indexed workspace root
// whose indexed project(s) live in sub-dirs (the monorepo case, #964) —
// the sub-project the prompt points at, plus a `projectPath` nudge for any
// others. Without the down-scan the hook injected nothing at a monorepo
// root (it only walked up), so the validated adoption lever never fired
// exactly where the agent most needs it.
const plan = planFrontload(String(input.cwd || process.cwd()), prompt);
if (!plan.exploreRoot && plan.nudgeProjects.length === 0) { gate('noop-no-index'); return; } // nothing reachable — the agent's normal tools apply
// A "pass projectPath" line for indexed sub-projects we did NOT front-load.
// Follow-up codegraph_explore calls against a sub-project (cwd isn't its
// index root) need an explicit projectPath, so spell it out.
const nudge = (projects: string[], lead: string): string =>
`${lead}\n${projects.map((p) => ` - projectPath: "${p}"`).join('\n')}\n`;
if (plan.exploreRoot) {
const { default: CodeGraph } = await loadCodeGraph();
const cg = await CodeGraph.open(plan.exploreRoot);
try {
const others = plan.nudgeProjects.length
? `\n${nudge(plan.nudgeProjects, 'Other indexed projects in this workspace — pass projectPath to query them:')}`
: '';
// Tier decision against THIS index (issue #994 follow-up: candidates
// must be real here — a brand name or prose about another domain
// must not inject). Keyword-bearing prompts skip verification — the
// keyword is signal enough.
const tokenVerified = !keyworded && codeTokens.some((t) => cg.getNodesByName(t).length > 0);
if (keyworded || tokenVerified) {
const { ToolHandler } = await import('../mcp/tools');
const handler = new ToolHandler(cg);
const result = await handler.execute('codegraph_explore', { query: prompt });
const text = result.content[0]?.text ?? '';
if (!result.isError && text.trim()) {
// Cap the injection so a large-repo explore can't flood the prompt.
const MAX = 16000;
const body = text.length > MAX ? `${text.slice(0, MAX)}\n…(truncated; call codegraph_explore for the rest)` : text;
// For a front-loaded SUB-project, a follow-up explore needs its path.
const more = plan.viaSubScan
? `call codegraph_explore with projectPath: "${plan.exploreRoot}" for more`
: 'call codegraph_explore for more';
process.stdout.write(
`<codegraph_context note="Structural context from CodeGraph for this prompt — treat returned source as already read; ${more}.">\n${body}${others}\n</codegraph_context>\n`,
);
gate(keyworded ? 'high-keyword' : 'high-token');
} else {
// A high-* outcome must mean context was actually delivered —
// the funnel's noop-vs-high split is how gate recall is
// measured (#1143). An explore error or empty result is a
// delivery failure, not a gate success.
gate(keyworded ? 'noop-explore-keyword' : 'noop-explore-token');
}
return;
}
// MEDIUM: prose words → symbol-name segments, co-occurrence/rarity
// scored, each hit re-verified to exist (see getSegmentMatches). The
// payload names the symbols but does NOT run explore — the agent owns
// the query where the hook's confidence is only "these are related".
//
// A database indexed before the vocab table existed starts with it
// EMPTY, and only sync() backfills it — which this hook never runs
// (#1142). Heal it here: on a populated vocab this is one SELECT;
// the actual backfill is a one-time batched pass whose cost the MCP
// server's own catch-up sync usually pays first (it runs at every
// session start). A distinct noop outcome keeps a dormant vocab
// from polluting the noop-unverified recall signal.
const vocabReady = await cg.healSegmentVocabIfEmpty().catch(() => false);
if (!vocabReady) { gate('noop-vocab-empty'); return; }
const related = cg.getSegmentMatches(proseWords);
if (related.length === 0) { gate('noop-unverified'); return; }
const lines = related
.map((m) => ` - ${m.name} (${m.kind}${m.filePath}:${m.startLine})`)
.join('\n');
const exampleQuery = related.slice(0, 3).map((m) => m.name).join(' ');
const projectHint = plan.viaSubScan ? ` with projectPath: "${plan.exploreRoot}"` : '';
process.stdout.write(
`<codegraph_context note="CodeGraph found indexed symbols matching this prompt — query the graph before searching files.">\n` +
`This project's CodeGraph index contains symbols matching this request:\n${lines}\n` +
`Call codegraph_explore ONCE${projectHint} with the relevant names in one query (e.g. "${exampleQuery}") ` +
`to get their source, call paths, and blast radius — cheaper and more complete than Read/Grep.\n${others}` +
`</codegraph_context>\n`,
);
gate('medium-segment');
} finally {
cg.destroy();
}
} else {
// Several indexed sub-projects, none a clear match — don't guess; tell
// the agent they exist and how to query one.
process.stdout.write(
`<codegraph_context note="CodeGraph is available for this workspace's indexed sub-projects — query one by passing projectPath to codegraph_explore.">\n` +
nudge(plan.nudgeProjects, "This workspace's CodeGraph indexes live in sub-projects. To use CodeGraph, call codegraph_explore with the projectPath of the relevant one:") +
`</codegraph_context>\n`,
);
gate('nudge-projects');
}
} catch {
// Degradable by contract: never surface an error to the prompt pipeline.
}
});
/**
* codegraph node [name]
*
* The CLI face of the MCP codegraph_node tool: one symbol's source +
* caller/callee trail, or a whole file with line numbers + dependents
* (Read-parity). Same subagent/non-MCP rationale as `explore`.
*
* `name` is OPTIONAL because `--file` (file-read mode) carries no symbol —
* a required `<name>` made `codegraph node -f <file>` unreachable (#1044).
*/
program
.command('node [name]')
.description('One symbol\'s source + caller/callee trail, or read a file with line numbers + dependents (same output as the codegraph_node MCP tool)')
.option('-p, --path <path>', 'Project path')
.option('-f, --file <file>', 'Treat as file mode (or disambiguate a symbol to this file)')
.option('--offset <number>', 'File mode: 1-based start line')
.option('--limit <number>', 'File mode: maximum lines')
.option('--symbols-only', 'File mode: just the symbol map + dependents')
.action(async (name: string | undefined, options: { path?: string; file?: string; offset?: string; limit?: string; symbolsOnly?: boolean }) => {
// Need a symbol (positional) OR a file (--file / a path-like positional).
// With [name] optional, a bare `codegraph node` reaches here with neither
// and must be told what to pass, rather than crashing downstream.
if (!name && !options.file) {
error("Pass a symbol name (e.g. 'codegraph node parseToken') or a file (e.g. 'codegraph node -f src/auth.ts', or 'codegraph node src/auth.ts').");
process.exit(1);
}
const projectPath = resolveProjectPath(options.path);
try {
if (!isInitialized(projectPath)) {
error(`CodeGraph isn't available here — no .codegraph/ index exists in ${projectPath}. If you are an AI agent: continue with your usual tools; indexing is the user's decision, do not run it yourself. (The project owner can enable CodeGraph with 'codegraph init'.)`);
process.exit(1);
}
const { default: CodeGraph } = await loadCodeGraph();
const cg = await CodeGraph.open(projectPath);
const { ToolHandler } = await import('../mcp/tools');
const handler = new ToolHandler(cg);
// A name with a path separator is a file read; otherwise a symbol
// (use --file for basename-only file reads or to pin an overload).
// Both separators: Windows users type src\auth\session.ts. Symbols
// never contain either ('/' isn't an identifier char anywhere we
// index; C++ scope is '::', JS members '.').
const args: Record<string, unknown> = {};
if (options.file) {
args.file = options.file;
if (name && name !== options.file) {
args.symbol = name;
// Symbol mode pinned to a file is still symbol mode — the CLI
// always wants the body, exactly like the bare-symbol branch
// below. Omitting this printed location + trail with no source
// (#1284).
args.includeCode = true;
}
} else if (name && (name.includes('/') || name.includes('\\'))) {
args.file = name.replace(/\\/g, '/');
} else if (name) {
args.symbol = name;
args.includeCode = true;
}
if (options.offset) args.offset = parseInt(options.offset, 10);
if (options.limit) args.limit = parseInt(options.limit, 10);
if (options.symbolsOnly) args.symbolsOnly = true;
const result = await handler.execute('codegraph_node', args);
console.log(result.content[0]?.text ?? '');
cg.destroy();
if (result.isError) process.exit(1);
} catch (err) {
error(`Node lookup failed: ${err instanceof Error ? err.message : String(err)}`);
process.exit(1);
}
});
/**
* codegraph files [path]
*/
program
.command('files')
.description('Show project file structure from the index')
.option('-p, --path <path>', 'Project path')
.option('--filter <dir>', 'Filter to files under this directory')
.option('--pattern <glob>', 'Filter files matching this glob pattern')
.option('--format <format>', 'Output format (tree, flat, grouped)', 'tree')
.option('--max-depth <number>', 'Maximum directory depth for tree format')
.option('--no-metadata', 'Hide file metadata (language, symbol count)')
.option('-j, --json', 'Output as JSON')
.action(async (options: {
path?: string;
filter?: string;
pattern?: string;
format?: string;
maxDepth?: string;
metadata?: boolean;
json?: boolean;
}) => {
const projectPath = resolveProjectPath(options.path);
try {
if (!isInitialized(projectPath)) {
error(`CodeGraph not initialized in ${projectPath}`);
process.exit(1);
}
const { default: CodeGraph } = await loadCodeGraph();
const cg = await CodeGraph.open(projectPath);
let files = cg.getFiles();
if (files.length === 0) {
info('No files indexed. Run "codegraph index" first.');
cg.destroy();
return;
}
// Filter by path prefix
if (options.filter) {
const filter = options.filter;
files = files.filter(f => f.path.startsWith(filter) || f.path.startsWith('./' + filter));
}
// Filter by glob pattern
if (options.pattern) {
const regex = globToRegex(options.pattern);
files = files.filter(f => regex.test(f.path));
}
if (files.length === 0) {
info('No files found matching the criteria.');
cg.destroy();
return;
}
// JSON output
if (options.json) {
const output = files.map(f => ({
path: f.path,
language: f.language,
nodeCount: f.nodeCount,
size: f.size,
}));
console.log(JSON.stringify(output, null, 2));
cg.destroy();
return;
}
const includeMetadata = options.metadata !== false;
const format = options.format || 'tree';
const maxDepth = options.maxDepth ? parseInt(options.maxDepth, 10) : undefined;
// Format output
switch (format) {
case 'flat':
console.log(chalk.bold(`\nFiles (${files.length}):\n`));
for (const file of files.sort((a, b) => a.path.localeCompare(b.path))) {
if (includeMetadata) {
console.log(` ${file.path} ${chalk.dim(`(${file.language}, ${file.nodeCount} symbols)`)}`);
} else {
console.log(` ${file.path}`);
}
}
break;
case 'grouped':
console.log(chalk.bold(`\nFiles by Language (${files.length} total):\n`));
const byLang = new Map<string, typeof files>();
for (const file of files) {
const existing = byLang.get(file.language) || [];
existing.push(file);
byLang.set(file.language, existing);
}
const sortedLangs = [...byLang.entries()].sort((a, b) => b[1].length - a[1].length);
for (const [lang, langFiles] of sortedLangs) {
console.log(chalk.cyan(`${lang} (${langFiles.length}):`));
for (const file of langFiles.sort((a, b) => a.path.localeCompare(b.path))) {
if (includeMetadata) {
console.log(` ${file.path} ${chalk.dim(`(${file.nodeCount} symbols)`)}`);
} else {
console.log(` ${file.path}`);
}
}
console.log();
}
break;
case 'tree':
default:
console.log(chalk.bold(`\nProject Structure (${files.length} files):\n`));
printFileTree(files, includeMetadata, maxDepth, chalk);
break;
}
console.log();
cg.destroy();
} catch (err) {
error(`Failed to list files: ${err instanceof Error ? err.message : String(err)}`);
process.exit(1);
}
});
/**
* Normalize a user-supplied file path to the project-relative, forward-slash
* form CodeGraph stores in the index. Accepts an absolute path, a `./`-prefixed
* path, or Windows back-slashes; an empty string when the input is blank. Used
* by `codegraph affected` so `./src/x.ts`, `/abs/repo/src/x.ts`, and
* `src/x.ts` all match the same indexed file. (#825)
*/
function normalizeIndexPath(filePath: string, projectPath: string): string {
let f = filePath.trim();
if (!f) return '';
if (path.isAbsolute(f)) f = path.relative(projectPath, f);
// Collapse `.`/`..` segments, then force forward slashes and drop a leading
// `./` (path.normalize already strips it on POSIX; explicit for Windows).
f = path.normalize(f).replace(/\\/g, '/').replace(/^\.\//, '');
return f;
}
/**
* Convert glob pattern to regex
*/
function globToRegex(pattern: string): RegExp {
const escaped = pattern
.replace(/[.+^${}()|[\]\\]/g, '\\$&')
.replace(/\*\*/g, '{{GLOBSTAR}}')
.replace(/\*/g, '[^/]*')
.replace(/\?/g, '[^/]')
.replace(/\{\{GLOBSTAR\}\}/g, '.*');
return new RegExp(escaped);
}
/**
* Print files as a tree
*/
function printFileTree(
files: { path: string; language: string; nodeCount: number }[],
includeMetadata: boolean,
maxDepth: number | undefined,
chalk: { dim: (s: string) => string; cyan: (s: string) => string }
): void {
interface TreeNode {
name: string;
children: Map<string, TreeNode>;
file?: { language: string; nodeCount: number };
}
const root: TreeNode = { name: '', children: new Map() };
for (const file of files) {
const parts = file.path.split('/');
let current = root;
for (let i = 0; i < parts.length; i++) {
const part = parts[i];
if (!part) continue;
if (!current.children.has(part)) {
current.children.set(part, { name: part, children: new Map() });
}
current = current.children.get(part)!;
if (i === parts.length - 1) {
current.file = { language: file.language, nodeCount: file.nodeCount };
}
}
}
const renderNode = (node: TreeNode, prefix: string, isLast: boolean, depth: number): void => {
if (maxDepth !== undefined && depth > maxDepth) return;
const glyphs = getGlyphs();
const connector = isLast ? glyphs.treeLast : glyphs.treeBranch;
const childPrefix = isLast ? ' ' : glyphs.treePipe;
if (node.name) {
let line = prefix + connector + node.name;
if (node.file && includeMetadata) {
line += chalk.dim(` (${node.file.language}, ${node.file.nodeCount} symbols)`);
}
console.log(line);
}
const children = [...node.children.values()];
children.sort((a, b) => {
const aIsDir = a.children.size > 0 && !a.file;
const bIsDir = b.children.size > 0 && !b.file;
if (aIsDir !== bIsDir) return aIsDir ? -1 : 1;
return a.name.localeCompare(b.name);
});
for (let i = 0; i < children.length; i++) {
const child = children[i]!;
const nextPrefix = node.name ? prefix + childPrefix : prefix;
renderNode(child, nextPrefix, i === children.length - 1, depth + 1);
}
};
renderNode(root, '', true, 0);
}
/**
* codegraph daemon — interactive manager for the background daemons. Arrow keys
* to pick one (the current project's daemon floats to the top, auto-selected),
* enter to stop it. Falls back to a plain list when output isn't a TTY.
*/
program
.command('daemon')
.aliases(['daemons'])
.description('Manage running CodeGraph background daemons — pick one and press enter to stop it')
.action(async () => {
const { listDaemons, stopDaemonAt, stopAllDaemons } = await import('../mcp/daemon-registry');
const { runDaemonPicker } = await import('../mcp/daemon-manager');
const daemons = listDaemons();
if (daemons.length === 0) {
info('No CodeGraph daemons running.');
return;
}
// No TTY (piped / CI / non-interactive) — can't do arrow-key selection, so
// just print what's running instead of crashing on a prompt with no input.
if (!process.stdout.isTTY || !process.stdin.isTTY) {
for (const d of daemons) {
console.log(`pid ${d.pid} v${d.version} up ${formatDuration(Date.now() - d.startedAt)} ${d.root}`);
}
return;
}
// The current project's daemon floats to the top and is pre-selected.
let cwdRoot: string | null = null;
const found = findNearestCodeGraphRoot(process.cwd());
if (found) { try { cwdRoot = fs.realpathSync(found); } catch { cwdRoot = found; } }
const clack = await importESM('@clack/prompts');
clack.intro('CodeGraph daemons');
await runDaemonPicker({
list: listDaemons,
stop: stopDaemonAt,
stopAll: stopAllDaemons,
cwdRoot,
now: () => Date.now(),
select: (opts) => clack.select(opts),
isCancel: (v) => clack.isCancel(v),
note: (m) => clack.log.success(m),
done: (m) => clack.outro(m),
});
});
/**
* codegraph serve
*/
program
// Hidden from `--help`: this is the stdio entry point an AI agent launches
// for itself (the installer wires `args: ['serve','--mcp']` into every
// agent's MCP config), not a command a human runs. It still works when
// invoked — hiding only removes it from the listing. See the interactive-TTY
// guard below, which explains this to anyone who runs it by hand.
.command('serve', { hidden: true })
.description('Start CodeGraph as an MCP server for AI assistants')
.option('-p, --path <path>', 'Project path (optional for MCP mode, uses rootUri from client)')
.option('--mcp', 'Run as MCP server (stdio transport)')
.option('--no-watch', 'Disable the file watcher (no auto-sync; useful on slow filesystems like WSL2 /mnt drives)')
.action(async (options: { path?: string; mcp?: boolean; watch?: boolean }) => {
const projectPath = options.path ? resolveProjectPath(options.path) : undefined;
// Commander sets watch=false when --no-watch is passed. Route it through
// the same env-var chokepoint the watcher and MCP server already honor.
if (options.watch === false) {
process.env.CODEGRAPH_NO_WATCH = '1';
}
try {
if (options.mcp) {
// `serve --mcp` is the stdio MCP server an AI agent launches for itself,
// not a command to run by hand. A human in a terminal would otherwise
// see it hang waiting for JSON-RPC on stdin, which reads as broken. If
// stdin is an interactive TTY, explain instead of hanging. The agent's
// pipe and the detached daemon both have a non-TTY stdin, so this only
// ever fires for a person who typed it.
if (process.stdin.isTTY && !process.env.CODEGRAPH_DAEMON_INTERNAL) {
console.error(chalk.bold('\nCodeGraph MCP server\n'));
console.error("This is the MCP server your AI agent (Claude Code, Cursor, Codex, opencode, …)");
console.error("starts automatically — you don't run it yourself.");
console.error(`\nIt's already wired up by ${chalk.cyan('codegraph install')}. To check on things:`);
console.error(` ${chalk.cyan('codegraph status')} ${chalk.dim('— is this project indexed and healthy?')}`);
console.error(` ${chalk.cyan('codegraph daemon')} ${chalk.dim('— list or stop background MCP servers')}`);
console.error(chalk.dim('\n(Running it directly only does something when an MCP client drives it over stdin.)'));
return;
}
// Start MCP server - it handles initialization lazily based on rootUri from client
const { MCPServer } = await import('../mcp/index');
const server = new MCPServer(projectPath);
await server.start();
// Server will run until terminated
} else {
// Default: show info about MCP mode.
// Use stderr so stdout stays clean for any piped/stdio usage.
console.error(chalk.bold('\nCodeGraph MCP Server\n'));
console.error(chalk.blue(getGlyphs().info) + ' Use --mcp flag to start the MCP server');
console.error('\nTo use with Claude Code, add to your MCP configuration:');
console.error(chalk.dim(`
{
"mcpServers": {
"codegraph": {
"command": "codegraph",
"args": ["serve", "--mcp"]
}
}
}
`));
console.error('Available tools:');
console.error(chalk.cyan(' codegraph_explore') + ' - Primary: source of the relevant symbols for any question');
console.error(chalk.cyan(' codegraph_search') + ' - Search for code symbols');
console.error(chalk.cyan(' codegraph_callers') + ' - Find callers of a symbol');
console.error(chalk.cyan(' codegraph_callees') + ' - Find what a symbol calls');
console.error(chalk.cyan(' codegraph_impact') + ' - Analyze impact of changes');
console.error(chalk.cyan(' codegraph_node') + ' - Get symbol details');
console.error(chalk.cyan(' codegraph_files') + ' - Get project file structure');
console.error(chalk.cyan(' codegraph_status') + ' - Get index status');
}
} catch (err) {
error(`Failed to start server: ${err instanceof Error ? err.message : String(err)}`);
process.exit(1);
}
});
/**
* codegraph unlock [path]
*/
program
.command('unlock [path]')
.description('Remove a stale lock file that is blocking indexing')
.action(async (pathArg: string | undefined) => {
const projectPath = resolveProjectPath(pathArg);
try {
if (!isInitialized(projectPath)) {
error(`CodeGraph not initialized in ${projectPath}`);
return;
}
const lockPath = path.join(getCodeGraphDir(projectPath), 'codegraph.lock');
if (!fs.existsSync(lockPath)) {
info(`No lock file found ${getGlyphs().dash} nothing to do`);
return;
}
fs.unlinkSync(lockPath);
success('Removed lock file. You can now run indexing again.');
} catch (err) {
error(`Failed to remove lock: ${err instanceof Error ? err.message : String(err)}`);
process.exit(1);
}
});
/**
* codegraph callers <symbol>
*
* CLI parity with the MCP graph tools (codegraph_callers/callees/impact) so the
* traversal queries work in scripts, CI, and git hooks without a running MCP
* server.
*/
program
.command('callers <symbol>')
.description('Find all functions/methods that call a specific symbol')
.option('-p, --path <path>', 'Project path')
.option('-l, --limit <number>', 'Maximum results', '20')
.option('-j, --json', 'Output as JSON')
.action(async (symbol: string, options: { path?: string; limit?: string; json?: boolean }) => {
const projectPath = resolveProjectPath(options.path);
try {
if (!isInitialized(projectPath)) {
error(`CodeGraph not initialized in ${projectPath}`);
process.exit(1);
}
const { default: CodeGraph } = await loadCodeGraph();
const cg = await CodeGraph.open(projectPath);
const limit = parseInt(options.limit || '20', 10);
const matches = cg.searchNodes(symbol, { limit: 50 });
if (matches.length === 0) {
info(`Symbol "${symbol}" not found`);
cg.destroy();
return;
}
const seen = new Set<string>();
const allCallers: Array<{ name: string; kind: string; filePath: string; startLine?: number }> = [];
for (const match of matches) {
const exactMatch = match.node.name === symbol || match.node.name.endsWith(`.${symbol}`) || match.node.name.endsWith(`::${symbol}`);
if (!exactMatch && matches.length > 1) continue;
for (const c of cg.getCallers(match.node.id)) {
if (!seen.has(c.node.id)) {
seen.add(c.node.id);
allCallers.push({ name: c.node.name, kind: c.node.kind, filePath: c.node.filePath, startLine: c.node.startLine });
}
}
}
// Fallback: if exact filter removed everything, use the top match
if (allCallers.length === 0 && matches[0]) {
for (const c of cg.getCallers(matches[0].node.id)) {
if (!seen.has(c.node.id)) {
seen.add(c.node.id);
allCallers.push({ name: c.node.name, kind: c.node.kind, filePath: c.node.filePath, startLine: c.node.startLine });
}
}
}
const limited = allCallers.slice(0, limit);
if (options.json) {
console.log(JSON.stringify({ symbol, callers: limited }, null, 2));
} else if (limited.length === 0) {
info(`No callers found for "${symbol}"`);
} else {
console.log(chalk.bold(`\nCallers of "${symbol}" (${limited.length}):\n`));
for (const node of limited) {
const loc = node.startLine ? `:${node.startLine}` : '';
console.log(
chalk.cyan(node.kind.padEnd(12)) +
chalk.white(node.name)
);
console.log(chalk.dim(` ${node.filePath}${loc}`));
console.log();
}
}
cg.destroy();
} catch (err) {
error(`callers failed: ${err instanceof Error ? err.message : String(err)}`);
process.exit(1);
}
});
/**
* codegraph callees <symbol>
*/
program
.command('callees <symbol>')
.description('Find all functions/methods that a specific symbol calls')
.option('-p, --path <path>', 'Project path')
.option('-l, --limit <number>', 'Maximum results', '20')
.option('-j, --json', 'Output as JSON')
.action(async (symbol: string, options: { path?: string; limit?: string; json?: boolean }) => {
const projectPath = resolveProjectPath(options.path);
try {
if (!isInitialized(projectPath)) {
error(`CodeGraph not initialized in ${projectPath}`);
process.exit(1);
}
const { default: CodeGraph } = await loadCodeGraph();
const cg = await CodeGraph.open(projectPath);
const limit = parseInt(options.limit || '20', 10);
const matches = cg.searchNodes(symbol, { limit: 50 });
if (matches.length === 0) {
info(`Symbol "${symbol}" not found`);
cg.destroy();
return;
}
const seen = new Set<string>();
const allCallees: Array<{ name: string; kind: string; filePath: string; startLine?: number }> = [];
for (const match of matches) {
const exactMatch = match.node.name === symbol || match.node.name.endsWith(`.${symbol}`) || match.node.name.endsWith(`::${symbol}`);
if (!exactMatch && matches.length > 1) continue;
for (const c of cg.getCallees(match.node.id)) {
if (!seen.has(c.node.id)) {
seen.add(c.node.id);
allCallees.push({ name: c.node.name, kind: c.node.kind, filePath: c.node.filePath, startLine: c.node.startLine });
}
}
}
if (allCallees.length === 0 && matches[0]) {
for (const c of cg.getCallees(matches[0].node.id)) {
if (!seen.has(c.node.id)) {
seen.add(c.node.id);
allCallees.push({ name: c.node.name, kind: c.node.kind, filePath: c.node.filePath, startLine: c.node.startLine });
}
}
}
const limited = allCallees.slice(0, limit);
if (options.json) {
console.log(JSON.stringify({ symbol, callees: limited }, null, 2));
} else if (limited.length === 0) {
info(`No callees found for "${symbol}"`);
} else {
console.log(chalk.bold(`\nCallees of "${symbol}" (${limited.length}):\n`));
for (const node of limited) {
const loc = node.startLine ? `:${node.startLine}` : '';
console.log(
chalk.cyan(node.kind.padEnd(12)) +
chalk.white(node.name)
);
console.log(chalk.dim(` ${node.filePath}${loc}`));
console.log();
}
}
cg.destroy();
} catch (err) {
error(`callees failed: ${err instanceof Error ? err.message : String(err)}`);
process.exit(1);
}
});
/**
* codegraph impact <symbol>
*/
program
.command('impact <symbol>')
.description('Analyze what code is affected by changing a symbol')
.option('-p, --path <path>', 'Project path')
.option('-d, --depth <number>', 'Traversal depth', '2')
.option('-j, --json', 'Output as JSON')
.action(async (symbol: string, options: { path?: string; depth?: string; json?: boolean }) => {
const projectPath = resolveProjectPath(options.path);
try {
if (!isInitialized(projectPath)) {
error(`CodeGraph not initialized in ${projectPath}`);
process.exit(1);
}
const { default: CodeGraph } = await loadCodeGraph();
const cg = await CodeGraph.open(projectPath);
const depth = Math.min(Math.max(parseInt(options.depth || '2', 10), 1), 10);
const matches = cg.searchNodes(symbol, { limit: 50 });
if (matches.length === 0) {
info(`Symbol "${symbol}" not found`);
cg.destroy();
return;
}
// Merge impact subgraphs across all exact-matching symbols
const mergedNodes = new Map<string, { name: string; kind: string; filePath: string; startLine?: number }>();
const seenEdges = new Set<string>();
let edgeCount = 0;
for (const match of matches) {
const exactMatch = match.node.name === symbol || match.node.name.endsWith(`.${symbol}`) || match.node.name.endsWith(`::${symbol}`);
if (!exactMatch && matches.length > 1) continue;
const impact = cg.getImpactRadius(match.node.id, depth);
for (const [id, n] of impact.nodes) {
mergedNodes.set(id, { name: n.name, kind: n.kind, filePath: n.filePath, startLine: n.startLine });
}
for (const e of impact.edges) {
const key = `${e.source}->${e.target}:${e.kind}`;
if (!seenEdges.has(key)) {
seenEdges.add(key);
edgeCount++;
}
}
}
// Fallback to top match if exact filter removed everything
if (mergedNodes.size === 0 && matches[0]) {
const impact = cg.getImpactRadius(matches[0].node.id, depth);
for (const [id, n] of impact.nodes) {
mergedNodes.set(id, { name: n.name, kind: n.kind, filePath: n.filePath, startLine: n.startLine });
}
edgeCount = impact.edges.length;
}
if (options.json) {
console.log(JSON.stringify({
symbol,
depth,
nodeCount: mergedNodes.size,
edgeCount,
affected: Array.from(mergedNodes.values()),
}, null, 2));
} else if (mergedNodes.size === 0) {
info(`No affected symbols found for "${symbol}"`);
} else {
console.log(chalk.bold(`\nImpact of changing "${symbol}" — ${mergedNodes.size} affected symbols:\n`));
// Group by file
const byFile = new Map<string, Array<{ name: string; kind: string; startLine?: number }>>();
for (const node of mergedNodes.values()) {
const list = byFile.get(node.filePath) || [];
list.push({ name: node.name, kind: node.kind, startLine: node.startLine });
byFile.set(node.filePath, list);
}
for (const [file, nodes] of byFile) {
console.log(chalk.cyan(file));
for (const node of nodes) {
const loc = node.startLine ? `:${node.startLine}` : '';
console.log(` ${chalk.dim(node.kind.padEnd(12))}${node.name}${chalk.dim(loc)}`);
}
console.log();
}
}
cg.destroy();
} catch (err) {
error(`impact failed: ${err instanceof Error ? err.message : String(err)}`);
process.exit(1);
}
});
/**
* codegraph affected [files...]
*
* Find test files affected by the given source files.
* Traces dependency edges transitively to find test files that depend on changed code.
*
* Usage:
* git diff --name-only | codegraph affected --stdin
* codegraph affected src/lib/components/Editor.svelte src/routes/+page.svelte
*/
program
.command('affected [files...]')
.description('Find test files affected by changed source files')
.option('-p, --path <path>', 'Project path')
.option('--stdin', 'Read file list from stdin (one per line)')
.option('-d, --depth <number>', 'Max dependency traversal depth', '5')
.option('-f, --filter <glob>', 'Custom glob filter for test files (e.g. "e2e/*.spec.ts")')
.option('-j, --json', 'Output as JSON')
.option('-q, --quiet', 'Only output file paths, no decoration')
.action(async (fileArgs: string[], options: { path?: string; stdin?: boolean; depth?: string; filter?: string; json?: boolean; quiet?: boolean }) => {
const projectPath = resolveProjectPath(options.path);
try {
if (!isInitialized(projectPath)) {
error(`CodeGraph not initialized in ${projectPath}`);
process.exit(1);
}
// Collect changed files from args or stdin
let changedFiles: string[] = [...(fileArgs || [])];
if (options.stdin) {
const stdinData = fs.readFileSync(0, 'utf-8');
const stdinFiles = stdinData.split('\n').map(f => f.trim()).filter(Boolean);
changedFiles.push(...stdinFiles);
}
// Normalize inputs to the project-relative, forward-slash form the index
// stores. Without this, `affected ./src/x.ts`, an absolute path (what a
// wrapping script often passes), or a Windows back-slash path silently
// matches nothing and reports 0 affected tests. (#825)
changedFiles = changedFiles
.map((f) => normalizeIndexPath(f, projectPath))
.filter(Boolean);
if (changedFiles.length === 0) {
if (!options.quiet) info('No files provided. Use file arguments or --stdin.');
process.exit(0);
}
const { default: CodeGraph } = await loadCodeGraph();
const cg = await CodeGraph.open(projectPath);
const maxDepth = parseInt(options.depth || '5', 10);
// Common test file patterns
const defaultTestPatterns = [
/\.spec\./,
/\.test\./,
/\/__tests__\//,
/\/tests?\//,
/\/e2e\//,
/\/spec\//,
];
// Custom filter pattern
let customFilter: RegExp | null = null;
if (options.filter) {
// Convert glob to regex: ** → .+, * → [^/]*, . → \.
const regex = options.filter
.replace(/[+[\]{}()^$|\\]/g, '\\$&')
.replace(/\./g, '\\.')
.replace(/\*\*/g, '.+')
.replace(/\*/g, '[^/]*');
customFilter = new RegExp(regex);
}
function isTestFile(filePath: string): boolean {
if (customFilter) return customFilter.test(filePath);
return defaultTestPatterns.some(p => p.test(filePath));
}
// BFS to find all transitive dependents of changed files, filtered to test files
const affectedTests = new Set<string>();
const allDependents = new Set<string>();
for (const file of changedFiles) {
// If the changed file is itself a test file, include it
if (isTestFile(file)) {
affectedTests.add(file);
continue;
}
// BFS through dependents
const queue: Array<{ file: string; depth: number }> = [{ file, depth: 0 }];
const visited = new Set<string>();
visited.add(file);
while (queue.length > 0) {
const current = queue.shift()!;
if (current.depth >= maxDepth) continue;
const dependents = cg.getFileDependents(current.file);
for (const dep of dependents) {
if (visited.has(dep)) continue;
visited.add(dep);
allDependents.add(dep);
if (isTestFile(dep)) {
affectedTests.add(dep);
} else {
queue.push({ file: dep, depth: current.depth + 1 });
}
}
}
}
const sortedTests = Array.from(affectedTests).sort();
// Output
if (options.json) {
console.log(JSON.stringify({
changedFiles,
affectedTests: sortedTests,
totalDependentsTraversed: allDependents.size,
}, null, 2));
} else if (options.quiet) {
for (const t of sortedTests) console.log(t);
} else {
if (sortedTests.length === 0) {
info('No test files affected by the changed files.');
} else {
console.log(chalk.bold(`\nAffected test files (${sortedTests.length}):\n`));
for (const t of sortedTests) {
console.log(' ' + chalk.cyan(t));
}
console.log();
}
}
cg.destroy();
} catch (err) {
error(`Affected analysis failed: ${err instanceof Error ? err.message : String(err)}`);
process.exit(1);
}
});
/**
* codegraph install
*/
program
.command('install')
.description('Install codegraph MCP server into one or more agents (Claude Code, Cursor, Codex CLI, opencode, Hermes Agent, Gemini CLI, Antigravity IDE, Kiro, GitHub Copilot)')
.option('-t, --target <ids>', 'Target agent(s): comma-separated ids, or "auto"|"all"|"none". Default: prompt')
.option('-l, --location <where>', 'Install location: "global" or "local". Default: prompt')
.option('-y, --yes', 'Non-interactive: defaults to --location=global --target=auto, auto-allow on')
.option('--no-permissions', 'Skip writing the auto-allow permissions list (Claude Code only)')
.option('--print-config <id>', 'Print MCP config snippet for the named agent and exit (no file writes)')
.option('--refresh', 'Rewrite what previous installs configured, for already-configured agents only (never adds new ones). Run automatically by `codegraph upgrade`')
.action(async (opts: {
target?: string;
location?: string;
yes?: boolean;
permissions?: boolean;
printConfig?: string;
refresh?: boolean;
}) => {
if (opts.printConfig) {
const { getTarget, listTargetIds } = await import('../installer/targets/registry');
const target = getTarget(opts.printConfig);
if (!target) {
const known = listTargetIds().join(', ');
error(`Unknown target "${opts.printConfig}". Known: ${known}.`);
process.exit(1);
}
const loc = (opts.location === 'local' ? 'local' : 'global') as 'global' | 'local';
process.stdout.write(target.printConfig(loc));
return;
}
// --refresh: non-interactive sweep that re-writes what previous
// installs configured (instructions section, MCP entry, legacy-hook
// cleanups) for already-configured agents, so those surfaces match
// THIS binary's templates. Skips everything else — never a first
// install, never touches permissions or the prompt hook. Sweeps both
// locations unless --location narrows it.
if (opts.refresh) {
const { refreshTargets } = await import('../installer');
const { ALL_TARGETS } = await import('../installer/targets/registry');
if (opts.location && opts.location !== 'global' && opts.location !== 'local') {
error(`--location must be "global" or "local" (got "${opts.location}").`);
process.exit(1);
}
const locs: Array<'global' | 'local'> = opts.location
? [opts.location as 'global' | 'local']
: ['global', 'local'];
let changed = 0;
for (const loc of locs) {
for (const report of refreshTargets(ALL_TARGETS, loc)) {
for (const p of report.changedPaths) {
changed += 1;
console.log(` ${report.displayName}: refreshed ${p}`);
}
}
}
if (changed === 0) {
console.log('All configured agent surfaces are already current.');
}
return;
}
const { runInstallerWithOptions } = await import('../installer');
if (opts.location && opts.location !== 'global' && opts.location !== 'local') {
error(`--location must be "global" or "local" (got "${opts.location}").`);
process.exit(1);
}
try {
// Commander's `--no-permissions` makes `opts.permissions === false`;
// omitting the flag leaves it `true` (the positive-form default).
// We MUST treat the default-true as "user did not override — let
// the orchestrator prompt" and only forward an explicit `false`
// (or `true` when --yes implies it). Otherwise the auto-allow
// prompt is silently skipped on every interactive run.
const explicitNoPermissions = opts.permissions === false;
const autoAllow: boolean | undefined = explicitNoPermissions
? false
: opts.yes
? true
: undefined;
await runInstallerWithOptions({
target: opts.target,
location: opts.location as 'global' | 'local' | undefined,
autoAllow,
yes: opts.yes,
});
} catch (err) {
error(err instanceof Error ? err.message : String(err));
process.exit(1);
}
});
/**
* codegraph uninstall
*
* Inverse of `install`. Removes the codegraph MCP server entry,
* instructions block, and permissions from every agent (or a
* `--target` subset). Prompts global-vs-local when not given. Does NOT
* delete the `.codegraph/` index — that's `codegraph uninit`.
*/
program
.command('uninstall')
.description('Remove codegraph from your agents (Claude Code, Cursor, Codex CLI, opencode, Hermes Agent, Gemini CLI, Antigravity IDE, Kiro, GitHub Copilot)')
.option('-t, --target <ids>', 'Target agent(s): comma-separated ids, or "all". Default: all')
.option('-l, --location <where>', 'Uninstall location: "global" or "local". Default: prompt')
.option('-y, --yes', 'Non-interactive: defaults to --location=global --target=all')
.option('--keep-cli', 'Remove agent configs only — leave the codegraph CLI installed')
.action(async (opts: {
target?: string;
location?: string;
yes?: boolean;
keepCli?: boolean;
}) => {
const { runUninstaller } = await import('../installer');
if (opts.location && opts.location !== 'global' && opts.location !== 'local') {
error(`--location must be "global" or "local" (got "${opts.location}").`);
process.exit(1);
}
try {
await runUninstaller({
target: opts.target,
location: opts.location as 'global' | 'local' | undefined,
yes: opts.yes,
keepCli: opts.keepCli,
cliFilename: __filename,
});
} catch (err) {
error(err instanceof Error ? err.message : String(err));
process.exit(1);
}
});
/**
* codegraph telemetry [on|off|status]
*/
program
.command('telemetry [action]')
.description('Show or change anonymous usage telemetry (status, on, off)')
.action((action?: string) => {
const t = getTelemetry();
if (action === 'on' || action === 'off') {
t.setEnabled(action === 'on', 'cli');
if (action === 'on') {
success('Telemetry enabled — anonymous usage stats only (no code, paths, or names).');
} else {
success('Telemetry disabled. Buffered, unsent data was deleted.');
}
const effective = t.getStatus();
if (effective.decidedBy === 'DO_NOT_TRACK' || effective.decidedBy === 'CODEGRAPH_TELEMETRY') {
warn(
`The ${effective.decidedBy} environment variable overrides this choice — ` +
`effective state right now: ${effective.enabled ? 'enabled' : 'disabled'}.`
);
}
return;
}
if (action !== undefined && action !== 'status') {
error(`Unknown action: ${action} (expected status, on, or off)`);
process.exit(1);
}
const s = t.getStatus();
const decidedBy: Record<typeof s.decidedBy, string> = {
DO_NOT_TRACK: 'DO_NOT_TRACK environment variable',
CODEGRAPH_TELEMETRY: 'CODEGRAPH_TELEMETRY environment variable',
config: 'your saved choice',
default: 'default',
};
console.log(`\nTelemetry: ${s.enabled ? chalk.green('enabled') : chalk.yellow('disabled')} ${chalk.dim(`(${decidedBy[s.decidedBy]})`)}`);
console.log(`Machine ID: ${s.machineId ?? chalk.dim('(random UUID, created on first use)')}`);
console.log(`Config: ${s.configPath}`);
console.log(chalk.dim(`\nExactly what is collected (and never collected): ${TELEMETRY_DOCS}\n`));
});
/**
* codegraph upgrade [version]
*
* Self-update, however CodeGraph was installed (bundle via install.sh/.ps1,
* npm-global, npx, or a source checkout). See ../upgrade for the detection and
* per-method upgrade logic.
*/
program
.command('upgrade [version]')
.description('Update CodeGraph to the latest release (or a specific version)')
.option('--check', 'Check whether an update is available without installing')
.option('-f, --force', 'Reinstall even if already on the target version')
.action(async (versionArg: string | undefined, options: { check?: boolean; force?: boolean }) => {
const up = await import('../upgrade');
const method = up.detectInstallMethod({
filename: __filename,
platform: process.platform,
cwd: process.cwd(),
});
const pin = versionArg || process.env.CODEGRAPH_VERSION || undefined;
const code = await up.runUpgrade(
{ version: pin, check: options.check, force: options.force },
{
currentVersion: packageJson.version,
method,
resolveLatest: () => up.resolveLatestVersion(),
run: up.defaultRun,
capture: up.defaultCapture,
hasCommand: up.hasCommand,
log: (m: string) => console.log(m),
warn: (m: string) => warn(m),
error: (m: string) => error(m),
platform: process.platform,
offerBetaSignup: async () => {
const { maybeOfferBetaSignup } = await import('../installer/beta-signup');
await maybeOfferBetaSignup({ source: 'cli-upgrade' });
},
}
);
process.exit(code);
});
/**
* codegraph version
*
* The bare-noun form of `--version`. commander already provides `--version`
* and `-V`, and the `-v` / `-version` spellings are intercepted before parse
* (see top of main). This subcommand makes `codegraph version` work and lists
* the version affordance in `codegraph --help`.
*/
program
.command('version')
.description('Print the installed CodeGraph version (also: -v, --version)')
.action(() => {
console.log(packageJson.version);
});
// Parse and run
program.parse();
} // end main()