metagit-ai GitNexus CLI Commands
Commands below use node .gitnexus/run.cjs <command> — the project-local runner gitnexus analyze drops next to the index. It auto-selects an available runner at call time (global gitnexus, else pnpm dlx, else bunx, else npx), so no package-manager assumption and no global install is required — including on a bun-only machine, which has no npm, npx or pnpm at all.
Not analyzed yet, or
node .gitnexus/run.cjsreportsCannot find module(the gitignored runner is absent — e.g. a fresh clone orgit clean)? (Re)generate it withnpx gitnexus analyzefrom the project root, orbunx gitnexus@latest analyzeon a bun-only machine. On npm 11.x, ifnpxcrashes during install (node.target is null), install once withnpm i -g gitnexus(thengitnexus analyze), or usebunx gitnexus@latest analyze, orpnpm --allow-build=@ladybugdb/core --allow-build=gitnexus --allow-build=tree-sitter dlx gitnexus@latest analyze. See #1939.
Commands
analyze — Build or refresh the index
node .gitnexus/run.cjs analyze
Run from the project root. This parses all source files, builds the knowledge graph, writes it to .gitnexus/, and generates CLAUDE.md / AGENTS.md context files.
| Flag | Effect |
|---|---|
--watch |
Keep a Git repository index current with serialized refreshes |
--debounce <ms> |
Watch quiet period before refresh (default: 300 ms) |
--force |
Force full re-index even if up to date |
--embeddings |
Enable embedding generation for semantic search (off by default) |
--drop-embeddings |
Drop existing embeddings on rebuild. By default, an analyze without --embeddings preserves them. |
--pdg |
Build the program-dependence layers used by explain and pdg_query (taint, CDG, and REACHING_DEF). |
--spring-actuator <path> |
Import opt-in Spring Boot Actuator mappings, beans, conditions, configprops, and env snapshots. Forces a full rebuild; unsupported with --watch. |
--asyncapi-spec <path> |
Read opt-in AsyncAPI 3.x documents (directory or single file) and mint Destination nodes from their operations. 2.x is refused, not mapped. Unsupported with --watch. |
When to run: First time in a project, after major code changes, or when gitnexus://repo/{name}/context reports the index is stale. In Claude Code, a PostToolUse hook detects staleness after git commit and git merge and notifies the agent to run analyze — the hook does not run analyze itself, to avoid blocking the agent for up to 120s and risking KuzuDB corruption on timeout.
For Spring runtime enrichment, pass a JSON bundle, one endpoint JSON file, or a directory containing endpoint files. Route evidence is authoritative only when runtimeConfirmed === true; runtimeSource records provenance and may also accompany handler-conflict. Env/configprops values are never persisted.
Use node .gitnexus/run.cjs analyze --watch for a long-lived local Git repository. It performs an initial analysis, queues scanner-admitted file changes, and retries intact failed batches with bounded backoff. Watch refreshes update only the graph: they skip AGENTS.md / CLAUDE.md injection and standard skill installation, so run a one-shot analyze when those generated files need updating. Watch rejects one-shot or context-output flags including --force, embedding flags, --skills, --default-branch, --skip-agents-md, --skip-skills, --no-stats, --self-commit, --index-only, and --skip-git. It never pulls remotes. Scheduled remote clone/pull is a different command: gitnexus auto-sync. Bare gitnexus watch is reserved and does not start either job. Running MCP and serve processes periodically check for a published replacement and reopen it without a restart. MCP checks are throttled to once every five seconds, so a tool call before the next check can briefly use the previous index.
status — Check index freshness
node .gitnexus/run.cjs status
Shows whether the current repo has a GitNexus index, when it was last updated, and symbol/relationship counts. Use this to check if re-indexing is needed.
clean — Delete the index
node .gitnexus/run.cjs clean
Deletes the .gitnexus/ directory and unregisters the repo from the global registry. Use before re-indexing if the index is corrupt or after removing GitNexus from a project.
| Flag | Effect |
|---|---|
--force |
Skip confirmation prompt |
--all |
Clean all indexed repos, not just the current one |
wiki — Generate documentation from the graph
node .gitnexus/run.cjs wiki
Generates repository documentation from the knowledge graph using an LLM. HTTP providers require an API key (saved to ~/.gitnexus/config.json on first use). Local CLI providers (--provider cursor|claude|codex|opencode|grok) use your existing CLI login.
| Flag | Effect |
|---|---|
--force |
Force full regeneration, also required to re-generate an existing wiki in a different language |
--provider <name> |
LLM provider: minimax, openai, openrouter, azure, custom, cursor, claude, codex, opencode, or grok (default: minimax). Local CLIs (cursor, claude, codex, opencode, grok) use your existing CLI login and skip --api-key. |
--model <model> |
LLM model (default: MiniMax-M3) |
--base-url <url> |
LLM API base URL |
--api-key <key> |
LLM API key |
--concurrency <n> |
Parallel LLM calls (default: 3) |
--timeout <seconds> |
LLM request timeout in seconds (default: disabled) |
--retries <n> |
Max LLM retry attempts per request (default: 3) |
--lang <lang> |
Output language for generated documentation (e.g. english, chinese, spanish, japanese) |
--gist |
Publish wiki as a public GitHub Gist |
list — Show all indexed repos
node .gitnexus/run.cjs list
Lists all repositories registered in ~/.gitnexus/registry.json. The MCP list_repos tool provides the same information.
After Indexing
- Read
gitnexus://repo/{name}/contextto verify the index loaded - Use the other GitNexus skills (
exploring,debugging,impact-analysis,refactoring) for your task
Troubleshooting
- "Not inside a git repository": Run from a directory inside a git repo
- Index is stale after re-analyzing: Wait for the next MCP tool call to reopen the published index; this normally takes no more than five seconds
- Embeddings slow: Omit
--embeddings(it's off by default) or setOPENAI_API_KEYfor faster API-based embedding