A Git super-repo whose `.gitignore` excludes its child repositories indexed
~nothing at the parent: CodeGraph respects `.gitignore` by default (#970,
#1065), so the excluded children were skipped and `codegraph init` printed
"Done" with 0 nodes — even though `init` inside each child worked fine. The
empty index was silent and unexplained.
`init`/`index` now detect the gitignored child repos they skipped when an
index comes up empty of symbols, name them, and — in an interactive terminal
— offer to index them (writing an `includeIgnored` entry to codegraph.json and
re-indexing on the spot); non-interactive runs print the exact codegraph.json
snippet to add. Gated on nodesCreated === 0, so a project that deliberately
keeps gitignored reference clones out of a working index is never nagged.
- extraction: findUnindexedIgnoredRepos — the inverse of discoverEmbeddedRepoRoots
(bounded, skips default-ignored dirs, respects existing includeIgnored)
- project-config: addIncludeIgnoredPatterns — create/merge codegraph.json,
idempotent, refuses to clobber malformed JSON
- cli: wire the detect-name-offer flow into both `init` and `index`
- tests: +13 covering detection, config writing, and the no-nag gate
Co-authored-by: Claude Opus 4.8 (1M context) <noreply@anthropic.com>
Adds an `include` list to the root `codegraph.json` that forces gitignored first-party source (second-VCS / SVN / Perforce dual-tracked repos) into the index — discovered directly off disk on the full index, incremental sync, and file-watching, on both git and non-git projects. Gitignore-style patterns, root-relative; explicit `exclude` still wins and built-in skips (node_modules, dist, .git) are never re-included. Complements `exclude` and `includeIgnored`.
Closes#1163.
Thanks @luoyxy for the contribution.
Three fixes for a repo that commits a large JS/TS theme/SDK (Metronic under
static/, ~1,600 tracked files):
1. A SECOND "Resolving refs" quadratic that #915 didn't cover. #915 capped
import-name collisions; this caps method-name collisions (init/update/render
re-declared on every widget), which flow through matchMethodCall Strategy 3
and findBestMatch instead. New AMBIGUOUS_NAME_CEILING (default 500, env
CODEGRAPH_AMBIGUOUS_NAME_CEILING): above it the fuzzy strategies decline
rather than score K candidates — no proximity score can pick the one true
target among thousands anyway. Resolving drops from O(K^2) to linear in refs
(e.g. 900-file synthetic: 28.7s -> 3.4s), edge counts unchanged, and the cap
never fires on normal repos (max real method-collision ~40).
2. A new `exclude` array in codegraph.json keeps git-TRACKED paths out of the
index, which .gitignore can't do (enumeration is `git ls-files`). Mirrors the
existing includeIgnored plumbing across the git, sync, and non-git-walk
paths.
3. `index`/`init` now install the #850 liveness + #277 ppid watchdogs (which
were serve-only), so a wedged or orphaned indexer self-terminates instead of
pinning a core. The --liftoff-only relaunch's spawnSync can't forward
signals, so killing the parent shim used to orphan the worker.
Tests: ubiquitous-name ceiling, exclude (incl. tracked-file exclusion on git +
non-git), orphan self-termination (POSIX), and ppid-parser units. Shared the
ppid parsers out of mcp/index.ts into mcp/ppid-watchdog.ts.
Co-authored-by: Claude Opus 4.8 (1M context) <noreply@anthropic.com>
#514 (v1.0.0) began walking into gitignored directories to discover and
index the git repos nested inside them. That broke users who rely on
.gitignore to exclude a directory: a gitignored folder of cloned
reference repos blew graphs up (one report went 10k to 500k edges, #976)
and stalled indexing on multi-gigabyte trees of clones (#970).
Respect .gitignore by default again. Discovering embedded repos inside a
gitignored directory is now opt-in via codegraph.json:
{ "includeIgnored": ["packages/", "services/"] }
The single choke point findIgnoredEmbeddedRepos now returns nothing
unless a gitignored dir matches the project's includeIgnored patterns,
and the matcher is threaded from the scan root through the full-index,
incremental-sync, and watcher-scope paths. Downstream ScopeIgnore and the
watcher are unchanged: they key off the discovered embedded roots, so
gating discovery fixes the indexer, sync, and watcher together. Untracked
embedded repos (#193) stay indexed by default.
This restores the super-repo-of-clones behavior (#622, #699) for the
people who want it, while making the default match what every other tool
(and CodeGraph's own git ls-files foundation) does: .gitignore excludes.
project-config.ts now parses codegraph.json once (loadParsedConfig) and
exposes loadIncludeIgnoredPatterns alongside the existing extension map.
Co-authored-by: Claude Opus 4.8 (1M context) <noreply@anthropic.com>
The extension → language table was hardcoded, so a codebase using a
non-standard extension for a supported language (e.g. `.dota_lua` for Lua)
had those files silently skipped — no way to opt them in short of patching
the source.
Add an opt-in, project-scoped `codegraph.json` at the repo root:
{ "extensions": { ".dota_lua": "lua", ".tpl": "php" } }
Mappings merge on top of the built-in defaults and take precedence (so a
built-in can be re-pointed, e.g. `.h` → `cpp`). Absent or malformed config
is the zero-config default — byte-identical to prior behavior; an invalid
target language or unparseable file is warned-and-skipped, never fatal.
Implementation:
- New `src/project-config.ts` — `loadExtensionOverrides(rootDir)`, validated
against `isLanguageSupported`, mtime-cached per root.
- `detectLanguage` / `isSourceFile` gain an optional `overrides` arg
(omitting it is the existing behavior).
- Overrides threaded per-operation through every extraction call site
(scan/walk gates, git change-detection, grammar selection, extraction,
the file watcher), resolved from the project root — no process-global
state, so the multi-project daemon stays isolated. The parse worker
receives the resolved language in its message.
Tests: 13 new cases (unit, loader validation/normalization/caching, and a
full-index integration proving a custom-extension file is extracted while
the zero-config path indexes nothing). Worker path smoke-tested via the
built CLI.
Co-authored-by: Claude Opus 4.8 (1M context) <noreply@anthropic.com>
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