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Colby MchenryandClaude Opus 4.8
73bcc1afb4
#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>