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SKIP_DIRS only matches directory names, so a repo has no way to leave out a vendored tree, generated code or nested git worktrees. --exclude is repeatable and takes a path relative to the root; it applies to the file walk and to cached entries, and the graph drops files that are no longer indexed.
An absolute path outside the root or a path with '..' excluded nothing, silently. An absolute path under the root is now made relative; the others raise. The README says --exclude scopes the index, not git_history.
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Summary
SKIP_DIRSonly matches directory names, so a repository cannot leave out avendored tree, generated code or nested git worktrees. On a repo with a
worktree under
.claude/worktrees/and a vendored minified.js, the firststart took 105 s and the MCP client timed out before the graph was saved.
With
--excludethe same cold start takes 22 s.Changes
--exclude PATH, repeatable, relative to the root, matched as a path prefix--excludevalue that cannot match (outside the root, or with..) is an error--excludescopes the index,git_historystill reports every tracked fileTest plan
pytest— all tests passRelated issues
None.