Previously, bd sync would commit ALL staged files when committing beads
changes. This could lead to unintended commits of work-in-progress code
that users had staged but weren't ready to commit.
Changed gitCommitBeadsDir to use pathspec (-- .beads/) to explicitly
limit the commit to only .beads/ files.
Also added in previous commit (bd-pbj):
- New Untracked Files check in bd doctor for untracked .beads/*.jsonl
- bd doctor --fix can now stage and commit untracked JSONL files
Generated with Claude Code
Co-Authored-By: Claude <noreply@anthropic.com>
ab330ea39d