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Add support for worktrees #27

Description

@patrick91

Problem

Shortcake should work correctly when invoked from a Git linked worktree, not only from the primary checkout.

Current status

Some low-level paths now use pygit2 repository discovery and repo.path, but worktree support is not covered end-to-end. There are still Git-local state files and recovery paths that need explicit verification in linked worktrees.

Remaining work

  • Add tests that run core commands from a linked worktree.
  • Verify Git-local state files are stored in the correct git dir for that worktree.
  • Audit state/cache paths such as PR cache, restack state, and future transaction/recovery files.
  • Verify branch switching, restack/continue/abort, submit, pull, sync, and UI startup from a worktree.

Acceptance criteria

  • Commands behave the same from the main worktree and a linked worktree.
  • No command assumes .git is a directory in the working tree.
  • State cleanup and recovery work from linked worktrees.

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