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Fix staging and unstaging of added and deleted files (#25631)

* When staging in a buffer whose file has been deleted, do not save the
file
* Fix logic for writing to index when file is deleted

Release Notes:

- N/A
ebccef1aa4Max Brunsfeld committed on 2/26/2025, 7:25:31 AM· committed by GitHubparent33754f8
6 files changedLine totals unavailable