Files
dragonpilot/selfdrive
Nigel Armstrong 0a7fed9437 Fix dirty flag
Git diff-index doesn't rebuild index, so files with modified dates or touched
are marked as modified with a SHA1 of all 0.

To fix this, we run update-index --refresh before diff index. Any touched
files are updated in the index.

https://stackoverflow.com/questions/36367190/git-diff-files-output-changes-after-git-status
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