This started as a complex new test for checkout going through the "typechanges" test repository, but that revealed numerous issues with checkout, including: * complete failure with submodules * failure to create blobs with exec bits * problems when replacing a tree with a blob because the tree "example/" sorts after the blob "example" so the delete was being processed after the single file blob was created This fixes most of those problems and includes a number of other minor changes that made it easier to do that, including improving the TYPECHANGE support in diff/status, etc.
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