diff: check files with the same or newer timestamps

When a file on the workdir has the same or a newer timestamp than the
index, we need to perform a full check of the contents, as the update of
the file may have happened just after we wrote the index.

The iterator changes are such that we can reach inside the workdir
iterator from the diff, though it may be better to have an accessor
instead of moving these structs into the header.

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