It turns out we do care about directories...

This is a bug that has been around since at least 2007.  On a package
upgrade (either by -S or -U) a new directory could overwrite any file.
This is caused by the filelist difference calculation ignoring all
directories and thus no new directories were checked for conflicting
files on the filesystem.

Signed-off-by: Allan McRae <allan@archlinux.org>

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