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This command uses the recursive glob and glob qualifiers from zsh. This will remove all the empty directories from the current directory down.
The **/* recurses down through all the files and directories
The glob qualifiers are added into the parenthesis. The / means only directories. The F means 'full' directories, and the ^ reverses that to mean non-full directories. For more info on these qualifiers see the zsh docs: http://zsh.dotsrc.org/Doc/Release/Expansion.html#SEC87
This command will open up the two files in FileMerge on OS X. You can also compare two directories.
opendiff directory1 directory2
NOTE: FileMerge is a part of the OS X Developer Tools, available on the install disc.