A quick hack for checking content is consistent over systems using a hashing method.  This is for md5, which is fast but some collision is possible if carefully crafted.  Use this on each directory.


find . -type f -exec md5sum "{}" + > checksum.list

Then checking if both are equal :

diff first.list second.list

No difference : data on both ends same. This also works with sha256sum.

Good luck!