Creating/Updating folders and Twonky

When I set up MyCloudEX2Ultra NAS, I created MyFolder for all my files which I copied from an external HD.

I began ripping my CD’s to a subfolder MyFolder/Music. I did not realize that Twonky was already on the NAS.

Then I copied these music files over to Public/Shared Music, which I found on MyCloudEX2Ultra. I don’t know if this folder was set up by Twonky or the NAS

/Music is now different from MyFolder/Music.

Would I use WDSync to synchronize these folders?

                           Or

Should I just manually do a onetime copy, to sync up the folders and then start ripping my CD’s directly to Public/Shared Music.