ITunes a mess after copying

I recently copied my entire itunes folder to an external drive. The folder structure is incorrect and it is a complete mess of broken links which leads me to believe the original has the incorrect structure as well. All the music files are there however.
I am wondering if there is a way to pull all the files out of itunes and somehow launch a new clean version so that when I put the music back it will structure it correctly and have the correct links?
There are 1000 albums. All uncompressed.
Thanks in advance.

you could try the technique described in this support article.
JGG

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