Migration Assistant stalls every time, even with different backups

I recently had the hard drive replaced on my 2009 intel iMac.  I have tried using Migration Assistant to transfer user settings and applications from both the USB backup drive of the iMac as well as my Macbook Pro but in both cases, Migration Assistant stalls at either 1hr 47min ot 1hr 53min and doesn't progress past that point.  I've let it continue for hours but it just doens't go any further than that. 
I assumed it was coming to a corrupt file but now I'm not so sure as it does the same thing when I try migrating from my Macbook Pro, which is a completely differn't system.
Any suggestions?  Next, I'm going to try just transferring applications to see if I have any luck with that.
Any way to transfer applications manually?  I have so many, it would take days to re-download and install everything.

It may have completed the migration. Have you logged out and then looked for a new user account to see if your migration was completed?

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