Importing hands

Hey guys, I have had my PT3 on auto import and it has taken 9 hours so far, to input 117k hands. I think I've got about 400k for the last 3-4 months and probably another 100k before then. So about 500k in total. Could I cancel this and manually import these quicker? will this automatically overwrite the same files in the database? Or would I have 2 copies of some hands? Which I dont want.