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Welcome to Justanswer.com, my name is Dustin.I'm sorry to hear about the issue you are having, I will do my best to help you resolve it.
What file format are the certified payroll files in, when you download them? .PDF ?
Also, whats the name of the current accounting software you are using?
Dustin S.Senior Technician and Network Switching Systems Operator / Maintainer.