We use Checkmark Payroll since the DBA payroll was not available at the time we purchased DBA.  It's inexpensive and easy to use.  Our accounting/HR people like it.  There is a DBA export from Checkmark to import into DBA, but we do not use that since we do need all of that detail data in the GL.  I believe accounting just makes one GL entry for the payroll total.  
 
We collect hourly time in a custom time clock application I developed.  The users have a badge with a barcode they swipe in and out with at one of three networked PC stations, and then their time is loaded into a weekly time sheet.  The time sheet application is internal web based.  Managers can add sick, vacation, holiday time and then approve.  Salary employees enter their time sheets for manager approval.  The two week time totals are exported into a file that Checkmark imports.  Check stubs are printed from Checkmark, and the payroll info is sent to the bank for direct deposit payments.  
 
Email me direct if anyone is interested in the time clock/sheet applications.

We also do payroll weekly for about 60 and find the DBA program works well for us.  My question to GasGiant is, does the bank do the tax and other deductions for you and then you have to do a reverse engineering of the payroll into DBA? That would be very cumbersome. If that is what is happenning, I think it would be far better to have DBA do the payroll and export the data to a spreadsheet for the bank.

For me, figuring up the hours is the most time intensive part of the job, as we use a time clock and cards.
 
We use direct deposit for all, and do the ACH batches manually using our banks online ACH service. Every week we just do a "Quick Edit" of the batch - every employee on one screen, go down and enter the net pay for each one and the total against our account.
 
We also do an ACH batch for PR taxes.
 
We have 13 employees and I doubt it takes a half hour altogether.
 
The only thing DBA doesn't do is give us on the PR Register is the the PR tax breakdowns (it doesn't add the employee and employer parts together) or grand total (total SS/MC + withheld). Maybe there's a report somewhere or a feature we're not using, but it only takes another 30 seconds to figure it out.
 
Overall I am extremely happy with DBA PR - though I'm not sure how it would work if we didn't have the option of online ACH creation. Try it out in your SandBox company if you're not sure.