Check/set your current pay week. Click Payroll > Set Current Pay/Bill Period.
You'll process and save time-sheets and other payments for week 1 like normal, but you won't click Pay Employees and generate a pay file. Instead, you'll go back to Payroll > Set Current Pay/Bill Period and move the pay week ahead to week 2. You'll process and save week 2 time-sheets and other payments and then complete the payroll process by clicking on Pay Employees.