You will setup the employees salary information on the Employee's Default Check.  The Default Check is used to enter in the Gross Amount (as well as other check information) based on the employee's Pay Frequency (the Pay Frequency is defined in the employee's Live Payroll Parameters).  For example, if the Employee's salary is $52,000.00 per year and the Pay Frequency is defined as weekly, the Gross amount on the Default Check is $1,000.00.  If the Pay Frequency was Bi-Weekly the Gross amount on the Default Check is $2,000.00.