To set the VAP simply go to Chart of Setup from the Employer / Setup drop down menu and click the VAP Setup link. Click the Edit button. Set the desired variation percentage from the VAP drop down menu between the current pay and previously updated net pay. If the current pay calculated differs from the previously updated net pay figure by more or less than the specified percentage then the VAP will alert you. Click on Save to save any change you have made.
Road Map - Updating the Variation Allowed Percentage
Employer / Setup -> Chart of Setup -> Payrun Customisation -> VAP Setup link -> Edit button -> Save button
( 'Employer / Setup' is the button positioned in the tasking zone menu at the top. It is the First button from the left )