After your upload is completed, you have the option to select any Pay Runs that the timesheets will be contained in and Add them.
To do so, just click the Add Pay Runs button:
Select the Pay Runs you wish to add and click Add Pay Runs:
A confirmation message will be displayed and the Pay Runs will be available in Xero.
To view them immediately - you Can click the View in Xero: Pay Run button to open Xero in a new window.