By splitting the payroll transaction into the two payments

I noticed the above subject in a reply to a question.  How do you split payroll into two payments?  I have done payroll and one of our slips is for the director.  I have paid him 1/2 that day and 1/2 when the client pays.  So now I am stuck as to how to reconcile as the payroll shows (e.g., $5000) and the bank is showing as 2 lots of $2500.  Can you please advise what can be done or how you can actually split payroll transaction into two payments.

Thanks