Matching two separate deposits to one invoice.

Matching two separate deposits to one invoice.

I use Square for the farmers markets we attend.  Square deposits all credit card purchases made before 5pm the next day, but any purchases made after 5 pm will not be deposited until the day after.  This is causing a problem for me in reconciling my accounts.  I create a mass invoice for the day's sales, but when I go to reconcile and match them in my bank account I cannot figure out how to match two separate deposits to the one invoice.  Is this not possible?  Will I need to go back each time and change my invoice and payments into two separate ones so I can get them to match up?  Thanks for the help in advance!