Payment processing through Financial Gateway

We are on PeopleSoft version 8.9 and are converting our current AP check payment file layout from positive pay to ISO XML for processing through the Financial Gateway.  Most of our checks will be printed by our bank, however, selected checks must be printed in-house.  Both EFT and System Check payment methods are configured on our bank account in PeopleSoft.  The System Check method is used for checks printed in-house and the EFT method for checks to be printed by the bank.  Our bank is requesting that we include all the checks in the same XML file.  Is that scenario supported