Payment Tolerance Issue

Hello everyone,

I have made the required setups for the payment tolerance. 

I have an issue in this.

Suppose there is an invoice of 100 and I make a bank receipt voucher for 99 whereas my payment tolerance amount is 2. Now if I apply the invoice while doing bank receipt itself it is working fine But the problem occurs if I first do the bank receipt and attempt to apply it to a invoice on later days (The remaining 1 RS is not transfering to payment tolerance account and the invoice is still open)

Please give me the solution for this.

thanks in advance,

Dinesh