Order Payments
You can update payment status from here and can send an invoice to the customer from Action. To manage payment of an order:
Web Commerce >Orders >Click on action button >Click on manage payment >Click on action button >Select payment method, date >Enter amount >Click on submit button

Click on Add Payment

Enter the required details:

Scroll down and enter the due amount to be paid and click on “Submit”:

Note: that you will get a “Success! Payment has been saved Successfully” notification

Check the Payment Status now: It should turn to Green from Yellow
