Views:
Enter the payment line – when you get to the Amount field – select Process, Apply Entries

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I select the ones I want to pay.
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Select Process, Set Applies-to ID
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This updates the Applies-to ID field with the Document No.  If you want to partially pay an invoice – you can adjust the Amount to Apply value

At the bottom of the screen – the system will total the invoices/credit memos

Then select Ok at the bottom of the page
This drops in the amount for you.
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Then you just need to offset to the Bank and enter a value in the Bank Payment Type field.  You do not need to enter anything in the Applies-to fields on the lines.