Functions in same channel are set in different group

I'm just using Smart Configurator and MCU Package view. I have configured several pins, most of them are green (configuration is correct) but I still have two yellow SPI pins with warning message "Functions in same channel are set in different group". I already have a PCB prototype on my desk, therefore I can't just move these SPI signals to different pins. Will this configuration work properly with these two warnings? Will this SPI work or I have to make another PCB prototype?