Azure Functions GitHub deployment missing subfolders

Hello, I hope someone can help me as I am trying for hours and dont get it running

I want to auto-deploy my FastAPI backend from GitHub with Actions (https://github.com/FrameworkV/FoodFusionAI)

and selected src/backend as root. I followed the instructions from the official Microsoft website and finally I can see the files on Azure under "Functions/App files", but only those in the root (src/backend) are there and the others are not. What am I doing wrong?

Thanks a lot