[imtringued]

I don't see how this is a tragedy. You're blowing something trivial out of proportion.

When you build alpine packages, you literally have to call abuild on your APKBUILD files. It's the same for Arch Linux. The files are called PKGBUILD. So even if you decide to package your applications (uh, using docker run? that changes nothing!) before docker build and then install them with the OS package manager, you will run into exactly the same thing.