Assuming you are arguing in favour of VMs, the benefits of Docker stand, and you can perfectly run Docker containers within a VMs.

The feature sets/usage sweet points of OS-level package managers, language-specific package managers, VMs, containers, distinct/same hosts, ... are both overlapping and different enough that you need judgement to choose which one you want, but they are certainly not exclusive.

If your use case means you prefer VMs over containers and you don't need to combine them, fine, but every situation is different.