Maybe something similar to dockers

I like this approach maybe we could add --name as well, so it is easier to name them.
trains-agent daemon stop --gpus all
trains-agent daemon stop --cpu-only
trains-agent daemon stop --gpus 0
What do you think?

Also being able to separate their configurations files would be good (maybe there is and I don't know?)

This is already supported --config-file , see trains-agent --help for details 🙂