CLI Directory Lift

[dOrgJelli]

"Lift" the current root directory, and have a ./cli folder which contains the monowrap CLI source code. This allows us to create new folders like:

• ./graph - graph generation & solving crate (as a wrapper)
• ./run - logic for running commands (CLI, etc)
• ./wrappers - helpful wrappers (ex: cli-command, yarn, docker, etc)

[Niraj-Kamdar]

I agree we need refactor but honestly I am not sure how I will structure it because I want to generalize the graph solving part into its own wrapper and I know it can be useful not only here but also in other polywrap manifests like deploy, test, etc. I need to spec out more before I feel comfortable in refactoring this.