Example Folder Cleanup #351

The examples folder is quite messy right now, with what seems to be a variety of both examples and benchmark-like cases. Some also contain their own run/analysis files, but others don't. A specific way I can see to clean this up and ensure a standard moving forward is removing the individual run scripts in each example folder in favor of a master script.

A rough sketch of how I see this working:
We make a master script RunExample.jl:

julia RunExample.jl "DIIID-like_ideal_example"

Within the main function of this file, it then checks the string passed in:

• If it ends in "example" it basically does the existing run_example.jl few lines
• If it ends in "scan" it does a generalized version of Daniel's run_scan.jl scripts

This would avoid having to maintain a run file for each example we maintain, and also force all examples conform to be either a "example" or "scan" type (or additional types as needed).

This doesn't account for example analysis scripts. We could add a generalized version of that too if needed