move scripts into dedicated directory, create initial file structure, update lbcom

Prepare this vetra branch as a gaudi project instead of as a collection of scripts. Major changes:

• Make base directory for VP emulation as Vetra/VPEmulation
• Move options for threshold scan into Vetra/VPEmulation/options
• Update Lbcom version to v31r0, which is current latest

Allows for merging into master when time is right

cc: @cocov @szumlat @mmajewsk @pkopciew

tag any others you think are relevant