Proposal: move core packages into a 'base' folder

[mdietze]

The root directory of pecan is a bit cluttered -- there's two large folders (models and modules) full of R packages, then a hodgepodge of scripts, documentation, web, shiny, and all other R packages that aren't in modules and models. By moving this latter group into a new folder 'base' it makes the organization of R packages more clear and easier to explain.

Possible Implementation

Move the following into 'base':

db qaqc settings utils visualization

Then update make, all, etc so PEcAn builds successfully.

[dlebauer]

should 'all' also be included in base?

[mdietze]

That sounds good to me, but I don't know how that'd affect the make. @ashiklom @robkooper would it work to have the 'all' package in a 'base' folder?

[tonygardella]

Completed by #1591