Reorganization of Application page.
Minor fixes
Convert to using dashes.

Gollum likes dashes more than underscores. (It converts spaces to dashes.)
Convert to preferential use of dashes, which eliminates many pipings in the main pages.
Start sorting uncategorized.
Merge branch 'master' of https://github.com/tjacobs2/documentation_conversion
Move handwritten documentation to subdirectory

Also pull out pilot documentation.
Update Developer Doc organization.
Reorganize namespaces