Moved ui.R and server.R into the package, under R/_shiny

From now on, we'll use branching in git to do it right.
Better than multiple file names with hard linking.
Added a "clear" convenience function.
Based on mvbutils:::yes.no , but uses upper-casing based on the gsub help file solution.
Added to NAMESPACE
export(createCTDEcatalog,
	patientToString,
	CTresultToString
)

and commented out the globalized exportPattern,
which didn't work anyway.
Moved the shiny files into inst/shinydocs
shortcut for runApp(...)
Not sure if this is enough to find ui.R and server.R
OK, I've got "run()" to work from the package!
and, we do generate and view patients!
Adding my WHATIDID file.
More "WHATIDID"
Oboy!
Got rid of the "None" 's,
and also changed Specifier to a virtual class
instead of a ClassUnion.
So it can be moved to the top of the file,
and be available in method definitions,
for example in my restructuring of
 checkRequirements.
Beginning to instantiate some EvalSpecifiers.

Not sure why the slot in EvalPctPatsAtEachDoseSpecifier and EvalNToxsAtEachDoseSpecifier
is called TierDoses.
More WHATIDID notes.
Removed duplicated code for ToxDoseThresholdModel
Bump version, date, and add
dependencies on shiny and shinyIncubator.
Add Specifier to exports.
Just cosmetics.
Fixed obsolete message:  we no longer have to select by number.
We want the WHATIDID file!

...and hide some other garbage.
I had to get rid of %except%, which is from mvbutils.
Added missing parenthesis.
New options to run():
  createCTDEcatalog=TRUE
  background=FALSE

The background option is commented out... but the RJSONIO warning message is probably irrelevant.