Additional flags for disabling compile or upload steps.
Additional flags for disabling compile or upload steps.

Also add a flag to allow (or suppress) output of the JSON describe of
the final output object (app or applet).

johnwallace123/dx-toolkit,dnanexus/dx-toolkit,johnwallace123/dx-toolkit,johnwallace123/dx-toolkit,jhuttner/dx-toolkit,andyshinn/dx-toolkit,andyshinn/dx-toolkit,johnwallace123/dx-toolkit,olegnev/dx-toolkit,dnanexus/dx-toolkit,jhuttner/dx-toolkit,jhuttner/dx-toolkit,jhuttner/dx-toolkit,dnanexus/dx-toolkit,olegnev/dx-toolkit,andyshinn/dx-toolkit,johnwallace123/dx-toolkit,andyshinn/dx-toolkit,andyshinn/dx-toolkit,olegnev/dx-toolkit,johnwallace123/dx-toolkit,johnwallace123/dx-toolkit,jhuttner/dx-toolkit,johnwallace123/dx-toolkit,dnanexus/dx-toolkit,dnanexus/dx-toolkit,andyshinn/dx-toolkit,olegnev/dx-toolkit,dnanexus/dx-toolkit,jhuttner/dx-toolkit,dnanexus/dx-toolkit,olegnev/dx-toolkit,olegnev/dx-toolkit,andyshinn/dx-toolkit,olegnev/dx-toolkit,dnanexus/dx-toolkit,olegnev/dx-toolkit,jhuttner/dx-toolkit,jhuttner/dx-toolkit,andyshinn/dx-toolkit