Currently, if the user wants to deploy a ksonnet application, and that
application uses some vendored library, or something in the `lib/`
directory, they will have to pass the appropriate `-J` flags into the
command themselves.

This commit will automatically add these whenever we're in an app
directory and a command is issued. In particular, even if the user
passes in the `-f` flag (rather than an environment name), we'll still
add library paths to the command if we're in a ksonnet app directory.
This is meant to capture the case that a user wants to update one
resource in particular in a ksonnet application.