packaging: setup: generate apache configuration only one time

currently if user selects to generate root and ssl configuration, this
will be done at upgrade as well.

there is no actual reason to perform this at upgrade as if configuration
is working we should leave it as-is.

Change-Id: Iadae29234702c35fbead6bdb45eccffed895a109
Signed-off-by: Alon Bar-Lev <alonbl@redhat.com>