Yes, the cover just sort of flips up out of the way of the top when it is erected.
installing the boot has its challenges. The leather (or vinyl) must be tensioned just the right amount to look good, but not so much as to cause wrinkles. You will find that it must be pulled taught from end to end as well. Thus, you must carefully determine the middle of the cover and the bar, and start your gluing there, working outward. I found it helpful to stretch, glue, and clamp for several inches, then go away and let it dry, then return and do some more. You will want to let the curved part get strong before continuing.