In god(s)-based religions, morality is just another
commandment from god(s). If one is not moral, they are punished
in some form or another, ranging from a less-than-great harvest
to eternal fire and brimstone. This drags morality down to the
level of the lowly pleaure-pain principle.
Morality out of fear of punishment is repugnant to the concept
of morality.
Those having difficulty with the concept of an atheist with
morals might benifit from a good look at their own. If your only
reason for not raping children is "God(s) probably wouldn't like
that...," you have some soul searching to do...