Actually, it seems that the war is considered 'a war on religion' by the religious right, because they cannot be allowed to decide what other people - mainly women, but also others - should be doing.
Yes. We atheists, along with secular humanists and democrats, are persecuting the religious right by not allowing them to bully and persecute women, gays, Muslims and anyone else that is not them.
"A casual stroll through the lunatic asylum shows that faith does not prove anything." - Friedrich Nietzsche