if you killed any of the people that would have gotten you the quests needed to go up the ranks, then you may be stuffed. but hopefully you started the war after you completed all the quests and were invited to kiya. killing her puts you on top which in turn opens the outer doors to the church. the inner doors only open when you destroy all the ghosts in the church. check your mini map for red blips as somehow when i did it, one of my ghosts had slipped through the church wall and was outside it, and i missed this at first, becoming quite frustrated when the inner doors wouldn't open.
