Except for the fact the TARDIS was in complete control of the situation, and could have easily led Clara anywhere, but CHOSE to lead her into the library. The TARDIS may not have shown anyone else that room.so maybe she doesn't hate Clara after all.
Journey's End is worse than Doomsday. Not even because he's lost Rose again, but because he got everyone back, everyone he cared about, everyone who helped him survive, and lost them all. It's no wonder regeneration wasn't long in coming after this.