You can't really judge any religion on it's "holy books" since many of the things that are written in them were written at a time when those things were the accepted way to deal with society's issues.
It was probably completely accepted to destroy a whole village or town if they were worshiping another religion. It was probably totally acceptable to kill your wife if she tried to entice you into another religion.
I think you can look through any holy book which is hundreds or thousands of years old and find all kinds of things in there that modern society would find reprehensible.
The best solution is to live and let live, and show respect to every human being, regardless of their race, religion, or sexual orientation. That is what we, as a supposedly "enlightened" race of people, should do.
One day I hope that everyone can just live in peace. The way things are going now, however, it looks like I won't be around to see that day.