I am having the same problem. After the update my entire site is just gone. The only thing in the content dir are uploaded images.
I am new to wordpress. Is this a normal occurrence, that the site updates itself and randomly screws up everything.
Is there a way to turn off this auto-update? I didn’t find anything in all the various menu items. If I don’t have control over my site, what is the point, I will go back to hard coding HTML.