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Sorry to be a noob, but I'm still trying to figure out PE. I have an existing ZEN subtheme that I would like to use with Panels Everywhere, but when I go to check "Override page template" then I lose my ZEN provided body classes which also includes my Skinr classes.
If I leave "Override page template" unchecked, it uses my theme's page.tpl.php, but then the PE site template no longer works.
I realize the problem is that PE overrides preprocess_page and that is what ZEN uses to add the body and skinr classes.
Is there a way to add those back in? Sorry, I'm just having a hard time getting started with PE, though it looks to be really cool.