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This is a big issue that I've hit up against as well.

For example, trying to tie a Backbone View (el, events) to a Twitter Bootstrap "Popover"(http://twitter.github.com/bootstrap/javascript.html#popovers) doesn't work in the "Backbone way" (we are talking about the same thing, correct?).

quickly looking at the bootstrap javascript they are making calls to $().offset which also doesn't work for hidden elements, so yes were talking about the same thing.

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