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The only significant changes here seem to be the loss of `.. note::`s. Most other changes are extra `\ ` escapes at the end of inline code, inline math, and links. Some code blocks have been indented by an extra space, I've not managed to track down the cause of that, though they should render the same anyway. `make doctest` errors all look related to differences in backtrace line numbers and aren't related to the changes in this commit.
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