I can confirm this bug is still present in 10.04 (Lucid) as well:

Setting up python-scipy (0.7.0-2) ...
/usr/lib/python2.6/dist-packages/scipy/stats/mstats_basic.py:106: 
SyntaxWarning: assertion is always true, perhaps remove parentheses?
  assert(output.ndim == 2, "The input should be 2D!")

-- 
[Jaunty]python-scipy install SyntaxWarning
https://bugs.launchpad.net/bugs/371789
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