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Ha, yes. I commented out the first four tests for zeros of atan in the cmath_testcases.txt file, but failed to notice that they're tested again, later on. And the same goes for atanh.
I need to look at this, but I don't have write-access to the Python svn repo at the moment (my home machine is ill). If someone else wants to go through and just comment out all the tests of zeros for atan and atanh in cmath_testcases.txt, please go ahead. The zeros are tested independently within test_cmath (but skipped on systems like AIX where there are known problems with log1p).