RuntimeWarning: invalid value encountered in absolute

[certik]

Sometimes I am getting these errors when running tests:

======================================================================
ERROR: test_numeric.TestIsclose.test_ip_isclose_allclose([1e-08, 1, 1000020.0000000099], [0, nan, 1000000.0])
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/home/ondrej/repos/numpy/py27/lib/python2.7/site-packages/nose/case.py", line 197, in runTest
    self.test(*self.arg)
  File "/home/ondrej/repos/numpy/py27/lib/python2.7/site-packages/numpy/core/tests/test_numeric.py", line 1245, in tst_isclose_allclose
    assert_array_equal(isclose(x, y).all(), allclose(x, y), msg % (x, y))
  File "/home/ondrej/repos/numpy/py27/lib/python2.7/site-packages/numpy/core/numeric.py", line 1986, in allclose
    return all(less_equal(abs(x-y), atol + rtol * abs(y)))
RuntimeWarning: invalid value encountered in absolute

======================================================================
ERROR: test_numeric.TestIsclose.test_ip_isclose_allclose(nan, [nan, nan, nan])
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/home/ondrej/repos/numpy/py27/lib/python2.7/site-packages/nose/case.py", line 197, in runTest
    self.test(*self.arg)
  File "/home/ondrej/repos/numpy/py27/lib/python2.7/site-packages/numpy/core/tests/test_numeric.py", line 1245, in tst_isclose_allclose
    assert_array_equal(isclose(x, y).all(), allclose(x, y), msg % (x, y))
  File "/home/ondrej/repos/numpy/py27/lib/python2.7/site-packages/numpy/core/numeric.py", line 1986, in allclose
    return all(less_equal(abs(x-y), atol + rtol * abs(y)))
RuntimeWarning: invalid value encountered in absolute

These are caused by calling allclose(x, y) with for example x = array([1, nan, 2]) (the array contains nan). Then inside allclose, one calls abs on the array of nans, which produces the warning. It can be reproduced by simply doing:

>>> from numpy import array, abs, nan
>>> a = array([1, nan, 3])
>>> a
array([  1.,  nan,   3.])
>>> abs(a)
__main__:1: RuntimeWarning: invalid value encountered in absolute
array([  1.,  nan,   3.])

[certik]

This is not an issue for the 1.7.0 release due to the commit ea23de8.

[charris]

I believe the relevant tests have been fixed by catching the warning.