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RuntimeWarning: invalid value encountered in absolute #394
Description
Sometimes I am getting these errors when running tests:
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ERROR: test_numeric.TestIsclose.test_ip_isclose_allclose([1e-08, 1, 1000020.0000000099], [0, nan, 1000000.0])
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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
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ERROR: test_numeric.TestIsclose.test_ip_isclose_allclose(nan, [nan, nan, nan])
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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.])
Activity
certik commentedon Nov 14, 2012
This is not an issue for the 1.7.0 release due to the commit ea23de8.
charris commentedon Feb 15, 2014
I believe the relevant tests have been fixed by catching the warning.