["python","python-2.7","scikit-learn","valueerror"]
sklearn error ValueError: Input contains NaN, infinity or a value too large for dtype('float64')

I am using sklearn and having a problem with the affinity propagation. I have built an input matrix and I keep getting the following error. ValueError: Input contains NaN, infinity or a value too large for dtype('float64'). I have run np.isnan(mat.any()) #and gets False np.isfinite(mat.all()) #and gets True I tried using mat[np.isfinite(mat) == True] = 0 to remove the infinite values but this did not work either. What can I do to get rid of the infinite values in my matrix, so that I can use the affinity propagation algorithm? I am using anaconda and python 2.7.9.
This might happen inside scikit, and it depends on what you're doing. I recommend reading the documentation for the functions you're using. You might be using one which depends e.g. on your matrix being positive definite and not fulfilling that criteria. EDIT: How could I miss that: np.isnan(mat.any()) #and gets False np.isfinite(mat.all()) #and gets True is obviously wrong. Right would be: np.any(np.isnan(mat)) and np.all(np.isfinite(mat)) You want to check whether any of the elements are NaN, and not whether the return value of the any function is a number...