[SciPy-User] scipy.spatial.distance.mahalanobis & inverse covariance matrix

bearce meanu dfeuzs@googlemail....
Wed Jul 21 07:22:03 CDT 2010

Dear experts,

i just switched from matlab to scipy/numpy and i am sorry for this
very basic question.

my goal is to calculate the mahalanobis distance btw to vectors x & y.
Here is my code:

from scipy.spatial.distance import mahalanobis
import numpy as np
V = np.linalg.inv(np.cov(np.concatenate((x, y)).T)) # inverse covariance matrix

which gives the following error:

Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
  File "/usr/lib/python2.6/dist-packages/numpy/linalg/linalg.py", line
355, in inv
    return wrap(solve(a, identity(a.shape[0], dtype=a.dtype)))
IndexError: tuple index out of range

what is the appropriate way of calculating the inv cov matrix for this case.

I really appreciate your help,

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