def columnUncertainty(self):
"""Returns uncertainty (Shannon's entropy) for each column in profile
Uncertainty is returned in BITS (not in NATS).
"""
if not self.Data:
return array([])
try:
return column_uncertainty(self.Data)
except ValueError:
raise ProfileError,\
"Profile has to be two dimensional to calculate columnUncertainty"
def test_col_uncertainty(self):
"""column_uncertainty: should handle pos/neg/zero/empty arrays
"""
b = array([[.25,.2,.45,.25,1],[.25,.2,.45,0,0],[.25,.3,.05,.75,0],\
[.25,.3,.05,0,0]])
self.assertFloatEqual(column_uncertainty(b),[2,1.97,1.47,0.81,0],1e-3)
#one-dimensional array
self.assertRaises(ValueError, column_uncertainty,\
array([.25,.25,.25,.25]))
#zeros
self.assertEqual(column_uncertainty(array([[0,0]])),array([0,0]))
#empty 2D array
self.assertEqual(column_uncertainty(array([[]])),array([]))
self.assertEqual(column_uncertainty(array([[],[]])),array([]))
#negative number
self.assertNotEqual(column_uncertainty(array([[-2]])),\
column_uncertainty(array([[-2]])))