Python TypeError : only integer scalar arrays can be converted to a scalar index

As mentioned in the comments, someValuesArray is a list of 2d numpy arrays. I've converted that to an np.array. The code sample in your question attempts to index a python list with a numpy array, which causes the error message you receive.

In [111]: a=np.array(someValuesArray) # Convert to a numpy array

In [112]: a
Out[112]:
array([[[ 2.15071988,  2.12438011,  2.2704699 ,  2.64566994,  2.22975993,      2.18185997]],
[[ 2.29442   ,  2.30870008,  2.31110001,  2.19619989,  2.23693991,  2.16987991]],
[[ 2.82851005,  2.73031998,  2.78301001,  1.71721995,  1.81542003,  1.78189003]],
[[ 1.19271004,  1.14721   ,  1.27893996,  1.16637003,  1.23343003,  1.21666002]]], dtype=float32)

In [113]: def searchValues(array, value):
              labelArray = [2,0,1,2]
              values_of_array = np.array(labelArray)
              indices = np.where(values_of_array == value)[0]
              # print statements added to see what's happening
              print("Indices: ", indices)
              print("Array selection: \n", array[indices])
              return array

          searchValues(a,2)
[Out]
Indices:  [0 3]
Array selection:
[[[ 2.15071988  2.12438011  2.2704699   2.64566994  2.22975993  2.18185997]] # a[0]
[[ 1.19271004  1.14721     1.27893996  1.16637003  1.23343003  1.21666002]]] # a[3]

Out[113]:
array(
[[[ 2.15071988,  2.12438011,  2.2704699 ,  2.64566994,  2.22975993,  2.18185997]],
 [[ 2.29442   ,  2.30870008,  2.31110001,  2.19619989,  2.23693991,  2.16987991]],
 [[ 2.82851005,  2.73031998,  2.78301001,  1.71721995,  1.81542003,  1.78189003]],
 [[ 1.19271004,  1.14721   ,  1.27893996,  1.16637003,  1.23343003,  1.21666002]]],      dtype=float32)

Both indices returned by indices = np.where(values_of_array == value)[0] are used to point to rows in the array.

You have returned the entire array from the function: did you really mean to return array[indices]?

I can reproduce your error message with:

List index with a scalar array:

In [7]: [1,2,3,4][np.array(1)]
Out[7]: 2

List index with an (1,) shape array; one element but not a scalar array:

In [8]: [1,2,3,4][np.array([1])]
---------------------------------------------------------------------------
TypeError                                 Traceback (most recent call last)
<ipython-input-8-4ad73b219fa3> in <module>()
----> 1 [1,2,3,4][np.array([1])]

TypeError: only integer scalar arrays can be converted to a scalar index

But it's ok to index an array like this:

In [9]: np.array([1,2,3,4])[np.array([1])]
Out[9]: array([2])