Elementwise multiplication of several arrays in Python Numpy

Question

Coding some Quantum Mechanics routines, I have discovered a curious behavior of Python's NumPy. When I use NumPy's multiply with more than two arrays, I get faulty results. In the code below, i have to write:

f = np.multiply(rowH,colH)
A[row][col]=np.sum(np.multiply(f,w))

which produces the correct result. However, my initial formulation was this:

A[row][col]=np.sum(np.multiply(rowH, colH, w))

which does not produce an error message, but the wrong result. Where is my fault in thinking that I could give three arrays to numpy's multiply routine?

Here is the full code:

from numpy.polynomial.hermite import Hermite, hermgauss
import numpy as np
import matplotlib.pyplot as plt

dim = 3
x,w = hermgauss(dim)
A = np.zeros((dim, dim))
#build matrix
for row in range(0, dim):
    rowH = Hermite.basis(row)(x)
    for col in range(0, dim):
        colH = Hermite.basis(col)(x)
        #gaussian quadrature in vectorized form
        f = np.multiply(rowH,colH)
        A[row][col]=np.sum(np.multiply(f,w))
print(A)

::NOTE:: this code only runs with NumPy 1.7.0 and higher!

Usanis

Answer 1

Your fault is in not reading the documentation:

numpy.multiply(x1, x2[, out])

multiply takes exactly two input arrays. The optional third argument is an output array which can be used to store the result. (If it isn't provided, a new array is created and returned.) When you passed three arrays, the third array was overwritten with the product of the first two.

Knitwear

ok, my bad :-). should I remove this post or do you think it's useful for others? – Usanis

leave it. helped me :) – Unquiet

So, is there any option to multiply multiple arrays in a single call (in latest version) or do we have to chain the calls? – Prospect

Answer 2

For anyone stumbling upon this, the best way to apply an element-wise multiplication of n np.ndarray of shape (d, ) is to first np.vstack them and apply np.prod on the first axis:

>>> import numpy as np
>>>
>>> arrays = [
...   np.array([1, 2, 3]),
...   np.array([5, 8, 2]),
...   np.array([9, 2, 0]),
... ]
>>>
>>> print(np.prod(np.vstack(arrays), axis=0))
[45 32  0]

Gorgerin

This answer assume that input arrays are 1D. Taking np.prod(np.array(arrays), axis=0)) works better for multi-dimensional input arrays. – Bethany

Answer 3

Yes! Simply as doing * to np.arrays

import numpy as np
a=np.array([2,9,4])
b=np.array([3,4,5])
c=np.array([10,5,8])
d=a*b*c
print(d)

Produce:

[ 60 180 160]

Sigmatism

Answer 4

I came across this question because I was interested in knowing the fastest way to multiply several arrays together. I ended up writing a benchmark, and I'm surprised by what I found.

I tested 3 methods:

1. Using pure python syntax a * b * c * d
2. Using np.multiply.reduce
3. Using np.stack followed by np.prod(..., axis=0)

I tested these methods with multiple numbers of arrays and array sizes. I was very surprised to find that method 1 tends to be the best.

The blue, orange, and green lines correspond to methods 1, 2, and 3 respectively. The style of the line indicates how many arrays were multiplied together.

The results are surprisingly consistent. Even when you have 8 arrays, it seems faster to just use a * b * c * d * e * f * g * h. I'm not entirely sure why this is. Perhaps Python sees this expression and does a divide-and-conquer combination style, whereas reduce is completely linear?

Code for the benchmark is here:

https://github.com/Erotemic/misc/blob/main/tests/python/bench_np_reduce_vs_repeat.py

Immunogenic