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Most efficient way to map function over numpy array

python
performance
numpy
optimizations
Anton ShumikhinbyAnton Shumikhin·Nov 21, 2024
TLDR

Speed up numpy array operations using ufuncs for high performance broadcasting, or @np.vectorize for custom functions that aren't natively vectorized.

# Fast, furious, and natively vectorized arr = np.array([1, 2, 3, 4, 5]) result = arr ** 2 # arr went on a squaring spree

For non-vectorized operations, use @np.vectorize. It's like giving your function a "supplement" for iterating over elements:

# Custom function turning Hulk with @np.vectorize @np.vectorize def my_func(x): return x * x # careful not to square the circle! result = my_func(arr)

For heavier computations, Numba's @vectorize uses JIT compilation, providing faster, leaner operations:

# The Flash doesn't stand a chance! @vectorize def my_func(x): return x * x # if broken, return more legos result = my_func(arr)

Tune-up time: implementing performance optimizations

Juicing it up with Numexpr

For complex operations on large arrays, numexpr optimizes memory and cache use like it's on a diet:

# Who said only Python can digest a meal? arr = np.array([1, 2, 3, 4, 5]) result = ne.evaluate("arr ** 2") # arr squared, fair and stacked

Going C-style with Cython

In the heavy-duty arena, Cython converts Python into C for heavyweight-grade execution:

# Python gone rogue with Cython cpdef double[:] square_array(double[:] arr): cdef int i for i in range(arr.shape[0]): arr[i] *= arr[i] # squared boldly, where no elem has squared before return arr

Parallel execution: Unleashing Numba's prange

When your tasks are like workers in a bee hive, Numba's prange calls for a grand meet-up across multiple cores:

# if prange had LinkedIn, it would say proficient in multitasking @njit(parallel=True) def parallel_func(arr): for i in prange(len(arr)): arr[i] = arr[i] ** 2 # power of prange on display return arr

Code ninja techniques to outwit the performance monsters

Tracking performance with perfplot

Use perfplot to track, benchmark and choose the fastest method like you're shopping for the best pizza discount:

# Because performance tracking matters, so do pizza discounts perfplot.show( setup=lambda n: np.random.rand(n), kernels=[ lambda a: test_function(a), # More functions waiting curious to join the race ], n_range=[2 ** k for k in range(20)], xlabel="Array size", # Sorry, no free pizza sizes here )

Let's get practical: Numpy tricks and trips

Replacing if-else with numpy.where

Convert if-else logic in numpy operations to numpy.where like you're substituting sugar with honey:

# if-else logic: out, numpy.where: in result = np.where(arr > 2, arr ** 2, -arr) # arr playing truth or dare with 2

Avoiding Python list conversions

Minimize conversions to/from Python lists and stick to operating directly on numpy arrays like a stick to honey:

# Don't slow might arr's roll with Python list conversions result = arr * arr # arr going wild in its natural habitat

Unveiling the uncharted: Hidden gems in performance boosters

Remember, the specific scenario you are venturing determines the best approach. Consider the array, the function specifics, and keep testing different methods like a scientist on a quest for the elusive formula of peak efficiency.