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.sample() method is much slower for GaussianKDE #415

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iffanh opened this issue Nov 20, 2023 · 1 comment
Open

.sample() method is much slower for GaussianKDE #415

iffanh opened this issue Nov 20, 2023 · 1 comment
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@iffanh
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iffanh commented Nov 20, 2023

Describe your problem
I am solving a UQ problem where I use both Beta distributions and DD approach using Gaussian KDE for comparison. However, the sampling method using GaussianKDE distribution is much slower, rendering my solution impractical. It would be nice to have performance that are comparable.

Initial implementation

import chaospy

data = [116.2745628 , 115.13416142, 114.80945382, 116.33084439,
       114.54430672, 115.24590145, 112.82373268, 114.54212321,
       115.52909247, 114.18009555, 112.07062018, 116.121504  ,
       115.66960091, 113.76577903, 115.09706703, 115.02576397,
       116.09792064, 113.58395028, 116.43990758, 110.87611642,
       113.75703483, 113.73841484, 113.94810725, 113.55789659,
       114.23254175, 112.02328131, 115.93962318, 114.82174351,
       112.98921929, 114.46347643, 114.3485737 , 116.31094777,
       113.95286305, 116.35006936, 112.13944517, 113.4164324 ,
       113.49817194, 112.13492641, 115.86916609, 110.03929423,
       112.63799775, 114.68182756, 115.42690616, 114.38960296,
       113.24773739, 113.56371198, 113.98226525, 115.92298171,
       115.06980836, 113.78593864, 120.79032402, 121.04689476,
       121.38657614, 121.99086261, 120.11176311, 120.55870961,
       121.7959077 , 119.97631963, 121.28797822, 121.50383483,
       120.70152975, 120.78281641, 121.41026365, 121.12063399,
       121.60536863, 120.49792794, 121.62735184, 121.28069985,
       118.00865215, 120.00771131, 121.81723751, 121.66991639,
       121.81448758, 121.12223572, 121.75089556, 121.93087192,
       121.51646797, 121.1670653 , 120.36084271, 121.53289615,
       121.77973136, 121.31569106, 121.9604421 , 121.92048975,
       120.38454544, 120.52848225, 120.6338943 , 121.59134533,
       120.63304273, 121.75531306, 121.40742477, 121.17508324,
       120.98898567, 121.82692894, 120.89837076, 121.78889696,
       121.50167626, 121.88522189, 119.97447533, 120.1121333 ]

dist1 = chaospy.GaussianKDE(data)
dist2 = chaospy.Beta(2, 2, 0, 1)

start = time.time()
dist1.sample(100000)
end = time.time()
print(f"Sampling time from GaussianKDE : {end - start} seconds")

start = time.time()
dist2.sample(100000)
end = time.time()
print(f"Sampling time from Beta: {end - start} seconds")

In my computer the results are

Sampling time from GaussianKDE : 24.94120717048645 seconds
Sampling time from Beta: 0.032398223876953125 seconds

Is there a good alternative to this problem?

@iffanh
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iffanh commented Nov 20, 2023

related to #414

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