def test_derive_edge_parameters():
"""
assert the result types for the edge parameters
"""
src = np.linspace(-1, 1, 1000)
ref = src * 0.5
percentiles = np.linspace(0, 100, 100)
perc_src = ml_percentile(src, percentiles)
perc_ref = ml_percentile(ref, percentiles)
a, b, c = derive_edge_parameters(src=src,
ref=ref,
perc_src=perc_src,
perc_ref=perc_ref)
assert (type(a) is tuple) & (type(b) is tuple) & (type(c) is np.ndarray)
def test_ml_percentile():
"""
Test the percentile implementation that is used in Matlab.
"""
arr1 = np.array([1, 1, 1, 2, 2, 2, 5, 5, 6, 10, 10, 10, 10])
percentiles = [0, 5, 10, 20, 30, 40, 50, 60, 70, 80, 90, 95, 100]
perc_should = [1.0, 1.0, 1.0, 1.1, 2.0, 2.0, 5.0, 5.3, 8.4, 10., 10., 10.,
10.]
perc = ml_percentile(arr1, percentiles)
nptest.assert_almost_equal(perc, perc_should)
def test_ml_percentile():
"""
Test the percentile implementation that is used in Matlab.
"""
arr1 = np.array([1, 1, 1, 2, 2, 2, 5, 5, 6, 10, 10, 10, 10])
percentiles = [0, 5, 10, 20, 30, 40, 50, 60, 70, 80, 90, 95, 100]
perc_should = [1.0, 1.0, 1.0, 1.1, 2.0, 2.0, 5.0, 5.3, 8.4, 10., 10., 10.,
10.]
perc = ml_percentile(arr1, percentiles)
nptest.assert_almost_equal(perc, perc_should)
def test_scale_edges():
"""
test that the edge values decrease to match a timeseries with smaller values
"""
scaled = np.linspace(-1, 1, 1000)
src = np.linspace(-1, 1, 1000)
ref = scaled * 0.5
percentiles = np.linspace(0, 100, 100)
perc_src = ml_percentile(src, percentiles)
perc_ref = ml_percentile(ref, percentiles)
edge_scaled = scale_edges(scaled=scaled,
src=src,
ref=ref,
perc_src=perc_src,
perc_ref=perc_ref)
test_low = np.abs(edge_scaled[:9]) < np.abs(src[:9])
test_high = np.abs(edge_scaled[990:]) < np.abs(src[990:])
assert np.all(test_low) and np.all(test_high)
def test_interp_unique():
"""
test iterative filling of array
"""
arr1 = np.array([1, 1, 1, 2, 2, 2, 5, 5, 6, 10, 10, 10, 10])
percentiles = [0, 5, 10, 20, 30, 40, 50, 60, 70, 80, 90, 95, 100]
p = ml_percentile(arr1, percentiles)
src_perc = interp_uniq(p)
assert len(p) == len(src_perc)
nptest.assert_almost_equal(src_perc, [1., 1.025, 1.05, 1.1, 1.55, 3.275,
5., 5.3, 8.4, 9.2, 9.6, 9.8, 10.])
def test_interp_unique():
"""
test iterative filling of array
"""
arr1 = np.array([1, 1, 1, 2, 2, 2, 5, 5, 6, 10, 10, 10, 10])
percentiles = [0, 5, 10, 20, 30, 40, 50, 60, 70, 80, 90, 95, 100]
p = ml_percentile(arr1, percentiles)
src_perc = interp_uniq(p)
assert len(p) == len(src_perc)
nptest.assert_almost_equal(src_perc, [1., 1.025, 1.05, 1.1, 1.55, 3.275,
5., 5.3, 8.4, 9.2, 9.6, 9.8, 10.])
def test_unique_percentile_interpolation():
"""
test generation of unique percentile values
by interpolation or order k
"""
arr1 = np.array([1, 1, 1, 2, 2, 2, 5, 5, 6, 10, 10, 10, 10])
percentiles = [0, 5, 10, 20, 30, 40, 50, 60, 70, 80, 90, 95, 100]
p = ml_percentile(arr1, percentiles)
src_perc = unique_percentiles_interpolate(p, percentiles=percentiles)
assert len(p) == len(src_perc)
nptest.assert_almost_equal(src_perc, [
1., 1.025, 1.05, 1.1, 2., 3.5, 5., 5.3, 8.4, 8.93333333, 9.46666667,
9.73333333, 10.
])
def test_unique_percentile_interpolation():
"""
test generation of unique percentile values
by interpolation or order k
"""
arr1 = np.array([1, 1, 1, 2, 2, 2, 5, 5, 6, 10, 10, 10, 10])
percentiles = [0, 5, 10, 20, 30, 40, 50, 60, 70, 80, 90, 95, 100]
p = ml_percentile(arr1, percentiles)
src_perc = unique_percentiles_interpolate(p,
percentiles=percentiles)
assert len(p) == len(src_perc)
nptest.assert_almost_equal(src_perc, [1., 1.025, 1.05, 1.1,
2., 3.5, 5., 5.3,
8.4, 8.93333333, 9.46666667, 9.73333333, 10.])
def test_unique_percentile_beta():
"""
test generation of unique percentile values
by fitting CDF of a beta distribution
"""
arr1 = np.array([1, 1, 1, 2, 2, 2, 5, 5, 6, 10, 10, 10, 10])
percentiles = [0, 5, 10, 20, 30, 40, 50, 60, 70, 80, 90, 95, 100]
p = ml_percentile(arr1, percentiles)
src_perc = unique_percentiles_beta(p,
percentiles=percentiles)
assert len(p) == len(src_perc)
nptest.assert_almost_equal(src_perc, [1., 1.00013305, 1.00371443, 1.08957949,
1.50096583, 2.50963215, 4.18025716, 6.24205978,
8.16856852, 9.45324093, 9.94854144, 9.99597975, 10.],
decimal=5)
def test_unique_percentile_beta():
"""
test generation of unique percentile values
by fitting CDF of a beta distribution
"""
arr1 = np.array([1, 1, 1, 2, 2, 2, 5, 5, 6, 10, 10, 10, 10])
percentiles = [0, 5, 10, 20, 30, 40, 50, 60, 70, 80, 90, 95, 100]
p = ml_percentile(arr1, percentiles)
src_perc = unique_percentiles_beta(p, percentiles=percentiles)
assert len(p) == len(src_perc)
nptest.assert_almost_equal(src_perc, [
1., 1.00013305, 1.00371443, 1.08957949, 1.50096583, 2.50963215,
4.18025716, 6.24205978, 8.16856852, 9.45324093, 9.94854144, 9.99597975,
10.
],
decimal=5)
def cdf_beta_match(src,
ref,
minobs=20,
lin_edge_scaling=True,
nbins=100,
**kwargs):
"""
takes the source timeseries, fits a beta distribution through its CDF and
finds unique percentile values corresponding to the number of bins used.
The size of bins is by default dynamically increased in case too few
observations (less than 20) are in a bin, leading to overfitting. Based on
Moesinger et al. (2020).
These values are used to scale the source to the reference by linear
interpolation between each pair of bin edges.
Uses the edge values linear scaling method described in Moesinger et
al. (2020) by default.
Parameters
----------
src: numpy.array
input dataset which will be scaled
ref: numpy.array
src will be scaled to this dataset
minobs : int
Minimum desired number of observations in a bin.
nbins: int, optional
Number of bins to use for estimation of the CDF
** kwargs: dict
keywords to be passed onto the gen_cdf_match() function
Returns
-------
CDF matched values: numpy.array
dataset src with CDF as ref
"""
percentiles = np.linspace(0, 100, nbins)
if minobs is not None:
percentiles = utils.resize_percentiles(src, percentiles, minobs)
# match the two arrays
if len(src) != len(ref):
max_obs = max(len(src), len(ref))
d_perc = np.arange(max_obs, dtype="float") / (max_obs - 1) * 100
if len(src) < len(ref):
src = utils.ml_percentile(src, d_perc)
else:
ref = utils.ml_percentile(ref, d_perc)
# calculate percentiles using matlab method
perc_src = utils.ml_percentile(src, percentiles)
perc_ref = utils.ml_percentile(ref, percentiles)
# fit beta distributions through the source percentiles
if np.unique(perc_src).size == 1:
warn(
"There is only one percentile value on which the scaling is based")
else:
perc_src = utils.unique_percentiles_beta(perc_src,
percentiles=percentiles)
return gen_cdf_match(
src,
perc_src,
perc_ref,
lin_edge_scaling=lin_edge_scaling,
ref=ref,
**kwargs,
)