1728 lines
62 KiB
Python
1728 lines
62 KiB
Python
"""
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fitpack --- curve and surface fitting with splines
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fitpack is based on a collection of Fortran routines DIERCKX
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by P. Dierckx (see http://www.netlib.org/dierckx/) transformed
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to double routines by Pearu Peterson.
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"""
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# Created by Pearu Peterson, June,August 2003
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from __future__ import division, print_function, absolute_import
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__all__ = [
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'UnivariateSpline',
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'InterpolatedUnivariateSpline',
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'LSQUnivariateSpline',
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'BivariateSpline',
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'LSQBivariateSpline',
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'SmoothBivariateSpline',
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'LSQSphereBivariateSpline',
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'SmoothSphereBivariateSpline',
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'RectBivariateSpline',
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'RectSphereBivariateSpline']
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import warnings
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from numpy import zeros, concatenate, ravel, diff, array, ones
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import numpy as np
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from . import fitpack
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from . import dfitpack
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# ############### Univariate spline ####################
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_curfit_messages = {1: """
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The required storage space exceeds the available storage space, as
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specified by the parameter nest: nest too small. If nest is already
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large (say nest > m/2), it may also indicate that s is too small.
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The approximation returned is the weighted least-squares spline
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according to the knots t[0],t[1],...,t[n-1]. (n=nest) the parameter fp
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gives the corresponding weighted sum of squared residuals (fp>s).
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""",
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2: """
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A theoretically impossible result was found during the iteration
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process for finding a smoothing spline with fp = s: s too small.
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There is an approximation returned but the corresponding weighted sum
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of squared residuals does not satisfy the condition abs(fp-s)/s < tol.""",
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3: """
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The maximal number of iterations maxit (set to 20 by the program)
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allowed for finding a smoothing spline with fp=s has been reached: s
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too small.
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There is an approximation returned but the corresponding weighted sum
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of squared residuals does not satisfy the condition abs(fp-s)/s < tol.""",
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10: """
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Error on entry, no approximation returned. The following conditions
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must hold:
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xb<=x[0]<x[1]<...<x[m-1]<=xe, w[i]>0, i=0..m-1
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if iopt=-1:
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xb<t[k+1]<t[k+2]<...<t[n-k-2]<xe"""
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}
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# UnivariateSpline, ext parameter can be an int or a string
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_extrap_modes = {0: 0, 'extrapolate': 0,
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1: 1, 'zeros': 1,
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2: 2, 'raise': 2,
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3: 3, 'const': 3}
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class UnivariateSpline(object):
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"""
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One-dimensional smoothing spline fit to a given set of data points.
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Fits a spline y = spl(x) of degree `k` to the provided `x`, `y` data. `s`
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specifies the number of knots by specifying a smoothing condition.
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Parameters
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----------
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x : (N,) array_like
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1-D array of independent input data. Must be increasing;
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must be strictly increasing if `s` is 0.
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y : (N,) array_like
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1-D array of dependent input data, of the same length as `x`.
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w : (N,) array_like, optional
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Weights for spline fitting. Must be positive. If None (default),
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weights are all equal.
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bbox : (2,) array_like, optional
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2-sequence specifying the boundary of the approximation interval. If
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None (default), ``bbox=[x[0], x[-1]]``.
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k : int, optional
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Degree of the smoothing spline. Must be <= 5.
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Default is k=3, a cubic spline.
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s : float or None, optional
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Positive smoothing factor used to choose the number of knots. Number
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of knots will be increased until the smoothing condition is satisfied::
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sum((w[i] * (y[i]-spl(x[i])))**2, axis=0) <= s
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If None (default), ``s = len(w)`` which should be a good value if
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``1/w[i]`` is an estimate of the standard deviation of ``y[i]``.
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If 0, spline will interpolate through all data points.
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ext : int or str, optional
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Controls the extrapolation mode for elements
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not in the interval defined by the knot sequence.
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* if ext=0 or 'extrapolate', return the extrapolated value.
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* if ext=1 or 'zeros', return 0
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* if ext=2 or 'raise', raise a ValueError
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* if ext=3 of 'const', return the boundary value.
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The default value is 0.
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check_finite : bool, optional
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Whether to check that the input arrays contain only finite numbers.
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Disabling may give a performance gain, but may result in problems
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(crashes, non-termination or non-sensical results) if the inputs
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do contain infinities or NaNs.
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Default is False.
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See Also
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--------
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InterpolatedUnivariateSpline : Subclass with smoothing forced to 0
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LSQUnivariateSpline : Subclass in which knots are user-selected instead of
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being set by smoothing condition
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splrep : An older, non object-oriented wrapping of FITPACK
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splev, sproot, splint, spalde
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BivariateSpline : A similar class for two-dimensional spline interpolation
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Notes
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-----
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The number of data points must be larger than the spline degree `k`.
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**NaN handling**: If the input arrays contain ``nan`` values, the result
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is not useful, since the underlying spline fitting routines cannot deal
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with ``nan`` . A workaround is to use zero weights for not-a-number
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data points:
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>>> from scipy.interpolate import UnivariateSpline
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>>> x, y = np.array([1, 2, 3, 4]), np.array([1, np.nan, 3, 4])
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>>> w = np.isnan(y)
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>>> y[w] = 0.
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>>> spl = UnivariateSpline(x, y, w=~w)
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Notice the need to replace a ``nan`` by a numerical value (precise value
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does not matter as long as the corresponding weight is zero.)
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Examples
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--------
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>>> import matplotlib.pyplot as plt
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>>> from scipy.interpolate import UnivariateSpline
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>>> x = np.linspace(-3, 3, 50)
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>>> y = np.exp(-x**2) + 0.1 * np.random.randn(50)
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>>> plt.plot(x, y, 'ro', ms=5)
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Use the default value for the smoothing parameter:
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>>> spl = UnivariateSpline(x, y)
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>>> xs = np.linspace(-3, 3, 1000)
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>>> plt.plot(xs, spl(xs), 'g', lw=3)
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Manually change the amount of smoothing:
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>>> spl.set_smoothing_factor(0.5)
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>>> plt.plot(xs, spl(xs), 'b', lw=3)
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>>> plt.show()
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"""
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def __init__(self, x, y, w=None, bbox=[None]*2, k=3, s=None,
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ext=0, check_finite=False):
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if check_finite:
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w_finite = np.isfinite(w).all() if w is not None else True
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if (not np.isfinite(x).all() or not np.isfinite(y).all() or
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not w_finite):
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raise ValueError("x and y array must not contain "
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"NaNs or infs.")
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if s is None or s > 0:
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if not np.all(diff(x) >= 0.0):
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raise ValueError("x must be increasing if s > 0")
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else:
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if not np.all(diff(x) > 0.0):
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raise ValueError("x must be strictly increasing if s = 0")
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# _data == x,y,w,xb,xe,k,s,n,t,c,fp,fpint,nrdata,ier
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try:
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self.ext = _extrap_modes[ext]
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except KeyError:
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raise ValueError("Unknown extrapolation mode %s." % ext)
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data = dfitpack.fpcurf0(x, y, k, w=w, xb=bbox[0],
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xe=bbox[1], s=s)
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if data[-1] == 1:
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# nest too small, setting to maximum bound
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data = self._reset_nest(data)
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self._data = data
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self._reset_class()
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@classmethod
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def _from_tck(cls, tck, ext=0):
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"""Construct a spline object from given tck"""
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self = cls.__new__(cls)
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t, c, k = tck
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self._eval_args = tck
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# _data == x,y,w,xb,xe,k,s,n,t,c,fp,fpint,nrdata,ier
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self._data = (None, None, None, None, None, k, None, len(t), t,
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c, None, None, None, None)
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self.ext = ext
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return self
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def _reset_class(self):
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data = self._data
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n, t, c, k, ier = data[7], data[8], data[9], data[5], data[-1]
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self._eval_args = t[:n], c[:n], k
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if ier == 0:
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# the spline returned has a residual sum of squares fp
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# such that abs(fp-s)/s <= tol with tol a relative
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# tolerance set to 0.001 by the program
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pass
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elif ier == -1:
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# the spline returned is an interpolating spline
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self._set_class(InterpolatedUnivariateSpline)
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elif ier == -2:
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# the spline returned is the weighted least-squares
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# polynomial of degree k. In this extreme case fp gives
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# the upper bound fp0 for the smoothing factor s.
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self._set_class(LSQUnivariateSpline)
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else:
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# error
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if ier == 1:
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self._set_class(LSQUnivariateSpline)
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message = _curfit_messages.get(ier, 'ier=%s' % (ier))
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warnings.warn(message)
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def _set_class(self, cls):
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self._spline_class = cls
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if self.__class__ in (UnivariateSpline, InterpolatedUnivariateSpline,
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LSQUnivariateSpline):
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self.__class__ = cls
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else:
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# It's an unknown subclass -- don't change class. cf. #731
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pass
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def _reset_nest(self, data, nest=None):
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n = data[10]
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if nest is None:
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k, m = data[5], len(data[0])
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nest = m+k+1 # this is the maximum bound for nest
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else:
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if not n <= nest:
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raise ValueError("`nest` can only be increased")
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t, c, fpint, nrdata = [np.resize(data[j], nest) for j in
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[8, 9, 11, 12]]
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args = data[:8] + (t, c, n, fpint, nrdata, data[13])
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data = dfitpack.fpcurf1(*args)
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return data
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def set_smoothing_factor(self, s):
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""" Continue spline computation with the given smoothing
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factor s and with the knots found at the last call.
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This routine modifies the spline in place.
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"""
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data = self._data
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if data[6] == -1:
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warnings.warn('smoothing factor unchanged for'
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'LSQ spline with fixed knots')
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return
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args = data[:6] + (s,) + data[7:]
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data = dfitpack.fpcurf1(*args)
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if data[-1] == 1:
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# nest too small, setting to maximum bound
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data = self._reset_nest(data)
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self._data = data
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self._reset_class()
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def __call__(self, x, nu=0, ext=None):
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"""
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Evaluate spline (or its nu-th derivative) at positions x.
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Parameters
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----------
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x : array_like
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A 1-D array of points at which to return the value of the smoothed
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spline or its derivatives. Note: x can be unordered but the
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evaluation is more efficient if x is (partially) ordered.
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nu : int
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The order of derivative of the spline to compute.
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ext : int
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Controls the value returned for elements of ``x`` not in the
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interval defined by the knot sequence.
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* if ext=0 or 'extrapolate', return the extrapolated value.
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* if ext=1 or 'zeros', return 0
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* if ext=2 or 'raise', raise a ValueError
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* if ext=3 or 'const', return the boundary value.
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The default value is 0, passed from the initialization of
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UnivariateSpline.
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"""
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x = np.asarray(x)
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# empty input yields empty output
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if x.size == 0:
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return array([])
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# if nu is None:
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# return dfitpack.splev(*(self._eval_args+(x,)))
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# return dfitpack.splder(nu=nu,*(self._eval_args+(x,)))
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if ext is None:
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ext = self.ext
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else:
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try:
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ext = _extrap_modes[ext]
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except KeyError:
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raise ValueError("Unknown extrapolation mode %s." % ext)
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return fitpack.splev(x, self._eval_args, der=nu, ext=ext)
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def get_knots(self):
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""" Return positions of interior knots of the spline.
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Internally, the knot vector contains ``2*k`` additional boundary knots.
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"""
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data = self._data
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k, n = data[5], data[7]
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return data[8][k:n-k]
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def get_coeffs(self):
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"""Return spline coefficients."""
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data = self._data
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k, n = data[5], data[7]
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return data[9][:n-k-1]
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def get_residual(self):
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"""Return weighted sum of squared residuals of the spline approximation.
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This is equivalent to::
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sum((w[i] * (y[i]-spl(x[i])))**2, axis=0)
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"""
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return self._data[10]
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def integral(self, a, b):
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""" Return definite integral of the spline between two given points.
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Parameters
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----------
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a : float
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Lower limit of integration.
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b : float
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Upper limit of integration.
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Returns
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-------
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integral : float
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The value of the definite integral of the spline between limits.
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Examples
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--------
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>>> from scipy.interpolate import UnivariateSpline
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>>> x = np.linspace(0, 3, 11)
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>>> y = x**2
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>>> spl = UnivariateSpline(x, y)
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>>> spl.integral(0, 3)
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9.0
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which agrees with :math:`\\int x^2 dx = x^3 / 3` between the limits
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of 0 and 3.
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A caveat is that this routine assumes the spline to be zero outside of
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the data limits:
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>>> spl.integral(-1, 4)
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9.0
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>>> spl.integral(-1, 0)
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0.0
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"""
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return dfitpack.splint(*(self._eval_args+(a, b)))
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def derivatives(self, x):
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""" Return all derivatives of the spline at the point x.
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Parameters
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----------
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x : float
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The point to evaluate the derivatives at.
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Returns
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-------
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der : ndarray, shape(k+1,)
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Derivatives of the orders 0 to k.
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Examples
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--------
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>>> from scipy.interpolate import UnivariateSpline
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>>> x = np.linspace(0, 3, 11)
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>>> y = x**2
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>>> spl = UnivariateSpline(x, y)
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>>> spl.derivatives(1.5)
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array([2.25, 3.0, 2.0, 0])
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"""
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d, ier = dfitpack.spalde(*(self._eval_args+(x,)))
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if not ier == 0:
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raise ValueError("Error code returned by spalde: %s" % ier)
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return d
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def roots(self):
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""" Return the zeros of the spline.
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Restriction: only cubic splines are supported by fitpack.
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"""
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k = self._data[5]
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if k == 3:
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z, m, ier = dfitpack.sproot(*self._eval_args[:2])
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if not ier == 0:
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raise ValueError("Error code returned by spalde: %s" % ier)
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return z[:m]
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raise NotImplementedError('finding roots unsupported for '
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'non-cubic splines')
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def derivative(self, n=1):
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"""
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Construct a new spline representing the derivative of this spline.
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Parameters
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----------
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n : int, optional
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Order of derivative to evaluate. Default: 1
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Returns
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-------
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spline : UnivariateSpline
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Spline of order k2=k-n representing the derivative of this
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spline.
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See Also
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--------
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splder, antiderivative
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Notes
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-----
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.. versionadded:: 0.13.0
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Examples
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--------
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This can be used for finding maxima of a curve:
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>>> from scipy.interpolate import UnivariateSpline
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>>> x = np.linspace(0, 10, 70)
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>>> y = np.sin(x)
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>>> spl = UnivariateSpline(x, y, k=4, s=0)
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Now, differentiate the spline and find the zeros of the
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derivative. (NB: `sproot` only works for order 3 splines, so we
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fit an order 4 spline):
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>>> spl.derivative().roots() / np.pi
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array([ 0.50000001, 1.5 , 2.49999998])
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This agrees well with roots :math:`\\pi/2 + n\\pi` of
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:math:`\\cos(x) = \\sin'(x)`.
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"""
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tck = fitpack.splder(self._eval_args, n)
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# if self.ext is 'const', derivative.ext will be 'zeros'
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ext = 1 if self.ext == 3 else self.ext
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return UnivariateSpline._from_tck(tck, ext=ext)
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def antiderivative(self, n=1):
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"""
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Construct a new spline representing the antiderivative of this spline.
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Parameters
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----------
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n : int, optional
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Order of antiderivative to evaluate. Default: 1
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Returns
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-------
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spline : UnivariateSpline
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Spline of order k2=k+n representing the antiderivative of this
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spline.
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Notes
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-----
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.. versionadded:: 0.13.0
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See Also
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--------
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splantider, derivative
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Examples
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--------
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>>> from scipy.interpolate import UnivariateSpline
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>>> x = np.linspace(0, np.pi/2, 70)
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>>> y = 1 / np.sqrt(1 - 0.8*np.sin(x)**2)
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>>> spl = UnivariateSpline(x, y, s=0)
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The derivative is the inverse operation of the antiderivative,
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although some floating point error accumulates:
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>>> spl(1.7), spl.antiderivative().derivative()(1.7)
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(array(2.1565429877197317), array(2.1565429877201865))
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Antiderivative can be used to evaluate definite integrals:
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>>> ispl = spl.antiderivative()
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>>> ispl(np.pi/2) - ispl(0)
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2.2572053588768486
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|
This is indeed an approximation to the complete elliptic integral
|
|
:math:`K(m) = \\int_0^{\\pi/2} [1 - m\\sin^2 x]^{-1/2} dx`:
|
|
|
|
>>> from scipy.special import ellipk
|
|
>>> ellipk(0.8)
|
|
2.2572053268208538
|
|
|
|
"""
|
|
tck = fitpack.splantider(self._eval_args, n)
|
|
return UnivariateSpline._from_tck(tck, self.ext)
|
|
|
|
|
|
class InterpolatedUnivariateSpline(UnivariateSpline):
|
|
"""
|
|
One-dimensional interpolating spline for a given set of data points.
|
|
|
|
Fits a spline y = spl(x) of degree `k` to the provided `x`, `y` data.
|
|
Spline function passes through all provided points. Equivalent to
|
|
`UnivariateSpline` with s=0.
|
|
|
|
Parameters
|
|
----------
|
|
x : (N,) array_like
|
|
Input dimension of data points -- must be strictly increasing
|
|
y : (N,) array_like
|
|
input dimension of data points
|
|
w : (N,) array_like, optional
|
|
Weights for spline fitting. Must be positive. If None (default),
|
|
weights are all equal.
|
|
bbox : (2,) array_like, optional
|
|
2-sequence specifying the boundary of the approximation interval. If
|
|
None (default), ``bbox=[x[0], x[-1]]``.
|
|
k : int, optional
|
|
Degree of the smoothing spline. Must be 1 <= `k` <= 5.
|
|
ext : int or str, optional
|
|
Controls the extrapolation mode for elements
|
|
not in the interval defined by the knot sequence.
|
|
|
|
* if ext=0 or 'extrapolate', return the extrapolated value.
|
|
* if ext=1 or 'zeros', return 0
|
|
* if ext=2 or 'raise', raise a ValueError
|
|
* if ext=3 of 'const', return the boundary value.
|
|
|
|
The default value is 0.
|
|
|
|
check_finite : bool, optional
|
|
Whether to check that the input arrays contain only finite numbers.
|
|
Disabling may give a performance gain, but may result in problems
|
|
(crashes, non-termination or non-sensical results) if the inputs
|
|
do contain infinities or NaNs.
|
|
Default is False.
|
|
|
|
See Also
|
|
--------
|
|
UnivariateSpline : Superclass -- allows knots to be selected by a
|
|
smoothing condition
|
|
LSQUnivariateSpline : spline for which knots are user-selected
|
|
splrep : An older, non object-oriented wrapping of FITPACK
|
|
splev, sproot, splint, spalde
|
|
BivariateSpline : A similar class for two-dimensional spline interpolation
|
|
|
|
Notes
|
|
-----
|
|
The number of data points must be larger than the spline degree `k`.
|
|
|
|
Examples
|
|
--------
|
|
>>> import matplotlib.pyplot as plt
|
|
>>> from scipy.interpolate import InterpolatedUnivariateSpline
|
|
>>> x = np.linspace(-3, 3, 50)
|
|
>>> y = np.exp(-x**2) + 0.1 * np.random.randn(50)
|
|
>>> spl = InterpolatedUnivariateSpline(x, y)
|
|
>>> plt.plot(x, y, 'ro', ms=5)
|
|
>>> xs = np.linspace(-3, 3, 1000)
|
|
>>> plt.plot(xs, spl(xs), 'g', lw=3, alpha=0.7)
|
|
>>> plt.show()
|
|
|
|
Notice that the ``spl(x)`` interpolates `y`:
|
|
|
|
>>> spl.get_residual()
|
|
0.0
|
|
|
|
"""
|
|
def __init__(self, x, y, w=None, bbox=[None]*2, k=3,
|
|
ext=0, check_finite=False):
|
|
|
|
if check_finite:
|
|
w_finite = np.isfinite(w).all() if w is not None else True
|
|
if (not np.isfinite(x).all() or not np.isfinite(y).all() or
|
|
not w_finite):
|
|
raise ValueError("Input must not contain NaNs or infs.")
|
|
if not np.all(diff(x) > 0.0):
|
|
raise ValueError('x must be strictly increasing')
|
|
|
|
# _data == x,y,w,xb,xe,k,s,n,t,c,fp,fpint,nrdata,ier
|
|
self._data = dfitpack.fpcurf0(x, y, k, w=w, xb=bbox[0],
|
|
xe=bbox[1], s=0)
|
|
self._reset_class()
|
|
|
|
try:
|
|
self.ext = _extrap_modes[ext]
|
|
except KeyError:
|
|
raise ValueError("Unknown extrapolation mode %s." % ext)
|
|
|
|
|
|
_fpchec_error_string = """The input parameters have been rejected by fpchec. \
|
|
This means that at least one of the following conditions is violated:
|
|
|
|
1) k+1 <= n-k-1 <= m
|
|
2) t(1) <= t(2) <= ... <= t(k+1)
|
|
t(n-k) <= t(n-k+1) <= ... <= t(n)
|
|
3) t(k+1) < t(k+2) < ... < t(n-k)
|
|
4) t(k+1) <= x(i) <= t(n-k)
|
|
5) The conditions specified by Schoenberg and Whitney must hold
|
|
for at least one subset of data points, i.e., there must be a
|
|
subset of data points y(j) such that
|
|
t(j) < y(j) < t(j+k+1), j=1,2,...,n-k-1
|
|
"""
|
|
|
|
|
|
class LSQUnivariateSpline(UnivariateSpline):
|
|
"""
|
|
One-dimensional spline with explicit internal knots.
|
|
|
|
Fits a spline y = spl(x) of degree `k` to the provided `x`, `y` data. `t`
|
|
specifies the internal knots of the spline
|
|
|
|
Parameters
|
|
----------
|
|
x : (N,) array_like
|
|
Input dimension of data points -- must be increasing
|
|
y : (N,) array_like
|
|
Input dimension of data points
|
|
t : (M,) array_like
|
|
interior knots of the spline. Must be in ascending order and::
|
|
|
|
bbox[0] < t[0] < ... < t[-1] < bbox[-1]
|
|
|
|
w : (N,) array_like, optional
|
|
weights for spline fitting. Must be positive. If None (default),
|
|
weights are all equal.
|
|
bbox : (2,) array_like, optional
|
|
2-sequence specifying the boundary of the approximation interval. If
|
|
None (default), ``bbox = [x[0], x[-1]]``.
|
|
k : int, optional
|
|
Degree of the smoothing spline. Must be 1 <= `k` <= 5.
|
|
Default is k=3, a cubic spline.
|
|
ext : int or str, optional
|
|
Controls the extrapolation mode for elements
|
|
not in the interval defined by the knot sequence.
|
|
|
|
* if ext=0 or 'extrapolate', return the extrapolated value.
|
|
* if ext=1 or 'zeros', return 0
|
|
* if ext=2 or 'raise', raise a ValueError
|
|
* if ext=3 of 'const', return the boundary value.
|
|
|
|
The default value is 0.
|
|
|
|
check_finite : bool, optional
|
|
Whether to check that the input arrays contain only finite numbers.
|
|
Disabling may give a performance gain, but may result in problems
|
|
(crashes, non-termination or non-sensical results) if the inputs
|
|
do contain infinities or NaNs.
|
|
Default is False.
|
|
|
|
Raises
|
|
------
|
|
ValueError
|
|
If the interior knots do not satisfy the Schoenberg-Whitney conditions
|
|
|
|
See Also
|
|
--------
|
|
UnivariateSpline : Superclass -- knots are specified by setting a
|
|
smoothing condition
|
|
InterpolatedUnivariateSpline : spline passing through all points
|
|
splrep : An older, non object-oriented wrapping of FITPACK
|
|
splev, sproot, splint, spalde
|
|
BivariateSpline : A similar class for two-dimensional spline interpolation
|
|
|
|
Notes
|
|
-----
|
|
The number of data points must be larger than the spline degree `k`.
|
|
|
|
Knots `t` must satisfy the Schoenberg-Whitney conditions,
|
|
i.e., there must be a subset of data points ``x[j]`` such that
|
|
``t[j] < x[j] < t[j+k+1]``, for ``j=0, 1,...,n-k-2``.
|
|
|
|
Examples
|
|
--------
|
|
>>> from scipy.interpolate import LSQUnivariateSpline, UnivariateSpline
|
|
>>> import matplotlib.pyplot as plt
|
|
>>> x = np.linspace(-3, 3, 50)
|
|
>>> y = np.exp(-x**2) + 0.1 * np.random.randn(50)
|
|
|
|
Fit a smoothing spline with a pre-defined internal knots:
|
|
|
|
>>> t = [-1, 0, 1]
|
|
>>> spl = LSQUnivariateSpline(x, y, t)
|
|
|
|
>>> xs = np.linspace(-3, 3, 1000)
|
|
>>> plt.plot(x, y, 'ro', ms=5)
|
|
>>> plt.plot(xs, spl(xs), 'g-', lw=3)
|
|
>>> plt.show()
|
|
|
|
Check the knot vector:
|
|
|
|
>>> spl.get_knots()
|
|
array([-3., -1., 0., 1., 3.])
|
|
|
|
Constructing lsq spline using the knots from another spline:
|
|
|
|
>>> x = np.arange(10)
|
|
>>> s = UnivariateSpline(x, x, s=0)
|
|
>>> s.get_knots()
|
|
array([ 0., 2., 3., 4., 5., 6., 7., 9.])
|
|
>>> knt = s.get_knots()
|
|
>>> s1 = LSQUnivariateSpline(x, x, knt[1:-1]) # Chop 1st and last knot
|
|
>>> s1.get_knots()
|
|
array([ 0., 2., 3., 4., 5., 6., 7., 9.])
|
|
|
|
"""
|
|
|
|
def __init__(self, x, y, t, w=None, bbox=[None]*2, k=3,
|
|
ext=0, check_finite=False):
|
|
|
|
if check_finite:
|
|
w_finite = np.isfinite(w).all() if w is not None else True
|
|
if (not np.isfinite(x).all() or not np.isfinite(y).all() or
|
|
not w_finite or not np.isfinite(t).all()):
|
|
raise ValueError("Input(s) must not contain NaNs or infs.")
|
|
if not np.all(diff(x) >= 0.0):
|
|
raise ValueError('x must be increasing')
|
|
|
|
# _data == x,y,w,xb,xe,k,s,n,t,c,fp,fpint,nrdata,ier
|
|
xb = bbox[0]
|
|
xe = bbox[1]
|
|
if xb is None:
|
|
xb = x[0]
|
|
if xe is None:
|
|
xe = x[-1]
|
|
t = concatenate(([xb]*(k+1), t, [xe]*(k+1)))
|
|
n = len(t)
|
|
if not np.all(t[k+1:n-k]-t[k:n-k-1] > 0, axis=0):
|
|
raise ValueError('Interior knots t must satisfy '
|
|
'Schoenberg-Whitney conditions')
|
|
if not dfitpack.fpchec(x, t, k) == 0:
|
|
raise ValueError(_fpchec_error_string)
|
|
data = dfitpack.fpcurfm1(x, y, k, t, w=w, xb=xb, xe=xe)
|
|
self._data = data[:-3] + (None, None, data[-1])
|
|
self._reset_class()
|
|
|
|
try:
|
|
self.ext = _extrap_modes[ext]
|
|
except KeyError:
|
|
raise ValueError("Unknown extrapolation mode %s." % ext)
|
|
|
|
|
|
# ############### Bivariate spline ####################
|
|
|
|
class _BivariateSplineBase(object):
|
|
""" Base class for Bivariate spline s(x,y) interpolation on the rectangle
|
|
[xb,xe] x [yb, ye] calculated from a given set of data points
|
|
(x,y,z).
|
|
|
|
See Also
|
|
--------
|
|
bisplrep, bisplev : an older wrapping of FITPACK
|
|
BivariateSpline :
|
|
implementation of bivariate spline interpolation on a plane grid
|
|
SphereBivariateSpline :
|
|
implementation of bivariate spline interpolation on a spherical grid
|
|
"""
|
|
|
|
def get_residual(self):
|
|
""" Return weighted sum of squared residuals of the spline
|
|
approximation: sum ((w[i]*(z[i]-s(x[i],y[i])))**2,axis=0)
|
|
"""
|
|
return self.fp
|
|
|
|
def get_knots(self):
|
|
""" Return a tuple (tx,ty) where tx,ty contain knots positions
|
|
of the spline with respect to x-, y-variable, respectively.
|
|
The position of interior and additional knots are given as
|
|
t[k+1:-k-1] and t[:k+1]=b, t[-k-1:]=e, respectively.
|
|
"""
|
|
return self.tck[:2]
|
|
|
|
def get_coeffs(self):
|
|
""" Return spline coefficients."""
|
|
return self.tck[2]
|
|
|
|
def __call__(self, x, y, dx=0, dy=0, grid=True):
|
|
"""
|
|
Evaluate the spline or its derivatives at given positions.
|
|
|
|
Parameters
|
|
----------
|
|
x, y : array_like
|
|
Input coordinates.
|
|
|
|
If `grid` is False, evaluate the spline at points ``(x[i],
|
|
y[i]), i=0, ..., len(x)-1``. Standard Numpy broadcasting
|
|
is obeyed.
|
|
|
|
If `grid` is True: evaluate spline at the grid points
|
|
defined by the coordinate arrays x, y. The arrays must be
|
|
sorted to increasing order.
|
|
|
|
Note that the axis ordering is inverted relative to
|
|
the output of meshgrid.
|
|
dx : int
|
|
Order of x-derivative
|
|
|
|
.. versionadded:: 0.14.0
|
|
dy : int
|
|
Order of y-derivative
|
|
|
|
.. versionadded:: 0.14.0
|
|
grid : bool
|
|
Whether to evaluate the results on a grid spanned by the
|
|
input arrays, or at points specified by the input arrays.
|
|
|
|
.. versionadded:: 0.14.0
|
|
|
|
"""
|
|
x = np.asarray(x)
|
|
y = np.asarray(y)
|
|
|
|
tx, ty, c = self.tck[:3]
|
|
kx, ky = self.degrees
|
|
if grid:
|
|
if x.size == 0 or y.size == 0:
|
|
return np.zeros((x.size, y.size), dtype=self.tck[2].dtype)
|
|
|
|
if dx or dy:
|
|
z, ier = dfitpack.parder(tx, ty, c, kx, ky, dx, dy, x, y)
|
|
if not ier == 0:
|
|
raise ValueError("Error code returned by parder: %s" % ier)
|
|
else:
|
|
z, ier = dfitpack.bispev(tx, ty, c, kx, ky, x, y)
|
|
if not ier == 0:
|
|
raise ValueError("Error code returned by bispev: %s" % ier)
|
|
else:
|
|
# standard Numpy broadcasting
|
|
if x.shape != y.shape:
|
|
x, y = np.broadcast_arrays(x, y)
|
|
|
|
shape = x.shape
|
|
x = x.ravel()
|
|
y = y.ravel()
|
|
|
|
if x.size == 0 or y.size == 0:
|
|
return np.zeros(shape, dtype=self.tck[2].dtype)
|
|
|
|
if dx or dy:
|
|
z, ier = dfitpack.pardeu(tx, ty, c, kx, ky, dx, dy, x, y)
|
|
if not ier == 0:
|
|
raise ValueError("Error code returned by pardeu: %s" % ier)
|
|
else:
|
|
z, ier = dfitpack.bispeu(tx, ty, c, kx, ky, x, y)
|
|
if not ier == 0:
|
|
raise ValueError("Error code returned by bispeu: %s" % ier)
|
|
|
|
z = z.reshape(shape)
|
|
return z
|
|
|
|
|
|
_surfit_messages = {1: """
|
|
The required storage space exceeds the available storage space: nxest
|
|
or nyest too small, or s too small.
|
|
The weighted least-squares spline corresponds to the current set of
|
|
knots.""",
|
|
2: """
|
|
A theoretically impossible result was found during the iteration
|
|
process for finding a smoothing spline with fp = s: s too small or
|
|
badly chosen eps.
|
|
Weighted sum of squared residuals does not satisfy abs(fp-s)/s < tol.""",
|
|
3: """
|
|
the maximal number of iterations maxit (set to 20 by the program)
|
|
allowed for finding a smoothing spline with fp=s has been reached:
|
|
s too small.
|
|
Weighted sum of squared residuals does not satisfy abs(fp-s)/s < tol.""",
|
|
4: """
|
|
No more knots can be added because the number of b-spline coefficients
|
|
(nx-kx-1)*(ny-ky-1) already exceeds the number of data points m:
|
|
either s or m too small.
|
|
The weighted least-squares spline corresponds to the current set of
|
|
knots.""",
|
|
5: """
|
|
No more knots can be added because the additional knot would (quasi)
|
|
coincide with an old one: s too small or too large a weight to an
|
|
inaccurate data point.
|
|
The weighted least-squares spline corresponds to the current set of
|
|
knots.""",
|
|
10: """
|
|
Error on entry, no approximation returned. The following conditions
|
|
must hold:
|
|
xb<=x[i]<=xe, yb<=y[i]<=ye, w[i]>0, i=0..m-1
|
|
If iopt==-1, then
|
|
xb<tx[kx+1]<tx[kx+2]<...<tx[nx-kx-2]<xe
|
|
yb<ty[ky+1]<ty[ky+2]<...<ty[ny-ky-2]<ye""",
|
|
-3: """
|
|
The coefficients of the spline returned have been computed as the
|
|
minimal norm least-squares solution of a (numerically) rank deficient
|
|
system (deficiency=%i). If deficiency is large, the results may be
|
|
inaccurate. Deficiency may strongly depend on the value of eps."""
|
|
}
|
|
|
|
|
|
class BivariateSpline(_BivariateSplineBase):
|
|
"""
|
|
Base class for bivariate splines.
|
|
|
|
This describes a spline ``s(x, y)`` of degrees ``kx`` and ``ky`` on
|
|
the rectangle ``[xb, xe] * [yb, ye]`` calculated from a given set
|
|
of data points ``(x, y, z)``.
|
|
|
|
This class is meant to be subclassed, not instantiated directly.
|
|
To construct these splines, call either `SmoothBivariateSpline` or
|
|
`LSQBivariateSpline`.
|
|
|
|
See Also
|
|
--------
|
|
UnivariateSpline :
|
|
a similar class for univariate spline interpolation
|
|
SmoothBivariateSpline :
|
|
to create a BivariateSpline through the given points
|
|
LSQBivariateSpline :
|
|
to create a BivariateSpline using weighted least-squares fitting
|
|
RectSphereBivariateSpline
|
|
SmoothSphereBivariateSpline :
|
|
LSQSphereBivariateSpline
|
|
bisplrep : older wrapping of FITPACK
|
|
bisplev : older wrapping of FITPACK
|
|
"""
|
|
|
|
@classmethod
|
|
def _from_tck(cls, tck):
|
|
"""Construct a spline object from given tck and degree"""
|
|
self = cls.__new__(cls)
|
|
if len(tck) != 5:
|
|
raise ValueError("tck should be a 5 element tuple of tx,"
|
|
" ty, c, kx, ky")
|
|
self.tck = tck[:3]
|
|
self.degrees = tck[3:]
|
|
return self
|
|
|
|
def ev(self, xi, yi, dx=0, dy=0):
|
|
"""
|
|
Evaluate the spline at points
|
|
|
|
Returns the interpolated value at ``(xi[i], yi[i]),
|
|
i=0,...,len(xi)-1``.
|
|
|
|
Parameters
|
|
----------
|
|
xi, yi : array_like
|
|
Input coordinates. Standard Numpy broadcasting is obeyed.
|
|
dx : int, optional
|
|
Order of x-derivative
|
|
|
|
.. versionadded:: 0.14.0
|
|
dy : int, optional
|
|
Order of y-derivative
|
|
|
|
.. versionadded:: 0.14.0
|
|
"""
|
|
return self.__call__(xi, yi, dx=dx, dy=dy, grid=False)
|
|
|
|
def integral(self, xa, xb, ya, yb):
|
|
"""
|
|
Evaluate the integral of the spline over area [xa,xb] x [ya,yb].
|
|
|
|
Parameters
|
|
----------
|
|
xa, xb : float
|
|
The end-points of the x integration interval.
|
|
ya, yb : float
|
|
The end-points of the y integration interval.
|
|
|
|
Returns
|
|
-------
|
|
integ : float
|
|
The value of the resulting integral.
|
|
|
|
"""
|
|
tx, ty, c = self.tck[:3]
|
|
kx, ky = self.degrees
|
|
return dfitpack.dblint(tx, ty, c, kx, ky, xa, xb, ya, yb)
|
|
|
|
|
|
class SmoothBivariateSpline(BivariateSpline):
|
|
"""
|
|
Smooth bivariate spline approximation.
|
|
|
|
Parameters
|
|
----------
|
|
x, y, z : array_like
|
|
1-D sequences of data points (order is not important).
|
|
w : array_like, optional
|
|
Positive 1-D sequence of weights, of same length as `x`, `y` and `z`.
|
|
bbox : array_like, optional
|
|
Sequence of length 4 specifying the boundary of the rectangular
|
|
approximation domain. By default,
|
|
``bbox=[min(x,tx),max(x,tx), min(y,ty),max(y,ty)]``.
|
|
kx, ky : ints, optional
|
|
Degrees of the bivariate spline. Default is 3.
|
|
s : float, optional
|
|
Positive smoothing factor defined for estimation condition:
|
|
``sum((w[i]*(z[i]-s(x[i], y[i])))**2, axis=0) <= s``
|
|
Default ``s=len(w)`` which should be a good value if ``1/w[i]`` is an
|
|
estimate of the standard deviation of ``z[i]``.
|
|
eps : float, optional
|
|
A threshold for determining the effective rank of an over-determined
|
|
linear system of equations. `eps` should have a value between 0 and 1,
|
|
the default is 1e-16.
|
|
|
|
See Also
|
|
--------
|
|
bisplrep : an older wrapping of FITPACK
|
|
bisplev : an older wrapping of FITPACK
|
|
UnivariateSpline : a similar class for univariate spline interpolation
|
|
LSQUnivariateSpline : to create a BivariateSpline using weighted
|
|
|
|
Notes
|
|
-----
|
|
The length of `x`, `y` and `z` should be at least ``(kx+1) * (ky+1)``.
|
|
|
|
"""
|
|
|
|
def __init__(self, x, y, z, w=None, bbox=[None] * 4, kx=3, ky=3, s=None,
|
|
eps=None):
|
|
xb, xe, yb, ye = bbox
|
|
nx, tx, ny, ty, c, fp, wrk1, ier = dfitpack.surfit_smth(x, y, z, w,
|
|
xb, xe, yb,
|
|
ye, kx, ky,
|
|
s=s, eps=eps,
|
|
lwrk2=1)
|
|
if ier > 10: # lwrk2 was to small, re-run
|
|
nx, tx, ny, ty, c, fp, wrk1, ier = dfitpack.surfit_smth(x, y, z, w,
|
|
xb, xe, yb,
|
|
ye, kx, ky,
|
|
s=s,
|
|
eps=eps,
|
|
lwrk2=ier)
|
|
if ier in [0, -1, -2]: # normal return
|
|
pass
|
|
else:
|
|
message = _surfit_messages.get(ier, 'ier=%s' % (ier))
|
|
warnings.warn(message)
|
|
|
|
self.fp = fp
|
|
self.tck = tx[:nx], ty[:ny], c[:(nx-kx-1)*(ny-ky-1)]
|
|
self.degrees = kx, ky
|
|
|
|
|
|
class LSQBivariateSpline(BivariateSpline):
|
|
"""
|
|
Weighted least-squares bivariate spline approximation.
|
|
|
|
Parameters
|
|
----------
|
|
x, y, z : array_like
|
|
1-D sequences of data points (order is not important).
|
|
tx, ty : array_like
|
|
Strictly ordered 1-D sequences of knots coordinates.
|
|
w : array_like, optional
|
|
Positive 1-D array of weights, of the same length as `x`, `y` and `z`.
|
|
bbox : (4,) array_like, optional
|
|
Sequence of length 4 specifying the boundary of the rectangular
|
|
approximation domain. By default,
|
|
``bbox=[min(x,tx),max(x,tx), min(y,ty),max(y,ty)]``.
|
|
kx, ky : ints, optional
|
|
Degrees of the bivariate spline. Default is 3.
|
|
eps : float, optional
|
|
A threshold for determining the effective rank of an over-determined
|
|
linear system of equations. `eps` should have a value between 0 and 1,
|
|
the default is 1e-16.
|
|
|
|
See Also
|
|
--------
|
|
bisplrep : an older wrapping of FITPACK
|
|
bisplev : an older wrapping of FITPACK
|
|
UnivariateSpline : a similar class for univariate spline interpolation
|
|
SmoothBivariateSpline : create a smoothing BivariateSpline
|
|
|
|
Notes
|
|
-----
|
|
The length of `x`, `y` and `z` should be at least ``(kx+1) * (ky+1)``.
|
|
|
|
"""
|
|
|
|
def __init__(self, x, y, z, tx, ty, w=None, bbox=[None]*4, kx=3, ky=3,
|
|
eps=None):
|
|
nx = 2*kx+2+len(tx)
|
|
ny = 2*ky+2+len(ty)
|
|
tx1 = zeros((nx,), float)
|
|
ty1 = zeros((ny,), float)
|
|
tx1[kx+1:nx-kx-1] = tx
|
|
ty1[ky+1:ny-ky-1] = ty
|
|
|
|
xb, xe, yb, ye = bbox
|
|
tx1, ty1, c, fp, ier = dfitpack.surfit_lsq(x, y, z, tx1, ty1, w,
|
|
xb, xe, yb, ye,
|
|
kx, ky, eps, lwrk2=1)
|
|
if ier > 10:
|
|
tx1, ty1, c, fp, ier = dfitpack.surfit_lsq(x, y, z, tx1, ty1, w,
|
|
xb, xe, yb, ye,
|
|
kx, ky, eps, lwrk2=ier)
|
|
if ier in [0, -1, -2]: # normal return
|
|
pass
|
|
else:
|
|
if ier < -2:
|
|
deficiency = (nx-kx-1)*(ny-ky-1)+ier
|
|
message = _surfit_messages.get(-3) % (deficiency)
|
|
else:
|
|
message = _surfit_messages.get(ier, 'ier=%s' % (ier))
|
|
warnings.warn(message)
|
|
self.fp = fp
|
|
self.tck = tx1, ty1, c
|
|
self.degrees = kx, ky
|
|
|
|
|
|
class RectBivariateSpline(BivariateSpline):
|
|
"""
|
|
Bivariate spline approximation over a rectangular mesh.
|
|
|
|
Can be used for both smoothing and interpolating data.
|
|
|
|
Parameters
|
|
----------
|
|
x,y : array_like
|
|
1-D arrays of coordinates in strictly ascending order.
|
|
z : array_like
|
|
2-D array of data with shape (x.size,y.size).
|
|
bbox : array_like, optional
|
|
Sequence of length 4 specifying the boundary of the rectangular
|
|
approximation domain. By default,
|
|
``bbox=[min(x,tx),max(x,tx), min(y,ty),max(y,ty)]``.
|
|
kx, ky : ints, optional
|
|
Degrees of the bivariate spline. Default is 3.
|
|
s : float, optional
|
|
Positive smoothing factor defined for estimation condition:
|
|
``sum((w[i]*(z[i]-s(x[i], y[i])))**2, axis=0) <= s``
|
|
Default is ``s=0``, which is for interpolation.
|
|
|
|
See Also
|
|
--------
|
|
SmoothBivariateSpline : a smoothing bivariate spline for scattered data
|
|
bisplrep : an older wrapping of FITPACK
|
|
bisplev : an older wrapping of FITPACK
|
|
UnivariateSpline : a similar class for univariate spline interpolation
|
|
|
|
"""
|
|
|
|
def __init__(self, x, y, z, bbox=[None] * 4, kx=3, ky=3, s=0):
|
|
x, y = ravel(x), ravel(y)
|
|
if not np.all(diff(x) > 0.0):
|
|
raise ValueError('x must be strictly increasing')
|
|
if not np.all(diff(y) > 0.0):
|
|
raise ValueError('y must be strictly increasing')
|
|
if not ((x.min() == x[0]) and (x.max() == x[-1])):
|
|
raise ValueError('x must be strictly ascending')
|
|
if not ((y.min() == y[0]) and (y.max() == y[-1])):
|
|
raise ValueError('y must be strictly ascending')
|
|
if not x.size == z.shape[0]:
|
|
raise ValueError('x dimension of z must have same number of '
|
|
'elements as x')
|
|
if not y.size == z.shape[1]:
|
|
raise ValueError('y dimension of z must have same number of '
|
|
'elements as y')
|
|
z = ravel(z)
|
|
xb, xe, yb, ye = bbox
|
|
nx, tx, ny, ty, c, fp, ier = dfitpack.regrid_smth(x, y, z, xb, xe, yb,
|
|
ye, kx, ky, s)
|
|
|
|
if ier not in [0, -1, -2]:
|
|
msg = _surfit_messages.get(ier, 'ier=%s' % (ier))
|
|
raise ValueError(msg)
|
|
|
|
self.fp = fp
|
|
self.tck = tx[:nx], ty[:ny], c[:(nx - kx - 1) * (ny - ky - 1)]
|
|
self.degrees = kx, ky
|
|
|
|
|
|
_spherefit_messages = _surfit_messages.copy()
|
|
_spherefit_messages[10] = """
|
|
ERROR. On entry, the input data are controlled on validity. The following
|
|
restrictions must be satisfied:
|
|
-1<=iopt<=1, m>=2, ntest>=8 ,npest >=8, 0<eps<1,
|
|
0<=teta(i)<=pi, 0<=phi(i)<=2*pi, w(i)>0, i=1,...,m
|
|
lwrk1 >= 185+52*v+10*u+14*u*v+8*(u-1)*v**2+8*m
|
|
kwrk >= m+(ntest-7)*(npest-7)
|
|
if iopt=-1: 8<=nt<=ntest , 9<=np<=npest
|
|
0<tt(5)<tt(6)<...<tt(nt-4)<pi
|
|
0<tp(5)<tp(6)<...<tp(np-4)<2*pi
|
|
if iopt>=0: s>=0
|
|
if one of these conditions is found to be violated,control
|
|
is immediately repassed to the calling program. in that
|
|
case there is no approximation returned."""
|
|
_spherefit_messages[-3] = """
|
|
WARNING. The coefficients of the spline returned have been computed as the
|
|
minimal norm least-squares solution of a (numerically) rank
|
|
deficient system (deficiency=%i, rank=%i). Especially if the rank
|
|
deficiency, which is computed by 6+(nt-8)*(np-7)+ier, is large,
|
|
the results may be inaccurate. They could also seriously depend on
|
|
the value of eps."""
|
|
|
|
|
|
class SphereBivariateSpline(_BivariateSplineBase):
|
|
"""
|
|
Bivariate spline s(x,y) of degrees 3 on a sphere, calculated from a
|
|
given set of data points (theta,phi,r).
|
|
|
|
.. versionadded:: 0.11.0
|
|
|
|
See Also
|
|
--------
|
|
bisplrep, bisplev : an older wrapping of FITPACK
|
|
UnivariateSpline : a similar class for univariate spline interpolation
|
|
SmoothUnivariateSpline :
|
|
to create a BivariateSpline through the given points
|
|
LSQUnivariateSpline :
|
|
to create a BivariateSpline using weighted least-squares fitting
|
|
"""
|
|
|
|
def __call__(self, theta, phi, dtheta=0, dphi=0, grid=True):
|
|
"""
|
|
Evaluate the spline or its derivatives at given positions.
|
|
|
|
Parameters
|
|
----------
|
|
theta, phi : array_like
|
|
Input coordinates.
|
|
|
|
If `grid` is False, evaluate the spline at points
|
|
``(theta[i], phi[i]), i=0, ..., len(x)-1``. Standard
|
|
Numpy broadcasting is obeyed.
|
|
|
|
If `grid` is True: evaluate spline at the grid points
|
|
defined by the coordinate arrays theta, phi. The arrays
|
|
must be sorted to increasing order.
|
|
dtheta : int, optional
|
|
Order of theta-derivative
|
|
|
|
.. versionadded:: 0.14.0
|
|
dphi : int
|
|
Order of phi-derivative
|
|
|
|
.. versionadded:: 0.14.0
|
|
grid : bool
|
|
Whether to evaluate the results on a grid spanned by the
|
|
input arrays, or at points specified by the input arrays.
|
|
|
|
.. versionadded:: 0.14.0
|
|
|
|
"""
|
|
theta = np.asarray(theta)
|
|
phi = np.asarray(phi)
|
|
|
|
if theta.size > 0 and (theta.min() < 0. or theta.max() > np.pi):
|
|
raise ValueError("requested theta out of bounds.")
|
|
if phi.size > 0 and (phi.min() < 0. or phi.max() > 2. * np.pi):
|
|
raise ValueError("requested phi out of bounds.")
|
|
|
|
return _BivariateSplineBase.__call__(self, theta, phi,
|
|
dx=dtheta, dy=dphi, grid=grid)
|
|
|
|
def ev(self, theta, phi, dtheta=0, dphi=0):
|
|
"""
|
|
Evaluate the spline at points
|
|
|
|
Returns the interpolated value at ``(theta[i], phi[i]),
|
|
i=0,...,len(theta)-1``.
|
|
|
|
Parameters
|
|
----------
|
|
theta, phi : array_like
|
|
Input coordinates. Standard Numpy broadcasting is obeyed.
|
|
dtheta : int, optional
|
|
Order of theta-derivative
|
|
|
|
.. versionadded:: 0.14.0
|
|
dphi : int, optional
|
|
Order of phi-derivative
|
|
|
|
.. versionadded:: 0.14.0
|
|
"""
|
|
return self.__call__(theta, phi, dtheta=dtheta, dphi=dphi, grid=False)
|
|
|
|
|
|
class SmoothSphereBivariateSpline(SphereBivariateSpline):
|
|
"""
|
|
Smooth bivariate spline approximation in spherical coordinates.
|
|
|
|
.. versionadded:: 0.11.0
|
|
|
|
Parameters
|
|
----------
|
|
theta, phi, r : array_like
|
|
1-D sequences of data points (order is not important). Coordinates
|
|
must be given in radians. Theta must lie within the interval (0, pi),
|
|
and phi must lie within the interval (0, 2pi).
|
|
w : array_like, optional
|
|
Positive 1-D sequence of weights.
|
|
s : float, optional
|
|
Positive smoothing factor defined for estimation condition:
|
|
``sum((w(i)*(r(i) - s(theta(i), phi(i))))**2, axis=0) <= s``
|
|
Default ``s=len(w)`` which should be a good value if 1/w[i] is an
|
|
estimate of the standard deviation of r[i].
|
|
eps : float, optional
|
|
A threshold for determining the effective rank of an over-determined
|
|
linear system of equations. `eps` should have a value between 0 and 1,
|
|
the default is 1e-16.
|
|
|
|
Notes
|
|
-----
|
|
For more information, see the FITPACK_ site about this function.
|
|
|
|
.. _FITPACK: http://www.netlib.org/dierckx/sphere.f
|
|
|
|
Examples
|
|
--------
|
|
Suppose we have global data on a coarse grid (the input data does not
|
|
have to be on a grid):
|
|
|
|
>>> theta = np.linspace(0., np.pi, 7)
|
|
>>> phi = np.linspace(0., 2*np.pi, 9)
|
|
>>> data = np.empty((theta.shape[0], phi.shape[0]))
|
|
>>> data[:,0], data[0,:], data[-1,:] = 0., 0., 0.
|
|
>>> data[1:-1,1], data[1:-1,-1] = 1., 1.
|
|
>>> data[1,1:-1], data[-2,1:-1] = 1., 1.
|
|
>>> data[2:-2,2], data[2:-2,-2] = 2., 2.
|
|
>>> data[2,2:-2], data[-3,2:-2] = 2., 2.
|
|
>>> data[3,3:-2] = 3.
|
|
>>> data = np.roll(data, 4, 1)
|
|
|
|
We need to set up the interpolator object
|
|
|
|
>>> lats, lons = np.meshgrid(theta, phi)
|
|
>>> from scipy.interpolate import SmoothSphereBivariateSpline
|
|
>>> lut = SmoothSphereBivariateSpline(lats.ravel(), lons.ravel(),
|
|
... data.T.ravel(), s=3.5)
|
|
|
|
As a first test, we'll see what the algorithm returns when run on the
|
|
input coordinates
|
|
|
|
>>> data_orig = lut(theta, phi)
|
|
|
|
Finally we interpolate the data to a finer grid
|
|
|
|
>>> fine_lats = np.linspace(0., np.pi, 70)
|
|
>>> fine_lons = np.linspace(0., 2 * np.pi, 90)
|
|
|
|
>>> data_smth = lut(fine_lats, fine_lons)
|
|
|
|
>>> import matplotlib.pyplot as plt
|
|
>>> fig = plt.figure()
|
|
>>> ax1 = fig.add_subplot(131)
|
|
>>> ax1.imshow(data, interpolation='nearest')
|
|
>>> ax2 = fig.add_subplot(132)
|
|
>>> ax2.imshow(data_orig, interpolation='nearest')
|
|
>>> ax3 = fig.add_subplot(133)
|
|
>>> ax3.imshow(data_smth, interpolation='nearest')
|
|
>>> plt.show()
|
|
|
|
"""
|
|
|
|
def __init__(self, theta, phi, r, w=None, s=0., eps=1E-16):
|
|
if np.issubclass_(w, float):
|
|
w = ones(len(theta)) * w
|
|
nt_, tt_, np_, tp_, c, fp, ier = dfitpack.spherfit_smth(theta, phi,
|
|
r, w=w, s=s,
|
|
eps=eps)
|
|
if ier not in [0, -1, -2]:
|
|
message = _spherefit_messages.get(ier, 'ier=%s' % (ier))
|
|
raise ValueError(message)
|
|
|
|
self.fp = fp
|
|
self.tck = tt_[:nt_], tp_[:np_], c[:(nt_ - 4) * (np_ - 4)]
|
|
self.degrees = (3, 3)
|
|
|
|
|
|
class LSQSphereBivariateSpline(SphereBivariateSpline):
|
|
"""
|
|
Weighted least-squares bivariate spline approximation in spherical
|
|
coordinates.
|
|
|
|
Determines a smooth bicubic spline according to a given
|
|
set of knots in the `theta` and `phi` directions.
|
|
|
|
.. versionadded:: 0.11.0
|
|
|
|
Parameters
|
|
----------
|
|
theta, phi, r : array_like
|
|
1-D sequences of data points (order is not important). Coordinates
|
|
must be given in radians. Theta must lie within the interval (0, pi),
|
|
and phi must lie within the interval (0, 2pi).
|
|
tt, tp : array_like
|
|
Strictly ordered 1-D sequences of knots coordinates.
|
|
Coordinates must satisfy ``0 < tt[i] < pi``, ``0 < tp[i] < 2*pi``.
|
|
w : array_like, optional
|
|
Positive 1-D sequence of weights, of the same length as `theta`, `phi`
|
|
and `r`.
|
|
eps : float, optional
|
|
A threshold for determining the effective rank of an over-determined
|
|
linear system of equations. `eps` should have a value between 0 and 1,
|
|
the default is 1e-16.
|
|
|
|
Notes
|
|
-----
|
|
For more information, see the FITPACK_ site about this function.
|
|
|
|
.. _FITPACK: http://www.netlib.org/dierckx/sphere.f
|
|
|
|
Examples
|
|
--------
|
|
Suppose we have global data on a coarse grid (the input data does not
|
|
have to be on a grid):
|
|
|
|
>>> theta = np.linspace(0., np.pi, 7)
|
|
>>> phi = np.linspace(0., 2*np.pi, 9)
|
|
>>> data = np.empty((theta.shape[0], phi.shape[0]))
|
|
>>> data[:,0], data[0,:], data[-1,:] = 0., 0., 0.
|
|
>>> data[1:-1,1], data[1:-1,-1] = 1., 1.
|
|
>>> data[1,1:-1], data[-2,1:-1] = 1., 1.
|
|
>>> data[2:-2,2], data[2:-2,-2] = 2., 2.
|
|
>>> data[2,2:-2], data[-3,2:-2] = 2., 2.
|
|
>>> data[3,3:-2] = 3.
|
|
>>> data = np.roll(data, 4, 1)
|
|
|
|
We need to set up the interpolator object. Here, we must also specify the
|
|
coordinates of the knots to use.
|
|
|
|
>>> lats, lons = np.meshgrid(theta, phi)
|
|
>>> knotst, knotsp = theta.copy(), phi.copy()
|
|
>>> knotst[0] += .0001
|
|
>>> knotst[-1] -= .0001
|
|
>>> knotsp[0] += .0001
|
|
>>> knotsp[-1] -= .0001
|
|
>>> from scipy.interpolate import LSQSphereBivariateSpline
|
|
>>> lut = LSQSphereBivariateSpline(lats.ravel(), lons.ravel(),
|
|
... data.T.ravel(), knotst, knotsp)
|
|
|
|
As a first test, we'll see what the algorithm returns when run on the
|
|
input coordinates
|
|
|
|
>>> data_orig = lut(theta, phi)
|
|
|
|
Finally we interpolate the data to a finer grid
|
|
|
|
>>> fine_lats = np.linspace(0., np.pi, 70)
|
|
>>> fine_lons = np.linspace(0., 2*np.pi, 90)
|
|
|
|
>>> data_lsq = lut(fine_lats, fine_lons)
|
|
|
|
>>> import matplotlib.pyplot as plt
|
|
>>> fig = plt.figure()
|
|
>>> ax1 = fig.add_subplot(131)
|
|
>>> ax1.imshow(data, interpolation='nearest')
|
|
>>> ax2 = fig.add_subplot(132)
|
|
>>> ax2.imshow(data_orig, interpolation='nearest')
|
|
>>> ax3 = fig.add_subplot(133)
|
|
>>> ax3.imshow(data_lsq, interpolation='nearest')
|
|
>>> plt.show()
|
|
|
|
"""
|
|
|
|
def __init__(self, theta, phi, r, tt, tp, w=None, eps=1E-16):
|
|
if np.issubclass_(w, float):
|
|
w = ones(len(theta)) * w
|
|
nt_, np_ = 8 + len(tt), 8 + len(tp)
|
|
tt_, tp_ = zeros((nt_,), float), zeros((np_,), float)
|
|
tt_[4:-4], tp_[4:-4] = tt, tp
|
|
tt_[-4:], tp_[-4:] = np.pi, 2. * np.pi
|
|
tt_, tp_, c, fp, ier = dfitpack.spherfit_lsq(theta, phi, r, tt_, tp_,
|
|
w=w, eps=eps)
|
|
if ier < -2:
|
|
deficiency = 6 + (nt_ - 8) * (np_ - 7) + ier
|
|
message = _spherefit_messages.get(-3) % (deficiency, -ier)
|
|
warnings.warn(message, stacklevel=2)
|
|
elif ier not in [0, -1, -2]:
|
|
message = _spherefit_messages.get(ier, 'ier=%s' % (ier))
|
|
raise ValueError(message)
|
|
|
|
self.fp = fp
|
|
self.tck = tt_, tp_, c
|
|
self.degrees = (3, 3)
|
|
|
|
|
|
_spfit_messages = _surfit_messages.copy()
|
|
_spfit_messages[10] = """
|
|
ERROR: on entry, the input data are controlled on validity
|
|
the following restrictions must be satisfied.
|
|
-1<=iopt(1)<=1, 0<=iopt(2)<=1, 0<=iopt(3)<=1,
|
|
-1<=ider(1)<=1, 0<=ider(2)<=1, ider(2)=0 if iopt(2)=0.
|
|
-1<=ider(3)<=1, 0<=ider(4)<=1, ider(4)=0 if iopt(3)=0.
|
|
mu >= mumin (see above), mv >= 4, nuest >=8, nvest >= 8,
|
|
kwrk>=5+mu+mv+nuest+nvest,
|
|
lwrk >= 12+nuest*(mv+nvest+3)+nvest*24+4*mu+8*mv+max(nuest,mv+nvest)
|
|
0< u(i-1)<u(i)< pi,i=2,..,mu,
|
|
-pi<=v(1)< pi, v(1)<v(i-1)<v(i)<v(1)+2*pi, i=3,...,mv
|
|
if iopt(1)=-1: 8<=nu<=min(nuest,mu+6+iopt(2)+iopt(3))
|
|
0<tu(5)<tu(6)<...<tu(nu-4)< pi
|
|
8<=nv<=min(nvest,mv+7)
|
|
v(1)<tv(5)<tv(6)<...<tv(nv-4)<v(1)+2*pi
|
|
the schoenberg-whitney conditions, i.e. there must be
|
|
subset of grid co-ordinates uu(p) and vv(q) such that
|
|
tu(p) < uu(p) < tu(p+4) ,p=1,...,nu-4
|
|
(iopt(2)=1 and iopt(3)=1 also count for a uu-value
|
|
tv(q) < vv(q) < tv(q+4) ,q=1,...,nv-4
|
|
(vv(q) is either a value v(j) or v(j)+2*pi)
|
|
if iopt(1)>=0: s>=0
|
|
if s=0: nuest>=mu+6+iopt(2)+iopt(3), nvest>=mv+7
|
|
if one of these conditions is found to be violated,control is
|
|
immediately repassed to the calling program. in that case there is no
|
|
approximation returned."""
|
|
|
|
|
|
class RectSphereBivariateSpline(SphereBivariateSpline):
|
|
"""
|
|
Bivariate spline approximation over a rectangular mesh on a sphere.
|
|
|
|
Can be used for smoothing data.
|
|
|
|
.. versionadded:: 0.11.0
|
|
|
|
Parameters
|
|
----------
|
|
u : array_like
|
|
1-D array of latitude coordinates in strictly ascending order.
|
|
Coordinates must be given in radians and lie within the interval
|
|
(0, pi).
|
|
v : array_like
|
|
1-D array of longitude coordinates in strictly ascending order.
|
|
Coordinates must be given in radians. First element (v[0]) must lie
|
|
within the interval [-pi, pi). Last element (v[-1]) must satisfy
|
|
v[-1] <= v[0] + 2*pi.
|
|
r : array_like
|
|
2-D array of data with shape ``(u.size, v.size)``.
|
|
s : float, optional
|
|
Positive smoothing factor defined for estimation condition
|
|
(``s=0`` is for interpolation).
|
|
pole_continuity : bool or (bool, bool), optional
|
|
Order of continuity at the poles ``u=0`` (``pole_continuity[0]``) and
|
|
``u=pi`` (``pole_continuity[1]``). The order of continuity at the pole
|
|
will be 1 or 0 when this is True or False, respectively.
|
|
Defaults to False.
|
|
pole_values : float or (float, float), optional
|
|
Data values at the poles ``u=0`` and ``u=pi``. Either the whole
|
|
parameter or each individual element can be None. Defaults to None.
|
|
pole_exact : bool or (bool, bool), optional
|
|
Data value exactness at the poles ``u=0`` and ``u=pi``. If True, the
|
|
value is considered to be the right function value, and it will be
|
|
fitted exactly. If False, the value will be considered to be a data
|
|
value just like the other data values. Defaults to False.
|
|
pole_flat : bool or (bool, bool), optional
|
|
For the poles at ``u=0`` and ``u=pi``, specify whether or not the
|
|
approximation has vanishing derivatives. Defaults to False.
|
|
|
|
See Also
|
|
--------
|
|
RectBivariateSpline : bivariate spline approximation over a rectangular
|
|
mesh
|
|
|
|
Notes
|
|
-----
|
|
Currently, only the smoothing spline approximation (``iopt[0] = 0`` and
|
|
``iopt[0] = 1`` in the FITPACK routine) is supported. The exact
|
|
least-squares spline approximation is not implemented yet.
|
|
|
|
When actually performing the interpolation, the requested `v` values must
|
|
lie within the same length 2pi interval that the original `v` values were
|
|
chosen from.
|
|
|
|
For more information, see the FITPACK_ site about this function.
|
|
|
|
.. _FITPACK: http://www.netlib.org/dierckx/spgrid.f
|
|
|
|
Examples
|
|
--------
|
|
Suppose we have global data on a coarse grid
|
|
|
|
>>> lats = np.linspace(10, 170, 9) * np.pi / 180.
|
|
>>> lons = np.linspace(0, 350, 18) * np.pi / 180.
|
|
>>> data = np.dot(np.atleast_2d(90. - np.linspace(-80., 80., 18)).T,
|
|
... np.atleast_2d(180. - np.abs(np.linspace(0., 350., 9)))).T
|
|
|
|
We want to interpolate it to a global one-degree grid
|
|
|
|
>>> new_lats = np.linspace(1, 180, 180) * np.pi / 180
|
|
>>> new_lons = np.linspace(1, 360, 360) * np.pi / 180
|
|
>>> new_lats, new_lons = np.meshgrid(new_lats, new_lons)
|
|
|
|
We need to set up the interpolator object
|
|
|
|
>>> from scipy.interpolate import RectSphereBivariateSpline
|
|
>>> lut = RectSphereBivariateSpline(lats, lons, data)
|
|
|
|
Finally we interpolate the data. The `RectSphereBivariateSpline` object
|
|
only takes 1-D arrays as input, therefore we need to do some reshaping.
|
|
|
|
>>> data_interp = lut.ev(new_lats.ravel(),
|
|
... new_lons.ravel()).reshape((360, 180)).T
|
|
|
|
Looking at the original and the interpolated data, one can see that the
|
|
interpolant reproduces the original data very well:
|
|
|
|
>>> import matplotlib.pyplot as plt
|
|
>>> fig = plt.figure()
|
|
>>> ax1 = fig.add_subplot(211)
|
|
>>> ax1.imshow(data, interpolation='nearest')
|
|
>>> ax2 = fig.add_subplot(212)
|
|
>>> ax2.imshow(data_interp, interpolation='nearest')
|
|
>>> plt.show()
|
|
|
|
Choosing the optimal value of ``s`` can be a delicate task. Recommended
|
|
values for ``s`` depend on the accuracy of the data values. If the user
|
|
has an idea of the statistical errors on the data, she can also find a
|
|
proper estimate for ``s``. By assuming that, if she specifies the
|
|
right ``s``, the interpolator will use a spline ``f(u,v)`` which exactly
|
|
reproduces the function underlying the data, she can evaluate
|
|
``sum((r(i,j)-s(u(i),v(j)))**2)`` to find a good estimate for this ``s``.
|
|
For example, if she knows that the statistical errors on her
|
|
``r(i,j)``-values are not greater than 0.1, she may expect that a good
|
|
``s`` should have a value not larger than ``u.size * v.size * (0.1)**2``.
|
|
|
|
If nothing is known about the statistical error in ``r(i,j)``, ``s`` must
|
|
be determined by trial and error. The best is then to start with a very
|
|
large value of ``s`` (to determine the least-squares polynomial and the
|
|
corresponding upper bound ``fp0`` for ``s``) and then to progressively
|
|
decrease the value of ``s`` (say by a factor 10 in the beginning, i.e.
|
|
``s = fp0 / 10, fp0 / 100, ...`` and more carefully as the approximation
|
|
shows more detail) to obtain closer fits.
|
|
|
|
The interpolation results for different values of ``s`` give some insight
|
|
into this process:
|
|
|
|
>>> fig2 = plt.figure()
|
|
>>> s = [3e9, 2e9, 1e9, 1e8]
|
|
>>> for ii in range(len(s)):
|
|
... lut = RectSphereBivariateSpline(lats, lons, data, s=s[ii])
|
|
... data_interp = lut.ev(new_lats.ravel(),
|
|
... new_lons.ravel()).reshape((360, 180)).T
|
|
... ax = fig2.add_subplot(2, 2, ii+1)
|
|
... ax.imshow(data_interp, interpolation='nearest')
|
|
... ax.set_title("s = %g" % s[ii])
|
|
>>> plt.show()
|
|
|
|
"""
|
|
|
|
def __init__(self, u, v, r, s=0., pole_continuity=False, pole_values=None,
|
|
pole_exact=False, pole_flat=False):
|
|
iopt = np.array([0, 0, 0], dtype=int)
|
|
ider = np.array([-1, 0, -1, 0], dtype=int)
|
|
if pole_values is None:
|
|
pole_values = (None, None)
|
|
elif isinstance(pole_values, (float, np.float32, np.float64)):
|
|
pole_values = (pole_values, pole_values)
|
|
if isinstance(pole_continuity, bool):
|
|
pole_continuity = (pole_continuity, pole_continuity)
|
|
if isinstance(pole_exact, bool):
|
|
pole_exact = (pole_exact, pole_exact)
|
|
if isinstance(pole_flat, bool):
|
|
pole_flat = (pole_flat, pole_flat)
|
|
|
|
r0, r1 = pole_values
|
|
iopt[1:] = pole_continuity
|
|
if r0 is None:
|
|
ider[0] = -1
|
|
else:
|
|
ider[0] = pole_exact[0]
|
|
|
|
if r1 is None:
|
|
ider[2] = -1
|
|
else:
|
|
ider[2] = pole_exact[1]
|
|
|
|
ider[1], ider[3] = pole_flat
|
|
|
|
u, v = np.ravel(u), np.ravel(v)
|
|
if not np.all(np.diff(u) > 0.0):
|
|
raise ValueError('u must be strictly increasing')
|
|
if not np.all(np.diff(v) > 0.0):
|
|
raise ValueError('v must be strictly increasing')
|
|
|
|
if not u.size == r.shape[0]:
|
|
raise ValueError('u dimension of r must have same number of '
|
|
'elements as u')
|
|
if not v.size == r.shape[1]:
|
|
raise ValueError('v dimension of r must have same number of '
|
|
'elements as v')
|
|
|
|
if pole_continuity[1] is False and pole_flat[1] is True:
|
|
raise ValueError('if pole_continuity is False, so must be '
|
|
'pole_flat')
|
|
if pole_continuity[0] is False and pole_flat[0] is True:
|
|
raise ValueError('if pole_continuity is False, so must be '
|
|
'pole_flat')
|
|
|
|
r = np.ravel(r)
|
|
nu, tu, nv, tv, c, fp, ier = dfitpack.regrid_smth_spher(iopt, ider,
|
|
u.copy(), v.copy(), r.copy(), r0, r1, s)
|
|
|
|
if ier not in [0, -1, -2]:
|
|
msg = _spfit_messages.get(ier, 'ier=%s' % (ier))
|
|
raise ValueError(msg)
|
|
|
|
self.fp = fp
|
|
self.tck = tu[:nu], tv[:nv], c[:(nu - 4) * (nv-4)]
|
|
self.degrees = (3, 3)
|