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Version: 1.3.3 

/ ndimage / interpolation.py

# Copyright (C) 2003-2005 Peter J. Verveer
#
# Redistribution and use in source and binary forms, with or without
# modification, are permitted provided that the following conditions
# are met:
#
# 1. Redistributions of source code must retain the above copyright
#    notice, this list of conditions and the following disclaimer.
#
# 2. Redistributions in binary form must reproduce the above
#    copyright notice, this list of conditions and the following
#    disclaimer in the documentation and/or other materials provided
#    with the distribution.
#
# 3. The name of the author may not be used to endorse or promote
#    products derived from this software without specific prior
#    written permission.
#
# THIS SOFTWARE IS PROVIDED BY THE AUTHOR ``AS IS'' AND ANY EXPRESS
# OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
# WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
# ARE DISCLAIMED. IN NO EVENT SHALL THE AUTHOR BE LIABLE FOR ANY
# DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL
# DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE
# GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS
# INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY,
# WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
# NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
# SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.

from __future__ import division, print_function, absolute_import

import itertools
import numpy
import warnings

from . import _ni_support
from . import _nd_image
from ._ni_docstrings import docdict
from scipy._lib import doccer

# Change the default 'reflect' to 'constant' via modifying a copy of docdict
docdict_copy = docdict.copy()
del docdict
docdict_copy['mode'] = docdict_copy['mode'].replace("Default is 'reflect'",
                                                    "Default is 'constant'")

docfiller = doccer.filldoc(docdict_copy)

__all__ = ['spline_filter1d', 'spline_filter', 'geometric_transform',
           'map_coordinates', 'affine_transform', 'shift', 'zoom', 'rotate']


@docfiller
def spline_filter1d(input, order=3, axis=-1, output=numpy.float64,
                    mode='mirror'):
    """
    Calculate a one-dimensional spline filter along the given axis.

    The lines of the array along the given axis are filtered by a
    spline filter. The order of the spline must be >= 2 and <= 5.

    Parameters
    ----------
    %(input)s
    order : int, optional
        The order of the spline, default is 3.
    axis : int, optional
        The axis along which the spline filter is applied. Default is the last
        axis.
    output : ndarray or dtype, optional
        The array in which to place the output, or the dtype of the returned
        array. Default is ``numpy.float64``.
    %(mode)s

    Returns
    -------
    spline_filter1d : ndarray
        The filtered input.

    Notes
    -----
    All functions in `ndimage.interpolation` do spline interpolation of
    the input image. If using b-splines of `order > 1`, the input image
    values have to be converted to b-spline coefficients first, which is
    done by applying this one-dimensional filter sequentially along all
    axes of the input. All functions that require b-spline coefficients
    will automatically filter their inputs, a behavior controllable with
    the `prefilter` keyword argument. For functions that accept a `mode`
    parameter, the result will only be correct if it matches the `mode`
    used when filtering.
    """
    if order < 0 or order > 5:
        raise RuntimeError('spline order not supported')
    input = numpy.asarray(input)
    if numpy.iscomplexobj(input):
        raise TypeError('Complex type not supported')
    output = _ni_support._get_output(output, input)
    if order in [0, 1]:
        output[...] = numpy.array(input)
    else:
        mode = _ni_support._extend_mode_to_code(mode)
        axis = _ni_support._check_axis(axis, input.ndim)
        _nd_image.spline_filter1d(input, order, axis, output, mode)
    return output


def spline_filter(input, order=3, output=numpy.float64, mode='mirror'):
    """
    Multi-dimensional spline filter.

    For more details, see `spline_filter1d`.

    See Also
    --------
    spline_filter1d

    Notes
    -----
    The multi-dimensional filter is implemented as a sequence of
    one-dimensional spline filters. The intermediate arrays are stored
    in the same data type as the output. Therefore, for output types
    with a limited precision, the results may be imprecise because
    intermediate results may be stored with insufficient precision.

    """
    if order < 2 or order > 5:
        raise RuntimeError('spline order not supported')
    input = numpy.asarray(input)
    if numpy.iscomplexobj(input):
        raise TypeError('Complex type not supported')
    output = _ni_support._get_output(output, input)
    if order not in [0, 1] and input.ndim > 0:
        for axis in range(input.ndim):
            spline_filter1d(input, order, axis, output=output, mode=mode)
            input = output
    else:
        output[...] = input[...]
    return output


@docfiller
def geometric_transform(input, mapping, output_shape=None,
                        output=None, order=3,
                        mode='constant', cval=0.0, prefilter=True,
                        extra_arguments=(), extra_keywords={}):
    """
    Apply an arbitrary geometric transform.

    The given mapping function is used to find, for each point in the
    output, the corresponding coordinates in the input. The value of the
    input at those coordinates is determined by spline interpolation of
    the requested order.

    Parameters
    ----------
    %(input)s
    mapping : {callable, scipy.LowLevelCallable}
        A callable object that accepts a tuple of length equal to the output
        array rank, and returns the corresponding input coordinates as a tuple
        of length equal to the input array rank.
    output_shape : tuple of ints, optional
        Shape tuple.
    %(output)s
    order : int, optional
        The order of the spline interpolation, default is 3.
        The order has to be in the range 0-5.
    %(mode)s
    %(cval)s
    %(prefilter)s
    extra_arguments : tuple, optional
        Extra arguments passed to `mapping`.
    extra_keywords : dict, optional
        Extra keywords passed to `mapping`.

    Returns
    -------
    output : ndarray
        The filtered input.

    See Also
    --------
    map_coordinates, affine_transform, spline_filter1d


    Notes
    -----
    This function also accepts low-level callback functions with one
    the following signatures and wrapped in `scipy.LowLevelCallable`:

    .. code:: c

       int mapping(npy_intp *output_coordinates, double *input_coordinates,
                   int output_rank, int input_rank, void *user_data)
       int mapping(intptr_t *output_coordinates, double *input_coordinates,
                   int output_rank, int input_rank, void *user_data)

    The calling function iterates over the elements of the output array,
    calling the callback function at each element. The coordinates of the
    current output element are passed through ``output_coordinates``. The
    callback function must return the coordinates at which the input must
    be interpolated in ``input_coordinates``. The rank of the input and
    output arrays are given by ``input_rank`` and ``output_rank``
    respectively.  ``user_data`` is the data pointer provided
    to `scipy.LowLevelCallable` as-is.

    The callback function must return an integer error status that is zero
    if something went wrong and one otherwise. If an error occurs, you should
    normally set the python error status with an informative message
    before returning, otherwise a default error message is set by the
    calling function.

    In addition, some other low-level function pointer specifications
    are accepted, but these are for backward compatibility only and should
    not be used in new code.

    Examples
    --------
    >>> import numpy as np
    >>> from scipy.ndimage import geometric_transform
    >>> a = np.arange(12.).reshape((4, 3))
    >>> def shift_func(output_coords):
    ...     return (output_coords[0] - 0.5, output_coords[1] - 0.5)
    ...
    >>> geometric_transform(a, shift_func)
    array([[ 0.   ,  0.   ,  0.   ],
           [ 0.   ,  1.362,  2.738],
           [ 0.   ,  4.812,  6.187],
           [ 0.   ,  8.263,  9.637]])

    >>> b = [1, 2, 3, 4, 5]
    >>> def shift_func(output_coords):
    ...     return (output_coords[0] - 3,)
    ...
    >>> geometric_transform(b, shift_func, mode='constant')
    array([0, 0, 0, 1, 2])
    >>> geometric_transform(b, shift_func, mode='nearest')
    array([1, 1, 1, 1, 2])
    >>> geometric_transform(b, shift_func, mode='reflect')
    array([3, 2, 1, 1, 2])
    >>> geometric_transform(b, shift_func, mode='wrap')
    array([2, 3, 4, 1, 2])

    """
    if order < 0 or order > 5:
        raise RuntimeError('spline order not supported')
    input = numpy.asarray(input)
    if numpy.iscomplexobj(input):
        raise TypeError('Complex type not supported')
    if output_shape is None:
        output_shape = input.shape
    if input.ndim < 1 or len(output_shape) < 1:
        raise RuntimeError('input and output rank must be > 0')
    mode = _ni_support._extend_mode_to_code(mode)
    if prefilter and order > 1:
        filtered = spline_filter(input, order, output=numpy.float64)
    else:
        filtered = input
    output = _ni_support._get_output(output, input, shape=output_shape)
    _nd_image.geometric_transform(filtered, mapping, None, None, None, output,
                                  order, mode, cval, extra_arguments,
                                  extra_keywords)
    return output


@docfiller
def map_coordinates(input, coordinates, output=None, order=3,
                    mode='constant', cval=0.0, prefilter=True):
    """
    Map the input array to new coordinates by interpolation.

    The array of coordinates is used to find, for each point in the output,
    the corresponding coordinates in the input. The value of the input at
    those coordinates is determined by spline interpolation of the
    requested order.

    The shape of the output is derived from that of the coordinate
    array by dropping the first axis. The values of the array along
    the first axis are the coordinates in the input array at which the
    output value is found.

    Parameters
    ----------
    %(input)s
    coordinates : array_like
        The coordinates at which `input` is evaluated.
    %(output)s
    order : int, optional
        The order of the spline interpolation, default is 3.
        The order has to be in the range 0-5.
    %(mode)s
    %(cval)s
    %(prefilter)s

    Returns
    -------
    map_coordinates : ndarray
        The result of transforming the input. The shape of the output is
        derived from that of `coordinates` by dropping the first axis.

    See Also
    --------
    spline_filter, geometric_transform, scipy.interpolate

    Examples
    --------
    >>> from scipy import ndimage
    >>> a = np.arange(12.).reshape((4, 3))
    >>> a
    array([[  0.,   1.,   2.],
           [  3.,   4.,   5.],
           [  6.,   7.,   8.],
           [  9.,  10.,  11.]])
    >>> ndimage.map_coordinates(a, [[0.5, 2], [0.5, 1]], order=1)
    array([ 2.,  7.])

    Above, the interpolated value of a[0.5, 0.5] gives output[0], while
    a[2, 1] is output[1].

    >>> inds = np.array([[0.5, 2], [0.5, 4]])
    >>> ndimage.map_coordinates(a, inds, order=1, cval=-33.3)
    array([  2. , -33.3])
    >>> ndimage.map_coordinates(a, inds, order=1, mode='nearest')
    array([ 2.,  8.])
    >>> ndimage.map_coordinates(a, inds, order=1, cval=0, output=bool)
    array([ True, False], dtype=bool)

    """
    if order < 0 or order > 5:
        raise RuntimeError('spline order not supported')
    input = numpy.asarray(input)
    if numpy.iscomplexobj(input):
        raise TypeError('Complex type not supported')
    coordinates = numpy.asarray(coordinates)
    if numpy.iscomplexobj(coordinates):
        raise TypeError('Complex type not supported')
    output_shape = coordinates.shape[1:]
    if input.ndim < 1 or len(output_shape) < 1:
        raise RuntimeError('input and output rank must be > 0')
    if coordinates.shape[0] != input.ndim:
        raise RuntimeError('invalid shape for coordinate array')
    mode = _ni_support._extend_mode_to_code(mode)
    if prefilter and order > 1:
        filtered = spline_filter(input, order, output=numpy.float64)
    else:
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