| |
|
|
| """Mathematical models.""" |
|
|
|
|
| from collections import OrderedDict |
|
|
| import numpy as np |
|
|
| from astropy import units as u |
| from astropy.units import Quantity, UnitsError |
| from .core import (Fittable1DModel, Fittable2DModel, |
| ModelDefinitionError) |
|
|
| from .parameters import Parameter, InputParameterError |
| from .utils import ellipse_extent |
|
|
|
|
| __all__ = ['AiryDisk2D', 'Moffat1D', 'Moffat2D', 'Box1D', 'Box2D', 'Const1D', |
| 'Const2D', 'Ellipse2D', 'Disk2D', 'Gaussian1D', 'Gaussian2D', 'Linear1D', |
| 'Lorentz1D', 'MexicanHat1D', 'MexicanHat2D', 'RedshiftScaleFactor', |
| 'Multiply', 'Planar2D', 'Scale', 'Sersic1D', 'Sersic2D', 'Shift', |
| 'Sine1D', 'Trapezoid1D', 'TrapezoidDisk2D', 'Ring2D', 'Voigt1D'] |
|
|
|
|
| TWOPI = 2 * np.pi |
| FLOAT_EPSILON = float(np.finfo(np.float32).tiny) |
|
|
| |
| |
| |
| GAUSSIAN_SIGMA_TO_FWHM = 2.0 * np.sqrt(2.0 * np.log(2.0)) |
|
|
|
|
| class Gaussian1D(Fittable1DModel): |
| """ |
| One dimensional Gaussian model. |
| |
| Parameters |
| ---------- |
| amplitude : float |
| Amplitude of the Gaussian. |
| mean : float |
| Mean of the Gaussian. |
| stddev : float |
| Standard deviation of the Gaussian. |
| |
| Notes |
| ----- |
| |
| Model formula: |
| |
| .. math:: f(x) = A e^{- \\frac{\\left(x - x_{0}\\right)^{2}}{2 \\sigma^{2}}} |
| |
| Examples |
| -------- |
| >>> from astropy.modeling import models |
| >>> def tie_center(model): |
| ... mean = 50 * model.stddev |
| ... return mean |
| >>> tied_parameters = {'mean': tie_center} |
| |
| Specify that 'mean' is a tied parameter in one of two ways: |
| |
| >>> g1 = models.Gaussian1D(amplitude=10, mean=5, stddev=.3, |
| ... tied=tied_parameters) |
| |
| or |
| |
| >>> g1 = models.Gaussian1D(amplitude=10, mean=5, stddev=.3) |
| >>> g1.mean.tied |
| False |
| >>> g1.mean.tied = tie_center |
| >>> g1.mean.tied |
| <function tie_center at 0x...> |
| |
| Fixed parameters: |
| |
| >>> g1 = models.Gaussian1D(amplitude=10, mean=5, stddev=.3, |
| ... fixed={'stddev': True}) |
| >>> g1.stddev.fixed |
| True |
| |
| or |
| |
| >>> g1 = models.Gaussian1D(amplitude=10, mean=5, stddev=.3) |
| >>> g1.stddev.fixed |
| False |
| >>> g1.stddev.fixed = True |
| >>> g1.stddev.fixed |
| True |
| |
| .. plot:: |
| :include-source: |
| |
| import numpy as np |
| import matplotlib.pyplot as plt |
| |
| from astropy.modeling.models import Gaussian1D |
| |
| plt.figure() |
| s1 = Gaussian1D() |
| r = np.arange(-5, 5, .01) |
| |
| for factor in range(1, 4): |
| s1.amplitude = factor |
| plt.plot(r, s1(r), color=str(0.25 * factor), lw=2) |
| |
| plt.axis([-5, 5, -1, 4]) |
| plt.show() |
| |
| See Also |
| -------- |
| Gaussian2D, Box1D, Moffat1D, Lorentz1D |
| """ |
|
|
| amplitude = Parameter(default=1) |
| mean = Parameter(default=0) |
|
|
| |
| |
| stddev = Parameter(default=1, bounds=(FLOAT_EPSILON, None)) |
|
|
| def bounding_box(self, factor=5.5): |
| """ |
| Tuple defining the default ``bounding_box`` limits, |
| ``(x_low, x_high)`` |
| |
| Parameters |
| ---------- |
| factor : float |
| The multiple of `stddev` used to define the limits. |
| The default is 5.5, corresponding to a relative error < 1e-7. |
| |
| Examples |
| -------- |
| >>> from astropy.modeling.models import Gaussian1D |
| >>> model = Gaussian1D(mean=0, stddev=2) |
| >>> model.bounding_box |
| (-11.0, 11.0) |
| |
| This range can be set directly (see: `Model.bounding_box |
| <astropy.modeling.Model.bounding_box>`) or by using a different factor, |
| like: |
| |
| >>> model.bounding_box = model.bounding_box(factor=2) |
| >>> model.bounding_box |
| (-4.0, 4.0) |
| """ |
|
|
| x0 = self.mean |
| dx = factor * self.stddev |
|
|
| return (x0 - dx, x0 + dx) |
|
|
| @property |
| def fwhm(self): |
| """Gaussian full width at half maximum.""" |
| return self.stddev * GAUSSIAN_SIGMA_TO_FWHM |
|
|
| @staticmethod |
| def evaluate(x, amplitude, mean, stddev): |
| """ |
| Gaussian1D model function. |
| """ |
| return amplitude * np.exp(- 0.5 * (x - mean) ** 2 / stddev ** 2) |
|
|
| @staticmethod |
| def fit_deriv(x, amplitude, mean, stddev): |
| """ |
| Gaussian1D model function derivatives. |
| """ |
|
|
| d_amplitude = np.exp(-0.5 / stddev ** 2 * (x - mean) ** 2) |
| d_mean = amplitude * d_amplitude * (x - mean) / stddev ** 2 |
| d_stddev = amplitude * d_amplitude * (x - mean) ** 2 / stddev ** 3 |
| return [d_amplitude, d_mean, d_stddev] |
|
|
| @property |
| def input_units(self): |
| if self.mean.unit is None: |
| return None |
| else: |
| return {'x': self.mean.unit} |
|
|
| def _parameter_units_for_data_units(self, inputs_unit, outputs_unit): |
| return OrderedDict([('mean', inputs_unit['x']), |
| ('stddev', inputs_unit['x']), |
| ('amplitude', outputs_unit['y'])]) |
|
|
|
|
| class Gaussian2D(Fittable2DModel): |
| r""" |
| Two dimensional Gaussian model. |
| |
| Parameters |
| ---------- |
| amplitude : float |
| Amplitude of the Gaussian. |
| x_mean : float |
| Mean of the Gaussian in x. |
| y_mean : float |
| Mean of the Gaussian in y. |
| x_stddev : float or None |
| Standard deviation of the Gaussian in x before rotating by theta. Must |
| be None if a covariance matrix (``cov_matrix``) is provided. If no |
| ``cov_matrix`` is given, ``None`` means the default value (1). |
| y_stddev : float or None |
| Standard deviation of the Gaussian in y before rotating by theta. Must |
| be None if a covariance matrix (``cov_matrix``) is provided. If no |
| ``cov_matrix`` is given, ``None`` means the default value (1). |
| theta : float, optional |
| Rotation angle in radians. The rotation angle increases |
| counterclockwise. Must be None if a covariance matrix (``cov_matrix``) |
| is provided. If no ``cov_matrix`` is given, ``None`` means the default |
| value (0). |
| cov_matrix : ndarray, optional |
| A 2x2 covariance matrix. If specified, overrides the ``x_stddev``, |
| ``y_stddev``, and ``theta`` defaults. |
| |
| Notes |
| ----- |
| Model formula: |
| |
| .. math:: |
| |
| f(x, y) = A e^{-a\left(x - x_{0}\right)^{2} -b\left(x - x_{0}\right) |
| \left(y - y_{0}\right) -c\left(y - y_{0}\right)^{2}} |
| |
| Using the following definitions: |
| |
| .. math:: |
| a = \left(\frac{\cos^{2}{\left (\theta \right )}}{2 \sigma_{x}^{2}} + |
| \frac{\sin^{2}{\left (\theta \right )}}{2 \sigma_{y}^{2}}\right) |
| |
| b = \left(\frac{\sin{\left (2 \theta \right )}}{2 \sigma_{x}^{2}} - |
| \frac{\sin{\left (2 \theta \right )}}{2 \sigma_{y}^{2}}\right) |
| |
| c = \left(\frac{\sin^{2}{\left (\theta \right )}}{2 \sigma_{x}^{2}} + |
| \frac{\cos^{2}{\left (\theta \right )}}{2 \sigma_{y}^{2}}\right) |
| |
| If using a ``cov_matrix``, the model is of the form: |
| .. math:: |
| f(x, y) = A e^{-0.5 \left(\vec{x} - \vec{x}_{0}\right)^{T} \Sigma^{-1} \left(\vec{x} - \vec{x}_{0}\right)} |
| |
| where :math:`\vec{x} = [x, y]`, :math:`\vec{x}_{0} = [x_{0}, y_{0}]`, |
| and :math:`\Sigma` is the covariance matrix: |
| |
| .. math:: |
| \Sigma = \left(\begin{array}{ccc} |
| \sigma_x^2 & \rho \sigma_x \sigma_y \\ |
| \rho \sigma_x \sigma_y & \sigma_y^2 |
| \end{array}\right) |
| |
| :math:`\rho` is the correlation between ``x`` and ``y``, which should |
| be between -1 and +1. Positive correlation corresponds to a |
| ``theta`` in the range 0 to 90 degrees. Negative correlation |
| corresponds to a ``theta`` in the range of 0 to -90 degrees. |
| |
| See [1]_ for more details about the 2D Gaussian function. |
| |
| See Also |
| -------- |
| Gaussian1D, Box2D, Moffat2D |
| |
| References |
| ---------- |
| .. [1] https://en.wikipedia.org/wiki/Gaussian_function |
| """ |
|
|
| amplitude = Parameter(default=1) |
| x_mean = Parameter(default=0) |
| y_mean = Parameter(default=0) |
| x_stddev = Parameter(default=1) |
| y_stddev = Parameter(default=1) |
| theta = Parameter(default=0.0) |
|
|
| def __init__(self, amplitude=amplitude.default, x_mean=x_mean.default, |
| y_mean=y_mean.default, x_stddev=None, y_stddev=None, |
| theta=None, cov_matrix=None, **kwargs): |
| if cov_matrix is None: |
| if x_stddev is None: |
| x_stddev = self.__class__.x_stddev.default |
| if y_stddev is None: |
| y_stddev = self.__class__.y_stddev.default |
| if theta is None: |
| theta = self.__class__.theta.default |
| else: |
| if x_stddev is not None or y_stddev is not None or theta is not None: |
| raise InputParameterError("Cannot specify both cov_matrix and " |
| "x/y_stddev/theta") |
| else: |
| |
| cov_matrix = np.array(cov_matrix) |
|
|
| if cov_matrix.shape != (2, 2): |
| |
| |
| |
| |
| raise ValueError("Covariance matrix must be 2x2") |
|
|
| eig_vals, eig_vecs = np.linalg.eig(cov_matrix) |
| x_stddev, y_stddev = np.sqrt(eig_vals) |
| y_vec = eig_vecs[:, 0] |
| theta = np.arctan2(y_vec[1], y_vec[0]) |
|
|
| |
| |
| |
| |
| kwargs.setdefault('bounds', {}) |
| kwargs['bounds'].setdefault('x_stddev', (FLOAT_EPSILON, None)) |
| kwargs['bounds'].setdefault('y_stddev', (FLOAT_EPSILON, None)) |
|
|
| super().__init__( |
| amplitude=amplitude, x_mean=x_mean, y_mean=y_mean, |
| x_stddev=x_stddev, y_stddev=y_stddev, theta=theta, **kwargs) |
|
|
| @property |
| def x_fwhm(self): |
| """Gaussian full width at half maximum in X.""" |
| return self.x_stddev * GAUSSIAN_SIGMA_TO_FWHM |
|
|
| @property |
| def y_fwhm(self): |
| """Gaussian full width at half maximum in Y.""" |
| return self.y_stddev * GAUSSIAN_SIGMA_TO_FWHM |
|
|
| def bounding_box(self, factor=5.5): |
| """ |
| Tuple defining the default ``bounding_box`` limits in each dimension, |
| ``((y_low, y_high), (x_low, x_high))`` |
| |
| The default offset from the mean is 5.5-sigma, corresponding |
| to a relative error < 1e-7. The limits are adjusted for rotation. |
| |
| Parameters |
| ---------- |
| factor : float, optional |
| The multiple of `x_stddev` and `y_stddev` used to define the limits. |
| The default is 5.5. |
| |
| Examples |
| -------- |
| >>> from astropy.modeling.models import Gaussian2D |
| >>> model = Gaussian2D(x_mean=0, y_mean=0, x_stddev=1, y_stddev=2) |
| >>> model.bounding_box |
| ((-11.0, 11.0), (-5.5, 5.5)) |
| |
| This range can be set directly (see: `Model.bounding_box |
| <astropy.modeling.Model.bounding_box>`) or by using a different factor |
| like: |
| |
| >>> model.bounding_box = model.bounding_box(factor=2) |
| >>> model.bounding_box |
| ((-4.0, 4.0), (-2.0, 2.0)) |
| """ |
|
|
| a = factor * self.x_stddev |
| b = factor * self.y_stddev |
| theta = self.theta.value |
| dx, dy = ellipse_extent(a, b, theta) |
|
|
| return ((self.y_mean - dy, self.y_mean + dy), |
| (self.x_mean - dx, self.x_mean + dx)) |
|
|
| @staticmethod |
| def evaluate(x, y, amplitude, x_mean, y_mean, x_stddev, y_stddev, theta): |
| """Two dimensional Gaussian function""" |
|
|
| cost2 = np.cos(theta) ** 2 |
| sint2 = np.sin(theta) ** 2 |
| sin2t = np.sin(2. * theta) |
| xstd2 = x_stddev ** 2 |
| ystd2 = y_stddev ** 2 |
| xdiff = x - x_mean |
| ydiff = y - y_mean |
| a = 0.5 * ((cost2 / xstd2) + (sint2 / ystd2)) |
| b = 0.5 * ((sin2t / xstd2) - (sin2t / ystd2)) |
| c = 0.5 * ((sint2 / xstd2) + (cost2 / ystd2)) |
| return amplitude * np.exp(-((a * xdiff ** 2) + (b * xdiff * ydiff) + |
| (c * ydiff ** 2))) |
|
|
| @staticmethod |
| def fit_deriv(x, y, amplitude, x_mean, y_mean, x_stddev, y_stddev, theta): |
| """Two dimensional Gaussian function derivative with respect to parameters""" |
|
|
| cost = np.cos(theta) |
| sint = np.sin(theta) |
| cost2 = np.cos(theta) ** 2 |
| sint2 = np.sin(theta) ** 2 |
| cos2t = np.cos(2. * theta) |
| sin2t = np.sin(2. * theta) |
| xstd2 = x_stddev ** 2 |
| ystd2 = y_stddev ** 2 |
| xstd3 = x_stddev ** 3 |
| ystd3 = y_stddev ** 3 |
| xdiff = x - x_mean |
| ydiff = y - y_mean |
| xdiff2 = xdiff ** 2 |
| ydiff2 = ydiff ** 2 |
| a = 0.5 * ((cost2 / xstd2) + (sint2 / ystd2)) |
| b = 0.5 * ((sin2t / xstd2) - (sin2t / ystd2)) |
| c = 0.5 * ((sint2 / xstd2) + (cost2 / ystd2)) |
| g = amplitude * np.exp(-((a * xdiff2) + (b * xdiff * ydiff) + |
| (c * ydiff2))) |
| da_dtheta = (sint * cost * ((1. / ystd2) - (1. / xstd2))) |
| da_dx_stddev = -cost2 / xstd3 |
| da_dy_stddev = -sint2 / ystd3 |
| db_dtheta = (cos2t / xstd2) - (cos2t / ystd2) |
| db_dx_stddev = -sin2t / xstd3 |
| db_dy_stddev = sin2t / ystd3 |
| dc_dtheta = -da_dtheta |
| dc_dx_stddev = -sint2 / xstd3 |
| dc_dy_stddev = -cost2 / ystd3 |
| dg_dA = g / amplitude |
| dg_dx_mean = g * ((2. * a * xdiff) + (b * ydiff)) |
| dg_dy_mean = g * ((b * xdiff) + (2. * c * ydiff)) |
| dg_dx_stddev = g * (-(da_dx_stddev * xdiff2 + |
| db_dx_stddev * xdiff * ydiff + |
| dc_dx_stddev * ydiff2)) |
| dg_dy_stddev = g * (-(da_dy_stddev * xdiff2 + |
| db_dy_stddev * xdiff * ydiff + |
| dc_dy_stddev * ydiff2)) |
| dg_dtheta = g * (-(da_dtheta * xdiff2 + |
| db_dtheta * xdiff * ydiff + |
| dc_dtheta * ydiff2)) |
| return [dg_dA, dg_dx_mean, dg_dy_mean, dg_dx_stddev, dg_dy_stddev, |
| dg_dtheta] |
|
|
| @property |
| def input_units(self): |
| if self.x_mean.unit is None and self.y_mean.unit is None: |
| return None |
| else: |
| return {'x': self.x_mean.unit, |
| 'y': self.y_mean.unit} |
|
|
| def _parameter_units_for_data_units(self, inputs_unit, outputs_unit): |
| |
| |
| |
| if inputs_unit['x'] != inputs_unit['y']: |
| raise UnitsError("Units of 'x' and 'y' inputs should match") |
| return OrderedDict([('x_mean', inputs_unit['x']), |
| ('y_mean', inputs_unit['x']), |
| ('x_stddev', inputs_unit['x']), |
| ('y_stddev', inputs_unit['x']), |
| ('theta', u.rad), |
| ('amplitude', outputs_unit['z'])]) |
|
|
|
|
| class Shift(Fittable1DModel): |
| """ |
| Shift a coordinate. |
| |
| Parameters |
| ---------- |
| offset : float |
| Offset to add to a coordinate. |
| """ |
|
|
| offset = Parameter(default=0) |
| linear = True |
|
|
| @property |
| def input_units(self): |
| if self.offset.unit is None: |
| return None |
| else: |
| return {'x': self.offset.unit} |
|
|
| @property |
| def inverse(self): |
| """One dimensional inverse Shift model function""" |
| inv = self.copy() |
| inv.offset *= -1 |
| return inv |
|
|
| @staticmethod |
| def evaluate(x, offset): |
| """One dimensional Shift model function""" |
| return x + offset |
|
|
| @staticmethod |
| def sum_of_implicit_terms(x): |
| """Evaluate the implicit term (x) of one dimensional Shift model""" |
| return x |
|
|
| @staticmethod |
| def fit_deriv(x, *params): |
| """One dimensional Shift model derivative with respect to parameter""" |
|
|
| d_offset = np.ones_like(x) |
| return [d_offset] |
|
|
| def _parameter_units_for_data_units(self, inputs_unit, outputs_unit): |
| return OrderedDict([('offset', outputs_unit['y'])]) |
|
|
|
|
| class Scale(Fittable1DModel): |
| """ |
| Multiply a model by a dimensionless factor. |
| |
| Parameters |
| ---------- |
| factor : float |
| Factor by which to scale a coordinate. |
| |
| Notes |
| ----- |
| |
| If ``factor`` is a `~astropy.units.Quantity` then the units will be |
| stripped before the scaling operation. |
| |
| """ |
|
|
| factor = Parameter(default=1) |
| linear = True |
| fittable = True |
|
|
| _input_units_strict = True |
| _input_units_allow_dimensionless = True |
|
|
| @property |
| def input_units(self): |
| if self.factor.unit is None: |
| return None |
| else: |
| return {'x': self.factor.unit} |
|
|
| @property |
| def inverse(self): |
| """One dimensional inverse Scale model function""" |
| inv = self.copy() |
| inv.factor = 1 / self.factor |
| return inv |
|
|
| @staticmethod |
| def evaluate(x, factor): |
| """One dimensional Scale model function""" |
| if isinstance(factor, u.Quantity): |
| factor = factor.value |
|
|
| return factor * x |
|
|
| @staticmethod |
| def fit_deriv(x, *params): |
| """One dimensional Scale model derivative with respect to parameter""" |
|
|
| d_factor = x |
| return [d_factor] |
|
|
| def _parameter_units_for_data_units(self, inputs_unit, outputs_unit): |
| unit = outputs_unit['y'] / inputs_unit['x'] |
| if unit == u.one: |
| unit = None |
| return OrderedDict([('factor', unit)]) |
|
|
|
|
| class Multiply(Fittable1DModel): |
| """ |
| Multiply a model by a quantity or number. |
| |
| Parameters |
| ---------- |
| factor : float |
| Factor by which to multiply a coordinate. |
| """ |
|
|
| inputs = ('x',) |
| outputs = ('y',) |
|
|
| factor = Parameter(default=1) |
| linear = True |
| fittable = True |
|
|
| @property |
| def inverse(self): |
| """One dimensional inverse multiply model function""" |
| inv = self.copy() |
| inv.factor = 1 / self.factor |
| return inv |
|
|
| @staticmethod |
| def evaluate(x, factor): |
| """One dimensional multiply model function""" |
| return factor * x |
|
|
| @staticmethod |
| def fit_deriv(x, *params): |
| """One dimensional multiply model derivative with respect to parameter""" |
|
|
| d_factor = x |
| return [d_factor] |
|
|
| def _parameter_units_for_data_units(self, inputs_unit, outputs_unit): |
| return OrderedDict([('factor', outputs_unit['y'])]) |
|
|
|
|
| class RedshiftScaleFactor(Fittable1DModel): |
| """ |
| One dimensional redshift scale factor model. |
| |
| Parameters |
| ---------- |
| z : float |
| Redshift value. |
| |
| Notes |
| ----- |
| Model formula: |
| |
| .. math:: f(x) = x (1 + z) |
| """ |
|
|
| z = Parameter(description='redshift', default=0) |
|
|
| @staticmethod |
| def evaluate(x, z): |
| """One dimensional RedshiftScaleFactor model function""" |
|
|
| return (1 + z) * x |
|
|
| @staticmethod |
| def fit_deriv(x, z): |
| """One dimensional RedshiftScaleFactor model derivative""" |
|
|
| d_z = x |
| return [d_z] |
|
|
| @property |
| def inverse(self): |
| """Inverse RedshiftScaleFactor model""" |
|
|
| inv = self.copy() |
| inv.z = 1.0 / (1.0 + self.z) - 1.0 |
| return inv |
|
|
|
|
| class Sersic1D(Fittable1DModel): |
| r""" |
| One dimensional Sersic surface brightness profile. |
| |
| Parameters |
| ---------- |
| amplitude : float |
| Surface brightness at r_eff. |
| r_eff : float |
| Effective (half-light) radius |
| n : float |
| Sersic Index. |
| |
| See Also |
| -------- |
| Gaussian1D, Moffat1D, Lorentz1D |
| |
| Notes |
| ----- |
| Model formula: |
| |
| .. math:: |
| |
| I(r)=I_e\exp\left\{-b_n\left[\left(\frac{r}{r_{e}}\right)^{(1/n)}-1\right]\right\} |
| |
| The constant :math:`b_n` is defined such that :math:`r_e` contains half the total |
| luminosity, and can be solved for numerically. |
| |
| .. math:: |
| |
| \Gamma(2n) = 2\gamma (b_n,2n) |
| |
| Examples |
| -------- |
| .. plot:: |
| :include-source: |
| |
| import numpy as np |
| from astropy.modeling.models import Sersic1D |
| import matplotlib.pyplot as plt |
| |
| plt.figure() |
| plt.subplot(111, xscale='log', yscale='log') |
| s1 = Sersic1D(amplitude=1, r_eff=5) |
| r=np.arange(0, 100, .01) |
| |
| for n in range(1, 10): |
| s1.n = n |
| plt.plot(r, s1(r), color=str(float(n) / 15)) |
| |
| plt.axis([1e-1, 30, 1e-2, 1e3]) |
| plt.xlabel('log Radius') |
| plt.ylabel('log Surface Brightness') |
| plt.text(.25, 1.5, 'n=1') |
| plt.text(.25, 300, 'n=10') |
| plt.xticks([]) |
| plt.yticks([]) |
| plt.show() |
| |
| References |
| ---------- |
| .. [1] http://ned.ipac.caltech.edu/level5/March05/Graham/Graham2.html |
| """ |
|
|
| amplitude = Parameter(default=1) |
| r_eff = Parameter(default=1) |
| n = Parameter(default=4) |
| _gammaincinv = None |
|
|
| @classmethod |
| def evaluate(cls, r, amplitude, r_eff, n): |
| """One dimensional Sersic profile function.""" |
|
|
| if cls._gammaincinv is None: |
| try: |
| from scipy.special import gammaincinv |
| cls._gammaincinv = gammaincinv |
| except ValueError: |
| raise ImportError('Sersic1D model requires scipy > 0.11.') |
|
|
| return (amplitude * np.exp( |
| -cls._gammaincinv(2 * n, 0.5) * ((r / r_eff) ** (1 / n) - 1))) |
|
|
| @property |
| def input_units(self): |
| if self.r_eff.unit is None: |
| return None |
| else: |
| return {'x': self.r_eff.unit} |
|
|
| def _parameter_units_for_data_units(self, inputs_unit, outputs_unit): |
| return OrderedDict([('r_eff', inputs_unit['x']), |
| ('amplitude', outputs_unit['y'])]) |
|
|
|
|
| class Sine1D(Fittable1DModel): |
| """ |
| One dimensional Sine model. |
| |
| Parameters |
| ---------- |
| amplitude : float |
| Oscillation amplitude |
| frequency : float |
| Oscillation frequency |
| phase : float |
| Oscillation phase |
| |
| See Also |
| -------- |
| Const1D, Linear1D |
| |
| |
| Notes |
| ----- |
| Model formula: |
| |
| .. math:: f(x) = A \\sin(2 \\pi f x + 2 \\pi p) |
| |
| Examples |
| -------- |
| .. plot:: |
| :include-source: |
| |
| import numpy as np |
| import matplotlib.pyplot as plt |
| |
| from astropy.modeling.models import Sine1D |
| |
| plt.figure() |
| s1 = Sine1D(amplitude=1, frequency=.25) |
| r=np.arange(0, 10, .01) |
| |
| for amplitude in range(1,4): |
| s1.amplitude = amplitude |
| plt.plot(r, s1(r), color=str(0.25 * amplitude), lw=2) |
| |
| plt.axis([0, 10, -5, 5]) |
| plt.show() |
| """ |
|
|
| amplitude = Parameter(default=1) |
| frequency = Parameter(default=1) |
| phase = Parameter(default=0) |
|
|
| @staticmethod |
| def evaluate(x, amplitude, frequency, phase): |
| """One dimensional Sine model function""" |
| |
| |
| |
| |
| |
| argument = TWOPI * (frequency * x + phase) |
| if isinstance(argument, Quantity): |
| argument = argument.value |
| return amplitude * np.sin(argument) |
|
|
| @staticmethod |
| def fit_deriv(x, amplitude, frequency, phase): |
| """One dimensional Sine model derivative""" |
|
|
| d_amplitude = np.sin(TWOPI * frequency * x + TWOPI * phase) |
| d_frequency = (TWOPI * x * amplitude * |
| np.cos(TWOPI * frequency * x + TWOPI * phase)) |
| d_phase = (TWOPI * amplitude * |
| np.cos(TWOPI * frequency * x + TWOPI * phase)) |
| return [d_amplitude, d_frequency, d_phase] |
|
|
| @property |
| def input_units(self): |
| if self.frequency.unit is None: |
| return None |
| else: |
| return {'x': 1. / self.frequency.unit} |
|
|
| def _parameter_units_for_data_units(self, inputs_unit, outputs_unit): |
| return OrderedDict([('frequency', inputs_unit['x'] ** -1), |
| ('amplitude', outputs_unit['y'])]) |
|
|
|
|
| class Linear1D(Fittable1DModel): |
| """ |
| One dimensional Line model. |
| |
| Parameters |
| ---------- |
| slope : float |
| Slope of the straight line |
| |
| intercept : float |
| Intercept of the straight line |
| |
| See Also |
| -------- |
| Const1D |
| |
| Notes |
| ----- |
| Model formula: |
| |
| .. math:: f(x) = a x + b |
| """ |
|
|
| slope = Parameter(default=1) |
| intercept = Parameter(default=0) |
| linear = True |
|
|
| @staticmethod |
| def evaluate(x, slope, intercept): |
| """One dimensional Line model function""" |
|
|
| return slope * x + intercept |
|
|
| @staticmethod |
| def fit_deriv(x, slope, intercept): |
| """One dimensional Line model derivative with respect to parameters""" |
|
|
| d_slope = x |
| d_intercept = np.ones_like(x) |
| return [d_slope, d_intercept] |
|
|
| @property |
| def inverse(self): |
| new_slope = self.slope ** -1 |
| new_intercept = -self.intercept / self.slope |
| return self.__class__(slope=new_slope, intercept=new_intercept) |
|
|
| @property |
| def input_units(self): |
| if self.intercept.unit is None and self.slope.unit is None: |
| return None |
| else: |
| return {'x': self.intercept.unit / self.slope.unit} |
|
|
| def _parameter_units_for_data_units(self, inputs_unit, outputs_unit): |
| return OrderedDict([('intercept', outputs_unit['y']), |
| ('slope', outputs_unit['y'] / inputs_unit['x'])]) |
|
|
|
|
| class Planar2D(Fittable2DModel): |
| """ |
| Two dimensional Plane model. |
| |
| Parameters |
| ---------- |
| slope_x : float |
| Slope of the straight line in X |
| |
| slope_y : float |
| Slope of the straight line in Y |
| |
| intercept : float |
| Z-intercept of the straight line |
| |
| Notes |
| ----- |
| Model formula: |
| |
| .. math:: f(x, y) = a x + b y + c |
| """ |
|
|
| slope_x = Parameter(default=1) |
| slope_y = Parameter(default=1) |
| intercept = Parameter(default=0) |
| linear = True |
|
|
| @staticmethod |
| def evaluate(x, y, slope_x, slope_y, intercept): |
| """Two dimensional Plane model function""" |
|
|
| return slope_x * x + slope_y * y + intercept |
|
|
| @staticmethod |
| def fit_deriv(x, y, slope_x, slope_y, intercept): |
| """Two dimensional Plane model derivative with respect to parameters""" |
|
|
| d_slope_x = x |
| d_slope_y = y |
| d_intercept = np.ones_like(x) |
| return [d_slope_x, d_slope_y, d_intercept] |
|
|
| def _parameter_units_for_data_units(self, inputs_unit, outputs_unit): |
| return OrderedDict([('intercept', outputs_unit['z']), |
| ('slope_x', outputs_unit['z'] / inputs_unit['x']), |
| ('slope_y', outputs_unit['z'] / inputs_unit['y'])]) |
|
|
|
|
| class Lorentz1D(Fittable1DModel): |
| """ |
| One dimensional Lorentzian model. |
| |
| Parameters |
| ---------- |
| amplitude : float |
| Peak value |
| x_0 : float |
| Position of the peak |
| fwhm : float |
| Full width at half maximum |
| |
| See Also |
| -------- |
| Gaussian1D, Box1D, MexicanHat1D |
| |
| Notes |
| ----- |
| Model formula: |
| |
| .. math:: |
| |
| f(x) = \\frac{A \\gamma^{2}}{\\gamma^{2} + \\left(x - x_{0}\\right)^{2}} |
| |
| Examples |
| -------- |
| .. plot:: |
| :include-source: |
| |
| import numpy as np |
| import matplotlib.pyplot as plt |
| |
| from astropy.modeling.models import Lorentz1D |
| |
| plt.figure() |
| s1 = Lorentz1D() |
| r = np.arange(-5, 5, .01) |
| |
| for factor in range(1, 4): |
| s1.amplitude = factor |
| plt.plot(r, s1(r), color=str(0.25 * factor), lw=2) |
| |
| plt.axis([-5, 5, -1, 4]) |
| plt.show() |
| """ |
|
|
| amplitude = Parameter(default=1) |
| x_0 = Parameter(default=0) |
| fwhm = Parameter(default=1) |
|
|
| @staticmethod |
| def evaluate(x, amplitude, x_0, fwhm): |
| """One dimensional Lorentzian model function""" |
|
|
| return (amplitude * ((fwhm / 2.) ** 2) / ((x - x_0) ** 2 + |
| (fwhm / 2.) ** 2)) |
|
|
| @staticmethod |
| def fit_deriv(x, amplitude, x_0, fwhm): |
| """One dimensional Lorentzian model derivative with respect to parameters""" |
|
|
| d_amplitude = fwhm ** 2 / (fwhm ** 2 + (x - x_0) ** 2) |
| d_x_0 = (amplitude * d_amplitude * (2 * x - 2 * x_0) / |
| (fwhm ** 2 + (x - x_0) ** 2)) |
| d_fwhm = 2 * amplitude * d_amplitude / fwhm * (1 - d_amplitude) |
| return [d_amplitude, d_x_0, d_fwhm] |
|
|
| def bounding_box(self, factor=25): |
| """Tuple defining the default ``bounding_box`` limits, |
| ``(x_low, x_high)``. |
| |
| Parameters |
| ---------- |
| factor : float |
| The multiple of FWHM used to define the limits. |
| Default is chosen to include most (99%) of the |
| area under the curve, while still showing the |
| central feature of interest. |
| |
| """ |
| x0 = self.x_0 |
| dx = factor * self.fwhm |
|
|
| return (x0 - dx, x0 + dx) |
|
|
| @property |
| def input_units(self): |
| if self.x_0.unit is None: |
| return None |
| else: |
| return {'x': self.x_0.unit} |
|
|
| def _parameter_units_for_data_units(self, inputs_unit, outputs_unit): |
| return OrderedDict([('x_0', inputs_unit['x']), |
| ('fwhm', inputs_unit['x']), |
| ('amplitude', outputs_unit['y'])]) |
|
|
|
|
| class Voigt1D(Fittable1DModel): |
| """ |
| One dimensional model for the Voigt profile. |
| |
| Parameters |
| ---------- |
| x_0 : float |
| Position of the peak |
| amplitude_L : float |
| The Lorentzian amplitude |
| fwhm_L : float |
| The Lorentzian full width at half maximum |
| fwhm_G : float |
| The Gaussian full width at half maximum |
| |
| See Also |
| -------- |
| Gaussian1D, Lorentz1D |
| |
| Notes |
| ----- |
| Algorithm for the computation taken from |
| McLean, A. B., Mitchell, C. E. J. & Swanston, D. M. Implementation of an |
| efficient analytical approximation to the Voigt function for photoemission |
| lineshape analysis. Journal of Electron Spectroscopy and Related Phenomena |
| 69, 125-132 (1994) |
| |
| Examples |
| -------- |
| .. plot:: |
| :include-source: |
| |
| import numpy as np |
| from astropy.modeling.models import Voigt1D |
| import matplotlib.pyplot as plt |
| |
| plt.figure() |
| x = np.arange(0, 10, 0.01) |
| v1 = Voigt1D(x_0=5, amplitude_L=10, fwhm_L=0.5, fwhm_G=0.9) |
| plt.plot(x, v1(x)) |
| plt.show() |
| """ |
|
|
| x_0 = Parameter(default=0) |
| amplitude_L = Parameter(default=1) |
| fwhm_L = Parameter(default=2/np.pi) |
| fwhm_G = Parameter(default=np.log(2)) |
|
|
| _abcd = np.array([ |
| [-1.2150, -1.3509, -1.2150, -1.3509], |
| [1.2359, 0.3786, -1.2359, -0.3786], |
| [-0.3085, 0.5906, -0.3085, 0.5906], |
| [0.0210, -1.1858, -0.0210, 1.1858]]) |
|
|
| @classmethod |
| def evaluate(cls, x, x_0, amplitude_L, fwhm_L, fwhm_G): |
|
|
| A, B, C, D = cls._abcd |
| sqrt_ln2 = np.sqrt(np.log(2)) |
| X = (x - x_0) * 2 * sqrt_ln2 / fwhm_G |
| X = np.atleast_1d(X)[..., np.newaxis] |
| Y = fwhm_L * sqrt_ln2 / fwhm_G |
| Y = np.atleast_1d(Y)[..., np.newaxis] |
|
|
| V = np.sum((C * (Y - A) + D * (X - B))/(((Y - A) ** 2 + (X - B) ** 2)), axis=-1) |
|
|
| return (fwhm_L * amplitude_L * np.sqrt(np.pi) * sqrt_ln2 / fwhm_G) * V |
|
|
| @classmethod |
| def fit_deriv(cls, x, x_0, amplitude_L, fwhm_L, fwhm_G): |
|
|
| A, B, C, D = cls._abcd |
| sqrt_ln2 = np.sqrt(np.log(2)) |
| X = (x - x_0) * 2 * sqrt_ln2 / fwhm_G |
| X = np.atleast_1d(X)[:, np.newaxis] |
| Y = fwhm_L * sqrt_ln2 / fwhm_G |
| Y = np.atleast_1d(Y)[:, np.newaxis] |
| constant = fwhm_L * amplitude_L * np.sqrt(np.pi) * sqrt_ln2 / fwhm_G |
|
|
| alpha = C * (Y - A) + D * (X - B) |
| beta = (Y - A) ** 2 + (X - B) ** 2 |
| V = np.sum((alpha / beta), axis=-1) |
| dVdx = np.sum((D/beta - 2 * (X - B) * alpha / np.square(beta)), axis=-1) |
| dVdy = np.sum((C/beta - 2 * (Y - A) * alpha / np.square(beta)), axis=-1) |
|
|
| dyda = [-constant * dVdx * 2 * sqrt_ln2 / fwhm_G, |
| constant * V / amplitude_L, |
| constant * (V / fwhm_L + dVdy * sqrt_ln2 / fwhm_G), |
| -constant * (V + (sqrt_ln2 / fwhm_G) * (2 * (x - x_0) * dVdx + fwhm_L * dVdy)) / fwhm_G] |
| return dyda |
|
|
| @property |
| def input_units(self): |
| if self.x_0.unit is None: |
| return None |
| else: |
| return {'x': self.x_0.unit} |
|
|
| def _parameter_units_for_data_units(self, inputs_unit, outputs_unit): |
| return OrderedDict([('x_0', inputs_unit['x']), |
| ('fwhm_L', inputs_unit['x']), |
| ('fwhm_G', inputs_unit['x']), |
| ('amplitude_L', outputs_unit['y'])]) |
|
|
|
|
| class Const1D(Fittable1DModel): |
| """ |
| One dimensional Constant model. |
| |
| Parameters |
| ---------- |
| amplitude : float |
| Value of the constant function |
| |
| See Also |
| -------- |
| Const2D |
| |
| Notes |
| ----- |
| Model formula: |
| |
| .. math:: f(x) = A |
| |
| Examples |
| -------- |
| .. plot:: |
| :include-source: |
| |
| import numpy as np |
| import matplotlib.pyplot as plt |
| |
| from astropy.modeling.models import Const1D |
| |
| plt.figure() |
| s1 = Const1D() |
| r = np.arange(-5, 5, .01) |
| |
| for factor in range(1, 4): |
| s1.amplitude = factor |
| plt.plot(r, s1(r), color=str(0.25 * factor), lw=2) |
| |
| plt.axis([-5, 5, -1, 4]) |
| plt.show() |
| """ |
|
|
| amplitude = Parameter(default=1) |
| linear = True |
|
|
| @staticmethod |
| def evaluate(x, amplitude): |
| """One dimensional Constant model function""" |
|
|
| if amplitude.size == 1: |
| |
| x = np.empty_like(x, subok=False) |
| x.fill(amplitude.item()) |
| else: |
| |
| |
| x = amplitude * np.ones_like(x, subok=False) |
|
|
| if isinstance(amplitude, Quantity): |
| return Quantity(x, unit=amplitude.unit, copy=False) |
| else: |
| return x |
|
|
| @staticmethod |
| def fit_deriv(x, amplitude): |
| """One dimensional Constant model derivative with respect to parameters""" |
|
|
| d_amplitude = np.ones_like(x) |
| return [d_amplitude] |
|
|
| @property |
| def input_units(self): |
| return None |
|
|
| def _parameter_units_for_data_units(self, inputs_unit, outputs_unit): |
| return OrderedDict([('amplitude', outputs_unit['y'])]) |
|
|
|
|
| class Const2D(Fittable2DModel): |
| """ |
| Two dimensional Constant model. |
| |
| Parameters |
| ---------- |
| amplitude : float |
| Value of the constant function |
| |
| See Also |
| -------- |
| Const1D |
| |
| Notes |
| ----- |
| Model formula: |
| |
| .. math:: f(x, y) = A |
| """ |
|
|
| amplitude = Parameter(default=1) |
| linear = True |
|
|
| @staticmethod |
| def evaluate(x, y, amplitude): |
| """Two dimensional Constant model function""" |
|
|
| if amplitude.size == 1: |
| |
| x = np.empty_like(x, subok=False) |
| x.fill(amplitude.item()) |
| else: |
| |
| |
| x = amplitude * np.ones_like(x, subok=False) |
|
|
| if isinstance(amplitude, Quantity): |
| return Quantity(x, unit=amplitude.unit, copy=False) |
| else: |
| return x |
|
|
| @property |
| def input_units(self): |
| return None |
|
|
| def _parameter_units_for_data_units(self, inputs_unit, outputs_unit): |
| return OrderedDict([('amplitude', outputs_unit['z'])]) |
|
|
|
|
| class Ellipse2D(Fittable2DModel): |
| """ |
| A 2D Ellipse model. |
| |
| Parameters |
| ---------- |
| amplitude : float |
| Value of the ellipse. |
| |
| x_0 : float |
| x position of the center of the disk. |
| |
| y_0 : float |
| y position of the center of the disk. |
| |
| a : float |
| The length of the semimajor axis. |
| |
| b : float |
| The length of the semiminor axis. |
| |
| theta : float |
| The rotation angle in radians of the semimajor axis. The |
| rotation angle increases counterclockwise from the positive x |
| axis. |
| |
| See Also |
| -------- |
| Disk2D, Box2D |
| |
| Notes |
| ----- |
| Model formula: |
| |
| .. math:: |
| |
| f(x, y) = \\left \\{ |
| \\begin{array}{ll} |
| \\mathrm{amplitude} & : \\left[\\frac{(x - x_0) \\cos |
| \\theta + (y - y_0) \\sin \\theta}{a}\\right]^2 + |
| \\left[\\frac{-(x - x_0) \\sin \\theta + (y - y_0) |
| \\cos \\theta}{b}\\right]^2 \\leq 1 \\\\ |
| 0 & : \\mathrm{otherwise} |
| \\end{array} |
| \\right. |
| |
| Examples |
| -------- |
| .. plot:: |
| :include-source: |
| |
| import numpy as np |
| from astropy.modeling.models import Ellipse2D |
| from astropy.coordinates import Angle |
| import matplotlib.pyplot as plt |
| import matplotlib.patches as mpatches |
| x0, y0 = 25, 25 |
| a, b = 20, 10 |
| theta = Angle(30, 'deg') |
| e = Ellipse2D(amplitude=100., x_0=x0, y_0=y0, a=a, b=b, |
| theta=theta.radian) |
| y, x = np.mgrid[0:50, 0:50] |
| fig, ax = plt.subplots(1, 1) |
| ax.imshow(e(x, y), origin='lower', interpolation='none', cmap='Greys_r') |
| e2 = mpatches.Ellipse((x0, y0), 2*a, 2*b, theta.degree, edgecolor='red', |
| facecolor='none') |
| ax.add_patch(e2) |
| plt.show() |
| """ |
|
|
| amplitude = Parameter(default=1) |
| x_0 = Parameter(default=0) |
| y_0 = Parameter(default=0) |
| a = Parameter(default=1) |
| b = Parameter(default=1) |
| theta = Parameter(default=0) |
|
|
| @staticmethod |
| def evaluate(x, y, amplitude, x_0, y_0, a, b, theta): |
| """Two dimensional Ellipse model function.""" |
|
|
| xx = x - x_0 |
| yy = y - y_0 |
| cost = np.cos(theta) |
| sint = np.sin(theta) |
| numerator1 = (xx * cost) + (yy * sint) |
| numerator2 = -(xx * sint) + (yy * cost) |
| in_ellipse = (((numerator1 / a) ** 2 + (numerator2 / b) ** 2) <= 1.) |
| result = np.select([in_ellipse], [amplitude]) |
|
|
| if isinstance(amplitude, Quantity): |
| return Quantity(result, unit=amplitude.unit, copy=False) |
| else: |
| return result |
|
|
| @property |
| def bounding_box(self): |
| """ |
| Tuple defining the default ``bounding_box`` limits. |
| |
| ``((y_low, y_high), (x_low, x_high))`` |
| """ |
|
|
| a = self.a |
| b = self.b |
| theta = self.theta.value |
| dx, dy = ellipse_extent(a, b, theta) |
|
|
| return ((self.y_0 - dy, self.y_0 + dy), |
| (self.x_0 - dx, self.x_0 + dx)) |
|
|
| @property |
| def input_units(self): |
| if self.x_0.unit is None: |
| return None |
| else: |
| return {'x': self.x_0.unit, |
| 'y': self.y_0.unit} |
|
|
| def _parameter_units_for_data_units(self, inputs_unit, outputs_unit): |
| |
| |
| |
| if inputs_unit['x'] != inputs_unit['y']: |
| raise UnitsError("Units of 'x' and 'y' inputs should match") |
| return OrderedDict([('x_0', inputs_unit['x']), |
| ('y_0', inputs_unit['x']), |
| ('a', inputs_unit['x']), |
| ('b', inputs_unit['x']), |
| ('theta', u.rad), |
| ('amplitude', outputs_unit['z'])]) |
|
|
|
|
| class Disk2D(Fittable2DModel): |
| """ |
| Two dimensional radial symmetric Disk model. |
| |
| Parameters |
| ---------- |
| amplitude : float |
| Value of the disk function |
| x_0 : float |
| x position center of the disk |
| y_0 : float |
| y position center of the disk |
| R_0 : float |
| Radius of the disk |
| |
| See Also |
| -------- |
| Box2D, TrapezoidDisk2D |
| |
| Notes |
| ----- |
| Model formula: |
| |
| .. math:: |
| |
| f(r) = \\left \\{ |
| \\begin{array}{ll} |
| A & : r \\leq R_0 \\\\ |
| 0 & : r > R_0 |
| \\end{array} |
| \\right. |
| """ |
|
|
| amplitude = Parameter(default=1) |
| x_0 = Parameter(default=0) |
| y_0 = Parameter(default=0) |
| R_0 = Parameter(default=1) |
|
|
| @staticmethod |
| def evaluate(x, y, amplitude, x_0, y_0, R_0): |
| """Two dimensional Disk model function""" |
|
|
| rr = (x - x_0) ** 2 + (y - y_0) ** 2 |
| result = np.select([rr <= R_0 ** 2], [amplitude]) |
|
|
| if isinstance(amplitude, Quantity): |
| return Quantity(result, unit=amplitude.unit, copy=False) |
| else: |
| return result |
|
|
| @property |
| def bounding_box(self): |
| """ |
| Tuple defining the default ``bounding_box`` limits. |
| |
| ``((y_low, y_high), (x_low, x_high))`` |
| """ |
|
|
| return ((self.y_0 - self.R_0, self.y_0 + self.R_0), |
| (self.x_0 - self.R_0, self.x_0 + self.R_0)) |
|
|
| @property |
| def input_units(self): |
| if self.x_0.unit is None and self.y_0.unit is None: |
| return None |
| else: |
| return {'x': self.x_0.unit, |
| 'y': self.y_0.unit} |
|
|
| def _parameter_units_for_data_units(self, inputs_unit, outputs_unit): |
| |
| |
| |
| if inputs_unit['x'] != inputs_unit['y']: |
| raise UnitsError("Units of 'x' and 'y' inputs should match") |
| return OrderedDict([('x_0', inputs_unit['x']), |
| ('y_0', inputs_unit['x']), |
| ('R_0', inputs_unit['x']), |
| ('amplitude', outputs_unit['z'])]) |
|
|
|
|
| class Ring2D(Fittable2DModel): |
| """ |
| Two dimensional radial symmetric Ring model. |
| |
| Parameters |
| ---------- |
| amplitude : float |
| Value of the disk function |
| x_0 : float |
| x position center of the disk |
| y_0 : float |
| y position center of the disk |
| r_in : float |
| Inner radius of the ring |
| width : float |
| Width of the ring. |
| r_out : float |
| Outer Radius of the ring. Can be specified instead of width. |
| |
| See Also |
| -------- |
| Disk2D, TrapezoidDisk2D |
| |
| Notes |
| ----- |
| Model formula: |
| |
| .. math:: |
| |
| f(r) = \\left \\{ |
| \\begin{array}{ll} |
| A & : r_{in} \\leq r \\leq r_{out} \\\\ |
| 0 & : \\text{else} |
| \\end{array} |
| \\right. |
| |
| Where :math:`r_{out} = r_{in} + r_{width}`. |
| """ |
|
|
| amplitude = Parameter(default=1) |
| x_0 = Parameter(default=0) |
| y_0 = Parameter(default=0) |
| r_in = Parameter(default=1) |
| width = Parameter(default=1) |
|
|
| def __init__(self, amplitude=amplitude.default, x_0=x_0.default, |
| y_0=y_0.default, r_in=r_in.default, width=width.default, |
| r_out=None, **kwargs): |
| |
| if r_out is not None: |
| if width != self.width.default: |
| raise InputParameterError( |
| "Cannot specify both width and outer radius separately.") |
| width = r_out - r_in |
| elif width is None: |
| width = self.width.default |
|
|
| super().__init__( |
| amplitude=amplitude, x_0=x_0, y_0=y_0, r_in=r_in, width=width, |
| **kwargs) |
|
|
| @staticmethod |
| def evaluate(x, y, amplitude, x_0, y_0, r_in, width): |
| """Two dimensional Ring model function.""" |
|
|
| rr = (x - x_0) ** 2 + (y - y_0) ** 2 |
| r_range = np.logical_and(rr >= r_in ** 2, rr <= (r_in + width) ** 2) |
| result = np.select([r_range], [amplitude]) |
|
|
| if isinstance(amplitude, Quantity): |
| return Quantity(result, unit=amplitude.unit, copy=False) |
| else: |
| return result |
|
|
| @property |
| def bounding_box(self): |
| """ |
| Tuple defining the default ``bounding_box``. |
| |
| ``((y_low, y_high), (x_low, x_high))`` |
| """ |
|
|
| dr = self.r_in + self.width |
|
|
| return ((self.y_0 - dr, self.y_0 + dr), |
| (self.x_0 - dr, self.x_0 + dr)) |
|
|
| @property |
| def input_units(self): |
| if self.x_0.unit is None: |
| return None |
| else: |
| return {'x': self.x_0.unit, |
| 'y': self.y_0.unit} |
|
|
| def _parameter_units_for_data_units(self, inputs_unit, outputs_unit): |
| |
| |
| |
| if inputs_unit['x'] != inputs_unit['y']: |
| raise UnitsError("Units of 'x' and 'y' inputs should match") |
| return OrderedDict([('x_0', inputs_unit['x']), |
| ('y_0', inputs_unit['x']), |
| ('r_in', inputs_unit['x']), |
| ('width', inputs_unit['x']), |
| ('amplitude', outputs_unit['z'])]) |
|
|
|
|
| class Delta1D(Fittable1DModel): |
| """One dimensional Dirac delta function.""" |
|
|
| def __init__(self): |
| raise ModelDefinitionError("Not implemented") |
|
|
|
|
| class Delta2D(Fittable2DModel): |
| """Two dimensional Dirac delta function.""" |
|
|
| def __init__(self): |
| raise ModelDefinitionError("Not implemented") |
|
|
|
|
| class Box1D(Fittable1DModel): |
| """ |
| One dimensional Box model. |
| |
| Parameters |
| ---------- |
| amplitude : float |
| Amplitude A |
| x_0 : float |
| Position of the center of the box function |
| width : float |
| Width of the box |
| |
| See Also |
| -------- |
| Box2D, TrapezoidDisk2D |
| |
| Notes |
| ----- |
| Model formula: |
| |
| .. math:: |
| |
| f(x) = \\left \\{ |
| \\begin{array}{ll} |
| A & : x_0 - w/2 \\leq x \\leq x_0 + w/2 \\\\ |
| 0 & : \\text{else} |
| \\end{array} |
| \\right. |
| |
| Examples |
| -------- |
| .. plot:: |
| :include-source: |
| |
| import numpy as np |
| import matplotlib.pyplot as plt |
| |
| from astropy.modeling.models import Box1D |
| |
| plt.figure() |
| s1 = Box1D() |
| r = np.arange(-5, 5, .01) |
| |
| for factor in range(1, 4): |
| s1.amplitude = factor |
| s1.width = factor |
| plt.plot(r, s1(r), color=str(0.25 * factor), lw=2) |
| |
| plt.axis([-5, 5, -1, 4]) |
| plt.show() |
| """ |
|
|
| amplitude = Parameter(default=1) |
| x_0 = Parameter(default=0) |
| width = Parameter(default=1) |
|
|
| @staticmethod |
| def evaluate(x, amplitude, x_0, width): |
| """One dimensional Box model function""" |
|
|
| inside = np.logical_and(x >= x_0 - width / 2., x <= x_0 + width / 2.) |
| result = np.select([inside], [amplitude], 0) |
|
|
| if isinstance(amplitude, Quantity): |
| return Quantity(result, unit=amplitude.unit, copy=False) |
| else: |
| return result |
|
|
| @property |
| def bounding_box(self): |
| """ |
| Tuple defining the default ``bounding_box`` limits. |
| |
| ``(x_low, x_high))`` |
| """ |
|
|
| dx = self.width / 2 |
|
|
| return (self.x_0 - dx, self.x_0 + dx) |
|
|
| @property |
| def input_units(self): |
| if self.x_0.unit is None: |
| return None |
| else: |
| return {'x': self.x_0.unit} |
|
|
| def _parameter_units_for_data_units(self, inputs_unit, outputs_unit): |
| return OrderedDict([('x_0', inputs_unit['x']), |
| ('width', inputs_unit['x']), |
| ('amplitude', outputs_unit['y'])]) |
|
|
|
|
| class Box2D(Fittable2DModel): |
| """ |
| Two dimensional Box model. |
| |
| Parameters |
| ---------- |
| amplitude : float |
| Amplitude A |
| x_0 : float |
| x position of the center of the box function |
| x_width : float |
| Width in x direction of the box |
| y_0 : float |
| y position of the center of the box function |
| y_width : float |
| Width in y direction of the box |
| |
| See Also |
| -------- |
| Box1D, Gaussian2D, Moffat2D |
| |
| Notes |
| ----- |
| Model formula: |
| |
| .. math:: |
| |
| f(x, y) = \\left \\{ |
| \\begin{array}{ll} |
| A : & x_0 - w_x/2 \\leq x \\leq x_0 + w_x/2 \\text{ and} \\\\ |
| & y_0 - w_y/2 \\leq y \\leq y_0 + w_y/2 \\\\ |
| 0 : & \\text{else} |
| \\end{array} |
| \\right. |
| |
| """ |
|
|
| amplitude = Parameter(default=1) |
| x_0 = Parameter(default=0) |
| y_0 = Parameter(default=0) |
| x_width = Parameter(default=1) |
| y_width = Parameter(default=1) |
|
|
| @staticmethod |
| def evaluate(x, y, amplitude, x_0, y_0, x_width, y_width): |
| """Two dimensional Box model function""" |
|
|
| x_range = np.logical_and(x >= x_0 - x_width / 2., |
| x <= x_0 + x_width / 2.) |
| y_range = np.logical_and(y >= y_0 - y_width / 2., |
| y <= y_0 + y_width / 2.) |
|
|
| result = np.select([np.logical_and(x_range, y_range)], [amplitude], 0) |
|
|
| if isinstance(amplitude, Quantity): |
| return Quantity(result, unit=amplitude.unit, copy=False) |
| else: |
| return result |
|
|
| @property |
| def bounding_box(self): |
| """ |
| Tuple defining the default ``bounding_box``. |
| |
| ``((y_low, y_high), (x_low, x_high))`` |
| """ |
|
|
| dx = self.x_width / 2 |
| dy = self.y_width / 2 |
|
|
| return ((self.y_0 - dy, self.y_0 + dy), |
| (self.x_0 - dx, self.x_0 + dx)) |
|
|
| @property |
| def input_units(self): |
| if self.x_0.unit is None: |
| return None |
| else: |
| return {'x': self.x_0.unit, |
| 'y': self.y_0.unit} |
|
|
| def _parameter_units_for_data_units(self, inputs_unit, outputs_unit): |
| return OrderedDict([('x_0', inputs_unit['x']), |
| ('y_0', inputs_unit['y']), |
| ('x_width', inputs_unit['x']), |
| ('y_width', inputs_unit['y']), |
| ('amplitude', outputs_unit['z'])]) |
|
|
|
|
| class Trapezoid1D(Fittable1DModel): |
| """ |
| One dimensional Trapezoid model. |
| |
| Parameters |
| ---------- |
| amplitude : float |
| Amplitude of the trapezoid |
| x_0 : float |
| Center position of the trapezoid |
| width : float |
| Width of the constant part of the trapezoid. |
| slope : float |
| Slope of the tails of the trapezoid |
| |
| See Also |
| -------- |
| Box1D, Gaussian1D, Moffat1D |
| |
| Examples |
| -------- |
| .. plot:: |
| :include-source: |
| |
| import numpy as np |
| import matplotlib.pyplot as plt |
| |
| from astropy.modeling.models import Trapezoid1D |
| |
| plt.figure() |
| s1 = Trapezoid1D() |
| r = np.arange(-5, 5, .01) |
| |
| for factor in range(1, 4): |
| s1.amplitude = factor |
| s1.width = factor |
| plt.plot(r, s1(r), color=str(0.25 * factor), lw=2) |
| |
| plt.axis([-5, 5, -1, 4]) |
| plt.show() |
| """ |
|
|
| amplitude = Parameter(default=1) |
| x_0 = Parameter(default=0) |
| width = Parameter(default=1) |
| slope = Parameter(default=1) |
|
|
| @staticmethod |
| def evaluate(x, amplitude, x_0, width, slope): |
| """One dimensional Trapezoid model function""" |
|
|
| |
| |
| x2 = x_0 - width / 2. |
| x3 = x_0 + width / 2. |
| x1 = x2 - amplitude / slope |
| x4 = x3 + amplitude / slope |
|
|
| |
| range_a = np.logical_and(x >= x1, x < x2) |
| range_b = np.logical_and(x >= x2, x < x3) |
| range_c = np.logical_and(x >= x3, x < x4) |
| val_a = slope * (x - x1) |
| val_b = amplitude |
| val_c = slope * (x4 - x) |
| result = np.select([range_a, range_b, range_c], [val_a, val_b, val_c]) |
|
|
| if isinstance(amplitude, Quantity): |
| return Quantity(result, unit=amplitude.unit, copy=False) |
| else: |
| return result |
|
|
| @property |
| def bounding_box(self): |
| """ |
| Tuple defining the default ``bounding_box`` limits. |
| |
| ``(x_low, x_high))`` |
| """ |
|
|
| dx = self.width / 2 + self.amplitude / self.slope |
|
|
| return (self.x_0 - dx, self.x_0 + dx) |
|
|
| @property |
| def input_units(self): |
| if self.x_0.unit is None: |
| return None |
| else: |
| return {'x': self.x_0.unit} |
|
|
| def _parameter_units_for_data_units(self, inputs_unit, outputs_unit): |
| return OrderedDict([('x_0', inputs_unit['x']), |
| ('width', inputs_unit['x']), |
| ('slope', outputs_unit['y'] / inputs_unit['x']), |
| ('amplitude', outputs_unit['y'])]) |
|
|
|
|
| class TrapezoidDisk2D(Fittable2DModel): |
| """ |
| Two dimensional circular Trapezoid model. |
| |
| Parameters |
| ---------- |
| amplitude : float |
| Amplitude of the trapezoid |
| x_0 : float |
| x position of the center of the trapezoid |
| y_0 : float |
| y position of the center of the trapezoid |
| R_0 : float |
| Radius of the constant part of the trapezoid. |
| slope : float |
| Slope of the tails of the trapezoid in x direction. |
| |
| See Also |
| -------- |
| Disk2D, Box2D |
| """ |
|
|
| amplitude = Parameter(default=1) |
| x_0 = Parameter(default=0) |
| y_0 = Parameter(default=0) |
| R_0 = Parameter(default=1) |
| slope = Parameter(default=1) |
|
|
| @staticmethod |
| def evaluate(x, y, amplitude, x_0, y_0, R_0, slope): |
| """Two dimensional Trapezoid Disk model function""" |
|
|
| r = np.sqrt((x - x_0) ** 2 + (y - y_0) ** 2) |
| range_1 = r <= R_0 |
| range_2 = np.logical_and(r > R_0, r <= R_0 + amplitude / slope) |
| val_1 = amplitude |
| val_2 = amplitude + slope * (R_0 - r) |
| result = np.select([range_1, range_2], [val_1, val_2]) |
|
|
| if isinstance(amplitude, Quantity): |
| return Quantity(result, unit=amplitude.unit, copy=False) |
| else: |
| return result |
|
|
| @property |
| def bounding_box(self): |
| """ |
| Tuple defining the default ``bounding_box``. |
| |
| ``((y_low, y_high), (x_low, x_high))`` |
| """ |
|
|
| dr = self.R_0 + self.amplitude / self.slope |
|
|
| return ((self.y_0 - dr, self.y_0 + dr), |
| (self.x_0 - dr, self.x_0 + dr)) |
|
|
| @property |
| def input_units(self): |
| if self.x_0.unit is None and self.y_0.unit is None: |
| return None |
| else: |
| return {'x': self.x_0.unit, |
| 'y': self.y_0.unit} |
|
|
| def _parameter_units_for_data_units(self, inputs_unit, outputs_unit): |
| |
| |
| |
| if inputs_unit['x'] != inputs_unit['y']: |
| raise UnitsError("Units of 'x' and 'y' inputs should match") |
| return OrderedDict([('x_0', inputs_unit['x']), |
| ('y_0', inputs_unit['x']), |
| ('R_0', inputs_unit['x']), |
| ('slope', outputs_unit['z'] / inputs_unit['x']), |
| ('amplitude', outputs_unit['z'])]) |
|
|
|
|
| class MexicanHat1D(Fittable1DModel): |
| """ |
| One dimensional Mexican Hat model. |
| |
| Parameters |
| ---------- |
| amplitude : float |
| Amplitude |
| x_0 : float |
| Position of the peak |
| sigma : float |
| Width of the Mexican hat |
| |
| See Also |
| -------- |
| MexicanHat2D, Box1D, Gaussian1D, Trapezoid1D |
| |
| Notes |
| ----- |
| Model formula: |
| |
| .. math:: |
| |
| f(x) = {A \\left(1 - \\frac{\\left(x - x_{0}\\right)^{2}}{\\sigma^{2}}\\right) |
| e^{- \\frac{\\left(x - x_{0}\\right)^{2}}{2 \\sigma^{2}}}} |
| |
| Examples |
| -------- |
| .. plot:: |
| :include-source: |
| |
| import numpy as np |
| import matplotlib.pyplot as plt |
| |
| from astropy.modeling.models import MexicanHat1D |
| |
| plt.figure() |
| s1 = MexicanHat1D() |
| r = np.arange(-5, 5, .01) |
| |
| for factor in range(1, 4): |
| s1.amplitude = factor |
| s1.width = factor |
| plt.plot(r, s1(r), color=str(0.25 * factor), lw=2) |
| |
| plt.axis([-5, 5, -2, 4]) |
| plt.show() |
| """ |
|
|
| amplitude = Parameter(default=1) |
| x_0 = Parameter(default=0) |
| sigma = Parameter(default=1) |
|
|
| @staticmethod |
| def evaluate(x, amplitude, x_0, sigma): |
| """One dimensional Mexican Hat model function""" |
|
|
| xx_ww = (x - x_0) ** 2 / (2 * sigma ** 2) |
| return amplitude * (1 - 2 * xx_ww) * np.exp(-xx_ww) |
|
|
| def bounding_box(self, factor=10.0): |
| """Tuple defining the default ``bounding_box`` limits, |
| ``(x_low, x_high)``. |
| |
| Parameters |
| ---------- |
| factor : float |
| The multiple of sigma used to define the limits. |
| |
| """ |
| x0 = self.x_0 |
| dx = factor * self.sigma |
|
|
| return (x0 - dx, x0 + dx) |
|
|
| @property |
| def input_units(self): |
| if self.x_0.unit is None: |
| return None |
| else: |
| return {'x': self.x_0.unit} |
|
|
| def _parameter_units_for_data_units(self, inputs_unit, outputs_unit): |
| return OrderedDict([('x_0', inputs_unit['x']), |
| ('sigma', inputs_unit['x']), |
| ('amplitude', outputs_unit['y'])]) |
|
|
|
|
| class MexicanHat2D(Fittable2DModel): |
| """ |
| Two dimensional symmetric Mexican Hat model. |
| |
| Parameters |
| ---------- |
| amplitude : float |
| Amplitude |
| x_0 : float |
| x position of the peak |
| y_0 : float |
| y position of the peak |
| sigma : float |
| Width of the Mexican hat |
| |
| See Also |
| -------- |
| MexicanHat1D, Gaussian2D |
| |
| Notes |
| ----- |
| Model formula: |
| |
| .. math:: |
| |
| f(x, y) = A \\left(1 - \\frac{\\left(x - x_{0}\\right)^{2} |
| + \\left(y - y_{0}\\right)^{2}}{\\sigma^{2}}\\right) |
| e^{\\frac{- \\left(x - x_{0}\\right)^{2} |
| - \\left(y - y_{0}\\right)^{2}}{2 \\sigma^{2}}} |
| """ |
|
|
| amplitude = Parameter(default=1) |
| x_0 = Parameter(default=0) |
| y_0 = Parameter(default=0) |
| sigma = Parameter(default=1) |
|
|
| @staticmethod |
| def evaluate(x, y, amplitude, x_0, y_0, sigma): |
| """Two dimensional Mexican Hat model function""" |
|
|
| rr_ww = ((x - x_0) ** 2 + (y - y_0) ** 2) / (2 * sigma ** 2) |
| return amplitude * (1 - rr_ww) * np.exp(- rr_ww) |
|
|
| @property |
| def input_units(self): |
| if self.x_0.unit is None: |
| return None |
| else: |
| return {'x': self.x_0.unit, |
| 'y': self.y_0.unit} |
|
|
| def _parameter_units_for_data_units(self, inputs_unit, outputs_unit): |
| |
| |
| |
| if inputs_unit['x'] != inputs_unit['y']: |
| raise UnitsError("Units of 'x' and 'y' inputs should match") |
| return OrderedDict([('x_0', inputs_unit['x']), |
| ('y_0', inputs_unit['x']), |
| ('sigma', inputs_unit['x']), |
| ('amplitude', outputs_unit['z'])]) |
|
|
|
|
| class AiryDisk2D(Fittable2DModel): |
| """ |
| Two dimensional Airy disk model. |
| |
| Parameters |
| ---------- |
| amplitude : float |
| Amplitude of the Airy function. |
| x_0 : float |
| x position of the maximum of the Airy function. |
| y_0 : float |
| y position of the maximum of the Airy function. |
| radius : float |
| The radius of the Airy disk (radius of the first zero). |
| |
| See Also |
| -------- |
| Box2D, TrapezoidDisk2D, Gaussian2D |
| |
| Notes |
| ----- |
| Model formula: |
| |
| .. math:: f(r) = A \\left[\\frac{2 J_1(\\frac{\\pi r}{R/R_z})}{\\frac{\\pi r}{R/R_z}}\\right]^2 |
| |
| Where :math:`J_1` is the first order Bessel function of the first |
| kind, :math:`r` is radial distance from the maximum of the Airy |
| function (:math:`r = \\sqrt{(x - x_0)^2 + (y - y_0)^2}`), :math:`R` |
| is the input ``radius`` parameter, and :math:`R_z = |
| 1.2196698912665045`). |
| |
| For an optical system, the radius of the first zero represents the |
| limiting angular resolution and is approximately 1.22 * lambda / D, |
| where lambda is the wavelength of the light and D is the diameter of |
| the aperture. |
| |
| See [1]_ for more details about the Airy disk. |
| |
| References |
| ---------- |
| .. [1] https://en.wikipedia.org/wiki/Airy_disk |
| """ |
|
|
| amplitude = Parameter(default=1) |
| x_0 = Parameter(default=0) |
| y_0 = Parameter(default=0) |
| radius = Parameter(default=1) |
| _rz = None |
| _j1 = None |
|
|
| @classmethod |
| def evaluate(cls, x, y, amplitude, x_0, y_0, radius): |
| """Two dimensional Airy model function""" |
|
|
| if cls._rz is None: |
| try: |
| from scipy.special import j1, jn_zeros |
| cls._rz = jn_zeros(1, 1)[0] / np.pi |
| cls._j1 = j1 |
| except ValueError: |
| raise ImportError('AiryDisk2D model requires scipy > 0.11.') |
|
|
| r = np.sqrt((x - x_0) ** 2 + (y - y_0) ** 2) / (radius / cls._rz) |
|
|
| if isinstance(r, Quantity): |
| |
| r = r.to_value(u.dimensionless_unscaled) |
|
|
| |
| |
| z = np.ones(r.shape) |
| rt = np.pi * r[r > 0] |
| z[r > 0] = (2.0 * cls._j1(rt) / rt) ** 2 |
|
|
| if isinstance(amplitude, Quantity): |
| |
| z = Quantity(z, u.dimensionless_unscaled, copy=False) |
|
|
| z *= amplitude |
| return z |
|
|
| @property |
| def input_units(self): |
| if self.x_0.unit is None: |
| return None |
| else: |
| return {'x': self.x_0.unit, |
| 'y': self.y_0.unit} |
|
|
| def _parameter_units_for_data_units(self, inputs_unit, outputs_unit): |
| |
| |
| |
| if inputs_unit['x'] != inputs_unit['y']: |
| raise UnitsError("Units of 'x' and 'y' inputs should match") |
| return OrderedDict([('x_0', inputs_unit['x']), |
| ('y_0', inputs_unit['x']), |
| ('radius', inputs_unit['x']), |
| ('amplitude', outputs_unit['z'])]) |
|
|
|
|
| class Moffat1D(Fittable1DModel): |
| """ |
| One dimensional Moffat model. |
| |
| Parameters |
| ---------- |
| amplitude : float |
| Amplitude of the model. |
| x_0 : float |
| x position of the maximum of the Moffat model. |
| gamma : float |
| Core width of the Moffat model. |
| alpha : float |
| Power index of the Moffat model. |
| |
| See Also |
| -------- |
| Gaussian1D, Box1D |
| |
| Notes |
| ----- |
| Model formula: |
| |
| .. math:: |
| |
| f(x) = A \\left(1 + \\frac{\\left(x - x_{0}\\right)^{2}}{\\gamma^{2}}\\right)^{- \\alpha} |
| |
| Examples |
| -------- |
| .. plot:: |
| :include-source: |
| |
| import numpy as np |
| import matplotlib.pyplot as plt |
| |
| from astropy.modeling.models import Moffat1D |
| |
| plt.figure() |
| s1 = Moffat1D() |
| r = np.arange(-5, 5, .01) |
| |
| for factor in range(1, 4): |
| s1.amplitude = factor |
| s1.width = factor |
| plt.plot(r, s1(r), color=str(0.25 * factor), lw=2) |
| |
| plt.axis([-5, 5, -1, 4]) |
| plt.show() |
| """ |
|
|
| amplitude = Parameter(default=1) |
| x_0 = Parameter(default=0) |
| gamma = Parameter(default=1) |
| alpha = Parameter(default=1) |
|
|
| @property |
| def fwhm(self): |
| """ |
| Moffat full width at half maximum. |
| Derivation of the formula is available in |
| `this notebook by Yoonsoo Bach <http://nbviewer.jupyter.org/github/ysbach/AO_2017/blob/master/04_Ground_Based_Concept.ipynb#1.2.-Moffat>`_. |
| """ |
| return 2.0 * np.abs(self.gamma) * np.sqrt(2.0 ** (1.0 / self.alpha) - 1.0) |
|
|
| @staticmethod |
| def evaluate(x, amplitude, x_0, gamma, alpha): |
| """One dimensional Moffat model function""" |
|
|
| return amplitude * (1 + ((x - x_0) / gamma) ** 2) ** (-alpha) |
|
|
| @staticmethod |
| def fit_deriv(x, amplitude, x_0, gamma, alpha): |
| """One dimensional Moffat model derivative with respect to parameters""" |
|
|
| fac = (1 + (x - x_0) ** 2 / gamma ** 2) |
| d_A = fac ** (-alpha) |
| d_x_0 = (2 * amplitude * alpha * (x - x_0) * d_A / (fac * gamma ** 2)) |
| d_gamma = (2 * amplitude * alpha * (x - x_0) ** 2 * d_A / |
| (fac * gamma ** 3)) |
| d_alpha = -amplitude * d_A * np.log(fac) |
| return [d_A, d_x_0, d_gamma, d_alpha] |
|
|
| @property |
| def input_units(self): |
| if self.x_0.unit is None: |
| return None |
| else: |
| return {'x': self.x_0.unit} |
|
|
| def _parameter_units_for_data_units(self, inputs_unit, outputs_unit): |
| return OrderedDict([('x_0', inputs_unit['x']), |
| ('gamma', inputs_unit['x']), |
| ('amplitude', outputs_unit['y'])]) |
|
|
|
|
| class Moffat2D(Fittable2DModel): |
| """ |
| Two dimensional Moffat model. |
| |
| Parameters |
| ---------- |
| amplitude : float |
| Amplitude of the model. |
| x_0 : float |
| x position of the maximum of the Moffat model. |
| y_0 : float |
| y position of the maximum of the Moffat model. |
| gamma : float |
| Core width of the Moffat model. |
| alpha : float |
| Power index of the Moffat model. |
| |
| See Also |
| -------- |
| Gaussian2D, Box2D |
| |
| Notes |
| ----- |
| Model formula: |
| |
| .. math:: |
| |
| f(x, y) = A \\left(1 + \\frac{\\left(x - x_{0}\\right)^{2} + |
| \\left(y - y_{0}\\right)^{2}}{\\gamma^{2}}\\right)^{- \\alpha} |
| """ |
|
|
| amplitude = Parameter(default=1) |
| x_0 = Parameter(default=0) |
| y_0 = Parameter(default=0) |
| gamma = Parameter(default=1) |
| alpha = Parameter(default=1) |
|
|
| @property |
| def fwhm(self): |
| """ |
| Moffat full width at half maximum. |
| Derivation of the formula is available in |
| `this notebook by Yoonsoo Bach <http://nbviewer.jupyter.org/github/ysbach/AO_2017/blob/master/04_Ground_Based_Concept.ipynb#1.2.-Moffat>`_. |
| """ |
| return 2.0 * np.abs(self.gamma) * np.sqrt(2.0 ** (1.0 / self.alpha) - 1.0) |
|
|
| @staticmethod |
| def evaluate(x, y, amplitude, x_0, y_0, gamma, alpha): |
| """Two dimensional Moffat model function""" |
|
|
| rr_gg = ((x - x_0) ** 2 + (y - y_0) ** 2) / gamma ** 2 |
| return amplitude * (1 + rr_gg) ** (-alpha) |
|
|
| @staticmethod |
| def fit_deriv(x, y, amplitude, x_0, y_0, gamma, alpha): |
| """Two dimensional Moffat model derivative with respect to parameters""" |
|
|
| rr_gg = ((x - x_0) ** 2 + (y - y_0) ** 2) / gamma ** 2 |
| d_A = (1 + rr_gg) ** (-alpha) |
| d_x_0 = (2 * amplitude * alpha * d_A * (x - x_0) / |
| (gamma ** 2 * (1 + rr_gg))) |
| d_y_0 = (2 * amplitude * alpha * d_A * (y - y_0) / |
| (gamma ** 2 * (1 + rr_gg))) |
| d_alpha = -amplitude * d_A * np.log(1 + rr_gg) |
| d_gamma = (2 * amplitude * alpha * d_A * rr_gg / |
| (gamma ** 3 * (1 + rr_gg))) |
| return [d_A, d_x_0, d_y_0, d_gamma, d_alpha] |
|
|
| @property |
| def input_units(self): |
| if self.x_0.unit is None: |
| return None |
| else: |
| return {'x': self.x_0.unit, |
| 'y': self.y_0.unit} |
|
|
| def _parameter_units_for_data_units(self, inputs_unit, outputs_unit): |
| |
| |
| |
| if inputs_unit['x'] != inputs_unit['y']: |
| raise UnitsError("Units of 'x' and 'y' inputs should match") |
| return OrderedDict([('x_0', inputs_unit['x']), |
| ('y_0', inputs_unit['x']), |
| ('gamma', inputs_unit['x']), |
| ('amplitude', outputs_unit['z'])]) |
|
|
|
|
| class Sersic2D(Fittable2DModel): |
| r""" |
| Two dimensional Sersic surface brightness profile. |
| |
| Parameters |
| ---------- |
| amplitude : float |
| Surface brightness at r_eff. |
| r_eff : float |
| Effective (half-light) radius |
| n : float |
| Sersic Index. |
| x_0 : float, optional |
| x position of the center. |
| y_0 : float, optional |
| y position of the center. |
| ellip : float, optional |
| Ellipticity. |
| theta : float, optional |
| Rotation angle in radians, counterclockwise from |
| the positive x-axis. |
| |
| See Also |
| -------- |
| Gaussian2D, Moffat2D |
| |
| Notes |
| ----- |
| Model formula: |
| |
| .. math:: |
| |
| I(x,y) = I(r) = I_e\exp\left\{-b_n\left[\left(\frac{r}{r_{e}}\right)^{(1/n)}-1\right]\right\} |
| |
| The constant :math:`b_n` is defined such that :math:`r_e` contains half the total |
| luminosity, and can be solved for numerically. |
| |
| .. math:: |
| |
| \Gamma(2n) = 2\gamma (b_n,2n) |
| |
| Examples |
| -------- |
| .. plot:: |
| :include-source: |
| |
| import numpy as np |
| from astropy.modeling.models import Sersic2D |
| import matplotlib.pyplot as plt |
| |
| x,y = np.meshgrid(np.arange(100), np.arange(100)) |
| |
| mod = Sersic2D(amplitude = 1, r_eff = 25, n=4, x_0=50, y_0=50, |
| ellip=.5, theta=-1) |
| img = mod(x, y) |
| log_img = np.log10(img) |
| |
| |
| plt.figure() |
| plt.imshow(log_img, origin='lower', interpolation='nearest', |
| vmin=-1, vmax=2) |
| plt.xlabel('x') |
| plt.ylabel('y') |
| cbar = plt.colorbar() |
| cbar.set_label('Log Brightness', rotation=270, labelpad=25) |
| cbar.set_ticks([-1, 0, 1, 2], update_ticks=True) |
| plt.show() |
| |
| References |
| ---------- |
| .. [1] http://ned.ipac.caltech.edu/level5/March05/Graham/Graham2.html |
| """ |
|
|
| amplitude = Parameter(default=1) |
| r_eff = Parameter(default=1) |
| n = Parameter(default=4) |
| x_0 = Parameter(default=0) |
| y_0 = Parameter(default=0) |
| ellip = Parameter(default=0) |
| theta = Parameter(default=0) |
| _gammaincinv = None |
|
|
| @classmethod |
| def evaluate(cls, x, y, amplitude, r_eff, n, x_0, y_0, ellip, theta): |
| """Two dimensional Sersic profile function.""" |
|
|
| if cls._gammaincinv is None: |
| try: |
| from scipy.special import gammaincinv |
| cls._gammaincinv = gammaincinv |
| except ValueError: |
| raise ImportError('Sersic2D model requires scipy > 0.11.') |
|
|
| bn = cls._gammaincinv(2. * n, 0.5) |
| a, b = r_eff, (1 - ellip) * r_eff |
| cos_theta, sin_theta = np.cos(theta), np.sin(theta) |
| x_maj = (x - x_0) * cos_theta + (y - y_0) * sin_theta |
| x_min = -(x - x_0) * sin_theta + (y - y_0) * cos_theta |
| z = np.sqrt((x_maj / a) ** 2 + (x_min / b) ** 2) |
|
|
| return amplitude * np.exp(-bn * (z ** (1 / n) - 1)) |
|
|
| @property |
| def input_units(self): |
| if self.x_0.unit is None: |
| return None |
| else: |
| return {'x': self.x_0.unit, |
| 'y': self.y_0.unit} |
|
|
| def _parameter_units_for_data_units(self, inputs_unit, outputs_unit): |
| |
| |
| |
| if inputs_unit['x'] != inputs_unit['y']: |
| raise UnitsError("Units of 'x' and 'y' inputs should match") |
| return OrderedDict([('x_0', inputs_unit['x']), |
| ('y_0', inputs_unit['x']), |
| ('r_eff', inputs_unit['x']), |
| ('theta', u.rad), |
| ('amplitude', outputs_unit['z'])]) |
|
|