source: sasview/sansmodels/src/sans/models/OnionModel.py @ da20018

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Last change on this file since da20018 was c7a7e1b, checked in by Gervaise Alina <gervyh@…>, 14 years ago

working on model pickle
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1#!/usr/bin/env python
2
3##############################################################################
4#       This software was developed by the University of Tennessee as part of the
5#       Distributed Data Analysis of Neutron Scattering Experiments (DANSE)
6#       project funded by the US National Science Foundation.
7#
8#       If you use DANSE applications to do scientific research that leads to
9#       publication, we ask that you acknowledge the use of the software with the
10#       following sentence:
11#
12#       "This work benefited from DANSE software developed under NSF award DMR-0520547."
13#
14#       copyright 2008, University of Tennessee
15##############################################################################
16
17
18"""
19Provide functionality for a C extension model
20
21:WARNING: THIS FILE WAS GENERATED BY WRAPPERGENERATOR.PY
22         DO NOT MODIFY THIS FILE, MODIFY ..\c_extensions\onion.h
23         AND RE-RUN THE GENERATOR SCRIPT
24
25"""
26
27from sans.models.BaseComponent import BaseComponent
28from sans_extension.c_models import COnionModel
29import copy   
30
31def create_OnionModel():
32    obj = OnionModel()
33    #COnionModel.__init__(obj) is called by OnionModel constructor
34    return obj
35
36class OnionModel(COnionModel, BaseComponent):
37    """
38    Class that evaluates a OnionModel model.
39    This file was auto-generated from ..\c_extensions\onion.h.
40    Refer to that file and the structure it contains
41    for details of the model.
42    List of default parameters:
43         n_shells        = 1.0
44         scale           = 1.0
45         rad_core0       = 200.0 [A]
46         sld_core0       = 1e-006 [1/A^(2)]
47         sld_solv        = 6.4e-006 [1/A^(2)]
48         background      = 0.0 [1/cm]
49         sld_out_shell1  = 2e-006 [1/A^(2)]
50         sld_out_shell2  = 2.5e-006 [1/A^(2)]
51         sld_out_shell3  = 3e-006 [1/A^(2)]
52         sld_out_shell4  = 3.5e-006 [1/A^(2)]
53         sld_out_shell5  = 4e-006 [1/A^(2)]
54         sld_out_shell6  = 4.5e-006 [1/A^(2)]
55         sld_out_shell7  = 5e-006 [1/A^(2)]
56         sld_out_shell8  = 5.5e-006 [1/A^(2)]
57         sld_out_shell9  = 6e-006 [1/A^(2)]
58         sld_out_shell10 = 6.2e-006 [1/A^(2)]
59         sld_in_shell1   = 1.7e-006 [1/A^(2)]
60         sld_in_shell2   = 2.2e-006 [1/A^(2)]
61         sld_in_shell3   = 2.7e-006 [1/A^(2)]
62         sld_in_shell4   = 3.2e-006 [1/A^(2)]
63         sld_in_shell5   = 3.7e-006 [1/A^(2)]
64         sld_in_shell6   = 4.2e-006 [1/A^(2)]
65         sld_in_shell7   = 4.7e-006 [1/A^(2)]
66         sld_in_shell8   = 5.2e-006 [1/A^(2)]
67         sld_in_shell9   = 5.7e-006 [1/A^(2)]
68         sld_in_shell10  = 6e-006 [1/A^(2)]
69         A_shell1        = 1.0
70         A_shell2        = 1.0
71         A_shell3        = 1.0
72         A_shell4        = 1.0
73         A_shell5        = 1.0
74         A_shell6        = 1.0
75         A_shell7        = 1.0
76         A_shell8        = 1.0
77         A_shell9        = 1.0
78         A_shell10       = 1.0
79         thick_shell1    = 50.0 [A]
80         thick_shell2    = 50.0 [A]
81         thick_shell3    = 50.0 [A]
82         thick_shell4    = 50.0 [A]
83         thick_shell5    = 50.0 [A]
84         thick_shell6    = 50.0 [A]
85         thick_shell7    = 50.0 [A]
86         thick_shell8    = 50.0 [A]
87         thick_shell9    = 50.0 [A]
88         thick_shell10   = 50.0 [A]
89         func_shell1     = 2.0
90         func_shell2     = 2.0
91         func_shell3     = 2.0
92         func_shell4     = 2.0
93         func_shell5     = 2.0
94         func_shell6     = 2.0
95         func_shell7     = 2.0
96         func_shell8     = 2.0
97         func_shell9     = 2.0
98         func_shell10    = 2.0
99
100    """
101       
102    def __init__(self):
103        """ Initialization """
104       
105        # Initialize BaseComponent first, then sphere
106        BaseComponent.__init__(self)
107        #apply(COnionModel.__init__, (self,))
108        COnionModel.__init__(self)
109       
110        ## Name of the model
111        self.name = "OnionModel"
112        ## Model description
113        self.description ="""Form factor of mutishells normalized by the volume. Here each shell is described
114                by an exponential function;
115                I)
116                For A_shell != 0,
117                f(r) = B*exp(A_shell*(r-r_in)/thick_shell)+C
118                where
119                B=(sld_out-sld_in)/(exp(A_shell)-1)
120                C=sld_in-B.
121                Note that in the above case,
122                the function becomes a linear function
123                as A_shell --> 0+ or 0-.
124                II)
125                For the exact point of A_shell == 0,
126                f(r) = sld_in ,i.e., it crosses over flat function
127                Note that the 'sld_out' becaomes NULL in this case.
128               
129                background:background,
130                rad_core0: radius of sphere(core)
131                thick_shell#:the thickness of the shell#
132                sld_core0: the SLD of the sphere
133                sld_solv: the SLD of the solvent
134                sld_shell: the SLD of the shell#
135                A_shell#: the coefficient in the exponential function"""
136       
137        ## Parameter details [units, min, max]
138        self.details = {}
139        self.details['n_shells'] = ['', None, None]
140        self.details['scale'] = ['', None, None]
141        self.details['rad_core0'] = ['[A]', None, None]
142        self.details['sld_core0'] = ['[1/A^(2)]', None, None]
143        self.details['sld_solv'] = ['[1/A^(2)]', None, None]
144        self.details['background'] = ['[1/cm]', None, None]
145        self.details['sld_out_shell1'] = ['[1/A^(2)]', None, None]
146        self.details['sld_out_shell2'] = ['[1/A^(2)]', None, None]
147        self.details['sld_out_shell3'] = ['[1/A^(2)]', None, None]
148        self.details['sld_out_shell4'] = ['[1/A^(2)]', None, None]
149        self.details['sld_out_shell5'] = ['[1/A^(2)]', None, None]
150        self.details['sld_out_shell6'] = ['[1/A^(2)]', None, None]
151        self.details['sld_out_shell7'] = ['[1/A^(2)]', None, None]
152        self.details['sld_out_shell8'] = ['[1/A^(2)]', None, None]
153        self.details['sld_out_shell9'] = ['[1/A^(2)]', None, None]
154        self.details['sld_out_shell10'] = ['[1/A^(2)]', None, None]
155        self.details['sld_in_shell1'] = ['[1/A^(2)]', None, None]
156        self.details['sld_in_shell2'] = ['[1/A^(2)]', None, None]
157        self.details['sld_in_shell3'] = ['[1/A^(2)]', None, None]
158        self.details['sld_in_shell4'] = ['[1/A^(2)]', None, None]
159        self.details['sld_in_shell5'] = ['[1/A^(2)]', None, None]
160        self.details['sld_in_shell6'] = ['[1/A^(2)]', None, None]
161        self.details['sld_in_shell7'] = ['[1/A^(2)]', None, None]
162        self.details['sld_in_shell8'] = ['[1/A^(2)]', None, None]
163        self.details['sld_in_shell9'] = ['[1/A^(2)]', None, None]
164        self.details['sld_in_shell10'] = ['[1/A^(2)]', None, None]
165        self.details['A_shell1'] = ['', None, None]
166        self.details['A_shell2'] = ['', None, None]
167        self.details['A_shell3'] = ['', None, None]
168        self.details['A_shell4'] = ['', None, None]
169        self.details['A_shell5'] = ['', None, None]
170        self.details['A_shell6'] = ['', None, None]
171        self.details['A_shell7'] = ['', None, None]
172        self.details['A_shell8'] = ['', None, None]
173        self.details['A_shell9'] = ['', None, None]
174        self.details['A_shell10'] = ['', None, None]
175        self.details['thick_shell1'] = ['[A]', None, None]
176        self.details['thick_shell2'] = ['[A]', None, None]
177        self.details['thick_shell3'] = ['[A]', None, None]
178        self.details['thick_shell4'] = ['[A]', None, None]
179        self.details['thick_shell5'] = ['[A]', None, None]
180        self.details['thick_shell6'] = ['[A]', None, None]
181        self.details['thick_shell7'] = ['[A]', None, None]
182        self.details['thick_shell8'] = ['[A]', None, None]
183        self.details['thick_shell9'] = ['[A]', None, None]
184        self.details['thick_shell10'] = ['[A]', None, None]
185        self.details['func_shell1'] = ['', None, None]
186        self.details['func_shell2'] = ['', None, None]
187        self.details['func_shell3'] = ['', None, None]
188        self.details['func_shell4'] = ['', None, None]
189        self.details['func_shell5'] = ['', None, None]
190        self.details['func_shell6'] = ['', None, None]
191        self.details['func_shell7'] = ['', None, None]
192        self.details['func_shell8'] = ['', None, None]
193        self.details['func_shell9'] = ['', None, None]
194        self.details['func_shell10'] = ['', None, None]
195
196        ## fittable parameters
197        self.fixed=['rad_core0.width', 'thick_shell1.width', 'thick_shell2.width', 'thick_shell3.width', 'thick_shell4.width', 'thick_shell5.width', 'thick_shell6.width', 'thick_shell7.width', 'thick_shell8.width', 'thick_shell9.width', 'thick_shell10.width']
198       
199        ## non-fittable parameters
200        self.non_fittable = []
201       
202        ## parameters with orientation
203        self.orientation_params = []
204
205    def __setstate__(self, state):
206        """
207        restore the state of a model from pickle
208        """
209        self.__dict__, self.params, self.dispersion = state
210       
211    def __reduce_ex__(self, proto):
212        """
213        Overwrite the __reduce_ex__ of PyTypeObject *type call in the init of
214        c model.
215        """
216        state = (self.__dict__, self.params, self.dispersion)
217        return (create_OnionModel,tuple(), state, None, None)
218       
219    def clone(self):
220        """ Return a identical copy of self """
221        return self._clone(OnionModel())   
222       
223   
224    def run(self, x=0.0):
225        """
226        Evaluate the model
227       
228        :param x: input q, or [q,phi]
229       
230        :return: scattering function P(q)
231       
232        """
233       
234        return COnionModel.run(self, x)
235   
236    def runXY(self, x=0.0):
237        """
238        Evaluate the model in cartesian coordinates
239       
240        :param x: input q, or [qx, qy]
241       
242        :return: scattering function P(q)
243       
244        """
245       
246        return COnionModel.runXY(self, x)
247       
248    def evalDistribution(self, x=[]):
249        """
250        Evaluate the model in cartesian coordinates
251       
252        :param x: input q[], or [qx[], qy[]]
253       
254        :return: scattering function P(q[])
255       
256        """
257        return COnionModel.evalDistribution(self, x)
258       
259    def calculate_ER(self):
260        """
261        Calculate the effective radius for P(q)*S(q)
262       
263        :return: the value of the effective radius
264       
265        """       
266        return COnionModel.calculate_ER(self)
267       
268    def set_dispersion(self, parameter, dispersion):
269        """
270        Set the dispersion object for a model parameter
271       
272        :param parameter: name of the parameter [string]
273        :param dispersion: dispersion object of type DispersionModel
274       
275        """
276        return COnionModel.set_dispersion(self, parameter, dispersion.cdisp)
277       
278   
279# End of file
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