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51  <h1>Source code for sas.models.LamellarModel</h1><div class="highlight"><pre>
52<span class="c">##############################################################################</span>
53<span class="c"># This software was developed by the University of Tennessee as part of the</span>
54<span class="c"># Distributed Data Analysis of Neutron Scattering Experiments (DANSE)</span>
55<span class="c"># project funded by the US National Science Foundation.</span>
56<span class="c">#</span>
57<span class="c"># If you use DANSE applications to do scientific research that leads to</span>
58<span class="c"># publication, we ask that you acknowledge the use of the software with the</span>
59<span class="c"># following sentence:</span>
60<span class="c">#</span>
61<span class="c"># This work benefited from DANSE software developed under NSF award DMR-0520547</span>
62<span class="c">#</span>
63<span class="c"># Copyright 2008-2011, University of Tennessee</span>
64<span class="c">##############################################################################</span>
65
66<span class="sd">&quot;&quot;&quot; </span>
67<span class="sd">Provide functionality for a C extension model</span>
68
69<span class="sd">.. WARNING::</span>
70
71<span class="sd">   THIS FILE WAS GENERATED BY WRAPPERGENERATOR.PY</span>
72<span class="sd">   DO NOT MODIFY THIS FILE, MODIFY</span>
73<span class="sd">   src/sas/models/include/lamellar.h</span>
74<span class="sd">   AND RE-RUN THE GENERATOR SCRIPT</span>
75<span class="sd">&quot;&quot;&quot;</span>
76
77<span class="kn">from</span> <span class="nn">sas.models.BaseComponent</span> <span class="kn">import</span> <span class="n">BaseComponent</span>
78<span class="kn">from</span> <span class="nn">sas.models.sas_extension.c_models</span> <span class="kn">import</span> <span class="n">CLamellarModel</span>
79
80<div class="viewcode-block" id="create_LamellarModel"><a class="viewcode-back" href="../../../dev/api/sas.models.html#sas.models.LamellarModel.create_LamellarModel">[docs]</a><span class="k">def</span> <span class="nf">create_LamellarModel</span><span class="p">():</span>
81    <span class="sd">&quot;&quot;&quot;</span>
82<span class="sd">       Create a model instance</span>
83<span class="sd">    &quot;&quot;&quot;</span>
84    <span class="n">obj</span> <span class="o">=</span> <span class="n">LamellarModel</span><span class="p">()</span>
85    <span class="c"># CLamellarModel.__init__(obj) is called by</span>
86    <span class="c"># the LamellarModel constructor</span>
87    <span class="k">return</span> <span class="n">obj</span>
88</div>
89<div class="viewcode-block" id="LamellarModel"><a class="viewcode-back" href="../../../dev/api/sas.models.html#sas.models.LamellarModel.LamellarModel">[docs]</a><span class="k">class</span> <span class="nc">LamellarModel</span><span class="p">(</span><span class="n">CLamellarModel</span><span class="p">,</span> <span class="n">BaseComponent</span><span class="p">):</span>
90    <span class="sd">&quot;&quot;&quot; </span>
91<span class="sd">    Class that evaluates a LamellarModel model. </span>
92<span class="sd">    This file was auto-generated from src/sas/models/include/lamellar.h.</span>
93<span class="sd">    Refer to that file and the structure it contains</span>
94<span class="sd">    for details of the model.</span>
95<span class="sd">    </span>
96<span class="sd">    List of default parameters:</span>
97
98<span class="sd">    * scale           = 1.0 </span>
99<span class="sd">    * bi_thick        = 50.0 [A]</span>
100<span class="sd">    * sld_bi          = 1e-06 [1/A^(2)]</span>
101<span class="sd">    * sld_sol         = 6.3e-06 [1/A^(2)]</span>
102<span class="sd">    * background      = 0.0 [1/cm]</span>
103
104<span class="sd">    &quot;&quot;&quot;</span>
105       
106    <span class="k">def</span> <span class="nf">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">multfactor</span><span class="o">=</span><span class="mi">1</span><span class="p">):</span>
107        <span class="sd">&quot;&quot;&quot; Initialization &quot;&quot;&quot;</span>
108        <span class="bp">self</span><span class="o">.</span><span class="n">__dict__</span> <span class="o">=</span> <span class="p">{}</span>
109       
110        <span class="c"># Initialize BaseComponent first, then sphere</span>
111        <span class="n">BaseComponent</span><span class="o">.</span><span class="n">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">)</span>
112        <span class="c">#apply(CLamellarModel.__init__, (self,)) </span>
113
114        <span class="n">CLamellarModel</span><span class="o">.</span><span class="n">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">)</span>
115        <span class="bp">self</span><span class="o">.</span><span class="n">is_multifunc</span> <span class="o">=</span> <span class="bp">False</span>
116                       
117        <span class="c">## Name of the model</span>
118        <span class="bp">self</span><span class="o">.</span><span class="n">name</span> <span class="o">=</span> <span class="s">&quot;LamellarModel&quot;</span>
119        <span class="c">## Model description</span>
120        <span class="bp">self</span><span class="o">.</span><span class="n">description</span> <span class="o">=</span> <span class="s">&quot;&quot;&quot;</span>
121<span class="s">        [Dilute Lamellar Form Factor](from a lyotropic lamellar phase)</span>
122<span class="s">                I(q)= 2*pi*P(q)/(delta *q^(2)), where</span>
123<span class="s">                P(q)=2*(contrast/q)^(2)*(1-cos(q*delta))^(2))</span>
124<span class="s">                bi_thick = bilayer thickness</span>
125<span class="s">                sld_bi = SLD of bilayer</span>
126<span class="s">                sld_sol = SLD of solvent</span>
127<span class="s">                background = Incoherent background</span>
128<span class="s">                scale = scale factor</span>
129<span class="s">                </span>
130<span class="s">        &quot;&quot;&quot;</span>
131       
132        <span class="c">## Parameter details [units, min, max]</span>
133        <span class="bp">self</span><span class="o">.</span><span class="n">details</span> <span class="o">=</span> <span class="p">{}</span>
134        <span class="bp">self</span><span class="o">.</span><span class="n">details</span><span class="p">[</span><span class="s">&#39;scale&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="s">&#39;&#39;</span><span class="p">,</span> <span class="bp">None</span><span class="p">,</span> <span class="bp">None</span><span class="p">]</span>
135        <span class="bp">self</span><span class="o">.</span><span class="n">details</span><span class="p">[</span><span class="s">&#39;bi_thick&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="s">&#39;[A]&#39;</span><span class="p">,</span> <span class="bp">None</span><span class="p">,</span> <span class="bp">None</span><span class="p">]</span>
136        <span class="bp">self</span><span class="o">.</span><span class="n">details</span><span class="p">[</span><span class="s">&#39;sld_bi&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="s">&#39;[1/A^(2)]&#39;</span><span class="p">,</span> <span class="bp">None</span><span class="p">,</span> <span class="bp">None</span><span class="p">]</span>
137        <span class="bp">self</span><span class="o">.</span><span class="n">details</span><span class="p">[</span><span class="s">&#39;sld_sol&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="s">&#39;[1/A^(2)]&#39;</span><span class="p">,</span> <span class="bp">None</span><span class="p">,</span> <span class="bp">None</span><span class="p">]</span>
138        <span class="bp">self</span><span class="o">.</span><span class="n">details</span><span class="p">[</span><span class="s">&#39;background&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="s">&#39;[1/cm]&#39;</span><span class="p">,</span> <span class="bp">None</span><span class="p">,</span> <span class="bp">None</span><span class="p">]</span>
139
140        <span class="c">## fittable parameters</span>
141        <span class="bp">self</span><span class="o">.</span><span class="n">fixed</span> <span class="o">=</span> <span class="p">[]</span>
142       
143        <span class="c">## non-fittable parameters</span>
144        <span class="bp">self</span><span class="o">.</span><span class="n">non_fittable</span> <span class="o">=</span> <span class="p">[]</span>
145       
146        <span class="c">## parameters with orientation</span>
147        <span class="bp">self</span><span class="o">.</span><span class="n">orientation_params</span> <span class="o">=</span> <span class="p">[]</span>
148
149        <span class="c">## parameters with magnetism</span>
150        <span class="bp">self</span><span class="o">.</span><span class="n">magnetic_params</span> <span class="o">=</span> <span class="p">[]</span>
151
152        <span class="bp">self</span><span class="o">.</span><span class="n">category</span> <span class="o">=</span> <span class="bp">None</span>
153        <span class="bp">self</span><span class="o">.</span><span class="n">multiplicity_info</span> <span class="o">=</span> <span class="bp">None</span>
154       
155    <span class="k">def</span> <span class="nf">__setstate__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">state</span><span class="p">):</span>
156        <span class="sd">&quot;&quot;&quot;</span>
157<span class="sd">        restore the state of a model from pickle</span>
158<span class="sd">        &quot;&quot;&quot;</span>
159        <span class="bp">self</span><span class="o">.</span><span class="n">__dict__</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">params</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">dispersion</span> <span class="o">=</span> <span class="n">state</span>
160       
161    <span class="k">def</span> <span class="nf">__reduce_ex__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">proto</span><span class="p">):</span>
162        <span class="sd">&quot;&quot;&quot;</span>
163<span class="sd">        Overwrite the __reduce_ex__ of PyTypeObject *type call in the init of </span>
164<span class="sd">        c model.</span>
165<span class="sd">        &quot;&quot;&quot;</span>
166        <span class="n">state</span> <span class="o">=</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">__dict__</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">params</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">dispersion</span><span class="p">)</span>
167        <span class="k">return</span> <span class="p">(</span><span class="n">create_LamellarModel</span><span class="p">,</span> <span class="nb">tuple</span><span class="p">(),</span> <span class="n">state</span><span class="p">,</span> <span class="bp">None</span><span class="p">,</span> <span class="bp">None</span><span class="p">)</span>
168       
169<div class="viewcode-block" id="LamellarModel.clone"><a class="viewcode-back" href="../../../dev/api/sas.models.html#sas.models.LamellarModel.LamellarModel.clone">[docs]</a>    <span class="k">def</span> <span class="nf">clone</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
170        <span class="sd">&quot;&quot;&quot; Return a identical copy of self &quot;&quot;&quot;</span>
171        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_clone</span><span class="p">(</span><span class="n">LamellarModel</span><span class="p">())</span>   
172        </div>
173<div class="viewcode-block" id="LamellarModel.run"><a class="viewcode-back" href="../../../dev/api/sas.models.html#sas.models.LamellarModel.LamellarModel.run">[docs]</a>    <span class="k">def</span> <span class="nf">run</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">x</span><span class="o">=</span><span class="mf">0.0</span><span class="p">):</span>
174        <span class="sd">&quot;&quot;&quot; </span>
175<span class="sd">        Evaluate the model</span>
176<span class="sd">        </span>
177<span class="sd">        :param x: input q, or [q,phi]</span>
178<span class="sd">        </span>
179<span class="sd">        :return: scattering function P(q)</span>
180<span class="sd">        </span>
181<span class="sd">        &quot;&quot;&quot;</span>
182        <span class="k">return</span> <span class="n">CLamellarModel</span><span class="o">.</span><span class="n">run</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">x</span><span class="p">)</span>
183   </div>
184<div class="viewcode-block" id="LamellarModel.runXY"><a class="viewcode-back" href="../../../dev/api/sas.models.html#sas.models.LamellarModel.LamellarModel.runXY">[docs]</a>    <span class="k">def</span> <span class="nf">runXY</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">x</span><span class="o">=</span><span class="mf">0.0</span><span class="p">):</span>
185        <span class="sd">&quot;&quot;&quot; </span>
186<span class="sd">        Evaluate the model in cartesian coordinates</span>
187<span class="sd">        </span>
188<span class="sd">        :param x: input q, or [qx, qy]</span>
189<span class="sd">        </span>
190<span class="sd">        :return: scattering function P(q)</span>
191<span class="sd">        </span>
192<span class="sd">        &quot;&quot;&quot;</span>
193        <span class="k">return</span> <span class="n">CLamellarModel</span><span class="o">.</span><span class="n">runXY</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">x</span><span class="p">)</span>
194        </div>
195<div class="viewcode-block" id="LamellarModel.evalDistribution"><a class="viewcode-back" href="../../../dev/api/sas.models.html#sas.models.LamellarModel.LamellarModel.evalDistribution">[docs]</a>    <span class="k">def</span> <span class="nf">evalDistribution</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">x</span><span class="p">):</span>
196        <span class="sd">&quot;&quot;&quot; </span>
197<span class="sd">        Evaluate the model in cartesian coordinates</span>
198<span class="sd">        </span>
199<span class="sd">        :param x: input q[], or [qx[], qy[]]</span>
200<span class="sd">        </span>
201<span class="sd">        :return: scattering function P(q[])</span>
202<span class="sd">        </span>
203<span class="sd">        &quot;&quot;&quot;</span>
204        <span class="k">return</span> <span class="n">CLamellarModel</span><span class="o">.</span><span class="n">evalDistribution</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">x</span><span class="p">)</span>
205        </div>
206<div class="viewcode-block" id="LamellarModel.calculate_ER"><a class="viewcode-back" href="../../../dev/api/sas.models.html#sas.models.LamellarModel.LamellarModel.calculate_ER">[docs]</a>    <span class="k">def</span> <span class="nf">calculate_ER</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
207        <span class="sd">&quot;&quot;&quot; </span>
208<span class="sd">        Calculate the effective radius for P(q)*S(q)</span>
209<span class="sd">        </span>
210<span class="sd">        :return: the value of the effective radius</span>
211<span class="sd">        </span>
212<span class="sd">        &quot;&quot;&quot;</span>       
213        <span class="k">return</span> <span class="n">CLamellarModel</span><span class="o">.</span><span class="n">calculate_ER</span><span class="p">(</span><span class="bp">self</span><span class="p">)</span>
214        </div>
215<div class="viewcode-block" id="LamellarModel.calculate_VR"><a class="viewcode-back" href="../../../dev/api/sas.models.html#sas.models.LamellarModel.LamellarModel.calculate_VR">[docs]</a>    <span class="k">def</span> <span class="nf">calculate_VR</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
216        <span class="sd">&quot;&quot;&quot; </span>
217<span class="sd">        Calculate the volf ratio for P(q)*S(q)</span>
218<span class="sd">        </span>
219<span class="sd">        :return: the value of the volf ratio</span>
220<span class="sd">        </span>
221<span class="sd">        &quot;&quot;&quot;</span>       
222        <span class="k">return</span> <span class="n">CLamellarModel</span><span class="o">.</span><span class="n">calculate_VR</span><span class="p">(</span><span class="bp">self</span><span class="p">)</span>
223              </div>
224<div class="viewcode-block" id="LamellarModel.set_dispersion"><a class="viewcode-back" href="../../../dev/api/sas.models.html#sas.models.LamellarModel.LamellarModel.set_dispersion">[docs]</a>    <span class="k">def</span> <span class="nf">set_dispersion</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">parameter</span><span class="p">,</span> <span class="n">dispersion</span><span class="p">):</span>
225        <span class="sd">&quot;&quot;&quot;</span>
226<span class="sd">        Set the dispersion object for a model parameter</span>
227<span class="sd">        </span>
228<span class="sd">        :param parameter: name of the parameter [string]</span>
229<span class="sd">        :param dispersion: dispersion object of type DispersionModel</span>
230<span class="sd">        </span>
231<span class="sd">        &quot;&quot;&quot;</span>
232        <span class="k">return</span> <span class="n">CLamellarModel</span><span class="o">.</span><span class="n">set_dispersion</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span>
233               <span class="n">parameter</span><span class="p">,</span> <span class="n">dispersion</span><span class="o">.</span><span class="n">cdisp</span><span class="p">)</span>
234       
235   
236<span class="c"># End of file</span>
237</pre></div></div></div>
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