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| 50 | <h1>Source code for sas.perspectives.pr.pr</h1><div class="highlight"><pre> |
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| 51 | <span class="c">################################################################################</span> |
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| 52 | <span class="c">#This software was developed by the University of Tennessee as part of the</span> |
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| 53 | <span class="c">#Distributed Data Analysis of Neutron Scattering Experiments (DANSE)</span> |
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| 54 | <span class="c">#project funded by the US National Science Foundation. </span> |
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| 55 | <span class="c">#</span> |
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| 56 | <span class="c">#See the license text in license.txt</span> |
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| 57 | <span class="c">#</span> |
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| 58 | <span class="c">#copyright 2009, University of Tennessee</span> |
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| 59 | <span class="c">################################################################################</span> |
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| 60 | |
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| 61 | |
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| 62 | <span class="c"># Make sure the option of saving each curve is available </span> |
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| 63 | <span class="c"># Use the I(q) curve as input and compare the output to P(r)</span> |
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| 64 | |
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| 65 | <span class="kn">import</span> <span class="nn">os</span> |
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| 66 | <span class="kn">import</span> <span class="nn">sys</span> |
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| 67 | <span class="kn">import</span> <span class="nn">wx</span> |
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| 68 | <span class="kn">import</span> <span class="nn">logging</span> |
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| 69 | <span class="kn">import</span> <span class="nn">time</span> |
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| 70 | <span class="kn">import</span> <span class="nn">math</span> |
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| 71 | <span class="kn">import</span> <span class="nn">numpy</span> |
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| 72 | <span class="kn">import</span> <span class="nn">pylab</span> |
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| 73 | <span class="kn">from</span> <span class="nn">sas.guiframe.gui_manager</span> <span class="kn">import</span> <span class="n">MDIFrame</span> |
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| 74 | <span class="kn">from</span> <span class="nn">sas.guiframe.dataFitting</span> <span class="kn">import</span> <span class="n">Data1D</span> |
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| 75 | <span class="kn">from</span> <span class="nn">sas.guiframe.events</span> <span class="kn">import</span> <span class="n">NewPlotEvent</span> |
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| 76 | <span class="kn">from</span> <span class="nn">sas.guiframe.events</span> <span class="kn">import</span> <span class="n">StatusEvent</span> |
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| 77 | <span class="kn">from</span> <span class="nn">sas.guiframe.gui_style</span> <span class="kn">import</span> <span class="n">GUIFRAME_ID</span> |
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| 78 | <span class="kn">from</span> <span class="nn">sas.pr.invertor</span> <span class="kn">import</span> <span class="n">Invertor</span> |
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| 79 | <span class="kn">from</span> <span class="nn">sas.dataloader.loader</span> <span class="kn">import</span> <span class="n">Loader</span> |
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| 80 | <span class="kn">import</span> <span class="nn">sas.dataloader</span> |
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| 81 | |
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| 82 | <span class="kn">from</span> <span class="nn">pr_widgets</span> <span class="kn">import</span> <span class="n">load_error</span> |
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| 83 | <span class="kn">from</span> <span class="nn">sas.guiframe.plugin_base</span> <span class="kn">import</span> <span class="n">PluginBase</span> |
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| 84 | |
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| 85 | |
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| 86 | <span class="n">PR_FIT_LABEL</span> <span class="o">=</span> <span class="s">r"$P_{fit}(r)$"</span> |
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| 87 | <span class="n">PR_LOADED_LABEL</span> <span class="o">=</span> <span class="s">r"$P_{loaded}(r)$"</span> |
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| 88 | <span class="n">IQ_DATA_LABEL</span> <span class="o">=</span> <span class="s">r"$I_{obs}(q)$"</span> |
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| 89 | <span class="n">IQ_FIT_LABEL</span> <span class="o">=</span> <span class="s">r"$I_{fit}(q)$"</span> |
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| 90 | <span class="n">IQ_SMEARED_LABEL</span> <span class="o">=</span> <span class="s">r"$I_{smeared}(q)$"</span> |
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| 91 | <span class="n">GROUP_ID_IQ_DATA</span> <span class="o">=</span> <span class="s">r"$I_{obs}(q)$"</span> |
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| 92 | <span class="n">GROUP_ID_PR_FIT</span> <span class="o">=</span> <span class="s">r"$P_{fit}(r)$"</span> |
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| 93 | |
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| 94 | |
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| 95 | |
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| 96 | <span class="k">class</span> <span class="nc">Plugin</span><span class="p">(</span><span class="n">PluginBase</span><span class="p">):</span> |
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| 97 | <div class="viewcode-block" id="Plugin"><a class="viewcode-back" href="../../../../dev/api/sas.perspectives.pr.html#sas.perspectives.pr.pr.Plugin">[docs]</a> <span class="sd">"""</span> |
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| 98 | <span class="sd"> P(r) inversion perspective</span> |
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| 99 | <span class="sd"> """</span> |
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| 100 | <span class="n">DEFAULT_ALPHA</span> <span class="o">=</span> <span class="mf">0.0001</span> |
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| 101 | <span class="n">DEFAULT_NFUNC</span> <span class="o">=</span> <span class="mi">10</span> |
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| 102 | <span class="n">DEFAULT_DMAX</span> <span class="o">=</span> <span class="mf">140.0</span> |
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| 103 | |
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| 104 | <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">standalone</span><span class="o">=</span><span class="bp">True</span><span class="p">):</span> |
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| 105 | <span class="n">PluginBase</span><span class="o">.</span><span class="n">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">name</span><span class="o">=</span><span class="s">"Pr Inversion"</span><span class="p">,</span> <span class="n">standalone</span><span class="o">=</span><span class="n">standalone</span><span class="p">)</span> |
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| 106 | <span class="c">## Simulation window manager</span> |
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| 107 | <span class="bp">self</span><span class="o">.</span><span class="n">simview</span> <span class="o">=</span> <span class="bp">None</span> |
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| 108 | |
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| 109 | <span class="c">## State data</span> |
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| 110 | <span class="bp">self</span><span class="o">.</span><span class="n">alpha</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">DEFAULT_ALPHA</span> |
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| 111 | <span class="bp">self</span><span class="o">.</span><span class="n">nfunc</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">DEFAULT_NFUNC</span> |
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| 112 | <span class="bp">self</span><span class="o">.</span><span class="n">max_length</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">DEFAULT_DMAX</span> |
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| 113 | <span class="bp">self</span><span class="o">.</span><span class="n">q_min</span> <span class="o">=</span> <span class="bp">None</span> |
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| 114 | <span class="bp">self</span><span class="o">.</span><span class="n">q_max</span> <span class="o">=</span> <span class="bp">None</span> |
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| 115 | <span class="bp">self</span><span class="o">.</span><span class="n">has_bck</span> <span class="o">=</span> <span class="bp">False</span> |
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| 116 | <span class="bp">self</span><span class="o">.</span><span class="n">slit_height</span> <span class="o">=</span> <span class="mi">0</span> |
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| 117 | <span class="bp">self</span><span class="o">.</span><span class="n">slit_width</span> <span class="o">=</span> <span class="mi">0</span> |
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| 118 | <span class="c">## Remember last plottable processed</span> |
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| 119 | <span class="bp">self</span><span class="o">.</span><span class="n">last_data</span> <span class="o">=</span> <span class="s">"sphere_60_q0_2.txt"</span> |
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| 120 | <span class="bp">self</span><span class="o">.</span><span class="n">_current_file_data</span> <span class="o">=</span> <span class="bp">None</span> |
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| 121 | <span class="c">## Time elapsed for last computation [sec]</span> |
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| 122 | <span class="c"># Start with a good default</span> |
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| 123 | <span class="bp">self</span><span class="o">.</span><span class="n">elapsed</span> <span class="o">=</span> <span class="mf">0.022</span> |
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| 124 | <span class="bp">self</span><span class="o">.</span><span class="n">iq_data_shown</span> <span class="o">=</span> <span class="bp">False</span> |
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| 125 | |
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| 126 | <span class="c">## Current invertor</span> |
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| 127 | <span class="bp">self</span><span class="o">.</span><span class="n">invertor</span> <span class="o">=</span> <span class="bp">None</span> |
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| 128 | <span class="bp">self</span><span class="o">.</span><span class="n">pr</span> <span class="o">=</span> <span class="bp">None</span> |
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| 129 | <span class="bp">self</span><span class="o">.</span><span class="n">data_id</span> <span class="o">=</span> <span class="n">IQ_DATA_LABEL</span> |
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| 130 | <span class="c"># Copy of the last result in case we need to display it.</span> |
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| 131 | <span class="bp">self</span><span class="o">.</span><span class="n">_last_pr</span> <span class="o">=</span> <span class="bp">None</span> |
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| 132 | <span class="bp">self</span><span class="o">.</span><span class="n">_last_out</span> <span class="o">=</span> <span class="bp">None</span> |
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| 133 | <span class="bp">self</span><span class="o">.</span><span class="n">_last_cov</span> <span class="o">=</span> <span class="bp">None</span> |
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| 134 | <span class="c">## Calculation thread</span> |
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| 135 | <span class="bp">self</span><span class="o">.</span><span class="n">calc_thread</span> <span class="o">=</span> <span class="bp">None</span> |
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| 136 | <span class="c">## Estimation thread</span> |
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| 137 | <span class="bp">self</span><span class="o">.</span><span class="n">estimation_thread</span> <span class="o">=</span> <span class="bp">None</span> |
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| 138 | <span class="c">## Result panel</span> |
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| 139 | <span class="bp">self</span><span class="o">.</span><span class="n">control_panel</span> <span class="o">=</span> <span class="bp">None</span> |
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| 140 | <span class="c">## Currently views plottable</span> |
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| 141 | <span class="bp">self</span><span class="o">.</span><span class="n">current_plottable</span> <span class="o">=</span> <span class="bp">None</span> |
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| 142 | <span class="c">## Number of P(r) points to display on the output plot</span> |
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| 143 | <span class="bp">self</span><span class="o">.</span><span class="n">_pr_npts</span> <span class="o">=</span> <span class="mi">51</span> |
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| 144 | <span class="c">## Flag to let the plug-in know that it is running standalone</span> |
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| 145 | <span class="bp">self</span><span class="o">.</span><span class="n">standalone</span> <span class="o">=</span> <span class="n">standalone</span> |
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| 146 | <span class="bp">self</span><span class="o">.</span><span class="n">_normalize_output</span> <span class="o">=</span> <span class="bp">False</span> |
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| 147 | <span class="bp">self</span><span class="o">.</span><span class="n">_scale_output_unity</span> <span class="o">=</span> <span class="bp">False</span> |
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| 148 | |
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| 149 | <span class="c">## List of added P(r) plots</span> |
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| 150 | <span class="bp">self</span><span class="o">.</span><span class="n">_added_plots</span> <span class="o">=</span> <span class="p">{}</span> |
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| 151 | <span class="bp">self</span><span class="o">.</span><span class="n">_default_Iq</span> <span class="o">=</span> <span class="p">{}</span> |
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| 152 | <span class="bp">self</span><span class="o">.</span><span class="n">list_plot_id</span> <span class="o">=</span> <span class="p">[]</span> |
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| 153 | |
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| 154 | <span class="c"># Associate the inversion state reader with .prv files</span> |
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| 155 | <span class="kn">from</span> <span class="nn">inversion_state</span> <span class="kn">import</span> <span class="n">Reader</span> |
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| 156 | |
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| 157 | <span class="c"># Create a CanSAS/Pr reader</span> |
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| 158 | <span class="bp">self</span><span class="o">.</span><span class="n">state_reader</span> <span class="o">=</span> <span class="n">Reader</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">set_state</span><span class="p">)</span> |
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| 159 | <span class="bp">self</span><span class="o">.</span><span class="n">_extensions</span> <span class="o">=</span> <span class="s">'.prv'</span> |
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| 160 | <span class="n">l</span> <span class="o">=</span> <span class="n">Loader</span><span class="p">()</span> |
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| 161 | <span class="n">l</span><span class="o">.</span><span class="n">associate_file_reader</span><span class="p">(</span><span class="s">'.prv'</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">state_reader</span><span class="p">)</span> |
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| 162 | <span class="c">#l.associate_file_reader(".svs", self.state_reader)</span> |
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| 163 | |
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| 164 | <span class="c"># Log startup</span> |
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| 165 | <span class="n">logging</span><span class="o">.</span><span class="n">info</span><span class="p">(</span><span class="s">"Pr(r) plug-in started"</span><span class="p">)</span> |
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| 166 | |
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| 167 | <span class="k">def</span> <span class="nf">delete_data</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">data_id</span><span class="p">):</span> |
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| 168 | <div class="viewcode-block" id="Plugin.delete_data"><a class="viewcode-back" href="../../../../dev/api/sas.perspectives.pr.html#sas.perspectives.pr.pr.Plugin.delete_data">[docs]</a> <span class="sd">"""</span> |
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| 169 | <span class="sd"> delete the data association with prview</span> |
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| 170 | <span class="sd"> """</span> |
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| 171 | <span class="bp">self</span><span class="o">.</span><span class="n">control_panel</span><span class="o">.</span><span class="n">clear_panel</span><span class="p">()</span> |
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| 172 | |
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| 173 | <span class="k">def</span> <span class="nf">get_data</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span></div> |
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| 174 | <div class="viewcode-block" id="Plugin.get_data"><a class="viewcode-back" href="../../../../dev/api/sas.perspectives.pr.html#sas.perspectives.pr.pr.Plugin.get_data">[docs]</a> <span class="sd">"""</span> |
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| 175 | <span class="sd"> Returns the current data</span> |
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| 176 | <span class="sd"> """</span> |
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| 177 | <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">current_plottable</span> |
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| 178 | |
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| 179 | <span class="k">def</span> <span class="nf">set_state</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">state</span><span class="o">=</span><span class="bp">None</span><span class="p">,</span> <span class="n">datainfo</span><span class="o">=</span><span class="bp">None</span><span class="p">):</span></div> |
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| 180 | <div class="viewcode-block" id="Plugin.set_state"><a class="viewcode-back" href="../../../../dev/api/sas.perspectives.pr.html#sas.perspectives.pr.pr.Plugin.set_state">[docs]</a> <span class="sd">"""</span> |
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| 181 | <span class="sd"> Call-back method for the inversion state reader.</span> |
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| 182 | <span class="sd"> This method is called when a .prv file is loaded.</span> |
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| 183 | <span class="sd"> </span> |
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| 184 | <span class="sd"> :param state: InversionState object</span> |
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| 185 | <span class="sd"> :param datainfo: Data1D object [optional]</span> |
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| 186 | <span class="sd"> </span> |
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| 187 | <span class="sd"> """</span> |
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| 188 | <span class="k">try</span><span class="p">:</span> |
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| 189 | <span class="k">if</span> <span class="n">datainfo</span><span class="o">.</span><span class="n">__class__</span><span class="o">.</span><span class="n">__name__</span> <span class="o">==</span> <span class="s">'list'</span><span class="p">:</span> |
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| 190 | <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">datainfo</span><span class="p">)</span> <span class="o">>=</span> <span class="mi">1</span><span class="p">:</span> |
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| 191 | <span class="n">data</span> <span class="o">=</span> <span class="n">datainfo</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> |
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| 192 | <span class="k">else</span><span class="p">:</span> |
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| 193 | <span class="n">data</span> <span class="o">=</span> <span class="bp">None</span> |
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| 194 | <span class="k">else</span><span class="p">:</span> |
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| 195 | <span class="n">data</span> <span class="o">=</span> <span class="n">datainfo</span> |
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| 196 | <span class="k">if</span> <span class="n">data</span> <span class="ow">is</span> <span class="bp">None</span><span class="p">:</span> |
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| 197 | <span class="n">msg</span> <span class="o">=</span> <span class="s">"Pr.set_state: datainfo parameter cannot "</span> |
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| 198 | <span class="n">msg</span> <span class="o">+=</span> <span class="s">"be None in standalone mode"</span> |
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| 199 | <span class="k">raise</span> <span class="ne">RuntimeError</span><span class="p">,</span> <span class="n">msg</span> |
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| 200 | |
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| 201 | <span class="c"># Ensuring that plots are coordinated correctly</span> |
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| 202 | <span class="n">t</span> <span class="o">=</span> <span class="n">time</span><span class="o">.</span><span class="n">localtime</span><span class="p">(</span><span class="n">data</span><span class="o">.</span><span class="n">meta_data</span><span class="p">[</span><span class="s">'prstate'</span><span class="p">]</span><span class="o">.</span><span class="n">timestamp</span><span class="p">)</span> |
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| 203 | <span class="n">time_str</span> <span class="o">=</span> <span class="n">time</span><span class="o">.</span><span class="n">strftime</span><span class="p">(</span><span class="s">"%b </span><span class="si">%d</span><span class="s"> %H:%M"</span><span class="p">,</span> <span class="n">t</span><span class="p">)</span> |
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| 204 | |
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| 205 | <span class="c"># Check that no time stamp is already appended</span> |
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| 206 | <span class="n">max_char</span> <span class="o">=</span> <span class="n">data</span><span class="o">.</span><span class="n">meta_data</span><span class="p">[</span><span class="s">'prstate'</span><span class="p">]</span><span class="o">.</span><span class="n">file</span><span class="o">.</span><span class="n">find</span><span class="p">(</span><span class="s">"["</span><span class="p">)</span> |
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| 207 | <span class="k">if</span> <span class="n">max_char</span> <span class="o"><</span> <span class="mi">0</span><span class="p">:</span> |
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| 208 | <span class="n">max_char</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">data</span><span class="o">.</span><span class="n">meta_data</span><span class="p">[</span><span class="s">'prstate'</span><span class="p">]</span><span class="o">.</span><span class="n">file</span><span class="p">)</span> |
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| 209 | |
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| 210 | <span class="n">datainfo</span><span class="o">.</span><span class="n">meta_data</span><span class="p">[</span><span class="s">'prstate'</span><span class="p">]</span><span class="o">.</span><span class="n">file</span> <span class="o">=</span>\ |
---|
| 211 | <span class="n">data</span><span class="o">.</span><span class="n">meta_data</span><span class="p">[</span><span class="s">'prstate'</span><span class="p">]</span><span class="o">.</span><span class="n">file</span><span class="p">[</span><span class="mi">0</span><span class="p">:</span><span class="n">max_char</span><span class="p">]</span>\ |
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| 212 | <span class="o">+</span> <span class="s">' ['</span> <span class="o">+</span> <span class="n">time_str</span> <span class="o">+</span> <span class="s">']'</span> |
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| 213 | |
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| 214 | <span class="n">data</span><span class="o">.</span><span class="n">filename</span> <span class="o">=</span> <span class="n">data</span><span class="o">.</span><span class="n">meta_data</span><span class="p">[</span><span class="s">'prstate'</span><span class="p">]</span><span class="o">.</span><span class="n">file</span> |
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| 215 | <span class="c"># TODO:</span> |
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| 216 | <span class="c">#remove this call when state save all information about the gui data</span> |
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| 217 | <span class="c"># such as ID , Group_ID, etc...</span> |
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| 218 | <span class="c">#make self.current_plottable = datainfo directly</span> |
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| 219 | <span class="bp">self</span><span class="o">.</span><span class="n">current_plottable</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="o">.</span><span class="n">create_gui_data</span><span class="p">(</span><span class="n">data</span><span class="p">,</span> <span class="bp">None</span><span class="p">)</span> |
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| 220 | <span class="bp">self</span><span class="o">.</span><span class="n">current_plottable</span><span class="o">.</span><span class="n">group_id</span> <span class="o">=</span> <span class="n">data</span><span class="o">.</span><span class="n">meta_data</span><span class="p">[</span><span class="s">'prstate'</span><span class="p">]</span><span class="o">.</span><span class="n">file</span> |
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| 221 | |
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| 222 | <span class="c"># Make sure the user sees the P(r) panel after loading</span> |
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| 223 | <span class="c">#self.parent.set_perspective(self.perspective) </span> |
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| 224 | <span class="bp">self</span><span class="o">.</span><span class="n">on_perspective</span><span class="p">(</span><span class="n">event</span><span class="o">=</span><span class="bp">None</span><span class="p">)</span> |
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| 225 | <span class="c"># Load the P(r) results</span> |
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| 226 | <span class="c">#state = self.state_reader.get_state()</span> |
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| 227 | <span class="n">data_dict</span> <span class="o">=</span> <span class="p">{</span><span class="bp">self</span><span class="o">.</span><span class="n">current_plottable</span><span class="o">.</span><span class="n">id</span><span class="p">:</span><span class="bp">self</span><span class="o">.</span><span class="n">current_plottable</span><span class="p">}</span> |
---|
| 228 | <span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="o">.</span><span class="n">add_data</span><span class="p">(</span><span class="n">data_list</span><span class="o">=</span><span class="n">data_dict</span><span class="p">)</span> |
---|
| 229 | <span class="n">wx</span><span class="o">.</span><span class="n">PostEvent</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> <span class="n">NewPlotEvent</span><span class="p">(</span><span class="n">plot</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">current_plottable</span><span class="p">,</span> |
---|
| 230 | <span class="n">title</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">current_plottable</span><span class="o">.</span><span class="n">title</span><span class="p">))</span> |
---|
| 231 | <span class="bp">self</span><span class="o">.</span><span class="n">control_panel</span><span class="o">.</span><span class="n">set_state</span><span class="p">(</span><span class="n">state</span><span class="p">)</span> |
---|
| 232 | <span class="k">except</span><span class="p">:</span> |
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| 233 | <span class="n">logging</span><span class="o">.</span><span class="n">error</span><span class="p">(</span><span class="s">"prview.set_state: </span><span class="si">%s</span><span class="s">"</span> <span class="o">%</span> <span class="n">sys</span><span class="o">.</span><span class="n">exc_value</span><span class="p">)</span> |
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| 234 | |
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| 235 | |
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| 236 | <span class="k">def</span> <span class="nf">help</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">evt</span><span class="p">):</span></div> |
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| 237 | <div class="viewcode-block" id="Plugin.help"><a class="viewcode-back" href="../../../../dev/api/sas.perspectives.pr.html#sas.perspectives.pr.pr.Plugin.help">[docs]</a> <span class="sd">"""</span> |
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| 238 | <span class="sd"> Show a general help dialog. </span> |
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| 239 | <span class="sd"> </span> |
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| 240 | <span class="sd"> :TODO: replace the text with a nice image</span> |
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| 241 | <span class="sd"> </span> |
---|
| 242 | <span class="sd"> """</span> |
---|
| 243 | <span class="kn">from</span> <span class="nn">inversion_panel</span> <span class="kn">import</span> <span class="n">HelpDialog</span> |
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| 244 | <span class="n">dialog</span> <span class="o">=</span> <span class="n">HelpDialog</span><span class="p">(</span><span class="bp">None</span><span class="p">,</span> <span class="o">-</span><span class="mi">1</span><span class="p">)</span> |
---|
| 245 | <span class="k">if</span> <span class="n">dialog</span><span class="o">.</span><span class="n">ShowModal</span><span class="p">()</span> <span class="o">==</span> <span class="n">wx</span><span class="o">.</span><span class="n">ID_OK</span><span class="p">:</span> |
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| 246 | <span class="n">dialog</span><span class="o">.</span><span class="n">Destroy</span><span class="p">()</span> |
---|
| 247 | <span class="k">else</span><span class="p">:</span> |
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| 248 | <span class="n">dialog</span><span class="o">.</span><span class="n">Destroy</span><span class="p">()</span> |
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| 249 | |
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| 250 | <span class="k">def</span> <span class="nf">_fit_pr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">evt</span><span class="p">):</span></div> |
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| 251 | <span class="sd">"""</span> |
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| 252 | <span class="sd"> """</span> |
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| 253 | <span class="c"># Generate P(r) for sphere</span> |
---|
| 254 | <span class="n">radius</span> <span class="o">=</span> <span class="mf">60.0</span> |
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| 255 | <span class="n">d_max</span> <span class="o">=</span> <span class="mi">2</span><span class="o">*</span><span class="n">radius</span> |
---|
| 256 | |
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| 257 | <span class="n">r</span> <span class="o">=</span> <span class="n">pylab</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="mf">0.01</span><span class="p">,</span> <span class="n">d_max</span><span class="p">,</span> <span class="n">d_max</span><span class="o">/</span><span class="mf">51.0</span><span class="p">)</span> |
---|
| 258 | <span class="n">M</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">r</span><span class="p">)</span> |
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| 259 | <span class="n">y</span> <span class="o">=</span> <span class="n">numpy</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">M</span><span class="p">)</span> |
---|
| 260 | <span class="n">pr_err</span> <span class="o">=</span> <span class="n">numpy</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">M</span><span class="p">)</span> |
---|
| 261 | |
---|
| 262 | <span class="nb">sum</span> <span class="o">=</span> <span class="mf">0.0</span> |
---|
| 263 | <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">M</span><span class="p">):</span> |
---|
| 264 | <span class="n">value</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">pr_theory</span><span class="p">(</span><span class="n">r</span><span class="p">[</span><span class="n">j</span><span class="p">],</span> <span class="n">radius</span><span class="p">)</span> |
---|
| 265 | <span class="nb">sum</span> <span class="o">+=</span> <span class="n">value</span> |
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| 266 | <span class="n">y</span><span class="p">[</span><span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">value</span> |
---|
| 267 | <span class="n">pr_err</span><span class="p">[</span><span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">math</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">y</span><span class="p">[</span><span class="n">j</span><span class="p">])</span> |
---|
| 268 | |
---|
| 269 | <span class="n">y</span> <span class="o">=</span> <span class="n">y</span><span class="o">/</span><span class="nb">sum</span><span class="o">*</span><span class="n">d_max</span><span class="o">/</span><span class="nb">len</span><span class="p">(</span><span class="n">r</span><span class="p">)</span> |
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| 270 | |
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| 271 | <span class="c"># Perform fit</span> |
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| 272 | <span class="n">pr</span> <span class="o">=</span> <span class="n">Invertor</span><span class="p">()</span> |
---|
| 273 | <span class="n">pr</span><span class="o">.</span><span class="n">d_max</span> <span class="o">=</span> <span class="n">d_max</span> |
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| 274 | <span class="n">pr</span><span class="o">.</span><span class="n">alpha</span> <span class="o">=</span> <span class="mi">0</span> |
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| 275 | <span class="n">pr</span><span class="o">.</span><span class="n">x</span> <span class="o">=</span> <span class="n">r</span> |
---|
| 276 | <span class="n">pr</span><span class="o">.</span><span class="n">y</span> <span class="o">=</span> <span class="n">y</span> |
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| 277 | <span class="n">pr</span><span class="o">.</span><span class="n">err</span> <span class="o">=</span> <span class="n">pr_err</span> |
---|
| 278 | <span class="n">out</span><span class="p">,</span> <span class="n">cov</span> <span class="o">=</span> <span class="n">pr</span><span class="o">.</span><span class="n">pr_fit</span><span class="p">()</span> |
---|
| 279 | <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">out</span><span class="p">)):</span> |
---|
| 280 | <span class="k">print</span> <span class="s">"</span><span class="si">%g</span><span class="s"> +- </span><span class="si">%g</span><span class="s">"</span> <span class="o">%</span> <span class="p">(</span><span class="n">out</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="n">math</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">cov</span><span class="p">[</span><span class="n">i</span><span class="p">][</span><span class="n">i</span><span class="p">]))</span> |
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| 281 | |
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| 282 | <span class="c"># Show input P(r)</span> |
---|
| 283 | <span class="n">title</span> <span class="o">=</span> <span class="s">"Pr"</span> |
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| 284 | <span class="n">new_plot</span> <span class="o">=</span> <span class="n">Data1D</span><span class="p">(</span><span class="n">pr</span><span class="o">.</span><span class="n">x</span><span class="p">,</span> <span class="n">pr</span><span class="o">.</span><span class="n">y</span><span class="p">,</span> <span class="n">dy</span><span class="o">=</span><span class="n">pr</span><span class="o">.</span><span class="n">err</span><span class="p">)</span> |
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| 285 | <span class="n">new_plot</span><span class="o">.</span><span class="n">name</span> <span class="o">=</span> <span class="s">"P_{obs}(r)"</span> |
---|
| 286 | <span class="n">new_plot</span><span class="o">.</span><span class="n">xaxis</span><span class="p">(</span><span class="s">"</span><span class="se">\\</span><span class="s">rm{r}"</span><span class="p">,</span> <span class="s">'A'</span><span class="p">)</span> |
---|
| 287 | <span class="n">new_plot</span><span class="o">.</span><span class="n">yaxis</span><span class="p">(</span><span class="s">"</span><span class="se">\\</span><span class="s">rm{P(r)} "</span><span class="p">,</span><span class="s">"cm^{-3}"</span><span class="p">)</span> |
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| 288 | <span class="n">new_plot</span><span class="o">.</span><span class="n">group_id</span> <span class="o">=</span> <span class="s">"P_{obs}(r)"</span> |
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| 289 | <span class="n">new_plot</span><span class="o">.</span><span class="n">id</span> <span class="o">=</span> <span class="s">"P_{obs}(r)"</span> |
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| 290 | <span class="n">new_plot</span><span class="o">.</span><span class="n">title</span> <span class="o">=</span> <span class="n">title</span> |
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| 291 | <span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="o">.</span><span class="n">update_theory</span><span class="p">(</span><span class="n">data_id</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">data_id</span><span class="p">,</span> <span class="n">theory</span><span class="o">=</span><span class="n">new_plot</span><span class="p">)</span> |
---|
| 292 | <span class="n">wx</span><span class="o">.</span><span class="n">PostEvent</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> <span class="n">NewPlotEvent</span><span class="p">(</span><span class="n">plot</span><span class="o">=</span><span class="n">new_plot</span><span class="p">,</span> <span class="n">title</span><span class="o">=</span><span class="n">title</span><span class="p">))</span> |
---|
| 293 | |
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| 294 | <span class="c"># Show P(r) fit</span> |
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| 295 | <span class="bp">self</span><span class="o">.</span><span class="n">show_pr</span><span class="p">(</span><span class="n">out</span><span class="p">,</span> <span class="n">pr</span><span class="p">)</span> |
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| 296 | |
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| 297 | <span class="c"># Show I(q) fit</span> |
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| 298 | <span class="n">q</span> <span class="o">=</span> <span class="n">pylab</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="mf">0.001</span><span class="p">,</span> <span class="mf">0.1</span><span class="p">,</span> <span class="mf">0.01</span><span class="o">/</span><span class="mf">51.0</span><span class="p">)</span> |
---|
| 299 | <span class="bp">self</span><span class="o">.</span><span class="n">show_iq</span><span class="p">(</span><span class="n">out</span><span class="p">,</span> <span class="n">pr</span><span class="p">,</span> <span class="n">q</span><span class="p">)</span> |
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| 300 | |
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| 301 | <span class="k">def</span> <span class="nf">show_shpere</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">x</span><span class="p">,</span> <span class="n">radius</span><span class="o">=</span><span class="mf">70.0</span><span class="p">,</span> <span class="n">x_range</span><span class="o">=</span><span class="mf">70.0</span><span class="p">):</span> |
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| 302 | <div class="viewcode-block" id="Plugin.show_shpere"><a class="viewcode-back" href="../../../../dev/api/sas.perspectives.pr.html#sas.perspectives.pr.pr.Plugin.show_shpere">[docs]</a> <span class="sd">"""</span> |
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| 303 | <span class="sd"> """</span> |
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| 304 | <span class="c"># Show P(r)</span> |
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| 305 | <span class="n">y_true</span> <span class="o">=</span> <span class="n">numpy</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">x</span><span class="p">))</span> |
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| 306 | |
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| 307 | <span class="n">sum_true</span> <span class="o">=</span> <span class="mf">0.0</span> |
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| 308 | <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">x</span><span class="p">)):</span> |
---|
| 309 | <span class="n">y_true</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">pr_theory</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="n">radius</span><span class="p">)</span> |
---|
| 310 | <span class="n">sum_true</span> <span class="o">+=</span> <span class="n">y_true</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> |
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| 311 | |
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| 312 | <span class="n">y_true</span> <span class="o">=</span> <span class="n">y_true</span><span class="o">/</span><span class="n">sum_true</span><span class="o">*</span><span class="n">x_range</span><span class="o">/</span><span class="nb">len</span><span class="p">(</span><span class="n">x</span><span class="p">)</span> |
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| 313 | |
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| 314 | <span class="c"># Show the theory P(r)</span> |
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| 315 | <span class="n">new_plot</span> <span class="o">=</span> <span class="n">Data1D</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y_true</span><span class="p">)</span> |
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| 316 | <span class="n">new_plot</span><span class="o">.</span><span class="n">symbol</span> <span class="o">=</span> <span class="n">GUIFRAME_ID</span><span class="o">.</span><span class="n">CURVE_SYMBOL_NUM</span> |
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| 317 | <span class="n">new_plot</span><span class="o">.</span><span class="n">name</span> <span class="o">=</span> <span class="s">"P_{true}(r)"</span> |
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| 318 | <span class="n">new_plot</span><span class="o">.</span><span class="n">xaxis</span><span class="p">(</span><span class="s">"</span><span class="se">\\</span><span class="s">rm{r}"</span><span class="p">,</span> <span class="s">'A'</span><span class="p">)</span> |
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| 319 | <span class="n">new_plot</span><span class="o">.</span><span class="n">yaxis</span><span class="p">(</span><span class="s">"</span><span class="se">\\</span><span class="s">rm{P(r)} "</span><span class="p">,</span><span class="s">"cm^{-3}"</span><span class="p">)</span> |
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| 320 | <span class="n">new_plot</span><span class="o">.</span><span class="n">id</span> <span class="o">=</span> <span class="s">"P_{true}(r)"</span> |
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| 321 | <span class="n">new_plot</span><span class="o">.</span><span class="n">group_id</span> <span class="o">=</span> <span class="s">"P_{true}(r)"</span> |
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| 322 | <span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="o">.</span><span class="n">update_theory</span><span class="p">(</span><span class="n">data_id</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">data_id</span><span class="p">,</span> <span class="n">theory</span><span class="o">=</span><span class="n">new_plot</span><span class="p">)</span> |
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| 323 | <span class="c">#Put this call in plottables/guitools </span> |
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| 324 | <span class="n">wx</span><span class="o">.</span><span class="n">PostEvent</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> <span class="n">NewPlotEvent</span><span class="p">(</span><span class="n">plot</span><span class="o">=</span><span class="n">new_plot</span><span class="p">,</span> |
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| 325 | <span class="n">title</span><span class="o">=</span><span class="s">"Sphere P(r)"</span><span class="p">))</span> |
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| 326 | |
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| 327 | |
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| 328 | <span class="k">def</span> <span class="nf">get_npts</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span></div> |
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| 329 | <div class="viewcode-block" id="Plugin.get_npts"><a class="viewcode-back" href="../../../../dev/api/sas.perspectives.pr.html#sas.perspectives.pr.pr.Plugin.get_npts">[docs]</a> <span class="sd">"""</span> |
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| 330 | <span class="sd"> Returns the number of points in the I(q) data</span> |
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| 331 | <span class="sd"> """</span> |
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| 332 | <span class="k">try</span><span class="p">:</span> |
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| 333 | <span class="k">return</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">pr</span><span class="o">.</span><span class="n">x</span><span class="p">)</span> |
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| 334 | <span class="k">except</span><span class="p">:</span> |
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| 335 | <span class="k">return</span> <span class="mi">0</span> |
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| 336 | |
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| 337 | <span class="k">def</span> <span class="nf">show_iq</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">out</span><span class="p">,</span> <span class="n">pr</span><span class="p">,</span> <span class="n">q</span><span class="o">=</span><span class="bp">None</span><span class="p">):</span></div> |
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| 338 | <div class="viewcode-block" id="Plugin.show_iq"><a class="viewcode-back" href="../../../../dev/api/sas.perspectives.pr.html#sas.perspectives.pr.pr.Plugin.show_iq">[docs]</a> <span class="sd">"""</span> |
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| 339 | <span class="sd"> """</span> |
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| 340 | <span class="n">qtemp</span> <span class="o">=</span> <span class="n">pr</span><span class="o">.</span><span class="n">x</span> |
---|
| 341 | <span class="k">if</span> <span class="ow">not</span> <span class="n">q</span> <span class="o">==</span> <span class="bp">None</span><span class="p">:</span> |
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| 342 | <span class="n">qtemp</span> <span class="o">=</span> <span class="n">q</span> |
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| 343 | |
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| 344 | <span class="c"># Make a plot</span> |
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| 345 | <span class="n">maxq</span> <span class="o">=</span> <span class="o">-</span><span class="mi">1</span> |
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| 346 | <span class="k">for</span> <span class="n">q_i</span> <span class="ow">in</span> <span class="n">qtemp</span><span class="p">:</span> |
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| 347 | <span class="k">if</span> <span class="n">q_i</span><span class="o">></span><span class="n">maxq</span><span class="p">:</span> |
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| 348 | <span class="n">maxq</span><span class="o">=</span><span class="n">q_i</span> |
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| 349 | |
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| 350 | <span class="n">minq</span> <span class="o">=</span> <span class="mf">0.001</span> |
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| 351 | |
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| 352 | <span class="c"># Check for user min/max</span> |
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| 353 | <span class="k">if</span> <span class="ow">not</span> <span class="n">pr</span><span class="o">.</span><span class="n">q_min</span> <span class="o">==</span> <span class="bp">None</span><span class="p">:</span> |
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| 354 | <span class="n">minq</span> <span class="o">=</span> <span class="n">pr</span><span class="o">.</span><span class="n">q_min</span> |
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| 355 | <span class="k">if</span> <span class="ow">not</span> <span class="n">pr</span><span class="o">.</span><span class="n">q_max</span> <span class="o">==</span> <span class="bp">None</span><span class="p">:</span> |
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| 356 | <span class="n">maxq</span> <span class="o">=</span> <span class="n">pr</span><span class="o">.</span><span class="n">q_max</span> |
---|
| 357 | |
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| 358 | <span class="n">x</span> <span class="o">=</span> <span class="n">pylab</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">minq</span><span class="p">,</span> <span class="n">maxq</span><span class="p">,</span> <span class="n">maxq</span><span class="o">/</span><span class="mf">301.0</span><span class="p">)</span> |
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| 359 | <span class="n">y</span> <span class="o">=</span> <span class="n">numpy</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">x</span><span class="p">))</span> |
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| 360 | <span class="n">err</span> <span class="o">=</span> <span class="n">numpy</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">x</span><span class="p">))</span> |
---|
| 361 | <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">x</span><span class="p">)):</span> |
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| 362 | <span class="n">value</span> <span class="o">=</span> <span class="n">pr</span><span class="o">.</span><span class="n">iq</span><span class="p">(</span><span class="n">out</span><span class="p">,</span> <span class="n">x</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> |
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| 363 | <span class="n">y</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="n">value</span> |
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| 364 | <span class="k">try</span><span class="p">:</span> |
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| 365 | <span class="n">err</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="n">math</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">math</span><span class="o">.</span><span class="n">fabs</span><span class="p">(</span><span class="n">value</span><span class="p">))</span> |
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| 366 | <span class="k">except</span><span class="p">:</span> |
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| 367 | <span class="n">err</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="mf">1.0</span> |
---|
| 368 | <span class="k">print</span> <span class="s">"Error getting error"</span><span class="p">,</span> <span class="n">value</span><span class="p">,</span> <span class="n">x</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> |
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| 369 | |
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| 370 | <span class="n">new_plot</span> <span class="o">=</span> <span class="n">Data1D</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">)</span> |
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| 371 | <span class="n">new_plot</span><span class="o">.</span><span class="n">symbol</span> <span class="o">=</span> <span class="n">GUIFRAME_ID</span><span class="o">.</span><span class="n">CURVE_SYMBOL_NUM</span> |
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| 372 | <span class="n">new_plot</span><span class="o">.</span><span class="n">name</span> <span class="o">=</span> <span class="n">IQ_FIT_LABEL</span> |
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| 373 | <span class="n">new_plot</span><span class="o">.</span><span class="n">xaxis</span><span class="p">(</span><span class="s">"</span><span class="se">\\</span><span class="s">rm{Q}"</span><span class="p">,</span> <span class="s">'A^{-1}'</span><span class="p">)</span> |
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| 374 | <span class="n">new_plot</span><span class="o">.</span><span class="n">yaxis</span><span class="p">(</span><span class="s">"</span><span class="se">\\</span><span class="s">rm{Intensity} "</span><span class="p">,</span><span class="s">"cm^{-1}"</span><span class="p">)</span> |
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| 375 | <span class="n">title</span> <span class="o">=</span> <span class="s">"I(q)"</span> |
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| 376 | <span class="n">new_plot</span><span class="o">.</span><span class="n">title</span> <span class="o">=</span> <span class="n">title</span> |
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| 377 | |
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| 378 | <span class="c"># If we have a group ID, use it</span> |
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| 379 | <span class="k">if</span> <span class="n">pr</span><span class="o">.</span><span class="n">info</span><span class="o">.</span><span class="n">has_key</span><span class="p">(</span><span class="s">"plot_group_id"</span><span class="p">):</span> |
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| 380 | <span class="n">new_plot</span><span class="o">.</span><span class="n">group_id</span> <span class="o">=</span> <span class="n">pr</span><span class="o">.</span><span class="n">info</span><span class="p">[</span><span class="s">"plot_group_id"</span><span class="p">]</span> |
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| 381 | <span class="n">new_plot</span><span class="o">.</span><span class="n">id</span> <span class="o">=</span> <span class="n">IQ_FIT_LABEL</span> |
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| 382 | <span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="o">.</span><span class="n">update_theory</span><span class="p">(</span><span class="n">data_id</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">data_id</span><span class="p">,</span> <span class="n">theory</span><span class="o">=</span><span class="n">new_plot</span><span class="p">)</span> |
---|
| 383 | |
---|
| 384 | <span class="n">wx</span><span class="o">.</span><span class="n">PostEvent</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> <span class="n">NewPlotEvent</span><span class="p">(</span><span class="n">plot</span><span class="o">=</span><span class="n">new_plot</span><span class="p">,</span> <span class="n">title</span><span class="o">=</span><span class="n">title</span><span class="p">))</span> |
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| 385 | |
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| 386 | <span class="c"># If we have used slit smearing, plot the smeared I(q) too</span> |
---|
| 387 | <span class="k">if</span> <span class="n">pr</span><span class="o">.</span><span class="n">slit_width</span> <span class="o">></span> <span class="mi">0</span> <span class="ow">or</span> <span class="n">pr</span><span class="o">.</span><span class="n">slit_height</span> <span class="o">></span> <span class="mi">0</span><span class="p">:</span> |
---|
| 388 | <span class="n">x</span> <span class="o">=</span> <span class="n">pylab</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">minq</span><span class="p">,</span> <span class="n">maxq</span><span class="p">,</span> <span class="n">maxq</span><span class="o">/</span><span class="mf">301.0</span><span class="p">)</span> |
---|
| 389 | <span class="n">y</span> <span class="o">=</span> <span class="n">numpy</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">x</span><span class="p">))</span> |
---|
| 390 | <span class="n">err</span> <span class="o">=</span> <span class="n">numpy</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">x</span><span class="p">))</span> |
---|
| 391 | <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">x</span><span class="p">)):</span> |
---|
| 392 | <span class="n">value</span> <span class="o">=</span> <span class="n">pr</span><span class="o">.</span><span class="n">iq_smeared</span><span class="p">(</span><span class="n">out</span><span class="p">,</span> <span class="n">x</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> |
---|
| 393 | <span class="n">y</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="n">value</span> |
---|
| 394 | <span class="k">try</span><span class="p">:</span> |
---|
| 395 | <span class="n">err</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="n">math</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">math</span><span class="o">.</span><span class="n">fabs</span><span class="p">(</span><span class="n">value</span><span class="p">))</span> |
---|
| 396 | <span class="k">except</span><span class="p">:</span> |
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| 397 | <span class="n">err</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="mf">1.0</span> |
---|
| 398 | <span class="k">print</span> <span class="s">"Error getting error"</span><span class="p">,</span> <span class="n">value</span><span class="p">,</span> <span class="n">x</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> |
---|
| 399 | |
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| 400 | <span class="n">new_plot</span> <span class="o">=</span> <span class="n">Data1D</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">)</span> |
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| 401 | <span class="n">new_plot</span><span class="o">.</span><span class="n">symbol</span> <span class="o">=</span> <span class="n">GUIFRAME_ID</span><span class="o">.</span><span class="n">CURVE_SYMBOL_NUM</span> |
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| 402 | <span class="n">new_plot</span><span class="o">.</span><span class="n">name</span> <span class="o">=</span> <span class="n">IQ_SMEARED_LABEL</span> |
---|
| 403 | <span class="n">new_plot</span><span class="o">.</span><span class="n">xaxis</span><span class="p">(</span><span class="s">"</span><span class="se">\\</span><span class="s">rm{Q}"</span><span class="p">,</span> <span class="s">'A^{-1}'</span><span class="p">)</span> |
---|
| 404 | <span class="n">new_plot</span><span class="o">.</span><span class="n">yaxis</span><span class="p">(</span><span class="s">"</span><span class="se">\\</span><span class="s">rm{Intensity} "</span><span class="p">,</span><span class="s">"cm^{-1}"</span><span class="p">)</span> |
---|
| 405 | <span class="c"># If we have a group ID, use it</span> |
---|
| 406 | <span class="k">if</span> <span class="n">pr</span><span class="o">.</span><span class="n">info</span><span class="o">.</span><span class="n">has_key</span><span class="p">(</span><span class="s">"plot_group_id"</span><span class="p">):</span> |
---|
| 407 | <span class="n">new_plot</span><span class="o">.</span><span class="n">group_id</span> <span class="o">=</span> <span class="n">pr</span><span class="o">.</span><span class="n">info</span><span class="p">[</span><span class="s">"plot_group_id"</span><span class="p">]</span> |
---|
| 408 | <span class="n">new_plot</span><span class="o">.</span><span class="n">id</span> <span class="o">=</span> <span class="n">IQ_SMEARED_LABEL</span> |
---|
| 409 | <span class="n">new_plot</span><span class="o">.</span><span class="n">title</span> <span class="o">=</span> <span class="n">title</span> |
---|
| 410 | <span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="o">.</span><span class="n">update_theory</span><span class="p">(</span><span class="n">data_id</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">data_id</span><span class="p">,</span> <span class="n">theory</span><span class="o">=</span><span class="n">new_plot</span><span class="p">)</span> |
---|
| 411 | <span class="n">wx</span><span class="o">.</span><span class="n">PostEvent</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> <span class="n">NewPlotEvent</span><span class="p">(</span><span class="n">plot</span><span class="o">=</span><span class="n">new_plot</span><span class="p">,</span> <span class="n">title</span><span class="o">=</span><span class="n">title</span><span class="p">))</span> |
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| 412 | |
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| 413 | <span class="k">def</span> <span class="nf">_on_pr_npts</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">evt</span><span class="p">):</span></div> |
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| 414 | <span class="sd">"""</span> |
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| 415 | <span class="sd"> Redisplay P(r) with a different number of points</span> |
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| 416 | <span class="sd"> """</span> |
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| 417 | <span class="kn">from</span> <span class="nn">inversion_panel</span> <span class="kn">import</span> <span class="n">PrDistDialog</span> |
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| 418 | <span class="n">dialog</span> <span class="o">=</span> <span class="n">PrDistDialog</span><span class="p">(</span><span class="bp">None</span><span class="p">,</span> <span class="o">-</span><span class="mi">1</span><span class="p">)</span> |
---|
| 419 | <span class="n">dialog</span><span class="o">.</span><span class="n">set_content</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_pr_npts</span><span class="p">)</span> |
---|
| 420 | <span class="k">if</span> <span class="n">dialog</span><span class="o">.</span><span class="n">ShowModal</span><span class="p">()</span> <span class="o">==</span> <span class="n">wx</span><span class="o">.</span><span class="n">ID_OK</span><span class="p">:</span> |
---|
| 421 | <span class="bp">self</span><span class="o">.</span><span class="n">_pr_npts</span><span class="o">=</span> <span class="n">dialog</span><span class="o">.</span><span class="n">get_content</span><span class="p">()</span> |
---|
| 422 | <span class="n">dialog</span><span class="o">.</span><span class="n">Destroy</span><span class="p">()</span> |
---|
| 423 | <span class="bp">self</span><span class="o">.</span><span class="n">show_pr</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_last_out</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_last_pr</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_last_cov</span><span class="p">)</span> |
---|
| 424 | <span class="k">else</span><span class="p">:</span> |
---|
| 425 | <span class="n">dialog</span><span class="o">.</span><span class="n">Destroy</span><span class="p">()</span> |
---|
| 426 | |
---|
| 427 | |
---|
| 428 | <span class="k">def</span> <span class="nf">show_pr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">out</span><span class="p">,</span> <span class="n">pr</span><span class="p">,</span> <span class="n">cov</span><span class="o">=</span><span class="bp">None</span><span class="p">):</span> |
---|
| 429 | <div class="viewcode-block" id="Plugin.show_pr"><a class="viewcode-back" href="../../../../dev/api/sas.perspectives.pr.html#sas.perspectives.pr.pr.Plugin.show_pr">[docs]</a> <span class="sd">"""</span> |
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| 430 | <span class="sd"> """</span> |
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| 431 | <span class="c"># Show P(r)</span> |
---|
| 432 | <span class="n">x</span> <span class="o">=</span> <span class="n">pylab</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">pr</span><span class="o">.</span><span class="n">d_max</span><span class="p">,</span> <span class="n">pr</span><span class="o">.</span><span class="n">d_max</span><span class="o">/</span><span class="bp">self</span><span class="o">.</span><span class="n">_pr_npts</span><span class="p">)</span> |
---|
| 433 | |
---|
| 434 | <span class="n">y</span> <span class="o">=</span> <span class="n">numpy</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">x</span><span class="p">))</span> |
---|
| 435 | <span class="n">dy</span> <span class="o">=</span> <span class="n">numpy</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">x</span><span class="p">))</span> |
---|
| 436 | <span class="n">y_true</span> <span class="o">=</span> <span class="n">numpy</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">x</span><span class="p">))</span> |
---|
| 437 | |
---|
| 438 | <span class="nb">sum</span> <span class="o">=</span> <span class="mf">0.0</span> |
---|
| 439 | <span class="n">pmax</span> <span class="o">=</span> <span class="mf">0.0</span> |
---|
| 440 | <span class="n">cov2</span> <span class="o">=</span> <span class="n">numpy</span><span class="o">.</span><span class="n">ascontiguousarray</span><span class="p">(</span><span class="n">cov</span><span class="p">)</span> |
---|
| 441 | |
---|
| 442 | <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">x</span><span class="p">)):</span> |
---|
| 443 | <span class="k">if</span> <span class="n">cov2</span><span class="o">==</span><span class="bp">None</span><span class="p">:</span> |
---|
| 444 | <span class="n">value</span> <span class="o">=</span> <span class="n">pr</span><span class="o">.</span><span class="n">pr</span><span class="p">(</span><span class="n">out</span><span class="p">,</span> <span class="n">x</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> |
---|
| 445 | <span class="k">else</span><span class="p">:</span> |
---|
| 446 | <span class="p">(</span><span class="n">value</span><span class="p">,</span> <span class="n">dy</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> <span class="o">=</span> <span class="n">pr</span><span class="o">.</span><span class="n">pr_err</span><span class="p">(</span><span class="n">out</span><span class="p">,</span> <span class="n">cov2</span><span class="p">,</span> <span class="n">x</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> |
---|
| 447 | <span class="nb">sum</span> <span class="o">+=</span> <span class="n">value</span><span class="o">*</span><span class="n">pr</span><span class="o">.</span><span class="n">d_max</span><span class="o">/</span><span class="nb">len</span><span class="p">(</span><span class="n">x</span><span class="p">)</span> |
---|
| 448 | |
---|
| 449 | <span class="c"># keep track of the maximum P(r) value</span> |
---|
| 450 | <span class="k">if</span> <span class="n">value</span><span class="o">></span><span class="n">pmax</span><span class="p">:</span> |
---|
| 451 | <span class="n">pmax</span> <span class="o">=</span> <span class="n">value</span> |
---|
| 452 | |
---|
| 453 | <span class="n">y</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="n">value</span> |
---|
| 454 | |
---|
| 455 | <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">_normalize_output</span><span class="o">==</span><span class="bp">True</span><span class="p">:</span> |
---|
| 456 | <span class="n">y</span> <span class="o">=</span> <span class="n">y</span><span class="o">/</span><span class="nb">sum</span> |
---|
| 457 | <span class="n">dy</span> <span class="o">=</span> <span class="n">dy</span><span class="o">/</span><span class="nb">sum</span> |
---|
| 458 | <span class="k">elif</span> <span class="bp">self</span><span class="o">.</span><span class="n">_scale_output_unity</span><span class="o">==</span><span class="bp">True</span><span class="p">:</span> |
---|
| 459 | <span class="n">y</span> <span class="o">=</span> <span class="n">y</span><span class="o">/</span><span class="n">pmax</span> |
---|
| 460 | <span class="n">dy</span> <span class="o">=</span> <span class="n">dy</span><span class="o">/</span><span class="n">pmax</span> |
---|
| 461 | |
---|
| 462 | <span class="k">if</span> <span class="n">cov2</span><span class="o">==</span><span class="bp">None</span><span class="p">:</span> |
---|
| 463 | <span class="n">new_plot</span> <span class="o">=</span> <span class="n">Data1D</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">)</span> |
---|
| 464 | <span class="n">new_plot</span><span class="o">.</span><span class="n">symbol</span> <span class="o">=</span> <span class="n">GUIFRAME_ID</span><span class="o">.</span><span class="n">CURVE_SYMBOL_NUM</span> |
---|
| 465 | <span class="k">else</span><span class="p">:</span> |
---|
| 466 | <span class="n">new_plot</span> <span class="o">=</span> <span class="n">Data1D</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">dy</span><span class="o">=</span><span class="n">dy</span><span class="p">)</span> |
---|
| 467 | <span class="n">new_plot</span><span class="o">.</span><span class="n">name</span> <span class="o">=</span> <span class="n">PR_FIT_LABEL</span> |
---|
| 468 | <span class="n">new_plot</span><span class="o">.</span><span class="n">xaxis</span><span class="p">(</span><span class="s">"</span><span class="se">\\</span><span class="s">rm{r}"</span><span class="p">,</span> <span class="s">'A'</span><span class="p">)</span> |
---|
| 469 | <span class="n">new_plot</span><span class="o">.</span><span class="n">yaxis</span><span class="p">(</span><span class="s">"</span><span class="se">\\</span><span class="s">rm{P(r)} "</span><span class="p">,</span><span class="s">"cm^{-3}"</span><span class="p">)</span> |
---|
| 470 | <span class="n">new_plot</span><span class="o">.</span><span class="n">title</span> <span class="o">=</span> <span class="s">"P(r) fit"</span> |
---|
| 471 | <span class="n">new_plot</span><span class="o">.</span><span class="n">id</span> <span class="o">=</span> <span class="n">PR_FIT_LABEL</span> |
---|
| 472 | <span class="c"># Make sure that the plot is linear</span> |
---|
| 473 | <span class="n">new_plot</span><span class="o">.</span><span class="n">xtransform</span> <span class="o">=</span> <span class="s">"x"</span> |
---|
| 474 | <span class="n">new_plot</span><span class="o">.</span><span class="n">ytransform</span> <span class="o">=</span> <span class="s">"y"</span> |
---|
| 475 | <span class="n">new_plot</span><span class="o">.</span><span class="n">group_id</span> <span class="o">=</span> <span class="n">GROUP_ID_PR_FIT</span> |
---|
| 476 | <span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="o">.</span><span class="n">update_theory</span><span class="p">(</span><span class="n">data_id</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">data_id</span><span class="p">,</span> <span class="n">theory</span><span class="o">=</span><span class="n">new_plot</span><span class="p">)</span> |
---|
| 477 | <span class="n">wx</span><span class="o">.</span><span class="n">PostEvent</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> <span class="n">NewPlotEvent</span><span class="p">(</span><span class="n">plot</span><span class="o">=</span><span class="n">new_plot</span><span class="p">,</span> <span class="n">title</span><span class="o">=</span><span class="s">"P(r) fit"</span><span class="p">))</span> |
---|
| 478 | <span class="k">return</span> <span class="n">x</span><span class="p">,</span> <span class="n">pr</span><span class="o">.</span><span class="n">d_max</span> |
---|
| 479 | |
---|
| 480 | <span class="k">def</span> <span class="nf">load</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">data</span><span class="p">):</span></div> |
---|
| 481 | <div class="viewcode-block" id="Plugin.load"><a class="viewcode-back" href="../../../../dev/api/sas.perspectives.pr.html#sas.perspectives.pr.pr.Plugin.load">[docs]</a> <span class="sd">"""</span> |
---|
| 482 | <span class="sd"> Load data. This will eventually be replaced</span> |
---|
| 483 | <span class="sd"> by our standard DataLoader class.</span> |
---|
| 484 | <span class="sd"> """</span> |
---|
| 485 | <span class="k">class</span> <span class="nc">FileData</span><span class="p">:</span> |
---|
| 486 | <span class="n">x</span> <span class="o">=</span> <span class="bp">None</span> |
---|
| 487 | <span class="n">y</span> <span class="o">=</span> <span class="bp">None</span> |
---|
| 488 | <span class="n">err</span> <span class="o">=</span> <span class="bp">None</span> |
---|
| 489 | <span class="n">path</span> <span class="o">=</span> <span class="bp">None</span> |
---|
| 490 | |
---|
| 491 | <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">path</span><span class="p">):</span> |
---|
| 492 | <span class="bp">self</span><span class="o">.</span><span class="n">path</span> <span class="o">=</span> <span class="n">path</span> |
---|
| 493 | |
---|
| 494 | <span class="bp">self</span><span class="o">.</span><span class="n">_current_file_data</span> <span class="o">=</span> <span class="n">FileData</span><span class="p">(</span><span class="n">data</span><span class="o">.</span><span class="n">path</span><span class="p">)</span> |
---|
| 495 | |
---|
| 496 | <span class="c"># Use data loader to load file</span> |
---|
| 497 | <span class="c">#dataread = Loader().load(path)</span> |
---|
| 498 | <span class="n">dataread</span> <span class="o">=</span> <span class="n">data</span> |
---|
| 499 | <span class="c"># Notify the user if we could not read the file</span> |
---|
| 500 | <span class="k">if</span> <span class="n">dataread</span> <span class="ow">is</span> <span class="bp">None</span><span class="p">:</span> |
---|
| 501 | <span class="k">raise</span> <span class="ne">RuntimeError</span><span class="p">,</span> <span class="s">"Invalid data"</span> |
---|
| 502 | |
---|
| 503 | <span class="n">x</span> <span class="o">=</span> <span class="bp">None</span> |
---|
| 504 | <span class="n">y</span> <span class="o">=</span> <span class="bp">None</span> |
---|
| 505 | <span class="n">err</span> <span class="o">=</span> <span class="bp">None</span> |
---|
| 506 | <span class="k">if</span> <span class="n">dataread</span><span class="o">.</span><span class="n">__class__</span><span class="o">.</span><span class="n">__name__</span> <span class="o">==</span> <span class="s">'Data1D'</span><span class="p">:</span> |
---|
| 507 | <span class="n">x</span> <span class="o">=</span> <span class="n">dataread</span><span class="o">.</span><span class="n">x</span> |
---|
| 508 | <span class="n">y</span> <span class="o">=</span> <span class="n">dataread</span><span class="o">.</span><span class="n">y</span> |
---|
| 509 | <span class="n">err</span> <span class="o">=</span> <span class="n">dataread</span><span class="o">.</span><span class="n">dy</span> |
---|
| 510 | <span class="k">else</span><span class="p">:</span> |
---|
| 511 | <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">dataread</span><span class="p">,</span> <span class="nb">list</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">len</span><span class="p">(</span><span class="n">dataread</span><span class="p">)</span><span class="o">></span><span class="mi">0</span><span class="p">:</span> |
---|
| 512 | <span class="n">x</span> <span class="o">=</span> <span class="n">dataread</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">x</span> |
---|
| 513 | <span class="n">y</span> <span class="o">=</span> <span class="n">dataread</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">y</span> |
---|
| 514 | <span class="n">err</span> <span class="o">=</span> <span class="n">dataread</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">dy</span> |
---|
| 515 | <span class="n">msg</span> <span class="o">=</span> <span class="s">"PrView only allows a single data set at a time. "</span> |
---|
| 516 | <span class="n">msg</span> <span class="o">+=</span> <span class="s">"Only the first data set was loaded."</span> |
---|
| 517 | <span class="n">wx</span><span class="o">.</span><span class="n">PostEvent</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> <span class="n">StatusEvent</span><span class="p">(</span><span class="n">status</span><span class="o">=</span><span class="n">msg</span><span class="p">))</span> |
---|
| 518 | <span class="k">else</span><span class="p">:</span> |
---|
| 519 | <span class="k">if</span> <span class="n">dataread</span> <span class="ow">is</span> <span class="bp">None</span><span class="p">:</span> |
---|
| 520 | <span class="k">return</span> <span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">err</span> |
---|
| 521 | <span class="k">raise</span> <span class="ne">RuntimeError</span><span class="p">,</span> <span class="s">"This tool can only read 1D data"</span> |
---|
| 522 | |
---|
| 523 | <span class="bp">self</span><span class="o">.</span><span class="n">_current_file_data</span><span class="o">.</span><span class="n">x</span> <span class="o">=</span> <span class="n">x</span> |
---|
| 524 | <span class="bp">self</span><span class="o">.</span><span class="n">_current_file_data</span><span class="o">.</span><span class="n">y</span> <span class="o">=</span> <span class="n">y</span> |
---|
| 525 | <span class="bp">self</span><span class="o">.</span><span class="n">_current_file_data</span><span class="o">.</span><span class="n">err</span> <span class="o">=</span> <span class="n">err</span> |
---|
| 526 | <span class="k">return</span> <span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">err</span> |
---|
| 527 | |
---|
| 528 | <span class="k">def</span> <span class="nf">load_columns</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">path</span> <span class="o">=</span> <span class="s">"sphere_60_q0_2.txt"</span><span class="p">):</span></div> |
---|
| 529 | <div class="viewcode-block" id="Plugin.load_columns"><a class="viewcode-back" href="../../../../dev/api/sas.perspectives.pr.html#sas.perspectives.pr.pr.Plugin.load_columns">[docs]</a> <span class="sd">"""</span> |
---|
| 530 | <span class="sd"> Load 2- or 3- column ascii</span> |
---|
| 531 | <span class="sd"> """</span> |
---|
| 532 | <span class="c"># Read the data from the data file</span> |
---|
| 533 | <span class="n">data_x</span> <span class="o">=</span> <span class="n">numpy</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="mi">0</span><span class="p">)</span> |
---|
| 534 | <span class="n">data_y</span> <span class="o">=</span> <span class="n">numpy</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="mi">0</span><span class="p">)</span> |
---|
| 535 | <span class="n">data_err</span> <span class="o">=</span> <span class="n">numpy</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="mi">0</span><span class="p">)</span> |
---|
| 536 | <span class="n">scale</span> <span class="o">=</span> <span class="bp">None</span> |
---|
| 537 | <span class="n">min_err</span> <span class="o">=</span> <span class="mf">0.0</span> |
---|
| 538 | <span class="k">if</span> <span class="ow">not</span> <span class="n">path</span> <span class="o">==</span> <span class="bp">None</span><span class="p">:</span> |
---|
| 539 | <span class="n">input_f</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span><span class="p">,</span><span class="s">'r'</span><span class="p">)</span> |
---|
| 540 | <span class="n">buff</span> <span class="o">=</span> <span class="n">input_f</span><span class="o">.</span><span class="n">read</span><span class="p">()</span> |
---|
| 541 | <span class="n">lines</span> <span class="o">=</span> <span class="n">buff</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s">'</span><span class="se">\n</span><span class="s">'</span><span class="p">)</span> |
---|
| 542 | <span class="k">for</span> <span class="n">line</span> <span class="ow">in</span> <span class="n">lines</span><span class="p">:</span> |
---|
| 543 | <span class="k">try</span><span class="p">:</span> |
---|
| 544 | <span class="n">toks</span> <span class="o">=</span> <span class="n">line</span><span class="o">.</span><span class="n">split</span><span class="p">()</span> |
---|
| 545 | <span class="n">x</span> <span class="o">=</span> <span class="nb">float</span><span class="p">(</span><span class="n">toks</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span> |
---|
| 546 | <span class="n">y</span> <span class="o">=</span> <span class="nb">float</span><span class="p">(</span><span class="n">toks</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span> |
---|
| 547 | <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">toks</span><span class="p">)</span><span class="o">></span><span class="mi">2</span><span class="p">:</span> |
---|
| 548 | <span class="n">err</span> <span class="o">=</span> <span class="nb">float</span><span class="p">(</span><span class="n">toks</span><span class="p">[</span><span class="mi">2</span><span class="p">])</span> |
---|
| 549 | <span class="k">else</span><span class="p">:</span> |
---|
| 550 | <span class="k">if</span> <span class="n">scale</span><span class="o">==</span><span class="bp">None</span><span class="p">:</span> |
---|
| 551 | <span class="n">scale</span> <span class="o">=</span> <span class="mf">0.05</span><span class="o">*</span><span class="n">math</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">y</span><span class="p">)</span> |
---|
| 552 | <span class="c">#scale = 0.05/math.sqrt(y)</span> |
---|
| 553 | <span class="n">min_err</span> <span class="o">=</span> <span class="mf">0.01</span><span class="o">*</span><span class="n">y</span> |
---|
| 554 | <span class="n">err</span> <span class="o">=</span> <span class="n">scale</span><span class="o">*</span><span class="n">math</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">y</span><span class="p">)</span><span class="o">+</span><span class="n">min_err</span> |
---|
| 555 | <span class="c">#err = 0</span> |
---|
| 556 | |
---|
| 557 | <span class="n">data_x</span> <span class="o">=</span> <span class="n">numpy</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">data_x</span><span class="p">,</span> <span class="n">x</span><span class="p">)</span> |
---|
| 558 | <span class="n">data_y</span> <span class="o">=</span> <span class="n">numpy</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">data_y</span><span class="p">,</span> <span class="n">y</span><span class="p">)</span> |
---|
| 559 | <span class="n">data_err</span> <span class="o">=</span> <span class="n">numpy</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">data_err</span><span class="p">,</span> <span class="n">err</span><span class="p">)</span> |
---|
| 560 | <span class="k">except</span><span class="p">:</span> |
---|
| 561 | <span class="k">pass</span> |
---|
| 562 | |
---|
| 563 | <span class="k">if</span> <span class="ow">not</span> <span class="n">scale</span><span class="o">==</span><span class="bp">None</span><span class="p">:</span> |
---|
| 564 | <span class="n">message</span> <span class="o">=</span> <span class="s">"The loaded file had no error bars, statistical errors are assumed."</span> |
---|
| 565 | <span class="n">wx</span><span class="o">.</span><span class="n">PostEvent</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> <span class="n">StatusEvent</span><span class="p">(</span><span class="n">status</span><span class="o">=</span><span class="n">message</span><span class="p">))</span> |
---|
| 566 | <span class="k">else</span><span class="p">:</span> |
---|
| 567 | <span class="n">wx</span><span class="o">.</span><span class="n">PostEvent</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> <span class="n">StatusEvent</span><span class="p">(</span><span class="n">status</span><span class="o">=</span><span class="s">''</span><span class="p">))</span> |
---|
| 568 | |
---|
| 569 | <span class="k">return</span> <span class="n">data_x</span><span class="p">,</span> <span class="n">data_y</span><span class="p">,</span> <span class="n">data_err</span> |
---|
| 570 | |
---|
| 571 | <span class="k">def</span> <span class="nf">load_abs</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">path</span><span class="p">):</span></div> |
---|
| 572 | <div class="viewcode-block" id="Plugin.load_abs"><a class="viewcode-back" href="../../../../dev/api/sas.perspectives.pr.html#sas.perspectives.pr.pr.Plugin.load_abs">[docs]</a> <span class="sd">"""</span> |
---|
| 573 | <span class="sd"> Load an IGOR .ABS reduced file</span> |
---|
| 574 | <span class="sd"> </span> |
---|
| 575 | <span class="sd"> :param path: file path</span> |
---|
| 576 | <span class="sd"> </span> |
---|
| 577 | <span class="sd"> :return: x, y, err vectors</span> |
---|
| 578 | <span class="sd"> </span> |
---|
| 579 | <span class="sd"> """</span> |
---|
| 580 | <span class="c"># Read the data from the data file</span> |
---|
| 581 | <span class="n">data_x</span> <span class="o">=</span> <span class="n">numpy</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="mi">0</span><span class="p">)</span> |
---|
| 582 | <span class="n">data_y</span> <span class="o">=</span> <span class="n">numpy</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="mi">0</span><span class="p">)</span> |
---|
| 583 | <span class="n">data_err</span> <span class="o">=</span> <span class="n">numpy</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="mi">0</span><span class="p">)</span> |
---|
| 584 | <span class="n">scale</span> <span class="o">=</span> <span class="bp">None</span> |
---|
| 585 | <span class="n">min_err</span> <span class="o">=</span> <span class="mf">0.0</span> |
---|
| 586 | |
---|
| 587 | <span class="n">data_started</span> <span class="o">=</span> <span class="bp">False</span> |
---|
| 588 | <span class="k">if</span> <span class="ow">not</span> <span class="n">path</span> <span class="o">==</span> <span class="bp">None</span><span class="p">:</span> |
---|
| 589 | <span class="n">input_f</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span><span class="p">,</span><span class="s">'r'</span><span class="p">)</span> |
---|
| 590 | <span class="n">buff</span> <span class="o">=</span> <span class="n">input_f</span><span class="o">.</span><span class="n">read</span><span class="p">()</span> |
---|
| 591 | <span class="n">lines</span> <span class="o">=</span> <span class="n">buff</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s">'</span><span class="se">\n</span><span class="s">'</span><span class="p">)</span> |
---|
| 592 | <span class="k">for</span> <span class="n">line</span> <span class="ow">in</span> <span class="n">lines</span><span class="p">:</span> |
---|
| 593 | <span class="k">if</span> <span class="n">data_started</span> <span class="o">==</span> <span class="bp">True</span><span class="p">:</span> |
---|
| 594 | <span class="k">try</span><span class="p">:</span> |
---|
| 595 | <span class="n">toks</span> <span class="o">=</span> <span class="n">line</span><span class="o">.</span><span class="n">split</span><span class="p">()</span> |
---|
| 596 | <span class="n">x</span> <span class="o">=</span> <span class="nb">float</span><span class="p">(</span><span class="n">toks</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span> |
---|
| 597 | <span class="n">y</span> <span class="o">=</span> <span class="nb">float</span><span class="p">(</span><span class="n">toks</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span> |
---|
| 598 | <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">toks</span><span class="p">)</span><span class="o">></span><span class="mi">2</span><span class="p">:</span> |
---|
| 599 | <span class="n">err</span> <span class="o">=</span> <span class="nb">float</span><span class="p">(</span><span class="n">toks</span><span class="p">[</span><span class="mi">2</span><span class="p">])</span> |
---|
| 600 | <span class="k">else</span><span class="p">:</span> |
---|
| 601 | <span class="k">if</span> <span class="n">scale</span> <span class="o">==</span> <span class="bp">None</span><span class="p">:</span> |
---|
| 602 | <span class="n">scale</span> <span class="o">=</span> <span class="mf">0.05</span><span class="o">*</span><span class="n">math</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">y</span><span class="p">)</span> |
---|
| 603 | <span class="c">#scale = 0.05/math.sqrt(y)</span> |
---|
| 604 | <span class="n">min_err</span> <span class="o">=</span> <span class="mf">0.01</span><span class="o">*</span><span class="n">y</span> |
---|
| 605 | <span class="n">err</span> <span class="o">=</span> <span class="n">scale</span><span class="o">*</span><span class="n">math</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">y</span><span class="p">)</span><span class="o">+</span><span class="n">min_err</span> |
---|
| 606 | <span class="c">#err = 0</span> |
---|
| 607 | |
---|
| 608 | <span class="n">data_x</span> <span class="o">=</span> <span class="n">numpy</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">data_x</span><span class="p">,</span> <span class="n">x</span><span class="p">)</span> |
---|
| 609 | <span class="n">data_y</span> <span class="o">=</span> <span class="n">numpy</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">data_y</span><span class="p">,</span> <span class="n">y</span><span class="p">)</span> |
---|
| 610 | <span class="n">data_err</span> <span class="o">=</span> <span class="n">numpy</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">data_err</span><span class="p">,</span> <span class="n">err</span><span class="p">)</span> |
---|
| 611 | <span class="k">except</span><span class="p">:</span> |
---|
| 612 | <span class="k">pass</span> |
---|
| 613 | <span class="k">elif</span> <span class="n">line</span><span class="o">.</span><span class="n">find</span><span class="p">(</span><span class="s">"The 6 columns"</span><span class="p">)</span><span class="o">>=</span><span class="mi">0</span><span class="p">:</span> |
---|
| 614 | <span class="n">data_started</span> <span class="o">=</span> <span class="bp">True</span> |
---|
| 615 | |
---|
| 616 | <span class="k">if</span> <span class="ow">not</span> <span class="n">scale</span> <span class="o">==</span> <span class="bp">None</span><span class="p">:</span> |
---|
| 617 | <span class="n">message</span> <span class="o">=</span> <span class="s">"The loaded file had no error bars, statistical errors are assumed."</span> |
---|
| 618 | <span class="n">wx</span><span class="o">.</span><span class="n">PostEvent</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> <span class="n">StatusEvent</span><span class="p">(</span><span class="n">status</span><span class="o">=</span><span class="n">message</span><span class="p">))</span> |
---|
| 619 | <span class="k">else</span><span class="p">:</span> |
---|
| 620 | <span class="n">wx</span><span class="o">.</span><span class="n">PostEvent</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> <span class="n">StatusEvent</span><span class="p">(</span><span class="n">status</span><span class="o">=</span><span class="s">''</span><span class="p">))</span> |
---|
| 621 | |
---|
| 622 | <span class="k">return</span> <span class="n">data_x</span><span class="p">,</span> <span class="n">data_y</span><span class="p">,</span> <span class="n">data_err</span> |
---|
| 623 | |
---|
| 624 | <span class="k">def</span> <span class="nf">pr_theory</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">r</span><span class="p">,</span> <span class="n">R</span><span class="p">):</span></div> |
---|
| 625 | <div class="viewcode-block" id="Plugin.pr_theory"><a class="viewcode-back" href="../../../../dev/api/sas.perspectives.pr.html#sas.perspectives.pr.pr.Plugin.pr_theory">[docs]</a> <span class="sd">""" </span> |
---|
| 626 | <span class="sd"> Return P(r) of a sphere for a given R </span> |
---|
| 627 | <span class="sd"> For test purposes</span> |
---|
| 628 | <span class="sd"> """</span> |
---|
| 629 | <span class="k">if</span> <span class="n">r</span> <span class="o"><=</span> <span class="mi">2</span><span class="o">*</span><span class="n">R</span><span class="p">:</span> |
---|
| 630 | <span class="k">return</span> <span class="mf">12.0</span><span class="o">*</span> <span class="p">((</span><span class="mf">0.5</span><span class="o">*</span><span class="n">r</span><span class="o">/</span><span class="n">R</span><span class="p">)</span><span class="o">**</span><span class="mi">2</span><span class="p">)</span> <span class="o">*</span> <span class="p">((</span><span class="mf">1.0</span><span class="o">-</span><span class="mf">0.5</span><span class="o">*</span><span class="n">r</span><span class="o">/</span><span class="n">R</span><span class="p">)</span><span class="o">**</span><span class="mi">2</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span> <span class="mf">2.0</span> <span class="o">+</span> <span class="mf">0.5</span><span class="o">*</span><span class="n">r</span><span class="o">/</span><span class="n">R</span> <span class="p">)</span> |
---|
| 631 | <span class="k">else</span><span class="p">:</span> |
---|
| 632 | <span class="k">return</span> <span class="mf">0.0</span> |
---|
| 633 | |
---|
| 634 | <span class="k">def</span> <span class="nf">get_context_menu</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">plotpanel</span><span class="o">=</span><span class="bp">None</span><span class="p">):</span></div> |
---|
| 635 | <div class="viewcode-block" id="Plugin.get_context_menu"><a class="viewcode-back" href="../../../../dev/api/sas.perspectives.pr.html#sas.perspectives.pr.pr.Plugin.get_context_menu">[docs]</a> <span class="sd">"""</span> |
---|
| 636 | <span class="sd"> Get the context menu items available for P(r)</span> |
---|
| 637 | <span class="sd"> </span> |
---|
| 638 | <span class="sd"> :param graph: the Graph object to which we attach the context menu</span> |
---|
| 639 | <span class="sd"> </span> |
---|
| 640 | <span class="sd"> :return: a list of menu items with call-back function</span> |
---|
| 641 | <span class="sd"> </span> |
---|
| 642 | <span class="sd"> """</span> |
---|
| 643 | <span class="n">graph</span> <span class="o">=</span> <span class="n">plotpanel</span><span class="o">.</span><span class="n">graph</span> |
---|
| 644 | <span class="c"># Look whether this Graph contains P(r) data</span> |
---|
| 645 | <span class="k">if</span> <span class="n">graph</span><span class="o">.</span><span class="n">selected_plottable</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">plotpanel</span><span class="o">.</span><span class="n">plots</span><span class="p">:</span> |
---|
| 646 | <span class="k">return</span> <span class="p">[]</span> |
---|
| 647 | <span class="n">item</span> <span class="o">=</span> <span class="n">plotpanel</span><span class="o">.</span><span class="n">plots</span><span class="p">[</span><span class="n">graph</span><span class="o">.</span><span class="n">selected_plottable</span><span class="p">]</span> |
---|
| 648 | <span class="k">if</span> <span class="n">item</span><span class="o">.</span><span class="n">id</span> <span class="o">==</span> <span class="n">PR_FIT_LABEL</span><span class="p">:</span> |
---|
| 649 | <span class="c">#add_data_hint = "Load a data file and display it on this plot"</span> |
---|
| 650 | <span class="c">#["Add P(r) data",add_data_hint , self._on_add_data],</span> |
---|
| 651 | <span class="n">change_n_hint</span> <span class="o">=</span> <span class="s">"Change the number of"</span> |
---|
| 652 | <span class="n">change_n_hint</span> <span class="o">+=</span> <span class="s">" points on the P(r) output"</span> |
---|
| 653 | <span class="n">change_n_label</span> <span class="o">=</span> <span class="s">"Change number of P(r) points"</span> |
---|
| 654 | <span class="n">m_list</span> <span class="o">=</span> <span class="p">[[</span><span class="n">change_n_label</span><span class="p">,</span> <span class="n">change_n_hint</span> <span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_on_pr_npts</span><span class="p">]]</span> |
---|
| 655 | |
---|
| 656 | <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">_scale_output_unity</span> <span class="ow">or</span> <span class="bp">self</span><span class="o">.</span><span class="n">_normalize_output</span><span class="p">:</span> |
---|
| 657 | <span class="n">hint</span> <span class="o">=</span> <span class="s">"Let the output P(r) keep the scale of the data"</span> |
---|
| 658 | <span class="n">m_list</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="s">"Disable P(r) scaling"</span><span class="p">,</span> <span class="n">hint</span><span class="p">,</span> |
---|
| 659 | <span class="bp">self</span><span class="o">.</span><span class="n">_on_disable_scaling</span><span class="p">])</span> |
---|
| 660 | <span class="k">if</span> <span class="ow">not</span> <span class="bp">self</span><span class="o">.</span><span class="n">_scale_output_unity</span><span class="p">:</span> |
---|
| 661 | <span class="n">m_list</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="s">"Scale P_max(r) to unity"</span><span class="p">,</span> |
---|
| 662 | <span class="s">"Scale P(r) so that its maximum is 1"</span><span class="p">,</span> |
---|
| 663 | <span class="bp">self</span><span class="o">.</span><span class="n">_on_scale_unity</span><span class="p">])</span> |
---|
| 664 | <span class="k">if</span> <span class="ow">not</span> <span class="bp">self</span><span class="o">.</span><span class="n">_normalize_output</span><span class="p">:</span> |
---|
| 665 | <span class="n">m_list</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="s">"Normalize P(r) to unity"</span><span class="p">,</span> |
---|
| 666 | <span class="s">"Normalize the integral of P(r) to 1"</span><span class="p">,</span> |
---|
| 667 | <span class="bp">self</span><span class="o">.</span><span class="n">_on_normalize</span><span class="p">])</span> |
---|
| 668 | |
---|
| 669 | <span class="k">return</span> <span class="n">m_list</span> |
---|
| 670 | |
---|
| 671 | <span class="k">elif</span> <span class="n">item</span><span class="o">.</span><span class="n">id</span> <span class="ow">in</span> <span class="p">[</span><span class="n">PR_LOADED_LABEL</span><span class="p">,</span> <span class="n">IQ_DATA_LABEL</span><span class="p">,</span> <span class="n">IQ_FIT_LABEL</span><span class="p">,</span> |
---|
| 672 | <span class="n">IQ_SMEARED_LABEL</span><span class="p">]:</span> |
---|
| 673 | <span class="k">return</span> <span class="p">[]</span> |
---|
| 674 | <span class="k">elif</span> <span class="n">item</span><span class="o">.</span><span class="n">id</span> <span class="o">==</span> <span class="n">graph</span><span class="o">.</span><span class="n">selected_plottable</span><span class="p">:</span> |
---|
| 675 | <span class="k">if</span> <span class="ow">not</span> <span class="bp">self</span><span class="o">.</span><span class="n">standalone</span> <span class="ow">and</span> <span class="nb">issubclass</span><span class="p">(</span><span class="n">item</span><span class="o">.</span><span class="n">__class__</span><span class="p">,</span> <span class="n">Data1D</span><span class="p">):</span> |
---|
| 676 | <span class="k">return</span> <span class="p">[[</span><span class="s">"Compute P(r)"</span><span class="p">,</span> |
---|
| 677 | <span class="s">"Compute P(r) from distribution"</span><span class="p">,</span> |
---|
| 678 | <span class="bp">self</span><span class="o">.</span><span class="n">_on_context_inversion</span><span class="p">]]</span> |
---|
| 679 | |
---|
| 680 | <span class="k">return</span> <span class="p">[]</span> |
---|
| 681 | |
---|
| 682 | <span class="k">def</span> <span class="nf">_on_disable_scaling</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">evt</span><span class="p">):</span></div> |
---|
| 683 | <span class="sd">"""</span> |
---|
| 684 | <span class="sd"> Disable P(r) scaling</span> |
---|
| 685 | <span class="sd"> </span> |
---|
| 686 | <span class="sd"> :param evt: Menu event</span> |
---|
| 687 | <span class="sd"> </span> |
---|
| 688 | <span class="sd"> """</span> |
---|
| 689 | <span class="bp">self</span><span class="o">.</span><span class="n">_normalize_output</span> <span class="o">=</span> <span class="bp">False</span> |
---|
| 690 | <span class="bp">self</span><span class="o">.</span><span class="n">_scale_output_unity</span> <span class="o">=</span> <span class="bp">False</span> |
---|
| 691 | <span class="bp">self</span><span class="o">.</span><span class="n">show_pr</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_last_out</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_last_pr</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_last_cov</span><span class="p">)</span> |
---|
| 692 | |
---|
| 693 | <span class="c"># Now replot the original added data</span> |
---|
| 694 | <span class="k">for</span> <span class="n">plot</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">_added_plots</span><span class="p">:</span> |
---|
| 695 | <span class="bp">self</span><span class="o">.</span><span class="n">_added_plots</span><span class="p">[</span><span class="n">plot</span><span class="p">]</span><span class="o">.</span><span class="n">y</span> <span class="o">=</span> <span class="n">numpy</span><span class="o">.</span><span class="n">copy</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_default_Iq</span><span class="p">[</span><span class="n">plot</span><span class="p">])</span> |
---|
| 696 | <span class="n">wx</span><span class="o">.</span><span class="n">PostEvent</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> |
---|
| 697 | <span class="n">NewPlotEvent</span><span class="p">(</span><span class="n">plot</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">_added_plots</span><span class="p">[</span><span class="n">plot</span><span class="p">],</span> |
---|
| 698 | <span class="n">title</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">_added_plots</span><span class="p">[</span><span class="n">plot</span><span class="p">]</span><span class="o">.</span><span class="n">name</span><span class="p">,</span> |
---|
| 699 | <span class="n">update</span><span class="o">=</span><span class="bp">True</span><span class="p">))</span> |
---|
| 700 | |
---|
| 701 | <span class="c"># Need the update flag in the NewPlotEvent to protect against</span> |
---|
| 702 | <span class="c"># the plot no longer being there...</span> |
---|
| 703 | |
---|
| 704 | <span class="k">def</span> <span class="nf">_on_normalize</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">evt</span><span class="p">):</span> |
---|
| 705 | <span class="sd">"""</span> |
---|
| 706 | <span class="sd"> Normalize the area under the P(r) curve to 1.</span> |
---|
| 707 | <span class="sd"> This operation is done for all displayed plots.</span> |
---|
| 708 | <span class="sd"> </span> |
---|
| 709 | <span class="sd"> :param evt: Menu event</span> |
---|
| 710 | <span class="sd"> </span> |
---|
| 711 | <span class="sd"> """</span> |
---|
| 712 | <span class="bp">self</span><span class="o">.</span><span class="n">_normalize_output</span> <span class="o">=</span> <span class="bp">True</span> |
---|
| 713 | <span class="bp">self</span><span class="o">.</span><span class="n">_scale_output_unity</span> <span class="o">=</span> <span class="bp">False</span> |
---|
| 714 | |
---|
| 715 | <span class="bp">self</span><span class="o">.</span><span class="n">show_pr</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_last_out</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_last_pr</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_last_cov</span><span class="p">)</span> |
---|
| 716 | |
---|
| 717 | <span class="c"># Now scale the added plots too</span> |
---|
| 718 | <span class="k">for</span> <span class="n">plot</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">_added_plots</span><span class="p">:</span> |
---|
| 719 | <span class="nb">sum</span> <span class="o">=</span> <span class="n">numpy</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_added_plots</span><span class="p">[</span><span class="n">plot</span><span class="p">]</span><span class="o">.</span><span class="n">y</span><span class="p">)</span> |
---|
| 720 | <span class="n">npts</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_added_plots</span><span class="p">[</span><span class="n">plot</span><span class="p">]</span><span class="o">.</span><span class="n">x</span><span class="p">)</span> |
---|
| 721 | <span class="nb">sum</span> <span class="o">*=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_added_plots</span><span class="p">[</span><span class="n">plot</span><span class="p">]</span><span class="o">.</span><span class="n">x</span><span class="p">[</span><span class="n">npts</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">/</span><span class="n">npts</span> |
---|
| 722 | <span class="n">y</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_added_plots</span><span class="p">[</span><span class="n">plot</span><span class="p">]</span><span class="o">.</span><span class="n">y</span><span class="o">/</span><span class="nb">sum</span> |
---|
| 723 | |
---|
| 724 | <span class="n">new_plot</span> <span class="o">=</span> <span class="n">Data1D</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_added_plots</span><span class="p">[</span><span class="n">plot</span><span class="p">]</span><span class="o">.</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">)</span> |
---|
| 725 | <span class="n">new_plot</span><span class="o">.</span><span class="n">symbol</span> <span class="o">=</span> <span class="n">GUIFRAME_ID</span><span class="o">.</span><span class="n">CURVE_SYMBOL_NUM</span> |
---|
| 726 | <span class="n">new_plot</span><span class="o">.</span><span class="n">group_id</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_added_plots</span><span class="p">[</span><span class="n">plot</span><span class="p">]</span><span class="o">.</span><span class="n">group_id</span> |
---|
| 727 | <span class="n">new_plot</span><span class="o">.</span><span class="n">id</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_added_plots</span><span class="p">[</span><span class="n">plot</span><span class="p">]</span><span class="o">.</span><span class="n">id</span> |
---|
| 728 | <span class="n">new_plot</span><span class="o">.</span><span class="n">title</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_added_plots</span><span class="p">[</span><span class="n">plot</span><span class="p">]</span><span class="o">.</span><span class="n">title</span> |
---|
| 729 | <span class="n">new_plot</span><span class="o">.</span><span class="n">name</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_added_plots</span><span class="p">[</span><span class="n">plot</span><span class="p">]</span><span class="o">.</span><span class="n">name</span> |
---|
| 730 | <span class="n">new_plot</span><span class="o">.</span><span class="n">xaxis</span><span class="p">(</span><span class="s">"</span><span class="se">\\</span><span class="s">rm{r}"</span><span class="p">,</span> <span class="s">'A'</span><span class="p">)</span> |
---|
| 731 | <span class="n">new_plot</span><span class="o">.</span><span class="n">yaxis</span><span class="p">(</span><span class="s">"</span><span class="se">\\</span><span class="s">rm{P(r)} "</span><span class="p">,</span><span class="s">"cm^{-3}"</span><span class="p">)</span> |
---|
| 732 | <span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="o">.</span><span class="n">update_theory</span><span class="p">(</span><span class="n">data_id</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">data_id</span><span class="p">,</span> <span class="n">theory</span><span class="o">=</span><span class="n">new_plot</span><span class="p">)</span> |
---|
| 733 | <span class="n">wx</span><span class="o">.</span><span class="n">PostEvent</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> |
---|
| 734 | <span class="n">NewPlotEvent</span><span class="p">(</span><span class="n">plot</span><span class="o">=</span><span class="n">new_plot</span><span class="p">,</span> <span class="n">update</span><span class="o">=</span><span class="bp">True</span><span class="p">,</span> |
---|
| 735 | <span class="n">title</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">_added_plots</span><span class="p">[</span><span class="n">plot</span><span class="p">]</span><span class="o">.</span><span class="n">name</span><span class="p">))</span> |
---|
| 736 | |
---|
| 737 | <span class="k">def</span> <span class="nf">_on_scale_unity</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">evt</span><span class="p">):</span> |
---|
| 738 | <span class="sd">"""</span> |
---|
| 739 | <span class="sd"> Scale the maximum P(r) value on each displayed plot to 1.</span> |
---|
| 740 | <span class="sd"> </span> |
---|
| 741 | <span class="sd"> :param evt: Menu event</span> |
---|
| 742 | <span class="sd"> </span> |
---|
| 743 | <span class="sd"> """</span> |
---|
| 744 | <span class="bp">self</span><span class="o">.</span><span class="n">_scale_output_unity</span> <span class="o">=</span> <span class="bp">True</span> |
---|
| 745 | <span class="bp">self</span><span class="o">.</span><span class="n">_normalize_output</span> <span class="o">=</span> <span class="bp">False</span> |
---|
| 746 | |
---|
| 747 | <span class="bp">self</span><span class="o">.</span><span class="n">show_pr</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_last_out</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_last_pr</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_last_cov</span><span class="p">)</span> |
---|
| 748 | |
---|
| 749 | <span class="c"># Now scale the added plots too</span> |
---|
| 750 | <span class="k">for</span> <span class="n">plot</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">_added_plots</span><span class="p">:</span> |
---|
| 751 | <span class="n">_max</span> <span class="o">=</span> <span class="mi">0</span> |
---|
| 752 | <span class="k">for</span> <span class="n">y</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">_added_plots</span><span class="p">[</span><span class="n">plot</span><span class="p">]</span><span class="o">.</span><span class="n">y</span><span class="p">:</span> |
---|
| 753 | <span class="k">if</span> <span class="n">y</span><span class="o">></span><span class="n">_max</span><span class="p">:</span> |
---|
| 754 | <span class="n">_max</span> <span class="o">=</span> <span class="n">y</span> |
---|
| 755 | <span class="n">y</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_added_plots</span><span class="p">[</span><span class="n">plot</span><span class="p">]</span><span class="o">.</span><span class="n">y</span><span class="o">/</span><span class="n">_max</span> |
---|
| 756 | |
---|
| 757 | <span class="n">new_plot</span> <span class="o">=</span> <span class="n">Data1D</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_added_plots</span><span class="p">[</span><span class="n">plot</span><span class="p">]</span><span class="o">.</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">)</span> |
---|
| 758 | <span class="n">new_plot</span><span class="o">.</span><span class="n">symbol</span> <span class="o">=</span> <span class="n">GUIFRAME_ID</span><span class="o">.</span><span class="n">CURVE_SYMBOL_NUM</span> |
---|
| 759 | <span class="n">new_plot</span><span class="o">.</span><span class="n">name</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_added_plots</span><span class="p">[</span><span class="n">plot</span><span class="p">]</span><span class="o">.</span><span class="n">name</span> |
---|
| 760 | <span class="n">new_plot</span><span class="o">.</span><span class="n">xaxis</span><span class="p">(</span><span class="s">"</span><span class="se">\\</span><span class="s">rm{r}"</span><span class="p">,</span> <span class="s">'A'</span><span class="p">)</span> |
---|
| 761 | <span class="n">new_plot</span><span class="o">.</span><span class="n">yaxis</span><span class="p">(</span><span class="s">"</span><span class="se">\\</span><span class="s">rm{P(r)} "</span><span class="p">,</span><span class="s">"cm^{-3}"</span><span class="p">)</span> |
---|
| 762 | <span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="o">.</span><span class="n">update_theory</span><span class="p">(</span><span class="n">data_id</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">data_id</span><span class="p">,</span><span class="n">theory</span><span class="o">=</span><span class="n">new_plot</span><span class="p">)</span> |
---|
| 763 | <span class="n">wx</span><span class="o">.</span><span class="n">PostEvent</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> |
---|
| 764 | <span class="n">NewPlotEvent</span><span class="p">(</span><span class="n">plot</span><span class="o">=</span><span class="n">new_plot</span><span class="p">,</span> <span class="n">update</span><span class="o">=</span><span class="bp">True</span><span class="p">,</span> |
---|
| 765 | <span class="n">title</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">_added_plots</span><span class="p">[</span><span class="n">plot</span><span class="p">]</span><span class="o">.</span><span class="n">name</span><span class="p">))</span> |
---|
| 766 | |
---|
| 767 | <span class="k">def</span> <span class="nf">start_thread</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span> |
---|
| 768 | <div class="viewcode-block" id="Plugin.start_thread"><a class="viewcode-back" href="../../../../dev/api/sas.perspectives.pr.html#sas.perspectives.pr.pr.Plugin.start_thread">[docs]</a> <span class="sd">"""</span> |
---|
| 769 | <span class="sd"> """</span> |
---|
| 770 | <span class="kn">from</span> <span class="nn">pr_thread</span> <span class="kn">import</span> <span class="n">CalcPr</span> |
---|
| 771 | |
---|
| 772 | <span class="c"># If a thread is already started, stop it</span> |
---|
| 773 | <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">calc_thread</span> <span class="o">!=</span> <span class="bp">None</span> <span class="ow">and</span> <span class="bp">self</span><span class="o">.</span><span class="n">calc_thread</span><span class="o">.</span><span class="n">isrunning</span><span class="p">():</span> |
---|
| 774 | <span class="bp">self</span><span class="o">.</span><span class="n">calc_thread</span><span class="o">.</span><span class="n">stop</span><span class="p">()</span> |
---|
| 775 | <span class="c">## stop just raises the flag -- the thread is supposed to </span> |
---|
| 776 | <span class="c">## then kill itself. In August 2014 it was shown that this is</span> |
---|
| 777 | <span class="c">## incorrectly handled by fitting.py and a fix implemented. </span> |
---|
| 778 | <span class="c">## It is not clear whether it is properly used here, but the</span> |
---|
| 779 | <span class="c">## "fix" of waiting for the previous thread to end breaks the</span> |
---|
| 780 | <span class="c">## pr perspective completely as it causes an infinite loop.</span> |
---|
| 781 | <span class="c">## Thus it is likely the threading is bing properly handled.</span> |
---|
| 782 | <span class="c">## While the "fix" is no longer implemented the comment is</span> |
---|
| 783 | <span class="c">## left here till somebody ascertains that in fact the threads</span> |
---|
| 784 | <span class="c">## are being properly handled.</span> |
---|
| 785 | <span class="c">##</span> |
---|
| 786 | <span class="c">## -PDB January 25, 2015 </span> |
---|
| 787 | |
---|
| 788 | <span class="n">pr</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">pr</span><span class="o">.</span><span class="n">clone</span><span class="p">()</span> |
---|
| 789 | <span class="bp">self</span><span class="o">.</span><span class="n">calc_thread</span> <span class="o">=</span> <span class="n">CalcPr</span><span class="p">(</span><span class="n">pr</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">nfunc</span><span class="p">,</span> |
---|
| 790 | <span class="n">error_func</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">_thread_error</span><span class="p">,</span> |
---|
| 791 | <span class="n">completefn</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">_completed</span><span class="p">,</span> <span class="n">updatefn</span><span class="o">=</span><span class="bp">None</span><span class="p">)</span> |
---|
| 792 | <span class="bp">self</span><span class="o">.</span><span class="n">calc_thread</span><span class="o">.</span><span class="n">queue</span><span class="p">()</span> |
---|
| 793 | <span class="bp">self</span><span class="o">.</span><span class="n">calc_thread</span><span class="o">.</span><span class="n">ready</span><span class="p">(</span><span class="mf">2.5</span><span class="p">)</span> |
---|
| 794 | |
---|
| 795 | <span class="k">def</span> <span class="nf">_thread_error</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">error</span><span class="p">):</span></div> |
---|
| 796 | <span class="sd">"""</span> |
---|
| 797 | <span class="sd"> """</span> |
---|
| 798 | <span class="n">wx</span><span class="o">.</span><span class="n">PostEvent</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> <span class="n">StatusEvent</span><span class="p">(</span><span class="n">status</span><span class="o">=</span><span class="n">error</span><span class="p">))</span> |
---|
| 799 | |
---|
| 800 | <span class="k">def</span> <span class="nf">_estimate_completed</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">alpha</span><span class="p">,</span> <span class="n">message</span><span class="p">,</span> <span class="n">elapsed</span><span class="p">):</span> |
---|
| 801 | <span class="sd">"""</span> |
---|
| 802 | <span class="sd"> Parameter estimation completed, </span> |
---|
| 803 | <span class="sd"> display the results to the user</span> |
---|
| 804 | <span class="sd"> </span> |
---|
| 805 | <span class="sd"> :param alpha: estimated best alpha</span> |
---|
| 806 | <span class="sd"> :param elapsed: computation time</span> |
---|
| 807 | <span class="sd"> </span> |
---|
| 808 | <span class="sd"> """</span> |
---|
| 809 | <span class="c"># Save useful info</span> |
---|
| 810 | <span class="bp">self</span><span class="o">.</span><span class="n">elapsed</span> <span class="o">=</span> <span class="n">elapsed</span> |
---|
| 811 | <span class="bp">self</span><span class="o">.</span><span class="n">control_panel</span><span class="o">.</span><span class="n">alpha_estimate</span> <span class="o">=</span> <span class="n">alpha</span> |
---|
| 812 | <span class="k">if</span> <span class="ow">not</span> <span class="n">message</span><span class="o">==</span><span class="bp">None</span><span class="p">:</span> |
---|
| 813 | <span class="n">wx</span><span class="o">.</span><span class="n">PostEvent</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> <span class="n">StatusEvent</span><span class="p">(</span><span class="n">status</span><span class="o">=</span><span class="nb">str</span><span class="p">(</span><span class="n">message</span><span class="p">)))</span> |
---|
| 814 | <span class="bp">self</span><span class="o">.</span><span class="n">perform_estimateNT</span><span class="p">()</span> |
---|
| 815 | |
---|
| 816 | <span class="k">def</span> <span class="nf">_estimateNT_completed</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">nterms</span><span class="p">,</span> <span class="n">alpha</span><span class="p">,</span> <span class="n">message</span><span class="p">,</span> <span class="n">elapsed</span><span class="p">):</span> |
---|
| 817 | <span class="sd">"""</span> |
---|
| 818 | <span class="sd"> Parameter estimation completed, </span> |
---|
| 819 | <span class="sd"> display the results to the user</span> |
---|
| 820 | <span class="sd"> </span> |
---|
| 821 | <span class="sd"> :param alpha: estimated best alpha</span> |
---|
| 822 | <span class="sd"> :param nterms: estimated number of terms</span> |
---|
| 823 | <span class="sd"> :param elapsed: computation time</span> |
---|
| 824 | <span class="sd"> </span> |
---|
| 825 | <span class="sd"> """</span> |
---|
| 826 | <span class="c"># Save useful info</span> |
---|
| 827 | <span class="bp">self</span><span class="o">.</span><span class="n">elapsed</span> <span class="o">=</span> <span class="n">elapsed</span> |
---|
| 828 | <span class="bp">self</span><span class="o">.</span><span class="n">control_panel</span><span class="o">.</span><span class="n">nterms_estimate</span> <span class="o">=</span> <span class="n">nterms</span> |
---|
| 829 | <span class="bp">self</span><span class="o">.</span><span class="n">control_panel</span><span class="o">.</span><span class="n">alpha_estimate</span> <span class="o">=</span> <span class="n">alpha</span> |
---|
| 830 | <span class="k">if</span> <span class="ow">not</span> <span class="n">message</span><span class="o">==</span><span class="bp">None</span><span class="p">:</span> |
---|
| 831 | <span class="n">wx</span><span class="o">.</span><span class="n">PostEvent</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> <span class="n">StatusEvent</span><span class="p">(</span><span class="n">status</span><span class="o">=</span><span class="nb">str</span><span class="p">(</span><span class="n">message</span><span class="p">)))</span> |
---|
| 832 | |
---|
| 833 | <span class="k">def</span> <span class="nf">_completed</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">out</span><span class="p">,</span> <span class="n">cov</span><span class="p">,</span> <span class="n">pr</span><span class="p">,</span> <span class="n">elapsed</span><span class="p">):</span> |
---|
| 834 | <span class="sd">"""</span> |
---|
| 835 | <span class="sd"> wxCallAfter Method called with the results when the inversion</span> |
---|
| 836 | <span class="sd"> is done</span> |
---|
| 837 | <span class="sd"> </span> |
---|
| 838 | <span class="sd"> :param out: output coefficient for the base functions</span> |
---|
| 839 | <span class="sd"> :param cov: covariance matrix</span> |
---|
| 840 | <span class="sd"> :param pr: Invertor instance</span> |
---|
| 841 | <span class="sd"> :param elapsed: time spent computing</span> |
---|
| 842 | <span class="sd"> """</span> |
---|
| 843 | <span class="c"># Ensure hat you have all inputs are ready at the time call happens:</span> |
---|
| 844 | <span class="c"># Without CallAfter, it will freeze with wx >= 2.9.</span> |
---|
| 845 | <span class="n">wx</span><span class="o">.</span><span class="n">CallAfter</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_completed_call</span><span class="p">,</span> <span class="n">out</span><span class="p">,</span> <span class="n">cov</span><span class="p">,</span> <span class="n">pr</span><span class="p">,</span> <span class="n">elapsed</span><span class="p">)</span> |
---|
| 846 | |
---|
| 847 | <span class="k">def</span> <span class="nf">_completed_call</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">out</span><span class="p">,</span> <span class="n">cov</span><span class="p">,</span> <span class="n">pr</span><span class="p">,</span> <span class="n">elapsed</span><span class="p">):</span> |
---|
| 848 | <span class="sd">"""</span> |
---|
| 849 | <span class="sd"> Method called with the results when the inversion</span> |
---|
| 850 | <span class="sd"> is done</span> |
---|
| 851 | <span class="sd"> </span> |
---|
| 852 | <span class="sd"> :param out: output coefficient for the base functions</span> |
---|
| 853 | <span class="sd"> :param cov: covariance matrix</span> |
---|
| 854 | <span class="sd"> :param pr: Invertor instance</span> |
---|
| 855 | <span class="sd"> :param elapsed: time spent computing</span> |
---|
| 856 | <span class="sd"> </span> |
---|
| 857 | <span class="sd"> """</span> |
---|
| 858 | <span class="c"># Save useful info</span> |
---|
| 859 | <span class="bp">self</span><span class="o">.</span><span class="n">elapsed</span> <span class="o">=</span> <span class="n">elapsed</span> |
---|
| 860 | <span class="c"># Keep a copy of the last result</span> |
---|
| 861 | <span class="bp">self</span><span class="o">.</span><span class="n">_last_pr</span> <span class="o">=</span> <span class="n">pr</span><span class="o">.</span><span class="n">clone</span><span class="p">()</span> |
---|
| 862 | <span class="bp">self</span><span class="o">.</span><span class="n">_last_out</span> <span class="o">=</span> <span class="n">out</span> |
---|
| 863 | <span class="bp">self</span><span class="o">.</span><span class="n">_last_cov</span> <span class="o">=</span> <span class="n">cov</span> |
---|
| 864 | |
---|
| 865 | <span class="c"># Save Pr invertor</span> |
---|
| 866 | <span class="bp">self</span><span class="o">.</span><span class="n">pr</span> <span class="o">=</span> <span class="n">pr</span> |
---|
| 867 | |
---|
| 868 | <span class="c">#message = "Computation completed in"</span> |
---|
| 869 | <span class="c">#message += %g seconds [chi2=%g]" % (elapsed, pr.chi2)</span> |
---|
| 870 | <span class="c">#wx.PostEvent(self.parent, StatusEvent(status=message))</span> |
---|
| 871 | |
---|
| 872 | <span class="n">cov</span> <span class="o">=</span> <span class="n">numpy</span><span class="o">.</span><span class="n">ascontiguousarray</span><span class="p">(</span><span class="n">cov</span><span class="p">)</span> |
---|
| 873 | |
---|
| 874 | <span class="c"># Show result on control panel</span> |
---|
| 875 | <span class="bp">self</span><span class="o">.</span><span class="n">control_panel</span><span class="o">.</span><span class="n">chi2</span> <span class="o">=</span> <span class="n">pr</span><span class="o">.</span><span class="n">chi2</span> |
---|
| 876 | <span class="bp">self</span><span class="o">.</span><span class="n">control_panel</span><span class="o">.</span><span class="n">elapsed</span> <span class="o">=</span> <span class="n">elapsed</span> |
---|
| 877 | <span class="bp">self</span><span class="o">.</span><span class="n">control_panel</span><span class="o">.</span><span class="n">oscillation</span> <span class="o">=</span> <span class="n">pr</span><span class="o">.</span><span class="n">oscillations</span><span class="p">(</span><span class="n">out</span><span class="p">)</span> |
---|
| 878 | <span class="bp">self</span><span class="o">.</span><span class="n">control_panel</span><span class="o">.</span><span class="n">positive</span> <span class="o">=</span> <span class="n">pr</span><span class="o">.</span><span class="n">get_positive</span><span class="p">(</span><span class="n">out</span><span class="p">)</span> |
---|
| 879 | <span class="bp">self</span><span class="o">.</span><span class="n">control_panel</span><span class="o">.</span><span class="n">pos_err</span> <span class="o">=</span> <span class="n">pr</span><span class="o">.</span><span class="n">get_pos_err</span><span class="p">(</span><span class="n">out</span><span class="p">,</span> <span class="n">cov</span><span class="p">)</span> |
---|
| 880 | <span class="bp">self</span><span class="o">.</span><span class="n">control_panel</span><span class="o">.</span><span class="n">rg</span> <span class="o">=</span> <span class="n">pr</span><span class="o">.</span><span class="n">rg</span><span class="p">(</span><span class="n">out</span><span class="p">)</span> |
---|
| 881 | <span class="bp">self</span><span class="o">.</span><span class="n">control_panel</span><span class="o">.</span><span class="n">iq0</span> <span class="o">=</span> <span class="n">pr</span><span class="o">.</span><span class="n">iq0</span><span class="p">(</span><span class="n">out</span><span class="p">)</span> |
---|
| 882 | <span class="bp">self</span><span class="o">.</span><span class="n">control_panel</span><span class="o">.</span><span class="n">bck</span> <span class="o">=</span> <span class="n">pr</span><span class="o">.</span><span class="n">background</span> |
---|
| 883 | |
---|
| 884 | <span class="c"># Show I(q) fit</span> |
---|
| 885 | <span class="bp">self</span><span class="o">.</span><span class="n">show_iq</span><span class="p">(</span><span class="n">out</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">pr</span><span class="p">)</span> |
---|
| 886 | |
---|
| 887 | <span class="c"># Show P(r) fit</span> |
---|
| 888 | <span class="n">x_values</span><span class="p">,</span> <span class="n">x_range</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">show_pr</span><span class="p">(</span><span class="n">out</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">pr</span><span class="p">,</span> <span class="n">cov</span><span class="p">)</span> |
---|
| 889 | |
---|
| 890 | <span class="k">def</span> <span class="nf">show_data</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">path</span><span class="o">=</span><span class="bp">None</span><span class="p">,</span> <span class="n">data</span><span class="o">=</span><span class="bp">None</span><span class="p">,</span> <span class="n">reset</span><span class="o">=</span><span class="bp">False</span><span class="p">):</span> |
---|
| 891 | <div class="viewcode-block" id="Plugin.show_data"><a class="viewcode-back" href="../../../../dev/api/sas.perspectives.pr.html#sas.perspectives.pr.pr.Plugin.show_data">[docs]</a> <span class="sd">"""</span> |
---|
| 892 | <span class="sd"> Show data read from a file</span> |
---|
| 893 | <span class="sd"> </span> |
---|
| 894 | <span class="sd"> :param path: file path</span> |
---|
| 895 | <span class="sd"> :param reset: if True all other plottables will be cleared</span> |
---|
| 896 | <span class="sd"> </span> |
---|
| 897 | <span class="sd"> """</span> |
---|
| 898 | <span class="c">#if path is not None:</span> |
---|
| 899 | <span class="k">if</span> <span class="n">data</span> <span class="ow">is</span> <span class="ow">not</span> <span class="bp">None</span><span class="p">:</span> |
---|
| 900 | <span class="k">try</span><span class="p">:</span> |
---|
| 901 | <span class="n">pr</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_create_file_pr</span><span class="p">(</span><span class="n">data</span><span class="p">)</span> |
---|
| 902 | <span class="k">except</span><span class="p">:</span> |
---|
| 903 | <span class="n">status</span> <span class="o">=</span> <span class="s">"Problem reading data: </span><span class="si">%s</span><span class="s">"</span> <span class="o">%</span> <span class="n">sys</span><span class="o">.</span><span class="n">exc_value</span> |
---|
| 904 | <span class="n">wx</span><span class="o">.</span><span class="n">PostEvent</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> <span class="n">StatusEvent</span><span class="p">(</span><span class="n">status</span><span class="o">=</span><span class="n">status</span><span class="p">))</span> |
---|
| 905 | <span class="k">raise</span> <span class="ne">RuntimeError</span><span class="p">,</span> <span class="n">status</span> |
---|
| 906 | |
---|
| 907 | <span class="c"># If the file contains nothing, just return</span> |
---|
| 908 | <span class="k">if</span> <span class="n">pr</span> <span class="ow">is</span> <span class="bp">None</span><span class="p">:</span> |
---|
| 909 | <span class="k">raise</span> <span class="ne">RuntimeError</span><span class="p">,</span> <span class="s">"Loaded data is invalid"</span> |
---|
| 910 | |
---|
| 911 | <span class="bp">self</span><span class="o">.</span><span class="n">pr</span> <span class="o">=</span> <span class="n">pr</span> |
---|
| 912 | |
---|
| 913 | <span class="c"># Make a plot of I(q) data</span> |
---|
| 914 | <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">pr</span><span class="o">.</span><span class="n">err</span> <span class="o">==</span> <span class="bp">None</span><span class="p">:</span> |
---|
| 915 | <span class="n">new_plot</span> <span class="o">=</span> <span class="n">Data1D</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">pr</span><span class="o">.</span><span class="n">x</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">pr</span><span class="o">.</span><span class="n">y</span><span class="p">)</span> |
---|
| 916 | <span class="n">new_plot</span><span class="o">.</span><span class="n">symbol</span> <span class="o">=</span> <span class="n">GUIFRAME_ID</span><span class="o">.</span><span class="n">CURVE_SYMBOL_NUM</span> |
---|
| 917 | <span class="k">else</span><span class="p">:</span> |
---|
| 918 | <span class="n">new_plot</span> <span class="o">=</span> <span class="n">Data1D</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">pr</span><span class="o">.</span><span class="n">x</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">pr</span><span class="o">.</span><span class="n">y</span><span class="p">,</span> <span class="n">dy</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">pr</span><span class="o">.</span><span class="n">err</span><span class="p">)</span> |
---|
| 919 | <span class="n">new_plot</span><span class="o">.</span><span class="n">name</span> <span class="o">=</span> <span class="n">IQ_DATA_LABEL</span> |
---|
| 920 | <span class="n">new_plot</span><span class="o">.</span><span class="n">xaxis</span><span class="p">(</span><span class="s">"</span><span class="se">\\</span><span class="s">rm{Q}"</span><span class="p">,</span> <span class="s">'A^{-1}'</span><span class="p">)</span> |
---|
| 921 | <span class="n">new_plot</span><span class="o">.</span><span class="n">yaxis</span><span class="p">(</span><span class="s">"</span><span class="se">\\</span><span class="s">rm{Intensity} "</span><span class="p">,</span><span class="s">"cm^{-1}"</span><span class="p">)</span> |
---|
| 922 | <span class="n">new_plot</span><span class="o">.</span><span class="n">interactive</span> <span class="o">=</span> <span class="bp">True</span> |
---|
| 923 | <span class="n">new_plot</span><span class="o">.</span><span class="n">group_id</span> <span class="o">=</span> <span class="n">GROUP_ID_IQ_DATA</span> |
---|
| 924 | <span class="n">new_plot</span><span class="o">.</span><span class="n">id</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">data_id</span> |
---|
| 925 | <span class="n">new_plot</span><span class="o">.</span><span class="n">title</span> <span class="o">=</span> <span class="s">"I(q)"</span> |
---|
| 926 | <span class="n">wx</span><span class="o">.</span><span class="n">PostEvent</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> |
---|
| 927 | <span class="n">NewPlotEvent</span><span class="p">(</span><span class="n">plot</span><span class="o">=</span><span class="n">new_plot</span><span class="p">,</span> <span class="n">title</span><span class="o">=</span><span class="s">"I(q)"</span><span class="p">,</span> <span class="n">reset</span><span class="o">=</span><span class="n">reset</span><span class="p">))</span> |
---|
| 928 | |
---|
| 929 | <span class="bp">self</span><span class="o">.</span><span class="n">current_plottable</span> <span class="o">=</span> <span class="n">new_plot</span> |
---|
| 930 | <span class="c"># Get Q range</span> |
---|
| 931 | <span class="bp">self</span><span class="o">.</span><span class="n">control_panel</span><span class="o">.</span><span class="n">q_min</span> <span class="o">=</span> <span class="nb">min</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">pr</span><span class="o">.</span><span class="n">x</span><span class="p">)</span> |
---|
| 932 | <span class="bp">self</span><span class="o">.</span><span class="n">control_panel</span><span class="o">.</span><span class="n">q_max</span> <span class="o">=</span> <span class="nb">max</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">pr</span><span class="o">.</span><span class="n">x</span><span class="p">)</span> |
---|
| 933 | |
---|
| 934 | <span class="k">def</span> <span class="nf">save_data</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">filepath</span><span class="p">,</span> <span class="n">prstate</span><span class="o">=</span><span class="bp">None</span><span class="p">):</span></div> |
---|
| 935 | <div class="viewcode-block" id="Plugin.save_data"><a class="viewcode-back" href="../../../../dev/api/sas.perspectives.pr.html#sas.perspectives.pr.pr.Plugin.save_data">[docs]</a> <span class="sd">"""</span> |
---|
| 936 | <span class="sd"> Save data in provided state object.</span> |
---|
| 937 | <span class="sd"> </span> |
---|
| 938 | <span class="sd"> :TODO: move the state code away from inversion_panel and move it here. </span> |
---|
| 939 | <span class="sd"> Then remove the "prstate" input and make this method private.</span> |
---|
| 940 | <span class="sd"> </span> |
---|
| 941 | <span class="sd"> :param filepath: path of file to write to</span> |
---|
| 942 | <span class="sd"> :param prstate: P(r) inversion state </span> |
---|
| 943 | <span class="sd"> </span> |
---|
| 944 | <span class="sd"> """</span> |
---|
| 945 | <span class="c">#TODO: do we need this or can we use DataLoader.loader.save directly?</span> |
---|
| 946 | |
---|
| 947 | <span class="c"># Add output data and coefficients to state</span> |
---|
| 948 | <span class="n">prstate</span><span class="o">.</span><span class="n">coefficients</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_last_out</span> |
---|
| 949 | <span class="n">prstate</span><span class="o">.</span><span class="n">covariance</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_last_cov</span> |
---|
| 950 | |
---|
| 951 | <span class="c"># Write the output to file</span> |
---|
| 952 | <span class="c"># First, check that the data is of the right type</span> |
---|
| 953 | <span class="k">if</span> <span class="nb">issubclass</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">current_plottable</span><span class="o">.</span><span class="n">__class__</span><span class="p">,</span> |
---|
| 954 | <span class="n">sas</span><span class="o">.</span><span class="n">dataloader</span><span class="o">.</span><span class="n">data_info</span><span class="o">.</span><span class="n">Data1D</span><span class="p">):</span> |
---|
| 955 | <span class="bp">self</span><span class="o">.</span><span class="n">state_reader</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">filepath</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">current_plottable</span><span class="p">,</span> <span class="n">prstate</span><span class="p">)</span> |
---|
| 956 | <span class="k">else</span><span class="p">:</span> |
---|
| 957 | <span class="n">msg</span> <span class="o">=</span> <span class="s">"pr.save_data: the data being saved is not a"</span> |
---|
| 958 | <span class="n">msg</span> <span class="o">+=</span> <span class="s">" sas.data_info.Data1D object"</span> |
---|
| 959 | <span class="k">raise</span> <span class="ne">RuntimeError</span><span class="p">,</span> <span class="n">msg</span> |
---|
| 960 | |
---|
| 961 | |
---|
| 962 | <span class="k">def</span> <span class="nf">setup_plot_inversion</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">alpha</span><span class="p">,</span> <span class="n">nfunc</span><span class="p">,</span> <span class="n">d_max</span><span class="p">,</span> <span class="n">q_min</span><span class="o">=</span><span class="bp">None</span><span class="p">,</span> <span class="n">q_max</span><span class="o">=</span><span class="bp">None</span><span class="p">,</span> </div> |
---|
| 963 | <div class="viewcode-block" id="Plugin.setup_plot_inversion"><a class="viewcode-back" href="../../../../dev/api/sas.perspectives.pr.html#sas.perspectives.pr.pr.Plugin.setup_plot_inversion">[docs]</a> <span class="n">bck</span><span class="o">=</span><span class="bp">False</span><span class="p">,</span> <span class="n">height</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">width</span><span class="o">=</span><span class="mi">0</span><span class="p">):</span> |
---|
| 964 | <span class="sd">"""</span> |
---|
| 965 | <span class="sd"> """</span> |
---|
| 966 | <span class="bp">self</span><span class="o">.</span><span class="n">alpha</span> <span class="o">=</span> <span class="n">alpha</span> |
---|
| 967 | <span class="bp">self</span><span class="o">.</span><span class="n">nfunc</span> <span class="o">=</span> <span class="n">nfunc</span> |
---|
| 968 | <span class="bp">self</span><span class="o">.</span><span class="n">max_length</span> <span class="o">=</span> <span class="n">d_max</span> |
---|
| 969 | <span class="bp">self</span><span class="o">.</span><span class="n">q_min</span> <span class="o">=</span> <span class="n">q_min</span> |
---|
| 970 | <span class="bp">self</span><span class="o">.</span><span class="n">q_max</span> <span class="o">=</span> <span class="n">q_max</span> |
---|
| 971 | <span class="bp">self</span><span class="o">.</span><span class="n">has_bck</span> <span class="o">=</span> <span class="n">bck</span> |
---|
| 972 | <span class="bp">self</span><span class="o">.</span><span class="n">slit_height</span> <span class="o">=</span> <span class="n">height</span> |
---|
| 973 | <span class="bp">self</span><span class="o">.</span><span class="n">slit_width</span> <span class="o">=</span> <span class="n">width</span> |
---|
| 974 | |
---|
| 975 | <span class="k">try</span><span class="p">:</span> |
---|
| 976 | <span class="n">pr</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_create_plot_pr</span><span class="p">()</span> |
---|
| 977 | <span class="k">if</span> <span class="ow">not</span> <span class="n">pr</span><span class="o">==</span><span class="bp">None</span><span class="p">:</span> |
---|
| 978 | <span class="bp">self</span><span class="o">.</span><span class="n">pr</span> <span class="o">=</span> <span class="n">pr</span> |
---|
| 979 | <span class="bp">self</span><span class="o">.</span><span class="n">perform_inversion</span><span class="p">()</span> |
---|
| 980 | <span class="k">except</span><span class="p">:</span> |
---|
| 981 | <span class="n">wx</span><span class="o">.</span><span class="n">PostEvent</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> <span class="n">StatusEvent</span><span class="p">(</span><span class="n">status</span><span class="o">=</span><span class="n">sys</span><span class="o">.</span><span class="n">exc_value</span><span class="p">))</span> |
---|
| 982 | |
---|
| 983 | <span class="k">def</span> <span class="nf">estimate_plot_inversion</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">alpha</span><span class="p">,</span> <span class="n">nfunc</span><span class="p">,</span> <span class="n">d_max</span><span class="p">,</span> </div> |
---|
| 984 | <div class="viewcode-block" id="Plugin.estimate_plot_inversion"><a class="viewcode-back" href="../../../../dev/api/sas.perspectives.pr.html#sas.perspectives.pr.pr.Plugin.estimate_plot_inversion">[docs]</a> <span class="n">q_min</span><span class="o">=</span><span class="bp">None</span><span class="p">,</span> <span class="n">q_max</span><span class="o">=</span><span class="bp">None</span><span class="p">,</span> |
---|
| 985 | <span class="n">bck</span><span class="o">=</span><span class="bp">False</span><span class="p">,</span> <span class="n">height</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">width</span><span class="o">=</span><span class="mi">0</span><span class="p">):</span> |
---|
| 986 | <span class="sd">"""</span> |
---|
| 987 | <span class="sd"> """</span> |
---|
| 988 | <span class="bp">self</span><span class="o">.</span><span class="n">alpha</span> <span class="o">=</span> <span class="n">alpha</span> |
---|
| 989 | <span class="bp">self</span><span class="o">.</span><span class="n">nfunc</span> <span class="o">=</span> <span class="n">nfunc</span> |
---|
| 990 | <span class="bp">self</span><span class="o">.</span><span class="n">max_length</span> <span class="o">=</span> <span class="n">d_max</span> |
---|
| 991 | <span class="bp">self</span><span class="o">.</span><span class="n">q_min</span> <span class="o">=</span> <span class="n">q_min</span> |
---|
| 992 | <span class="bp">self</span><span class="o">.</span><span class="n">q_max</span> <span class="o">=</span> <span class="n">q_max</span> |
---|
| 993 | <span class="bp">self</span><span class="o">.</span><span class="n">has_bck</span> <span class="o">=</span> <span class="n">bck</span> |
---|
| 994 | <span class="bp">self</span><span class="o">.</span><span class="n">slit_height</span> <span class="o">=</span> <span class="n">height</span> |
---|
| 995 | <span class="bp">self</span><span class="o">.</span><span class="n">slit_width</span> <span class="o">=</span> <span class="n">width</span> |
---|
| 996 | |
---|
| 997 | <span class="k">try</span><span class="p">:</span> |
---|
| 998 | <span class="n">pr</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_create_plot_pr</span><span class="p">()</span> |
---|
| 999 | <span class="k">if</span> <span class="ow">not</span> <span class="n">pr</span><span class="o">==</span><span class="bp">None</span><span class="p">:</span> |
---|
| 1000 | <span class="bp">self</span><span class="o">.</span><span class="n">pr</span> <span class="o">=</span> <span class="n">pr</span> |
---|
| 1001 | <span class="bp">self</span><span class="o">.</span><span class="n">perform_estimate</span><span class="p">()</span> |
---|
| 1002 | <span class="k">except</span><span class="p">:</span> |
---|
| 1003 | <span class="n">wx</span><span class="o">.</span><span class="n">PostEvent</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> <span class="n">StatusEvent</span><span class="p">(</span><span class="n">status</span><span class="o">=</span><span class="n">sys</span><span class="o">.</span><span class="n">exc_value</span><span class="p">))</span> |
---|
| 1004 | |
---|
| 1005 | <span class="k">def</span> <span class="nf">_create_plot_pr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">estimate</span><span class="o">=</span><span class="bp">False</span><span class="p">):</span></div> |
---|
| 1006 | <span class="sd">"""</span> |
---|
| 1007 | <span class="sd"> Create and prepare invertor instance from</span> |
---|
| 1008 | <span class="sd"> a plottable data set.</span> |
---|
| 1009 | <span class="sd"> </span> |
---|
| 1010 | <span class="sd"> :param path: path of the file to read in </span> |
---|
| 1011 | <span class="sd"> </span> |
---|
| 1012 | <span class="sd"> """</span> |
---|
| 1013 | <span class="c"># Sanity check</span> |
---|
| 1014 | <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">current_plottable</span> <span class="ow">is</span> <span class="bp">None</span><span class="p">:</span> |
---|
| 1015 | <span class="n">msg</span> <span class="o">=</span> <span class="s">"Please load a valid data set before proceeding."</span> |
---|
| 1016 | <span class="n">wx</span><span class="o">.</span><span class="n">PostEvent</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> <span class="n">StatusEvent</span><span class="p">(</span><span class="n">status</span><span class="o">=</span><span class="n">msg</span><span class="p">))</span> |
---|
| 1017 | <span class="k">return</span> <span class="bp">None</span> |
---|
| 1018 | |
---|
| 1019 | <span class="c"># Get the data from the chosen data set and perform inversion</span> |
---|
| 1020 | <span class="n">pr</span> <span class="o">=</span> <span class="n">Invertor</span><span class="p">()</span> |
---|
| 1021 | <span class="n">pr</span><span class="o">.</span><span class="n">d_max</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">max_length</span> |
---|
| 1022 | <span class="n">pr</span><span class="o">.</span><span class="n">alpha</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">alpha</span> |
---|
| 1023 | <span class="n">pr</span><span class="o">.</span><span class="n">q_min</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">q_min</span> |
---|
| 1024 | <span class="n">pr</span><span class="o">.</span><span class="n">q_max</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">q_max</span> |
---|
| 1025 | <span class="n">pr</span><span class="o">.</span><span class="n">x</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">current_plottable</span><span class="o">.</span><span class="n">x</span> |
---|
| 1026 | <span class="n">pr</span><span class="o">.</span><span class="n">y</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">current_plottable</span><span class="o">.</span><span class="n">y</span> |
---|
| 1027 | <span class="n">pr</span><span class="o">.</span><span class="n">has_bck</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">has_bck</span> |
---|
| 1028 | <span class="n">pr</span><span class="o">.</span><span class="n">slit_height</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">slit_height</span> |
---|
| 1029 | <span class="n">pr</span><span class="o">.</span><span class="n">slit_width</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">slit_width</span> |
---|
| 1030 | |
---|
| 1031 | <span class="c"># Keep track of the plot window title to ensure that</span> |
---|
| 1032 | <span class="c"># we can overlay the plots</span> |
---|
| 1033 | <span class="n">pr</span><span class="o">.</span><span class="n">info</span><span class="p">[</span><span class="s">"plot_group_id"</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">current_plottable</span><span class="o">.</span><span class="n">group_id</span> |
---|
| 1034 | |
---|
| 1035 | <span class="c"># Fill in errors if none were provided</span> |
---|
| 1036 | <span class="n">err</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">current_plottable</span><span class="o">.</span><span class="n">dy</span> |
---|
| 1037 | <span class="n">all_zeros</span> <span class="o">=</span> <span class="bp">True</span> |
---|
| 1038 | <span class="k">if</span> <span class="n">err</span> <span class="o">==</span> <span class="bp">None</span><span class="p">:</span> |
---|
| 1039 | <span class="n">err</span> <span class="o">=</span> <span class="n">numpy</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">pr</span><span class="o">.</span><span class="n">y</span><span class="p">))</span> |
---|
| 1040 | <span class="k">else</span><span class="p">:</span> |
---|
| 1041 | <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">err</span><span class="p">)):</span> |
---|
| 1042 | <span class="k">if</span> <span class="n">err</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">></span><span class="mi">0</span><span class="p">:</span> |
---|
| 1043 | <span class="n">all_zeros</span> <span class="o">=</span> <span class="bp">False</span> |
---|
| 1044 | |
---|
| 1045 | <span class="k">if</span> <span class="n">all_zeros</span><span class="p">:</span> |
---|
| 1046 | <span class="n">scale</span> <span class="o">=</span> <span class="bp">None</span> |
---|
| 1047 | <span class="n">min_err</span> <span class="o">=</span> <span class="mf">0.0</span> |
---|
| 1048 | <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">pr</span><span class="o">.</span><span class="n">y</span><span class="p">)):</span> |
---|
| 1049 | <span class="c"># Scale the error so that we can fit over several decades of Q</span> |
---|
| 1050 | <span class="k">if</span> <span class="n">scale</span><span class="o">==</span><span class="bp">None</span><span class="p">:</span> |
---|
| 1051 | <span class="n">scale</span> <span class="o">=</span> <span class="mf">0.05</span><span class="o">*</span><span class="n">math</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">pr</span><span class="o">.</span><span class="n">y</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> |
---|
| 1052 | <span class="n">min_err</span> <span class="o">=</span> <span class="mf">0.01</span><span class="o">*</span><span class="n">pr</span><span class="o">.</span><span class="n">y</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> |
---|
| 1053 | <span class="n">err</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="n">scale</span><span class="o">*</span><span class="n">math</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span> <span class="n">math</span><span class="o">.</span><span class="n">fabs</span><span class="p">(</span><span class="n">pr</span><span class="o">.</span><span class="n">y</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> <span class="p">)</span> <span class="o">+</span> <span class="n">min_err</span> |
---|
| 1054 | <span class="n">message</span> <span class="o">=</span> <span class="s">"The loaded file had no error bars, "</span> |
---|
| 1055 | <span class="n">message</span> <span class="o">+=</span> <span class="s">"statistical errors are assumed."</span> |
---|
| 1056 | <span class="n">wx</span><span class="o">.</span><span class="n">PostEvent</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> <span class="n">StatusEvent</span><span class="p">(</span><span class="n">status</span><span class="o">=</span><span class="n">message</span><span class="p">))</span> |
---|
| 1057 | |
---|
| 1058 | <span class="n">pr</span><span class="o">.</span><span class="n">err</span> <span class="o">=</span> <span class="n">err</span> |
---|
| 1059 | |
---|
| 1060 | <span class="k">return</span> <span class="n">pr</span> |
---|
| 1061 | |
---|
| 1062 | |
---|
| 1063 | <span class="k">def</span> <span class="nf">setup_file_inversion</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">alpha</span><span class="p">,</span> <span class="n">nfunc</span><span class="p">,</span> <span class="n">d_max</span><span class="p">,</span> <span class="n">data</span><span class="p">,</span> |
---|
| 1064 | <div class="viewcode-block" id="Plugin.setup_file_inversion"><a class="viewcode-back" href="../../../../dev/api/sas.perspectives.pr.html#sas.perspectives.pr.pr.Plugin.setup_file_inversion">[docs]</a> <span class="n">path</span><span class="o">=</span><span class="bp">None</span><span class="p">,</span> <span class="n">q_min</span><span class="o">=</span><span class="bp">None</span><span class="p">,</span> <span class="n">q_max</span><span class="o">=</span><span class="bp">None</span><span class="p">,</span> |
---|
| 1065 | <span class="n">bck</span><span class="o">=</span><span class="bp">False</span><span class="p">,</span> <span class="n">height</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">width</span><span class="o">=</span><span class="mi">0</span><span class="p">):</span> |
---|
| 1066 | <span class="sd">"""</span> |
---|
| 1067 | <span class="sd"> """</span> |
---|
| 1068 | <span class="bp">self</span><span class="o">.</span><span class="n">alpha</span> <span class="o">=</span> <span class="n">alpha</span> |
---|
| 1069 | <span class="bp">self</span><span class="o">.</span><span class="n">nfunc</span> <span class="o">=</span> <span class="n">nfunc</span> |
---|
| 1070 | <span class="bp">self</span><span class="o">.</span><span class="n">max_length</span> <span class="o">=</span> <span class="n">d_max</span> |
---|
| 1071 | <span class="bp">self</span><span class="o">.</span><span class="n">q_min</span> <span class="o">=</span> <span class="n">q_min</span> |
---|
| 1072 | <span class="bp">self</span><span class="o">.</span><span class="n">q_max</span> <span class="o">=</span> <span class="n">q_max</span> |
---|
| 1073 | <span class="bp">self</span><span class="o">.</span><span class="n">has_bck</span> <span class="o">=</span> <span class="n">bck</span> |
---|
| 1074 | <span class="bp">self</span><span class="o">.</span><span class="n">slit_height</span> <span class="o">=</span> <span class="n">height</span> |
---|
| 1075 | <span class="bp">self</span><span class="o">.</span><span class="n">slit_width</span> <span class="o">=</span> <span class="n">width</span> |
---|
| 1076 | |
---|
| 1077 | <span class="k">try</span><span class="p">:</span> |
---|
| 1078 | <span class="c">#pr = self._create_file_pr(path)</span> |
---|
| 1079 | <span class="n">pr</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_create_file_pr</span><span class="p">(</span><span class="n">data</span><span class="p">)</span> |
---|
| 1080 | <span class="k">if</span> <span class="ow">not</span> <span class="n">pr</span><span class="o">==</span><span class="bp">None</span><span class="p">:</span> |
---|
| 1081 | <span class="bp">self</span><span class="o">.</span><span class="n">pr</span> <span class="o">=</span> <span class="n">pr</span> |
---|
| 1082 | <span class="bp">self</span><span class="o">.</span><span class="n">perform_inversion</span><span class="p">()</span> |
---|
| 1083 | <span class="k">except</span><span class="p">:</span> |
---|
| 1084 | <span class="n">wx</span><span class="o">.</span><span class="n">PostEvent</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> <span class="n">StatusEvent</span><span class="p">(</span><span class="n">status</span><span class="o">=</span><span class="n">sys</span><span class="o">.</span><span class="n">exc_value</span><span class="p">))</span> |
---|
| 1085 | |
---|
| 1086 | <span class="k">def</span> <span class="nf">estimate_file_inversion</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">alpha</span><span class="p">,</span> <span class="n">nfunc</span><span class="p">,</span> <span class="n">d_max</span><span class="p">,</span> <span class="n">data</span><span class="p">,</span></div> |
---|
| 1087 | <div class="viewcode-block" id="Plugin.estimate_file_inversion"><a class="viewcode-back" href="../../../../dev/api/sas.perspectives.pr.html#sas.perspectives.pr.pr.Plugin.estimate_file_inversion">[docs]</a> <span class="n">path</span><span class="o">=</span><span class="bp">None</span><span class="p">,</span> <span class="n">q_min</span><span class="o">=</span><span class="bp">None</span><span class="p">,</span> <span class="n">q_max</span><span class="o">=</span><span class="bp">None</span><span class="p">,</span> |
---|
| 1088 | <span class="n">bck</span><span class="o">=</span><span class="bp">False</span><span class="p">,</span> <span class="n">height</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">width</span><span class="o">=</span><span class="mi">0</span><span class="p">):</span> |
---|
| 1089 | <span class="sd">"""</span> |
---|
| 1090 | <span class="sd"> """</span> |
---|
| 1091 | <span class="bp">self</span><span class="o">.</span><span class="n">alpha</span> <span class="o">=</span> <span class="n">alpha</span> |
---|
| 1092 | <span class="bp">self</span><span class="o">.</span><span class="n">nfunc</span> <span class="o">=</span> <span class="n">nfunc</span> |
---|
| 1093 | <span class="bp">self</span><span class="o">.</span><span class="n">max_length</span> <span class="o">=</span> <span class="n">d_max</span> |
---|
| 1094 | <span class="bp">self</span><span class="o">.</span><span class="n">q_min</span> <span class="o">=</span> <span class="n">q_min</span> |
---|
| 1095 | <span class="bp">self</span><span class="o">.</span><span class="n">q_max</span> <span class="o">=</span> <span class="n">q_max</span> |
---|
| 1096 | <span class="bp">self</span><span class="o">.</span><span class="n">has_bck</span> <span class="o">=</span> <span class="n">bck</span> |
---|
| 1097 | <span class="bp">self</span><span class="o">.</span><span class="n">slit_height</span> <span class="o">=</span> <span class="n">height</span> |
---|
| 1098 | <span class="bp">self</span><span class="o">.</span><span class="n">slit_width</span> <span class="o">=</span> <span class="n">width</span> |
---|
| 1099 | |
---|
| 1100 | <span class="k">try</span><span class="p">:</span> |
---|
| 1101 | <span class="n">pr</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_create_file_pr</span><span class="p">(</span><span class="n">data</span><span class="p">)</span> |
---|
| 1102 | <span class="c">#pr = self._create_file_pr(path)</span> |
---|
| 1103 | <span class="k">if</span> <span class="ow">not</span> <span class="n">pr</span> <span class="ow">is</span> <span class="bp">None</span><span class="p">:</span> |
---|
| 1104 | <span class="bp">self</span><span class="o">.</span><span class="n">pr</span> <span class="o">=</span> <span class="n">pr</span> |
---|
| 1105 | <span class="bp">self</span><span class="o">.</span><span class="n">perform_estimate</span><span class="p">()</span> |
---|
| 1106 | <span class="k">except</span><span class="p">:</span> |
---|
| 1107 | <span class="n">wx</span><span class="o">.</span><span class="n">PostEvent</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> <span class="n">StatusEvent</span><span class="p">(</span><span class="n">status</span><span class="o">=</span><span class="n">sys</span><span class="o">.</span><span class="n">exc_value</span><span class="p">))</span> |
---|
| 1108 | |
---|
| 1109 | |
---|
| 1110 | <span class="k">def</span> <span class="nf">_create_file_pr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">data</span><span class="p">):</span></div> |
---|
| 1111 | <span class="sd">"""</span> |
---|
| 1112 | <span class="sd"> Create and prepare invertor instance from</span> |
---|
| 1113 | <span class="sd"> a file data set.</span> |
---|
| 1114 | <span class="sd"> </span> |
---|
| 1115 | <span class="sd"> :param path: path of the file to read in </span> |
---|
| 1116 | <span class="sd"> </span> |
---|
| 1117 | <span class="sd"> """</span> |
---|
| 1118 | <span class="c"># Load data</span> |
---|
| 1119 | <span class="c">#if os.path.isfile(path):</span> |
---|
| 1120 | <span class="sd">""" </span> |
---|
| 1121 | <span class="sd"> if self._current_file_data is not None \</span> |
---|
| 1122 | <span class="sd"> and self._current_file_data.path==path:</span> |
---|
| 1123 | <span class="sd"> # Protect against corrupted data from </span> |
---|
| 1124 | <span class="sd"> # previous failed load attempt</span> |
---|
| 1125 | <span class="sd"> if self._current_file_data.x is None:</span> |
---|
| 1126 | <span class="sd"> return None</span> |
---|
| 1127 | <span class="sd"> x = self._current_file_data.x</span> |
---|
| 1128 | <span class="sd"> y = self._current_file_data.y</span> |
---|
| 1129 | <span class="sd"> err = self._current_file_data.err</span> |
---|
| 1130 | <span class="sd"> </span> |
---|
| 1131 | <span class="sd"> message = "The data from this file has already been loaded."</span> |
---|
| 1132 | <span class="sd"> wx.PostEvent(self.parent, StatusEvent(status=message))</span> |
---|
| 1133 | <span class="sd"> else:</span> |
---|
| 1134 | <span class="sd"> """</span> |
---|
| 1135 | <span class="c"># Reset the status bar so that we don't get mixed up</span> |
---|
| 1136 | <span class="c"># with old messages. </span> |
---|
| 1137 | <span class="c">#TODO: refactor this into a proper status handling</span> |
---|
| 1138 | <span class="n">wx</span><span class="o">.</span><span class="n">PostEvent</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> <span class="n">StatusEvent</span><span class="p">(</span><span class="n">status</span><span class="o">=</span><span class="s">''</span><span class="p">))</span> |
---|
| 1139 | <span class="k">try</span><span class="p">:</span> |
---|
| 1140 | <span class="k">class</span> <span class="nc">FileData</span><span class="p">:</span> |
---|
| 1141 | <span class="n">x</span> <span class="o">=</span> <span class="bp">None</span> |
---|
| 1142 | <span class="n">y</span> <span class="o">=</span> <span class="bp">None</span> |
---|
| 1143 | <span class="n">err</span> <span class="o">=</span> <span class="bp">None</span> |
---|
| 1144 | <span class="n">path</span> <span class="o">=</span> <span class="bp">None</span> |
---|
| 1145 | <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">path</span><span class="p">):</span> |
---|
| 1146 | <span class="bp">self</span><span class="o">.</span><span class="n">path</span> <span class="o">=</span> <span class="n">path</span> |
---|
| 1147 | |
---|
| 1148 | <span class="bp">self</span><span class="o">.</span><span class="n">_current_file_data</span> <span class="o">=</span> <span class="n">FileData</span><span class="p">(</span><span class="n">data</span><span class="o">.</span><span class="n">path</span><span class="p">)</span> |
---|
| 1149 | <span class="bp">self</span><span class="o">.</span><span class="n">_current_file_data</span><span class="o">.</span><span class="n">x</span> <span class="o">=</span> <span class="n">data</span><span class="o">.</span><span class="n">x</span> |
---|
| 1150 | <span class="bp">self</span><span class="o">.</span><span class="n">_current_file_data</span><span class="o">.</span><span class="n">y</span> <span class="o">=</span> <span class="n">data</span><span class="o">.</span><span class="n">y</span> |
---|
| 1151 | <span class="bp">self</span><span class="o">.</span><span class="n">_current_file_data</span><span class="o">.</span><span class="n">err</span> <span class="o">=</span> <span class="n">data</span><span class="o">.</span><span class="n">dy</span> |
---|
| 1152 | <span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">err</span> <span class="o">=</span> <span class="n">data</span><span class="o">.</span><span class="n">x</span><span class="p">,</span> <span class="n">data</span><span class="o">.</span><span class="n">y</span><span class="p">,</span> <span class="n">data</span><span class="o">.</span><span class="n">dy</span> |
---|
| 1153 | <span class="k">except</span><span class="p">:</span> |
---|
| 1154 | <span class="n">load_error</span><span class="p">(</span><span class="n">sys</span><span class="o">.</span><span class="n">exc_value</span><span class="p">)</span> |
---|
| 1155 | <span class="k">return</span> <span class="bp">None</span> |
---|
| 1156 | |
---|
| 1157 | <span class="c"># If the file contains no data, just return</span> |
---|
| 1158 | <span class="k">if</span> <span class="n">x</span> <span class="ow">is</span> <span class="bp">None</span> <span class="ow">or</span> <span class="nb">len</span><span class="p">(</span><span class="n">x</span><span class="p">)</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span> |
---|
| 1159 | <span class="n">load_error</span><span class="p">(</span><span class="s">"The loaded file contains no data"</span><span class="p">)</span> |
---|
| 1160 | <span class="k">return</span> <span class="bp">None</span> |
---|
| 1161 | |
---|
| 1162 | <span class="c"># If we have not errors, add statistical errors</span> |
---|
| 1163 | <span class="k">if</span> <span class="n">y</span> <span class="ow">is</span> <span class="ow">not</span> <span class="bp">None</span><span class="p">:</span> |
---|
| 1164 | <span class="k">if</span> <span class="n">err</span> <span class="o">==</span> <span class="bp">None</span> <span class="ow">or</span> <span class="n">numpy</span><span class="o">.</span><span class="n">all</span><span class="p">(</span><span class="n">err</span><span class="p">)</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span> |
---|
| 1165 | <span class="n">err</span> <span class="o">=</span> <span class="n">numpy</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">y</span><span class="p">))</span> |
---|
| 1166 | <span class="n">scale</span> <span class="o">=</span> <span class="bp">None</span> |
---|
| 1167 | <span class="n">min_err</span> <span class="o">=</span> <span class="mf">0.0</span> |
---|
| 1168 | <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">y</span><span class="p">)):</span> |
---|
| 1169 | <span class="c"># Scale the error so that we can fit over several decades of Q</span> |
---|
| 1170 | <span class="k">if</span> <span class="n">scale</span> <span class="o">==</span> <span class="bp">None</span><span class="p">:</span> |
---|
| 1171 | <span class="n">scale</span> <span class="o">=</span> <span class="mf">0.05</span> <span class="o">*</span> <span class="n">math</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">y</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> |
---|
| 1172 | <span class="n">min_err</span> <span class="o">=</span> <span class="mf">0.01</span> <span class="o">*</span> <span class="n">y</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> |
---|
| 1173 | <span class="n">err</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="n">scale</span> <span class="o">*</span> <span class="n">math</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">math</span><span class="o">.</span><span class="n">fabs</span><span class="p">(</span><span class="n">y</span><span class="p">[</span><span class="n">i</span><span class="p">]))</span> <span class="o">+</span> <span class="n">min_err</span> |
---|
| 1174 | <span class="n">message</span> <span class="o">=</span> <span class="s">"The loaded file had no error bars, "</span> |
---|
| 1175 | <span class="n">message</span> <span class="o">+=</span> <span class="s">"statistical errors are assumed."</span> |
---|
| 1176 | <span class="n">wx</span><span class="o">.</span><span class="n">PostEvent</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> <span class="n">StatusEvent</span><span class="p">(</span><span class="n">status</span><span class="o">=</span><span class="n">message</span><span class="p">))</span> |
---|
| 1177 | |
---|
| 1178 | <span class="k">try</span><span class="p">:</span> |
---|
| 1179 | <span class="c"># Get the data from the chosen data set and perform inversion</span> |
---|
| 1180 | <span class="n">pr</span> <span class="o">=</span> <span class="n">Invertor</span><span class="p">()</span> |
---|
| 1181 | <span class="n">pr</span><span class="o">.</span><span class="n">d_max</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">max_length</span> |
---|
| 1182 | <span class="n">pr</span><span class="o">.</span><span class="n">alpha</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">alpha</span> |
---|
| 1183 | <span class="n">pr</span><span class="o">.</span><span class="n">q_min</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">q_min</span> |
---|
| 1184 | <span class="n">pr</span><span class="o">.</span><span class="n">q_max</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">q_max</span> |
---|
| 1185 | <span class="n">pr</span><span class="o">.</span><span class="n">x</span> <span class="o">=</span> <span class="n">x</span> |
---|
| 1186 | <span class="n">pr</span><span class="o">.</span><span class="n">y</span> <span class="o">=</span> <span class="n">y</span> |
---|
| 1187 | <span class="n">pr</span><span class="o">.</span><span class="n">err</span> <span class="o">=</span> <span class="n">err</span> |
---|
| 1188 | <span class="n">pr</span><span class="o">.</span><span class="n">has_bck</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">has_bck</span> |
---|
| 1189 | <span class="n">pr</span><span class="o">.</span><span class="n">slit_height</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">slit_height</span> |
---|
| 1190 | <span class="n">pr</span><span class="o">.</span><span class="n">slit_width</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">slit_width</span> |
---|
| 1191 | <span class="k">return</span> <span class="n">pr</span> |
---|
| 1192 | <span class="k">except</span><span class="p">:</span> |
---|
| 1193 | <span class="n">load_error</span><span class="p">(</span><span class="n">sys</span><span class="o">.</span><span class="n">exc_value</span><span class="p">)</span> |
---|
| 1194 | <span class="k">return</span> <span class="bp">None</span> |
---|
| 1195 | |
---|
| 1196 | <span class="k">def</span> <span class="nf">perform_estimate</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span> |
---|
| 1197 | <div class="viewcode-block" id="Plugin.perform_estimate"><a class="viewcode-back" href="../../../../dev/api/sas.perspectives.pr.html#sas.perspectives.pr.pr.Plugin.perform_estimate">[docs]</a> <span class="sd">"""</span> |
---|
| 1198 | <span class="sd"> """</span> |
---|
| 1199 | <span class="kn">from</span> <span class="nn">pr_thread</span> <span class="kn">import</span> <span class="n">EstimatePr</span> |
---|
| 1200 | <span class="kn">from</span> <span class="nn">copy</span> <span class="kn">import</span> <span class="n">deepcopy</span> |
---|
| 1201 | |
---|
| 1202 | <span class="c"># If a thread is already started, stop it</span> |
---|
| 1203 | <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">estimation_thread</span> <span class="o">!=</span> <span class="bp">None</span> <span class="ow">and</span> \ |
---|
| 1204 | <span class="bp">self</span><span class="o">.</span><span class="n">estimation_thread</span><span class="o">.</span><span class="n">isrunning</span><span class="p">():</span> |
---|
| 1205 | <span class="bp">self</span><span class="o">.</span><span class="n">estimation_thread</span><span class="o">.</span><span class="n">stop</span><span class="p">()</span> |
---|
| 1206 | <span class="c">## stop just raises the flag -- the thread is supposed to </span> |
---|
| 1207 | <span class="c">## then kill itself. In August 2014 it was shown that this is</span> |
---|
| 1208 | <span class="c">## incorrectly handled by fitting.py and a fix implemented. </span> |
---|
| 1209 | <span class="c">## It is not clear whether it is properly used here, but the</span> |
---|
| 1210 | <span class="c">## "fix" of waiting for the previous thread to end breaks the</span> |
---|
| 1211 | <span class="c">## pr perspective completely as it causes an infinite loop.</span> |
---|
| 1212 | <span class="c">## Thus it is likely the threading is bing properly handled.</span> |
---|
| 1213 | <span class="c">## While the "fix" is no longer implemented the comment is</span> |
---|
| 1214 | <span class="c">## left here till somebody ascertains that in fact the threads</span> |
---|
| 1215 | <span class="c">## are being properly handled.</span> |
---|
| 1216 | <span class="c">##</span> |
---|
| 1217 | <span class="c">## -PDB January 25, 2015 </span> |
---|
| 1218 | |
---|
| 1219 | |
---|
| 1220 | <span class="n">pr</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">pr</span><span class="o">.</span><span class="n">clone</span><span class="p">()</span> |
---|
| 1221 | <span class="bp">self</span><span class="o">.</span><span class="n">estimation_thread</span> <span class="o">=</span> <span class="n">EstimatePr</span><span class="p">(</span><span class="n">pr</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">nfunc</span><span class="p">,</span> |
---|
| 1222 | <span class="n">error_func</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">_thread_error</span><span class="p">,</span> |
---|
| 1223 | <span class="n">completefn</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_estimate_completed</span><span class="p">,</span> |
---|
| 1224 | <span class="n">updatefn</span> <span class="o">=</span> <span class="bp">None</span><span class="p">)</span> |
---|
| 1225 | <span class="bp">self</span><span class="o">.</span><span class="n">estimation_thread</span><span class="o">.</span><span class="n">queue</span><span class="p">()</span> |
---|
| 1226 | <span class="bp">self</span><span class="o">.</span><span class="n">estimation_thread</span><span class="o">.</span><span class="n">ready</span><span class="p">(</span><span class="mf">2.5</span><span class="p">)</span> |
---|
| 1227 | |
---|
| 1228 | <span class="k">def</span> <span class="nf">perform_estimateNT</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span></div> |
---|
| 1229 | <div class="viewcode-block" id="Plugin.perform_estimateNT"><a class="viewcode-back" href="../../../../dev/api/sas.perspectives.pr.html#sas.perspectives.pr.pr.Plugin.perform_estimateNT">[docs]</a> <span class="sd">"""</span> |
---|
| 1230 | <span class="sd"> """</span> |
---|
| 1231 | <span class="kn">from</span> <span class="nn">pr_thread</span> <span class="kn">import</span> <span class="n">EstimateNT</span> |
---|
| 1232 | <span class="kn">from</span> <span class="nn">copy</span> <span class="kn">import</span> <span class="n">deepcopy</span> |
---|
| 1233 | |
---|
| 1234 | <span class="c"># If a thread is already started, stop it</span> |
---|
| 1235 | <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">estimation_thread</span> <span class="o">!=</span> <span class="bp">None</span> <span class="ow">and</span> <span class="bp">self</span><span class="o">.</span><span class="n">estimation_thread</span><span class="o">.</span><span class="n">isrunning</span><span class="p">():</span> |
---|
| 1236 | <span class="bp">self</span><span class="o">.</span><span class="n">estimation_thread</span><span class="o">.</span><span class="n">stop</span><span class="p">()</span> |
---|
| 1237 | <span class="c">## stop just raises the flag -- the thread is supposed to </span> |
---|
| 1238 | <span class="c">## then kill itself. In August 2014 it was shown that this is</span> |
---|
| 1239 | <span class="c">## incorrectly handled by fitting.py and a fix implemented. </span> |
---|
| 1240 | <span class="c">## It is not clear whether it is properly used here, but the</span> |
---|
| 1241 | <span class="c">## "fix" of waiting for the previous thread to end breaks the</span> |
---|
| 1242 | <span class="c">## pr perspective completely as it causes an infinite loop.</span> |
---|
| 1243 | <span class="c">## Thus it is likely the threading is bing properly handled.</span> |
---|
| 1244 | <span class="c">## While the "fix" is no longer implemented the comment is</span> |
---|
| 1245 | <span class="c">## left here till somebody ascertains that in fact the threads</span> |
---|
| 1246 | <span class="c">## are being properly handled.</span> |
---|
| 1247 | <span class="c">##</span> |
---|
| 1248 | <span class="c">## -PDB January 25, 2015 </span> |
---|
| 1249 | |
---|
| 1250 | <span class="n">pr</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">pr</span><span class="o">.</span><span class="n">clone</span><span class="p">()</span> |
---|
| 1251 | <span class="c"># Skip the slit settings for the estimation</span> |
---|
| 1252 | <span class="c"># It slows down the application and it doesn't change the estimates</span> |
---|
| 1253 | <span class="n">pr</span><span class="o">.</span><span class="n">slit_height</span> <span class="o">=</span> <span class="mf">0.0</span> |
---|
| 1254 | <span class="n">pr</span><span class="o">.</span><span class="n">slit_width</span> <span class="o">=</span> <span class="mf">0.0</span> |
---|
| 1255 | <span class="bp">self</span><span class="o">.</span><span class="n">estimation_thread</span> <span class="o">=</span> <span class="n">EstimateNT</span><span class="p">(</span><span class="n">pr</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">nfunc</span><span class="p">,</span> |
---|
| 1256 | <span class="n">error_func</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">_thread_error</span><span class="p">,</span> |
---|
| 1257 | <span class="n">completefn</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_estimateNT_completed</span><span class="p">,</span> |
---|
| 1258 | <span class="n">updatefn</span> <span class="o">=</span> <span class="bp">None</span><span class="p">)</span> |
---|
| 1259 | <span class="bp">self</span><span class="o">.</span><span class="n">estimation_thread</span><span class="o">.</span><span class="n">queue</span><span class="p">()</span> |
---|
| 1260 | <span class="bp">self</span><span class="o">.</span><span class="n">estimation_thread</span><span class="o">.</span><span class="n">ready</span><span class="p">(</span><span class="mf">2.5</span><span class="p">)</span> |
---|
| 1261 | |
---|
| 1262 | <span class="k">def</span> <span class="nf">perform_inversion</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span></div> |
---|
| 1263 | <div class="viewcode-block" id="Plugin.perform_inversion"><a class="viewcode-back" href="../../../../dev/api/sas.perspectives.pr.html#sas.perspectives.pr.pr.Plugin.perform_inversion">[docs]</a> <span class="sd">"""</span> |
---|
| 1264 | <span class="sd"> """</span> |
---|
| 1265 | <span class="c"># Time estimate</span> |
---|
| 1266 | <span class="c">#estimated = self.elapsed*self.nfunc**2</span> |
---|
| 1267 | <span class="c">#message = "Computation time may take up to %g seconds" % self.elapsed</span> |
---|
| 1268 | <span class="c">#wx.PostEvent(self.parent, StatusEvent(status=message))</span> |
---|
| 1269 | |
---|
| 1270 | <span class="c"># Start inversion thread</span> |
---|
| 1271 | <span class="bp">self</span><span class="o">.</span><span class="n">start_thread</span><span class="p">()</span> |
---|
| 1272 | <span class="k">return</span> |
---|
| 1273 | |
---|
| 1274 | <span class="n">out</span><span class="p">,</span> <span class="n">cov</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">pr</span><span class="o">.</span><span class="n">lstsq</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">nfunc</span><span class="p">)</span> |
---|
| 1275 | |
---|
| 1276 | <span class="c"># Save useful info</span> |
---|
| 1277 | <span class="bp">self</span><span class="o">.</span><span class="n">elapsed</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">pr</span><span class="o">.</span><span class="n">elapsed</span> |
---|
| 1278 | |
---|
| 1279 | <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">out</span><span class="p">)):</span> |
---|
| 1280 | <span class="k">try</span><span class="p">:</span> |
---|
| 1281 | <span class="k">print</span> <span class="s">"</span><span class="si">%d</span><span class="s">: </span><span class="si">%g</span><span class="s"> +- </span><span class="si">%g</span><span class="s">"</span> <span class="o">%</span> <span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">out</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> |
---|
| 1282 | <span class="n">math</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">math</span><span class="o">.</span><span class="n">fabs</span><span class="p">(</span><span class="n">cov</span><span class="p">[</span><span class="n">i</span><span class="p">][</span><span class="n">i</span><span class="p">])))</span> |
---|
| 1283 | <span class="k">except</span><span class="p">:</span> |
---|
| 1284 | <span class="k">print</span> <span class="s">"</span><span class="si">%d</span><span class="s">: </span><span class="si">%g</span><span class="s"> +- ?"</span> <span class="o">%</span> <span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">out</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> |
---|
| 1285 | |
---|
| 1286 | <span class="c"># Make a plot of I(q) data</span> |
---|
| 1287 | <span class="n">new_plot</span> <span class="o">=</span> <span class="n">Data1D</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">pr</span><span class="o">.</span><span class="n">x</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">pr</span><span class="o">.</span><span class="n">y</span><span class="p">,</span> <span class="n">dy</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">pr</span><span class="o">.</span><span class="n">err</span><span class="p">)</span> |
---|
| 1288 | <span class="n">new_plot</span><span class="o">.</span><span class="n">name</span> <span class="o">=</span> <span class="s">"I_{obs}(q)"</span> |
---|
| 1289 | <span class="n">new_plot</span><span class="o">.</span><span class="n">xaxis</span><span class="p">(</span><span class="s">"</span><span class="se">\\</span><span class="s">rm{Q}"</span><span class="p">,</span> <span class="s">'A^{-1}'</span><span class="p">)</span> |
---|
| 1290 | <span class="n">new_plot</span><span class="o">.</span><span class="n">yaxis</span><span class="p">(</span><span class="s">"</span><span class="se">\\</span><span class="s">rm{Intensity} "</span><span class="p">,</span><span class="s">"cm^{-1}"</span><span class="p">)</span> |
---|
| 1291 | <span class="n">wx</span><span class="o">.</span><span class="n">PostEvent</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> <span class="n">NewPlotEvent</span><span class="p">(</span><span class="n">plot</span><span class="o">=</span><span class="n">new_plot</span><span class="p">,</span> <span class="n">title</span><span class="o">=</span><span class="s">"Iq"</span><span class="p">))</span> |
---|
| 1292 | <span class="c"># Show I(q) fit</span> |
---|
| 1293 | <span class="bp">self</span><span class="o">.</span><span class="n">show_iq</span><span class="p">(</span><span class="n">out</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">pr</span><span class="p">)</span> |
---|
| 1294 | <span class="c"># Show P(r) fit</span> |
---|
| 1295 | <span class="n">x_values</span><span class="p">,</span> <span class="n">x_range</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">show_pr</span><span class="p">(</span><span class="n">out</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">pr</span><span class="p">,</span> <span class="n">cov</span><span class="o">=</span><span class="n">cov</span><span class="p">)</span> |
---|
| 1296 | |
---|
| 1297 | <span class="k">def</span> <span class="nf">_on_context_inversion</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">event</span><span class="p">):</span></div> |
---|
| 1298 | <span class="sd">"""</span> |
---|
| 1299 | <span class="sd"> """</span> |
---|
| 1300 | <span class="n">panel</span> <span class="o">=</span> <span class="n">event</span><span class="o">.</span><span class="n">GetEventObject</span><span class="p">()</span> |
---|
| 1301 | <span class="n">Plugin</span><span class="o">.</span><span class="n">on_perspective</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">event</span><span class="o">=</span><span class="n">event</span><span class="p">)</span> |
---|
| 1302 | |
---|
| 1303 | <span class="c"># If we have more than one displayed plot, make the user choose</span> |
---|
| 1304 | <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">panel</span><span class="o">.</span><span class="n">plots</span><span class="p">)</span> <span class="o">>=</span> <span class="mi">1</span> <span class="ow">and</span> \ |
---|
| 1305 | <span class="n">panel</span><span class="o">.</span><span class="n">graph</span><span class="o">.</span><span class="n">selected_plottable</span> <span class="ow">in</span> <span class="n">panel</span><span class="o">.</span><span class="n">plots</span><span class="p">:</span> |
---|
| 1306 | <span class="n">dataset</span> <span class="o">=</span> <span class="n">panel</span><span class="o">.</span><span class="n">plots</span><span class="p">[</span><span class="n">panel</span><span class="o">.</span><span class="n">graph</span><span class="o">.</span><span class="n">selected_plottable</span><span class="p">]</span><span class="o">.</span><span class="n">name</span> |
---|
| 1307 | <span class="k">else</span><span class="p">:</span> |
---|
| 1308 | <span class="n">logging</span><span class="o">.</span><span class="n">info</span><span class="p">(</span><span class="s">"Prview Error: No data is available"</span><span class="p">)</span> |
---|
| 1309 | <span class="k">return</span> |
---|
| 1310 | |
---|
| 1311 | <span class="c"># Store a reference to the current plottable</span> |
---|
| 1312 | <span class="c"># If we have a suggested value, use it.</span> |
---|
| 1313 | <span class="k">try</span><span class="p">:</span> |
---|
| 1314 | <span class="n">estimate</span> <span class="o">=</span> <span class="nb">float</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">control_panel</span><span class="o">.</span><span class="n">alpha_estimate</span><span class="p">)</span> |
---|
| 1315 | <span class="bp">self</span><span class="o">.</span><span class="n">control_panel</span><span class="o">.</span><span class="n">alpha</span> <span class="o">=</span> <span class="n">estimate</span> |
---|
| 1316 | <span class="k">except</span><span class="p">:</span> |
---|
| 1317 | <span class="bp">self</span><span class="o">.</span><span class="n">control_panel</span><span class="o">.</span><span class="n">alpha</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">alpha</span> |
---|
| 1318 | <span class="n">logging</span><span class="o">.</span><span class="n">info</span><span class="p">(</span><span class="s">"Prview :Alpha Not estimate yet"</span><span class="p">)</span> |
---|
| 1319 | <span class="k">pass</span> |
---|
| 1320 | <span class="k">try</span><span class="p">:</span> |
---|
| 1321 | <span class="n">estimate</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">control_panel</span><span class="o">.</span><span class="n">nterms_estimate</span><span class="p">)</span> |
---|
| 1322 | <span class="bp">self</span><span class="o">.</span><span class="n">control_panel</span><span class="o">.</span><span class="n">nfunc</span> <span class="o">=</span> <span class="n">estimate</span> |
---|
| 1323 | <span class="k">except</span><span class="p">:</span> |
---|
| 1324 | <span class="bp">self</span><span class="o">.</span><span class="n">control_panel</span><span class="o">.</span><span class="n">nfunc</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">nfunc</span> |
---|
| 1325 | <span class="n">logging</span><span class="o">.</span><span class="n">info</span><span class="p">(</span><span class="s">"Prview : ntemrs Not estimate yet"</span><span class="p">)</span> |
---|
| 1326 | <span class="k">pass</span> |
---|
| 1327 | |
---|
| 1328 | <span class="bp">self</span><span class="o">.</span><span class="n">current_plottable</span> <span class="o">=</span> <span class="n">panel</span><span class="o">.</span><span class="n">plots</span><span class="p">[</span><span class="n">panel</span><span class="o">.</span><span class="n">graph</span><span class="o">.</span><span class="n">selected_plottable</span><span class="p">]</span> |
---|
| 1329 | <span class="bp">self</span><span class="o">.</span><span class="n">set_data</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">current_plottable</span><span class="p">])</span> |
---|
| 1330 | <span class="bp">self</span><span class="o">.</span><span class="n">control_panel</span><span class="o">.</span><span class="n">plotname</span> <span class="o">=</span> <span class="n">dataset</span> |
---|
| 1331 | <span class="c">#self.control_panel.nfunc = self.nfunc</span> |
---|
| 1332 | <span class="bp">self</span><span class="o">.</span><span class="n">control_panel</span><span class="o">.</span><span class="n">d_max</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">max_length</span> |
---|
| 1333 | <span class="c">#self.parent.set_perspective(self.perspective)</span> |
---|
| 1334 | <span class="bp">self</span><span class="o">.</span><span class="n">control_panel</span><span class="o">.</span><span class="n">_on_invert</span><span class="p">(</span><span class="bp">None</span><span class="p">)</span> |
---|
| 1335 | |
---|
| 1336 | <span class="k">def</span> <span class="nf">get_panels</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">parent</span><span class="p">):</span> |
---|
| 1337 | <div class="viewcode-block" id="Plugin.get_panels"><a class="viewcode-back" href="../../../../dev/api/sas.perspectives.pr.html#sas.perspectives.pr.pr.Plugin.get_panels">[docs]</a> <span class="sd">"""</span> |
---|
| 1338 | <span class="sd"> Create and return a list of panel objects</span> |
---|
| 1339 | <span class="sd"> """</span> |
---|
| 1340 | <span class="kn">from</span> <span class="nn">inversion_panel</span> <span class="kn">import</span> <span class="n">InversionControl</span> |
---|
| 1341 | |
---|
| 1342 | <span class="bp">self</span><span class="o">.</span><span class="n">parent</span> <span class="o">=</span> <span class="n">parent</span> |
---|
| 1343 | <span class="bp">self</span><span class="o">.</span><span class="n">frame</span> <span class="o">=</span> <span class="n">MDIFrame</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> <span class="bp">None</span><span class="p">,</span> <span class="s">'None'</span><span class="p">,</span> <span class="p">(</span><span class="mi">100</span><span class="p">,</span> <span class="mi">200</span><span class="p">))</span> |
---|
| 1344 | <span class="bp">self</span><span class="o">.</span><span class="n">control_panel</span> <span class="o">=</span> <span class="n">InversionControl</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">frame</span><span class="p">,</span> <span class="o">-</span><span class="mi">1</span><span class="p">,</span> |
---|
| 1345 | <span class="n">style</span><span class="o">=</span><span class="n">wx</span><span class="o">.</span><span class="n">RAISED_BORDER</span><span class="p">,</span> |
---|
| 1346 | <span class="n">standalone</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">standalone</span><span class="p">)</span> |
---|
| 1347 | <span class="bp">self</span><span class="o">.</span><span class="n">frame</span><span class="o">.</span><span class="n">set_panel</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">control_panel</span><span class="p">)</span> |
---|
| 1348 | <span class="bp">self</span><span class="o">.</span><span class="n">_frame_set_helper</span><span class="p">()</span> |
---|
| 1349 | <span class="bp">self</span><span class="o">.</span><span class="n">control_panel</span><span class="o">.</span><span class="n">set_manager</span><span class="p">(</span><span class="bp">self</span><span class="p">)</span> |
---|
| 1350 | <span class="bp">self</span><span class="o">.</span><span class="n">control_panel</span><span class="o">.</span><span class="n">nfunc</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">nfunc</span> |
---|
| 1351 | <span class="bp">self</span><span class="o">.</span><span class="n">control_panel</span><span class="o">.</span><span class="n">d_max</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">max_length</span> |
---|
| 1352 | <span class="bp">self</span><span class="o">.</span><span class="n">control_panel</span><span class="o">.</span><span class="n">alpha</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">alpha</span> |
---|
| 1353 | <span class="bp">self</span><span class="o">.</span><span class="n">perspective</span> <span class="o">=</span> <span class="p">[]</span> |
---|
| 1354 | <span class="bp">self</span><span class="o">.</span><span class="n">perspective</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">control_panel</span><span class="o">.</span><span class="n">window_name</span><span class="p">)</span> |
---|
| 1355 | |
---|
| 1356 | <span class="k">return</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">control_panel</span><span class="p">]</span> |
---|
| 1357 | |
---|
| 1358 | <span class="k">def</span> <span class="nf">set_data</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">data_list</span><span class="o">=</span><span class="bp">None</span><span class="p">):</span></div> |
---|
| 1359 | <div class="viewcode-block" id="Plugin.set_data"><a class="viewcode-back" href="../../../../dev/api/sas.perspectives.pr.html#sas.perspectives.pr.pr.Plugin.set_data">[docs]</a> <span class="sd">"""</span> |
---|
| 1360 | <span class="sd"> receive a list of data to compute pr</span> |
---|
| 1361 | <span class="sd"> """</span> |
---|
| 1362 | <span class="k">if</span> <span class="n">data_list</span> <span class="ow">is</span> <span class="bp">None</span><span class="p">:</span> |
---|
| 1363 | <span class="n">data_list</span> <span class="o">=</span> <span class="p">[]</span> |
---|
| 1364 | <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">data_list</span><span class="p">)</span> <span class="o">>=</span> <span class="mi">1</span><span class="p">:</span> |
---|
| 1365 | <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">data_list</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span> |
---|
| 1366 | <span class="n">data</span> <span class="o">=</span> <span class="n">data_list</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> |
---|
| 1367 | <span class="k">else</span><span class="p">:</span> |
---|
| 1368 | <span class="n">data_1d_list</span> <span class="o">=</span> <span class="p">[]</span> |
---|
| 1369 | <span class="n">data_2d_list</span> <span class="o">=</span> <span class="p">[]</span> |
---|
| 1370 | <span class="n">error_msg</span> <span class="o">=</span> <span class="s">""</span> |
---|
| 1371 | <span class="c"># separate data into data1d and data2d list</span> |
---|
| 1372 | <span class="k">for</span> <span class="n">data</span> <span class="ow">in</span> <span class="n">data_list</span><span class="p">:</span> |
---|
| 1373 | <span class="k">if</span> <span class="n">data</span> <span class="ow">is</span> <span class="ow">not</span> <span class="bp">None</span><span class="p">:</span> |
---|
| 1374 | <span class="k">if</span> <span class="nb">issubclass</span><span class="p">(</span><span class="n">data</span><span class="o">.</span><span class="n">__class__</span><span class="p">,</span> <span class="n">Data1D</span><span class="p">):</span> |
---|
| 1375 | <span class="n">data_1d_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">data</span><span class="p">)</span> |
---|
| 1376 | <span class="k">else</span><span class="p">:</span> |
---|
| 1377 | <span class="n">error_msg</span> <span class="o">+=</span> <span class="s">" </span><span class="si">%s</span><span class="s"> type </span><span class="si">%s</span><span class="s"> </span><span class="se">\n</span><span class="s">"</span> <span class="o">%</span> <span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">data</span><span class="o">.</span><span class="n">name</span><span class="p">),</span> |
---|
| 1378 | <span class="nb">str</span><span class="p">(</span><span class="n">data</span><span class="o">.</span><span class="n">__class__</span><span class="o">.</span><span class="n">__name__</span><span class="p">))</span> |
---|
| 1379 | <span class="n">data_2d_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">data</span><span class="p">)</span> |
---|
| 1380 | <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">data_2d_list</span><span class="p">)</span> <span class="o">></span> <span class="mi">0</span><span class="p">:</span> |
---|
| 1381 | <span class="n">msg</span> <span class="o">=</span> <span class="s">"PrView does not support the following data types:</span><span class="se">\n</span><span class="s">"</span> |
---|
| 1382 | <span class="n">msg</span> <span class="o">+=</span> <span class="n">error_msg</span> |
---|
| 1383 | <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">data_1d_list</span><span class="p">)</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span> |
---|
| 1384 | <span class="n">wx</span><span class="o">.</span><span class="n">PostEvent</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> |
---|
| 1385 | <span class="n">StatusEvent</span><span class="p">(</span><span class="n">status</span><span class="o">=</span><span class="n">msg</span><span class="p">,</span> <span class="n">info</span><span class="o">=</span><span class="s">'error'</span><span class="p">))</span> |
---|
| 1386 | <span class="k">return</span> |
---|
| 1387 | <span class="n">msg</span> <span class="o">+=</span> <span class="s">"Prview does not allow multiple data!</span><span class="se">\n</span><span class="s">"</span> |
---|
| 1388 | <span class="n">msg</span> <span class="o">+=</span> <span class="s">"Please select one.</span><span class="se">\n</span><span class="s">"</span> |
---|
| 1389 | <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">data_list</span><span class="p">)</span> <span class="o">></span> <span class="mi">1</span><span class="p">:</span> |
---|
| 1390 | <span class="kn">from</span> <span class="nn">pr_widgets</span> <span class="kn">import</span> <span class="n">DataDialog</span> |
---|
| 1391 | <span class="n">dlg</span> <span class="o">=</span> <span class="n">DataDialog</span><span class="p">(</span><span class="n">data_list</span><span class="o">=</span><span class="n">data_1d_list</span><span class="p">,</span> <span class="n">text</span><span class="o">=</span><span class="n">msg</span><span class="p">)</span> |
---|
| 1392 | <span class="k">if</span> <span class="n">dlg</span><span class="o">.</span><span class="n">ShowModal</span><span class="p">()</span> <span class="o">==</span> <span class="n">wx</span><span class="o">.</span><span class="n">ID_OK</span><span class="p">:</span> |
---|
| 1393 | <span class="n">data</span> <span class="o">=</span> <span class="n">dlg</span><span class="o">.</span><span class="n">get_data</span><span class="p">()</span> |
---|
| 1394 | <span class="k">else</span><span class="p">:</span> |
---|
| 1395 | <span class="n">data</span> <span class="o">=</span> <span class="bp">None</span> |
---|
| 1396 | <span class="n">dlg</span><span class="o">.</span><span class="n">Destroy</span><span class="p">()</span> |
---|
| 1397 | <span class="k">if</span> <span class="n">data</span> <span class="ow">is</span> <span class="bp">None</span><span class="p">:</span> |
---|
| 1398 | <span class="n">msg</span> <span class="o">+=</span> <span class="s">"PrView receives no data. </span><span class="se">\n</span><span class="s">"</span> |
---|
| 1399 | <span class="n">wx</span><span class="o">.</span><span class="n">PostEvent</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> |
---|
| 1400 | <span class="n">StatusEvent</span><span class="p">(</span><span class="n">status</span><span class="o">=</span><span class="n">msg</span><span class="p">,</span> <span class="n">info</span><span class="o">=</span><span class="s">'error'</span><span class="p">))</span> |
---|
| 1401 | <span class="k">return</span> |
---|
| 1402 | <span class="k">if</span> <span class="nb">issubclass</span><span class="p">(</span><span class="n">data</span><span class="o">.</span><span class="n">__class__</span><span class="p">,</span> <span class="n">Data1D</span><span class="p">):</span> |
---|
| 1403 | <span class="k">try</span><span class="p">:</span> |
---|
| 1404 | <span class="n">wx</span><span class="o">.</span><span class="n">PostEvent</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> <span class="n">NewPlotEvent</span><span class="p">(</span><span class="n">action</span><span class="o">=</span><span class="s">'remove'</span><span class="p">,</span> |
---|
| 1405 | <span class="n">group_id</span><span class="o">=</span><span class="n">GROUP_ID_IQ_DATA</span><span class="p">,</span> |
---|
| 1406 | <span class="nb">id</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">data_id</span><span class="p">))</span> |
---|
| 1407 | |
---|
| 1408 | <span class="bp">self</span><span class="o">.</span><span class="n">data_id</span> <span class="o">=</span> <span class="n">data</span><span class="o">.</span><span class="n">id</span> |
---|
| 1409 | <span class="bp">self</span><span class="o">.</span><span class="n">control_panel</span><span class="o">.</span><span class="n">_change_file</span><span class="p">(</span><span class="n">evt</span><span class="o">=</span><span class="bp">None</span><span class="p">,</span> <span class="n">data</span><span class="o">=</span><span class="n">data</span><span class="p">)</span> |
---|
| 1410 | <span class="k">except</span><span class="p">:</span> |
---|
| 1411 | <span class="n">msg</span> <span class="o">=</span> <span class="s">"Prview Set_data: "</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">sys</span><span class="o">.</span><span class="n">exc_value</span><span class="p">)</span> |
---|
| 1412 | <span class="n">wx</span><span class="o">.</span><span class="n">PostEvent</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> <span class="n">StatusEvent</span><span class="p">(</span><span class="n">status</span><span class="o">=</span><span class="n">msg</span><span class="p">,</span> |
---|
| 1413 | <span class="n">info</span><span class="o">=</span><span class="s">"error"</span><span class="p">))</span> |
---|
| 1414 | <span class="k">else</span><span class="p">:</span> |
---|
| 1415 | <span class="n">msg</span> <span class="o">=</span> <span class="s">"Pr cannot be computed for data of "</span> |
---|
| 1416 | <span class="n">msg</span> <span class="o">+=</span> <span class="s">"type </span><span class="si">%s</span><span class="s">"</span> <span class="o">%</span> <span class="p">(</span><span class="n">data_list</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">__class__</span><span class="o">.</span><span class="n">__name__</span><span class="p">)</span> |
---|
| 1417 | <span class="n">wx</span><span class="o">.</span><span class="n">PostEvent</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> |
---|
| 1418 | <span class="n">StatusEvent</span><span class="p">(</span><span class="n">status</span><span class="o">=</span><span class="n">msg</span><span class="p">,</span> <span class="n">info</span><span class="o">=</span><span class="s">'error'</span><span class="p">))</span> |
---|
| 1419 | <span class="k">else</span><span class="p">:</span> |
---|
| 1420 | <span class="n">msg</span> <span class="o">=</span> <span class="s">"Pr contain no data"</span> |
---|
| 1421 | <span class="n">wx</span><span class="o">.</span><span class="n">PostEvent</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="p">,</span> <span class="n">StatusEvent</span><span class="p">(</span><span class="n">status</span><span class="o">=</span><span class="n">msg</span><span class="p">,</span> <span class="n">info</span><span class="o">=</span><span class="s">'warning'</span><span class="p">))</span> |
---|
| 1422 | |
---|
| 1423 | <span class="k">def</span> <span class="nf">post_init</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span></div> |
---|
| 1424 | <div class="viewcode-block" id="Plugin.post_init"><a class="viewcode-back" href="../../../../dev/api/sas.perspectives.pr.html#sas.perspectives.pr.pr.Plugin.post_init">[docs]</a> <span class="sd">"""</span> |
---|
| 1425 | <span class="sd"> Post initialization call back to close the loose ends</span> |
---|
| 1426 | <span class="sd"> [Somehow openGL needs this call]</span> |
---|
| 1427 | <span class="sd"> """</span> |
---|
| 1428 | <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">standalone</span><span class="p">:</span> |
---|
| 1429 | <span class="bp">self</span><span class="o">.</span><span class="n">parent</span><span class="o">.</span><span class="n">set_perspective</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">perspective</span><span class="p">)</span> |
---|
| 1430 | |
---|
| 1431 | <span class="k">if</span> <span class="n">__name__</span> <span class="o">==</span> <span class="s">"__main__"</span><span class="p">:</span></div></div> |
---|
| 1432 | <span class="n">i</span> <span class="o">=</span> <span class="n">Plugin</span><span class="p">()</span> |
---|
| 1433 | <span class="k">print</span> <span class="n">i</span><span class="o">.</span><span class="n">perform_estimateNT</span><span class="p">()</span> |
---|
| 1434 | |
---|
| 1435 | |
---|
| 1436 | |
---|
| 1437 | |
---|
| 1438 | </pre></div> |
---|
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