1 | import re |
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2 | import sys, wx, logging |
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3 | import string, numpy, math |
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4 | |
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5 | from copy import deepcopy |
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6 | from danse.common.plottools.plottables import Theory1D,Data2D |
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7 | from sans.guicomm.events import NewPlotEvent, StatusEvent |
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8 | from sans.guicomm.events import EVT_SLICER_PANEL,ERR_DATA |
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9 | |
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10 | from sans.fit.AbstractFitEngine import Model |
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11 | from fitproblem import FitProblem |
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12 | from fitpanel import FitPanel |
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13 | from fit_thread import FitThread |
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14 | import models |
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15 | import fitpage1D |
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16 | |
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17 | DEFAULT_BEAM = 0.005 |
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18 | DEFAULT_QMIN = 0.0 |
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19 | DEFAULT_QMAX = 0.1 |
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20 | DEFAULT_NPTS = 50 |
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21 | |
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22 | class Plugin: |
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23 | """ |
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24 | Fitting plugin is used to perform fit |
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25 | """ |
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26 | def __init__(self): |
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27 | ## Plug-in name |
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28 | self.sub_menu = "Fitting" |
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29 | |
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30 | ## Reference to the parent window |
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31 | self.parent = None |
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32 | #Provide list of models existing in the application |
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33 | self.menu_mng = models.ModelManager() |
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34 | ## List of panels for the simulation perspective (names) |
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35 | self.perspective = [] |
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36 | #list of panel to send to guiframe |
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37 | self.mypanels=[] |
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38 | # reference to the current running thread |
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39 | self.calc_thread = None |
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40 | # Start with a good default |
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41 | self.elapsed = 0.022 |
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42 | # the type of optimizer selected, park or scipy |
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43 | self.fitter = None |
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44 | #Flag to let the plug-in know that it is running stand alone |
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45 | self.standalone=True |
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46 | ## Fit engine |
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47 | self._fit_engine = 'scipy' |
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48 | #List of selected data |
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49 | self.selected_data_list=[] |
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50 | # Log startup |
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51 | logging.info("Fitting plug-in started") |
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52 | # model 2D view |
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53 | self.model2D_id=None |
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54 | #keep reference of the simultaneous fit page |
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55 | self.sim_page=None |
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56 | #dictionary containing data name and error on dy of that data |
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57 | self.err_dy={} |
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58 | |
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59 | def _on_data_error(self, event): |
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60 | """ |
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61 | receives and event from plotting plu-gins to store the data name and |
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62 | their errors of y coordinates for 1Data hide and show error |
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63 | """ |
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64 | self.err_dy= event.err_dy |
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65 | |
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66 | def populate_menu(self, id, owner): |
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67 | """ |
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68 | Create a menu for the Fitting plug-in |
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69 | @param id: id to create a menu |
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70 | @param owner: owner of menu |
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71 | @ return : list of information to populate the main menu |
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72 | """ |
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73 | #Menu for fitting |
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74 | self.menu1 = wx.Menu() |
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75 | id1 = wx.NewId() |
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76 | self.menu1.Append(id1, '&Simultaneous') |
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77 | wx.EVT_MENU(owner, id1, self.on_add_sim_page) |
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78 | #Set park engine |
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79 | id3 = wx.NewId() |
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80 | self.menu1.AppendCheckItem(id3, "park") |
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81 | wx.EVT_MENU(owner, id3, self._onset_engine) |
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82 | |
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83 | #menu for model |
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84 | menu2 = wx.Menu() |
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85 | |
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86 | self.menu_mng.populate_menu(menu2, owner) |
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87 | id2 = wx.NewId() |
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88 | owner.Bind(models.EVT_MODEL,self._on_model_menu) |
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89 | |
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90 | self.fit_panel.set_owner(owner) |
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91 | self.fit_panel.set_model_list(self.menu_mng.get_model_list()) |
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92 | owner.Bind(fitpage1D.EVT_MODEL_BOX,self._on_model_panel) |
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93 | |
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94 | #create menubar items |
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95 | return [(id, self.menu1, "Fitting"),(id2, menu2, "Model")] |
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96 | |
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97 | def on_add_sim_page(self, event): |
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98 | """ |
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99 | """ |
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100 | self.sim_page= self.fit_panel.add_sim_page() |
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101 | self.sim_page.add_model(self.page_finder) |
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102 | |
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103 | |
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104 | def help(self, evt): |
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105 | """ |
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106 | Show a general help dialog. |
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107 | TODO: replace the text with a nice image |
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108 | """ |
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109 | #from helpDialog import HelpWindow |
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110 | #dialog = HelpWindow(None, -1, 'HelpWindow') |
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111 | #if dialog.ShowModal() == wx.ID_OK: |
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112 | # pass |
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113 | #dialog.Destroy() |
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114 | from helpPanel import HelpWindow |
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115 | frame = HelpWindow(None, -1, 'HelpWindow') |
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116 | frame.Show(True) |
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117 | |
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118 | |
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119 | def get_context_menu(self, graph=None): |
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120 | """ |
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121 | Get the context menu items available for P(r) |
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122 | @param graph: the Graph object to which we attach the context menu |
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123 | @return: a list of menu items with call-back function |
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124 | """ |
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125 | self.graph=graph |
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126 | for item in graph.plottables: |
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127 | if item.__class__.__name__ is "Data2D": |
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128 | return [["Select data for Fitting",\ |
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129 | "Dialog with fitting parameters ", self._onSelect]] |
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130 | else: |
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131 | #if item.name==graph.selected_plottable and\ |
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132 | # item.__class__.__name__ is "Data1D": |
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133 | if item.name==graph.selected_plottable : |
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134 | return [["Select data for Fitting", \ |
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135 | "Dialog with fitting parameters ", self._onSelect]] |
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136 | return [] |
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137 | |
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138 | |
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139 | def get_panels(self, parent): |
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140 | """ |
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141 | Create and return a list of panel objects |
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142 | """ |
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143 | self.parent = parent |
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144 | # Creation of the fit panel |
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145 | self.fit_panel = FitPanel(self.parent, -1) |
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146 | #Set the manager forthe main panel |
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147 | self.fit_panel.set_manager(self) |
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148 | # List of windows used for the perspective |
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149 | self.perspective = [] |
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150 | self.perspective.append(self.fit_panel.window_name) |
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151 | # take care of saving data, model and page associated with each other |
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152 | self.page_finder = {} |
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153 | #index number to create random model name |
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154 | self.index_model = 0 |
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155 | self.index_theory= 0 |
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156 | self.parent.Bind(EVT_SLICER_PANEL, self._on_slicer_event) |
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157 | self.parent.Bind( ERR_DATA, self._on_data_error) |
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158 | |
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159 | #create the fitting panel |
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160 | #return [self.fit_panel] |
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161 | |
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162 | self.mypanels.append(self.fit_panel) |
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163 | return self.mypanels |
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164 | |
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165 | |
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166 | def _on_slicer_event(self, event): |
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167 | """ |
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168 | """ |
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169 | #print "fitting:slicer event ", event.panel |
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170 | if event.panel!=None: |
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171 | new_panel = event.panel |
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172 | # Set group ID if available |
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173 | event_id = self.parent.popup_panel(new_panel) |
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174 | self.menu1.Append(event_id, new_panel.window_caption, |
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175 | "Show %s plot panel" % new_panel.window_caption) |
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176 | # Set UID to allow us to reference the panel later |
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177 | new_panel.uid = event_id |
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178 | new_panel |
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179 | self.mypanels.append(new_panel) |
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180 | return |
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181 | |
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182 | |
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183 | def _on_show_panel(self, event): |
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184 | print "_on_show_panel: fitting" |
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185 | |
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186 | |
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187 | def get_perspective(self): |
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188 | """ |
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189 | Get the list of panel names for this perspective |
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190 | """ |
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191 | return self.perspective |
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192 | |
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193 | |
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194 | def on_perspective(self, event): |
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195 | """ |
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196 | Call back function for the perspective menu item. |
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197 | We notify the parent window that the perspective |
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198 | has changed. |
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199 | """ |
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200 | self.parent.set_perspective(self.perspective) |
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201 | |
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202 | |
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203 | def post_init(self): |
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204 | """ |
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205 | Post initialization call back to close the loose ends |
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206 | [Somehow openGL needs this call] |
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207 | """ |
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208 | self.parent.set_perspective(self.perspective) |
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209 | |
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210 | |
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211 | def copy_data(self, item, dy): |
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212 | """ |
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213 | """ |
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214 | detector=None |
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215 | source=None |
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216 | dxl=None |
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217 | dxw=None |
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218 | if hasattr(item, "dxl"): |
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219 | dxl = item.dxl |
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220 | if hasattr(item, "dxw"): |
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221 | dxw = item.dxw |
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222 | if hasattr(item, "detector"): |
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223 | detector =item.detector |
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224 | if hasattr(item, "source"): |
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225 | source =item.source |
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226 | from sans.guiframe import dataFitting |
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227 | data= dataFitting.Data1D(x=item.x, y=item.y, dy=dy, dxl=dxl, dxw=dxw) |
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228 | data.name=item.name |
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229 | data.detector=detector |
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230 | data.source= source |
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231 | return data |
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232 | |
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233 | |
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234 | def _onSelect(self,event): |
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235 | """ |
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236 | when Select data to fit a new page is created .Its reference is |
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237 | added to self.page_finder |
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238 | """ |
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239 | self.panel = event.GetEventObject() |
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240 | for item in self.panel.graph.plottables: |
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241 | if item.name == self.panel.graph.selected_plottable: |
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242 | if len(self.err_dy)>0: |
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243 | if item.name in self.err_dy.iterkeys(): |
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244 | dy= self.err_dy[item.name] |
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245 | data= self.copy_data(item, dy) |
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246 | else: |
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247 | data= item |
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248 | else: |
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249 | if item.dy==None: |
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250 | dy= numpy.zeros(len(item.y)) |
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251 | dy[dy==0]=1 |
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252 | data= self.copy_data(item, dy) |
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253 | else: |
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254 | data= item |
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255 | else: |
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256 | data= item |
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257 | |
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258 | |
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259 | if item.name == self.panel.graph.selected_plottable or\ |
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260 | item.__class__.__name__ is "Data2D": |
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261 | #find a name for the page created for notebook |
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262 | #print "fitting", self.panel |
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263 | try: |
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264 | |
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265 | #page = self.fit_panel.add_fit_page(item) |
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266 | page = self.fit_panel.add_fit_page(data) |
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267 | #page, model_name = self.fit_panel.add_fit_page(item) |
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268 | # add data associated to the page created |
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269 | |
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270 | if page !=None: |
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271 | #create a fitproblem storing all link to data,model,page creation |
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272 | self.page_finder[page]= FitProblem() |
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273 | #self.page_finder[page].save_model_name(model_name) |
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274 | self.page_finder[page].add_plotted_data(item) |
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275 | self.page_finder[page].add_fit_data(data) |
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276 | |
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277 | |
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278 | wx.PostEvent(self.parent, StatusEvent(status="Page Created")) |
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279 | else: |
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280 | wx.PostEvent(self.parent, StatusEvent(status="Page was already Created")) |
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281 | except: |
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282 | #raise |
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283 | wx.PostEvent(self.parent, StatusEvent(status="Creating Fit page: %s"\ |
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284 | %sys.exc_value)) |
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285 | return |
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286 | |
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287 | |
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288 | def schedule_for_fit(self,value=0,fitproblem =None): |
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289 | """ |
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290 | |
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291 | """ |
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292 | if fitproblem !=None: |
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293 | fitproblem.schedule_tofit(value) |
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294 | else: |
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295 | current_pg=self.fit_panel.get_current_page() |
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296 | for page, val in self.page_finder.iteritems(): |
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297 | if page ==current_pg : |
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298 | val.schedule_tofit(value) |
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299 | break |
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300 | |
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301 | |
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302 | def get_page_finder(self): |
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303 | """ @return self.page_finder used also by simfitpage.py""" |
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304 | return self.page_finder |
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305 | |
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306 | |
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307 | def set_page_finder(self,modelname,names,values): |
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308 | """ |
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309 | Used by simfitpage.py to reset a parameter given the string constrainst. |
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310 | @param modelname: the name ot the model for with the parameter has to reset |
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311 | @param value: can be a string in this case. |
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312 | @param names: the paramter name |
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313 | @note: expecting park used for fit. |
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314 | """ |
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315 | #sim_page=self.fit_panel.GetPage(1) |
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316 | sim_page= self.sim_page |
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317 | for page, value in self.page_finder.iteritems(): |
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318 | if page != sim_page: |
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319 | list=value.get_model() |
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320 | model=list[0] |
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321 | #print "fitting",model.name,modelname, values |
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322 | if model.name== modelname: |
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323 | value.set_model_param(names,values) |
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324 | break |
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325 | |
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326 | |
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327 | |
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328 | def split_string(self,item): |
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329 | """ |
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330 | receive a word containing dot and split it. used to split parameterset |
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331 | name into model name and parameter name example: |
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332 | paramaterset (item) = M1.A |
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333 | @return model_name =M1 , parameter name =A |
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334 | """ |
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335 | if string.find(item,".")!=-1: |
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336 | param_names= re.split("\.",item) |
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337 | model_name=param_names[0] |
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338 | param_name=param_names[1] |
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339 | return model_name,param_name |
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340 | |
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341 | |
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342 | def _single_fit_completed(self,result,pars,cpage,qmin,qmax,elapsed=None, |
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343 | ymin=None, ymax=None, xmin=None, xmax=None): |
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344 | """ |
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345 | Display fit result on one page of the notebook. |
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346 | @param result: result of fit |
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347 | @param pars: list of names of parameters fitted |
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348 | @param current_pg: the page where information will be displayed |
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349 | @param qmin: the minimum value of x to replot the model |
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350 | @param qmax: the maximum value of x to replot model |
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351 | |
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352 | """ |
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353 | |
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354 | #print "single fit ", pars,result.pvec,result.stderr,result.fitness |
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355 | wx.PostEvent(self.parent, StatusEvent(status="Single fit \ |
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356 | complete " , type="stop")) |
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357 | try: |
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358 | for page, value in self.page_finder.iteritems(): |
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359 | if page==cpage : |
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360 | #fitdata = value.get_data() |
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361 | list = value.get_model() |
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362 | model= list[0] |
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363 | break |
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364 | i = 0 |
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365 | |
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366 | for name in pars: |
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367 | if result.pvec.__class__==numpy.float64: |
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368 | model.setParam(name,result.pvec) |
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369 | else: |
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370 | #print "fitting result : chisqr",result.fitness |
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371 | #print "fitting result : pvec",result.pvec |
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372 | #print "fitting result : stderr",result.stderr |
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373 | #model.setParam(name,result.pvec[i]) |
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374 | # print "fitting: single fit", name, result.pvec[i] |
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375 | i += 1 |
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376 | |
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377 | |
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378 | cpage.onsetValues(result.fitness, result.pvec,result.stderr) |
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379 | #title="Fitted model 2D " |
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380 | self.plot_helper(currpage=cpage,qmin=qmin,qmax=qmax, |
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381 | ymin=ymin, ymax=ymax, |
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382 | xmin=xmin, xmax=xmax,title=None) |
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383 | except: |
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384 | #raise |
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385 | wx.PostEvent(self.parent, StatusEvent(status="Fitting error: %s" % sys.exc_value)) |
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386 | return |
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387 | |
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388 | |
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389 | def _simul_fit_completed(self,result,qmin,qmax, elapsed,pars=None,cpage=None, |
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390 | xmin=None, xmax=None, ymin=None, ymax=None): |
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391 | """ |
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392 | Parameter estimation completed, |
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393 | display the results to the user |
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394 | @param alpha: estimated best alpha |
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395 | @param elapsed: computation time |
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396 | """ |
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397 | if cpage!=None: |
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398 | self._single_fit_completed(result=result,pars=pars,cpage=cpage, |
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399 | qmin=qmin,qmax=qmax, |
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400 | ymin=ymin, ymax=ymax, xmin=xmin, xmax=xmax) |
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401 | return |
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402 | else: |
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403 | wx.PostEvent(self.parent, StatusEvent(status="Simultaneous fit \ |
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404 | complete ", type="stop")) |
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405 | #print "result",cpage,str(result),result.parameters,result.fitness,result.stderr |
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406 | |
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407 | try: |
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408 | for page, value in self.page_finder.iteritems(): |
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409 | if value.get_scheduled()==1: |
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410 | #fitdata = value.get_data() |
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411 | list = value.get_model() |
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412 | model= list[0] |
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413 | |
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414 | small_out = [] |
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415 | small_cov = [] |
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416 | i = 0 |
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417 | #Separate result in to data corresponding to each page |
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418 | for p in result.parameters: |
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419 | model_name,param_name = self.split_string(p.name) |
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420 | if model.name == model_name: |
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421 | small_out.append(p.value ) |
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422 | if p.stderr==None: |
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423 | p.stderr=numpy.nan |
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424 | small_cov.append(p.stderr) |
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425 | model.setParam(param_name,p.value) |
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426 | # Display result on each page |
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427 | #print "mmmm",p.value,p.stderr |
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428 | page.onsetValues(result.fitness, small_out,small_cov) |
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429 | #print "out,err",small_out,small_cov |
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430 | #Replot model |
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431 | self.plot_helper(currpage= page,qmin= qmin,qmax= qmax, |
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432 | xmin=xmin, xmax=xmax, |
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433 | ymin=ymin, ymax=ymax) |
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434 | except: |
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435 | wx.PostEvent(self.parent, StatusEvent(status="Simultaneous Fitting error: %s" % sys.exc_value)) |
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436 | return |
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437 | |
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438 | |
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439 | def stop_fit(self): |
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440 | """ |
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441 | """ |
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442 | if self.calc_thread != None and self.calc_thread.isrunning(): |
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443 | #self.calc_thread.interrupt() |
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444 | self.calc_thread.stop() |
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445 | wx.PostEvent(self.parent, StatusEvent(status="Fitting \ |
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446 | is cancelled" , type="stop")) |
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447 | |
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448 | |
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449 | def _on_single_fit(self,id=None,qmin=None, qmax=None,ymin=None, ymax=None,xmin=None,xmax=None): |
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450 | """ |
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451 | perform fit for the current page and return chisqr,out and cov |
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452 | @param engineName: type of fit to be performed |
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453 | @param id: unique id corresponding to a fit problem(model, set of data) |
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454 | @param model: model to fit |
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455 | |
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456 | """ |
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457 | #print "in single fitting" |
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458 | #set an engine to perform fit |
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459 | from sans.fit.Fitting import Fit |
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460 | self.fitter= Fit(self._fit_engine) |
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461 | #Setting an id to store model and data in fit engine |
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462 | self.fit_id= 0 |
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463 | if id!=None: |
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464 | self.fit_id= id |
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465 | |
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466 | page_fitted=None |
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467 | fit_problem=None |
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468 | #Get information (model , data) related to the page on |
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469 | #with the fit will be perform |
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470 | current_pg=self.fit_panel.get_current_page() |
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471 | #simul_pg=self.fit_panel.GetPage(1 ) |
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472 | simul_pg=self.sim_page |
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473 | pars=[] |
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474 | #for page, value in self.page_finder.iteritems(): |
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475 | if current_pg!= simul_pg: |
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476 | # if value.get_scheduled() ==1 : |
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477 | value = self.page_finder[current_pg] |
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478 | metadata = value.get_fit_data() |
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479 | list = value.get_model() |
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480 | model = list[0] |
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481 | smearer= value.get_smearer() |
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482 | |
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483 | |
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484 | #Create list of parameters for fitting used |
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485 | |
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486 | templist=[] |
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487 | try: |
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488 | #templist=current_pg.get_param_list() |
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489 | templist=current_pg.get_param_list() |
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490 | for element in templist: |
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491 | pars.append(str(element[0].GetLabelText())) |
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492 | pars.sort() |
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493 | #Do the single fit |
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494 | self.fitter.set_model(Model(model), self.fit_id, pars) |
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495 | if self._fit_engine=="scipy": |
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496 | wx.PostEvent(self.parent, StatusEvent(status="Parameters range will\ |
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497 | be ignored for %s fitting engine"%str(self._fit_engine))) |
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498 | #print "args...:",metadata,self.fit_id,smearer,qmin,qmax,ymin,ymax |
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499 | dy=[] |
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500 | x=[] |
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501 | y=[] |
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502 | if metadata.__class__ in ["Data1D","Theory1D"]: |
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503 | for i in range(len(metadata.dy)): |
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504 | if metadata.dy[i] !=0: |
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505 | dy.append(metadata.dy[i]) |
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506 | x.append(metadata.x[i]) |
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507 | y.append(metadata.y[i]) |
---|
508 | if len(dy)>0: |
---|
509 | metadata.dy=numpy.zeros(len(dy)) |
---|
510 | metadata.dy=dy |
---|
511 | metadata.y=numpy.zeros(len(y)) |
---|
512 | metadata.y=y |
---|
513 | metadata.x=numpy.zeros(len(x)) |
---|
514 | metadata.x=x |
---|
515 | self.fitter.set_data(data=metadata,Uid=self.fit_id, |
---|
516 | smearer=smearer,qmin= qmin,qmax=qmax, |
---|
517 | ymin=ymin,ymax=ymax) |
---|
518 | self.fitter.select_problem_for_fit(Uid=self.fit_id,value=value.get_scheduled()) |
---|
519 | page_fitted=current_pg |
---|
520 | #self.fit_id+=1 |
---|
521 | #self.schedule_for_fit( 0,value) |
---|
522 | except: |
---|
523 | wx.PostEvent(self.parent, StatusEvent(status="Single Fit error: %s" % sys.exc_value)) |
---|
524 | return |
---|
525 | # make sure to keep an alphabetic order |
---|
526 | #of parameter names in the list |
---|
527 | try: |
---|
528 | # If a thread is already started, stop it |
---|
529 | if self.calc_thread != None and self.calc_thread.isrunning(): |
---|
530 | self.calc_thread.stop() |
---|
531 | |
---|
532 | self.calc_thread =FitThread(parent =self.parent, |
---|
533 | fn= self.fitter, |
---|
534 | pars= pars, |
---|
535 | cpage= page_fitted, |
---|
536 | qmin=qmin, |
---|
537 | qmax=qmax, |
---|
538 | |
---|
539 | completefn=self._single_fit_completed, |
---|
540 | updatefn=None) |
---|
541 | self.calc_thread.queue() |
---|
542 | self.calc_thread.ready(2.5) |
---|
543 | |
---|
544 | except: |
---|
545 | wx.PostEvent(self.parent, StatusEvent(status="Single Fit error: %s" % sys.exc_value)) |
---|
546 | return |
---|
547 | |
---|
548 | def _on_simul_fit(self, id=None,qmin=None,qmax=None, ymin=None, ymax=None): |
---|
549 | """ |
---|
550 | perform fit for all the pages selected on simpage and return chisqr,out and cov |
---|
551 | @param engineName: type of fit to be performed |
---|
552 | @param id: unique id corresponding to a fit problem(model, set of data) |
---|
553 | in park_integration |
---|
554 | @param model: model to fit |
---|
555 | |
---|
556 | """ |
---|
557 | #set an engine to perform fit |
---|
558 | from sans.fit.Fitting import Fit |
---|
559 | self.fitter= Fit(self._fit_engine) |
---|
560 | self.fit_id= 0 |
---|
561 | #Setting an id to store model and data |
---|
562 | if id!=None: |
---|
563 | self.fit_id= id |
---|
564 | |
---|
565 | |
---|
566 | for page, value in self.page_finder.iteritems(): |
---|
567 | try: |
---|
568 | if value.get_scheduled()==1: |
---|
569 | metadata = value.get_fit_data() |
---|
570 | list = value.get_model() |
---|
571 | model= list[0] |
---|
572 | #Create dictionary of parameters for fitting used |
---|
573 | cpage= page |
---|
574 | print "" |
---|
575 | pars = [] |
---|
576 | templist = [] |
---|
577 | templist = page.get_param_list() |
---|
578 | for element in templist: |
---|
579 | try: |
---|
580 | name = str(element[0].GetLabelText()) |
---|
581 | pars.append(name) |
---|
582 | except: |
---|
583 | wx.PostEvent(self.parent, StatusEvent(status="Simultaneous Fit error: %s" % sys.exc_value)) |
---|
584 | return |
---|
585 | # need to check this print "new model " |
---|
586 | |
---|
587 | new_model=Model(model) |
---|
588 | param=value.get_model_param() |
---|
589 | |
---|
590 | if len(param)>0: |
---|
591 | for item in param: |
---|
592 | param_value = item[1] |
---|
593 | param_name = item[0] |
---|
594 | |
---|
595 | new_model.parameterset[ param_name].set( param_value ) |
---|
596 | |
---|
597 | self.fitter.set_model(new_model, self.fit_id, pars) |
---|
598 | #print "sim-->model",metadata,model,self.fit_id, pars |
---|
599 | dy=[] |
---|
600 | x=[] |
---|
601 | y=[] |
---|
602 | if metadata.__class__ in ["Data1D","Theory1D"]: |
---|
603 | for i in range(len(metadata.dy)): |
---|
604 | if metadata.dy[i] !=0: |
---|
605 | dy.append(metadata.dy[i]) |
---|
606 | x.append(metadata.x[i]) |
---|
607 | y.append(metadata.y[i]) |
---|
608 | if len(dy)>0: |
---|
609 | metadata.dy=numpy.zeros(len(dy)) |
---|
610 | metadata.dy=dy |
---|
611 | metadata.y=numpy.zeros(len(y)) |
---|
612 | metadata.y=y |
---|
613 | metadata.x=numpy.zeros(len(x)) |
---|
614 | metadata.x=x |
---|
615 | self.fitter.set_data(metadata,self.fit_id,qmin,qmax,ymin,ymax) |
---|
616 | #print "sim---->value of problem",value.get_scheduled() |
---|
617 | self.fitter.select_problem_for_fit(Uid=self.fit_id,value=value.get_scheduled()) |
---|
618 | self.fit_id += 1 |
---|
619 | value.clear_model_param() |
---|
620 | #self.schedule_for_fit( 0,value) |
---|
621 | except: |
---|
622 | wx.PostEvent(self.parent, StatusEvent(status="Simultaneous Fit error: %s" % sys.exc_value)) |
---|
623 | return |
---|
624 | #Do the simultaneous fit |
---|
625 | try: |
---|
626 | # If a thread is already started, stop it |
---|
627 | if self.calc_thread != None and self.calc_thread.isrunning(): |
---|
628 | self.calc_thread.stop() |
---|
629 | if self.fit_id==1: |
---|
630 | self.calc_thread =FitThread(parent =self.parent, |
---|
631 | fn= self.fitter, |
---|
632 | qmin=qmin, |
---|
633 | qmax=qmax, |
---|
634 | ymin= ymin, |
---|
635 | ymax= ymax, |
---|
636 | cpage=cpage, |
---|
637 | pars= pars, |
---|
638 | completefn= self._simul_fit_completed, |
---|
639 | updatefn=None) |
---|
640 | |
---|
641 | else: |
---|
642 | self.calc_thread =FitThread(parent =self.parent, |
---|
643 | fn= self.fitter, |
---|
644 | qmin=qmin, |
---|
645 | qmax=qmax, |
---|
646 | ymin= ymin, |
---|
647 | ymax= ymax, |
---|
648 | completefn= self._simul_fit_completed, |
---|
649 | updatefn=None) |
---|
650 | self.calc_thread.queue() |
---|
651 | self.calc_thread.ready(2.5) |
---|
652 | |
---|
653 | except: |
---|
654 | wx.PostEvent(self.parent, StatusEvent(status="Simultaneous Fit error: %s" % sys.exc_value)) |
---|
655 | return |
---|
656 | |
---|
657 | |
---|
658 | def _onset_engine(self,event): |
---|
659 | """ |
---|
660 | set engine to scipy |
---|
661 | """ |
---|
662 | if self._fit_engine== 'park': |
---|
663 | self._on_change_engine('scipy') |
---|
664 | else: |
---|
665 | self._on_change_engine('park') |
---|
666 | wx.PostEvent(self.parent, StatusEvent(status="Engine set to: %s" % self._fit_engine)) |
---|
667 | |
---|
668 | |
---|
669 | def _on_change_engine(self, engine='park'): |
---|
670 | """ |
---|
671 | Allow to select the type of engine to perform fit |
---|
672 | @param engine: the key work of the engine |
---|
673 | """ |
---|
674 | self._fit_engine = engine |
---|
675 | |
---|
676 | |
---|
677 | def _on_model_panel(self, evt): |
---|
678 | """ |
---|
679 | react to model selection on any combo box or model menu.plot the model |
---|
680 | """ |
---|
681 | |
---|
682 | model = evt.model |
---|
683 | name = evt.name |
---|
684 | |
---|
685 | #print "name fitting", name |
---|
686 | #sim_page=self.fit_panel.GetPage(1) |
---|
687 | sim_page=self.sim_page |
---|
688 | current_pg = self.fit_panel.get_current_page() |
---|
689 | if current_pg != sim_page: |
---|
690 | current_pg.set_panel(model) |
---|
691 | #model.name = self.page_finder[current_pg].get_name() |
---|
692 | #print "model name", model.name |
---|
693 | model.name="M"+str(self.index_model) |
---|
694 | try: |
---|
695 | metadata=self.page_finder[current_pg].get_data() |
---|
696 | M_name=model.name+"= "+name+"("+metadata.group_id+")" |
---|
697 | except: |
---|
698 | M_name=model.name+"= "+name |
---|
699 | self.index_model += 1 |
---|
700 | |
---|
701 | |
---|
702 | # save model name |
---|
703 | |
---|
704 | # save the name containing the data name with the appropriate model |
---|
705 | self.page_finder[current_pg].set_model(model,M_name) |
---|
706 | self.plot_helper(currpage= current_pg,qmin= None,qmax= None) |
---|
707 | if self.sim_page!=None: |
---|
708 | self.sim_page.add_model(self.page_finder) |
---|
709 | |
---|
710 | def set_smearer(self,smearer): |
---|
711 | """ |
---|
712 | |
---|
713 | """ |
---|
714 | current_pg=self.fit_panel.get_current_page() |
---|
715 | self.page_finder[current_pg].set_smearer(smearer) |
---|
716 | |
---|
717 | def redraw_model(self,qmin= None,qmax= None): |
---|
718 | """ |
---|
719 | Draw a theory according to model changes or data range. |
---|
720 | @param qmin: the minimum value plotted for theory |
---|
721 | @param qmax: the maximum value plotted for theory |
---|
722 | """ |
---|
723 | current_pg=self.fit_panel.get_current_page() |
---|
724 | for page, value in self.page_finder.iteritems(): |
---|
725 | if page ==current_pg : |
---|
726 | break |
---|
727 | self.plot_helper(currpage=page,qmin= qmin,qmax= qmax) |
---|
728 | |
---|
729 | def plot_helper(self,currpage, fitModel=None, qmin=None,qmax=None, |
---|
730 | ymin=None,ymax=None, xmin=None, xmax=None,title=None ): |
---|
731 | """ |
---|
732 | Plot a theory given a model and data |
---|
733 | @param model: the model from where the theory is derived |
---|
734 | @param currpage: page in a dictionary referring to some data |
---|
735 | """ |
---|
736 | if self.fit_panel.GetPageCount() >1: |
---|
737 | for page in self.page_finder.iterkeys(): |
---|
738 | if page==currpage : |
---|
739 | data=self.page_finder[page].get_plotted_data() |
---|
740 | list=self.page_finder[page].get_model() |
---|
741 | model=list[0] |
---|
742 | break |
---|
743 | #print "model in fitting",model |
---|
744 | if data!=None and data.__class__.__name__ != 'Data2D': |
---|
745 | theory = Theory1D(x=[], y=[]) |
---|
746 | theory.name = model.name |
---|
747 | theory.group_id = data.group_id |
---|
748 | theory.id = "Model" |
---|
749 | |
---|
750 | x_name, x_units = data.get_xaxis() |
---|
751 | y_name, y_units = data.get_yaxis() |
---|
752 | theory.xaxis(x_name, x_units) |
---|
753 | theory.yaxis(y_name, y_units) |
---|
754 | if qmin == None : |
---|
755 | qmin = min(data.x) |
---|
756 | if qmax == None : |
---|
757 | qmax = max(data.x) |
---|
758 | try: |
---|
759 | tempx = qmin |
---|
760 | tempy = model.run(qmin) |
---|
761 | theory.x.append(tempx) |
---|
762 | theory.y.append(tempy) |
---|
763 | except : |
---|
764 | wx.PostEvent(self.parent, StatusEvent(status="fitting \ |
---|
765 | skipping point x %g %s" %(qmin, sys.exc_value))) |
---|
766 | |
---|
767 | for i in range(len(data.x)): |
---|
768 | try: |
---|
769 | if data.x[i]> qmin and data.x[i]< qmax: |
---|
770 | tempx = data.x[i] |
---|
771 | tempy = model.run(tempx) |
---|
772 | theory.x.append(tempx) |
---|
773 | theory.y.append(tempy) |
---|
774 | |
---|
775 | except: |
---|
776 | wx.PostEvent(self.parent, StatusEvent(status="fitting \ |
---|
777 | skipping point x %g %s" %(data.x[i], sys.exc_value))) |
---|
778 | try: |
---|
779 | tempx = qmax |
---|
780 | tempy = model.run(qmax) |
---|
781 | theory.x.append(tempx) |
---|
782 | theory.y.append(tempy) |
---|
783 | except: |
---|
784 | wx.PostEvent(self.parent, StatusEvent(status="fitting \ |
---|
785 | skipping point x %g %s" %(qmin, sys.exc_value)) ) |
---|
786 | |
---|
787 | wx.PostEvent(self.parent, NewPlotEvent(plot=theory, |
---|
788 | title=str(data.name))) |
---|
789 | else: |
---|
790 | |
---|
791 | theory=Data2D(data.data, data.err_data) |
---|
792 | theory.name= model.name |
---|
793 | if title !=None: |
---|
794 | self.title = title |
---|
795 | theory.id= self.title |
---|
796 | theory.group_id= self.title+data.name |
---|
797 | else: |
---|
798 | self.title= "Analytical model 2D " |
---|
799 | theory.id= "Model" |
---|
800 | theory.group_id= "Model"+data.name |
---|
801 | theory.x_bins= data.x_bins |
---|
802 | theory.y_bins= data.y_bins |
---|
803 | tempy=[] |
---|
804 | #print "max x,y",max(data.xmax,data.xmin),max(data.ymax,data.ymin) |
---|
805 | if qmin==None: |
---|
806 | qmin=0#min(math.fabs(data.xmax),math.fabs(data.ymin)) |
---|
807 | if qmax==None: |
---|
808 | qmax=math.sqrt(math.pow(max(math.fabs(data.xmax),math.fabs(data.xmin)),2)/ |
---|
809 | +math.pow(max(math.fabs(data.ymax),math.fabs(data.ymin)),2)) |
---|
810 | if ymin==None: |
---|
811 | ymin=data.ymin |
---|
812 | if ymax==None: |
---|
813 | ymax=data.ymax |
---|
814 | if xmin ==None: |
---|
815 | xmin=data.xmin |
---|
816 | if xmax==None: |
---|
817 | xmax=data.xmax |
---|
818 | |
---|
819 | theory.data = numpy.zeros((len(data.y_bins),len(data.x_bins))) |
---|
820 | for j in range(len(data.y_bins)): |
---|
821 | for i in range(len(data.x_bins)): |
---|
822 | tempqij=math.sqrt((math.pow(data.y_bins[j],2)+math.pow(data.x_bins[i],2))) |
---|
823 | if tempqij>= qmin and tempqij<= qmax: |
---|
824 | theory.data[j][i]=model.runXY([data.y_bins[j],data.x_bins[i]]) |
---|
825 | else: |
---|
826 | theory.data[j][i]=0 #None # Later, We need to decide which of 0 and None is better. |
---|
827 | #print "len(data.x_bins),len(data.y_bins);",len(data.x_bins),len(data.y_bins),qmax |
---|
828 | #print "fitting : plot_helper:", theory.image |
---|
829 | #print "fitting : plot_helper:",theory.image |
---|
830 | theory.detector= data.detector |
---|
831 | theory.source= data.source |
---|
832 | |
---|
833 | theory.qmin= qmin |
---|
834 | theory.qmax= qmax |
---|
835 | theory.ymin= ymin |
---|
836 | theory.ymax= ymax |
---|
837 | theory.xmin= xmin |
---|
838 | theory.xmax= xmax |
---|
839 | |
---|
840 | wx.PostEvent(self.parent, NewPlotEvent(plot=theory, |
---|
841 | title=self.title +str(data.name))) |
---|
842 | |
---|
843 | |
---|
844 | def _on_model_menu(self, evt): |
---|
845 | """ |
---|
846 | Plot a theory from a model selected from the menu |
---|
847 | """ |
---|
848 | name = evt.model.__name__ |
---|
849 | if hasattr(evt.model, "name"): |
---|
850 | name = evt.model.name |
---|
851 | #print "on model menu", name |
---|
852 | model=evt.model() |
---|
853 | description=model.description |
---|
854 | |
---|
855 | # Create a model page. If a new page is created, the model |
---|
856 | # will be plotted automatically. If a page already exists, |
---|
857 | # the content will be updated and the plot refreshed |
---|
858 | self.fit_panel.add_model_page(model,description,name,topmenu=True) |
---|
859 | |
---|
860 | def draw_model(self,model,name ,data=None,description=None,enable1D=True, enable2D=False, |
---|
861 | qmin=DEFAULT_QMIN, qmax=DEFAULT_QMAX, qstep=DEFAULT_NPTS): |
---|
862 | """ |
---|
863 | draw model with default data value |
---|
864 | """ |
---|
865 | if data !=None: |
---|
866 | self.redraw_model(qmin,qmax) |
---|
867 | return |
---|
868 | self._draw_model1D(model,name,model.description, enable1D,qmin,qmax, qstep) |
---|
869 | self._draw_model2D(model=model, |
---|
870 | description=model.description, |
---|
871 | enable2D= enable2D, |
---|
872 | qmin=qmin, |
---|
873 | qmax=qmax, |
---|
874 | qstep=qstep) |
---|
875 | |
---|
876 | |
---|
877 | def _draw_model1D(self,model,name,description=None, enable1D=True, |
---|
878 | qmin=DEFAULT_QMIN, qmax=DEFAULT_QMAX, qstep=DEFAULT_NPTS): |
---|
879 | """ |
---|
880 | |
---|
881 | """ |
---|
882 | |
---|
883 | if enable1D: |
---|
884 | x= numpy.linspace(start= qmin, |
---|
885 | stop= qmax, |
---|
886 | num= qstep, |
---|
887 | endpoint=True |
---|
888 | ) |
---|
889 | xlen= len(x) |
---|
890 | y = numpy.zeros(xlen) |
---|
891 | if not enable1D: |
---|
892 | for i in range(xlen): |
---|
893 | y[i] = model.run(x[i]) |
---|
894 | |
---|
895 | try: |
---|
896 | new_plot = Theory1D(x, y) |
---|
897 | |
---|
898 | new_plot.name = name |
---|
899 | new_plot.xaxis("\\rm{Q}", 'A^{-1}') |
---|
900 | new_plot.yaxis("\\rm{Intensity} ","cm^{-1}") |
---|
901 | new_plot.id = "Model" |
---|
902 | new_plot.group_id ="Model" |
---|
903 | wx.PostEvent(self.parent, NewPlotEvent(plot=new_plot, title="Analytical model 1D")) |
---|
904 | except: |
---|
905 | wx.PostEvent(self.parent, StatusEvent(status="Draw model 1D error: %s" % sys.exc_value)) |
---|
906 | #raise |
---|
907 | return |
---|
908 | else: |
---|
909 | for i in range(xlen): |
---|
910 | y[i] = model.run(x[i]) |
---|
911 | try: |
---|
912 | new_plot = Theory1D(x, y) |
---|
913 | #print "draw model 1D", name |
---|
914 | new_plot.name = name |
---|
915 | new_plot.xaxis("\\rm{Q}", 'A^{-1}') |
---|
916 | new_plot.yaxis("\\rm{Intensity} ","cm^{-1}") |
---|
917 | new_plot.id ="Model" |
---|
918 | new_plot.group_id ="Model" |
---|
919 | |
---|
920 | # Pass the reset flag to let the plotting event handler |
---|
921 | # know that we are replacing the whole plot |
---|
922 | wx.PostEvent(self.parent, NewPlotEvent(plot=new_plot, |
---|
923 | title="Analytical model 1D ", reset=True )) |
---|
924 | |
---|
925 | except: |
---|
926 | #raise |
---|
927 | wx.PostEvent(self.parent, StatusEvent(status="Draw model 1D error: %s" % sys.exc_value)) |
---|
928 | return |
---|
929 | |
---|
930 | |
---|
931 | |
---|
932 | def update(self, output,time): |
---|
933 | """ |
---|
934 | """ |
---|
935 | pass |
---|
936 | |
---|
937 | def complete(self, output, elapsed, model, qmin, qmax,qstep=DEFAULT_NPTS): |
---|
938 | """ |
---|
939 | """ |
---|
940 | wx.PostEvent(self.parent, StatusEvent(status="Calc \ |
---|
941 | complete !" , type="stop")) |
---|
942 | #print "complete",output, model,qmin, qmax |
---|
943 | data = output |
---|
944 | temp= numpy.zeros(numpy.shape(data)) |
---|
945 | temp[temp==0]=1 |
---|
946 | theory= Data2D(image=data, err_image=temp) |
---|
947 | |
---|
948 | from DataLoader.data_info import Detector, Source |
---|
949 | |
---|
950 | detector = Detector() |
---|
951 | theory.detector=[] |
---|
952 | theory.detector.append(detector) |
---|
953 | |
---|
954 | theory.detector[0].distance=1e+32#13705.0 |
---|
955 | theory.source= Source() |
---|
956 | theory.source.wavelength=2*math.pi/1e+32#8.4 |
---|
957 | theory.x_bins =[] |
---|
958 | theory.y_bins =[] |
---|
959 | #Now qmax is xmax. |
---|
960 | xmax=2*theory.detector[0].distance*math.atan(qmax/(4*math.pi/theory.source.wavelength)) |
---|
961 | theory.detector[0].pixel_size.x= xmax/(qstep/2-0.5)#5.0 |
---|
962 | theory.detector[0].pixel_size.y= xmax/(qstep/2-0.5)#5.0 |
---|
963 | theory.detector[0].beam_center.x= qmax |
---|
964 | theory.detector[0].beam_center.y= qmax |
---|
965 | #print "xmax,qmax",xmax,qmax |
---|
966 | # compute x_bins and y_bins |
---|
967 | # Qx and Qy vectors |
---|
968 | |
---|
969 | distance = theory.detector[0].distance |
---|
970 | pixel = qstep/2-1 |
---|
971 | theta = pixel / distance / qstep#100.0 |
---|
972 | wavelength = theory.source.wavelength |
---|
973 | pixel_width_x = theory.detector[0].pixel_size.x |
---|
974 | pixel_width_y = theory.detector[0].pixel_size.y |
---|
975 | center_x = theory.detector[0].beam_center.x/pixel_width_x |
---|
976 | center_y = theory.detector[0].beam_center.y/pixel_width_y |
---|
977 | |
---|
978 | |
---|
979 | size_x, size_y= numpy.shape(theory.data) |
---|
980 | #print "size_x,size_y",size_x, size_y |
---|
981 | #This case, q and x are equivalent to each other. |
---|
982 | for i_x in range(size_x): |
---|
983 | theta = (i_x-center_x)*pixel_width_x / distance #/ size_x#100.0 |
---|
984 | qx = 4.0*math.pi/wavelength * math.tan(theta/2.0) |
---|
985 | theory.x_bins.append(qx) |
---|
986 | for i_y in range(size_y): |
---|
987 | theta = (i_y-center_y)*pixel_width_y / distance #/ size_y#100.0 |
---|
988 | qy =4.0*math.pi/wavelength * math.tan(theta/2.0) |
---|
989 | theory.y_bins.append(qy) |
---|
990 | |
---|
991 | #theory.err_data= numpy. |
---|
992 | theory.name= model.name |
---|
993 | theory.group_id ="Model" |
---|
994 | theory.id ="Model" |
---|
995 | |
---|
996 | |
---|
997 | |
---|
998 | theory.xmin= -qmax#/math.sqrt(2)#You can not do sqrt(2), that changes axis scale not data itself |
---|
999 | theory.xmax= qmax#/math.sqrt(2) |
---|
1000 | theory.ymin= -qmax#/math.sqrt(2) |
---|
1001 | theory.ymax= qmax#/math.sqrt(2) |
---|
1002 | |
---|
1003 | #print "model draw comptele xmax",theory.xmax,model.name |
---|
1004 | wx.PostEvent(self.parent, NewPlotEvent(plot=theory, |
---|
1005 | title="Analytical model 2D ", reset=True )) |
---|
1006 | |
---|
1007 | |
---|
1008 | |
---|
1009 | def _draw_model2D(self,model,description=None, enable2D=False, |
---|
1010 | qmin=DEFAULT_QMIN, qmax=DEFAULT_QMAX, qstep=DEFAULT_NPTS): |
---|
1011 | |
---|
1012 | x= numpy.linspace(start= -1*qmax, |
---|
1013 | stop= qmax, |
---|
1014 | num= qstep, |
---|
1015 | endpoint=True ) |
---|
1016 | y = numpy.linspace(start= -1*qmax, |
---|
1017 | stop= qmax, |
---|
1018 | num= qstep, |
---|
1019 | endpoint=True ) |
---|
1020 | |
---|
1021 | lx = len(x) |
---|
1022 | #print x |
---|
1023 | #data=numpy.zeros([len(x),len(y)]) |
---|
1024 | self.model= model |
---|
1025 | if enable2D: |
---|
1026 | try: |
---|
1027 | from sans.guiframe.model_thread import Calc2D |
---|
1028 | # print "in draw model 2d ",self.model |
---|
1029 | self.calc_thread = Calc2D(parent =self.parent,x=x, |
---|
1030 | y=y,model= self.model, |
---|
1031 | qmin=qmin, |
---|
1032 | qmax=qmax, |
---|
1033 | qstep=qstep, |
---|
1034 | completefn=self.complete, |
---|
1035 | updatefn=None) |
---|
1036 | self.calc_thread.queue() |
---|
1037 | self.calc_thread.ready(2.5) |
---|
1038 | except: |
---|
1039 | raise |
---|
1040 | |
---|
1041 | def show_panel2D(self, id=None ): |
---|
1042 | self.parent.show_panel(self.model2D_id) |
---|
1043 | |
---|
1044 | |
---|
1045 | if __name__ == "__main__": |
---|
1046 | i = Plugin() |
---|
1047 | |
---|
1048 | |
---|
1049 | |
---|
1050 | |
---|