1 | |
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2 | |
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3 | ################################################################################ |
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4 | #This software was developed by the University of Tennessee as part of the |
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5 | #Distributed Data Analysis of Neutron Scattering Experiments (DANSE) |
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6 | #project funded by the US National Science Foundation. |
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7 | # |
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8 | #See the license text in license.txt |
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9 | # |
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10 | #copyright 2009, University of Tennessee |
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11 | ################################################################################ |
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12 | |
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13 | |
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14 | import re |
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15 | import sys |
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16 | import wx |
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17 | import logging |
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18 | import numpy |
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19 | import string |
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20 | import time |
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21 | from copy import deepcopy |
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22 | import models |
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23 | import fitpage |
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24 | |
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25 | |
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26 | from DataLoader.loader import Loader |
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27 | from sans.guiframe.dataFitting import Data2D |
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28 | from sans.guiframe.dataFitting import Data1D |
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29 | from sans.guiframe.events import NewPlotEvent |
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30 | from sans.guiframe.events import StatusEvent |
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31 | from sans.guiframe.events import EVT_SLICER_PANEL |
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32 | from sans.guiframe.events import EVT_SLICER_PARS_UPDATE |
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33 | from sans.guiframe.gui_style import GUIFRAME_ID |
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34 | from sans.guiframe.plugin_base import PluginBase |
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35 | |
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36 | from .console import ConsoleUpdate |
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37 | from .fitproblem import FitProblem |
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38 | from .fitpanel import FitPanel |
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39 | from .fit_thread import FitThread |
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40 | from .pagestate import Reader |
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41 | from .fitpage import Chi2UpdateEvent |
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42 | |
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43 | DEFAULT_BEAM = 0.005 |
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44 | DEFAULT_QMIN = 0.001 |
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45 | DEFAULT_QMAX = 0.13 |
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46 | DEFAULT_NPTS = 50 |
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47 | MAX_NBR_DATA = 4 |
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48 | |
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49 | |
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50 | (PageInfoEvent, EVT_PAGE_INFO) = wx.lib.newevent.NewEvent() |
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51 | |
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52 | |
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53 | |
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54 | class Plugin(PluginBase): |
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55 | """ |
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56 | Fitting plugin is used to perform fit |
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57 | """ |
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58 | def __init__(self, standalone=False): |
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59 | PluginBase.__init__(self, name="Fitting", standalone=standalone) |
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60 | |
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61 | #list of panel to send to guiframe |
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62 | self.mypanels = [] |
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63 | # reference to the current running thread |
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64 | self.calc_2D = None |
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65 | self.calc_1D = None |
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66 | self.fit_thread_list = {} |
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67 | self.residuals = None |
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68 | self.fit_panel = None |
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69 | # Start with a good default |
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70 | self.elapsed = 0.022 |
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71 | # the type of optimizer selected, park or scipy |
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72 | self.fitter = None |
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73 | self.fit_panel = None |
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74 | #let fit ready |
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75 | self.fitproblem_count = None |
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76 | #Flag to let the plug-in know that it is running stand alone |
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77 | self.standalone = True |
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78 | ## dictionary of page closed and id |
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79 | self.closed_page_dict = {} |
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80 | ## Fit engine |
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81 | self._fit_engine = 'scipy' |
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82 | ## Relative error desired in the sum of squares (float); scipy only |
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83 | self.ftol=1.49012e-08 |
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84 | #List of selected data |
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85 | self.selected_data_list = [] |
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86 | ## list of slicer panel created to display slicer parameters and results |
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87 | self.slicer_panels = [] |
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88 | # model 2D view |
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89 | self.model2D_id = None |
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90 | #keep reference of the simultaneous fit page |
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91 | self.sim_page = None |
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92 | self.index_model = 0 |
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93 | #Create a reader for fit page's state |
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94 | self.state_reader = None |
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95 | self._extensions = '.fitv' |
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96 | self.scipy_id = wx.NewId() |
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97 | self.park_id = wx.NewId() |
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98 | |
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99 | self.temp_state = [] |
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100 | self.state_index = 0 |
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101 | self.sfile_ext = None |
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102 | # take care of saving data, model and page associated with each other |
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103 | self.page_finder = {} |
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104 | # Log startup |
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105 | logging.info("Fitting plug-in started") |
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106 | |
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107 | def populate_menu(self, owner): |
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108 | """ |
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109 | Create a menu for the Fitting plug-in |
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110 | |
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111 | :param id: id to create a menu |
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112 | :param owner: owner of menu |
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113 | |
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114 | :return: list of information to populate the main menu |
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115 | |
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116 | """ |
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117 | #Menu for fitting |
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118 | self.menu1 = wx.Menu() |
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119 | id1 = wx.NewId() |
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120 | simul_help = "Add new fit panel" |
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121 | self.menu1.Append(id1, '&New Fit Page',simul_help) |
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122 | wx.EVT_MENU(owner, id1, self.on_add_new_page) |
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123 | self.menu1.AppendSeparator() |
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124 | id1 = wx.NewId() |
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125 | simul_help = "Simultaneous Fit" |
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126 | self.menu1.Append(id1, '&Simultaneous Fit',simul_help) |
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127 | wx.EVT_MENU(owner, id1, self.on_add_sim_page) |
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128 | self.menu1.AppendSeparator() |
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129 | #Set park engine |
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130 | |
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131 | scipy_help= "Scipy Engine: Perform Simple fit. More in Help window...." |
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132 | self.menu1.AppendCheckItem(self.scipy_id, "Simple Fit [Scipy]",scipy_help) |
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133 | wx.EVT_MENU(owner, self.scipy_id, self._onset_engine_scipy) |
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134 | |
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135 | park_help = "Park Engine: Perform Complex fit. More in Help window...." |
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136 | self.menu1.AppendCheckItem(self.park_id, "Complex Fit [Park]",park_help) |
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137 | wx.EVT_MENU(owner, self.park_id, self._onset_engine_park) |
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138 | |
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139 | self.menu1.FindItemById(self.scipy_id).Check(True) |
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140 | self.menu1.FindItemById(self.park_id).Check(False) |
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141 | #create menubar items |
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142 | return [(self.menu1, self.sub_menu)] |
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143 | |
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144 | def on_add_sim_page(self, event): |
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145 | """ |
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146 | Create a page to access simultaneous fit option |
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147 | """ |
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148 | if self.sim_page != None: |
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149 | msg= "Simultaneous Fit page already opened" |
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150 | wx.PostEvent(self.parent, StatusEvent(status= msg)) |
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151 | return |
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152 | |
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153 | self.sim_page= self.fit_panel.add_sim_page() |
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154 | |
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155 | def help(self, evt): |
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156 | """ |
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157 | Show a general help dialog. |
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158 | """ |
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159 | from help_panel import HelpWindow |
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160 | frame = HelpWindow(None, -1, 'HelpWindow') |
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161 | frame.Show(True) |
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162 | |
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163 | def get_context_menu(self, plotpanel=None): |
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164 | """ |
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165 | Get the context menu items available for P(r).them allow fitting option |
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166 | for Data2D and Data1D only. |
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167 | |
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168 | :param graph: the Graph object to which we attach the context menu |
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169 | |
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170 | :return: a list of menu items with call-back function |
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171 | |
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172 | :note: if Data1D was generated from Theory1D |
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173 | the fitting option is not allowed |
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174 | |
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175 | """ |
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176 | graph = plotpanel.graph |
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177 | fit_option = "Select data for fitting" |
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178 | fit_hint = "Dialog with fitting parameters " |
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179 | |
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180 | if graph.selected_plottable not in plotpanel.plots: |
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181 | return [] |
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182 | item = plotpanel.plots[graph.selected_plottable] |
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183 | if item.__class__.__name__ is "Data2D": |
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184 | if hasattr(item,"is_data"): |
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185 | if item.is_data: |
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186 | return [[fit_option, fit_hint, self._onSelect]] |
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187 | else: |
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188 | return [] |
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189 | return [[fit_option, fit_hint, self._onSelect]] |
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190 | else: |
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191 | |
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192 | # if is_data is true , this in an actual data loaded |
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193 | #else it is a data created from a theory model |
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194 | if hasattr(item,"is_data"): |
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195 | if item.is_data: |
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196 | return [[fit_option, fit_hint, |
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197 | self._onSelect]] |
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198 | else: |
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199 | return [] |
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200 | return [] |
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201 | |
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202 | |
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203 | def get_panels(self, parent): |
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204 | """ |
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205 | Create and return a list of panel objects |
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206 | """ |
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207 | self.parent = parent |
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208 | #self.parent.Bind(EVT_FITSTATE_UPDATE, self.on_set_state_helper) |
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209 | # Creation of the fit panel |
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210 | self.fit_panel = FitPanel(parent=self.parent, manager=self) |
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211 | self.on_add_new_page(event=None) |
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212 | #Set the manager for the main panel |
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213 | self.fit_panel.set_manager(self) |
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214 | # List of windows used for the perspective |
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215 | self.perspective = [] |
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216 | self.perspective.append(self.fit_panel.window_name) |
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217 | |
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218 | #index number to create random model name |
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219 | self.index_model = 0 |
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220 | self.index_theory= 0 |
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221 | self.parent.Bind(EVT_SLICER_PANEL, self._on_slicer_event) |
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222 | self.parent.Bind(EVT_SLICER_PARS_UPDATE, self._onEVT_SLICER_PANEL) |
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223 | self.parent._mgr.Bind(wx.aui.EVT_AUI_PANE_CLOSE,self._onclearslicer) |
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224 | #Create reader when fitting panel are created |
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225 | self.state_reader = Reader(self.set_state) |
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226 | #append that reader to list of available reader |
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227 | loader = Loader() |
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228 | loader.associate_file_reader(".fitv", self.state_reader) |
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229 | loader.associate_file_reader(".svs", self.state_reader) |
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230 | from sans.perspectives.calculator.sld_panel import SldPanel |
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231 | #Send the fitting panel to guiframe |
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232 | self.mypanels.append(self.fit_panel) |
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233 | self.mypanels.append(SldPanel(parent=self.parent, base=self.parent)) |
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234 | return self.mypanels |
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235 | |
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236 | def clear_panel(self): |
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237 | """ |
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238 | """ |
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239 | self.fit_panel.clear_panel() |
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240 | |
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241 | def set_default_perspective(self): |
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242 | """ |
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243 | Call back method that True to notify the parent that the current plug-in |
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244 | can be set as default perspective. |
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245 | when returning False, the plug-in is not candidate for an automatic |
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246 | default perspective setting |
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247 | """ |
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248 | return True |
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249 | |
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250 | def delete_data(self, data): |
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251 | """ |
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252 | delete the given data from panel |
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253 | """ |
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254 | self.fit_panel.delete_data(data) |
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255 | |
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256 | def set_data(self, data_list=None): |
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257 | """ |
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258 | receive a list of data to fit |
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259 | """ |
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260 | if data_list is None: |
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261 | data_list = [] |
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262 | selected_data_list = [] |
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263 | if len(data_list) > MAX_NBR_DATA : |
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264 | from fitting_widgets import DataDialog |
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265 | dlg = DataDialog(data_list=data_list, nb_data=MAX_NBR_DATA) |
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266 | if dlg.ShowModal() == wx.ID_OK: |
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267 | selected_data_list = dlg.get_data() |
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268 | else: |
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269 | selected_data_list = data_list |
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270 | try: |
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271 | for data in selected_data_list: |
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272 | self.add_fit_page(data=data) |
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273 | wx.PostEvent(self.parent, NewPlotEvent(plot=data, |
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274 | title=str(data.title))) |
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275 | |
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276 | except: |
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277 | raise |
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278 | #msg = "Fitting Set_data: " + str(sys.exc_value) |
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279 | #wx.PostEvent(self.parent, StatusEvent(status=msg, info="error")) |
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280 | |
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281 | def set_top_panel(self): |
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282 | """ |
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283 | Close default (welcome) panel |
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284 | """ |
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285 | if 'default' in self.parent.panels: |
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286 | self.parent.on_close_welcome_panel() |
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287 | |
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288 | |
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289 | def set_theory(self, theory_list=None): |
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290 | """ |
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291 | """ |
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292 | #set the model state for a given theory_state: |
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293 | for item in theory_list: |
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294 | try: |
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295 | _, theory_state = item |
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296 | self.fit_panel.set_model_state(theory_state) |
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297 | except: |
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298 | msg = "Fitting: cannot deal with the theory received" |
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299 | logging.error("set_theory " + msg + "\n" + str(sys.exc_value)) |
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300 | wx.PostEvent(self.parent, StatusEvent(status=msg, info="error")) |
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301 | |
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302 | def set_state(self, state=None, datainfo=None, format=None): |
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303 | """ |
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304 | Call-back method for the fit page state reader. |
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305 | This method is called when a .fitv/.svs file is loaded. |
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306 | |
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307 | : param state: PageState object |
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308 | : param datainfo: data |
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309 | """ |
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310 | #state = self.state_reader.get_state() |
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311 | if state != None: |
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312 | state = state.clone() |
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313 | # store fitting state in temp_state |
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314 | self.temp_state.append(state) |
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315 | else: |
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316 | self.temp_state = [] |
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317 | # index to start with for a new set_state |
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318 | self.state_index = 0 |
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319 | # state file format |
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320 | self.sfile_ext = format |
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321 | |
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322 | self.on_set_state_helper(event=None) |
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323 | |
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324 | def on_set_state_helper(self,event=None): |
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325 | """ |
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326 | Set_state_helper. This actually sets state after plotting data from state file. |
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327 | |
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328 | : event: FitStateUpdateEvent called by dataloader.plot_data from guiframe |
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329 | """ |
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330 | if len(self.temp_state) == 0: |
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331 | if self.state_index==0 and len(self.mypanels) <= 0 and self.sfile_ext =='.svs': |
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332 | self.fit_panel.add_default_pages() |
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333 | self.temp_state = [] |
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334 | self.state_index = 0 |
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335 | return |
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336 | |
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337 | try: |
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338 | # Load fitting state |
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339 | state = self.temp_state[self.state_index] |
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340 | #panel state should have model selection to set_state |
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341 | if state.formfactorcombobox != None: |
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342 | #set state |
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343 | data = self.parent.create_gui_data(state.data) |
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344 | data.group_id = state.data.group_id |
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345 | self.parent.add_data(data_list={data.id:data}) |
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346 | wx.PostEvent(self.parent, NewPlotEvent(plot=data, |
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347 | title=data.title)) |
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348 | #need to be fix later make sure we are sendind guiframe.data |
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349 | #to panel |
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350 | state.data = data |
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351 | page = self.fit_panel.set_state(state) |
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352 | else: |
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353 | #just set data because set_state won't work |
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354 | data = self.parent.create_gui_data(state.data) |
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355 | data.group_id = state.data.group_id |
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356 | self.parent.add_data(data_list={data.id:data}) |
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357 | wx.PostEvent(self.parent, NewPlotEvent(plot=data, |
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358 | title=data.title)) |
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359 | page = self.add_fit_page(data) |
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360 | caption = page.window_name |
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361 | self.store_data(page=page.id, data=data, caption=caption) |
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362 | self.mypanels.append(page) |
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363 | |
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364 | # get ready for the next set_state |
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365 | self.state_index += 1 |
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366 | |
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367 | #reset state variables to default when all set_state is finished. |
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368 | if len(self.temp_state) == self.state_index: |
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369 | |
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370 | self.temp_state = [] |
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371 | #self.state_index = 0 |
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372 | # Make sure the user sees the fitting panel after loading |
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373 | #self.parent.set_perspective(self.perspective) |
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374 | self.on_perspective(event=None) |
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375 | except: |
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376 | self.state_index==0 |
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377 | self.temp_state = [] |
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378 | raise |
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379 | |
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380 | def save_fit_state(self, filepath, fitstate): |
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381 | """ |
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382 | save fit page state into file |
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383 | """ |
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384 | self.state_reader.write(filename=filepath, fitstate=fitstate) |
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385 | |
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386 | def set_fit_range(self, uid, qmin, qmax): |
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387 | """ |
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388 | Set the fitting range of a given page |
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389 | """ |
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390 | self.page_finder[uid].set_range(qmin=qmin, qmax=qmax) |
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391 | |
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392 | def schedule_for_fit(self,value=0, uid=None,fitproblem =None): |
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393 | """ |
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394 | Set the fit problem field to 0 or 1 to schedule that problem to fit. |
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395 | Schedule the specified fitproblem or get the fit problem related to |
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396 | the current page and set value. |
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397 | |
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398 | :param value: integer 0 or 1 |
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399 | :param fitproblem: fitproblem to schedule or not to fit |
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400 | |
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401 | """ |
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402 | if fitproblem !=None: |
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403 | fitproblem.schedule_tofit(value) |
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404 | else: |
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405 | self.page_finder[uid].schedule_tofit(value) |
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406 | |
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407 | def get_page_finder(self): |
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408 | """ |
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409 | return self.page_finder used also by simfitpage.py |
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410 | """ |
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411 | return self.page_finder |
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412 | |
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413 | def set_page_finder(self,modelname,names,values): |
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414 | """ |
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415 | Used by simfitpage.py to reset a parameter given the string constrainst. |
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416 | |
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417 | :param modelname: the name ot the model for with the parameter has to reset |
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418 | :param value: can be a string in this case. |
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419 | :param names: the paramter name |
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420 | |
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421 | :note: expecting park used for fit. |
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422 | |
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423 | """ |
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424 | sim_page_id = self.sim_page.uid |
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425 | for uid, value in self.page_finder.iteritems(): |
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426 | if uid != sim_page_id: |
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427 | list = value.get_model() |
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428 | model = list[0] |
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429 | if model.name == modelname: |
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430 | value.set_model_param(names, values) |
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431 | break |
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432 | |
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433 | def split_string(self,item): |
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434 | """ |
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435 | receive a word containing dot and split it. used to split parameterset |
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436 | name into model name and parameter name example: :: |
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437 | |
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438 | paramaterset (item) = M1.A |
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439 | Will return model_name = M1 , parameter name = A |
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440 | |
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441 | """ |
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442 | if string.find(item,".")!=-1: |
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443 | param_names= re.split("\.",item) |
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444 | model_name=param_names[0] |
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445 | ##Assume max len is 3; eg., M0.radius.width |
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446 | if len(param_names) == 3: |
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447 | param_name=param_names[1]+"."+param_names[2] |
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448 | else: |
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449 | param_name=param_names[1] |
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450 | return model_name,param_name |
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451 | |
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452 | def set_ftol(self, ftol=None): |
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453 | """ |
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454 | Set ftol: Relative error desired in the sum of chi squares. |
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455 | """ |
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456 | # check if it is flaot |
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457 | try: |
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458 | f_tol = float(ftol) |
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459 | except: |
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460 | # default |
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461 | f_tol = 1.49012e-08 |
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462 | |
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463 | self.ftol = f_tol |
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464 | |
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465 | def stop_fit(self, uid): |
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466 | """ |
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467 | Stop the fit engine |
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468 | """ |
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469 | if uid in self.fit_thread_list.keys(): |
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470 | calc_fit = self.fit_thread_list[uid] |
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471 | if calc_fit is not None and calc_fit.isrunning(): |
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472 | calc_fit.stop() |
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473 | msg = "Fit stop!" |
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474 | wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop")) |
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475 | #set the fit button label of page when fit stop is trigger from |
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476 | #simultaneous fit pane |
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477 | if self.sim_page is not None and uid == self.sim_page.uid: |
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478 | for uid, value in self.page_finder.iteritems(): |
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479 | if value.get_scheduled() == 1: |
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480 | if uid in self.fit_panel.opened_pages.keys(): |
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481 | panel = self.fit_panel.opened_pages[uid] |
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482 | panel. _on_fit_complete() |
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483 | |
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484 | def set_smearer(self, uid, smearer, qmin=None, qmax=None, draw=True, |
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485 | enable2D=False): |
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486 | """ |
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487 | Get a smear object and store it to a fit problem |
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488 | |
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489 | :param smearer: smear object to allow smearing data |
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490 | |
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491 | """ |
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492 | if uid not in self.page_finder.keys(): |
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493 | msg = "Cannot find ID: %s in page_finder" % str(uid) |
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494 | raise ValueError, msg |
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495 | self.page_finder[uid].set_smearer(smearer) |
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496 | self.page_finder[uid].set_enable2D(enable2D) |
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497 | if draw: |
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498 | ## draw model 1D with smeared data |
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499 | data = self.page_finder[uid].get_fit_data() |
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500 | model = self.page_finder[uid].get_model() |
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501 | if model is None: |
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502 | return |
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503 | enable1D = True |
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504 | enable2D = self.page_finder[uid].get_enable2D() |
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505 | if enable2D: |
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506 | enable1D = False |
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507 | |
---|
508 | ## if user has already selected a model to plot |
---|
509 | ## redraw the model with data smeared |
---|
510 | smear = self.page_finder[uid].get_smearer() |
---|
511 | self.draw_model(model=model, data=data, page_id=uid, smearer=smear, |
---|
512 | enable1D=enable1D, enable2D=enable2D, |
---|
513 | qmin=qmin, qmax=qmax) |
---|
514 | |
---|
515 | def draw_model(self, model, page_id, data=None, smearer=None, |
---|
516 | enable1D=True, enable2D=False, |
---|
517 | state=None, |
---|
518 | toggle_mode_on=False, |
---|
519 | qmin=DEFAULT_QMIN, qmax=DEFAULT_QMAX, |
---|
520 | qstep=DEFAULT_NPTS, |
---|
521 | update_chisqr=True): |
---|
522 | """ |
---|
523 | Draw model. |
---|
524 | |
---|
525 | :param model: the model to draw |
---|
526 | :param name: the name of the model to draw |
---|
527 | :param data: the data on which the model is based to be drawn |
---|
528 | :param description: model's description |
---|
529 | :param enable1D: if true enable drawing model 1D |
---|
530 | :param enable2D: if true enable drawing model 2D |
---|
531 | :param qmin: Range's minimum value to draw model |
---|
532 | :param qmax: Range's maximum value to draw model |
---|
533 | :param qstep: number of step to divide the x and y-axis |
---|
534 | :param update_chisqr: update chisqr [bool] |
---|
535 | |
---|
536 | """ |
---|
537 | if data.__class__.__name__ == "Data1D" or not enable2D: |
---|
538 | ## draw model 1D with no loaded data |
---|
539 | self._draw_model1D(model=model, |
---|
540 | data=data, |
---|
541 | page_id=page_id, |
---|
542 | enable1D=enable1D, |
---|
543 | smearer=smearer, |
---|
544 | qmin=qmin, |
---|
545 | qmax=qmax, |
---|
546 | toggle_mode_on=toggle_mode_on, |
---|
547 | state=state, |
---|
548 | qstep=qstep, |
---|
549 | update_chisqr=update_chisqr) |
---|
550 | else: |
---|
551 | ## draw model 2D with no initial data |
---|
552 | self._draw_model2D(model=model, |
---|
553 | page_id=page_id, |
---|
554 | data=data, |
---|
555 | enable2D=enable2D, |
---|
556 | smearer=smearer, |
---|
557 | qmin=qmin, |
---|
558 | qmax=qmax, |
---|
559 | state=state, |
---|
560 | toggle_mode_on=toggle_mode_on, |
---|
561 | qstep=qstep, |
---|
562 | update_chisqr=update_chisqr) |
---|
563 | |
---|
564 | def onFit(self): |
---|
565 | """ |
---|
566 | perform fit |
---|
567 | """ |
---|
568 | ## count the number of fitproblem schedule to fit |
---|
569 | fitproblem_count = 0 |
---|
570 | for value in self.page_finder.values(): |
---|
571 | if value.get_scheduled() == 1: |
---|
572 | fitproblem_count += 1 |
---|
573 | |
---|
574 | ## if simultaneous fit change automatically the engine to park |
---|
575 | if fitproblem_count > 1: |
---|
576 | self._on_change_engine(engine='park') |
---|
577 | |
---|
578 | self.fitproblem_count = fitproblem_count |
---|
579 | |
---|
580 | from sans.fit.Fitting import Fit |
---|
581 | fitter = Fit(self._fit_engine) |
---|
582 | |
---|
583 | if self._fit_engine == "park": |
---|
584 | engineType = "Simultaneous Fit" |
---|
585 | else: |
---|
586 | engineType = "Single Fit" |
---|
587 | |
---|
588 | fproblemId = 0 |
---|
589 | self.current_pg = None |
---|
590 | list_page_id = [] |
---|
591 | for page_id, value in self.page_finder.iteritems(): |
---|
592 | try: |
---|
593 | if value.get_scheduled() == 1: |
---|
594 | #Get list of parameters name to fit |
---|
595 | pars = [] |
---|
596 | templist = [] |
---|
597 | |
---|
598 | page = self.fit_panel.get_page_by_id(page_id) |
---|
599 | templist = page.get_param_list() |
---|
600 | # missing fit parameters |
---|
601 | #if not templist: |
---|
602 | # return |
---|
603 | # have the list |
---|
604 | for element in templist: |
---|
605 | name = str(element[1]) |
---|
606 | pars.append(name) |
---|
607 | #Set Engine (model , data) related to the page on |
---|
608 | self._fit_helper(value=value, pars=pars, |
---|
609 | fitter=fitter, |
---|
610 | fitproblem_id=fproblemId, |
---|
611 | title=engineType) |
---|
612 | list_page_id.append(page_id) |
---|
613 | fproblemId += 1 |
---|
614 | current_page_id = page_id |
---|
615 | except: |
---|
616 | #raise |
---|
617 | msg= "%s error: %s" % (engineType, sys.exc_value) |
---|
618 | wx.PostEvent(self.parent, StatusEvent(status=msg, info="error", |
---|
619 | type="stop")) |
---|
620 | return |
---|
621 | ## If a thread is already started, stop it |
---|
622 | #if self.calc_fit!= None and self.calc_fit.isrunning(): |
---|
623 | # self.calc_fit.stop() |
---|
624 | #Handler used for park engine displayed message |
---|
625 | handler = ConsoleUpdate(parent=self.parent, |
---|
626 | manager=self, |
---|
627 | improvement_delta=0.1) |
---|
628 | |
---|
629 | ## perform single fit |
---|
630 | if fitproblem_count == 1: |
---|
631 | calc_fit = FitThread(handler = handler, |
---|
632 | fn=fitter, |
---|
633 | pars=pars, |
---|
634 | page_id=list_page_id, |
---|
635 | completefn=self._single_fit_completed, |
---|
636 | ftol=self.ftol) |
---|
637 | else: |
---|
638 | current_page_id = self.sim_page.uid |
---|
639 | ## Perform more than 1 fit at the time |
---|
640 | calc_fit = FitThread(handler=handler, |
---|
641 | fn=fitter, |
---|
642 | page_id=list_page_id, |
---|
643 | updatefn=handler.update_fit, |
---|
644 | completefn=self._simul_fit_completed, |
---|
645 | ftol=self.ftol) |
---|
646 | self.fit_thread_list[current_page_id] = calc_fit |
---|
647 | calc_fit.queue() |
---|
648 | msg = "Fitting is in progress..." |
---|
649 | wx.PostEvent( self.parent, StatusEvent(status=msg, type="progress" )) |
---|
650 | |
---|
651 | self.ready_fit(calc_fit=calc_fit) |
---|
652 | |
---|
653 | |
---|
654 | def ready_fit(self, calc_fit): |
---|
655 | """ |
---|
656 | Ready for another fit |
---|
657 | """ |
---|
658 | if self.fitproblem_count != None and self.fitproblem_count > 1: |
---|
659 | calc_fit.ready(2.5) |
---|
660 | |
---|
661 | else: |
---|
662 | time.sleep(0.4) |
---|
663 | |
---|
664 | def remove_plot(self, uid, theory=False): |
---|
665 | """ |
---|
666 | remove model plot when a fit page is closed |
---|
667 | """ |
---|
668 | fitproblem = self.page_finder[uid] |
---|
669 | data = fitproblem.get_fit_data() |
---|
670 | model = fitproblem.get_model() |
---|
671 | plot_id = None |
---|
672 | if model is not None: |
---|
673 | plot_id = data.id + name |
---|
674 | if theory: |
---|
675 | plot_id = data.id |
---|
676 | group_id = data.group_id |
---|
677 | wx.PostEvent(self.parent, NewPlotEvent(id=plot_id, |
---|
678 | group_id=group_id, |
---|
679 | action='remove')) |
---|
680 | |
---|
681 | def store_data(self, uid, data=None, caption=None): |
---|
682 | """ |
---|
683 | Helper to save page reference into the plug-in |
---|
684 | |
---|
685 | :param page: page to store |
---|
686 | |
---|
687 | """ |
---|
688 | #create a fitproblem storing all link to data,model,page creation |
---|
689 | if not uid in self.page_finder.keys(): |
---|
690 | self.page_finder[uid] = FitProblem() |
---|
691 | self.page_finder[uid].set_fit_data(data) |
---|
692 | self.page_finder[uid].set_fit_tab_caption(caption) |
---|
693 | |
---|
694 | def on_add_new_page(self, event=None): |
---|
695 | """ |
---|
696 | ask fit panel to create a new empty page |
---|
697 | """ |
---|
698 | try: |
---|
699 | page = self.fit_panel.add_empty_page() |
---|
700 | page_caption = page.window_name |
---|
701 | # add data associated to the page created |
---|
702 | if page != None: |
---|
703 | self.store_data(uid=page.uid, caption=page_caption, |
---|
704 | data=page.get_data()) |
---|
705 | wx.PostEvent(self.parent, StatusEvent(status="Page Created", |
---|
706 | info="info")) |
---|
707 | else: |
---|
708 | msg = "Page was already Created" |
---|
709 | wx.PostEvent(self.parent, StatusEvent(status=msg, |
---|
710 | info="warning")) |
---|
711 | self.set_top_panel() |
---|
712 | except: |
---|
713 | raise |
---|
714 | #msg = "Creating Fit page: %s"%sys.exc_value |
---|
715 | #wx.PostEvent(self.parent, StatusEvent(status=msg, info="error")) |
---|
716 | |
---|
717 | |
---|
718 | def add_fit_page(self, data): |
---|
719 | """ |
---|
720 | given a data, ask to the fitting panel to create a new fitting page, |
---|
721 | get this page and store it into the page_finder of this plug-in |
---|
722 | """ |
---|
723 | page = self.fit_panel.set_data(data) |
---|
724 | page_caption = page.window_name |
---|
725 | #append Data1D to the panel containing its theory |
---|
726 | #if theory already plotted |
---|
727 | if page.uid in self.page_finder: |
---|
728 | theory_data = self.page_finder[page.uid].get_theory_data() |
---|
729 | if issubclass(data.__class__, Data2D): |
---|
730 | data.group_id = wx.NewId() |
---|
731 | if theory_data is not None: |
---|
732 | group_id = str(page.uid) + " Model1D" |
---|
733 | wx.PostEvent(self.parent, |
---|
734 | NewPlotEvent(group_id=group_id, |
---|
735 | action="delete")) |
---|
736 | self.parent.update_data(prev_data=theory_data, new_data=data) |
---|
737 | else: |
---|
738 | if theory_data is not None: |
---|
739 | group_id = str(page.uid) + " Model2D" |
---|
740 | data.group_id = theory_data.group_id |
---|
741 | wx.PostEvent(self.parent, |
---|
742 | NewPlotEvent(group_id=group_id, |
---|
743 | action="delete")) |
---|
744 | self.parent.update_data(prev_data=theory_data, new_data=data) |
---|
745 | |
---|
746 | self.store_data(uid=page.uid, data=data, caption=page.window_name) |
---|
747 | if self.sim_page is not None: |
---|
748 | self.sim_page.draw_page() |
---|
749 | return page |
---|
750 | |
---|
751 | def _onEVT_SLICER_PANEL(self, event): |
---|
752 | """ |
---|
753 | receive and event telling to update a panel with a name starting with |
---|
754 | event.panel_name. this method update slicer panel for a given interactor. |
---|
755 | |
---|
756 | :param event: contains type of slicer , paramaters for updating the panel |
---|
757 | and panel_name to find the slicer 's panel concerned. |
---|
758 | """ |
---|
759 | for item in self.parent.panels: |
---|
760 | if self.parent.panels[item].window_caption.startswith(event.panel_name): |
---|
761 | self.parent.panels[item].set_slicer(event.type, event.params) |
---|
762 | |
---|
763 | self.parent._mgr.Update() |
---|
764 | |
---|
765 | def _closed_fitpage(self, event): |
---|
766 | """ |
---|
767 | request fitpanel to close a given page when its unique data is removed |
---|
768 | from the plot. close fitpage only when the a loaded data is removed |
---|
769 | """ |
---|
770 | if event is None or event.data is None: |
---|
771 | return |
---|
772 | if hasattr(event.data,"is_data"): |
---|
773 | if not event.data.is_data or \ |
---|
774 | event.data.__class__.__name__ == "Data1D": |
---|
775 | self.fit_panel.close_page_with_data(event.data) |
---|
776 | |
---|
777 | def _add_page_onmenu(self, name, fitproblem=None): |
---|
778 | """ |
---|
779 | Add name of a closed page of fitpanel in a menu |
---|
780 | """ |
---|
781 | list = self.menu1.GetMenuItems() |
---|
782 | for item in list: |
---|
783 | if name == item.GetItemLabel(): |
---|
784 | self.closed_page_dict[name][1] = fitproblem |
---|
785 | |
---|
786 | if not name in self.closed_page_dict.keys(): |
---|
787 | # Post paramters |
---|
788 | event_id = wx.NewId() |
---|
789 | self.menu1.Append(event_id, name, "Show %s fit panel" % name) |
---|
790 | self.closed_page_dict[name]= [event_id, fitproblem] |
---|
791 | wx.EVT_MENU(self.parent, event_id, self._open_closed_page) |
---|
792 | |
---|
793 | def _open_closed_page(self, event): |
---|
794 | """ |
---|
795 | reopen a closed page |
---|
796 | """ |
---|
797 | for name, value in self.closed_page_dict.iteritems(): |
---|
798 | if event.GetId() in value: |
---|
799 | uid,fitproblem = value |
---|
800 | if name !="Model": |
---|
801 | data= fitproblem.get_fit_data() |
---|
802 | page = self.fit_panel.add_fit_page(data=data, reset=True) |
---|
803 | if fitproblem != None: |
---|
804 | self.page_finder[uid] = fitproblem |
---|
805 | if self.sim_page != None: |
---|
806 | self.sim_page.draw_page() |
---|
807 | |
---|
808 | else: |
---|
809 | model = fitproblem |
---|
810 | self.fit_panel.add_model_page(model=model, topmenu=True, |
---|
811 | reset= True) |
---|
812 | break |
---|
813 | |
---|
814 | def _reset_schedule_problem(self, value=0): |
---|
815 | """ |
---|
816 | unschedule or schedule all fitproblem to be fit |
---|
817 | """ |
---|
818 | for page_id in self.page_finder.keys(): |
---|
819 | self.page_finder[page_id].schedule_tofit(value) |
---|
820 | |
---|
821 | def _fit_helper(self, pars, value, fitproblem_id,fitter, title="Single Fit " ): |
---|
822 | """ |
---|
823 | helper for fitting |
---|
824 | """ |
---|
825 | metadata = value.get_fit_data() |
---|
826 | model = value.get_model() |
---|
827 | smearer = value.get_smearer() |
---|
828 | qmin, qmax = value.get_range() |
---|
829 | self.fit_id = fitproblem_id |
---|
830 | #Create list of parameters for fitting used |
---|
831 | templist = [] |
---|
832 | |
---|
833 | try: |
---|
834 | #Extra list of parameters and their constraints |
---|
835 | listOfConstraint = [] |
---|
836 | |
---|
837 | param = value.get_model_param() |
---|
838 | if len(param) > 0: |
---|
839 | for item in param: |
---|
840 | ## check if constraint |
---|
841 | if item[0] != None and item[1] != None: |
---|
842 | listOfConstraint.append((item[0],item[1])) |
---|
843 | |
---|
844 | #Do the single fit |
---|
845 | fitter.set_model(model, self.fit_id, |
---|
846 | pars, constraints=listOfConstraint) |
---|
847 | |
---|
848 | fitter.set_data(data=metadata, id=self.fit_id, |
---|
849 | smearer=smearer, qmin=qmin, qmax=qmax) |
---|
850 | |
---|
851 | fitter.select_problem_for_fit(id=self.fit_id, |
---|
852 | value=value.get_scheduled()) |
---|
853 | value.clear_model_param() |
---|
854 | except: |
---|
855 | raise |
---|
856 | #msg = title + " error: %s" % sys.exc_value |
---|
857 | #wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop")) |
---|
858 | |
---|
859 | def _onSelect(self,event): |
---|
860 | """ |
---|
861 | when Select data to fit a new page is created .Its reference is |
---|
862 | added to self.page_finder |
---|
863 | """ |
---|
864 | self.panel = event.GetEventObject() |
---|
865 | Plugin.on_perspective(self, event=event) |
---|
866 | for plottable in self.panel.graph.plottables: |
---|
867 | if plottable.__class__.__name__ in ["Data1D", "Theory1D"]: |
---|
868 | data_id = self.panel.graph.selected_plottable |
---|
869 | if plottable == self.panel.plots[data_id]: |
---|
870 | data = plottable |
---|
871 | self.add_fit_page(data=data) |
---|
872 | return |
---|
873 | else: |
---|
874 | data = plottable |
---|
875 | self.add_fit_page(data=data) |
---|
876 | self.set_top_panel() |
---|
877 | |
---|
878 | def update_fit(self, result=None, msg=""): |
---|
879 | """ |
---|
880 | """ |
---|
881 | print "update_fit result", result |
---|
882 | |
---|
883 | def _single_fit_completed(self, result, pars, page_id, elapsed=None): |
---|
884 | """ |
---|
885 | Display fit result on one page of the notebook. |
---|
886 | |
---|
887 | :param result: result of fit |
---|
888 | :param pars: list of names of parameters fitted |
---|
889 | :param current_pg: the page where information will be displayed |
---|
890 | :param qmin: the minimum value of x to replot the model |
---|
891 | :param qmax: the maximum value of x to replot model |
---|
892 | |
---|
893 | """ |
---|
894 | try: |
---|
895 | if result == None: |
---|
896 | msg= "Single Fitting did not converge!!!" |
---|
897 | wx.PostEvent(self.parent, |
---|
898 | StatusEvent(status=msg, |
---|
899 | info="warning", |
---|
900 | type="stop")) |
---|
901 | return |
---|
902 | if not numpy.isfinite(result.fitness) or \ |
---|
903 | numpy.any(result.pvec == None) or \ |
---|
904 | not numpy.all(numpy.isfinite(result.pvec)): |
---|
905 | msg = "Single Fitting did not converge!!!" |
---|
906 | wx.PostEvent(self.parent, |
---|
907 | StatusEvent(status=msg, |
---|
908 | info="warning", |
---|
909 | type="stop")) |
---|
910 | return |
---|
911 | for uid in page_id: |
---|
912 | value = self.page_finder[uid] |
---|
913 | model = value.get_model() |
---|
914 | page_id = uid |
---|
915 | |
---|
916 | param_name = [] |
---|
917 | for name in pars: |
---|
918 | param_name.append(name) |
---|
919 | |
---|
920 | cpage = self.fit_panel.get_page_by_id(uid) |
---|
921 | cpage.onsetValues(result.fitness, |
---|
922 | param_name, result.pvec,result.stderr) |
---|
923 | cpage._on_fit_complete() |
---|
924 | |
---|
925 | except ValueError: |
---|
926 | msg = "Single Fitting did not converge!!!" |
---|
927 | wx.PostEvent(self.parent, StatusEvent(status=msg, info="error", |
---|
928 | type="stop")) |
---|
929 | return |
---|
930 | except: |
---|
931 | raise |
---|
932 | #msg = "Single Fit completed but Following" |
---|
933 | #msg += " error occurred:%s" % sys.exc_value |
---|
934 | #wx.PostEvent(self.parent, StatusEvent(status=msg, info="error", |
---|
935 | # type="stop")) |
---|
936 | return |
---|
937 | |
---|
938 | def _simul_fit_completed(self, result, page_id,pars=None, elapsed=None): |
---|
939 | """ |
---|
940 | Parameter estimation completed, |
---|
941 | display the results to the user |
---|
942 | |
---|
943 | :param alpha: estimated best alpha |
---|
944 | :param elapsed: computation time |
---|
945 | |
---|
946 | """ |
---|
947 | if page_id is None: |
---|
948 | page_id = [] |
---|
949 | ## fit more than 1 model at the same time |
---|
950 | try: |
---|
951 | msg = "" |
---|
952 | if result == None: |
---|
953 | msg= "Complex Fitting did not converge!!!" |
---|
954 | wx.PostEvent(self.parent, StatusEvent(status=msg, |
---|
955 | type="stop")) |
---|
956 | return |
---|
957 | if not numpy.isfinite(result.fitness) or \ |
---|
958 | numpy.any(result.pvec == None) or not \ |
---|
959 | numpy.all(numpy.isfinite(result.pvec)): |
---|
960 | msg= "Simultaneous Fitting did not converge!!!" |
---|
961 | wx.PostEvent(self.parent, StatusEvent(status=msg,type="stop")) |
---|
962 | return |
---|
963 | |
---|
964 | for uid in page_id: |
---|
965 | value = self.page_finder[uid] |
---|
966 | model = value.get_model() |
---|
967 | data = value.get_fit_data() |
---|
968 | small_param_name = [] |
---|
969 | small_out = [] |
---|
970 | small_cov = [] |
---|
971 | #Separate result in to data corresponding to each page |
---|
972 | for p in result.parameters: |
---|
973 | model_name, param_name = self.split_string(p.name) |
---|
974 | if model.name == model_name: |
---|
975 | p_name= model.name+"."+param_name |
---|
976 | if p.name == p_name: |
---|
977 | if p.value != None and numpy.isfinite(p.value): |
---|
978 | small_out.append(p.value) |
---|
979 | small_param_name.append(param_name) |
---|
980 | small_cov.append(p.stderr) |
---|
981 | # Display result on each page |
---|
982 | cpage = self.fit_panel.get_page_by_id(uid) |
---|
983 | cpage.onsetValues(result.fitness, |
---|
984 | small_param_name, |
---|
985 | small_out,small_cov) |
---|
986 | cpage._on_fit_complete() |
---|
987 | |
---|
988 | except Exception: |
---|
989 | msg = "Complex Fitting did not converge!!!" |
---|
990 | wx.PostEvent(self.parent, StatusEvent(status=msg, info="error", |
---|
991 | type="stop")) |
---|
992 | return |
---|
993 | |
---|
994 | except: |
---|
995 | msg = "Simultaneous Fit completed" |
---|
996 | msg += " but Following error occurred:%s" % sys.exc_value |
---|
997 | wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop")) |
---|
998 | |
---|
999 | def _on_show_panel(self, event): |
---|
1000 | """ |
---|
1001 | """ |
---|
1002 | pass |
---|
1003 | |
---|
1004 | def _onset_engine_park(self,event): |
---|
1005 | """ |
---|
1006 | set engine to park |
---|
1007 | """ |
---|
1008 | self._on_change_engine('park') |
---|
1009 | |
---|
1010 | def _onset_engine_scipy(self,event): |
---|
1011 | """ |
---|
1012 | set engine to scipy |
---|
1013 | """ |
---|
1014 | self._on_change_engine('scipy') |
---|
1015 | |
---|
1016 | def _on_slicer_event(self, event): |
---|
1017 | """ |
---|
1018 | Receive a panel as event and send it to guiframe |
---|
1019 | |
---|
1020 | :param event: event containing a panel |
---|
1021 | |
---|
1022 | """ |
---|
1023 | if event.panel is not None: |
---|
1024 | new_panel = event.panel |
---|
1025 | self.slicer_panels.append(event.panel) |
---|
1026 | # Set group ID if available |
---|
1027 | event_id = self.parent.popup_panel(new_panel) |
---|
1028 | #self.menu3.Append(event_id, new_panel.window_caption, |
---|
1029 | # "Show %s plot panel" % new_panel.window_caption) |
---|
1030 | # Set id to allow us to reference the panel later |
---|
1031 | |
---|
1032 | new_panel.uid = event_id |
---|
1033 | self.mypanels.append(new_panel) |
---|
1034 | |
---|
1035 | def _onclearslicer(self, event): |
---|
1036 | """ |
---|
1037 | Clear the boxslicer when close the panel associate with this slicer |
---|
1038 | """ |
---|
1039 | name =event.GetPane().caption |
---|
1040 | |
---|
1041 | for panel in self.slicer_panels: |
---|
1042 | if panel.window_caption==name: |
---|
1043 | |
---|
1044 | for item in self.parent.panels: |
---|
1045 | if hasattr(self.parent.panels[item],"uid"): |
---|
1046 | if self.parent.panels[item].uid ==panel.base.uid: |
---|
1047 | self.parent.panels[item].onClearSlicer(event) |
---|
1048 | self.parent._mgr.Update() |
---|
1049 | break |
---|
1050 | break |
---|
1051 | |
---|
1052 | def _return_engine_type(self): |
---|
1053 | """ |
---|
1054 | return the current type of engine |
---|
1055 | """ |
---|
1056 | return self._fit_engine |
---|
1057 | |
---|
1058 | |
---|
1059 | def _on_change_engine(self, engine='park'): |
---|
1060 | """ |
---|
1061 | Allow to select the type of engine to perform fit |
---|
1062 | |
---|
1063 | :param engine: the key work of the engine |
---|
1064 | |
---|
1065 | """ |
---|
1066 | ## saving fit engine name |
---|
1067 | self._fit_engine = engine |
---|
1068 | ## change menu item state |
---|
1069 | if engine=="park": |
---|
1070 | self.menu1.FindItemById(self.park_id).Check(True) |
---|
1071 | self.menu1.FindItemById(self.scipy_id).Check(False) |
---|
1072 | else: |
---|
1073 | self.menu1.FindItemById(self.park_id).Check(False) |
---|
1074 | self.menu1.FindItemById(self.scipy_id).Check(True) |
---|
1075 | ## post a message to status bar |
---|
1076 | msg = "Engine set to: %s" % self._fit_engine |
---|
1077 | wx.PostEvent(self.parent, |
---|
1078 | StatusEvent(status=msg)) |
---|
1079 | ## send the current engine type to fitpanel |
---|
1080 | self.fit_panel._on_engine_change(name=self._fit_engine) |
---|
1081 | |
---|
1082 | def _on_model_panel(self, evt): |
---|
1083 | """ |
---|
1084 | react to model selection on any combo box or model menu.plot the model |
---|
1085 | |
---|
1086 | :param evt: wx.combobox event |
---|
1087 | |
---|
1088 | """ |
---|
1089 | model = evt.model |
---|
1090 | uid = evt.uid |
---|
1091 | qmin = evt.qmin |
---|
1092 | qmax = evt.qmax |
---|
1093 | smearer = evt.smearer |
---|
1094 | |
---|
1095 | if model == None: |
---|
1096 | return |
---|
1097 | |
---|
1098 | if self.page_finder[uid].get_model() is None: |
---|
1099 | model.name = "M" + str(self.index_model) |
---|
1100 | self.index_model += 1 |
---|
1101 | else: |
---|
1102 | model.name = self.page_finder[uid].get_model().name |
---|
1103 | # save the name containing the data name with the appropriate model |
---|
1104 | self.page_finder[uid].set_model(model) |
---|
1105 | self.page_finder[uid].set_range(qmin=qmin, qmax=qmax) |
---|
1106 | if self.sim_page is not None: |
---|
1107 | self.sim_page.draw_page() |
---|
1108 | |
---|
1109 | def _update1D(self,x, output): |
---|
1110 | """ |
---|
1111 | Update the output of plotting model 1D |
---|
1112 | """ |
---|
1113 | msg = "Plot updating ... " |
---|
1114 | wx.PostEvent(self.parent, StatusEvent(status=msg,type="update")) |
---|
1115 | self.ready_fit() |
---|
1116 | |
---|
1117 | |
---|
1118 | def _fill_default_model2D(self, theory, page_id, qmax,qstep, qmin=None): |
---|
1119 | """ |
---|
1120 | fill Data2D with default value |
---|
1121 | |
---|
1122 | :param theory: Data2D to fill |
---|
1123 | |
---|
1124 | """ |
---|
1125 | from DataLoader.data_info import Detector, Source |
---|
1126 | |
---|
1127 | detector = Detector() |
---|
1128 | theory.detector.append(detector) |
---|
1129 | theory.source= Source() |
---|
1130 | |
---|
1131 | ## Default values |
---|
1132 | theory.detector[0].distance= 8000 # mm |
---|
1133 | theory.source.wavelength= 6 # A |
---|
1134 | theory.detector[0].pixel_size.x= 5 # mm |
---|
1135 | theory.detector[0].pixel_size.y= 5 # mm |
---|
1136 | |
---|
1137 | theory.detector[0].beam_center.x= qmax |
---|
1138 | theory.detector[0].beam_center.y= qmax |
---|
1139 | |
---|
1140 | ## create x_bins and y_bins of the model 2D |
---|
1141 | pixel_width_x = theory.detector[0].pixel_size.x |
---|
1142 | pixel_width_y = theory.detector[0].pixel_size.y |
---|
1143 | center_x = theory.detector[0].beam_center.x/pixel_width_x |
---|
1144 | center_y = theory.detector[0].beam_center.y/pixel_width_y |
---|
1145 | |
---|
1146 | # theory default: assume the beam |
---|
1147 | #center is located at the center of sqr detector |
---|
1148 | xmax = qmax |
---|
1149 | xmin = -qmax |
---|
1150 | ymax = qmax |
---|
1151 | ymin = -qmax |
---|
1152 | |
---|
1153 | x= numpy.linspace(start= -1*qmax, |
---|
1154 | stop=qmax, |
---|
1155 | num=qstep, |
---|
1156 | endpoint=True) |
---|
1157 | y = numpy.linspace(start=-1*qmax, |
---|
1158 | stop= qmax, |
---|
1159 | num= qstep, |
---|
1160 | endpoint=True) |
---|
1161 | |
---|
1162 | ## use data info instead |
---|
1163 | new_x = numpy.tile(x, (len(y),1)) |
---|
1164 | new_y = numpy.tile(y, (len(x),1)) |
---|
1165 | new_y = new_y.swapaxes(0,1) |
---|
1166 | |
---|
1167 | # all data reuire now in 1d array |
---|
1168 | qx_data = new_x.flatten() |
---|
1169 | qy_data = new_y.flatten() |
---|
1170 | |
---|
1171 | q_data = numpy.sqrt(qx_data*qx_data+qy_data*qy_data) |
---|
1172 | # set all True (standing for unmasked) as default |
---|
1173 | mask = numpy.ones(len(qx_data), dtype = bool) |
---|
1174 | |
---|
1175 | # calculate the range of qx and qy: this way, |
---|
1176 | # it is a little more independent |
---|
1177 | x_size = xmax- xmin |
---|
1178 | y_size = ymax -ymin |
---|
1179 | |
---|
1180 | # store x and y bin centers in q space |
---|
1181 | x_bins = x |
---|
1182 | y_bins = y |
---|
1183 | # bin size: x- & y-directions |
---|
1184 | xstep = x_size/len(x_bins-1) |
---|
1185 | ystep = y_size/len(y_bins-1) |
---|
1186 | |
---|
1187 | #theory.data = numpy.zeros(len(mask)) |
---|
1188 | theory.err_data = numpy.ones(len(mask)) |
---|
1189 | theory.qx_data = qx_data |
---|
1190 | theory.qy_data = qy_data |
---|
1191 | theory.q_data = q_data |
---|
1192 | theory.mask = mask |
---|
1193 | theory.x_bins = x_bins |
---|
1194 | theory.y_bins = y_bins |
---|
1195 | |
---|
1196 | # max and min taking account of the bin sizes |
---|
1197 | theory.xmin = xmin |
---|
1198 | theory.xmax = xmax |
---|
1199 | theory.ymin = ymin |
---|
1200 | theory.ymax = ymax |
---|
1201 | theory.group_id = str(page_id) + " Model2D" |
---|
1202 | theory.id = str(page_id) + " Model2D" |
---|
1203 | |
---|
1204 | def _complete1D(self, x,y, page_id, elapsed,index,model, |
---|
1205 | toggle_mode_on=False,state=None, |
---|
1206 | data=None, update_chisqr=True): |
---|
1207 | """ |
---|
1208 | Complete plotting 1D data |
---|
1209 | """ |
---|
1210 | try: |
---|
1211 | new_plot = Data1D(x=x, y=y) |
---|
1212 | new_plot.is_data = False |
---|
1213 | new_plot.symbol = GUIFRAME_ID.CURVE_SYMBOL_NUM |
---|
1214 | if data != None: |
---|
1215 | _xaxis, _xunit = data.get_xaxis() |
---|
1216 | _yaxis, _yunit = data.get_yaxis() |
---|
1217 | new_plot.title = data.name |
---|
1218 | #if the theory is already plotted use the same group id |
---|
1219 | #to replot |
---|
1220 | if page_id in self.page_finder: |
---|
1221 | theory_data = self.page_finder[page_id].get_theory_data() |
---|
1222 | if theory_data is not None: |
---|
1223 | data.group_id = theory_data.group_id |
---|
1224 | #data is plotted before the theory, then take its group_id |
---|
1225 | #assign to the new theory |
---|
1226 | new_plot.group_id = data.group_id |
---|
1227 | |
---|
1228 | else: |
---|
1229 | _xaxis, _xunit = "\\rm{Q}", 'A^{-1}' |
---|
1230 | _yaxis, _yunit = "\\rm{Intensity} ", "cm^{-1}" |
---|
1231 | new_plot.title = "Analytical model 1D " |
---|
1232 | #find a group id to plot theory without data |
---|
1233 | new_plot.group_id = str(page_id) + " Model1D" |
---|
1234 | new_plot.id = str(page_id) + " Model1D" |
---|
1235 | |
---|
1236 | #find if this theory was already plotted and replace that plot given |
---|
1237 | #the same id |
---|
1238 | |
---|
1239 | theory_data = self.page_finder[page_id].get_theory_data() |
---|
1240 | if theory_data is not None: |
---|
1241 | new_plot.id = theory_data.id |
---|
1242 | |
---|
1243 | new_plot.name = model.name + " ["+ str(model.__class__.__name__)+ "]" |
---|
1244 | new_plot.xaxis(_xaxis, _xunit) |
---|
1245 | new_plot.yaxis(_yaxis, _yunit) |
---|
1246 | if toggle_mode_on: |
---|
1247 | new_plot.id = str(page_id) + " Model" |
---|
1248 | wx.PostEvent(self.parent, |
---|
1249 | NewPlotEvent(group_id=str(page_id) + " Model2D", |
---|
1250 | action="Hide")) |
---|
1251 | |
---|
1252 | self.page_finder[page_id].set_theory_data(new_plot) |
---|
1253 | if data is None: |
---|
1254 | data_id = None |
---|
1255 | else: |
---|
1256 | data_id = data.id |
---|
1257 | self.parent.update_theory(data_id=data_id, |
---|
1258 | theory=new_plot, |
---|
1259 | state=state) |
---|
1260 | current_pg = self.fit_panel.get_page_by_id(page_id) |
---|
1261 | title = new_plot.title |
---|
1262 | wx.PostEvent(self.parent, NewPlotEvent(plot=new_plot, |
---|
1263 | title= str(title))) |
---|
1264 | |
---|
1265 | self.page_finder[page_id].set_theory_data(new_plot) |
---|
1266 | |
---|
1267 | if update_chisqr: |
---|
1268 | wx.PostEvent(current_pg, |
---|
1269 | Chi2UpdateEvent(output=self._cal_chisqr(data=data, |
---|
1270 | page_id=page_id, |
---|
1271 | index=index))) |
---|
1272 | else: |
---|
1273 | self._plot_residuals(page_id, data, index) |
---|
1274 | |
---|
1275 | msg = "Plot 1D complete !" |
---|
1276 | wx.PostEvent( self.parent, StatusEvent(status=msg, type="stop" )) |
---|
1277 | #self.current_pg.state.theory_data = deepcopy(self.theory_data) |
---|
1278 | except: |
---|
1279 | raise |
---|
1280 | #msg = " Error occurred when drawing %s Model 1D: " % new_plot.name |
---|
1281 | #msg += " %s" % sys.exc_value |
---|
1282 | #wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop")) |
---|
1283 | |
---|
1284 | def _update2D(self, output,time=None): |
---|
1285 | """ |
---|
1286 | Update the output of plotting model |
---|
1287 | """ |
---|
1288 | wx.PostEvent(self.parent, StatusEvent(status="Plot \ |
---|
1289 | #updating ... ", type="update")) |
---|
1290 | self.ready_fit() |
---|
1291 | |
---|
1292 | def _complete2D(self, image, data, model, page_id, elapsed, index, qmin, |
---|
1293 | qmax, toggle_mode_on=False,state=None,qstep=DEFAULT_NPTS, |
---|
1294 | update_chisqr=True): |
---|
1295 | """ |
---|
1296 | Complete get the result of modelthread and create model 2D |
---|
1297 | that can be plot. |
---|
1298 | """ |
---|
1299 | err_image = numpy.zeros(numpy.shape(image)) |
---|
1300 | |
---|
1301 | new_plot= Data2D(image=image, err_image=err_image) |
---|
1302 | new_plot.name = model.name |
---|
1303 | new_plot.title = "Analytical model 2D " |
---|
1304 | if data is None: |
---|
1305 | self._fill_default_model2D(theory=new_plot, |
---|
1306 | qmax=qmax, |
---|
1307 | page_id=page_id, |
---|
1308 | qstep=qstep, |
---|
1309 | qmin= qmin) |
---|
1310 | |
---|
1311 | else: |
---|
1312 | new_plot.id = str(page_id) + " Model2D" |
---|
1313 | new_plot.group_id = str(page_id) + " Model2D" |
---|
1314 | new_plot.x_bins = data.x_bins |
---|
1315 | new_plot.y_bins = data.y_bins |
---|
1316 | new_plot.detector = data.detector |
---|
1317 | new_plot.source = data.source |
---|
1318 | new_plot.is_data = False |
---|
1319 | new_plot.qx_data = data.qx_data |
---|
1320 | new_plot.qy_data = data.qy_data |
---|
1321 | new_plot.q_data = data.q_data |
---|
1322 | #numpy.zeros(len(data.err_data))#data.err_data |
---|
1323 | new_plot.err_data = err_image |
---|
1324 | new_plot.mask = data.mask |
---|
1325 | ## plot boundaries |
---|
1326 | new_plot.ymin = data.ymin |
---|
1327 | new_plot.ymax = data.ymax |
---|
1328 | new_plot.xmin = data.xmin |
---|
1329 | new_plot.xmax = data.xmax |
---|
1330 | title = data.title |
---|
1331 | if len(title) > 1: |
---|
1332 | new_plot.title = "Model2D for " + data.name |
---|
1333 | new_plot.is_data = False |
---|
1334 | new_plot.name = model.name + " ["+ str(model.__class__.__name__)+ "]" |
---|
1335 | |
---|
1336 | theory_data = deepcopy(new_plot) |
---|
1337 | theory_data.name = "Unknown" |
---|
1338 | if toggle_mode_on: |
---|
1339 | new_plot.id = str(page_id) + " Model" |
---|
1340 | wx.PostEvent(self.parent, |
---|
1341 | NewPlotEvent(group_id=str(page_id) + " Model1D", |
---|
1342 | action="Hide")) |
---|
1343 | |
---|
1344 | self.page_finder[page_id].set_theory_data(new_plot) |
---|
1345 | if data is None: |
---|
1346 | data_id = None |
---|
1347 | else: |
---|
1348 | data_id = data.id |
---|
1349 | self.parent.update_theory(data_id=data_id, |
---|
1350 | theory=new_plot, |
---|
1351 | state=state) |
---|
1352 | current_pg = self.fit_panel.get_page_by_id(page_id) |
---|
1353 | title = new_plot.title |
---|
1354 | |
---|
1355 | wx.PostEvent(self.parent, NewPlotEvent(plot=new_plot, |
---|
1356 | title=title)) |
---|
1357 | self.page_finder[page_id].set_theory_data(new_plot) |
---|
1358 | # Chisqr in fitpage |
---|
1359 | if update_chisqr: |
---|
1360 | wx.PostEvent(current_pg, |
---|
1361 | Chi2UpdateEvent(output=\ |
---|
1362 | self._cal_chisqr(data=data, |
---|
1363 | page_id=page_id, |
---|
1364 | index=index))) |
---|
1365 | else: |
---|
1366 | self._plot_residuals(page_id, data, index) |
---|
1367 | msg = "Plot 2D complete !" |
---|
1368 | wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop")) |
---|
1369 | |
---|
1370 | def _draw_model2D(self, model, page_id, data=None, smearer=None, |
---|
1371 | description=None, enable2D=False, |
---|
1372 | state=None, |
---|
1373 | toggle_mode_on=False, |
---|
1374 | qmin=DEFAULT_QMIN, qmax=DEFAULT_QMAX, |
---|
1375 | qstep=DEFAULT_NPTS, |
---|
1376 | update_chisqr=True): |
---|
1377 | """ |
---|
1378 | draw model in 2D |
---|
1379 | |
---|
1380 | :param model: instance of the model to draw |
---|
1381 | :param description: the description of the model |
---|
1382 | :param enable2D: when True allows to draw model 2D |
---|
1383 | :param qmin: the minimum value to draw model 2D |
---|
1384 | :param qmax: the maximum value to draw model 2D |
---|
1385 | :param qstep: the number of division of Qx and Qy of the model to draw |
---|
1386 | |
---|
1387 | """ |
---|
1388 | x= numpy.linspace(start=-1*qmax, |
---|
1389 | stop=qmax, |
---|
1390 | num=qstep, |
---|
1391 | endpoint=True) |
---|
1392 | y = numpy.linspace(start= -1*qmax, |
---|
1393 | stop=qmax, |
---|
1394 | num=qstep, |
---|
1395 | endpoint=True) |
---|
1396 | if model is None: |
---|
1397 | msg = "Panel with ID: %s does not contained model" % str(page_id) |
---|
1398 | raise ValueError, msg |
---|
1399 | ## use data info instead |
---|
1400 | if data is not None: |
---|
1401 | ## check if data2D to plot |
---|
1402 | if hasattr(data, "x_bins"): |
---|
1403 | enable2D = True |
---|
1404 | x = data.x_bins |
---|
1405 | y = data.y_bins |
---|
1406 | |
---|
1407 | if not enable2D: |
---|
1408 | return None, None |
---|
1409 | try: |
---|
1410 | from model_thread import Calc2D |
---|
1411 | ## If a thread is already started, stop it |
---|
1412 | if (self.calc_2D is not None) and self.calc_2D.isrunning(): |
---|
1413 | self.calc_2D.stop() |
---|
1414 | self.calc_2D = Calc2D(x=x, |
---|
1415 | y=y, |
---|
1416 | model=model, |
---|
1417 | data=data, |
---|
1418 | page_id=page_id, |
---|
1419 | smearer=smearer, |
---|
1420 | qmin=qmin, |
---|
1421 | qmax=qmax, |
---|
1422 | qstep=qstep, |
---|
1423 | toggle_mode_on=toggle_mode_on, |
---|
1424 | state=state, |
---|
1425 | completefn=self._complete2D, |
---|
1426 | #updatefn= self._update2D, |
---|
1427 | update_chisqr=update_chisqr) |
---|
1428 | |
---|
1429 | self.calc_2D.queue() |
---|
1430 | |
---|
1431 | except: |
---|
1432 | raise |
---|
1433 | #msg = " Error occurred when drawing %s Model 2D: " % model.name |
---|
1434 | #msg += " %s" % sys.exc_value |
---|
1435 | #wx.PostEvent(self.parent, StatusEvent(status=msg)) |
---|
1436 | |
---|
1437 | def _draw_model1D(self, model, page_id, data=None, smearer=None, |
---|
1438 | qmin=DEFAULT_QMIN, qmax=DEFAULT_QMAX, |
---|
1439 | state=None, |
---|
1440 | toggle_mode_on=False, |
---|
1441 | qstep=DEFAULT_NPTS, update_chisqr=True, |
---|
1442 | enable1D=True): |
---|
1443 | """ |
---|
1444 | Draw model 1D from loaded data1D |
---|
1445 | |
---|
1446 | :param data: loaded data |
---|
1447 | :param model: the model to plot |
---|
1448 | |
---|
1449 | """ |
---|
1450 | x= numpy.linspace(start=qmin, |
---|
1451 | stop=qmax, |
---|
1452 | num=qstep, |
---|
1453 | endpoint=True |
---|
1454 | ) |
---|
1455 | if data is not None: |
---|
1456 | ## check for data2D |
---|
1457 | if hasattr(data,"x_bins"): |
---|
1458 | return |
---|
1459 | x = data.x |
---|
1460 | if qmin == None : |
---|
1461 | qmin == DEFAULT_QMIN |
---|
1462 | |
---|
1463 | if qmax == None: |
---|
1464 | qmax == DEFAULT_QMAX |
---|
1465 | if not enable1D: |
---|
1466 | return |
---|
1467 | try: |
---|
1468 | from model_thread import Calc1D |
---|
1469 | ## If a thread is already started, stop it |
---|
1470 | if (self.calc_1D is not None) and self.calc_1D.isrunning(): |
---|
1471 | self.calc_1D.stop() |
---|
1472 | self.calc_1D = Calc1D(x=x, |
---|
1473 | data=data, |
---|
1474 | model=model, |
---|
1475 | page_id=page_id, |
---|
1476 | qmin=qmin, |
---|
1477 | qmax=qmax, |
---|
1478 | smearer=smearer, |
---|
1479 | state=state, |
---|
1480 | toggle_mode_on=toggle_mode_on, |
---|
1481 | completefn=self._complete1D, |
---|
1482 | #updatefn = self._update1D, |
---|
1483 | update_chisqr=update_chisqr) |
---|
1484 | |
---|
1485 | self.calc_1D.queue() |
---|
1486 | |
---|
1487 | except: |
---|
1488 | msg = " Error occurred when drawing %s Model 1D: " % model.name |
---|
1489 | msg += " %s" % sys.exc_value |
---|
1490 | wx.PostEvent(self.parent, StatusEvent(status=msg)) |
---|
1491 | |
---|
1492 | def _cal_chisqr(self, page_id, data=None, index=None): |
---|
1493 | """ |
---|
1494 | Get handy Chisqr using the output from draw1D and 2D, |
---|
1495 | instead of calling expansive CalcChisqr in guithread |
---|
1496 | """ |
---|
1497 | # default chisqr |
---|
1498 | chisqr = None |
---|
1499 | |
---|
1500 | # return None if data == None |
---|
1501 | if data == None: return chisqr |
---|
1502 | |
---|
1503 | # Get data: data I, theory I, and data dI in order |
---|
1504 | if data.__class__.__name__ == "Data2D": |
---|
1505 | if index == None: |
---|
1506 | index = numpy.ones(len(data.data),ntype=bool) |
---|
1507 | # get rid of zero error points |
---|
1508 | index = index & (data.err_data != 0 ) |
---|
1509 | index = index & (numpy.isfinite(data.data)) |
---|
1510 | fn = data.data[index] |
---|
1511 | theory_data = self.page_finder[page_id].get_theory_data() |
---|
1512 | gn = theory_data.data[index] |
---|
1513 | en = data.err_data[index] |
---|
1514 | else: |
---|
1515 | # 1 d theory from model_thread is only in the range of index |
---|
1516 | if index == None: |
---|
1517 | index = numpy.ones(len(data.y), ntype=bool) |
---|
1518 | if data.dy == None or data.dy == []: |
---|
1519 | dy = numpy.ones(len(data.y)) |
---|
1520 | else: |
---|
1521 | ## Set consitently w/AbstractFitengine: |
---|
1522 | # But this should be corrected later. |
---|
1523 | dy = deepcopy(data.dy) |
---|
1524 | dy[dy==0] = 1 |
---|
1525 | fn = data.y[index] |
---|
1526 | theory_data = self.page_finder[page_id].get_theory_data() |
---|
1527 | gn = theory_data.y |
---|
1528 | en = dy[index] |
---|
1529 | |
---|
1530 | # residual |
---|
1531 | res = (fn - gn) / en |
---|
1532 | residuals = res[numpy.isfinite(res)] |
---|
1533 | # get chisqr only w/finite |
---|
1534 | chisqr = numpy.average(residuals * residuals) |
---|
1535 | |
---|
1536 | self._plot_residuals(page_id, data, index) |
---|
1537 | return chisqr |
---|
1538 | |
---|
1539 | |
---|
1540 | |
---|
1541 | def _plot_residuals(self, page_id, data=None, index=None): |
---|
1542 | """ |
---|
1543 | Plot the residuals |
---|
1544 | |
---|
1545 | :param data: data |
---|
1546 | :param index: index array (bool) |
---|
1547 | : Note: this is different from the residuals in cal_chisqr() |
---|
1548 | """ |
---|
1549 | if data == None: |
---|
1550 | return |
---|
1551 | |
---|
1552 | # Get data: data I, theory I, and data dI in order |
---|
1553 | if data.__class__.__name__ == "Data2D": |
---|
1554 | # build residuals |
---|
1555 | #print data |
---|
1556 | residuals = Data2D() |
---|
1557 | #residuals.copy_from_datainfo(data) |
---|
1558 | # Not for trunk the line below, instead use the line above |
---|
1559 | data.clone_without_data(len(data.data), residuals) |
---|
1560 | residuals.data = None |
---|
1561 | fn = data.data#[index] |
---|
1562 | theory_data = self.page_finder[page_id].get_theory_data() |
---|
1563 | gn = theory_data.data#[index] |
---|
1564 | en = data.err_data#[index] |
---|
1565 | residuals.data = (fn - gn) / en |
---|
1566 | residuals.qx_data = data.qx_data#[index] |
---|
1567 | residuals.qy_data = data.qy_data #[index] |
---|
1568 | residuals.q_data = data.q_data#[index] |
---|
1569 | residuals.err_data = numpy.ones(len(residuals.data))#[index] |
---|
1570 | residuals.xmin = min(residuals.qx_data) |
---|
1571 | residuals.xmax = max(residuals.qx_data) |
---|
1572 | residuals.ymin = min(residuals.qy_data) |
---|
1573 | residuals.ymax = max(residuals.qy_data) |
---|
1574 | residuals.q_data = data.q_data#[index] |
---|
1575 | residuals.mask = data.mask |
---|
1576 | residuals.scale = 'linear' |
---|
1577 | #print "print data",residuals |
---|
1578 | # check the lengths |
---|
1579 | if len(residuals.data) != len(residuals.q_data): |
---|
1580 | return |
---|
1581 | |
---|
1582 | else: |
---|
1583 | # 1 d theory from model_thread is only in the range of index |
---|
1584 | if data.dy == None or data.dy == []: |
---|
1585 | dy = numpy.ones(len(data.y)) |
---|
1586 | else: |
---|
1587 | ## Set consitently w/AbstractFitengine: |
---|
1588 | ## But this should be corrected later. |
---|
1589 | dy = deepcopy(data.dy) |
---|
1590 | dy[dy==0] = 1 |
---|
1591 | fn = data.y[index] |
---|
1592 | theory_data = self.page_finder[page_id].get_theory_data() |
---|
1593 | gn = theory_data.y |
---|
1594 | en = dy[index] |
---|
1595 | # build residuals |
---|
1596 | residuals = Data1D() |
---|
1597 | residuals.y = (fn - gn) / en |
---|
1598 | residuals.x = data.x[index] |
---|
1599 | residuals.dy = numpy.ones(len(residuals.y)) |
---|
1600 | residuals.dx = None |
---|
1601 | residuals.dxl = None |
---|
1602 | residuals.dxw = None |
---|
1603 | residuals.ytransform = 'y' |
---|
1604 | # For latter scale changes |
---|
1605 | residuals.xaxis('\\rm{Q} ', 'A^{-1}') |
---|
1606 | residuals.yaxis('\\rm{Residuals} ', 'normalized') |
---|
1607 | |
---|
1608 | new_plot = residuals |
---|
1609 | if data.id == None: |
---|
1610 | data.id = data.name |
---|
1611 | name = data.id |
---|
1612 | new_plot.name = "Residuals for " + str(data.name) |
---|
1613 | ## allow to highlight data when plotted |
---|
1614 | new_plot.interactive = True |
---|
1615 | ## when 2 data have the same id override the 1 st plotted |
---|
1616 | new_plot.id = new_plot.name#name + " residuals" |
---|
1617 | ##group_id specify on which panel to plot this data |
---|
1618 | new_plot.group_id = new_plot.id |
---|
1619 | #new_plot.is_data = True |
---|
1620 | ##post data to plot |
---|
1621 | title = new_plot.name |
---|
1622 | |
---|
1623 | # plot data |
---|
1624 | wx.PostEvent(self.parent, NewPlotEvent(plot=new_plot, title=title)) |
---|
1625 | |
---|
1626 | #def profile(fn, *args, **kw): |
---|
1627 | # import cProfile, pstats, os |
---|
1628 | # global call_result |
---|
1629 | # def call(): |
---|
1630 | # global call_result |
---|
1631 | # call_result = fn(*args, **kw) |
---|
1632 | # cProfile.runctx('call()', dict(call=call), {}, 'profile.out') |
---|
1633 | # stats = pstats.Stats('profile.out') |
---|
1634 | # #stats.sort_stats('time') |
---|
1635 | # stats.sort_stats('calls') |
---|
1636 | # stats.print_stats() |
---|
1637 | # os.unlink('profile.out') |
---|
1638 | # return call_result |
---|
1639 | if __name__ == "__main__": |
---|
1640 | i = Plugin() |
---|
1641 | |
---|
1642 | |
---|
1643 | |
---|
1644 | |
---|