1 | %'geometry_calib': associated to the GUI geometry_calib to perform geometric calibration from a set of reference points
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2 | %------------------------------------------------------------------------
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3 | % function hgeometry_calib = geometry_calib(inputfile,pos)
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4 | %
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5 | %OUTPUT:
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6 | % hgeometry_calib=current handles of the GUI geometry_calib.fig
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7 | %
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8 | %INPUT:
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9 | % inputfile: (optional) name of an xml file containing coordinates of reference points
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10 | % pos: (optional) 4 element vector setting the 'Position' of the GUI
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11 |
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12 | %=======================================================================
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13 | % Copyright 2008-2020, LEGI UMR 5519 / CNRS UGA G-INP, Grenoble, France
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14 | % http://www.legi.grenoble-inp.fr
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15 | % Joel.Sommeria - Joel.Sommeria (A) legi.cnrs.fr
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16 | %
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17 | % This file is part of the toolbox UVMAT.
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18 | %
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19 | % UVMAT is free software; you can redistribute it and/or modify
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20 | % it under the terms of the GNU General Public License as published
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21 | % by the Free Software Foundation; either version 2 of the license,
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22 | % or (at your option) any later version.
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23 | %
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24 | % UVMAT is distributed in the hope that it will be useful,
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25 | % but WITHOUT ANY WARRANTY; without even the implied warranty of
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26 | % MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
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27 | % GNU General Public License (see LICENSE.txt) for more details.
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28 | %=======================================================================
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29 |
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30 | function varargout = geometry_calib(varargin)
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31 | % GEOMETRY_CALIB M-file for geometry_calib.fig
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32 | % GEOMETRY_CALIB, by itself, creates a MenuCoord GEOMETRY_CALIB or raises the existing
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33 | % singleton*.
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34 | %
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35 | % H = GEOMETRY_CALIB returns the handle to a MenuCoord GEOMETRY_CALIB or the handle to
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36 | % the existing singleton*.
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37 | %
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38 | % GEOMETRY_CALIB('CALLBACK',hObject,eventData,handles,...) calls the local
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39 | % function named CALLBACK in GEOMETRY_CALIB.M with the given input arguments.
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40 | %
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41 | % GEOMETRY_CALIB('Property','Value',...) creates a MenuCoord GEOMETRY_CALIB or raises the
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42 | % existing singleton*. Starting from the left, property value pairs are
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43 | % applied to the GUI before geometry_calib_OpeningFunction gets called. An
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44 | % unrecognized property name or invalid value makes property application
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45 | % stop. All inputs are passed to geometry_calib_OpeningFcn via varargin.
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46 | %
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47 | % *See GUI Options on GUIDE's Tools menu. Choose "GUI allows only one
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48 | % instance to run (singleton)".
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49 | %
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50 | % See also: GUIDE, GUIDATA, GUIHANDLES
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51 |
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52 | % Edit the above text to modify the response to help geometry_calib
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53 |
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54 | % Last Modified by GUIDE v2.5 20-Sep-2018 19:04:30
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55 |
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56 | % Begin initialization code - DO NOT edit
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57 | gui_Singleton = 1;
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58 | gui_State = struct('gui_Name', mfilename, ...
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59 | 'gui_Singleton', gui_Singleton, ...
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60 | 'gui_OpeningFcn', @geometry_calib_OpeningFcn, ...
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61 | 'gui_OutputFcn', @geometry_calib_OutputFcn, ...
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62 | 'gui_LayoutFcn', [] , ...
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63 | 'gui_Callback', []);
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64 | if nargin
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65 | [pp,ff]=fileparts(which(varargin{1})); % name of the input file
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66 | if strcmp(ff,mfilename)% if we are activating a sub-function of geometry_calib
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67 | % ~isempty(regexp(varargin{1},'_Callback','once'))
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68 | gui_State.gui_Callback = str2func(varargin{1});
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69 | end
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70 | end
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71 |
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72 | if nargout
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73 | [varargout{1:nargout}] = gui_mainfcn(gui_State, varargin{:});
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74 | else
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75 | gui_mainfcn(gui_State, varargin{:});
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76 | end
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77 | % End initialization code - DO NOT edit
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78 |
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79 |
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80 | % --- Executes just before geometry_calib is made visible.
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81 | %INPUT:
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82 | %handles: handles of the geometry_calib interface elements
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83 | % PlotHandles: set of handles of the elements contolling the plotting
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84 | % parameters on the uvmat interface (obtained by 'get_plot_handle.m')
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85 | %------------------------------------------------------------------------
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86 | function geometry_calib_OpeningFcn(hObject, eventdata, handles,inputfile)
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87 | %------------------------------------------------------------------------
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88 |
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89 | handles.output = hObject;
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90 | % Update handles structure
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91 | guidata(hObject, handles);
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92 | set(hObject,'DeleteFcn',{@closefcn})%
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93 |
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94 | %% position
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95 | set(0,'Unit','pixels')
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96 | ScreenSize=get(0,'ScreenSize');% get the size of the screen, to put the fig on the upper right
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97 | Left=ScreenSize(3)- 460; %right edge close to the right, with margin=40 (GUI width=420 px)
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98 | if ScreenSize(4)>920
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99 | Height=840;%default height of the GUI
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100 | Bottom=ScreenSize(4)-Height-40; %put fig at top right
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101 | else
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102 | Height=ScreenSize(4)-80;
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103 | Bottom=40; % GUI lies o the screen bottom (with margin =40)
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104 | end
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105 | set(handles.calib_type,'Position',[1 Height-40 194 30])% rank 1
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106 | set(handles.APPLY,'Position',[197 Height-40 110 30])% rank 1
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107 | set(handles.Replicate,'Position',[309 Height-40 110 30])% rank 1
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108 | set(handles.Intrinsic,'Position',[1 Height-40-2-92 418 92])% rank 2
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109 | set(handles.Extrinsic,'Position',[1 Height-40-4-92-75 418 75])% rank 3
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110 | set(handles.PointLists,'Position',[1 Height-40-6-92-75-117 418 117]) % rank 4
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111 | set(handles.CheckEnableMouse,'Position',[3 Height-362 208 30])% rank 5
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112 | set(handles.PLOT,'Position',[3 Height-394 120 30])% rank 6
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113 | set(handles.Copy,'Position',[151 Height-394 120 30])% rank 6
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114 | set(handles.ClearAll,'Position',[297 Height-394 120 30])% rank 6
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115 | set(handles.ClearPoint,'Position',[297 Height-362 120 30])% rank 6
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116 | set(handles.CoordLine,'Position',[211 Height-362 86 30])% rank 6
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117 | set(handles.phys_title,'Position',[38 Height-426 125 20])% rank 7
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118 | set(handles.CoordUnit,'Position',[151 Height-426 120 30])% rank 7
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119 | set(handles.px_title,'Position',[272 Height-426 125 20])% rank 7
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120 | set(handles.ListCoord,'Position',[1 20 418 Height-446])% rank 8
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121 | set(handles.geometry_calib,'Position',[Left Bottom 420 Height])
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122 |
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123 | %% set menu of calibration options
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124 | set(handles.calib_type,'String',{'rescale';'linear';'3D_linear';'3D_quadr';'3D_extrinsic'})
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125 | if exist('inputfile','var')&& ~isempty(inputfile)
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126 | [RootPath,SubDir,RootFile,tild,tild,tild,tild,FileExt]=fileparts_uvmat(inputfile);
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127 | struct.XmlInputFile=find_imadoc(RootPath,SubDir,RootFile,FileExt);
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128 | set(handles.ListCoord,'Data',[])
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129 | if exist(struct.XmlInputFile,'file')
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130 | Heading=loadfile(handles,struct.XmlInputFile);% load data from the xml file and fill the GUI
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131 | if isfield(Heading,'Campaign')&& ischar(Heading.Campaign)
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132 | struct.Campaign=Heading.Campaign;
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133 | end
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134 | end
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135 | set(hObject,'UserData',struct)
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136 | end
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137 |
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138 | %------------------------------------------------------------------------
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139 | % --- Outputs from this function are returned to the command line.
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140 | function varargout = geometry_calib_OutputFcn(~, eventdata, handles)
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141 | %------------------------------------------------------------------------
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142 | % Get default command line output from handles structure
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143 | varargout{1} = handles.output;
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144 | varargout{2}=handles;
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145 |
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146 | %------------------------------------------------------------------------
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147 | % executed when closing: set the parent interface button to value 0
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148 | function closefcn(gcbo,eventdata)
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149 | %------------------------------------------------------------------------
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150 | huvmat=findobj(allchild(0),'Name','uvmat');
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151 | if ~isempty(huvmat)
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152 | handles=guidata(huvmat);
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153 | set(handles.MenuCalib,'Checked','off')
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154 | hobject=findobj(handles.PlotAxes,'tag','calib_points');
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155 | if ~isempty(hobject)
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156 | delete(hobject)
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157 | end
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158 | hobject=findobj(handles.PlotAxes,'tag','calib_marker');
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159 | if ~isempty(hobject)
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160 | delete(hobject)
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161 | end
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162 | end
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163 |
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164 | %------------------------------------------------------------------------
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165 | % --- Executes on button press APPLY (used to launch the calibration).
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166 | function APPLY_Callback(hObject, eventdata, handles)
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167 | set(handles.CheckEnableMouse,'Value',0)% desactivate mouse (to avoid spurious creation of new points)
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168 |
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169 | %------------------------------------------------------------------------
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170 | %% look for the GUI uvmat and check for an image as input
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171 | set(handles.APPLY,'BackgroundColor',[1 1 0])% paint APPLY button in yellow to show activation
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172 | huvmat=findobj(allchild(0),'Name','uvmat');% look for the GUI uvmat
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173 | hhuvmat=guidata(huvmat);%handles of elements in the GUI uvmat
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174 | if ~strcmp(get(hhuvmat.Scalar,'Visible'),'on')
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175 | msgbox_uvmat('ERROR','An image needs to be opened in uvmat for calibration')
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176 | return
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177 | end
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178 |
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179 | RootPath='';
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180 | if ~isempty(hhuvmat.RootPath)&& ~isempty(hhuvmat.RootFile)
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181 | RootPath=get(hhuvmat.RootPath,'String');% path to the currently displayed image
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182 | SubDirBase=regexprep(get(hhuvmat.SubDir,'String'),'\..+$','');
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183 | outputfile=[fullfile(RootPath,SubDirBase) '.xml'];%xml file associated with the currently displayed image
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184 | else
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185 | question={'save the calibration data and point coordinates in'};
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186 | def={fullfile(RootPath,'ObjectCalib.xml')};
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187 | options.Resize='on';
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188 | answer=inputdlg(question,'',1,def,options);
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189 | outputfile=answer{1};
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190 | end
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191 |
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192 | %% read coordinates of the calibration poinnts: Coord(:,1-3) in phys, Coord(:,4-5) image
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193 | Coord=get(handles.ListCoord,'Data');
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194 |
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195 |
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196 | %% read the type of calibration
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197 | calib_cell=get(handles.calib_type,'String');
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198 | val=get(handles.calib_type,'Value');
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199 | CalibFcn=['calib_' calib_cell{val}];
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200 |
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201 | %% read the intrinsic parameters
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202 | Intrinsic.Npx=str2num(get(hhuvmat.num_Npx,'String'));
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203 | Intrinsic.Npy=str2num(get(hhuvmat.num_Npy,'String'));
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204 | Intrinsic.coord_files=get(handles.ListCoordFiles,'String');
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205 | Intrinsic.fx=str2num(get(handles.fx,'String'));
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206 | Intrinsic.fy=str2num(get(handles.fy,'String'));
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207 | Intrinsic.kc=str2num(get(handles.kc,'String'));
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208 | Intrinsic.Cx=str2num(get(handles.Cx,'String'));
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209 | Intrinsic.Cy=str2num(get(handles.Cy,'String'));
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210 | if isempty(Intrinsic.kc)
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211 | Intrinsic.kc=0;
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212 | end
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213 | if isempty(Intrinsic.Cx)||isempty(Intrinsic.Cy)
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214 | Intrinsic.Cx=Intrinsic.Npx/2;
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215 | Intrinsic.Cy=Intrinsic.Npy/2;
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216 | end
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217 |
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218 | %% apply to cropped images if requested
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219 | if get(handles.Replicate,'Value')
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220 | answer=msgbox_uvmat('INPUT_Y-N','apply to full images (not cropped)?');
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221 | if strcmp(answer,'No')
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222 | prompt = {'npy_lower'};
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223 | dlg_title = 'remove image the npy_lower image lines (removal of the upper line does not change calibration)';
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224 | num_lines= 1;
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225 | def = {'0'};
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226 | answer = inputdlg(prompt,dlg_title,num_lines,def);
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227 | npy_crop=str2num(answer{1});
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228 | Intrinsic.Npy=Intrinsic.Npy-npy_crop; %size of the filtering window
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229 | Coord(:,5)=Coord(:,5)-npy_crop;% shift the image ordinates of the calibration points by removing the lower band
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230 | end
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231 | end
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232 |
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233 | %% Apply calibration
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234 | [GeometryCalib,index,ind_removed,Z_plane]=calibrate(Coord,CalibFcn,Intrinsic);% apply calibration
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235 | if isempty(GeometryCalib)
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236 | return
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237 | end
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238 |
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239 | %% record the coordinate unit
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240 | unitlist=get(handles.CoordUnit,'String');
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241 | unit=unitlist{get(handles.CoordUnit,'value')};
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242 | GeometryCalib.CoordUnit=unit;
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243 |
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244 | %% record the coordinates of the calibration points
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245 | GeometryCalib.SourceCalib.PointCoord=Coord;
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246 |
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247 | %% display calibration results on the GUI geometry_calib
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248 | display_intrinsic(GeometryCalib,handles)%display calibration intrinsic parameters
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249 | display_extrinsic(GeometryCalib,handles)%display calibration extrinsic parameters
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250 | % (rotation and translation of camera with respect to the phys coordinates)
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251 |
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252 | %% set the default plane and display the calibration data errors for validation
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253 | answer=msgbox_uvmat('INPUT_Y-N',{'store calibration data';...
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254 | ['Error rms (along x,y)=' num2str(GeometryCalib.ErrorRms) ' pixels'];...
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255 | ['Error max (along x,y)=' num2str(GeometryCalib.ErrorMax) ' pixels'];
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256 | [num2str(numel(ind_removed)) ' points removed']});
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257 | SliceCoord_ref=[0 0 0]; %default reference plane
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258 | if strcmp(answer,'Yes') %store the calibration data
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259 | if strcmp(calib_cell{val}(1:2),'3D')%set the plane position for 3D (projection) calibration
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260 | answer=msgbox_uvmat('INPUT_Y-N',{['Assume that the current image is in the plane of the calib points z=' num2str(Z_plane) ] ; 'can be later modified by MenuSetSlice in the upper bar menu of uvmat'});
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261 | SliceCoord_ref=Z_plane'*[0 0 1];
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262 | end
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263 | else
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264 | GeometryCalib=[];
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265 | index=1;
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266 | end
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267 |
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268 | if ~isempty(GeometryCalib) % if calibration is not cancelled
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269 | %%%%% use of the option 'replicate'
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270 | if get(handles.Replicate,'Value')% if the option replicate is activated
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271 | nbcalib=0;
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272 | %% open the GUI browse_data
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273 | hbrowse=findobj(allchild(0),'Tag','browse_data');
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274 | if ~isempty(hbrowse)% look for the GUI 'replicate'
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275 | BrowseData=guidata(hbrowse);
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276 | SourceDir=get(BrowseData.SourceDir,'String');
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277 | ListExp=get(BrowseData.ListExperiments,'String');
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278 | ExpIndices=get(BrowseData.ListExperiments,'Value');
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279 | ListExp=ListExp(ExpIndices);
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280 | ListDevices=get(BrowseData.ListDevices,'String');
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281 | DeviceIndices=get(BrowseData.ListDevices,'Value');
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282 | ListDevices=ListDevices(DeviceIndices);
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283 | ListDataSeries=get(BrowseData.DataSeries,'String');
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284 | DataSeriesIndices=get(BrowseData.DataSeries,'Value');
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285 | ListDataSeries=ListDataSeries(DataSeriesIndices);
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286 | NbExp=0; % counter of the number of experiments set by the GUI browse_data
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287 | for iexp=1:numel(ListExp)
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288 | if ~isempty(regexp(ListExp{iexp},'^\+/'))% if it is a folder
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289 | for idevice=1:numel(ListDevices)
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290 | if ~isempty(regexp(ListDevices{idevice},'^\+/'))% if it is a folder
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291 | for isubdir=1:numel(ListDataSeries)
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292 | if ~isempty(regexp(ListDataSeries{isubdir},'^\+/'))% if it is a folder
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293 | lpath= fullfile(SourceDir,regexprep(ListExp{iexp},'^\+/',''),...
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294 | regexprep(ListDevices{idevice},'^\+/',''));
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295 | ldir= regexprep(ListDataSeries{isubdir},'^\+/','');
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296 | if exist(fullfile(lpath,ldir),'dir')
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297 | NbExp=NbExp+1;
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298 | ListPath{NbExp}=lpath;
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299 | ListSubdir{NbExp}=ldir;
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300 | ExpIndex{NbExp}=iexp;
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301 | end
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302 | end
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303 | end
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304 | end
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305 | end
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306 | end
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307 | end
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308 | for iexp=1:NbExp
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309 | XmlName=fullfile(ListPath{iexp},[ListSubdir{iexp} '.xml']);
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310 | if exist(XmlName,'file')
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311 | check_update=1;
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312 | else
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313 | check_update=0;
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314 | end
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315 | errormsg=update_imadoc(GeometryCalib,XmlName,'GeometryCalib');% introduce the calibration data in the xml file
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316 | if ~strcmp(errormsg,'')
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317 | msgbox_uvmat('ERROR',errormsg);
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318 | else
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319 | if check_update
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320 | display([XmlName ' updated with calibration parameters'])
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321 | else
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322 | display([XmlName ' created with calibration parameters'])
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323 | end
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324 | nbcalib=nbcalib+1;
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325 | end
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326 | end
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327 | end
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328 | msgbox_uvmat('CONFIMATION',['calibration replicated for ' num2str(NbExp) ' experiments']);
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329 | else
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330 | %% copy the xml file from the old location if appropriate, then update with the calibration parameters
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331 | if ~exist(outputfile,'file') && ~isempty(SubDirBase)
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332 | oldxml=[fullfile(RootPath,SubDirBase,get(hhuvmat.RootFile,'String')) '.xml'];
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333 | if exist(oldxml,'file')
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334 | [success,message]=copyfile(oldxml,outputfile);%copy the old xml file to a new one with the new convention
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335 | end
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336 | end
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337 | errormsg=update_imadoc(GeometryCalib,outputfile,'GeometryCalib');% introduce the calibration data in the xml file
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338 | if ~strcmp(errormsg,'')
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339 | msgbox_uvmat('ERROR',errormsg);
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340 | end
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341 |
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342 | %% display image with new calibration in the currently opened uvmat interface
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343 | FieldList=get(hhuvmat.FieldName,'String');
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344 | val=get(hhuvmat.FieldName,'Value');
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345 | if strcmp(FieldList{val},'image')
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346 | set(hhuvmat.CheckFixLimits,'Value',0)% put FixedLimits option to 'off' to plot the whole image
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347 | UserData=get(handles.geometry_calib,'UserData');
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348 | UserData.XmlInputFile=outputfile;%save the current xml file name
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349 | set(handles.geometry_calib,'UserData',UserData)
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350 | uvmat('InputFileREFRESH_Callback',hObject,eventdata,hhuvmat); %file input with xml reading in uvmat, show the image in phys coordinates
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351 | PLOT_Callback(hObject, eventdata, handles)
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352 | set(handles.CoordLine,'string',num2str(index))
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353 | Coord=get(handles.ListCoord,'Data');
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354 | update_calib_marker(Coord(index,:)); %indicate the point with max deviations from phys coord to calibration
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355 | figure(handles.geometry_calib)% put the GUI geometry_calib in front
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356 | else
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357 | msgbox_uvmat('WARNING','open the image to see the effect of the new calibration')
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358 | end
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359 | end
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360 | end
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361 |
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362 | set(handles.APPLY,'BackgroundColor',[1 0 0]) % set APPLY button to red color
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363 |
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364 | %------------------------------------------------------------------------
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365 | % --- Executes on button press in Replicate
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366 | function Replicate_Callback(hObject, eventdata, handles)
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367 | % %------------------------------------------------------------------------
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368 | set(handles.CheckEnableMouse,'Value',0)% desactivate mouse (to avoid spurious creation of new points)
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369 |
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370 | if get(handles.Replicate,'Value') %open the GUI browse_data
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371 | % look for the GUI uvmat and check for an image as input
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372 | huvmat=findobj(allchild(0),'Name','uvmat');
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373 | hhuvmat=guidata(huvmat);%handles of elements in the GUI uvmat
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---|
374 | RootPath=get(hhuvmat.RootPath,'String');
|
---|
375 | SubDir=get(hhuvmat.SubDir,'String');
|
---|
376 | browse_data(fullfile(RootPath,SubDir))
|
---|
377 | else
|
---|
378 | hbrowse=findobj(allchild(0),'Tag','browse_data');
|
---|
379 | if ~isempty(hbrowse)
|
---|
380 | delete(hbrowse)
|
---|
381 | end
|
---|
382 | end
|
---|
383 | %------------------------------------------------------------------------
|
---|
384 | % --- activate calibration and store parameters in ouputfile .
|
---|
385 | function [GeometryCalib,ind_max,ind_removed,Z_plane]=calibrate(Coord,CalibFcn,Intrinsic)
|
---|
386 | %------------------------------------------------------------------------
|
---|
387 |
|
---|
388 | index=[];
|
---|
389 | GeometryCalib=[];
|
---|
390 | ind_max=[];ind_removed=[];Z_plane=[];
|
---|
391 | % apply the calibration, whose type is selected in handles.calib_type
|
---|
392 | if ~isempty(Coord)
|
---|
393 | GeometryCalib=feval(CalibFcn,Coord,Intrinsic);
|
---|
394 | else
|
---|
395 | msgbox_uvmat('ERROR','No calibration points, abort')
|
---|
396 | end
|
---|
397 | if isempty(GeometryCalib)
|
---|
398 | return
|
---|
399 | end
|
---|
400 | Z_plane=[];
|
---|
401 |
|
---|
402 | % estimate calibration error rms and max
|
---|
403 | X=Coord(:,1);
|
---|
404 | Y=Coord(:,2);
|
---|
405 | Z=Coord(:,3);
|
---|
406 | x_ima=Coord(:,4);
|
---|
407 | y_ima=Coord(:,5);
|
---|
408 | [Xpoints,Ypoints]=px_XYZ(GeometryCalib,X,Y,Z);
|
---|
409 | GeometryCalib.ErrorRms(1)=sqrt(mean((Xpoints-x_ima).*(Xpoints-x_ima)));
|
---|
410 | GeometryCalib.ErrorRms(2)=sqrt(mean((Ypoints-y_ima).*(Ypoints-y_ima)));
|
---|
411 | [ErrorMax(1),index(1)]=max(abs(Xpoints-x_ima));
|
---|
412 | [ErrorMax(2),index(2)]=max(abs(Ypoints-y_ima));
|
---|
413 | [tild,ind_dim]=max(ErrorMax);
|
---|
414 | ind_max=index(ind_dim); % mark the index with maximum deviation
|
---|
415 |
|
---|
416 | % detect bad calibration points, marked by indices ind_bad, if the
|
---|
417 | % difference of actual image coordinates and those given by calibration is
|
---|
418 | % greater than 2 pixels and greater than 4 rms.
|
---|
419 | check_x=abs(Xpoints-x_ima)>max(2,3*GeometryCalib.ErrorRms(1));
|
---|
420 | check_y=abs(Ypoints-y_ima)>max(2,3*GeometryCalib.ErrorRms(2));
|
---|
421 | ind_removed=find(check_x | check_y)
|
---|
422 | % repeat calibration without the excluded points:
|
---|
423 | if ~isempty(ind_removed)
|
---|
424 | Coord(ind_removed,:)=[];
|
---|
425 | GeometryCalib=feval(CalibFcn,Coord,Intrinsic);
|
---|
426 | X=Coord(:,1);
|
---|
427 | Y=Coord(:,2);
|
---|
428 | Z=Coord(:,3);
|
---|
429 | x_ima=Coord(:,4);
|
---|
430 | y_ima=Coord(:,5);
|
---|
431 | [Xpoints,Ypoints]=px_XYZ(GeometryCalib,X,Y,Z);
|
---|
432 | GeometryCalib.ErrorRms(1)=sqrt(mean((Xpoints-x_ima).*(Xpoints-x_ima)));
|
---|
433 | GeometryCalib.ErrorRms(2)=sqrt(mean((Ypoints-y_ima).*(Ypoints-y_ima)));
|
---|
434 | end
|
---|
435 | GeometryCalib.ErrorMax=ErrorMax;
|
---|
436 | %set the Z position of the reference plane used for calibration
|
---|
437 | if isequal(max(Z),min(Z))%Z constant
|
---|
438 | Z_plane=Z(1);
|
---|
439 | GeometryCalib.NbSlice=1;
|
---|
440 | GeometryCalib.SliceCoord=[0 0 Z_plane];
|
---|
441 | end
|
---|
442 |
|
---|
443 |
|
---|
444 | %------------------------------------------------------------------------
|
---|
445 | % --- determine the parameters for a calibration by an affine function (rescaling and offset, no rotation)
|
---|
446 | function GeometryCalib=calib_rescale(Coord,Intrinsic)
|
---|
447 | %------------------------------------------------------------------------
|
---|
448 | X=Coord(:,1);
|
---|
449 | Y=Coord(:,2);% Z not used
|
---|
450 | x_ima=Coord(:,4);
|
---|
451 | y_ima=Coord(:,5);
|
---|
452 | [px]=polyfit(X,x_ima,1);
|
---|
453 | [py]=polyfit(Y,y_ima,1);
|
---|
454 | % T_x=px(2);
|
---|
455 | % T_y=py(2);
|
---|
456 | GeometryCalib.CalibrationType='rescale';
|
---|
457 | GeometryCalib.fx_fy=[px(1) py(1)];%.fx_fy corresponds to pxcm along x and y
|
---|
458 | GeometryCalib.CoordUnit=[];% default value, to be updated by the calling function
|
---|
459 | GeometryCalib.Tx_Ty_Tz=[px(2)/px(1) py(2)/py(1) 1];
|
---|
460 | GeometryCalib.omc=[0 0 0];
|
---|
461 |
|
---|
462 | %------------------------------------------------------------------------
|
---|
463 | % --- determine the parameters for a calibration by a linear transform matrix (rescale and rotation)
|
---|
464 | function GeometryCalib=calib_linear(Coord,Intrinsic)
|
---|
465 | %------------------------------------------------------------------------
|
---|
466 | X=Coord(:,1);
|
---|
467 | Y=Coord(:,2);% Z not used
|
---|
468 | x_ima=Coord(:,4);
|
---|
469 | y_ima=Coord(:,5);
|
---|
470 | XY_mat=[ones(size(X)) X Y];
|
---|
471 | a_X1=XY_mat\x_ima; %transformation matrix for X
|
---|
472 | a_Y1=XY_mat\y_ima;%transformation matrix for X
|
---|
473 | R=[a_X1(2),a_X1(3);a_Y1(2),a_Y1(3)];
|
---|
474 | epsilon=sign(det(R));
|
---|
475 | norm=abs(det(R));
|
---|
476 | GeometryCalib.CalibrationType='linear';
|
---|
477 | if (a_X1(2)/a_Y1(3))>0
|
---|
478 | GeometryCalib.fx_fy(1)=sqrt((a_X1(2)/a_Y1(3))*norm);
|
---|
479 | else
|
---|
480 | GeometryCalib.fx_fy(1)=-sqrt(-(a_X1(2)/a_Y1(3))*norm);
|
---|
481 | end
|
---|
482 | GeometryCalib.fx_fy(2)=(a_Y1(3)/a_X1(2))*GeometryCalib.fx_fy(1);
|
---|
483 | GeometryCalib.CoordUnit=[];% default value, to be updated by the calling function
|
---|
484 | GeometryCalib.Tx_Ty_Tz=[a_X1(1)/GeometryCalib.fx_fy(1) a_Y1(1)/GeometryCalib.fx_fy(2) 1];
|
---|
485 | R(1,:)=R(1,:)/GeometryCalib.fx_fy(1);
|
---|
486 | R(2,:)=R(2,:)/GeometryCalib.fx_fy(2);
|
---|
487 | R=[R;[0 0]];
|
---|
488 | GeometryCalib.R=[R [0;0;-epsilon]];
|
---|
489 | GeometryCalib.omc=(180/pi)*[acos(GeometryCalib.R(1,1)) 0 0];
|
---|
490 |
|
---|
491 | %------------------------------------------------------------------------
|
---|
492 | % --- determine the tsai parameters for a view normal to the grid plane
|
---|
493 | % NOT USED
|
---|
494 | function GeometryCalib=calib_normal(Coord,Intrinsic)
|
---|
495 | %------------------------------------------------------------------------
|
---|
496 | Calib.fx=str2num(get(handles.fx,'String'));
|
---|
497 | Calib.fy=str2num(get(handles.fy,'String'));
|
---|
498 | Calib.kc=str2num(get(handles.kc,'String'));
|
---|
499 | Calib.Cx=str2num(get(handles.Cx,'String'));
|
---|
500 | Calib.Cy=str2num(get(handles.Cy,'String'));
|
---|
501 | %default
|
---|
502 | if isempty(Calib.fx)
|
---|
503 | Calib.fx=25/0.012;
|
---|
504 | end
|
---|
505 | if isempty(Calib.fy)
|
---|
506 | Calib.fy=25/0.012;
|
---|
507 | end
|
---|
508 | if isempty(Calib.kc)
|
---|
509 | Calib.kc=0;
|
---|
510 | end
|
---|
511 | if isempty(Calib.Cx)||isempty(Calib.Cy)
|
---|
512 | huvmat=findobj(allchild(0),'Tag','uvmat');
|
---|
513 | hhuvmat=guidata(huvmat);
|
---|
514 | Calib.Cx=str2num(get(hhuvmat.num_Npx,'String'))/2;
|
---|
515 | Calib.Cx=str2num(get(hhuvmat.num_Npy,'String'))/2;
|
---|
516 | end
|
---|
517 | %tsai parameters
|
---|
518 | Calib.dpx=0.012;%arbitrary
|
---|
519 | Calib.dpy=0.012;
|
---|
520 | Calib.sx=Calib.fx*Calib.dpx/(Calib.fy*Calib.dpy);
|
---|
521 | Calib.f=Calib.fy*Calib.dpy;
|
---|
522 | Calib.kappa1=Calib.kc/(Calib.f*Calib.f);
|
---|
523 |
|
---|
524 | %initial guess
|
---|
525 | X=Coord(:,1);
|
---|
526 | Y=Coord(:,2);
|
---|
527 | Zmean=mean(Coord(:,3));
|
---|
528 | x_ima=Coord(:,4)-Calib.Cx;
|
---|
529 | y_ima=Coord(:,5)-Calib.Cy;
|
---|
530 | XY_mat=[ones(size(X)) X Y];
|
---|
531 | a_X1=XY_mat\x_ima; %transformation matrix for X
|
---|
532 | a_Y1=XY_mat\y_ima;%transformation matrix for Y
|
---|
533 | R=[a_X1(2),a_X1(3),0;a_Y1(2),a_Y1(3),0;0,0,-1];% rotation+ z axis reversal (upward)
|
---|
534 | norm=sqrt(det(-R));
|
---|
535 | calib_param(1)=0;% quadratic distortion
|
---|
536 | calib_param(2)=a_X1(1);
|
---|
537 | calib_param(3)=a_Y1(1);
|
---|
538 | calib_param(4)=Calib.f/(norm*Calib.dpx)-R(3,3)*Zmean;
|
---|
539 | calib_param(5)=angle(a_X1(2)+1i*a_X1(3));
|
---|
540 | display(['initial guess=' num2str(calib_param)])
|
---|
541 |
|
---|
542 | %optimise the parameters: minimisation of error
|
---|
543 | calib_param = fminsearch(@(calib_param) error_calib(calib_param,Calib,Coord),calib_param);
|
---|
544 |
|
---|
545 | GeometryCalib.CalibrationType='tsai_normal';
|
---|
546 | GeometryCalib.focal=Calib.f;
|
---|
547 | GeometryCalib.dpx_dpy=[Calib.dpx Calib.dpy];
|
---|
548 | GeometryCalib.Cx_Cy=[Calib.Cx Calib.Cy];
|
---|
549 | GeometryCalib.sx=Calib.sx;
|
---|
550 | GeometryCalib.kappa1=calib_param(1);
|
---|
551 | GeometryCalib.CoordUnit=[];% default value, to be updated by the calling function
|
---|
552 | GeometryCalib.Tx_Ty_Tz=[calib_param(2) calib_param(3) calib_param(4)];
|
---|
553 | alpha=calib_param(5);
|
---|
554 | GeometryCalib.R=[cos(alpha) sin(alpha) 0;-sin(alpha) cos(alpha) 0;0 0 -1];
|
---|
555 |
|
---|
556 | %------------------------------------------------------------------------
|
---|
557 | function GeometryCalib=calib_3D_linear(Coord,Intrinsic)
|
---|
558 | %------------------------------------------------------------------------
|
---|
559 | coord_files=Intrinsic.coord_files;
|
---|
560 | if ischar(Intrinsic.coord_files)
|
---|
561 | coord_files={coord_files};
|
---|
562 | end
|
---|
563 | if isempty(coord_files{1}) || isequal(coord_files,{''})
|
---|
564 | coord_files={};
|
---|
565 | end
|
---|
566 | %retrieve the calibration points stored in the files listed in the popup list ListCoordFiles
|
---|
567 | x_1=Coord(:,4:5)';%px coordinates of the ref points
|
---|
568 |
|
---|
569 | nx=Intrinsic.Npx;
|
---|
570 | ny=Intrinsic.Npy;
|
---|
571 | x_1(2,:)=ny-x_1(2,:);%reverse the y image coordinates
|
---|
572 | X_1=Coord(:,1:3)';%phys coordinates of the ref points
|
---|
573 | n_ima=numel(coord_files)+1;
|
---|
574 | if ~isempty(coord_files)
|
---|
575 | msgbox_uvmat('CONFIRMATION',['The xy coordinates of the calibration points in ' num2str(n_ima) ' planes will be used'])
|
---|
576 | for ifile=1:numel(coord_files)
|
---|
577 | t=xmltree(coord_files{ifile});
|
---|
578 | s=convert(t);%convert to matlab structure
|
---|
579 | if isfield(s,'GeometryCalib')
|
---|
580 | if isfield(s.GeometryCalib,'SourceCalib')
|
---|
581 | if isfield(s.GeometryCalib.SourceCalib,'PointCoord')
|
---|
582 | PointCoord=s.GeometryCalib.SourceCalib.PointCoord;
|
---|
583 | Coord_file=zeros(length(PointCoord),5);%default
|
---|
584 | for i=1:length(PointCoord)
|
---|
585 | line=str2num(PointCoord{i});
|
---|
586 | Coord_file(i,4:5)=line(4:5);%px x
|
---|
587 | Coord_file(i,1:3)=line(1:3);%phys x
|
---|
588 | end
|
---|
589 | eval(['x_' num2str(ifile+1) '=Coord_file(:,4:5)'';']);
|
---|
590 | eval(['x_' num2str(ifile+1) '(2,:)=ny-x_' num2str(ifile+1) '(2,:);' ]);
|
---|
591 | eval(['X_' num2str(ifile+1) '=Coord_file(:,1:3)'';']);
|
---|
592 | end
|
---|
593 | end
|
---|
594 | end
|
---|
595 | end
|
---|
596 | end
|
---|
597 | n_ima=numel(coord_files)+1;
|
---|
598 | est_dist=[0;0;0;0;0];
|
---|
599 | est_aspect_ratio=0;
|
---|
600 | est_fc=[1;1];
|
---|
601 | center_optim=0;
|
---|
602 | path_uvmat=which('uvmat');% check the path detected for source file uvmat
|
---|
603 | path_UVMAT=fileparts(path_uvmat); %path to UVMAT
|
---|
604 | run(fullfile(path_UVMAT,'toolbox_calib','go_calib_optim'));% apply fct 'toolbox_calib/go_calib_optim'
|
---|
605 | if exist('Rc_1','var')
|
---|
606 | GeometryCalib.CalibrationType='3D_linear';
|
---|
607 | GeometryCalib.fx_fy=fc';
|
---|
608 | GeometryCalib.Cx_Cy=cc';
|
---|
609 | GeometryCalib.kc=kc(1);
|
---|
610 | GeometryCalib.CoordUnit=[];% default value, to be updated by the calling function
|
---|
611 | GeometryCalib.Tx_Ty_Tz=Tc_1';
|
---|
612 | GeometryCalib.R=Rc_1;
|
---|
613 | GeometryCalib.R(2,1:3)=-GeometryCalib.R(2,1:3);%inversion of the y image coordinate
|
---|
614 | GeometryCalib.Tx_Ty_Tz(2)=-GeometryCalib.Tx_Ty_Tz(2);%inversion of the y image coordinate
|
---|
615 | GeometryCalib.Cx_Cy(2)=ny-GeometryCalib.Cx_Cy(2);%inversion of the y image coordinate
|
---|
616 | GeometryCalib.omc=(180/pi)*omc_1;%angles in degrees
|
---|
617 | GeometryCalib.ErrorRMS=[];
|
---|
618 | GeometryCalib.ErrorMax=[];
|
---|
619 | else
|
---|
620 | msgbox_uvmat('ERROR',['calibration function ' fullfile('toolbox_calib','go_calib_optim') ' did not converge: use multiple views or option 3D_extrinsic'])
|
---|
621 | GeometryCalib=[];
|
---|
622 | end
|
---|
623 |
|
---|
624 | %------------------------------------------------------------------------
|
---|
625 | function GeometryCalib=calib_3D_quadr(Coord,Intrinsic)
|
---|
626 | %------------------------------------------------------------------
|
---|
627 |
|
---|
628 | path_uvmat=which('uvmat');% check the path detected for source file uvmat
|
---|
629 | path_UVMAT=fileparts(path_uvmat); %path to UVMAT
|
---|
630 | huvmat=findobj(allchild(0),'Tag','uvmat');
|
---|
631 | hhuvmat=guidata(huvmat);
|
---|
632 | if ~strcmp(get(hhuvmat.Scalar,'Visible'),'on')
|
---|
633 | msgbox_uvmat('ERROR','An image needs to be opened in uvmat for calibration')
|
---|
634 | return
|
---|
635 | end
|
---|
636 | % check_cond=0;
|
---|
637 |
|
---|
638 | coord_files=Intrinsic.coord_files;
|
---|
639 |
|
---|
640 | if ischar(coord_files)
|
---|
641 | coord_files={coord_files};
|
---|
642 | end
|
---|
643 | if isempty(coord_files{1}) || isequal(coord_files,{''})
|
---|
644 | coord_files={};
|
---|
645 | end
|
---|
646 |
|
---|
647 | %retrieve the calibration points stored in the files listed in the popup list ListCoordFiles
|
---|
648 | x_1=Coord(:,4:5)';%px coordinates of the ref points
|
---|
649 | nx=str2num(get(hhuvmat.num_Npx,'String'));
|
---|
650 | ny=str2num(get(hhuvmat.num_Npy,'String'));
|
---|
651 | x_1(2,:)=ny-x_1(2,:);%reverse the y image coordinates
|
---|
652 | X_1=Coord(:,1:3)';%phys coordinates of the ref points
|
---|
653 | n_ima=numel(coord_files)+1;
|
---|
654 | if ~isempty(coord_files)
|
---|
655 | msgbox_uvmat('CONFIRMATION',['The xy coordinates of the calibration points in ' num2str(n_ima) ' planes will be used'])
|
---|
656 | for ifile=1:numel(coord_files)
|
---|
657 | t=xmltree(coord_files{ifile});
|
---|
658 | s=convert(t);%convert to matlab structure
|
---|
659 | if isfield(s,'GeometryCalib')
|
---|
660 | if isfield(s.GeometryCalib,'SourceCalib')
|
---|
661 | if isfield(s.GeometryCalib.SourceCalib,'PointCoord')
|
---|
662 | PointCoord=s.GeometryCalib.SourceCalib.PointCoord;
|
---|
663 | Coord_file=zeros(length(PointCoord),5);%default
|
---|
664 | for i=1:length(PointCoord)
|
---|
665 | line=str2num(PointCoord{i});
|
---|
666 | Coord_file(i,4:5)=line(4:5);%px x
|
---|
667 | Coord_file(i,1:3)=line(1:3);%phys x
|
---|
668 | end
|
---|
669 | eval(['x_' num2str(ifile+1) '=Coord_file(:,4:5)'';']);
|
---|
670 | eval(['x_' num2str(ifile+1) '(2,:)=ny-x_' num2str(ifile+1) '(2,:);' ]);
|
---|
671 | eval(['X_' num2str(ifile+1) '=Coord_file(:,1:3)'';']);
|
---|
672 | end
|
---|
673 | end
|
---|
674 | end
|
---|
675 | end
|
---|
676 | end
|
---|
677 | n_ima=numel(coord_files)+1;
|
---|
678 | est_dist=[1;0;0;0;0];
|
---|
679 | est_aspect_ratio=1;
|
---|
680 | center_optim=0;
|
---|
681 | run(fullfile(path_UVMAT,'toolbox_calib','go_calib_optim'));% apply fct 'toolbox_calib/go_calib_optim'
|
---|
682 |
|
---|
683 | if exist('Rc_1','var')
|
---|
684 | GeometryCalib.CalibrationType='3D_quadr';
|
---|
685 | GeometryCalib.fx_fy=fc';
|
---|
686 | GeometryCalib.Cx_Cy=cc';
|
---|
687 | GeometryCalib.kc=kc(1);
|
---|
688 | GeometryCalib.CoordUnit=[];% default value, to be updated by the calling function
|
---|
689 | GeometryCalib.Tx_Ty_Tz=Tc_1';
|
---|
690 | GeometryCalib.R=Rc_1;
|
---|
691 | GeometryCalib.R(2,1:3)=-GeometryCalib.R(2,1:3);%inversion of the y image coordinate
|
---|
692 | GeometryCalib.Tx_Ty_Tz(2)=-GeometryCalib.Tx_Ty_Tz(2);%inversion of the y image coordinate
|
---|
693 | GeometryCalib.Cx_Cy(2)=ny-GeometryCalib.Cx_Cy(2);%inversion of the y image coordinate
|
---|
694 | GeometryCalib.omc=(180/pi)*omc_1;%angles in degrees
|
---|
695 | GeometryCalib.ErrorRMS=[];
|
---|
696 | GeometryCalib.ErrorMax=[];
|
---|
697 | else
|
---|
698 | msgbox_uvmat('ERROR',['calibration function ' fullfile('toolbox_calib','go_calib_optim') ' did not converge: use multiple views or option 3D_extrinsic'])
|
---|
699 | GeometryCalib=[];
|
---|
700 | end
|
---|
701 |
|
---|
702 | %------------------------------------------------------------------------
|
---|
703 | function GeometryCalib=calib_3D_extrinsic(Coord, Intrinsic)
|
---|
704 | %------------------------------------------------------------------
|
---|
705 | path_uvmat=which('geometry_calib');% check the path detected for source file uvmat
|
---|
706 | path_UVMAT=fileparts(path_uvmat); %path to UVMAT
|
---|
707 | x_1=double(Coord(:,4:5)');%image coordinates
|
---|
708 | X_1=double(Coord(:,1:3)');% phys coordinates
|
---|
709 | huvmat=findobj(allchild(0),'Tag','uvmat');
|
---|
710 | hhuvmat=guidata(huvmat);
|
---|
711 | if ~strcmp(get(hhuvmat.Scalar,'Visible'),'on')
|
---|
712 | msgbox_uvmat('ERROR','An image needs to be opened in uvmat for calibration')
|
---|
713 | return
|
---|
714 | end
|
---|
715 | ny=str2double(get(hhuvmat.num_Npy,'String'));
|
---|
716 | x_1(2,:)=ny-x_1(2,:);%reverse the y image coordinates
|
---|
717 | n_ima=1;
|
---|
718 | GeometryCalib.CalibrationType='3D_extrinsic';
|
---|
719 | fx=Intrinsic.fx;
|
---|
720 | fy=Intrinsic.fy;
|
---|
721 | Cx=Intrinsic.Cx;
|
---|
722 | Cy=Intrinsic.Cy;
|
---|
723 | kc=Intrinsic.kc;
|
---|
724 | errormsg='';
|
---|
725 | if isempty(fx)
|
---|
726 | errormsg='focal length fx needs to be introduced';
|
---|
727 | elseif isempty(fy)
|
---|
728 | errormsg='focal length fy needs to be introduced';
|
---|
729 | elseif isempty(Cx)
|
---|
730 | errormsg='shift Cx to image centre needs to be introduced';
|
---|
731 | elseif isempty(Cy)
|
---|
732 | errormsg='shift Cy to image centre needs to be introduced';
|
---|
733 | end
|
---|
734 | if ~isempty(errormsg)
|
---|
735 | GeometryCalib=[];
|
---|
736 | msgbox_uvmat('ERROR',errormsg)
|
---|
737 | return
|
---|
738 | end
|
---|
739 | GeometryCalib.fx_fy(1)=fx;
|
---|
740 | GeometryCalib.fx_fy(2)=fy;
|
---|
741 | GeometryCalib.Cx_Cy(1)=Cx;
|
---|
742 | GeometryCalib.Cx_Cy(2)=Cy;
|
---|
743 | GeometryCalib.kc=kc;
|
---|
744 | fct_path=fullfile(path_UVMAT,'toolbox_calib');
|
---|
745 | addpath(fct_path)
|
---|
746 | GeometryCalib.Cx_Cy(2)=ny-GeometryCalib.Cx_Cy(2);%reverse Cx_Cy(2) for calibration (inversion of px ordinate)
|
---|
747 | [omc,Tc1,Rc1,H,x,ex,JJ] = compute_extrinsic(x_1,X_1,...
|
---|
748 | (GeometryCalib.fx_fy)',GeometryCalib.Cx_Cy',[GeometryCalib.kc 0 0 0 0]);
|
---|
749 | rmpath(fct_path);
|
---|
750 | GeometryCalib.CoordUnit=[];% default value, to be updated by the calling function
|
---|
751 | GeometryCalib.Tx_Ty_Tz=Tc1';
|
---|
752 | %inversion of z axis
|
---|
753 | GeometryCalib.R=Rc1;
|
---|
754 | GeometryCalib.R(2,1:3)=-GeometryCalib.R(2,1:3);%inversion of the y image coordinate
|
---|
755 | GeometryCalib.Tx_Ty_Tz(2)=-GeometryCalib.Tx_Ty_Tz(2);%inversion of the y image coordinate
|
---|
756 | GeometryCalib.Cx_Cy(2)=ny-GeometryCalib.Cx_Cy(2);%inversion of the y image coordinate
|
---|
757 | GeometryCalib.omc=(180/pi)*omc';
|
---|
758 |
|
---|
759 | %------------------------------------------------------------------------
|
---|
760 | %function GeometryCalib=calib_tsai_heikkila(Coord)
|
---|
761 | % TEST: NOT IMPLEMENTED
|
---|
762 | %------------------------------------------------------------------
|
---|
763 | % path_uvmat=which('uvmat');% check the path detected for source file uvmat
|
---|
764 | % path_UVMAT=fileparts(path_uvmat); %path to UVMAT
|
---|
765 | % path_calib=fullfile(path_UVMAT,'toolbox_calib_heikkila');
|
---|
766 | % addpath(path_calib)
|
---|
767 | % npoints=size(Coord,1);
|
---|
768 | % Coord(:,1:3)=10*Coord(:,1:3);
|
---|
769 | % Coord=[Coord zeros(npoints,2) -ones(npoints,1)];
|
---|
770 | % [par,pos,iter,res,er,C]=cacal('dalsa',Coord);
|
---|
771 | % GeometryCalib.CalibrationType='tsai';
|
---|
772 | % GeometryCalib.focal=par(2);
|
---|
773 |
|
---|
774 |
|
---|
775 | %------------------------------------------------------------------------
|
---|
776 | % --- determine the rms of calibration error
|
---|
777 | function ErrorRms=error_calib(calib_param,Calib,Coord)
|
---|
778 | %------------------------------------------------------------------------
|
---|
779 | %calib_param: vector of free calibration parameters (to optimise)
|
---|
780 | %Calib: structure of the given calibration parameters
|
---|
781 | %Coord: list of phys coordinates (columns 1-3, and pixel coordinates (columns 4-5)
|
---|
782 | Calib.f=25;
|
---|
783 | Calib.dpx=0.012;
|
---|
784 | Calib.dpy=0.012;
|
---|
785 | Calib.sx=1;
|
---|
786 | Calib.Cx=512;
|
---|
787 | Calib.Cy=512;
|
---|
788 | Calib.kappa1=calib_param(1);
|
---|
789 | Calib.Tx=calib_param(2);
|
---|
790 | Calib.Ty=calib_param(3);
|
---|
791 | Calib.Tz=calib_param(4);
|
---|
792 | alpha=calib_param(5);
|
---|
793 | Calib.R=[cos(alpha) sin(alpha) 0;-sin(alpha) cos(alpha) 0;0 0 -1];
|
---|
794 |
|
---|
795 | X=Coord(:,1);
|
---|
796 | Y=Coord(:,2);
|
---|
797 | Z=Coord(:,3);
|
---|
798 | x_ima=Coord(:,4);
|
---|
799 | y_ima=Coord(:,5);
|
---|
800 | [Xpoints,Ypoints]=px_XYZ(Calib,X,Y,Z);
|
---|
801 | ErrorRms(1)=sqrt(mean((Xpoints-x_ima).*(Xpoints-x_ima)));
|
---|
802 | ErrorRms(2)=sqrt(mean((Ypoints-y_ima).*(Ypoints-y_ima)));
|
---|
803 | ErrorRms=mean(ErrorRms);
|
---|
804 |
|
---|
805 |
|
---|
806 | %------------------------------------------------------------------------
|
---|
807 | % --- Executes on button press in STORE.
|
---|
808 | function STORE_Callback(hObject, eventdata, handles)
|
---|
809 | %------------------------------------------------------------------------
|
---|
810 | Coord=get(handles.ListCoord,'Data');
|
---|
811 | %Object=read_geometry_calib(Coord_cell);
|
---|
812 | unitlist=get(handles.CoordUnit,'String');
|
---|
813 | unit=unitlist{get(handles.CoordUnit,'value')};
|
---|
814 | GeometryCalib.CoordUnit=unit;
|
---|
815 | GeometryCalib.SourceCalib.PointCoord=Coord(:,1:5);
|
---|
816 | huvmat=findobj(allchild(0),'Name','uvmat');
|
---|
817 | hhuvmat=guidata(huvmat);%handles of elements in the GUI uvmat
|
---|
818 | % RootPath='';
|
---|
819 | % RootFile='';
|
---|
820 | if ~isempty(hhuvmat.RootPath)&& ~isempty(hhuvmat.RootFile)
|
---|
821 | % testhandle=1;
|
---|
822 | RootPath=get(hhuvmat.RootPath,'String');
|
---|
823 | RootFile=get(hhuvmat.RootFile,'String');
|
---|
824 | filebase=[fullfile(RootPath,RootFile) '~'];
|
---|
825 | while exist([filebase '.xml'],'file')
|
---|
826 | filebase=[filebase '~'];
|
---|
827 | end
|
---|
828 | outputfile=[filebase '.xml'];
|
---|
829 | errormsg=update_imadoc(GeometryCalib,outputfile,'GeometryCalib');
|
---|
830 | if ~strcmp(errormsg,'')
|
---|
831 | msgbox_uvmat('ERROR',errormsg);
|
---|
832 | end
|
---|
833 | listfile=get(handles.ListCoordFiles,'string');
|
---|
834 | if isequal(listfile,{''})
|
---|
835 | listfile={outputfile};
|
---|
836 | else
|
---|
837 | listfile=[listfile;{outputfile}];%update the list of coord files
|
---|
838 | end
|
---|
839 | set(handles.ListCoordFiles,'string',listfile);
|
---|
840 | end
|
---|
841 | ClearAll_Callback(hObject, eventdata, handles)% clear the current list and point plots
|
---|
842 |
|
---|
843 | % --------------------------------------------------------------------
|
---|
844 | % --- Executes on button press in ClearAll: clear the list of calibration points
|
---|
845 | function ClearAll_Callback(hObject, eventdata, handles)
|
---|
846 | % --------------------------------------------------------------------
|
---|
847 | set(handles.ListCoord,'Data',[])
|
---|
848 | PLOT_Callback(hObject, eventdata, handles)
|
---|
849 | update_calib_marker([]);%remove circle marker
|
---|
850 | set(handles.APPLY,'backgroundColor',[1 0 0])% set APPLY button to red color: no calibration wanted without points
|
---|
851 | set(handles.CheckEnableMouse,'value',1); %activate mouse to pick new points
|
---|
852 |
|
---|
853 | %------------------------------------------------------------------------
|
---|
854 | % --- Executes on button press in CLEAR LIST
|
---|
855 | function CLEAR_Callback(hObject, eventdata, handles)
|
---|
856 | %------------------------------------------------------------------------
|
---|
857 | set(handles.ListCoordFiles,'Value',1)
|
---|
858 | set(handles.ListCoordFiles,'String',{''})
|
---|
859 |
|
---|
860 | %------------------------------------------------------------------------
|
---|
861 | % --- Executes on selection change in CheckEnableMouse.
|
---|
862 | function CheckEnableMouse_Callback(hObject, eventdata, handles)
|
---|
863 | %------------------------------------------------------------------------
|
---|
864 | choice=get(handles.CheckEnableMouse,'Value');
|
---|
865 | if choice
|
---|
866 | huvmat=findobj(allchild(0),'tag','uvmat');
|
---|
867 | if ishandle(huvmat)
|
---|
868 | hhuvmat=guidata(huvmat);
|
---|
869 | set(hhuvmat.MenuRuler,'checked','off')%desactivate ruler
|
---|
870 | if get(hhuvmat.CheckEditObject,'Value')
|
---|
871 | set(hhuvmat.CheckEditObject,'Value',0)
|
---|
872 | uvmat('CheckEditObject_Callback',hhuvmat.CheckEditObject,[],hhuvmat)
|
---|
873 | end
|
---|
874 | set(hhuvmat.MenuRuler,'checked','off')%desactivate ruler
|
---|
875 | end
|
---|
876 | end
|
---|
877 |
|
---|
878 | % --------------------------------------------------------------------
|
---|
879 |
|
---|
880 | % function MenuHelp_Callback(hObject, eventdata, handles)
|
---|
881 | % web('http://servforge.legi.grenoble-inp.fr/projects/soft-uvmat/wiki/UvmatHelp#GeometryCalib')
|
---|
882 |
|
---|
883 | %
|
---|
884 | function MenuSetScale_Callback(hObject,eventdata,handles)
|
---|
885 |
|
---|
886 | answer=msgbox_uvmat('INPUT_TXT','scale pixel/cm?','');
|
---|
887 | %create test points
|
---|
888 | huvmat=findobj(allchild(0),'Name','uvmat');%find the current uvmat interface handle
|
---|
889 | hhuvmat=guidata(huvmat);
|
---|
890 | if ~strcmp(get(hhuvmat.Scalar,'Visible'),'on')
|
---|
891 | msgbox_uvmat('ERROR','An image needs to be opened in uvmat for calibration')
|
---|
892 | return
|
---|
893 | end
|
---|
894 | set(handles.calib_type,'Value',1)% set calib option to 'rescale'
|
---|
895 | npx=str2num(get(hhuvmat.num_Npx,'String'))/2;
|
---|
896 | npy=str2num(get(hhuvmat.num_Npy,'String'))/2;
|
---|
897 | Xima=[0.25*npx 0.75*npx 0.75*npx 0.25*npx]';
|
---|
898 | Yima=[0.25*npy 0.25*npy 0.75*npy 0.75*npy]';
|
---|
899 | x=Xima/str2num(answer);
|
---|
900 | y=Yima/str2num(answer);
|
---|
901 | Coord=[x y zeros(4,1) Xima Yima zeros(4,1)];
|
---|
902 | set(handles.ListCoord,'Data',Coord)
|
---|
903 | set(handles.APPLY,'BackgroundColor',[1 0 1])
|
---|
904 | set(handles.CheckEnableMouse,'value',0); %desactivate mouse to avoid spurious points
|
---|
905 |
|
---|
906 | %------------------------------------------------------------------------
|
---|
907 | function MenuCreateGrid_Callback(hObject, eventdata, handles)
|
---|
908 | %------------------------------------------------------------------------
|
---|
909 | CalibData=get(handles.geometry_calib,'UserData');
|
---|
910 | Tinput=[];%default
|
---|
911 | if isfield(CalibData,'grid')
|
---|
912 | Tinput=CalibData.grid;
|
---|
913 | end
|
---|
914 | [T,CalibData.grid]=create_grid(Tinput);%display the GUI create_grid
|
---|
915 | set(handles.geometry_calib,'UserData',CalibData)
|
---|
916 |
|
---|
917 | %grid in phys space
|
---|
918 | Coord=get(handles.ListCoord,'Data');
|
---|
919 | Coord(1:size(T,1),1:3)=T;%update the existing list of phys coordinates from the GUI create_grid
|
---|
920 | set(handles.ListCoord,'Data',Coord)
|
---|
921 | set(handles.APPLY,'BackgroundColor',[1 0 1])
|
---|
922 | set(handles.CheckEnableMouse,'value',0); %desactivate mouse to avoid spurious points
|
---|
923 |
|
---|
924 | % -----------------------------------------------------------------------
|
---|
925 | % --- automatic grid dectection from local maxima of the images
|
---|
926 | function MenuDetectGrid_Callback(hObject, eventdata, handles)
|
---|
927 | %------------------------------------------------------------------------
|
---|
928 | %% read the four last point coordinates in pixels
|
---|
929 | Coord=get(handles.ListCoord,'Data');%read list of coordinates on geometry_calib
|
---|
930 | nbpoints=size(Coord,1); %nbre of calibration points
|
---|
931 | if nbpoints~=4
|
---|
932 | msgbox_uvmat('ERROR','four points must have be selected by the mouse to delimitate the phys grid area; the Ox axis will be defined by the two first points')
|
---|
933 | return
|
---|
934 | end
|
---|
935 | % corners_X=(Coord(end:-1:end-3,4)); %pixel absissa of the four corners
|
---|
936 | % corners_Y=(Coord(end:-1:end-3,5));
|
---|
937 | corners_X=(Coord(:,4)); %pixel absissa of the four corners
|
---|
938 | corners_Y=(Coord(:,5));
|
---|
939 |
|
---|
940 | %%%%%%
|
---|
941 | % corners_X=1000*[1.5415 1.7557 1.7539 1.5415]';
|
---|
942 | % corners_Y=1000*[1.1515 1.1509 1.3645 1.3639]';
|
---|
943 |
|
---|
944 | %reorder the last two points (the two first in the list) if needed
|
---|
945 | angles=angle((corners_X-corners_X(1))+1i*(corners_Y-corners_Y(1)));
|
---|
946 | if abs(angles(4)-angles(2))>abs(angles(3)-angles(2))
|
---|
947 | X_end=corners_X(4);
|
---|
948 | Y_end=corners_Y(4);
|
---|
949 | corners_X(4)=corners_X(3);
|
---|
950 | corners_Y(4)=corners_Y(3);
|
---|
951 | corners_X(3)=X_end;
|
---|
952 | corners_Y(3)=Y_end;
|
---|
953 | end
|
---|
954 |
|
---|
955 | %% initiate the grid in phys coordinates
|
---|
956 | CalibData=get(handles.geometry_calib,'UserData');%get information stored on the GUI geometry_calib
|
---|
957 | grid_input=[];%default
|
---|
958 | if isfield(CalibData,'grid')
|
---|
959 | grid_input=CalibData.grid;%retrieve the previously used grid
|
---|
960 | end
|
---|
961 | [T,CalibData.grid,CalibData.grid.CheckWhite,CalibData.grid.FilterWindow]=create_grid(grid_input,'detect_grid');%display the GUI create_grid, read the set of phys coordinates T
|
---|
962 | set(handles.geometry_calib,'UserData',CalibData)%store the phys grid parameters for later use
|
---|
963 | X=[CalibData.grid.x_0 CalibData.grid.x_1 CalibData.grid.x_0 CalibData.grid.x_1]';%corner absissa in the phys coordinates (cm)
|
---|
964 | Y=[CalibData.grid.y_0 CalibData.grid.y_0 CalibData.grid.y_1 CalibData.grid.y_1]';%corner ordinates in the phys coordinates (cm)
|
---|
965 |
|
---|
966 | %% read the current image, displayed in the GUI uvmat
|
---|
967 | huvmat=findobj(allchild(0),'Name','uvmat');
|
---|
968 | UvData=get(huvmat,'UserData');
|
---|
969 | A=UvData.Field.A;%currently displayed image
|
---|
970 | npxy=size(A);
|
---|
971 |
|
---|
972 | %% calculate transform matrices for plane projection: rectangle assumed to be viewed in perspective
|
---|
973 | % reference: http://alumni.media.mit.edu/~cwren/interpolator/ by Christopher R. Wren
|
---|
974 | B = [ X Y ones(size(X)) zeros(4,3) -X.*corners_X -Y.*corners_X ...
|
---|
975 | zeros(4,3) X Y ones(size(X)) -X.*corners_Y -Y.*corners_Y ];
|
---|
976 | B = reshape (B', 8 , 8 )';
|
---|
977 | D = [ corners_X , corners_Y ];
|
---|
978 | D = reshape (D', 8 , 1 );
|
---|
979 | l = (B' * B)\B' * D;
|
---|
980 | Amat = reshape([l(1:6)' 0 0 1 ],3,3)';
|
---|
981 | C = [l(7:8)' 1];
|
---|
982 |
|
---|
983 | %% transform grid image into 'phys' coordinates
|
---|
984 | GeometryCalib.CalibrationType='3D_linear';
|
---|
985 | GeometryCalib.fx_fy=[1 1];
|
---|
986 | GeometryCalib.Tx_Ty_Tz=[Amat(1,3) Amat(2,3) 1];
|
---|
987 | GeometryCalib.R=[Amat(1,1),Amat(1,2),0;Amat(2,1),Amat(2,2),0;C(1),C(2),0];
|
---|
988 | GeometryCalib.CoordUnit='cm';
|
---|
989 | path_uvmat=which('uvmat');% check the path detected for source file uvmat
|
---|
990 | path_UVMAT=fileparts(path_uvmat); %path to UVMAT
|
---|
991 | addpath(fullfile(path_UVMAT,'transform_field'))
|
---|
992 | Data.ListVarName={'Coord_y','Coord_x','A'};
|
---|
993 | Data.VarDimName={'Coord_y','Coord_x',{'Coord_y','Coord_x'}};
|
---|
994 | if ndims(A)==3
|
---|
995 | A=mean(A,3);
|
---|
996 | end
|
---|
997 | Data.A=A-min(min(A));
|
---|
998 | Data.Coord_y=[npxy(1)-0.5 0.5];
|
---|
999 | Data.Coord_x=[0.5 npxy(2)];
|
---|
1000 | Data.CoordUnit='pixel';
|
---|
1001 | Calib.GeometryCalib=GeometryCalib;
|
---|
1002 | DataOut=phys(Data,Calib);
|
---|
1003 | rmpath(fullfile(path_UVMAT,'transform_field'))
|
---|
1004 | Amod=DataOut.A;% current image expressed in 'phys' coord
|
---|
1005 | Rangx=DataOut.Coord_x;% x coordinates of first and last pixel centres in phys
|
---|
1006 | Rangy=DataOut.Coord_y;% y coordinates of first and last pixel centres in phys
|
---|
1007 | if CalibData.grid.CheckWhite
|
---|
1008 | Amod=double(Amod);%case of white grid markers: will look for image maxima
|
---|
1009 | else
|
---|
1010 | Amod=-double(Amod);%case of black grid markers: will look for image minima
|
---|
1011 | end
|
---|
1012 |
|
---|
1013 | %%%%%%filterfor i;proved detection of dots
|
---|
1014 | if ~isequal(CalibData.grid.FilterWindow,0)
|
---|
1015 | %definition of the cos shape matrix filter
|
---|
1016 | FilterBoxSize_x=CalibData.grid.FilterWindow;
|
---|
1017 | FilterBoxSize_y=CalibData.grid.FilterWindow;
|
---|
1018 | ix=1/2-FilterBoxSize_x/2:-1/2+FilterBoxSize_x/2;%
|
---|
1019 | iy=1/2-FilterBoxSize_y/2:-1/2+FilterBoxSize_y/2;%
|
---|
1020 | %del=np/3;
|
---|
1021 | %fct=exp(-(ix/del).^2);
|
---|
1022 | fct2_x=cos(ix/((FilterBoxSize_x-1)/2)*pi/2);
|
---|
1023 | fct2_y=cos(iy/((FilterBoxSize_y-1)/2)*pi/2);
|
---|
1024 | %Mfiltre=(ones(5,5)/5^2);
|
---|
1025 | Mfiltre=fct2_y'*fct2_x;
|
---|
1026 | Mfiltre=Mfiltre/(sum(sum(Mfiltre)));%normalize filter
|
---|
1027 |
|
---|
1028 | if ndims(Amod)==3
|
---|
1029 | Amod=filter2(Mfiltre,sum(Amod,3));%filter the input image, after summation on the color component (for color images)
|
---|
1030 | else
|
---|
1031 | Amod=filter2(Mfiltre,Amod);
|
---|
1032 | end
|
---|
1033 | end
|
---|
1034 | %%%%%%%%%%%%%%
|
---|
1035 |
|
---|
1036 |
|
---|
1037 | %% detection of local image extrema in each direction
|
---|
1038 | Dx=(Rangx(2)-Rangx(1))/(npxy(2)-1); %x mesh in real space
|
---|
1039 | Dy=(Rangy(2)-Rangy(1))/(npxy(1)-1); %y mesh in real space
|
---|
1040 | ind_range_x=ceil(abs(GeometryCalib.R(1,1)*CalibData.grid.Dx/3));% range of search of image ma around each point obtained by linear interpolation from the marked points
|
---|
1041 | ind_range_y=ceil(abs(GeometryCalib.R(2,2)*CalibData.grid.Dy/3));% range of search of image ma around each point obtained by linear interpolation from the marked points
|
---|
1042 | nbpoints=size(T,1);
|
---|
1043 | TIndex=ones(size(T));% image indices corresponding to point coordinates
|
---|
1044 | %look for image maxima around each expected grid point
|
---|
1045 | for ipoint=1:nbpoints
|
---|
1046 | i0=1+round((T(ipoint,1)-Rangx(1))/Dx);% x index of the expected point in the phys image Amod
|
---|
1047 | j0=1+round((T(ipoint,2)-Rangy(1))/Dy);% y index of the expected point in the phys image Amod
|
---|
1048 | j0min=max(j0-ind_range_y,1);% min y index selected for the subimage (cut at the edge to avoid index <1)
|
---|
1049 | j0max=min(j0+ind_range_y,size(Amod,1));% max y index selected for the subimage (cut at the edge to avoid index > size)
|
---|
1050 | i0min=max(i0-ind_range_x,1);% min x index selected for the subimage (cut at the edge to avoid index <1)
|
---|
1051 | i0max=min(i0+ind_range_x,size(Amod,2));% max x index selected for the subimage (cut at the edge to avoid index > size)
|
---|
1052 | Asub=Amod(j0min:j0max,i0min:i0max); %subimage used to find brigthness extremum
|
---|
1053 | x_profile=sum(Asub,1);%profile of subimage summed over y
|
---|
1054 | y_profile=sum(Asub,2);%profile of subimage summed over x
|
---|
1055 |
|
---|
1056 | [tild,ind_x_max]=max(x_profile);% index of max for the x profile
|
---|
1057 | [tild,ind_y_max]=max(y_profile);% index of max for the y profile
|
---|
1058 | %sub-pixel improvement using moments
|
---|
1059 | x_shift=0;
|
---|
1060 | y_shift=0;
|
---|
1061 | if ind_x_max+2<=numel(x_profile) && ind_x_max-2>=1
|
---|
1062 | Atop=x_profile(ind_x_max-2:ind_x_max+2);% extract x profile around the max
|
---|
1063 | x_shift=sum(Atop.*[-2 -1 0 1 2])/sum(Atop);
|
---|
1064 | end
|
---|
1065 | if ind_y_max+2<=numel(y_profile) && ind_y_max-2>=1
|
---|
1066 | Atop=y_profile(ind_y_max-2:ind_y_max+2);% extract y profile around the max
|
---|
1067 | y_shift=sum(Atop.*[-2 -1 0 1 2]')/sum(Atop);
|
---|
1068 | end
|
---|
1069 | %%%%
|
---|
1070 | % if ipoint==9
|
---|
1071 | % figure(11)
|
---|
1072 | % imagesc(Asub)
|
---|
1073 | % figure(12)
|
---|
1074 | % plot(x_profile,'r')
|
---|
1075 | % hold on
|
---|
1076 | % plot(y_profile,'b')
|
---|
1077 | % grid on
|
---|
1078 | % end
|
---|
1079 | %%%%
|
---|
1080 | TIndex(ipoint,1)=(i0min+ind_x_max-1+x_shift);% x position of the maximum (in index of Amod)
|
---|
1081 | TIndex(ipoint,2)=(j0min+ind_y_max-1+y_shift);% y position of the maximum (in index of Amod)
|
---|
1082 | end
|
---|
1083 | Tmod(:,1)=(TIndex(:,1)-1)*Dx+Rangx(1);
|
---|
1084 | Tmod(:,2)=(TIndex(:,2)-1)*Dy+Rangy(1);
|
---|
1085 | %Tmod=T(:,(1:2))+Delta;% 'phys' coordinates of the detected points
|
---|
1086 | [Xpx,Ypx]=px_XYZ(GeometryCalib,Tmod(:,1),Tmod(:,2));% image coordinates of the detected points
|
---|
1087 | Coord=[T Xpx Ypx zeros(size(T,1),1)];
|
---|
1088 | set(handles.ListCoord,'Data',Coord)
|
---|
1089 | PLOT_Callback(hObject, eventdata, handles)
|
---|
1090 | set(handles.APPLY,'BackgroundColor',[1 0 1])
|
---|
1091 | set(handles.CheckEnableMouse,'value',0); %desactivate mouse to avoid spurious points
|
---|
1092 |
|
---|
1093 |
|
---|
1094 | %-----------------------------------------------------------------------
|
---|
1095 | function MenuTranslatePoints_Callback(hObject, eventdata, handles)
|
---|
1096 | %-----------------------------------------------------------------------
|
---|
1097 | %hcalib=get(handles.calib_type,'parent');%handles of the GUI geometry_calib
|
---|
1098 | CalibData=get(handles.geometry_calib,'UserData');
|
---|
1099 | Tinput=[];%default
|
---|
1100 | if isfield(CalibData,'translate')
|
---|
1101 | Tinput=CalibData.translate;
|
---|
1102 | end
|
---|
1103 | T=translate_points(Tinput);%display translate_points GUI and get shift parameters
|
---|
1104 | CalibData.translate=T;
|
---|
1105 | set(handles.geometry_calib,'UserData',CalibData)
|
---|
1106 | %translation
|
---|
1107 | Coord=get(handles.ListCoord,'Data');
|
---|
1108 | Coord(:,1)=T(1)+Coord(:,1);
|
---|
1109 | Coord(:,2)=T(2)+Coord(:,2);
|
---|
1110 | Coord(:,3)=T(3)+Coord(:,3);
|
---|
1111 | set(handles.ListCoord,'Data',Coord);
|
---|
1112 | set(handles.APPLY,'BackgroundColor',[1 0 1])
|
---|
1113 |
|
---|
1114 | % --------------------------------------------------------------------
|
---|
1115 | function MenuRotatePoints_Callback(hObject, eventdata, handles)
|
---|
1116 | %hcalib=get(handles.calib_type,'parent');%handles of the GUI geometry_calib
|
---|
1117 | CalibData=get(handles.geometry_calib,'UserData');
|
---|
1118 | Tinput=[];%default
|
---|
1119 | if isfield(CalibData,'rotate')
|
---|
1120 | Tinput=CalibData.rotate;
|
---|
1121 | end
|
---|
1122 | T=rotate_points(Tinput);%display rotate_points GUI to introduce rotation parameters
|
---|
1123 | CalibData.rotate=T;
|
---|
1124 | set(handles.geometry_calib,'UserData',CalibData)
|
---|
1125 | %-----------------------------------------------------
|
---|
1126 | %rotation
|
---|
1127 | Phi=T(1);
|
---|
1128 | O_x=0;%default
|
---|
1129 | O_y=0;%default
|
---|
1130 | if numel(T)>=2
|
---|
1131 | O_x=T(2);%default
|
---|
1132 | end
|
---|
1133 | if numel(T)>=3
|
---|
1134 | O_y=T(3);%default
|
---|
1135 | end
|
---|
1136 | Coord=get(handles.ListCoord,'Data');
|
---|
1137 | r1=cos(pi*Phi/180);
|
---|
1138 | r2=-sin(pi*Phi/180);
|
---|
1139 | r3=sin(pi*Phi/180);
|
---|
1140 | r4=cos(pi*Phi/180);
|
---|
1141 | x=Coord(:,1)-O_x;
|
---|
1142 | y=Coord(:,2)-O_y;
|
---|
1143 | Coord(:,1)=r1*x+r2*y;
|
---|
1144 | Coord(:,2)=r3*x+r4*y;
|
---|
1145 | set(handles.ListCoord,'Data',Coord)
|
---|
1146 | set(handles.APPLY,'BackgroundColor',[1 0 1])
|
---|
1147 |
|
---|
1148 | % --------------------------------------------------------------------
|
---|
1149 | function MenuFlip_x_Callback(hObject, eventdata, handles)
|
---|
1150 | Coord=get(handles.ListCoord,'Data');
|
---|
1151 | Coord(:,1)=-Coord(:,1);
|
---|
1152 | set(handles.ListCoord,'Data',Coord)
|
---|
1153 |
|
---|
1154 | % --------------------------------------------------------------------
|
---|
1155 | function MenuFlip_y_Callback(hObject, eventdata, handles)
|
---|
1156 | Coord=get(handles.ListCoord,'Data');
|
---|
1157 | Coord(:,2)=-Coord(:,2);
|
---|
1158 | set(handles.ListCoord,'Data',Coord)
|
---|
1159 |
|
---|
1160 | % --------------------------------------------------------------------
|
---|
1161 | function MenuImportPoints_Callback(hObject, eventdata, handles)
|
---|
1162 | fileinput=browse_xml(hObject, eventdata, handles);
|
---|
1163 | if isempty(fileinput)
|
---|
1164 | return
|
---|
1165 | end
|
---|
1166 | [s,errormsg]=imadoc2struct(fileinput,'GeometryCalib');
|
---|
1167 | if ~isfield(s,'GeometryCalib')
|
---|
1168 | msgbox_uvmat('ERROR','invalid input file: no geometry_calib data')
|
---|
1169 | return
|
---|
1170 | end
|
---|
1171 | GeometryCalib=s.GeometryCalib;
|
---|
1172 | if ~(isfield(GeometryCalib,'SourceCalib')&&isfield(GeometryCalib.SourceCalib,'PointCoord'))
|
---|
1173 | msgbox_uvmat('ERROR','invalid input file: no calibration points')
|
---|
1174 | return
|
---|
1175 | end
|
---|
1176 | Coord=GeometryCalib.SourceCalib.PointCoord;
|
---|
1177 | Coord=[Coord zeros(size(Coord,1),1)];
|
---|
1178 | set(handles.ListCoord,'Data',Coord)
|
---|
1179 | PLOT_Callback(handles.geometry_calib, [], handles)
|
---|
1180 | set(handles.APPLY,'BackgroundColor',[1 0 1])
|
---|
1181 | set(handles.CheckEnableMouse,'value',0); %desactivate mouse to avoid modifications by default
|
---|
1182 |
|
---|
1183 | % -----------------------------------------------------------------------
|
---|
1184 | function MenuImportIntrinsic_Callback(hObject, eventdata, handles)
|
---|
1185 | %------------------------------------------------------------------------
|
---|
1186 | fileinput=browse_xml(hObject, eventdata, handles);
|
---|
1187 | if isempty(fileinput)
|
---|
1188 | return
|
---|
1189 | end
|
---|
1190 | [s,errormsg]=imadoc2struct(fileinput,'GeometryCalib');
|
---|
1191 | GeometryCalib=s.GeometryCalib;
|
---|
1192 | display_intrinsic(GeometryCalib,handles)
|
---|
1193 |
|
---|
1194 | % -----------------------------------------------------------------------
|
---|
1195 | function MenuImportAll_Callback(hObject, eventdata, handles)
|
---|
1196 | %------------------------------------------------------------------------
|
---|
1197 | fileinput=browse_xml(hObject, eventdata, handles);
|
---|
1198 | if ~isempty(fileinput)
|
---|
1199 | loadfile(handles,fileinput)
|
---|
1200 | end
|
---|
1201 | set(handles.CheckEnableMouse,'value',0); %desactivate mouse to avoid modifications by default
|
---|
1202 |
|
---|
1203 | % -----------------------------------------------------------------------
|
---|
1204 | % --- Executes on menubar option Import/Grid file: introduce previous grid files
|
---|
1205 | function MenuGridFile_Callback(hObject, eventdata, handles)
|
---|
1206 | % -----------------------------------------------------------------------
|
---|
1207 | inputfile=browse_xml(hObject, eventdata, handles);
|
---|
1208 | listfile=get(handles.ListCoordFiles,'String');
|
---|
1209 | if isequal(listfile,{''})
|
---|
1210 | listfile={inputfile};
|
---|
1211 | else
|
---|
1212 | listfile=[listfile;{inputfile}];%update the list of coord files
|
---|
1213 | end
|
---|
1214 | set(handles.ListCoordFiles,'String',listfile);
|
---|
1215 |
|
---|
1216 |
|
---|
1217 | %------------------------------------------------------------------------
|
---|
1218 | function fileinput=browse_xml(hObject, eventdata, handles)
|
---|
1219 | %------------------------------------------------------------------------
|
---|
1220 | fileinput=[];%default
|
---|
1221 | oldfile=''; %default
|
---|
1222 | UserData=get(handles.geometry_calib,'UserData');
|
---|
1223 | if isfield(UserData,'XmlInputFile')
|
---|
1224 | oldfile=UserData.XmlInputFile;
|
---|
1225 | end
|
---|
1226 | [FileName, PathName, filterindex] = uigetfile( ...
|
---|
1227 | {'*.xml;*.mat', ' (*.xml,*.mat)';
|
---|
1228 | '*.xml', '.xml files '; ...
|
---|
1229 | '*.mat', '.mat matlab files '}, ...
|
---|
1230 | 'Pick a file',oldfile);
|
---|
1231 | fileinput=[PathName FileName];%complete file name
|
---|
1232 | testblank=findstr(fileinput,' ');%look for blanks
|
---|
1233 | if ~isempty(testblank)
|
---|
1234 | msgbox_uvmat('ERROR','forbidden input file name or path: no blank character allowed')
|
---|
1235 | return
|
---|
1236 | end
|
---|
1237 | sizf=size(fileinput);
|
---|
1238 | if (~ischar(fileinput)||~isequal(sizf(1),1)),return;end
|
---|
1239 | UserData.XmlInputFile=fileinput;
|
---|
1240 | set(handles.geometry_calib,'UserData',UserData)%record current file foer further use of browser
|
---|
1241 |
|
---|
1242 | % -----------------------------------------------------------------------
|
---|
1243 | function Heading=loadfile(handles,fileinput)
|
---|
1244 | %------------------------------------------------------------------------
|
---|
1245 | Heading=[];%default
|
---|
1246 | [s,errormsg]=imadoc2struct(fileinput,'Heading','GeometryCalib');
|
---|
1247 | if ~isempty(errormsg)
|
---|
1248 | msgbox_uvmat('ERROR',errormsg)
|
---|
1249 | return
|
---|
1250 | end
|
---|
1251 | if ~isempty(s.Heading)
|
---|
1252 | Heading=s.Heading;
|
---|
1253 | end
|
---|
1254 |
|
---|
1255 | GeometryCalib=s.GeometryCalib;
|
---|
1256 | fx=1;fy=1;Cx=0;Cy=0;kc=0; %default
|
---|
1257 | CoordCell={};
|
---|
1258 | Tabchar={};%default
|
---|
1259 | val_cal=1;%default
|
---|
1260 | if ~isempty(GeometryCalib)
|
---|
1261 | % choose the calibration option
|
---|
1262 | if isfield(GeometryCalib,'CalibrationType')
|
---|
1263 | calib_list=get(handles.calib_type,'String');
|
---|
1264 | for ilist=1:numel(calib_list)
|
---|
1265 | if strcmp(calib_list{ilist},GeometryCalib.CalibrationType)
|
---|
1266 | val_cal=ilist;
|
---|
1267 | break
|
---|
1268 | end
|
---|
1269 | end
|
---|
1270 | end
|
---|
1271 | display_intrinsic(GeometryCalib,handles)%intrinsic param
|
---|
1272 | %extrinsic param
|
---|
1273 | if isfield(GeometryCalib,'Tx_Ty_Tz')
|
---|
1274 | Tx_Ty_Tz=GeometryCalib.Tx_Ty_Tz;
|
---|
1275 | set(handles.Tx,'String',num2str(GeometryCalib.Tx_Ty_Tz(1),4))
|
---|
1276 | set(handles.Ty,'String',num2str(GeometryCalib.Tx_Ty_Tz(2),4))
|
---|
1277 | set(handles.Tz,'String',num2str(GeometryCalib.Tx_Ty_Tz(3),4))
|
---|
1278 | end
|
---|
1279 | if isfield(GeometryCalib,'omc')
|
---|
1280 | set(handles.Phi,'String',num2str(GeometryCalib.omc(1),4))
|
---|
1281 | set(handles.Theta,'String',num2str(GeometryCalib.omc(2),4))
|
---|
1282 | set(handles.Psi,'String',num2str(GeometryCalib.omc(3),4))
|
---|
1283 | end
|
---|
1284 | if isfield(GeometryCalib,'SourceCalib')&& isfield(GeometryCalib.SourceCalib,'PointCoord')
|
---|
1285 | calib=GeometryCalib.SourceCalib.PointCoord;
|
---|
1286 | Coord=[calib zeros(size(calib,1),1)];
|
---|
1287 | set(handles.ListCoord,'Data',Coord)
|
---|
1288 | end
|
---|
1289 | PLOT_Callback(handles.geometry_calib, [], handles)
|
---|
1290 | set(handles.APPLY,'BackgroundColor',[1 0 1])
|
---|
1291 | end
|
---|
1292 | set(handles.calib_type,'Value',val_cal)
|
---|
1293 |
|
---|
1294 | if isempty(CoordCell)% allow mouse action by default in the absence of input points
|
---|
1295 | set(handles.CheckEnableMouse,'Value',1)
|
---|
1296 | set(handles.CheckEnableMouse,'BackgroundColor',[1 1 0])
|
---|
1297 | else % does not allow mouse action by default in the presence of input points
|
---|
1298 | set(handles.CheckEnableMouse,'Value',0)
|
---|
1299 | set(handles.CheckEnableMouse,'BackgroundColor',[0.7 0.7 0.7])
|
---|
1300 | end
|
---|
1301 |
|
---|
1302 | %------------------------------------------------------------------------
|
---|
1303 | %---display calibration intrinsic parameters
|
---|
1304 | function display_intrinsic(GeometryCalib,handles)
|
---|
1305 | %------------------------------------------------------------------------
|
---|
1306 | fx=[];
|
---|
1307 | fy=[];
|
---|
1308 | if isfield(GeometryCalib,'fx_fy')
|
---|
1309 | fx=GeometryCalib.fx_fy(1);
|
---|
1310 | fy=GeometryCalib.fx_fy(2);
|
---|
1311 | end
|
---|
1312 | Cx_Cy=[0 0];%default
|
---|
1313 | if isfield(GeometryCalib,'Cx_Cy')
|
---|
1314 | Cx_Cy=GeometryCalib.Cx_Cy;
|
---|
1315 | end
|
---|
1316 | kc=0;
|
---|
1317 | if isfield(GeometryCalib,'kc')
|
---|
1318 | kc=GeometryCalib.kc; %* GeometryCalib.focal*GeometryCalib.focal;
|
---|
1319 | end
|
---|
1320 | set(handles.fx,'String',num2str(fx,5))
|
---|
1321 | set(handles.fy,'String',num2str(fy,5))
|
---|
1322 | set(handles.Cx,'String',num2str(Cx_Cy(1),'%1.1f'))
|
---|
1323 | set(handles.Cy,'String',num2str(Cx_Cy(2),'%1.1f'))
|
---|
1324 | set(handles.kc,'String',num2str(kc,'%1.4f'))
|
---|
1325 |
|
---|
1326 | %------------------------------------------------------------------------
|
---|
1327 | % ---display calibration extrinsic parameters
|
---|
1328 | function display_extrinsic(GeometryCalib,handles)
|
---|
1329 | %------------------------------------------------------------------------
|
---|
1330 | set(handles.Tx,'String',num2str(GeometryCalib.Tx_Ty_Tz(1),4))
|
---|
1331 | set(handles.Ty,'String',num2str(GeometryCalib.Tx_Ty_Tz(2),4))
|
---|
1332 | set(handles.Tz,'String',num2str(GeometryCalib.Tx_Ty_Tz(3),4))
|
---|
1333 | set(handles.Phi,'String',num2str(GeometryCalib.omc(1),4))
|
---|
1334 | set(handles.Theta,'String',num2str(GeometryCalib.omc(2),4))
|
---|
1335 | set(handles.Psi,'String',num2str(GeometryCalib.omc(3),4))
|
---|
1336 |
|
---|
1337 | %------------------------------------------------------------------------
|
---|
1338 | % --- executes when user attempts to close geometry_calib.
|
---|
1339 | function geometry_calib_CloseRequestFcn(hObject, eventdata, handles)
|
---|
1340 | %------------------------------------------------------------------------
|
---|
1341 | delete(hObject); % closes the figure
|
---|
1342 |
|
---|
1343 | %------------------------------------------------------------------------
|
---|
1344 | % --- executes on button press in PLOT.
|
---|
1345 | %------------------------------------------------------------------------
|
---|
1346 | function PLOT_Callback(hObject, eventdata, handles)
|
---|
1347 | huvmat=findobj(allchild(0),'Name','uvmat');%find the current uvmat interface handle
|
---|
1348 | hhuvmat=guidata(huvmat); %handles of GUI elements in uvmat
|
---|
1349 | h_menu_coord=findobj(huvmat,'Tag','TransformName');
|
---|
1350 | menu=get(h_menu_coord,'String');
|
---|
1351 | choice=get(h_menu_coord,'Value');
|
---|
1352 | option='';
|
---|
1353 | if iscell(menu)
|
---|
1354 | option=menu{choice};
|
---|
1355 | end
|
---|
1356 | Coord=get(handles.ListCoord,'Data');
|
---|
1357 | if ~isempty(Coord)
|
---|
1358 | if isequal(option,'phys')
|
---|
1359 | Coord_plot=Coord(:,1:3);
|
---|
1360 | elseif isempty(option);%optionoption,'px')||isequal(option,'')
|
---|
1361 | Coord_plot=Coord(:,4:5);
|
---|
1362 | else
|
---|
1363 | msgbox_uvmat('ERROR','the choice in menu_coord of uvmat must be blank or phys ')
|
---|
1364 | end
|
---|
1365 | end
|
---|
1366 |
|
---|
1367 | set(0,'CurrentFigure',huvmat)
|
---|
1368 | set(huvmat,'CurrentAxes',hhuvmat.PlotAxes)
|
---|
1369 | hh=findobj('Tag','calib_points');
|
---|
1370 | if ~isempty(Coord) && isempty(hh)
|
---|
1371 | hh=line(Coord_plot(:,1),Coord_plot(:,2),'Color','m','Tag','calib_points','LineStyle','none','Marker','+','MarkerSize',10);
|
---|
1372 | elseif isempty(Coord)%empty list of points, suppress the plot
|
---|
1373 | delete(hh)
|
---|
1374 | else
|
---|
1375 | set(hh,'XData',Coord_plot(:,1))
|
---|
1376 | set(hh,'YData',Coord_plot(:,2))
|
---|
1377 | end
|
---|
1378 | pause(.1)
|
---|
1379 | figure(handles.geometry_calib)
|
---|
1380 |
|
---|
1381 | %------------------------------------------------------------------------
|
---|
1382 | % --- Executes on button press in Copy: display Coord on the Matlab work space
|
---|
1383 | %------------------------------------------------------------------------
|
---|
1384 | function Copy_Callback(hObject, eventdata, handles)
|
---|
1385 | global Coord
|
---|
1386 | evalin('base','global Coord')%make CurData global in the workspace
|
---|
1387 | Coord=get(handles.ListCoord,'Data');
|
---|
1388 | display('coordinates of calibration points (phys,px,marker) :')
|
---|
1389 | evalin('base','Coord') %display CurData in the workspace
|
---|
1390 | commandwindow; %brings the Matlab command window to the front
|
---|
1391 |
|
---|
1392 | %------------------------------------------------------------------------
|
---|
1393 | % --- Executes when selected cell(s) is changed in ListCoord.
|
---|
1394 | %------------------------------------------------------------------------
|
---|
1395 | function ListCoord_CellSelectionCallback(hObject, eventdata, handles)
|
---|
1396 | if ~isempty(eventdata.Indices)
|
---|
1397 | iline=eventdata.Indices(1);% selected line number
|
---|
1398 | set(handles.CoordLine,'String',num2str(iline))
|
---|
1399 | Data=get(handles.ListCoord,'Data');
|
---|
1400 | update_calib_marker(Data(iline,:))
|
---|
1401 | end
|
---|
1402 |
|
---|
1403 | %------------------------------------------------------------------------
|
---|
1404 | % --- Executes when entered data in editable cell(s) in ListCoord.
|
---|
1405 | %------------------------------------------------------------------------
|
---|
1406 | function ListCoord_CellEditCallback(hObject, eventdata, handles)
|
---|
1407 |
|
---|
1408 | Input=str2num(eventdata.EditData);%pasted input
|
---|
1409 | Coord=get(handles.ListCoord,'Data');
|
---|
1410 | iline=eventdata.Indices(1);% selected line number
|
---|
1411 | if size(Coord,1)<iline+numel(Input)
|
---|
1412 | Coord=[Coord ; zeros(iline+numel(Input)-size(Coord,1),6)];% append zeros to fit the new column
|
---|
1413 | end
|
---|
1414 | Coord(iline:iline+numel(Input)-1,eventdata.Indices(2))=Input';
|
---|
1415 | set(handles.ListCoord,'Data',Coord)
|
---|
1416 | PLOT_Callback(hObject, eventdata, handles)
|
---|
1417 |
|
---|
1418 | %------------------------------------------------------------------------
|
---|
1419 | % --- 'key_press_fcn:' function activated when a key is pressed on the keyboard
|
---|
1420 | %------------------------------------------------------------------------
|
---|
1421 | function ListCoord_KeyPressFcn(hObject, eventdata, handles)
|
---|
1422 | iline=str2num(get(handles.CoordLine,'String'));
|
---|
1423 | xx=double(get(handles.geometry_calib,'CurrentCharacter'));%get the keyboard character
|
---|
1424 | if ismember(xx,[28 29 30 31])% directional arrow
|
---|
1425 | Coord=get(handles.ListCoord,'Data');
|
---|
1426 | switch xx
|
---|
1427 | case 30 % arrow upward
|
---|
1428 | iline=iline-1;
|
---|
1429 | case 31% arrow downward
|
---|
1430 | iline=iline+1;
|
---|
1431 | end
|
---|
1432 | if iline>=1 && iline<=size(Coord,1)
|
---|
1433 | set(handles.CoordLine,'String',num2str(iline))
|
---|
1434 | update_calib_marker(Coord(iline,1:5))% show the point corresponding to the selected line
|
---|
1435 | end
|
---|
1436 | else
|
---|
1437 | set(handles.APPLY,'BackgroundColor',[1 0 1])% paint APPLY in magenta to indicate that the table content has be modified
|
---|
1438 | if ismember(xx,[127 31])% delete, or downward
|
---|
1439 | Coord=get(handles.ListCoord,'Data');
|
---|
1440 | iline=str2double(get(handles.CoordLine,'String'));
|
---|
1441 | if isequal(xx, 31)
|
---|
1442 | if isequal(iline,size(Coord,1))% arrow downward
|
---|
1443 | Coord=[Coord;zeros(1,size(Coord,2))];
|
---|
1444 | end
|
---|
1445 | else
|
---|
1446 | Coord(iline,:)=[];% suppress the current line
|
---|
1447 | end
|
---|
1448 | set(handles.ListCoord,'Data',Coord);
|
---|
1449 | end
|
---|
1450 | end
|
---|
1451 |
|
---|
1452 | %------------------------------------------------------------------------
|
---|
1453 | % --- update the plot of calibration points
|
---|
1454 | %------------------------------------------------------------------------
|
---|
1455 | % draw a circle around the point defined by the input coordinates Coord as given by line in the table Listcoord
|
---|
1456 | function update_calib_marker(Coord)
|
---|
1457 |
|
---|
1458 | %% read config on uvmat
|
---|
1459 | huvmat=findobj(allchild(0),'Name','uvmat');%find the current uvmat interface handle
|
---|
1460 | hhuvmat=guidata(huvmat);
|
---|
1461 | hhh=findobj(hhuvmat.PlotAxes,'Tag','calib_marker');
|
---|
1462 | if numel(Coord)<5
|
---|
1463 | if ~isempty(hhh)
|
---|
1464 | delete(hhh)%delete the circle marker in case of no valid input
|
---|
1465 | end
|
---|
1466 | return
|
---|
1467 | end
|
---|
1468 | menu=get(hhuvmat.TransformName,'String');
|
---|
1469 | choice=get(hhuvmat.TransformName,'Value');
|
---|
1470 | option='';
|
---|
1471 | if iscell(menu)
|
---|
1472 | option=menu{choice};
|
---|
1473 | end
|
---|
1474 |
|
---|
1475 | %% read appropriate coordinates (px or phys) in the table ListCoord
|
---|
1476 | if isequal(option,'phys') % use phys coord
|
---|
1477 | XCoord=Coord(1);
|
---|
1478 | YCoord=Coord(2);
|
---|
1479 | elseif isempty(option)% use coord in pixels
|
---|
1480 | XCoord=Coord(4);
|
---|
1481 | YCoord=Coord(5);
|
---|
1482 | else
|
---|
1483 | msgbox_uvmat('ERROR','the choice in menu_coord of uvmat must be blank or phys ')
|
---|
1484 | return
|
---|
1485 | end
|
---|
1486 |
|
---|
1487 | %% adjust the plot limits if needed
|
---|
1488 | xlim=get(hhuvmat.PlotAxes,'XLim');
|
---|
1489 | ylim=get(hhuvmat.PlotAxes,'YLim');
|
---|
1490 | ind_range=max(abs(xlim(2)-xlim(1)),abs(ylim(end)-ylim(1)))/25;%defines the size of the circle marker
|
---|
1491 | check_xlim=0;
|
---|
1492 | if XCoord>xlim(2)
|
---|
1493 | xlim=xlim+XCoord-xlim(2)+ind_range;% translate plot limit
|
---|
1494 | check_xlim=1;
|
---|
1495 | elseif XCoord<xlim(1)
|
---|
1496 | xlim=xlim-XCoord+xlim(1)-ind_range;% translate plot limit
|
---|
1497 | check_xlim=1;
|
---|
1498 | end
|
---|
1499 | if check_xlim
|
---|
1500 | set(hhuvmat.PlotAxes,'XLim',xlim);
|
---|
1501 | set(hhuvmat.num_MaxX,'String',num2str(xlim(2)));
|
---|
1502 | set(hhuvmat.num_MinX,'String',num2str(xlim(1)));
|
---|
1503 | end
|
---|
1504 | check_ylim=0;
|
---|
1505 | if YCoord>ylim(2)
|
---|
1506 | ylim=ylim+YCoord-ylim(2)+ind_range;% translate plot limit
|
---|
1507 | check_ylim=1;
|
---|
1508 | elseif YCoord<ylim(1)
|
---|
1509 | ylim=ylim-YCoord+ylim(1)-ind_range;% translate plot limit
|
---|
1510 | check_ylim=1;
|
---|
1511 | end
|
---|
1512 | if check_ylim
|
---|
1513 | set(hhuvmat.PlotAxes,'YLim',ylim);
|
---|
1514 | set(hhuvmat.num_MaxY,'String',num2str(ylim(2)));
|
---|
1515 | set(hhuvmat.num_MinY,'String',num2str(ylim(1)));
|
---|
1516 | end
|
---|
1517 |
|
---|
1518 | %% plot a circle around the selected point
|
---|
1519 | if isempty(hhh)
|
---|
1520 | set(0,'CurrentFig',huvmat)
|
---|
1521 | set(huvmat,'CurrentAxes',hhuvmat.PlotAxes)
|
---|
1522 | rectangle('Curvature',[1 1],...
|
---|
1523 | 'Position',[XCoord-ind_range/2 YCoord-ind_range/2 ind_range ind_range],'EdgeColor','m',...
|
---|
1524 | 'LineStyle','-','Tag','calib_marker');
|
---|
1525 | else
|
---|
1526 | set(hhh,'Position',[XCoord-ind_range/2 YCoord-ind_range/2 ind_range ind_range])
|
---|
1527 | end
|
---|
1528 |
|
---|
1529 | %------------------------------------------------------------------------
|
---|
1530 | % --- Executes on button press in ClearPoint: remove the selected line in the table Coord
|
---|
1531 | %------------------------------------------------------------------------
|
---|
1532 | function ClearPoint_Callback(hObject, eventdata, handles)
|
---|
1533 |
|
---|
1534 | Coord=get(handles.ListCoord,'Data');
|
---|
1535 | iline=str2num(get(handles.CoordLine,'String'));
|
---|
1536 | if isempty(iline)
|
---|
1537 | msgbox_uvmat('WARNING','no line suppressed, select a line in the table')
|
---|
1538 | else
|
---|
1539 | answer=msgbox_uvmat('INPUT_Y-N',['suppress line ' num2str(iline) '?']);
|
---|
1540 | if isequal(answer,'Yes')
|
---|
1541 | Coord(iline,:)=[];
|
---|
1542 | set(handles.APPLY,'BackgroundColor',[1 0 1])
|
---|
1543 | set(handles.ListCoord,'Data',Coord);
|
---|
1544 | set(handles.CoordLine,'String','')
|
---|
1545 | PLOT_Callback(hObject,eventdata,handles)
|
---|
1546 | update_calib_marker([]);%remove circle marker
|
---|
1547 | end
|
---|
1548 | end
|
---|
1549 |
|
---|
1550 |
|
---|
1551 |
|
---|