1 | %'civ': function associated with the interface 'civ.fig' for PIV, spline interpolation and stereo PIV (patch) |
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2 | %------------------------------------------------------------------------ |
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3 | % provides an interface for the software CIVx |
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4 | % function varargout = civ(varargin) |
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5 | % provides an interface for the software CIVx |
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6 | % |
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7 | %AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA |
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8 | % Copyright Joel Sommeria, 2008, LEGI / CNRS-UJF-INPG, sommeria@coriolis-legi.org. |
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9 | %AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA |
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10 | % This file is part of the toolbox UVMAT. |
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11 | % |
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12 | % UVMAT is free software; you can redistribute it and/or modify |
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13 | % it under the terms of the GNU General Public License as published by |
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14 | % the Free Software Foundation; either version 2 of the License, or |
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15 | % (at your option) any later version. |
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16 | % |
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17 | % UVMAT is distributed in the hope that it will be useful, |
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18 | % but WITHOUT ANY WARRANTY; without even the implied warranty of |
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19 | % MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the |
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20 | % GNU General Public License (file UVMAT/COPYING.txt) for more details. |
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21 | %AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA |
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22 | function varargout = civ(varargin) |
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23 | |
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24 | % Last Modified by GUIDE v2.5 10-Jan-2010 22:04:45 |
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25 | % Begin initialization code - DO NOT EDIT |
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26 | gui_Singleton = 1; |
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27 | gui_State = struct('gui_Name', mfilename, ... |
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28 | 'gui_Singleton', gui_Singleton, ... |
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29 | 'gui_OpeningFcn', @civ_OpeningFcn, ... |
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30 | 'gui_OutputFcn', @civ_OutputFcn, ... |
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31 | 'gui_LayoutFcn', [] , ... |
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32 | 'gui_Callback', []); |
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33 | if nargin && ischar(varargin{1}) |
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34 | gui_State.gui_Callback = str2func(varargin{1}); |
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35 | end |
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36 | |
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37 | if nargout |
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38 | [varargout{1:nargout}] = gui_mainfcn(gui_State, varargin{:}); |
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39 | else |
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40 | gui_mainfcn(gui_State, varargin{:}); |
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41 | end |
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42 | % End initialization code - DO NOT EDIT |
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43 | |
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44 | %------------------------------------------------------------------------ |
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45 | % --- Executes just before civ is made visible. |
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46 | function civ_OpeningFcn(hObject, eventdata, handles, varargin) |
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47 | %------------------------------------------------------------------------ |
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48 | % This function has no output args, see OutputFcn. |
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49 | % hObject handle to figure |
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50 | % eventdata reserved - to be defined in a future version of MATLAB |
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51 | % handles structure with handles and user data (see GUIDATA) |
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52 | % varargin command line arguments to civ (see VARARGIN) |
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53 | global test_batch patch_new_exe%=1 if patch processing available |
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54 | %filebase: root name |
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55 | %nom_type: nomencalture used ('png_old','_i_j'...) |
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56 | %list of field numbers to process |
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57 | %subdir: subdirectory of the opened netcdf file |
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58 | %ind_opening: operation number advised for beginning (1=civ1,2=fix1,3=patch1,4=civ2,5=fix2,6=patch2), |
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59 | %ind_a_opening ind_b_opening chosen pair from the opened netcdf file |
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60 | % Choose default command line output for civ |
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61 | handles.output = hObject; |
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62 | % Update handles structure |
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63 | guidata(hObject, handles); |
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64 | |
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65 | %default initial parameters |
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66 | filebase=''; % root file name ('filebase'.civ) |
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67 | nom_type=[]; % nomenclature type |
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68 | ext=[]; |
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69 | testall=0; |
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70 | browse=[]; |
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71 | |
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72 | %load the initial parameters if the interface is started from uvmat |
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73 | if ~isempty(varargin)% the interface is opened from uvmat |
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74 | varcell=varargin{1}; |
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75 | filebase=varcell{1}; |
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76 | nom_type_read=varcell{2}; |
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77 | num1=varcell{3}; |
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78 | num2=varcell{4}; |
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79 | num_a=varcell{5}; |
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80 | num_b=varcell{6}; |
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81 | subdir=varcell{7}; |
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82 | ind_opening=varcell{8}; |
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83 | ext=varcell{11}; |
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84 | else |
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85 | num1=1; % set of field i numbers |
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86 | num2=2; % set of field i numbers |
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87 | num_a=1; % set of field j numbers (fields a) |
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88 | num_b=1; % second set of field j numbers (fields b) |
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89 | subdir='A'; % subdir for the netcdf result files |
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90 | ind_opening=1; % proposed operation number (1=civ1,2=fix1,3=patch1,4=civ2,5=fix2,6=patch2) |
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91 | end |
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92 | |
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93 | if exist('ext','var') && length(ext)>1 && (~isempty(imformats(ext([2:end])))|... |
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94 | isequal(ext,'.avi')||isequal(ext,'.AVI'));%if an image file has been opened by uvmat |
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95 | set(handles.ext_ima,'String',ext) |
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96 | if exist('nom_type_read','var') |
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97 | browse.nom_type_ima=nom_type_read; % the image nomenclature is stored |
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98 | end |
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99 | elseif isequal(ext,'.nc') |
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100 | if exist('nom_type_read','var') |
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101 | browse.nom_type_nc=nom_type_read;% the netcdf nomenclature is stored |
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102 | end |
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103 | end |
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104 | set(handles.displ_filebase,'String',filebase); |
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105 | set(handles.ImaDoc,'UserData',testall); |
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106 | set(handles.ImaDoc,'String',ext) |
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107 | |
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108 | %read names of the .exe file to adjust the interface according to |
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109 | %available prog |
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110 | %read names of the .exe file |
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111 | path_uvmat=which('uvmat');% check the path detected for source file uvmat |
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112 | path_UVMAT=fileparts(path_uvmat); %path to UVMAT |
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113 | if isunix |
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114 | syst='LINUX'; |
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115 | %fid = fopen(fullfile(path_UVMAT,'PARAM_LINUX.txt'),'r');%open the file with civ binary names |
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116 | xmlfile=fullfile(path_UVMAT,'PARAM_LINUX.xml'); |
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117 | display(xmlfile) |
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118 | if exist(xmlfile,'file') |
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119 | t=xmltree(xmlfile); |
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120 | sparam=convert(t); |
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121 | end |
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122 | else |
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123 | syst='WIN'; |
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124 | xmlfile=fullfile(path_UVMAT,'PARAM_WIN.xml'); |
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125 | if exist(xmlfile,'file') |
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126 | t=xmltree(xmlfile); |
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127 | sparam=convert(t); |
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128 | end |
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129 | end |
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130 | display(syst) |
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131 | patch_new_exe=''; |
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132 | % todo_patch=''; |
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133 | sge=0; |
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134 | |
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135 | if isfield(sparam,'PatchNew_exe') |
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136 | patch_new_exe=sparam.PatchNew_exe; |
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137 | end |
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138 | if isfield(sparam,'Todo_path') |
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139 | todo_path=sparam.Todo_path; |
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140 | end |
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141 | if isfield(sparam,'SGE') |
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142 | sge=str2num(sparam.SGE); |
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143 | end |
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144 | name_todo=fullfile(todo_path,'TODO.txt'); |
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145 | display(name_todo) |
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146 | test_batch=1; |
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147 | if ~sge |
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148 | if isequal(todo_path,'') || isequal(todo_path,[]) |
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149 | display(['no batch distributed processing available:file path TODO.txt not defined in UVMAT/PARAM_' syst]) |
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150 | test_batch=0; |
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151 | end |
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152 | if exist(name_todo,'file')~=2 |
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153 | msgbox_uvmat('WARNING',['no batch distributed processing available, queue file ' name_todo ' absent']); |
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154 | % test_batch=0; % Problems to detect file on linux/nfs filesystems |
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155 | end |
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156 | end |
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157 | if test_batch==0 |
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158 | set(handles.BATCH,'BackgroundColor',[0.831 0.816 0.784])% put the BATCH button in grey (unactivated) |
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159 | end |
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160 | set(handles.subdir_civ1,'String',subdir)%default subdir on which uvmat was working |
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161 | set(handles.subdir_civ2,'String',subdir)%default subdir on which uvmat was working |
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162 | |
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163 | %initiate advised operations |
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164 | if isequal(ind_opening,[]) |
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165 | ind_opening=1; % default |
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166 | end |
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167 | % set default operation options |
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168 | enable_civ1(handles,'off') |
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169 | enable_civ2(handles,'off') |
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170 | enable_pair1(handles,'on') |
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171 | enable_fix1(handles,'off') |
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172 | desable_patch1(handles) |
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173 | desable_fix2(handles) |
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174 | desable_patch2(handles) |
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175 | set(handles.CIV1,'Value',0) |
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176 | set(handles.FIX1,'Value',0) |
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177 | set(handles.PATCH1,'Value',0) |
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178 | set(handles.CIV2,'Value',0) |
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179 | set(handles.FIX2,'Value',0) |
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180 | set(handles.PATCH2,'Value',0) |
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181 | set(handles.frame_subdirciv2,'BackgroundColor',[0.831 0.816 0.784]) |
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182 | if isequal(ind_opening,1) |
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183 | set(handles.CIV1,'Value',1) |
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184 | enable_civ1(handles,'on') |
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185 | elseif isequal(ind_opening,2) |
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186 | set(handles.FIX1,'Value',1) |
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187 | enable_fix1(handles,'on') |
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188 | elseif isequal(ind_opening,3) |
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189 | set(handles.PATCH1,'Value',1) |
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190 | enable_patch1(handles) |
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191 | elseif isequal(ind_opening,4) |
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192 | set(handles.CIV2,'Value',1) |
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193 | enable_civ2(handles,1) |
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194 | elseif isequal(ind_opening,5) |
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195 | set(handles.FIX2,'Value',1) |
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196 | enable_fix2(handles) |
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197 | set(handles.frame_subdirciv2,'BackgroundColor',[1 1 0]) |
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198 | set(handles.list_pair_civ2,'Enable','On') |
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199 | set(handles.list_pair_civ2,'Enable','On') |
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200 | enable_pair1(handles,'off') |
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201 | elseif isequal(ind_opening,6) |
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202 | set(handles.PATCH2,'Value',1) |
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203 | enable_patch2(handles) |
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204 | set(handles.frame_subdirciv2,'BackgroundColor',[1 1 0]) |
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205 | set(handles.list_pair_civ2,'Enable','On') |
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206 | enable_pair1(handles,'off') |
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207 | end |
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208 | |
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209 | % set the range of fields (1:1 by default) and selected pair |
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210 | if isempty(num2)||isequal(num2,num1) |
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211 | num_ref_i=num1; |
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212 | else |
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213 | num_ref_i=floor((num1+num2)/2); |
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214 | browse.incr_pair(1)=num2-num1; |
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215 | browse.incr_pair(2)=0; |
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216 | end |
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217 | if isempty(num_b)||isequal(num_a,num_b) |
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218 | if isempty(num_a) |
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219 | num_ref_j=1; |
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220 | else |
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221 | num_ref_j=num_a; |
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222 | end |
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223 | else |
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224 | num_ref_j=floor((num_a+num_b)/2); |
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225 | browse.incr_pair(2)=num_b-num_a; |
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226 | end |
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227 | set(handles.first_i,'String',num2str(num_ref_i)); |
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228 | set(handles.last_i,'String',num2str(num_ref_i)); |
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229 | set(handles.first_j,'String',num2str(num_ref_j)); |
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230 | set(handles.last_j,'String',num2str(num_ref_j)); |
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231 | set(handles.ref_i,'String',num2str(num_ref_i)); |
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232 | set(handles.ref_j,'String',num2str(num_ref_j)); |
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233 | set(handles.browse_root,'UserData',browse); |
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234 | if ~isempty(varargin)% the interface is opened from uvmat |
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235 | displ_filebase_Callback(hObject, eventdata, handles); |
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236 | end |
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237 | |
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238 | set(handles.waitbar_1,'Position',[0.946 0.877 0.03 0.001]) |
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239 | set(handles.waitbar_patch1,'Position',[0.946 0.626 0.03 0.001]) |
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240 | set(handles.waitbar_civ2,'Position',[0.946 0.406 0.03 0.001]) |
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241 | set(handles.waitbar_patch2,'Position',[0.946 0.187 0.03 0.001]) |
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242 | |
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243 | %------------------------------------------------------------------------ |
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244 | % --- Outputs from this function are returned to the command line. |
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245 | function varargout = civ_OutputFcn(hObject, eventdata, handles) |
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246 | %------------------------------------------------------------------------ |
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247 | % varargout cell array for returning output args (see VARARGOUT); |
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248 | % hObject handle to figure |
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249 | % eventdata reserved - to be defined in a future version of MATLAB |
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250 | % handles structure with handles and user data (see GUIDATA) |
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251 | % Get default command line output from handles structure |
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252 | varargout{1} = handles.output; |
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253 | |
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254 | %------------------------------------------------------------------------ |
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255 | % --- Executes on button press in browse_root. |
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256 | function browse_root_Callback(hObject, eventdata, handles) |
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257 | %------------------------------------------------------------------------ |
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258 | %get the input file properties |
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259 | filebase=get(handles.displ_filebase,'String'); |
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260 | oldfile=''; %default |
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261 | if isempty(filebase)|isequal(filebase,'')%loads the previously stored file name and set it as default in the file_input box |
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262 | dir_perso=prefdir; |
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263 | profil_perso=fullfile(dir_perso,'uvmat_perso.mat'); |
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264 | display(profil_perso) |
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265 | if exist(profil_perso,'file') |
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266 | h=load (profil_perso); |
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267 | if isfield(h,'filebase')&& ischar(h.filebase) |
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268 | oldfile=h.filebase; |
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269 | end |
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270 | if isfield(h,'RootPath') && ischar(h.RootPath) |
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271 | oldfile=h.RootPath; |
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272 | end |
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273 | end |
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274 | else |
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275 | oldfile=filebase; |
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276 | end |
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277 | testall=get(handles.ImaDoc,'UserData'); |
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278 | ind_opening=1;%default |
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279 | browse.incr_pair=[0 0]; %default |
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280 | if testall |
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281 | menu={'*.*', 'All Files (*.*)'; '*.xml; *.avi;*.AVI;*.nc','(*.xml,*.avi,*.nc)'; ... |
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282 | '*.xml', '.xml files';'*.avi;*.AVI', '.avi files';'*.nc','.nc files'}; |
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283 | else % menu selecting only .civ or .avi files |
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284 | menu={'*.xml;*.avi;*.AVI;*.nc','(*.xml,*.avi,*.nc)'; ... |
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285 | '*.xml', '.xml files';'*.avi;*.AVI', '.avi files';'*.nc', '.nc files';... |
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286 | '*.*', 'All Files (*.*)'}; |
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287 | end |
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288 | [FileName, PathName, filtindex] = uigetfile( menu, 'Pick a file',oldfile); |
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289 | fileinput=[PathName FileName];%complete file name |
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290 | sizf=size(fileinput); |
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291 | if (~ischar(fileinput)||~isequal(sizf(1),1)),return;end %stop if fileinput not a character string |
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292 | [path,name,ext]=fileparts(fileinput); |
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293 | testeditxml=0; |
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294 | if isequal(ext,'.xml') |
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295 | testeditxml=1; |
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296 | t_browse=xmltree(fileinput); |
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297 | head_element=get(t_browse,1); |
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298 | if isfield(head_element,'name')& isequal(head_element.name,'ImaDoc') |
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299 | testeditxml=0; |
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300 | end |
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301 | end |
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302 | if testeditxml==1 | isequal(ext,'.xls') |
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303 | heditxml=editxml({fileinput}); |
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304 | set(heditxml,'Tag','browser') |
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305 | waitfor(heditxml,'Tag','idle') |
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306 | if ~ishandle(heditxml) |
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307 | return |
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308 | end |
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309 | attr=findobj(get(heditxml,'children'),'Tag','CurrentAttributes'); |
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310 | set(handles.browse,'UserData',fileinput)% store for future opening with browser |
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311 | fileinput=get(attr,'UserData'); |
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312 | if ~exist(fileinput,'file') |
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313 | return |
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314 | end |
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315 | end |
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316 | [RootPath,RootFile,field_count,str2,str_a,str_b,ext,nom_type,subdir]=name2display(fileinput); |
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317 | filebase=fullfile(RootPath,RootFile); |
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318 | if isequal(get(handles.compare,'Value'),1) |
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319 | browse=[];%initialisation |
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320 | else |
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321 | browse=get(handles.browse_root,'UserData'); |
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322 | end |
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323 | if length(ext)>1 & (~isempty(imformats(ext([2:end])))|... |
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324 | isequal(ext,'.avi')|isequal(ext,'.AVI'));%if an image file has been opened by uvmat |
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325 | set(handles.ext_ima,'String',ext) |
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326 | browse.nom_type_ima=nom_type; |
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327 | browse.field_count=str2num(field_count); |
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328 | A=imread(fileinput); |
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329 | npxy=size(A); |
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330 | set(handles.ext_ima,'UserData',npxy) |
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331 | end |
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332 | set(handles.ImaDoc,'String',ext); |
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333 | |
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334 | %%%%% read the state of the selected netcdf file to advise default operation |
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335 | if isequal(ext,'.nc') |
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336 | browse.nom_type_nc=nom_type; |
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337 | ind_opening=2;% propose 'fix' as the default option |
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338 | Data=nc2struct(fileinput,[]); |
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339 | if isfield(Data,'absolut_time_T0')%test for civx files |
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340 | if isfield(Data,'fix') && isequal(Data.fix,1) |
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341 | ind_opening=3; |
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342 | end |
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343 | if isfield(Data,'patch') && isequal(Data.patch,1) |
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344 | ind_opening=4; |
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345 | end |
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346 | if isfield(Data,'civ2') && isequal(Data.civ2,1) |
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347 | ind_opening=5; |
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348 | end |
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349 | if isfield(Data,'fix2') && isequal(Data.fix2,1) |
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350 | ind_opening=6; |
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351 | end |
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352 | testciv=1; %TO SUPPRESS WITH NEW VERSION OF CIVX |
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353 | else |
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354 | ind_opening=3; %GUI used only for patch |
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355 | testciv=0; |
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356 | end |
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357 | set(handles.subdir_civ1,'String',subdir);%set the default subdir directories for installing the .nc results |
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358 | set(handles.subdir_civ2,'String',subdir); |
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359 | browse.testciv=testciv; |
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360 | browse.ind_opening=ind_opening; |
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361 | end |
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362 | set(handles.displ_filebase,'String',filebase); |
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363 | set(handles.ImaDoc,'String',ext); |
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364 | if ~isempty(str2num(field_count)) |
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365 | ref_i=str2num(field_count); |
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366 | if ~isempty(str2num(str2)) |
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367 | ref_i=floor((ref_i+str2num(str2))/2);% reference image number corresponding to the file |
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368 | browse.incr_pair(1)=str2num(str2)-str2num(field_count); |
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369 | browse.incr_pair(2)=0; |
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370 | end |
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371 | set(handles.first_i,'String',num2str(ref_i)); |
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372 | set(handles.last_i,'String',num2str(ref_i)); |
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373 | set(handles.ref_i,'String',num2str(ref_i)); |
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374 | end |
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375 | if isempty(str2num(str_a)) |
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376 | set(handles.ref_j,'String','1'); |
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377 | else |
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378 | ref_j=str2num(str_a); |
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379 | if ~isempty(str2num(str_b)) |
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380 | ref_j=floor((str2num(str_a)+str2num(str_b))/2); |
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381 | browse.incr_pair(2)=str2num(str_b)-str2num(str_a); |
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382 | end |
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383 | set(handles.first_j,'String',num2str(ref_j)); |
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384 | set(handles.last_j,'String',num2str(ref_j)); |
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385 | set(handles.ref_j,'String',num2str(ref_j)); |
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386 | end |
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387 | |
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388 | % set default operation options |
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389 | enable_civ1(handles,'off') |
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390 | enable_civ2(handles,'off') |
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391 | enable_pair1(handles,'on') |
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392 | enable_fix1(handles,'off') |
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393 | desable_patch1(handles) |
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394 | desable_fix2(handles) |
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395 | desable_patch2(handles) |
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396 | set(handles.CIV1,'Value',0) |
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397 | set(handles.FIX1,'Value',0) |
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398 | set(handles.PATCH1,'Value',0) |
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399 | set(handles.CIV2,'Value',0) |
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400 | set(handles.FIX2,'Value',0) |
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401 | set(handles.PATCH2,'Value',0) |
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402 | set(handles.frame_subdirciv2,'BackgroundColor',[0.831 0.816 0.784]) |
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403 | if isequal(ind_opening,1) |
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404 | set(handles.CIV1,'Value',1) |
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405 | enable_civ1(handles,'on') |
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406 | elseif isequal(ind_opening,2) |
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407 | set(handles.FIX1,'Value',1) |
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408 | enable_fix1(handles,'on') |
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409 | elseif isequal(ind_opening,3) |
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410 | set(handles.PATCH1,'Value',1) |
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411 | enable_patch1(handles) |
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412 | elseif isequal(ind_opening,4) |
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413 | set(handles.CIV2,'Value',1) |
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414 | enable_civ2(handles,1) |
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415 | elseif isequal(ind_opening,5) |
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416 | enable_pair1(handles,'off') |
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417 | set(handles.FIX2,'Value',1) |
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418 | enable_fix2(handles) |
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419 | set(handles.frame_subdirciv2,'BackgroundColor',[1 1 0]) |
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420 | set(handles.list_pair_civ2,'Enable','On') |
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421 | set(handles.list_pair_civ2,'Enable','On') |
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422 | elseif isequal(ind_opening,6) |
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423 | enable_pair1(handles,'off') |
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424 | set(handles.PATCH2,'Value',1) |
---|
425 | enable_patch2(handles) |
---|
426 | set(handles.frame_subdirciv2,'BackgroundColor',[1 1 0]) |
---|
427 | set(handles.list_pair_civ2,'Enable','On') |
---|
428 | end |
---|
429 | set(handles.browse_root,'UserData',browse);% store information from browser |
---|
430 | testall=isequal(menu(filtindex,1),{'*.*'}); |
---|
431 | set(handles.ImaDoc,'UserData',testall); |
---|
432 | |
---|
433 | displ_filebase_Callback(hObject, eventdata, handles); |
---|
434 | |
---|
435 | %------------------------------------------------------------------------ |
---|
436 | function ImaDoc_Callback(hObject, eventdata, handles) |
---|
437 | %------------------------------------------------------------------------ |
---|
438 | displ_filebase_Callback(hObject, eventdata, handles) |
---|
439 | |
---|
440 | %------------------------------------------------------------------------ |
---|
441 | %function activated when a new filebase (image series) is introduced |
---|
442 | function displ_filebase_Callback(hObject, eventdata, handles) |
---|
443 | %------------------------------------------------------------------------ |
---|
444 | global test_batch |
---|
445 | set(handles.compare,'Visible','on') |
---|
446 | ext_ima=get(handles.ext_ima,'String'); |
---|
447 | nom_type_ima=[];%default |
---|
448 | field_count=1;%default |
---|
449 | nom_type_nc=[]; |
---|
450 | npx=[];%default |
---|
451 | npy=[]; |
---|
452 | time=[]; |
---|
453 | TimeUnit=[]; %default |
---|
454 | CoordUnit=[];%default |
---|
455 | pxcmx_search=[];%default |
---|
456 | pxcmy_search=[];%default |
---|
457 | filebase=get(handles.displ_filebase,'String'); |
---|
458 | |
---|
459 | ext=get(handles.ImaDoc,'String'); |
---|
460 | browse=get(handles.browse_root,'UserData');%default |
---|
461 | if ~isempty(browse) |
---|
462 | if isfield(browse,'nom_type_ima') |
---|
463 | nom_type_ima=browse.nom_type_ima;% get an image nomenclature type already determined by an input image name |
---|
464 | end |
---|
465 | if isfield(browse,'field_count') |
---|
466 | field_count=browse.field_count;% get an image index type already determined by an input file |
---|
467 | end |
---|
468 | end |
---|
469 | |
---|
470 | %default first_i and j and increments |
---|
471 | first_i=str2num(get(handles.first_i,'String'));%value possibly set by uvmat_Opening |
---|
472 | if isempty(first_i)|| first_i < 1 |
---|
473 | first_i=1; %default first_i |
---|
474 | end |
---|
475 | last_i=str2num(get(handles.last_i,'String')); |
---|
476 | if isempty(last_i)|| last_i < first_i |
---|
477 | last_i=first_i; %default last_i |
---|
478 | end |
---|
479 | first_j=str2num(get(handles.first_j,'String')); |
---|
480 | if isempty(first_j)| first_j < 1 |
---|
481 | first_j=1; %default first_j |
---|
482 | end |
---|
483 | last_j=str2num(get(handles.last_j,'String')); |
---|
484 | if isempty(last_j)| last_j < first_j |
---|
485 | last_j=first_j; %default last_j |
---|
486 | end |
---|
487 | incr_i=str2num(get(handles.incr_i,'String')); |
---|
488 | if isempty(incr_i) | incr_i < 1; |
---|
489 | set(handles.incr_i,'String','1') %default incr_i |
---|
490 | end |
---|
491 | incr_j=str2num(get(handles.incr_j,'String')); |
---|
492 | if isempty(incr_j) | incr_j < 1; |
---|
493 | set(handles.incr_j,'String','1') %default incr_j |
---|
494 | end |
---|
495 | dt=[];%default |
---|
496 | testmode=0;%default |
---|
497 | nbfield=[]; %default |
---|
498 | nburst=[];%default |
---|
499 | pxcmx=1; |
---|
500 | pxcmy=1; |
---|
501 | |
---|
502 | %look for an image documentation file |
---|
503 | if ~isequal(ext,'.xml') && ~isequal(ext,'.civ')&& ~isequal(ext,'.avi')&& ~isequal(ext,'.AVI') |
---|
504 | if exist([filebase '.xml'],'file') |
---|
505 | ext='.xml'; |
---|
506 | elseif exist([filebase '.civxml'],'file') |
---|
507 | ext='.civxml'; |
---|
508 | elseif exist([filebase '.civ'],'file') |
---|
509 | ext='.civ'; |
---|
510 | elseif exist([filebase '.avi'],'file') |
---|
511 | ext='.avi'; |
---|
512 | elseif exist([filebase '.AVI'],'file') |
---|
513 | ext='.AVI'; |
---|
514 | end |
---|
515 | set(handles.ImaDoc,'String',ext) |
---|
516 | end |
---|
517 | |
---|
518 | %%%%%%%% read image documentation file %%%%%%%%%%%%%%%%%%%%%%%%%%% |
---|
519 | mode=''; %default |
---|
520 | set(handles.ImaDoc,'BackgroundColor',[1 1 0]) |
---|
521 | drawnow |
---|
522 | %read the image documentation file if found |
---|
523 | if isequal(ext,'.civxml') || isequal(ext,'.xml')|| isequal(ext,'.civ') |
---|
524 | set(handles.ref_i,'Visible','On')%use a reference index |
---|
525 | set(handles.ref_j,'Visible','On') |
---|
526 | set(handles.dt,'Visible','Off') |
---|
527 | set(handles.dt_text,'String','') |
---|
528 | elseif isequal(ext,'.avi') || isequal(ext,'.AVI') |
---|
529 | set(handles.ref_j,'Visible','Off') |
---|
530 | set(handles.dt,'Visible','Off') |
---|
531 | set(handles.dt_text,'String','ref. ind.') |
---|
532 | else |
---|
533 | set(handles.ref_i,'Visible','Off') |
---|
534 | set(handles.ref_j,'Visible','Off') |
---|
535 | set(handles.dt,'Visible','On') |
---|
536 | set(handles.dt_text,'String','dt(ms)=') |
---|
537 | end |
---|
538 | testima_xml=0; |
---|
539 | if isequal(ext,'.civxml')%TO ABANDON |
---|
540 | [nbfield,nburst,time]=read_civxml([filebase '.civxml']); |
---|
541 | mode='pair j1-j2'; |
---|
542 | if isempty(nom_type_ima)% dtermine types by default if not already selected by browser or uvmat |
---|
543 | nom_type_ima='_i_j'; |
---|
544 | end |
---|
545 | elseif isequal(ext,'.xml') |
---|
546 | [XmlData,warntext]=imadoc2struct([filebase '.xml']); |
---|
547 | if isfield(XmlData,'Time') |
---|
548 | time=XmlData.Time; |
---|
549 | nbfield=size(XmlData.Time,1); |
---|
550 | nburst=size(XmlData.Time,2); |
---|
551 | end |
---|
552 | ext_ima_read=[]; |
---|
553 | nom_type_read=[]; |
---|
554 | if isfield(XmlData,'Heading')&&isfield(XmlData.Heading','ImageName')&&ischar(XmlData.Heading.ImageName)% get image nom type and extension from the xml file |
---|
555 | [PP,FF,fc,str2,str_a,str_b,ext_ima_read,nom_type_read]=name2display(XmlData.Heading.ImageName); |
---|
556 | fullname=fullfile(fileparts(filebase),XmlData.Heading.ImageName) %full name (including path) of the first image defined by the xmle file, |
---|
557 | if exist(fullname,'file') |
---|
558 | testima_xml=1; |
---|
559 | else |
---|
560 | msgbox_uvmat('WARNING',['FirstImage ' fullname ' defined in the xml file does not exist']) |
---|
561 | end |
---|
562 | end |
---|
563 | if isfield(XmlData,'Camera') |
---|
564 | if isfield(XmlData.Camera,'TimeUnit') |
---|
565 | TimeUnit=XmlData.Camera.TimeUnit; |
---|
566 | end |
---|
567 | if isfield(XmlData.Camera,'ImageSize') |
---|
568 | ImageSize=XmlData.Camera.ImageSize; |
---|
569 | if ~isempty(ImageSize)&& ~isempty(ImageSize) |
---|
570 | xindex=findstr(ImageSize,'x'); |
---|
571 | if length(xindex)>=2 |
---|
572 | npx=str2num(ImageSize(1:xindex(1)-1)); |
---|
573 | npy=str2num(ImageSize(xindex(1)+1:xindex(2)-1)); |
---|
574 | end |
---|
575 | end |
---|
576 | end |
---|
577 | end |
---|
578 | pxcmx_search=1; |
---|
579 | pxcmy_search=1; |
---|
580 | if isfield(XmlData,'GeometryCalib') |
---|
581 | tsai=XmlData.GeometryCalib; |
---|
582 | if isfield(tsai,'f') & isfield(tsai,'Tz') & isfield(tsai,'dpx') & isfield(tsai,'dpy')& isfield(tsai,'R') |
---|
583 | rot2D=tsai.R([1:2],[1,2]); |
---|
584 | pxcmx_search=tsai.f * sqrt(det(rot2D))/(tsai.Tz*tsai.dpx); |
---|
585 | pxcmy_search=tsai.f * sqrt(det(rot2D))/(tsai.Tz*tsai.dpy); |
---|
586 | end |
---|
587 | if isfield(tsai,'CoordUnit') |
---|
588 | CoordUnit=tsai.CoordUnit; |
---|
589 | end |
---|
590 | end |
---|
591 | if ~isempty(ext_ima_read) && ~isempty(nom_type_read) |
---|
592 | if isempty(ext_ima) |
---|
593 | ext_ima=ext_ima_read;% define image extension from the xml file if an image has not been opened previously |
---|
594 | else %keep the image extension |
---|
595 | if ~strcmp(ext_ima_read,ext_ima) |
---|
596 | msgbox_uvmat('WARNING',['FirtsImage extension ' ext_ima_read ' announced in the xml file inconsistent with the selected image']) |
---|
597 | end |
---|
598 | end |
---|
599 | nom_type_ima=nom_type_read; |
---|
600 | end |
---|
601 | elseif isequal(ext,'.civ')% case of .civ image documentation file |
---|
602 | [error,time,TimeUnit,mode,npx,npy]=read_imatext([filebase '.civ']); |
---|
603 | if error==2, msgbox_uvmat('WARNING',['no file ' filebase '.civ']); |
---|
604 | elseif error==1, msgbox_uvmat('WARNING','inconsistent number of fields in the .civ file'); |
---|
605 | end |
---|
606 | % ext_ima='.png'; |
---|
607 | nom_type_ima='png_old'; |
---|
608 | elseif isequal(lower(ext),'.avi') |
---|
609 | nom_type_ima='*'; |
---|
610 | ext_ima=ext; |
---|
611 | set(handles.mode,'String',{'series(Di)'}) |
---|
612 | dt=0.04;%default |
---|
613 | if exist([filebase ext],'file')==2 |
---|
614 | info=aviinfo([filebase ext]);%read infos on the avi movie |
---|
615 | dt=1/info.FramesPerSecond;%time interval between successive frames |
---|
616 | nbfield=info.NumFrames;%number of frames |
---|
617 | end |
---|
618 | time=(dt*[0:nbfield-1])';%list of image times |
---|
619 | set(handles.dt,'String',num2str(dt*1000));%store the time interval between successive images |
---|
620 | end |
---|
621 | if isempty(time) |
---|
622 | set(handles.ImaDoc,'String',''); %xml file not used for timing |
---|
623 | end |
---|
624 | set(handles.ImaDoc,'BackgroundColor',[1 1 1]) |
---|
625 | |
---|
626 | %get the imabe nomenclature type if not defiend by the input file nor by the xml file |
---|
627 | if isempty(nom_type_ima) |
---|
628 | %look for double image series '_i_j' |
---|
629 | dirima=dir([filebase '_' num2str(first_i) '_' num2str(first_j) '.*']); |
---|
630 | if isempty(dirima) |
---|
631 | % look for images series with sub marker '_' |
---|
632 | dirima=dir([filebase '_*' num2str(first_i) '.*']); |
---|
633 | if isempty(dirima) |
---|
634 | % look for other images series |
---|
635 | dirima=dir([filebase '*' num2str(first_i) '.*']); |
---|
636 | if ~isempty(dirima) |
---|
637 | [pp,ff,fc,str2,str_a,str_b,ext_ima,nom_type_ima]=name2display(dirima(1).name); |
---|
638 | end |
---|
639 | else |
---|
640 | [pp,ff,fc,str2,str_a,str_b,ext_ima,nom_type_ima]=name2display(dirima(1).name); |
---|
641 | end |
---|
642 | else |
---|
643 | [pp,ff,fc,str2,str_a,str_b,ext_ima,nom_type_ima]=name2display(dirima(1).name); |
---|
644 | end |
---|
645 | end |
---|
646 | |
---|
647 | % no image documentation file found: look for a series of existing images or .nc files |
---|
648 | if isempty(time) && ~isequal(ext,'.nc') |
---|
649 | subdir=get(handles.subdir_civ1,'String'); |
---|
650 | incr_pair=[0 0];%default |
---|
651 | if isfield(browse,'incr_pair') |
---|
652 | incr_pair=browse.incr_pair; |
---|
653 | end |
---|
654 | nbdetect=0;%test of detected images |
---|
655 | field_i=field_count; |
---|
656 | idetect=1; |
---|
657 | while idetect==1 %look for the maximum file number in the series |
---|
658 | field_i=field_i+1; |
---|
659 | imagename=name_generator(filebase,field_i,1,ext_ima,nom_type_ima); |
---|
660 | if strcmp(nom_type_ima,'none')||strcmp(nom_type_ima,'') |
---|
661 | idetect=0; %stop if the same image is repeated (if nom_type='none') |
---|
662 | nbdetect=1; |
---|
663 | else |
---|
664 | idetect=(exist(imagename,'file')==2); |
---|
665 | end |
---|
666 | %SEE CASE OF NETCDF FILES |
---|
667 | nbdetect=nbdetect+(exist(imagename,'file')==2); |
---|
668 | end |
---|
669 | nb_field=field_i;% last detected field number |
---|
670 | field_i=field_count;%look for the minimum file number in the series |
---|
671 | idetect=1; |
---|
672 | while idetect==1 |
---|
673 | field_i=field_i-1; |
---|
674 | imagename=name_generator(filebase,field_i,1,ext_ima,nom_type_ima); |
---|
675 | if isequal(nom_type_ima,'none')||strcmp(nom_type_ima,'') |
---|
676 | idetect=0; %stop if the same image is repeated (if nom_type='none') |
---|
677 | nbdetect=1; |
---|
678 | else |
---|
679 | idetect=(exist(imagename,'file')==2); |
---|
680 | end |
---|
681 | nbdetect=nbdetect+idetect; |
---|
682 | end |
---|
683 | first_i=max(field_i+1,1); |
---|
684 | %determine the set of times and possible intervals for CIV |
---|
685 | dt=(1/1000)*str2num(get(handles.dt,'String')); |
---|
686 | time=(dt*[0:nb_field-1])'; |
---|
687 | set(handles.mode,'String',{'series(Di)'}) |
---|
688 | end |
---|
689 | if isequal(nom_type_ima,'none')% no file numbering used |
---|
690 | first_i=1; |
---|
691 | last_i=1; |
---|
692 | first_j=1; |
---|
693 | last_j=1; |
---|
694 | end |
---|
695 | if exist('time','var') |
---|
696 | if size(time,1)+size(time,2)>=3 % if there are at least two time values to define dt |
---|
697 | nbfield=size(time,1); |
---|
698 | nbfield2=size(time,2); |
---|
699 | set(handles.displ_filebase,'UserData',time); %store the set of times |
---|
700 | if isempty(TimeUnit) |
---|
701 | set(handles.dt_unit,'String','dt in e-03'); |
---|
702 | set(handles.TimeUnit,'String',''); |
---|
703 | else |
---|
704 | set(handles.dt_unit,'String',['dt in m' TimeUnit]); |
---|
705 | set(handles.TimeUnit,'String',TimeUnit); |
---|
706 | end |
---|
707 | set(handles.nb_field,'String',num2str(nbfield)); |
---|
708 | set(handles.nb_field2,'String',num2str(nbfield2)); |
---|
709 | end |
---|
710 | end |
---|
711 | set(handles.CoordUnit,'String',[CoordUnit '/']) |
---|
712 | set(handles.calcul_search,'UserData',[pxcmx_search pxcmy_search]); |
---|
713 | % npxy=[npy npx]; |
---|
714 | set(handles.ext_ima,'String',ext_ima) |
---|
715 | set(handles.first_i,'String',num2str(first_i)); |
---|
716 | set(handles.last_i,'String',num2str(last_i));% |
---|
717 | set(handles.first_j,'String',num2str(first_j)); |
---|
718 | set(handles.last_j,'String',num2str(last_j));% |
---|
719 | browse.nom_type_ima=nom_type_ima; |
---|
720 | set(handles.browse_root,'UserData',browse)% store the nomenclature type |
---|
721 | |
---|
722 | %%%%%%%%%%% set the menus of image pairs and default selection for civ %%%%%%%%%%%%%%%%%%% |
---|
723 | if isequal(nom_type_ima,'_i')| isequal(nom_type_nc,'_i1-i2')|~exist('nbfield2','var')|(nbfield2==1) |
---|
724 | set(handles.mode,'String',{'series(Di)'}) |
---|
725 | set(handles.mode,'Value',1) |
---|
726 | elseif isequal(nom_type_ima,'png_old')|isequal(nom_type_nc,'netc_old') |
---|
727 | set(handles.mode,'String',{'pair j1-j2'}) |
---|
728 | set(handles.mode,'Value',1) |
---|
729 | elseif (nbfield==1)% simple series in j |
---|
730 | set(handles.mode,'String',{'series(Dj)'}) |
---|
731 | set(handles.mode,'Value',1) |
---|
732 | else |
---|
733 | set(handles.mode,'String',{'pair j1-j2';'series(Dj)';'series(Di)'})%multiple choice |
---|
734 | if isequal(mode,'volume') |
---|
735 | set(handles.mode,'Value',3) |
---|
736 | elseif nbfield2 <= 5 |
---|
737 | set(handles.mode,'Value',1)% advice 'pair j1-j2' for small bursts |
---|
738 | else |
---|
739 | set(handles.mode,'Value',2)% advice series Dj for long bursts, not volume |
---|
740 | end |
---|
741 | end |
---|
742 | |
---|
743 | %update the subdir |
---|
744 | pathdir=fileparts(filebase);%path to the current xml file |
---|
745 | listot=dir(pathdir); |
---|
746 | idir=0; |
---|
747 | listdir={''};%default |
---|
748 | for ilist=1:length(listot) |
---|
749 | if listot(ilist).isdir |
---|
750 | name=listot(ilist).name; |
---|
751 | if ~isequal(name,'.') && ~isequal(name,'..') |
---|
752 | idir=idir+1; |
---|
753 | listdir{idir,1}=listot(ilist).name; |
---|
754 | end |
---|
755 | end |
---|
756 | end |
---|
757 | set(handles.list_subdir_civ1,'Value',1) |
---|
758 | set(handles.list_subdir_civ2,'Value',1) |
---|
759 | set(handles.list_subdir_civ1,'String',['browse...';listdir]) |
---|
760 | set(handles.list_subdir_civ2,'String',['browse...';listdir]) |
---|
761 | %check wether the current subdir exists: |
---|
762 | subdir_civ1=get(handles.subdir_civ1,'String'); |
---|
763 | subdir_civ2=get(handles.subdir_civ2,'String'); |
---|
764 | |
---|
765 | mode_Callback(hObject, eventdata, handles) |
---|
766 | |
---|
767 | %%%%%% initialize waitbars and RUN button |
---|
768 | set(handles.waitbar_1,'Position',[0.946 0.876 0.03 0.001]) |
---|
769 | set(handles.waitbar_patch1,'Position',[0.946 0.439 0.03 0.001]) |
---|
770 | set(handles.waitbar_civ2,'Position',[0.946 0.219 0.03 0.001]) |
---|
771 | set(handles.waitbar_patch2,'Position',[0.946 0.0 0.03 0.001]) |
---|
772 | set(handles.RUN, 'Enable','On') |
---|
773 | set(handles.RUN,'BackgroundColor',[1 0 0]) |
---|
774 | if isequal(test_batch,1)%if batch installation is available |
---|
775 | set(handles.BATCH, 'Enable','On') |
---|
776 | set(handles.BATCH,'BackgroundColor',[1 0 0]) |
---|
777 | end |
---|
778 | |
---|
779 | %%%%% store the root input filename for future opening |
---|
780 | dir_perso=prefdir; |
---|
781 | profil_perso=fullfile(prefdir,'uvmat_perso.mat'); |
---|
782 | RootPath=fileparts(filebase); |
---|
783 | if exist(profil_perso,'file') |
---|
784 | save (profil_perso,'RootPath','-append'); %store the root name for future opening of uvmat |
---|
785 | else |
---|
786 | txt=ver; |
---|
787 | Release=txt(1).Release; |
---|
788 | relnumb=str2num(Release(3:4)); |
---|
789 | if relnumb >= 14 |
---|
790 | save (profil_perso,'RootPath','-V6'); %store the root name for future opening of uvmat |
---|
791 | else |
---|
792 | save (profil_perso,'RootPath'); %store the root name for future opening of uvmat |
---|
793 | end |
---|
794 | end |
---|
795 | % save(profil_perso, 'filebase'); %store the root name for future opening of uvmat |
---|
796 | set(gcf,'Pointer','arrow') |
---|
797 | |
---|
798 | %------------------------------------------------------------------------ |
---|
799 | % --- Executes on button press in mode. |
---|
800 | function mode_Callback(hObject, eventdata, handles) |
---|
801 | %------------------------------------------------------------------------ |
---|
802 | browse=get(handles.browse_root,'UserData'); |
---|
803 | compare_list=get(handles.compare,'String'); |
---|
804 | val=get(handles.compare,'Value'); |
---|
805 | compare=compare_list{val}; |
---|
806 | if strcmp(compare,'displacement') |
---|
807 | mode='displacement'; |
---|
808 | else |
---|
809 | mode_list=get(handles.mode,'String'); |
---|
810 | mode_value=get(handles.mode,'Value'); |
---|
811 | mode=mode_list{mode_value}; |
---|
812 | end |
---|
813 | displ_num=[];%default |
---|
814 | first_i=str2num(get(handles.first_i,'String')); |
---|
815 | % last_i=str2num(get(handles.last_i,'String')); |
---|
816 | time=get(handles.displ_filebase,'UserData'); %get the set of times |
---|
817 | siztime=size(time); |
---|
818 | nbfield=siztime(1); |
---|
819 | nbfield2=siztime(2); |
---|
820 | indchosen=1; %%first pair selected by default |
---|
821 | if isequal(mode,'pair j1-j2')%| isequal(mode,'st_pair j1-j2') |
---|
822 | dt=1; |
---|
823 | displ=''; |
---|
824 | index=0; |
---|
825 | numlist_a=[]; |
---|
826 | numlist_B=[]; |
---|
827 | %get all the time intervals in bursts |
---|
828 | displ_dt=1;%default |
---|
829 | nbfield2=min(nbfield2,10);%limitate the number of pairs to 10x10 |
---|
830 | for numod_a=1:nbfield2-1 %nbfield2 always >=2 for 'pair j1-j2' mode |
---|
831 | for numod_b=(numod_a+1):nbfield2 |
---|
832 | index=index+1; |
---|
833 | numlist_a(index)=numod_a; |
---|
834 | numlist_b(index)=numod_b; |
---|
835 | if ~isempty(time) |
---|
836 | dt(numod_a,numod_b)=time(first_i,numod_b)-time(first_i,numod_a);%first time interval dt |
---|
837 | displ_dt(index)=dt(numod_a,numod_b); |
---|
838 | else |
---|
839 | displ_dt(index)=1; |
---|
840 | end |
---|
841 | end |
---|
842 | end |
---|
843 | [dtsort,indsort]=sort(displ_dt); |
---|
844 | if ~isempty(numlist_a) |
---|
845 | displ_num(1,:)=numlist_a(indsort); |
---|
846 | displ_num(2,:)=numlist_b(indsort); |
---|
847 | end |
---|
848 | displ_num(3,:)=0; |
---|
849 | displ_num(4,:)=0; |
---|
850 | set(handles.jtext,'Visible','Off') |
---|
851 | set(handles.first_j,'Visible','Off') |
---|
852 | set(handles.last_j,'Visible','Off') |
---|
853 | set(handles.incr_j,'Visible','Off') |
---|
854 | set(handles.nb_field2,'Visible','Off') |
---|
855 | set(handles.ref_j,'Visible','Off') |
---|
856 | elseif isequal(mode,'series(Dj)') %| isequal(mode,'st_series(Dj)') |
---|
857 | for index=1:min(nbfield2-1,200) |
---|
858 | displ_num(1,index)=-floor(index/2); |
---|
859 | displ_num(2,index)=ceil(index/2); |
---|
860 | displ_num(3,index)=0; |
---|
861 | displ_num(4,index)=0; |
---|
862 | end |
---|
863 | set(handles.jtext,'Visible','On') |
---|
864 | set(handles.first_j,'Visible','On') |
---|
865 | set(handles.last_j,'Visible','On') |
---|
866 | set(handles.incr_j,'Visible','On') |
---|
867 | set(handles.nb_field2,'Visible','On') |
---|
868 | set(handles.ref_j,'Visible','On') |
---|
869 | if nbfield > 1 |
---|
870 | set(handles.itext,'Visible','On') |
---|
871 | set(handles.first_i,'Visible','On') |
---|
872 | set(handles.last_i,'Visible','On') |
---|
873 | set(handles.incr_i,'Visible','On') |
---|
874 | set(handles.nb_field,'Visible','On') |
---|
875 | set(handles.ref_i,'Visible','On') |
---|
876 | else |
---|
877 | set(handles.itext,'Visible','Off') |
---|
878 | set(handles.first_i,'Visible','Off') |
---|
879 | set(handles.last_i,'Visible','Off') |
---|
880 | set(handles.incr_i,'Visible','Off') |
---|
881 | set(handles.nb_field,'Visible','Off') |
---|
882 | set(handles.ref_i,'Visible','Off') |
---|
883 | end |
---|
884 | elseif isequal(mode,'series(Di)') %| isequal(mode,'st_series(Di)') |
---|
885 | for index=1:200%min(nbfield-1,200) |
---|
886 | displ_num(1,index)=0; |
---|
887 | displ_num(2,index)=0; |
---|
888 | displ_num(3,index)=-floor(index/2); |
---|
889 | displ_num(4,index)=ceil(index/2); |
---|
890 | end |
---|
891 | set(handles.itext,'Visible','On') |
---|
892 | set(handles.first_i,'Visible','On') |
---|
893 | set(handles.last_i,'Visible','On') |
---|
894 | set(handles.incr_i,'Visible','On') |
---|
895 | set(handles.nb_field,'Visible','On') |
---|
896 | set(handles.ref_i,'Visible','On') |
---|
897 | if nbfield2 > 1 |
---|
898 | set(handles.jtext,'Visible','On') |
---|
899 | set(handles.first_j,'Visible','On') |
---|
900 | set(handles.last_j,'Visible','On') |
---|
901 | set(handles.incr_j,'Visible','On') |
---|
902 | set(handles.nb_field2,'Visible','On') |
---|
903 | set(handles.ref_j,'Visible','On') |
---|
904 | else |
---|
905 | set(handles.jtext,'Visible','Off') |
---|
906 | set(handles.first_j,'Visible','Off') |
---|
907 | set(handles.last_j,'Visible','Off') |
---|
908 | set(handles.incr_j,'Visible','Off') |
---|
909 | set(handles.nb_field2,'Visible','Off') |
---|
910 | set(handles.ref_j,'Visible','Off') |
---|
911 | end |
---|
912 | elseif isequal(mode,'displacement')%the pairs have the same indices |
---|
913 | displ_num(1,1)=0; |
---|
914 | displ_num(2,1)=0; |
---|
915 | displ_num(3,1)=0; |
---|
916 | displ_num(4,1)=0; |
---|
917 | if nbfield > 1 |
---|
918 | set(handles.itext,'Visible','On') |
---|
919 | set(handles.first_i,'Visible','On') |
---|
920 | set(handles.last_i,'Visible','On') |
---|
921 | set(handles.incr_i,'Visible','On') |
---|
922 | set(handles.nb_field,'Visible','On') |
---|
923 | set(handles.ref_i,'Visible','On') |
---|
924 | else |
---|
925 | set(handles.itext,'Visible','Off') |
---|
926 | set(handles.first_i,'Visible','Off') |
---|
927 | set(handles.last_i,'Visible','Off') |
---|
928 | set(handles.incr_i,'Visible','Off') |
---|
929 | set(handles.nb_field,'Visible','Off') |
---|
930 | set(handles.ref_i,'Visible','Off') |
---|
931 | end |
---|
932 | if nbfield2 > 1 |
---|
933 | set(handles.jtext,'Visible','On') |
---|
934 | set(handles.first_j,'Visible','On') |
---|
935 | set(handles.last_j,'Visible','On') |
---|
936 | set(handles.incr_j,'Visible','On') |
---|
937 | set(handles.nb_field2,'Visible','On') |
---|
938 | set(handles.ref_j,'Visible','On') |
---|
939 | else |
---|
940 | set(handles.jtext,'Visible','Off') |
---|
941 | set(handles.first_j,'Visible','Off') |
---|
942 | set(handles.last_j,'Visible','Off') |
---|
943 | set(handles.incr_j,'Visible','Off') |
---|
944 | set(handles.nb_field2,'Visible','Off') |
---|
945 | set(handles.ref_j,'Visible','Off') |
---|
946 | end |
---|
947 | end |
---|
948 | set(handles.list_pair_civ1,'UserData',displ_num); |
---|
949 | find_netcpair_civ1(hObject, eventdata, handles) |
---|
950 | find_netcpair_civ2(hObject, eventdata, handles) |
---|
951 | |
---|
952 | %------------------------------------------------------------------------ |
---|
953 | % determine the menu for civ1 pairs depending on existing netcdf file at the middle of |
---|
954 | % the field series set by first_i, incr, last_i |
---|
955 | function find_netcpair_civ1(hObject, eventdata, handles) |
---|
956 | %------------------------------------------------------------------------ |
---|
957 | set(gcf,'Pointer','watch') |
---|
958 | %nomenclature types |
---|
959 | filebase=get(handles.displ_filebase,'String'); |
---|
960 | [filepath,Nme,ext_dir]=fileparts(filebase); |
---|
961 | browse=get(handles.browse_root,'UserData'); |
---|
962 | compare_list=get(handles.compare,'String'); |
---|
963 | val=get(handles.compare,'Value'); |
---|
964 | compare=compare_list{val}; |
---|
965 | if strcmp(compare,'displacement') |
---|
966 | mode='displacement'; |
---|
967 | else |
---|
968 | mode_list=get(handles.mode,'String'); |
---|
969 | mode_value=get(handles.mode,'Value'); |
---|
970 | mode=mode_list{mode_value}; |
---|
971 | end |
---|
972 | |
---|
973 | % nomenclature type of the .nc files |
---|
974 | nom_type_ima=[];%default |
---|
975 | if isfield(browse,'nom_type_ima') |
---|
976 | nom_type_ima=browse.nom_type_ima; |
---|
977 | end |
---|
978 | |
---|
979 | %determine nom_type_nc: |
---|
980 | nom_type_nc=[];%default |
---|
981 | if isfield(browse,'nom_type_nc') |
---|
982 | nom_type_nc=browse.nom_type_nc; |
---|
983 | end |
---|
984 | if isempty(nom_type_nc) |
---|
985 | [nom_type_nc]=nomtype2pair(nom_type_ima,isequal(mode,'series(Di)'),isequal(mode,'series(Dj)')); |
---|
986 | end |
---|
987 | browse.nom_type_nc=nom_type_nc; |
---|
988 | set(handles.browse_root,'UserData',browse) |
---|
989 | |
---|
990 | %reads .nc subdirectoy and image numbers from the interface |
---|
991 | subdir_civ1=get(handles.subdir_civ1,'String');%subdirectory subdir_civ1 for the netcdf data |
---|
992 | first_i=str2num(get(handles.first_i,'String')); |
---|
993 | last_i=str2num(get(handles.last_i,'String')); |
---|
994 | incr=str2num(get(handles.incr_i,'String')); |
---|
995 | num1=first_i:incr:last_i; |
---|
996 | if isempty(num1) |
---|
997 | set(handles.list_pair_civ1,'String',{''}); |
---|
998 | return |
---|
999 | end |
---|
1000 | ref_i=str2num(get(handles.ref_i,'String')); |
---|
1001 | if isequal(mode,'pair j1-j2')%|isequal(mode,'st_pair j1-j2') |
---|
1002 | ref_j=0; |
---|
1003 | else |
---|
1004 | ref_j=str2num(get(handles.ref_j,'String')); |
---|
1005 | end |
---|
1006 | time=get(handles.displ_filebase,'UserData');%get the set of times |
---|
1007 | if isempty(time) |
---|
1008 | time=[0 1]; |
---|
1009 | end |
---|
1010 | dt_unit=str2num(get(handles.dt,'String'));% used when there is no image documentation file |
---|
1011 | displ_num=get(handles.list_pair_civ1,'UserData'); |
---|
1012 | |
---|
1013 | %eliminate the first pairs inconsistent with the position |
---|
1014 | if isempty(displ_num) |
---|
1015 | nbpair=0; |
---|
1016 | else |
---|
1017 | nbpair=length(displ_num(1,:));%nbre of displayed pairs |
---|
1018 | if isequal(mode,'series(Di)') %| isequal(mode,'st_series(Di)') |
---|
1019 | nbpair=min(2*ref_i-1,nbpair);%limit the number of pairs with positive first index |
---|
1020 | elseif isequal(mode,'series(Dj)')% | isequal(mode,'st_series(Dj)') |
---|
1021 | nbpair=min(2*ref_j-1,nbpair);%limit the number of pairs with positive first index |
---|
1022 | end |
---|
1023 | end |
---|
1024 | nbpair=min(200,nbpair);%limit the number of displayed pairs to 200 |
---|
1025 | |
---|
1026 | %look for existing processed pairs involving the field at the middle of the series if civ1 will not |
---|
1027 | % be performed, while the result is needed for next steps. |
---|
1028 | displ_pair={''}; |
---|
1029 | select=ones(size(1:nbpair));%default =1 for numbers of displayed pairs |
---|
1030 | testpair=0; |
---|
1031 | if get(handles.CIV1,'Value')==0 % |
---|
1032 | dirname=fullfile(filepath,subdir_civ1,ext_dir); |
---|
1033 | if ~exist(fullfile(filepath,subdir_civ1,ext_dir),'dir') |
---|
1034 | msgbox_uvmat('ERROR',['no civ1 file available: subdirectory ' subdir_civ1 ' does not exist']); |
---|
1035 | set(handles.list_pair_civ1,'String',{}); |
---|
1036 | return |
---|
1037 | end |
---|
1038 | for ipair=1:nbpair |
---|
1039 | filename=name_generator(filebase,ref_i+displ_num(3,ipair),ref_j+displ_num(1,ipair),'.nc',nom_type_nc,1,... |
---|
1040 | ref_i+displ_num(4,ipair),ref_j+displ_num(2,ipair),subdir_civ1); |
---|
1041 | select(ipair)=exist(filename,'file')==2; |
---|
1042 | end |
---|
1043 | if ~exist('select','var') || isequal(select,zeros(size(1:nbpair))) |
---|
1044 | if isfield(browse,'incr_pair') |
---|
1045 | num_i1=ref_i-floor(browse.incr_pair(1)/2); |
---|
1046 | num_i2=ref_i+ceil(browse.incr_pair(1)/2); |
---|
1047 | num_j1=ref_j-floor(browse.incr_pair(2)/2); |
---|
1048 | num_j2=ref_j+ceil(browse.incr_pair(2)/2); |
---|
1049 | filename=name_generator(filebase,num_i1,num_j1,'.nc',nom_type_nc,1,num_i2,num_j2,subdir_civ1); |
---|
1050 | select(1)=exist(filename,'file')==2; |
---|
1051 | testpair=1; |
---|
1052 | else |
---|
1053 | if isequal(mode,'series(Dj)')% | isequal(mode,'st_series(Dj)') |
---|
1054 | msgbox_uvmat('ERROR',['no civ1 file available for the selected reference index j=' num2str(ref_j) ' and subdirectory ' subdir_civ1]); |
---|
1055 | else |
---|
1056 | msgbox_uvmat('ERROR',['no civ1 file available for the selected reference index i=' num2str(ref_i) ' and subdirectory ' subdir_civ1]); |
---|
1057 | end |
---|
1058 | set(handles.list_pair_civ1,'String',{''}); |
---|
1059 | %COMPLETER CAS STEREO |
---|
1060 | return |
---|
1061 | end |
---|
1062 | end |
---|
1063 | end |
---|
1064 | if isequal(mode,'series(Di)') %| isequal(mode,'st_series(Di)') |
---|
1065 | if testpair |
---|
1066 | displ_pair{1}=['Di= ' num2str(-floor(browse.incr_pair(1)/2)) '|' num2str(ceil(browse.incr_pair(1)/2))]; |
---|
1067 | elseif ~isequal(get(handles.dt_text,'String'),'dt(ms)=') |
---|
1068 | for ipair=1:nbpair |
---|
1069 | if select(ipair) |
---|
1070 | if size(time,1)>=ref_i+displ_num(4,ipair) && size(time,2)>=ref_j+displ_num(2,ipair) |
---|
1071 | dt=time(ref_i+displ_num(4,ipair),ref_j+displ_num(2,ipair))-time(ref_i+displ_num(3,ipair),ref_j+displ_num(1,ipair));%time interval dt |
---|
1072 | displ_pair{ipair}=['Di= ' num2str(-floor(ipair/2)) '|' num2str(ceil(ipair/2)) ' :dt= ' num2str(dt*1000)]; |
---|
1073 | end |
---|
1074 | else |
---|
1075 | displ_pair{ipair}='...'; %pair not displayed in the menu |
---|
1076 | end |
---|
1077 | end |
---|
1078 | else |
---|
1079 | for ipair=1:nbpair |
---|
1080 | if select(ipair) |
---|
1081 | displ_pair{ipair}=['Di= ' num2str(-floor(ipair/2)) '|' num2str(ceil(ipair/2)) ' :dt= ' num2str(dt_unit*ipair)]; |
---|
1082 | else |
---|
1083 | displ_pair{ipair}='...'; %pair not displayed in the menu |
---|
1084 | end |
---|
1085 | end |
---|
1086 | end |
---|
1087 | elseif isequal(mode,'series(Dj)')%|isequal(mode,'st_series(Dj)')% series on the j index |
---|
1088 | if testpair |
---|
1089 | displ_pair{1}=['Dj= ' num2str(-floor(browse.incr_pair(1)/2)) '|' num2str(ceil(browse.incr_pair(1)/2))]; |
---|
1090 | else |
---|
1091 | for ipair=1:nbpair |
---|
1092 | if select(ipair) |
---|
1093 | if size(time,1)>=ref_i+displ_num(4,ipair) && size(time,2)>=ref_j+displ_num(2,ipair) |
---|
1094 | dt=time(ref_i+displ_num(4,ipair),ref_j+displ_num(2,ipair))-time(ref_i+displ_num(3,ipair),ref_j+displ_num(1,ipair));%time interval dt |
---|
1095 | displ_pair{ipair}=['Dj= ' num2str(-floor(ipair/2)) '|' num2str(ceil(ipair/2)) ' :dt= ' num2str(dt*1000)]; |
---|
1096 | end |
---|
1097 | elseif testpair |
---|
1098 | displ_pair{1}=['Dj= ' num2str(-floor(browse.incr_pair(2)/2)) '|' num2str(ceil(browse.incr_pair(2)/2))]; |
---|
1099 | else |
---|
1100 | displ_pair{ipair}='...'; %pair not displayed in the menu |
---|
1101 | end |
---|
1102 | end |
---|
1103 | end |
---|
1104 | elseif isequal(mode,'pair j1-j2')%|isequal(mode,'st_pair j1-j2')%case of pairs |
---|
1105 | for ipair=1:nbpair |
---|
1106 | if select(ipair) |
---|
1107 | dt=time(ref_i+displ_num(4,ipair),displ_num(2,ipair))-time(ref_i+displ_num(3,ipair),displ_num(1,ipair));%time interval dt |
---|
1108 | displ_pair{ipair}=['j= ' num2stra(displ_num(1,ipair),nom_type_ima) '-' num2stra(displ_num(2,ipair),nom_type_ima) ... |
---|
1109 | ' :dt= ' num2str(dt*1000)]; |
---|
1110 | else |
---|
1111 | displ_pair{ipair}='...'; %pair not displayed in the menu |
---|
1112 | end |
---|
1113 | end |
---|
1114 | elseif isequal(mode,'displacement') |
---|
1115 | displ_pair={'Di=Dj=0'}; |
---|
1116 | end |
---|
1117 | set(handles.list_pair_civ1,'String',displ_pair'); |
---|
1118 | ichoice=min(find(select)); |
---|
1119 | if (isempty(ichoice) | ichoice < 1); ichoice=1; end; |
---|
1120 | initial=get(handles.list_pair_civ1,'Value'); |
---|
1121 | if initial>nbpair |~isequal(select(initial),1) |
---|
1122 | set(handles.list_pair_civ1,'Value',ichoice);% first valid pair proposed by default in the menu |
---|
1123 | end |
---|
1124 | %set(handles.list_pair_civ2,'String',displ_pair'); |
---|
1125 | initial=get(handles.list_pair_civ2,'Value'); |
---|
1126 | if initial>length(displ_pair')%|~isequal(select(initial),1) |
---|
1127 | if ichoice <= length(displ_pair') |
---|
1128 | set(handles.list_pair_civ2,'Value',ichoice);% same pair proposed by default for civ2 |
---|
1129 | else |
---|
1130 | set(handles.list_pair_civ2,'Value',1);% same pair proposed by default for civ2 |
---|
1131 | end |
---|
1132 | end |
---|
1133 | set(handles.list_pair_civ2,'String',displ_pair'); |
---|
1134 | set(gcf,'Pointer','arrow') |
---|
1135 | |
---|
1136 | %------------------------------------------------------------------------ |
---|
1137 | % determine the menu for civ2 pairs depending on the existing netcdf file at the |
---|
1138 | %middle of the series set by first_i, incr, last_i |
---|
1139 | function find_netcpair_civ2(hObject, eventdata, handles) |
---|
1140 | %------------------------------------------------------------------------ |
---|
1141 | set(gcf,'Pointer','watch') |
---|
1142 | %nomenclature types |
---|
1143 | filebase=get(handles.displ_filebase,'String'); |
---|
1144 | [filepath,Nme,ext_dir]=fileparts(filebase); |
---|
1145 | browse=get(handles.browse_root,'UserData'); |
---|
1146 | compare_list=get(handles.compare,'String'); |
---|
1147 | val=get(handles.compare,'Value'); |
---|
1148 | compare=compare_list{val}; |
---|
1149 | if strcmp(compare,'displacement') |
---|
1150 | mode='displacement'; |
---|
1151 | else |
---|
1152 | mode_list=get(handles.mode,'String'); |
---|
1153 | mode_value=get(handles.mode,'Value'); |
---|
1154 | mode=mode_list{mode_value}; |
---|
1155 | end |
---|
1156 | |
---|
1157 | % nomenclature type of the .nc files |
---|
1158 | nom_type_ima='ima_num';%default |
---|
1159 | if isfield(browse,'nom_type_ima') |
---|
1160 | nom_type_ima=browse.nom_type_ima; |
---|
1161 | end |
---|
1162 | nom_type_nc='_i1-i2';%default |
---|
1163 | if isfield(browse,'nom_type_nc') |
---|
1164 | nom_type_nc=browse.nom_type_nc; |
---|
1165 | end |
---|
1166 | if isequal(nom_type_ima,'png_old') | isequal(nom_type_ima,'netc_old')| isequal(nom_type_ima,'raw_SMD')| isequal(nom_type_nc,'netc_old') |
---|
1167 | nom_type_nc='netc_old';%nom_type for the netcdf files |
---|
1168 | elseif isequal(nom_type_ima,'none')|isequal(nom_type_nc,'none') |
---|
1169 | nom_type_nc='none'; |
---|
1170 | elseif isequal(nom_type_ima,'avi')|isequal(nom_type_ima,'_i')|isequal(nom_type_ima,'ima_num')|isequal(nom_type_nc,'_i1-i2') |
---|
1171 | nom_type_nc='_i1-i2'; |
---|
1172 | else |
---|
1173 | if isequal(mode,'series(Di)')%|isequal(mode,'st_series(Di)') |
---|
1174 | nom_type_nc='_i1-i2_j'; % PIV in volume |
---|
1175 | else |
---|
1176 | nom_type_nc='_i_j1-j2'; |
---|
1177 | end |
---|
1178 | end |
---|
1179 | browse.nom_type_nc=nom_type_nc; |
---|
1180 | set(handles.browse_root,'UserData',browse) |
---|
1181 | |
---|
1182 | %reads .nc subdirectory and image numbers from the interface |
---|
1183 | subdir_civ1=get(handles.subdir_civ1,'String');%subdirectory subdir_civ1 for the netcdf data |
---|
1184 | subdir_civ2=get(handles.subdir_civ2,'String');%subdirectory subdir_civ2 for the netcdf data |
---|
1185 | first_i=str2num(get(handles.first_i,'String')); |
---|
1186 | last_i=str2num(get(handles.last_i,'String')); |
---|
1187 | incr=str2num(get(handles.incr_i,'String')); |
---|
1188 | num1=first_i:incr:last_i; |
---|
1189 | if isempty(num1) |
---|
1190 | set(handles.list_pair_civ2,'Value',1); |
---|
1191 | set(handles.list_pair_civ2,'String',{''}); |
---|
1192 | return |
---|
1193 | end |
---|
1194 | ref_i=str2num(get(handles.ref_i,'String')); |
---|
1195 | if isequal(mode,'pair j1-j2')%|isequal(mode,'st_pair j1-j2') |
---|
1196 | ref_j=0; |
---|
1197 | else |
---|
1198 | ref_j=str2num(get(handles.ref_j,'String')); |
---|
1199 | end |
---|
1200 | if isequal(get(handles.dt_text,'String'),'dt(ms)=')%simple series(Di) with equal interval |
---|
1201 | ref_i=ceil((first_i+last_i)/2); |
---|
1202 | ref_j=1; |
---|
1203 | end |
---|
1204 | % ref_i=browse.num_ref;%field number initially selected by the browser |
---|
1205 | time=get(handles.displ_filebase,'UserData'); %get the set of times |
---|
1206 | if isempty(time) |
---|
1207 | time=[0 1];%default |
---|
1208 | end |
---|
1209 | dt_unit=str2num(get(handles.dt,'String'));% used when there is no image documentation file |
---|
1210 | displ_num=get(handles.list_pair_civ1,'UserData'); |
---|
1211 | |
---|
1212 | |
---|
1213 | %eliminate the first pairs inconsistent with the position |
---|
1214 | if isempty(displ_num) |
---|
1215 | nbpair=0; |
---|
1216 | else |
---|
1217 | nbpair=length(displ_num(1,:));%nbre of displayed pairs |
---|
1218 | if isequal(mode,'series(Di)')% | isequal(mode,'st_series(Di)') |
---|
1219 | nbpair=min(2*ref_i-1,nbpair);%limit the number of pairs with positive first index |
---|
1220 | elseif isequal(mode,'series(Dj)')% | isequal(mode,'st_series(Dj)') |
---|
1221 | nbpair=min(2*ref_j-1,nbpair);%limit the number of pairs with positive first index |
---|
1222 | end |
---|
1223 | end |
---|
1224 | nbpair=min(200,nbpair);%limit the number of displayed pairs to 200 |
---|
1225 | |
---|
1226 | %look for existing processed pairs involving the field at the middle of the series if civ1 will not |
---|
1227 | % be performed, while the result is needed for next steps. |
---|
1228 | displ_pair={''}; %default |
---|
1229 | select=ones(size(1:nbpair));%default =1 for numbers of displayed pairs |
---|
1230 | if get(handles.CIV2,'Value')==0 & get(handles.CIV1,'Value')==0 & get(handles.FIX1,'Value')==0 & get(handles.PATCH1,'Value')==0%&... |
---|
1231 | if ~exist(fullfile(filepath,subdir_civ2,ext_dir),'dir') |
---|
1232 | errordlg(['no civ2 file available: subdirectory ' subdir_civ2 ' does not exist']) |
---|
1233 | set(handles.list_pair_civ2,'Value',1); |
---|
1234 | set(handles.list_pair_civ2,'String',{''}); |
---|
1235 | return |
---|
1236 | end |
---|
1237 | for ipair=1:nbpair |
---|
1238 | filename=name_generator(filebase,ref_i+displ_num(3,ipair),ref_j+displ_num(1,ipair),'.nc',nom_type_nc,1,... |
---|
1239 | ref_i+displ_num(4,ipair),ref_j+displ_num(2,ipair),subdir_civ1); |
---|
1240 | select(ipair)=exist(filename,'file')==2; |
---|
1241 | end |
---|
1242 | if isequal(select,zeros(size(1:nbpair))) |
---|
1243 | if isfield(browse,'incr_pair') |
---|
1244 | num_i1=ref_i-floor(browse.incr_pair(1)/2); |
---|
1245 | num_i2=ref_i+floor((browse.incr_pair(1)+1)/2); |
---|
1246 | num_j1=ref_j-floor(browse.incr_pair(2)/2); |
---|
1247 | num_j2=ref_j+floor((browse.incr_pair(2)+1)/2); |
---|
1248 | filename=name_generator(filebase,num_i1,num_j1,'.nc',nom_type_nc,1,num_i2,num_j2,subdir_civ2); |
---|
1249 | select(1)=exist(filename,'file')==2; |
---|
1250 | else |
---|
1251 | if isequal(mode,'series(Dj)')% | isequal(mode,'st_series(Dj)') |
---|
1252 | errordlg(['no civ2 file available for the selected reference index j=' num2str(ref_j) ' and subdirectory ' subdir_civ2]) |
---|
1253 | else |
---|
1254 | errordlg(['no civ2 file available for the selected reference index i=' num2str(ref_i) ' and subdirectory ' subdir_civ2]) |
---|
1255 | end |
---|
1256 | set(handles.list_pair_civ2,'Value',1); |
---|
1257 | set(handles.list_pair_civ2,'String',{''}); |
---|
1258 | return |
---|
1259 | end |
---|
1260 | end |
---|
1261 | end |
---|
1262 | if isequal(mode,'series(Di)') % | isequal(mode,'st_series(Di)') |
---|
1263 | % if ~isequal(get(handles.dt_text,'String'),'dt(ms)=') |
---|
1264 | for ipair=1:nbpair |
---|
1265 | if select(ipair) |
---|
1266 | if size(time,1)>=ref_i+displ_num(4,ipair) && size(time,2)>=ref_j+displ_num(2,ipair) |
---|
1267 | dt=time(ref_i+displ_num(4,ipair),ref_j+displ_num(2,ipair))-time(ref_i+displ_num(3,ipair),ref_j+displ_num(1,ipair));%time interval dt |
---|
1268 | displ_pair{ipair}=['Di= ' num2str(-floor(ipair/2)) '|' num2str(ceil(ipair/2)) ' :dt= ' num2str(dt*1000)]; |
---|
1269 | end |
---|
1270 | else |
---|
1271 | displ_pair{ipair}='...'; %pair not displayed in the menu |
---|
1272 | end |
---|
1273 | end |
---|
1274 | elseif isequal(mode,'series(Dj)') %| isequal(mode,'st_series(Dj)') % series on the j index |
---|
1275 | for ipair=1:nbpair |
---|
1276 | if select(ipair) |
---|
1277 | if size(time,1)>=ref_i+displ_num(4,ipair) && size(time,2)>=ref_j+displ_num(2,ipair) |
---|
1278 | dt=time(ref_i+displ_num(4,ipair),ref_j+displ_num(2,ipair))-time(ref_i+displ_num(3,ipair),ref_j+displ_num(1,ipair));%time interval dt |
---|
1279 | displ_pair{ipair}=['Dj= ' num2str(-floor(ipair/2)) '|' num2str(ceil(ipair/2)) ' :dt= ' num2str(dt*1000)]; |
---|
1280 | end |
---|
1281 | else |
---|
1282 | displ_pair{ipair}='...'; %pair not displayed in the menu |
---|
1283 | end |
---|
1284 | end |
---|
1285 | elseif isequal(mode,'pair j1-j2')% | isequal(mode,'st_pair j1-j2') %case of pairs |
---|
1286 | for ipair=1:nbpair |
---|
1287 | if select(ipair) |
---|
1288 | dt=time(ref_i+displ_num(4,ipair),displ_num(2,ipair))-time(ref_i+displ_num(3,ipair),displ_num(1,ipair));%time interval dt |
---|
1289 | displ_pair{ipair}=['j= ' num2stra(displ_num(1,ipair),nom_type_ima) '-' num2stra(displ_num(2,ipair),nom_type_ima) ... |
---|
1290 | ' :dt= ' num2str(dt*1000)]; |
---|
1291 | else |
---|
1292 | displ_pair{ipair}='...'; %pair not displayed in the menu |
---|
1293 | end |
---|
1294 | end |
---|
1295 | elseif isequal(mode,'displacement') |
---|
1296 | displ_pair={'Di=Dj=0'}; |
---|
1297 | end |
---|
1298 | val=get(handles.list_pair_civ2,'Value'); |
---|
1299 | ichoice=min(find(select)); |
---|
1300 | if (isempty(ichoice) | ichoice < 1); ichoice=1; end; |
---|
1301 | if get(handles.CIV2,'Value')==0 & get(handles.CIV1,'Value')==0 & get(handles.FIX1,'Value')==0 & get(handles.PATCH1,'Value')==0 |
---|
1302 | val=ichoice;% first valid pair proposed by default in the menu |
---|
1303 | end |
---|
1304 | if val>length(displ_pair') |
---|
1305 | set(handles.list_pair_civ2,'Value',1);% first valid pair proposed by default in the menu |
---|
1306 | else |
---|
1307 | set(handles.list_pair_civ2,'Value',val); |
---|
1308 | end |
---|
1309 | set(handles.list_pair_civ2,'String',displ_pair'); |
---|
1310 | set(gcf,'Pointer','arrow') |
---|
1311 | |
---|
1312 | %------------------------------------------------------------------------ |
---|
1313 | % determine the list of index pairs of processing file |
---|
1314 | function [num1_civ1,num2_civ1,num_a_civ1,num_b_civ1,num1_civ2,num2_civ2,num_a_civ2,num_b_civ2]=... |
---|
1315 | find_pair_indices(handles,mode) |
---|
1316 | %------------------------------------------------------------------------ |
---|
1317 | first_i=str2num(get(handles.first_i,'String'));%first index i |
---|
1318 | last_i=str2num(get(handles.last_i,'String'));%last index i |
---|
1319 | incr=str2num(get(handles.incr_i,'String'));% increment |
---|
1320 | num1=[first_i:incr:last_i];% list of i indices (reference values for each pair) |
---|
1321 | if isequal(get(handles.first_j,'Visible'),'on') |
---|
1322 | first_j=str2num(get(handles.first_j,'String'));%first index j |
---|
1323 | last_j=str2num(get(handles.last_j,'String'));%last index j |
---|
1324 | incr_j=str2num(get(handles.incr_j,'String'));% increment |
---|
1325 | else |
---|
1326 | first_j=1; |
---|
1327 | last_j=1; |
---|
1328 | incr_j=1; |
---|
1329 | end |
---|
1330 | num_j=[first_j:incr_j:last_j];% list of j indices (reference values for each pair) |
---|
1331 | list_civ1=get(handles.list_pair_civ1,'String'); |
---|
1332 | index_civ1=get(handles.list_pair_civ1,'Value'); |
---|
1333 | str_civ1=list_civ1{index_civ1};%string defining the image pairs for civ1 |
---|
1334 | if isempty(str_civ1)||isequal(str_civ1,'') |
---|
1335 | msgbox_uvmat('ERROR','no image pair selected for civ1') |
---|
1336 | return |
---|
1337 | end |
---|
1338 | list_civ2=get(handles.list_pair_civ2,'String'); |
---|
1339 | index_civ2=get(handles.list_pair_civ2,'Value'); |
---|
1340 | if index_civ2>length(list_civ2) |
---|
1341 | list_civ2=list_civ1; |
---|
1342 | index_civ2=index_civ1; |
---|
1343 | end |
---|
1344 | str_civ2=list_civ2{index_civ2};%string defining the image pairs for civ2 |
---|
1345 | if isempty(first_i)||isempty(first_j), msgbox_uvmat('ERROR','first field number not defined'),... |
---|
1346 | return,end; |
---|
1347 | if isequal(last_i,[])| isequal(last_j,[]),msgbox_uvmat('ERROR','last field number not defined'),... |
---|
1348 | return,end; |
---|
1349 | if isequal(incr,[])| isequal(incr_j,[]),msgbox_uvmat('ERROR','increment in field number not defined'),... |
---|
1350 | return,end; |
---|
1351 | if last_i < first_i | last_j < first_j , msgbox_uvmat('ERROR','last field number must be larger than the first one'),... |
---|
1352 | return,end; |
---|
1353 | if isequal (mode,'series(Di)') |
---|
1354 | %recognize the pair civ1 from the display |
---|
1355 | indsel=find((double(str_civ1)<48)|(double(str_civ1)>57));% character indices of non numerical characters |
---|
1356 | str_raw=str_civ1(indsel); |
---|
1357 | indsepar=find(str_raw=='|'); %character index of the separator |
---|
1358 | d1=str2num(str_civ1([indsel(indsepar-1)+1:indsel(indsepar)-1])); |
---|
1359 | if indsepar==length(str_raw) |
---|
1360 | d2=str2num(str_civ1([indsel(indsepar)+1:end])); |
---|
1361 | else |
---|
1362 | d2=str2num(str_civ1([indsel(indsepar)+1:indsel(indsepar+1)-1])); |
---|
1363 | end |
---|
1364 | num1_civ1=num1-d1;% set of first image numbers |
---|
1365 | num2_civ1=num1+d2; |
---|
1366 | num_a_civ1=num_j; |
---|
1367 | num_b_civ1=num_j; |
---|
1368 | |
---|
1369 | %recognize the pair civ2 from the display |
---|
1370 | indsel=find((double(str_civ2)<48)|(double(str_civ2)>57));% character indices of non numerical characters |
---|
1371 | str_raw=str_civ2(indsel); |
---|
1372 | indsepar=find(str_raw=='|'); %character index of the separator |
---|
1373 | d1=str2num(str_civ2([indsel(indsepar-1)+1:indsel(indsepar)-1])); |
---|
1374 | if indsepar==length(str_raw) |
---|
1375 | d2=str2num(str_civ2([indsel(indsepar)+1:end])); |
---|
1376 | else |
---|
1377 | d2=str2num(str_civ2([indsel(indsepar)+1:indsel(indsepar+1)-1])); |
---|
1378 | end |
---|
1379 | if isempty(d1) |
---|
1380 | num1_civ2=num1; |
---|
1381 | else |
---|
1382 | num1_civ2=num1-d1;% set of first image numbers |
---|
1383 | end |
---|
1384 | if isempty(d2) |
---|
1385 | num2_civ2=num1; |
---|
1386 | else |
---|
1387 | num2_civ2=num1+d2; |
---|
1388 | end |
---|
1389 | num_a_civ2=num_j; |
---|
1390 | num_b_civ2=num_j; |
---|
1391 | |
---|
1392 | % adjust the first and last field number |
---|
1393 | lastfield=str2num(get(handles.nb_field,'String')); |
---|
1394 | if isequal(lastfield,[]) |
---|
1395 | indsel=find((num1_civ1 >= 1)&(num1_civ2 >= 1)); |
---|
1396 | else |
---|
1397 | indsel=find((num2_civ1 <= lastfield)&(num2_civ2 <= lastfield)&(num1_civ1 >= 1)&(num1_civ2 >= 1)); |
---|
1398 | end |
---|
1399 | if length(indsel)>=1 |
---|
1400 | firstind=indsel(1); |
---|
1401 | lastind=indsel(end); |
---|
1402 | set(handles.first_i,'String',num2str(num1(firstind)))%update the display of first and last fields |
---|
1403 | set(handles.last_i,'String',num2str(num1(lastind))) |
---|
1404 | num1=num1(indsel); |
---|
1405 | num1_civ1=num1_civ1(indsel); |
---|
1406 | num1_civ2=num1_civ2(indsel); |
---|
1407 | num2_civ1=num2_civ1(indsel); |
---|
1408 | num2_civ2=num2_civ2(indsel); |
---|
1409 | end |
---|
1410 | elseif isequal (mode,'series(Dj)') |
---|
1411 | lastfield_j=str2num(get(handles.nb_field2,'String')); |
---|
1412 | num1_civ1=num1;% set of first image numbers |
---|
1413 | num2_civ1=num1; |
---|
1414 | num_a_civ1=num_j-floor(index_civ1/2)*ones(size(num_j)); |
---|
1415 | num_b_civ1=num_j+ceil(index_civ1/2)*ones(size(num_j)); |
---|
1416 | num1_civ2=num1; |
---|
1417 | num2_civ2=num1; |
---|
1418 | num_a_civ2=num_j-floor(index_civ2/2)*ones(size(num_j)); |
---|
1419 | num_b_civ2=num_j+ceil(index_civ2/2)*ones(size(num_j)); |
---|
1420 | % adjust the first and last field number |
---|
1421 | if isequal(lastfield_j,[]) |
---|
1422 | indsel=find((num_a_civ1 >= 1)&(num_a_civ2 >= 1)); |
---|
1423 | else |
---|
1424 | indsel=find((num_b_civ1 <= lastfield_j)&(num_b_civ2 <= lastfield_j)&(num_a_civ1 >= 1)&(num_a_civ2 >= 1)); |
---|
1425 | end |
---|
1426 | if length(indsel)>=1 |
---|
1427 | firstind=indsel(1); |
---|
1428 | lastind=indsel(end); |
---|
1429 | set(handles.first_j,'String',num2str(num_j(firstind)))%update the display of first and last fields |
---|
1430 | set(handles.last_j,'String',num2str(num_j(lastind))) |
---|
1431 | num_j=num_j(indsel); |
---|
1432 | num_a_civ1=num_a_civ1(indsel); |
---|
1433 | num_a_civ2=num_a_civ2(indsel); |
---|
1434 | num_b_civ1=num_b_civ1(indsel); |
---|
1435 | num_b_civ2=num_b_civ2(indsel); |
---|
1436 | end |
---|
1437 | elseif isequal(mode,'pair j1-j2') %case of bursts (png_old or png_2D) |
---|
1438 | num1_civ1=num1; |
---|
1439 | num1_civ2=num1; |
---|
1440 | displ_num=get(handles.list_pair_civ1,'UserData'); |
---|
1441 | num2_civ1=num1; |
---|
1442 | num_a_civ1=displ_num(1,index_civ1); |
---|
1443 | num_b_civ1=displ_num(2,index_civ1); |
---|
1444 | num2_civ2=num1; |
---|
1445 | num_a_civ2=displ_num(1,index_civ2); |
---|
1446 | num_b_civ2=displ_num(2,index_civ2); |
---|
1447 | elseif isequal(mode,'displacement') |
---|
1448 | num1_civ1=num1; |
---|
1449 | num2_civ1=num1; |
---|
1450 | num_a_civ1=num_j; |
---|
1451 | num_b_civ1=num_j; |
---|
1452 | num1_civ2=num1; |
---|
1453 | num2_civ2=num1; |
---|
1454 | num_a_civ2=num_j; |
---|
1455 | num_b_civ2=num_j; |
---|
1456 | end |
---|
1457 | 'TESTfind' |
---|
1458 | num1_civ1 |
---|
1459 | num2_civ1 |
---|
1460 | num_a_civ1 |
---|
1461 | num_b_civ1 |
---|
1462 | |
---|
1463 | %------------------------------------------------------------------------ |
---|
1464 | % --- Executes on selection change in list_pair_civ1. |
---|
1465 | function list_pair_civ1_Callback(hObject, eventdata, handles) |
---|
1466 | %------------------------------------------------------------------------ |
---|
1467 | %reproduce by default the chosen pair in the civ2 menu |
---|
1468 | list_pair=get(handles.list_pair_civ1,'String');%get the menu of image pairs |
---|
1469 | index_pair=get(handles.list_pair_civ1,'Value'); |
---|
1470 | displ_num=get(handles.list_pair_civ1,'UserData'); |
---|
1471 | num_a=displ_num(1,index_pair); |
---|
1472 | num_b=displ_num(2,index_pair); |
---|
1473 | list_pair2=get(handles.list_pair_civ2,'String');%get the menu of image pairs |
---|
1474 | if index_pair<=length(list_pair2) |
---|
1475 | set(handles.list_pair_civ2,'Value',index_pair); |
---|
1476 | end |
---|
1477 | |
---|
1478 | %update first_i and last_i according to the chosen image pairs |
---|
1479 | mode_list=get(handles.mode,'String'); |
---|
1480 | mode_value=get(handles.mode,'Value'); |
---|
1481 | mode=mode_list{mode_value}; |
---|
1482 | if isequal(mode,'series(Di)') |
---|
1483 | first_i=str2num(get(handles.first_i,'String')); |
---|
1484 | last_i=str2num(get(handles.last_i,'String')); |
---|
1485 | incr_i=str2num(get(handles.incr_i,'String')); |
---|
1486 | num1=first_i:incr_i:last_i; |
---|
1487 | lastfield=str2num(get(handles.nb_field,'String')); |
---|
1488 | if ~isequal(lastfield,[]) |
---|
1489 | ind=find((num1-floor(index_pair/2)*ones(size(num1))>0)& ... |
---|
1490 | (num1+ceil(index_pair/2)*ones(size(num1))<=lastfield)); |
---|
1491 | num1=num1(ind); |
---|
1492 | end |
---|
1493 | set(handles.first_i,'String',num2str(num1(1))); |
---|
1494 | set(handles.last_i,'String',num2str(num1(end))); |
---|
1495 | elseif isequal(mode,'series(Dj)') |
---|
1496 | first_j=str2num(get(handles.first_j,'String')); |
---|
1497 | last_j=str2num(get(handles.last_j,'String')); |
---|
1498 | incr_j=str2num(get(handles.incr_j,'String')); |
---|
1499 | num_j=first_j:incr_j:last_j; |
---|
1500 | lastfield2=str2num(get(handles.nb_field2,'String')); |
---|
1501 | if ~isequal(lastfield2,[]) |
---|
1502 | ind=find((num_j-floor(index_pair/2)*ones(size(num_j))>0)& ... |
---|
1503 | (num_j+ceil(index_pair/2)*ones(size(num_j))<=lastfield2)); |
---|
1504 | num1=num_j(ind); |
---|
1505 | end |
---|
1506 | set(handles.first_j,'String',num2str(num1(1))); |
---|
1507 | set(handles.last_j,'String',num2str(num1(end))); |
---|
1508 | end |
---|
1509 | |
---|
1510 | %------------------------------------------------------------------------ |
---|
1511 | % --- Executes on selection change in list_pair_civ2. |
---|
1512 | function list_pair_civ2_Callback(hObject, eventdata, handles) |
---|
1513 | %------------------------------------------------------------------------ |
---|
1514 | index_pair=get(handles.list_pair_civ2,'Value');%get the selected position index in the menu |
---|
1515 | |
---|
1516 | %update first_i and last_i according to the chosen image pairs |
---|
1517 | mode_list=get(handles.mode,'String'); |
---|
1518 | mode_value=get(handles.mode,'Value'); |
---|
1519 | mode=mode_list{mode_value}; |
---|
1520 | if isequal(mode,'series(Di)') |
---|
1521 | first_i=str2num(get(handles.first_i,'String')); |
---|
1522 | last_i=str2num(get(handles.last_i,'String')); |
---|
1523 | incr_i=str2num(get(handles.incr_i,'String')); |
---|
1524 | num1=first_i:incr_i:last_i; |
---|
1525 | lastfield=str2num(get(handles.nb_field,'String')); |
---|
1526 | if ~isequal(lastfield,[]) |
---|
1527 | ind=find((num1-floor(index_pair/2)*ones(size(num1))>0)& ... |
---|
1528 | (num1+ceil(index_pair/2)*ones(size(num1))<=lastfield)); |
---|
1529 | num1=num1(ind); |
---|
1530 | end |
---|
1531 | set(handles.first_i,'String',num2str(num1(1))); |
---|
1532 | set(handles.last_i,'String',num2str(num1(end))); |
---|
1533 | elseif isequal(mode,'series(Dj)') |
---|
1534 | first_j=str2num(get(handles.first_j,'String')); |
---|
1535 | last_j=str2num(get(handles.last_j,'String')); |
---|
1536 | incr_j=str2num(get(handles.incr_j,'String')); |
---|
1537 | num_j=first_j:incr_j:last_j; |
---|
1538 | lastfield2=str2num(get(handles.nb_field2,'String')); |
---|
1539 | if ~isequal(lastfield2,[]) |
---|
1540 | ind=find((num_j-floor(index_pair/2)*ones(size(num_j))>0)& ... |
---|
1541 | (num_j+ceil(index_pair/2)*ones(size(num_j))<=lastfield2)); |
---|
1542 | num1=num_j(ind); |
---|
1543 | end |
---|
1544 | set(handles.first_j,'String',num2str(num1(1))); |
---|
1545 | set(handles.last_j,'String',num2str(num1(end))); |
---|
1546 | end |
---|
1547 | |
---|
1548 | %------------------------------------------------------------------------ |
---|
1549 | % --- Executes on button press in RUN. |
---|
1550 | function RUN_Callback(hObject, eventdata, handles) |
---|
1551 | %------------------------------------------------------------------------ |
---|
1552 | global civ1_exe civ2_exe patch_exe patch_new_exe sge |
---|
1553 | |
---|
1554 | compare=get(handles.compare,'Value');%test for usual PIV (compare=1) or displacement (=2) or stereo PIV (=3) |
---|
1555 | %check the list of operations: |
---|
1556 | operations={'CIV1','FIX1','PATCH1','CIV2','FIX2','PATCH2'}; |
---|
1557 | run_flag=1; |
---|
1558 | box_test(1)=get(handles.CIV1,'Value'); |
---|
1559 | box_test(2)=get(handles.FIX1,'Value'); |
---|
1560 | box_test(3)=get(handles.PATCH1,'Value'); |
---|
1561 | box_test(4)=get(handles.CIV2,'Value'); |
---|
1562 | box_test(5)=get(handles.FIX2,'Value'); |
---|
1563 | box_test(6)=get(handles.PATCH2,'Value'); |
---|
1564 | index=find(box_test==1); |
---|
1565 | if isempty(index) |
---|
1566 | msgbox_uvmat('ERROR','no selected operation') |
---|
1567 | return |
---|
1568 | end |
---|
1569 | index_first=min(index); |
---|
1570 | index_last=max(index); |
---|
1571 | box_used=box_test([index_first : index_last]); |
---|
1572 | [box_missing,ind_missing]=min(box_used); |
---|
1573 | if isequal(box_missing,0) |
---|
1574 | msgbox_uvmat('ERROR',['missing' cell2mat(operations(ind_missing))]); |
---|
1575 | return |
---|
1576 | end |
---|
1577 | |
---|
1578 | %root name |
---|
1579 | filebase=get(handles.displ_filebase,'String'); |
---|
1580 | if isempty(filebase)||isequal(filebase,'') |
---|
1581 | msgbox_uvmat('ERROR','no input files') |
---|
1582 | return |
---|
1583 | end |
---|
1584 | %check mask if selecetd |
---|
1585 | if isequal(get(handles.get_mask_civ1,'Value'),1) |
---|
1586 | maskname=get(handles.mask_civ1,'String'); |
---|
1587 | if ~exist(maskname,'file') |
---|
1588 | get_mask_civ1_Callback(hObject, eventdata, handles); |
---|
1589 | end |
---|
1590 | end |
---|
1591 | if isequal(get(handles.get_mask_fix1,'Value'),1) |
---|
1592 | maskname=get(handles.mask_fix1,'String'); |
---|
1593 | if ~exist(maskname,'file') |
---|
1594 | get_mask_fix1_Callback(hObject, eventdata, handles); |
---|
1595 | end |
---|
1596 | end |
---|
1597 | if isequal(get(handles.get_mask_civ2,'Value'),1) |
---|
1598 | maskname=get(handles.mask_civ2,'String'); |
---|
1599 | if ~exist(maskname,'file') |
---|
1600 | get_mask_civ2_Callback(hObject, eventdata, handles); |
---|
1601 | end |
---|
1602 | end |
---|
1603 | if isequal(get(handles.get_mask_fix2,'Value'),1) |
---|
1604 | maskname=get(handles.mask_fix2,'String'); |
---|
1605 | if ~exist(maskname,'file') |
---|
1606 | get_mask_fix2_Callback(hObject, eventdata, handles); |
---|
1607 | end |
---|
1608 | end |
---|
1609 | |
---|
1610 | %read names of the .exe file |
---|
1611 | if box_test(1)==1 | box_test(3)==1 | box_test(4)==1 | box_test(6)==1 |
---|
1612 | path_uvmat=which('uvmat');% check the path detected for source file uvmat |
---|
1613 | path_UVMAT=fileparts(path_uvmat); %path to UVMAT |
---|
1614 | if isunix |
---|
1615 | %fid = fopen(fullfile(path_UVMAT,'PARAM_LINUX.txt'),'r');%open the file with civ binary names |
---|
1616 | xmlfile=fullfile(path_UVMAT,'PARAM_LINUX.xml'); |
---|
1617 | if exist(xmlfile,'file') |
---|
1618 | t=xmltree(xmlfile); |
---|
1619 | sparam=convert(t); |
---|
1620 | end |
---|
1621 | else |
---|
1622 | %fid = fopen(fullfile(path_UVMAT,'PARAM_WIN.txt'),'r');%open the file with civ binary names |
---|
1623 | xmlfile=fullfile(path_UVMAT,'PARAM_WIN.xml'); |
---|
1624 | if exist(xmlfile,'file') |
---|
1625 | t=xmltree(xmlfile); |
---|
1626 | sparam=convert(t); |
---|
1627 | end |
---|
1628 | end |
---|
1629 | if isfield(sparam,'Civ1_exe') |
---|
1630 | civ1_exe=sparam.Civ1_exe; |
---|
1631 | end |
---|
1632 | if isfield(sparam,'Civ2_exe') |
---|
1633 | civ2_exe=sparam.Civ2_exe; |
---|
1634 | end |
---|
1635 | if isfield(sparam,'Patch_exe') |
---|
1636 | patch_exe=sparam.Patch_exe; |
---|
1637 | end |
---|
1638 | if isfield(sparam,'Stinterp_exe') |
---|
1639 | stinterp_exe=sparam.Stinterp_exe; |
---|
1640 | end |
---|
1641 | if isfield(sparam,'SGE') |
---|
1642 | sge=str2num(sparam.SGE); |
---|
1643 | end |
---|
1644 | if ~isunix % for windows system, check whether the Matlab working dir is a UBC name |
---|
1645 | dircur=pwd; |
---|
1646 | if ~isequal(dircur([2 3]),':\') |
---|
1647 | msgbox_uvmat('ERROR','move to a Matlab current working directory with a Windows name, e.g. m:/...') |
---|
1648 | return; |
---|
1649 | end |
---|
1650 | end |
---|
1651 | end |
---|
1652 | |
---|
1653 | %initialize the waitbars |
---|
1654 | set(handles.waitbar_1,'Position',[0.946 0.877 0.03 0.001]) |
---|
1655 | set(handles.waitbar_patch1,'Position',[0.946 0.626 0.03 0.001]) |
---|
1656 | set(handles.waitbar_civ2,'Position',[0.946 0.406 0.03 0.001]) |
---|
1657 | set(handles.waitbar_patch2,'Position',[0.946 0.187 0.03 0.001]) |
---|
1658 | set(handles.RUN,'BackgroundColor',[0.831 0.816 0.784]) |
---|
1659 | set(handles.RUN, 'Enable','Off') |
---|
1660 | drawnow |
---|
1661 | |
---|
1662 | % get the list of file names and check the files |
---|
1663 | display('checking the files...') |
---|
1664 | [filecell,num1_civ1,num2_civ1,num_a_civ1,num_b_civ1,num1_civ2,num2_civ2,num_a_civ2,num_b_civ2,nom_type_nc,file_ref_fix1,file_ref_fix2]=... |
---|
1665 | set_civ_filenames(handles,compare,box_test); |
---|
1666 | 'TESTnbre_RUN' |
---|
1667 | nbfield=size(num1_civ1,2) |
---|
1668 | nbslice=size(num1_civ1,1) |
---|
1669 | |
---|
1670 | if isempty(filecell) |
---|
1671 | set(handles.RUN, 'Enable','On') |
---|
1672 | set(handles.RUN,'BackgroundColor',[1 0 0]) |
---|
1673 | set(handles.BATCH, 'Enable','On') |
---|
1674 | set(handles.BATCH,'BackgroundColor',[1 0 0]) |
---|
1675 | return |
---|
1676 | end |
---|
1677 | display('files OK, processing...') |
---|
1678 | nbfield=size(num1_civ1,2); |
---|
1679 | nbslice=size(num1_civ1,1); |
---|
1680 | |
---|
1681 | %RUN CIV1 |
---|
1682 | if box_test(1)==1 |
---|
1683 | RUN_CIV1(handles,filecell.ima1.civ1,filecell.ima2.civ1,filecell.nc.civ1,num1_civ1,num2_civ1,num_a_civ1,num_b_civ1,nom_type_nc) |
---|
1684 | if compare==3 |
---|
1685 | RUN_CIV1(handles,filecell.imaA1.civ1,filecell.imaA2.civ1,filecell.ncA.civ1,num1_civ1,num2_civ1,num_a_civ1,num_b_civ1,nom_type_nc) |
---|
1686 | end |
---|
1687 | end |
---|
1688 | |
---|
1689 | %RUN FIX1 |
---|
1690 | if box_test(2)==1 |
---|
1691 | filebase=get(handles.displ_filebase,'String'); |
---|
1692 | %names of the civ1 fields |
---|
1693 | field1.vel_type='civ1'; |
---|
1694 | field1.nb='nb_vectors'; |
---|
1695 | field1.X='vec_X'; |
---|
1696 | field1.Y='vec_Y'; |
---|
1697 | field1.U='vec_U'; |
---|
1698 | field1.V='vec_V'; |
---|
1699 | field1.fixflag='vec_FixFlag'; |
---|
1700 | flagindex(1)=get(handles.vec_Fmin2, 'Value'); |
---|
1701 | flagindex(2)=get(handles.vec_F3, 'Value'); |
---|
1702 | flagindex(3)=get(handles.vec_F2, 'Value'); |
---|
1703 | thresh_vecC=str2num(get(handles.thresh_vecC,'String'));%threshold on image correlation vec_C |
---|
1704 | thresh_vel=str2num(get(handles.thresh_vel,'String'));%threshold on velocity modulus |
---|
1705 | inf_sup=get(handles.inf_sup1,'Value'); |
---|
1706 | menu=get(handles.field_ref1,'String'); |
---|
1707 | index=get(handles.field_ref1,'Value'); |
---|
1708 | if isempty(menu) |
---|
1709 | fieldchoice=''; |
---|
1710 | else |
---|
1711 | fieldchoice=menu{index}; |
---|
1712 | end |
---|
1713 | h = waitbar(0,['removing velocity vectors, fix1']);% display a wait bar |
---|
1714 | test_mask=get(handles.get_mask_fix1,'Value'); |
---|
1715 | if test_mask |
---|
1716 | maskdispl=get(handles.mask_fix1,'String'); |
---|
1717 | if exist(maskdispl,'file') |
---|
1718 | test_mask=2; |
---|
1719 | maskname=maskdispl; |
---|
1720 | else |
---|
1721 | maskbase=[get(handles.displ_filebase,'String') '_' maskdispl]; % mask root name |
---|
1722 | end |
---|
1723 | end |
---|
1724 | for ifile=1:nbfield |
---|
1725 | waitbar(ifile/nbfield); %update the waitbar |
---|
1726 | for j=1:nbslice |
---|
1727 | if test_mask==0 |
---|
1728 | maskname='noFile use default'; |
---|
1729 | maskflag=0; |
---|
1730 | elseif test_mask==1 |
---|
1731 | nbslice_mask=str2num(maskdispl(1:end-4)); % |
---|
1732 | num1_mask=mod(num1_civ1(ifile)-1,nbslice_mask)+1; |
---|
1733 | maskname=name_generator(maskbase,num1_mask,1,'.png','_i');% mask corresponding to the first image of the pair |
---|
1734 | maskflag= exist(maskname,'file')==2; |
---|
1735 | if ~maskflag; |
---|
1736 | maskname='noFile use default'; |
---|
1737 | end |
---|
1738 | end |
---|
1739 | if ~isempty(file_ref_fix1) |
---|
1740 | file_ref=file_ref_fix1{ifile,j}; |
---|
1741 | else |
---|
1742 | file_ref=''; |
---|
1743 | end |
---|
1744 | error=RUN_FIX(filecell.nc.civ1{ifile,j},field1,flagindex,1,thresh_vecC,maskflag,maskname,... |
---|
1745 | thresh_vel,inf_sup,file_ref,fieldchoice); |
---|
1746 | |
---|
1747 | if compare==3 &&(isequal(mode,'pair j1-j2') || isequal(mode,'series(Dj)') || isequal(mode,'series(Di)')) |
---|
1748 | if test_mask==0 |
---|
1749 | maskname='noFile use default'; |
---|
1750 | maskflag=0; |
---|
1751 | else |
---|
1752 | maskbase=[get(handles.displ_filebase2,'String') '_' maskdispl]; % mask root name |
---|
1753 | nbslice_mask=str2num(maskdispl(1:end-4)); % |
---|
1754 | num1_mask=mod(num1_civ1(ifile)-1,nbslice_mask)+1; |
---|
1755 | maskname=name_generator(maskbase,num1_mask,1,'.png','_i'); |
---|
1756 | maskflag= exist(maskname,'file')==2; |
---|
1757 | if ~maskflag; |
---|
1758 | maskname='noFile use default'; |
---|
1759 | end |
---|
1760 | end |
---|
1761 | error=RUN_FIX(filecell.ncA.civ1{ifile,j},field1,flagindex,1,thresh_vecC,maskflag,maskname,... |
---|
1762 | thresh_vel,inf_sup,file_ref,fieldchoice); |
---|
1763 | if ~isempty(error) |
---|
1764 | msgbox_uvmat('ERROR',error) |
---|
1765 | return |
---|
1766 | end |
---|
1767 | end |
---|
1768 | end |
---|
1769 | end |
---|
1770 | close(h) |
---|
1771 | end |
---|
1772 | |
---|
1773 | % RUN PATCH1 |
---|
1774 | if box_test(3)==1 |
---|
1775 | rho_patch1=str2num(get(handles.rho_patch1,'String')); |
---|
1776 | if isempty(rho_patch1) |
---|
1777 | rho_patch1='1000'; |
---|
1778 | set(handles.rho_patch1,'String','1') |
---|
1779 | else |
---|
1780 | rho_patch1=num2str(1000*rho_patch1); |
---|
1781 | end |
---|
1782 | nx_patch1=get(handles.nx_patch1,'String'); |
---|
1783 | if isequal(str2num(nx_patch1),[]) |
---|
1784 | nx_patch1='50' ;%default |
---|
1785 | set(handles.nx_patch1,'String','50'); |
---|
1786 | end |
---|
1787 | ny_patch1=get(handles.ny_patch1,'String'); |
---|
1788 | if isequal(str2num(ny_patch1),[]) |
---|
1789 | ny_patch1='50' ;%default |
---|
1790 | set(handles.ny_patch1,'String','50'); |
---|
1791 | end |
---|
1792 | subdomain_patch1=get(handles.subdomain_patch1,'String'); |
---|
1793 | thresh_patch1=get(handles.thresh_patch1,'String'); |
---|
1794 | test_interp=get(handles.test_interp,'Value'); |
---|
1795 | icount=0; |
---|
1796 | for ifile=1:nbfield |
---|
1797 | for j=1:nbslice |
---|
1798 | icount=icount+1; |
---|
1799 | barlength=0.188*icount/(nbfield*nbslice); |
---|
1800 | set(handles.waitbar_patch1,'Position',[0.946 0.627-barlength 0.03 barlength]) |
---|
1801 | drawnow |
---|
1802 | if isequal(get(handles.test_stereo1,'Value'),0) |
---|
1803 | cmd=RUN_PATCH(filecell.nc.civ1{ifile,j},nx_patch1,ny_patch1,rho_patch1,subdomain_patch1,thresh_patch1,test_interp); |
---|
1804 | s=-1; |
---|
1805 | if sge |
---|
1806 | [s,w]=unix(['qrsh -q -fast.q ' cmd]); |
---|
1807 | end |
---|
1808 | if s~=0 |
---|
1809 | display(['!' cmd]) |
---|
1810 | eval(['!' cmd]); |
---|
1811 | end |
---|
1812 | |
---|
1813 | %stereo case: |
---|
1814 | elseif isequal(get(handles.test_stereo1,'Value'),1) |
---|
1815 | if exist('stinterp_exe','var')%Prog Gauthier |
---|
1816 | cmd=RUN_STINTERP(stinterp_exe,filecell.ncA.civ1{ifile,j},filecell.nc.civ1{ifile,j},filecell.st{ifile,j},... |
---|
1817 | nx_patch1,ny_patch1,rho_patch1,subdomain_patch1,thresh_patch1,[filebase_A '.xml'],[filebase_B '.xml']); |
---|
1818 | display(['!' cmd]) |
---|
1819 | eval(['!' cmd]); |
---|
1820 | else |
---|
1821 | RUN_STLIN(filecell.ncA.civ1{ifile,j},filecell.nc.civ1{ifile,j},'civ1',filecell.st{ifile,j},... |
---|
1822 | str2num(nx_patch1),str2num(ny_patch1),str2num(thresh_patch1),[filebase_A '.xml'],[filebase_B '.xml']); |
---|
1823 | end |
---|
1824 | end |
---|
1825 | if compare==3 && isequal(get(handles.test_stereo1,'Value'),0) |
---|
1826 | cmd=RUN_PATCH(filecell.ncA.civ1{ifile,j},nx_patch1,ny_patch1,rho_patch1,subdomain_patch1,thresh_patch1,test_interp); |
---|
1827 | s=-1; |
---|
1828 | if sge |
---|
1829 | [s,w]=unix(['qrsh -q -fast.q ' cmd]); |
---|
1830 | end |
---|
1831 | if s~=0 |
---|
1832 | display(['!' cmd]) |
---|
1833 | eval(['!' cmd]); |
---|
1834 | end |
---|
1835 | end |
---|
1836 | end |
---|
1837 | end |
---|
1838 | end |
---|
1839 | |
---|
1840 | % CIV2 |
---|
1841 | if box_test(4)==1 |
---|
1842 | RUN_CIV2(handles,filecell.ima1.civ2,filecell.ima2.civ2,filecell.nc.civ1,filecell.nc.civ2,num1_civ2,num2_civ2,... |
---|
1843 | num_a_civ2,num_b_civ2,nom_type_nc) |
---|
1844 | end |
---|
1845 | |
---|
1846 | % FIX2 |
---|
1847 | if box_test(5)==1 |
---|
1848 | %names of the civ2 fields |
---|
1849 | field2.vel_type='civ2'; |
---|
1850 | field2.nb='nb_vectors2'; |
---|
1851 | field2.X='vec2_X'; |
---|
1852 | field2.Y='vec2_Y'; |
---|
1853 | field2.U='vec2_U'; |
---|
1854 | field2.V='vec2_V'; |
---|
1855 | field2.fixflag='vec2_FixFlag'; |
---|
1856 | flagindex(1)=get(handles.vec_Fmin2_2, 'Value'); |
---|
1857 | flagindex(2)=get(handles.vec_F3_2, 'Value'); |
---|
1858 | flagindex(3)=get(handles.vec_F4, 'Value'); |
---|
1859 | thresh_vec2C=str2num(get(handles.thresh_vec2C,'String'));%threshold on image correlation vec_C |
---|
1860 | thresh_vel2=str2num(get(handles.thresh_vel2,'String'));%threshold on velocity modulus |
---|
1861 | inf_sup=get(handles.inf_sup2,'Value'); |
---|
1862 | menu=get(handles.field_ref2,'String'); |
---|
1863 | index=get(handles.field_ref2,'Value'); |
---|
1864 | if isempty(menu) |
---|
1865 | fieldchoice=''; |
---|
1866 | else |
---|
1867 | fieldchoice=menu{index}; |
---|
1868 | end |
---|
1869 | h = waitbar(0,['removing velocity vectors, fix2']);% display a wait bar |
---|
1870 | test_mask=get(handles.get_mask_fix2,'Value'); |
---|
1871 | if test_mask |
---|
1872 | maskdispl=get(handles.mask_fix2,'String'); |
---|
1873 | if exist(maskdispl,'file') |
---|
1874 | test_mask=2; |
---|
1875 | maskname=maskdispl; |
---|
1876 | else |
---|
1877 | maskbase=[get(handles.displ_filebase,'String') '_' maskdispl]; % mask root name |
---|
1878 | end |
---|
1879 | end |
---|
1880 | for ifile=1:nbfield |
---|
1881 | waitbar(ifile/nbfield); %update the waitbar |
---|
1882 | for j=1:nbslice |
---|
1883 | if test_mask==0 |
---|
1884 | maskname='noFile use default'; |
---|
1885 | maskflag=0; |
---|
1886 | elseif test_mask==1 |
---|
1887 | nbslice_mask=str2num(maskdispl(1:end-4)); % |
---|
1888 | num1_mask=mod(num1_civ2(ifile)-1,nbslice_mask)+1; |
---|
1889 | maskname=name_generator(maskbase,num1_mask,1,'.png','_i'); |
---|
1890 | maskflag= exist(maskname,'file')==2; |
---|
1891 | if ~maskflag; |
---|
1892 | maskname='noFile use default'; |
---|
1893 | end |
---|
1894 | end |
---|
1895 | if ~isempty(file_ref_fix2) |
---|
1896 | file_ref=file_ref_fix2{ifile,j}; |
---|
1897 | else |
---|
1898 | file_ref=''; |
---|
1899 | end |
---|
1900 | error=RUN_FIX(filecell.nc.civ2{ifile,j},field2,flagindex,2,thresh_vec2C,maskflag,maskname,... |
---|
1901 | thresh_vel2,inf_sup,file_ref,fieldchoice); |
---|
1902 | if ~isempty(error) |
---|
1903 | msgbox_uvmat('ERROR',error) |
---|
1904 | return |
---|
1905 | end |
---|
1906 | if compare==3 |
---|
1907 | if test_mask==0 |
---|
1908 | maskname='noFile use default'; |
---|
1909 | maskflag=0; |
---|
1910 | else |
---|
1911 | maskbase=[get(handles.displ_filebase2,'String') '_' maskdispl]; % mask root name |
---|
1912 | nbslice_mask=str2num(maskdispl(1:end-4)); % |
---|
1913 | num1_mask=mod(num1_civ2(ifile)-1,nbslice_mask)+1; |
---|
1914 | maskname=name_generator(maskbase,num1_mask,1,'.png','_i'); |
---|
1915 | maskflag= exist(maskname,'file')==2; |
---|
1916 | if ~maskflag; |
---|
1917 | maskname='noFile use default'; |
---|
1918 | end |
---|
1919 | end |
---|
1920 | error=RUN_FIX(filecell.ncA.civ2{ifile,j},field2,flagindex,1,thresh_vec2C,maskflag,maskname,... |
---|
1921 | thresh_vel2,inf_sup,file_ref,fieldchoice); |
---|
1922 | if ~isempty(error) |
---|
1923 | msgbox_uvmat('ERROR',error) |
---|
1924 | return |
---|
1925 | end |
---|
1926 | end |
---|
1927 | end |
---|
1928 | end |
---|
1929 | close(h) |
---|
1930 | end |
---|
1931 | |
---|
1932 | %PATCH 2 |
---|
1933 | if box_test(6)==1 |
---|
1934 | rho_patch2=str2num(get(handles.rho_patch2,'String')); |
---|
1935 | if isempty(rho_patch2) |
---|
1936 | rho_patch2='1000'; |
---|
1937 | set(handles.rho_patch2,'String','1') |
---|
1938 | else |
---|
1939 | rho_patch2=num2str(1000*rho_patch2); |
---|
1940 | end |
---|
1941 | nx_patch2=get(handles.nx_patch2,'String'); |
---|
1942 | ny_patch2=get(handles.ny_patch2,'String'); |
---|
1943 | thresh_patch2=get(handles.thresh_patch2,'String'); |
---|
1944 | if isequal(str2num(nx_patch2),[]) |
---|
1945 | nx_patch2='50' ;%default |
---|
1946 | set(handles.nx_patch2,'String','50'); |
---|
1947 | end |
---|
1948 | if isequal(str2num(ny_patch2),[]) |
---|
1949 | ny_patch2='50' ;%default |
---|
1950 | set(handles.ny_patch2,'String','50'); |
---|
1951 | end |
---|
1952 | subdomain_patch2=get(handles.subdomain_patch2,'String'); |
---|
1953 | icount=0; |
---|
1954 | for ifile=1:nbfield |
---|
1955 | for j=1:nbslice |
---|
1956 | icount=icount+1; |
---|
1957 | barlength=0.188*icount/(nbfield*nbslice); |
---|
1958 | set(handles.waitbar_patch2,'Position',[0.946 0.188-barlength 0.03 barlength]) |
---|
1959 | drawnow |
---|
1960 | if compare~=3 | isequal(get(handles.test_stereo2,'Value'),0) |
---|
1961 | cmd=RUN_PATCH(filecell.nc.civ2{ifile,j},nx_patch2,ny_patch2,rho_patch2,subdomain_patch2,1,0); |
---|
1962 | s=-1; |
---|
1963 | if sge |
---|
1964 | [s,w]=unix(['qrsh -q -fast.q ' cmd]); |
---|
1965 | end |
---|
1966 | if s~=0 |
---|
1967 | display(['!' cmd]) |
---|
1968 | eval(['!' cmd]); |
---|
1969 | end |
---|
1970 | elseif compare==3 && isequal(get(handles.test_stereo2,'Value'),1) |
---|
1971 | if exist('stinterp_exe','var')%Prog Gauthier |
---|
1972 | cmd=RUN_STINTERP(stinterp_exe,filecell.ncA.civ2{ifile,j},filecell.nc.civ2{ifile,j},filecell.st{ifile,j},... |
---|
1973 | nx_patch2,ny_patch2,rho_patch2,subdomain_patch2,thresh_patch2,[filebase_A '.xml'],[filebase_B '.xml']); |
---|
1974 | display(['!' cmd]) |
---|
1975 | eval(['!' cmd]) |
---|
1976 | else |
---|
1977 | RUN_STLIN(filecell.ncA.civ2{ifile,j},filecell.nc.civ2{ifile,j},'civ2',filecell.st{ifile,j},... |
---|
1978 | str2num(nx_patch2),str2num(ny_patch2),str2num(thresh_patch2),[filebase_A '.xml'],[filebase_B '.xml']) |
---|
1979 | end |
---|
1980 | end |
---|
1981 | if compare==3 && isequal(get(handles.test_stereo2,'Value'),0) |
---|
1982 | cmd=RUN_PATCH(filecell.ncA.civ2{ifile,j},nx_patch2,ny_patch2,rho_patch2,subdomain_patch2,1,0); |
---|
1983 | s=-1; |
---|
1984 | if sge |
---|
1985 | [s,w]=unix(['qrsh -q -fast.q ' cmd]); |
---|
1986 | end |
---|
1987 | if s~=0 |
---|
1988 | display(['!' cmd]) |
---|
1989 | eval(['!' cmd]); |
---|
1990 | end |
---|
1991 | end |
---|
1992 | end |
---|
1993 | end |
---|
1994 | end |
---|
1995 | |
---|
1996 | set(handles.RUN, 'Enable','On') |
---|
1997 | set(handles.RUN,'BackgroundColor',[1 0 0]) |
---|
1998 | |
---|
1999 | %save the current interface setting as figure namefig, append .0 to the name if it already exists |
---|
2000 | if isfield(filecell,'st') |
---|
2001 | fileresu=filecell.st{1,1}; |
---|
2002 | elseif isfield(filecell,'nc') |
---|
2003 | if isfield(filecell.nc,'civ2') |
---|
2004 | fileresu=filecell.nc.civ2{1,1}; |
---|
2005 | else |
---|
2006 | fileresu=filecell.nc.civ1{1,1}; |
---|
2007 | end |
---|
2008 | end |
---|
2009 | [RootPath,RootFile,field_count,str2,str_a,str_b,ext,nom_type,subdir]=name2display(fileresu); |
---|
2010 | namedoc=fullfile(RootPath,subdir,RootFile); |
---|
2011 | detect=1; |
---|
2012 | while detect==1 |
---|
2013 | namefigfull=[namedoc '.fig']; |
---|
2014 | hh=dir(namefigfull); |
---|
2015 | if ~isempty(hh) |
---|
2016 | detect=1; |
---|
2017 | namedoc=[namedoc '.0']; |
---|
2018 | else |
---|
2019 | detect=0; |
---|
2020 | end |
---|
2021 | end |
---|
2022 | saveas(gcbf,namefigfull);%save the interface with name namefigfull (A CHANGER EN FICHIER .xml) |
---|
2023 | |
---|
2024 | %------------------------------------------------------------------------ |
---|
2025 | % --- Executes on button press in BATCH: remote processing |
---|
2026 | function BATCH_Callback(hObject, eventdata, handles) |
---|
2027 | %------------------------------------------------------------------------ |
---|
2028 | global civ1_exe civ2_exe patch_exe patch_new_exe fix_exe todo_path sge Civ_exe |
---|
2029 | compare=get(handles.compare,'Value');%test for usual PIV (compare=1) or displacement (=2) or stereo PIV (=3) |
---|
2030 | |
---|
2031 | %check the list of operations: |
---|
2032 | operations={'CIV1','FIX1','PATCH1','CIV2','FIX2','PATCH2'}; |
---|
2033 | run_flag=1; |
---|
2034 | box_test(1)=get(handles.CIV1,'Value'); |
---|
2035 | box_test(2)=get(handles.FIX1,'Value'); |
---|
2036 | box_test(3)=get(handles.PATCH1,'Value'); |
---|
2037 | box_test(4)=get(handles.CIV2,'Value'); |
---|
2038 | box_test(5)=get(handles.FIX2,'Value'); |
---|
2039 | box_test(6)=get(handles.PATCH2,'Value'); |
---|
2040 | index=find(box_test==1); |
---|
2041 | if isempty(index) |
---|
2042 | msgbox_uvmat('ERROR','no selected operation') |
---|
2043 | return |
---|
2044 | end |
---|
2045 | index_first=min(index); |
---|
2046 | index_last=max(index); |
---|
2047 | box_used=box_test([index_first : index_last]); |
---|
2048 | [box_missing,ind_missing]=min(box_used); |
---|
2049 | if isequal(box_missing,0) |
---|
2050 | msgbox_uvmat('ERROR',['missing' cell2mat(operations(ind_missing))]); |
---|
2051 | return |
---|
2052 | end |
---|
2053 | |
---|
2054 | %root name |
---|
2055 | filebase=get(handles.displ_filebase,'String'); |
---|
2056 | if isempty(filebase)||isequal(filebase,'') |
---|
2057 | msgbox_uvmat('ERROR','no input files') |
---|
2058 | return |
---|
2059 | end |
---|
2060 | |
---|
2061 | %check mask if selecetd |
---|
2062 | if isequal(get(handles.get_mask_civ1,'Value'),1) |
---|
2063 | maskname=get(handles.mask_civ1,'String'); |
---|
2064 | if ~exist(maskname,'file') |
---|
2065 | get_mask_civ1_Callback(hObject, eventdata, handles); |
---|
2066 | end |
---|
2067 | end |
---|
2068 | if isequal(get(handles.get_mask_fix1,'Value'),1) |
---|
2069 | maskname=get(handles.mask_fix1,'String'); |
---|
2070 | if ~exist(maskname,'file') |
---|
2071 | get_mask_fix1_Callback(hObject, eventdata, handles); |
---|
2072 | end |
---|
2073 | end |
---|
2074 | if isequal(get(handles.get_mask_civ2,'Value'),1) |
---|
2075 | maskname=get(handles.mask_civ2,'String'); |
---|
2076 | if ~exist(maskname,'file') |
---|
2077 | get_mask_civ2_Callback(hObject, eventdata, handles); |
---|
2078 | end |
---|
2079 | end |
---|
2080 | if isequal(get(handles.get_mask_fix2,'Value'),1) |
---|
2081 | maskname=get(handles.mask_fix2,'String'); |
---|
2082 | if ~exist(maskname,'file') |
---|
2083 | get_mask_fix2_Callback(hObject, eventdata, handles); |
---|
2084 | end |
---|
2085 | end |
---|
2086 | |
---|
2087 | %read names of the .exe file |
---|
2088 | path_uvmat=which('uvmat');% check the path detected for source file uvmat |
---|
2089 | path_UVMAT=fileparts(path_uvmat); %path to UVMAT |
---|
2090 | if isunix |
---|
2091 | xmlfile=fullfile(path_UVMAT,'PARAM_LINUX.xml'); |
---|
2092 | if exist(xmlfile,'file') |
---|
2093 | t=xmltree(xmlfile); |
---|
2094 | sparam=convert(t); |
---|
2095 | end |
---|
2096 | else |
---|
2097 | xmlfile=fullfile(path_UVMAT,'PARAM_WIN.xml'); |
---|
2098 | if exist(xmlfile,'file') |
---|
2099 | t=xmltree(xmlfile); |
---|
2100 | sparam=convert(t); |
---|
2101 | end |
---|
2102 | end |
---|
2103 | sge=0; |
---|
2104 | if isfield(sparam,'Civ_exe') |
---|
2105 | Civ_exe=sparam.Civ_exe; |
---|
2106 | end |
---|
2107 | if isfield(sparam,'Civ1_exe') |
---|
2108 | civ1_exe=sparam.Civ1_exe; |
---|
2109 | end |
---|
2110 | if isfield(sparam,'Civ2_exe') |
---|
2111 | civ2_exe=sparam.Civ2_exe; |
---|
2112 | end |
---|
2113 | if isfield(sparam,'Patch_exe') |
---|
2114 | patch_exe=sparam.Patch_exe; |
---|
2115 | end |
---|
2116 | if isfield(sparam,'PatchNew_exe') |
---|
2117 | patch_new_exe=sparam.PatchNew_exe; |
---|
2118 | end |
---|
2119 | if isfield(sparam,'Fix_exe') |
---|
2120 | fix_exe=sparam.Fix_exe; |
---|
2121 | end |
---|
2122 | if isfield(sparam,'Todo_path') |
---|
2123 | todo_path=sparam.Todo_path; |
---|
2124 | end |
---|
2125 | if isfield(sparam,'SGE') |
---|
2126 | sge=str2num(sparam.SGE); |
---|
2127 | end |
---|
2128 | |
---|
2129 | %choice of batch priority |
---|
2130 | ind_answer=2; |
---|
2131 | if sge |
---|
2132 | [s,w]=unix('qstat -q civ.q|grep job_| wc -l'); %check the waiting list (command unix) |
---|
2133 | if isequal(s,0) |
---|
2134 | w(end)=[]; |
---|
2135 | str_displ={[w ' jobs in the waiting list'];'Select a priority:'}; |
---|
2136 | str={'urgent';'normal';'low'}; |
---|
2137 | [ind_answer,v] = listdlg('PromptString',str_displ,... |
---|
2138 | 'SelectionMode','single',... |
---|
2139 | 'ListString',str,'ListSize',[200 200],'Name','job priority','InitialValue',3); |
---|
2140 | if isequal(v,0) % to handle Cancel button and figure close, |
---|
2141 | return % a better way should be create |
---|
2142 | end |
---|
2143 | else |
---|
2144 | msgbox_uvmat('ERROR','batch system not available') |
---|
2145 | return |
---|
2146 | end |
---|
2147 | end |
---|
2148 | |
---|
2149 | %initialize the waitbars |
---|
2150 | set(handles.waitbar_1,'Position',[0.946 0.876 0.03 0.001]) |
---|
2151 | set(handles.waitbar_patch1,'Position',[0.946 0.439 0.03 0.001]) |
---|
2152 | set(handles.waitbar_civ2,'Position',[0.946 0.219 0.03 0.001]) |
---|
2153 | set(handles.waitbar_patch2,'Position',[0.946 0.0 0.03 0.001]) |
---|
2154 | set(handles.BATCH, 'Enable','Off') |
---|
2155 | set(handles.BATCH,'BackgroundColor',[0.831 0.816 0.784]) |
---|
2156 | drawnow |
---|
2157 | %get the filename root, nomenclature and numbers |
---|
2158 | |
---|
2159 | % for Windows system find the UBC path name if needed |
---|
2160 | if ~isunix & isequal(todo_path(1:2),'\\') & isequal(filebase(2:3),':\') |
---|
2161 | cur_dir=pwd; |
---|
2162 | if ~isequal(cur_dir(2:3),':\') |
---|
2163 | cd(matlabroot); %move to the Matlab root directory if the current Matlab dir does not allow the dos command or is M: |
---|
2164 | end |
---|
2165 | [ss,ww]=dos(['net use ' filebase(1:2)]); |
---|
2166 | if isequal(ss,0) |
---|
2167 | rankpath=findstr(ww,'\\'); |
---|
2168 | if ~isempty(rankpath) |
---|
2169 | wwrest=ww(rankpath:end); |
---|
2170 | rankend=min(find(double(wwrest)==10))-1; |
---|
2171 | filebase=[wwrest(1:rankend) filebase(3:end)]; |
---|
2172 | set(handles.displ_filebase,'String',filebase); |
---|
2173 | end |
---|
2174 | else |
---|
2175 | msgbox_uvmat('ERROR','for BATCH option, UBC file names, beginning by \\, are needed'); |
---|
2176 | set(handles.BATCH, 'Enable','On') |
---|
2177 | set(handles.BATCH,'BackgroundColor',[1 0 0]) |
---|
2178 | return |
---|
2179 | end |
---|
2180 | end |
---|
2181 | |
---|
2182 | % set the list of files and check them |
---|
2183 | display('checking the files...') |
---|
2184 | [filecell,num1_civ1,num2_civ1,num_a_civ1,num_b_civ1,num1_civ2,num2_civ2,num_a_civ2,num_b_civ2,nom_type_nc,file_ref_fix1,file_ref_fix2]=... |
---|
2185 | set_civ_filenames(handles,compare,box_test); |
---|
2186 | display('files OK, processing...') |
---|
2187 | 'TESTnbre' |
---|
2188 | nbfield=size(num1_civ1,2) |
---|
2189 | nbslice=size(num1_civ1,1) |
---|
2190 | |
---|
2191 | %GET PARAMETERS: |
---|
2192 | %get civ parameters |
---|
2193 | if box_test(1)==1 |
---|
2194 | par_civ1=read_param_civ1(handles,filecell.ima1.civ1{1,1}); |
---|
2195 | end |
---|
2196 | |
---|
2197 | %get fix1 parameters |
---|
2198 | if box_test(2)==1 |
---|
2199 | flagindex1(1)=get(handles.vec_Fmin2, 'Value'); |
---|
2200 | flagindex1(2)=get(handles.vec_F3, 'Value'); |
---|
2201 | flagindex1(3)=get(handles.vec_F2, 'Value'); |
---|
2202 | thresh_vecC1=str2num(get(handles.thresh_vecC,'String'));%threshold on image correlation vec_C |
---|
2203 | thresh_vel1=str2num(get(handles.thresh_vel,'String'));%threshold on velocity modulus |
---|
2204 | test_mask=get(handles.get_mask_fix1,'Value'); |
---|
2205 | nbslice_mask=get(handles.mask_fix1,'UserData'); % get the number of slices (= number of masks) |
---|
2206 | %%%%%%%%%%%%%COMPLETER LE PROGRAMME FIX |
---|
2207 | % inf_sup=get(handles.inf_sup1,'Value'); |
---|
2208 | % fileref=get(handles.ref_fix1,'String'); |
---|
2209 | % refpath=get(handles.ref_fix1,'UserData'); |
---|
2210 | % fileref=fullfile(refpath,fileref); |
---|
2211 | menu=get(handles.field_ref1,'String'); |
---|
2212 | index=get(handles.field_ref1,'Value'); |
---|
2213 | if isempty(menu) |
---|
2214 | fieldchoice=''; |
---|
2215 | else |
---|
2216 | fieldchoice=menu{index}; |
---|
2217 | msgbox_uvmat('WARNING','reference field is not used presently with batch, use RUN option') |
---|
2218 | end |
---|
2219 | end |
---|
2220 | |
---|
2221 | %get patch1 parameters |
---|
2222 | if box_test(3)==1 |
---|
2223 | rho_patch1=str2num(get(handles.rho_patch1,'String')); |
---|
2224 | if isempty(rho_patch1) |
---|
2225 | rho_patch1='1000'; |
---|
2226 | set(handles.rho_patch1,'String','1') |
---|
2227 | else |
---|
2228 | rho_patch1=num2str(1000*rho_patch1); |
---|
2229 | end |
---|
2230 | nx_patch1=get(handles.nx_patch1,'String'); |
---|
2231 | ny_patch1=get(handles.ny_patch1,'String'); |
---|
2232 | if isequal(str2num(nx_patch1),[]) |
---|
2233 | nx_patch1='50' ;%default |
---|
2234 | set(handles.nx_patch1,'String','50'); |
---|
2235 | end |
---|
2236 | if isequal(str2num(ny_patch1),[]) |
---|
2237 | ny_patch1='50' ;%default |
---|
2238 | set(handles.ny_patch1,'String','50'); |
---|
2239 | end |
---|
2240 | subdomain_patch1=get(handles.subdomain_patch1,'String'); |
---|
2241 | thresh_patch1=get(handles.thresh_patch1,'String'); |
---|
2242 | test_interp=get(handles.test_interp,'Value'); |
---|
2243 | end |
---|
2244 | |
---|
2245 | %get civ2 parameters |
---|
2246 | if box_test(4)==1 |
---|
2247 | par_civ2=read_param_civ2(handles,cell2mat(filecell.ima1.civ2(1,1))); |
---|
2248 | end |
---|
2249 | |
---|
2250 | %get fix2 parameters |
---|
2251 | if box_test(5)==1 |
---|
2252 | flagindex2(1)=get(handles.vec_Fmin2_2, 'Value'); |
---|
2253 | flagindex2(2)=get(handles.vec_F3_2, 'Value'); |
---|
2254 | flagindex2(3)=get(handles.vec_F4, 'Value'); |
---|
2255 | thresh_vec2C=str2num(get(handles.thresh_vec2C,'String'));%threshold on image correlation vec_C |
---|
2256 | thresh_vel2=str2num(get(handles.thresh_vel2,'String'));%threshold on velocity modulus |
---|
2257 | test_mask=get(handles.get_mask_fix2,'Value'); |
---|
2258 | nbslice_mask=get(handles.mask_fix2,'UserData'); % get the number of slices (= number of masks) |
---|
2259 | %%%%%%%%%%%%%COMPLETER LE PROGRAMME FIX AVEC REF FILE ET OPTION inf_sup=2 |
---|
2260 | % inf_sup=get(handles.inf_sup2,'Value'); |
---|
2261 | % ref=get(handles.ref_fix2,'UserData'); |
---|
2262 | |
---|
2263 | %%%%%%%%%%%%%%%%%%% |
---|
2264 | end |
---|
2265 | |
---|
2266 | |
---|
2267 | %get patch2 parameters |
---|
2268 | if box_test(6)==1 |
---|
2269 | rho_patch2=str2num(get(handles.rho_patch2,'String')); |
---|
2270 | if isempty(rho_patch2) |
---|
2271 | rho_patch2='1000'; |
---|
2272 | set(handles.rho_patch2,'String','1') |
---|
2273 | else |
---|
2274 | rho_patch2=num2str(1000*rho_patch2); |
---|
2275 | end |
---|
2276 | nx_patch2=get(handles.nx_patch2,'String'); |
---|
2277 | ny_patch2=get(handles.ny_patch2,'String'); |
---|
2278 | if isequal(str2num(nx_patch2),[]) |
---|
2279 | nx_patch2='50' ;%default |
---|
2280 | set(handles.nx_patch2,'String','50'); |
---|
2281 | end |
---|
2282 | if isequal(str2num(ny_patch2),[]) |
---|
2283 | ny_patch2='50' ;%default |
---|
2284 | set(handles.ny_patch2,'String','50'); |
---|
2285 | end |
---|
2286 | subdomain_patch2=get(handles.subdomain_patch2,'String'); |
---|
2287 | thresh_patch2=get(handles.thresh_patch2,'String'); |
---|
2288 | test_interp=get(handles.test_interp,'Value'); |
---|
2289 | end |
---|
2290 | |
---|
2291 | if ~sge |
---|
2292 | |
---|
2293 | %OPEN THE WAIT LIST FOR BATCH PROCESSES |
---|
2294 | name_lock=fullfile(todo_path,'lock'); %lock file |
---|
2295 | iwait=0; |
---|
2296 | while(exist(name_lock) & iwait<15) |
---|
2297 | pause(1); %wait 1 second |
---|
2298 | iwait=iwait+1; |
---|
2299 | end |
---|
2300 | if iwait==15 |
---|
2301 | msgbox_uvmat('ERROR',['I''m tired to wait for the lock file, please delete it then click again on BATCH' name_lock ]) |
---|
2302 | set(handles.BATCH, 'Enable','On') |
---|
2303 | set(handles.BATCH,'BackgroundColor',[1 0 0]) |
---|
2304 | return |
---|
2305 | end |
---|
2306 | p0=fopen(name_lock,'w'); %create the file name_lock: prevents other users to interfere |
---|
2307 | name_todo=fullfile(todo_path,'TODO.txt'); |
---|
2308 | p1=fopen(name_todo,'a'); |
---|
2309 | if (p1<0) |
---|
2310 | msgbox_uvmat('ERROR',['error in opening ' name_todo]) |
---|
2311 | set(handles.BATCH, 'Enable','On') |
---|
2312 | set(handles.BATCH,'BackgroundColor',[1 0 0]) |
---|
2313 | return; |
---|
2314 | end |
---|
2315 | end |
---|
2316 | |
---|
2317 | %MAIN LOOP |
---|
2318 | % for ifile=1:nbfield |
---|
2319 | p1text=[];%initiate command text |
---|
2320 | time=get(handles.displ_filebase,'UserData'); %get the set of times |
---|
2321 | civAll=get(handles.Experimental,'Value'); % Boolean for new civ excution method |
---|
2322 | for ifile=1:nbfield |
---|
2323 | for j=1:nbslice |
---|
2324 | i_cmd=0; |
---|
2325 | cmd=''; |
---|
2326 | if sge |
---|
2327 | %fid=fopen([filename '.cmx'],'w') |
---|
2328 | cmd='#!/bin/bash'; |
---|
2329 | cmd=[cmd '\n' '#$ -cwd']; |
---|
2330 | cmd=[cmd '\n' 'hostname && date']; |
---|
2331 | end |
---|
2332 | if civAll |
---|
2333 | civAllxml=xmltree;% xml contents, all parameters |
---|
2334 | civAllCmd=[]; |
---|
2335 | civAllxml=set(civAllxml,1,'name','CivDoc'); |
---|
2336 | end |
---|
2337 | % filecell.nc.civ1 |
---|
2338 | filename_cmx=cell2mat(filecell.nc.civ1(ifile,j));%output netcdf file |
---|
2339 | filename_cmx([end-1:end])='cm';%name of cmx file |
---|
2340 | filename_cmx=[filename_cmx 'x']; |
---|
2341 | |
---|
2342 | %CIV1 |
---|
2343 | if box_test(1)==1 |
---|
2344 | par_civ1.filename_ima_a=cell2mat(filecell.ima1.civ1(ifile,j)); |
---|
2345 | % par_civ1.filename_ima_a([end-3:end])=[];%remove .png extension |
---|
2346 | par_civ1.filename_ima_b=cell2mat(filecell.ima2.civ1(ifile,j)); |
---|
2347 | % par_civ1.filename_ima_b([end-3:end])=[];%remove .png extension |
---|
2348 | |
---|
2349 | namelog=[filename_cmx([1:end-3]) 'log']; |
---|
2350 | par_civ1.Dt=num2str(time(num2_civ1(ifile),num_b_civ1(j))-time(num1_civ1(ifile),num_a_civ1(j))); |
---|
2351 | par_civ1.T0=num2str((time(num2_civ1(ifile),num_b_civ1(j))+time(num1_civ1(ifile),num_a_civ1(j)))/2); |
---|
2352 | par_civ1.term_a=num2stra(num_a_civ1(j),nom_type_nc);%UTILITE? |
---|
2353 | par_civ1.term_b=num2stra(num_b_civ1(j),nom_type_nc);% |
---|
2354 | test_mask=get(handles.get_mask_civ1,'Value'); |
---|
2355 | if test_mask==0 |
---|
2356 | par_civ1.maskname='noFile use default'; |
---|
2357 | par_civ1.maskflag='n'; |
---|
2358 | else |
---|
2359 | maskdispl=get(handles.mask_civ1,'String'); |
---|
2360 | if exist(maskdispl,'file') |
---|
2361 | par_civ1.maskname=maskdispl; |
---|
2362 | par_civ1.maskflag='y'; |
---|
2363 | else |
---|
2364 | maskbase=[filebase '_' maskdispl]; % |
---|
2365 | nbslice_mask=str2num(maskdispl(1:end-4)); % |
---|
2366 | num1_mask=mod(num1_civ1(ifile)-1,nbslice_mask)+1; |
---|
2367 | par_civ1.maskname=name_generator(maskbase,num1_mask,1,'.png','_i'); |
---|
2368 | if exist(par_civ1.maskname,'file') |
---|
2369 | par_civ1.maskflag='y'; |
---|
2370 | else |
---|
2371 | par_civ1.maskname='noFile use default'; |
---|
2372 | par_civ1.maskflag='n'; |
---|
2373 | end |
---|
2374 | end |
---|
2375 | end |
---|
2376 | |
---|
2377 | %TESTgrid |
---|
2378 | test_grid=get(handles.browse_gridciv1,'Value'); |
---|
2379 | if test_grid |
---|
2380 | par_civ1.gridflag='y'; |
---|
2381 | gridname=get(handles.grid_civ1,'String'); |
---|
2382 | if isequal(gridname(end-3:end),'grid') |
---|
2383 | nbslice_grid=str2num(gridname(1:end-4)); % |
---|
2384 | if ~isempty(nbslice_grid) |
---|
2385 | num1_grid=mod(num1_civ1(ifile)-1,nbslice_grid)+1; |
---|
2386 | par_civ1.gridname=[filebase '_' name_generator(gridname,num1_grid,1,'.grid','_i')]; |
---|
2387 | if ~exist(par_civ1.gridname,'file') |
---|
2388 | msgbox_uvmat('ERROR','grid file absent for civ1') |
---|
2389 | end |
---|
2390 | elseif exist(gridname,'file') |
---|
2391 | par_civ1.gridname=gridname; |
---|
2392 | else |
---|
2393 | msgbox_uvmat('ERROR','grid file absent for civ1') |
---|
2394 | end |
---|
2395 | end |
---|
2396 | else |
---|
2397 | par_civ1.gridname='noFile use default'; |
---|
2398 | par_civ1.gridflag='n'; |
---|
2399 | end |
---|
2400 | %endTESTgrid |
---|
2401 | |
---|
2402 | i_cmd=i_cmd+1; |
---|
2403 | if isequal(civAll,0) |
---|
2404 | cmd=[cmd '\n' BATCH_CIV1(filename_cmx(1:end-4),namelog,par_civ1,handles)]; |
---|
2405 | else |
---|
2406 | civAllCmd=[civAllCmd ' civ1 ']; |
---|
2407 | str=BATCH_CIV1_Unified(filename_cmx([1:end-4]),namelog,par_civ1); |
---|
2408 | fieldnames=fields(str); |
---|
2409 | [civAllxml,uid_civ1]=add(civAllxml,1,'element','civ1'); |
---|
2410 | for ilist=1:length(fieldnames) |
---|
2411 | val=eval(['str.' fieldnames{ilist}]); |
---|
2412 | if ischar(val) |
---|
2413 | [civAllxml,uid_t]=add(civAllxml,uid_civ1,'element',fieldnames{ilist}); |
---|
2414 | [civAllxml,uid_t2]=add(civAllxml,uid_t,'chardata',val); |
---|
2415 | end |
---|
2416 | end |
---|
2417 | end |
---|
2418 | end |
---|
2419 | |
---|
2420 | % FIX1 |
---|
2421 | if box_test(2)==1 |
---|
2422 | test_mask=get(handles.get_mask_fix1,'Value'); |
---|
2423 | if test_mask==0 |
---|
2424 | maskname=''; |
---|
2425 | else |
---|
2426 | maskdispl=get(handles.mask_fix1,'String'); |
---|
2427 | nbslice_mask=str2num(maskdispl(1:end-4)); % |
---|
2428 | num1_mask=mod(num1_civ1(ifile)-1,nbslice_mask)+1; |
---|
2429 | maskbase=[filebase '_' maskdispl]; |
---|
2430 | maskname=name_generator(maskbase,num1_mask,1,'.png','_i'); |
---|
2431 | end |
---|
2432 | if isequal(civAll,0) |
---|
2433 | cmd_FIX=[fix_exe ' -f ' filecell.nc.civ1{ifile,j} ' -fi1 ' num2str(flagindex1(1)) ... |
---|
2434 | ' -fi2 ' num2str(flagindex1(2)) ' -fi3 ' num2str(flagindex1(3)) ... |
---|
2435 | ' -threshC ' num2str(thresh_vecC1) ' -threshV ' num2str(thresh_vel1) ' -maskName ' maskname]; |
---|
2436 | cmd=[cmd '\n' cmd_FIX]; |
---|
2437 | else |
---|
2438 | fix1.inputFileName=filecell.nc.civ1{ifile,j} ; |
---|
2439 | fix1.fi1=num2str(flagindex1(1)); |
---|
2440 | fix1.fi2=num2str(flagindex1(2)); |
---|
2441 | fix1.fi3=num2str(flagindex1(3)); |
---|
2442 | fix1.threshC=num2str(thresh_vecC1); |
---|
2443 | fix1.threshV=num2str(thresh_vel1); |
---|
2444 | fieldnames=fields(fix1); |
---|
2445 | [civAllxml,uid_fix1]=add(civAllxml,1,'element','fix1'); |
---|
2446 | for ilist=1:length(fieldnames) |
---|
2447 | val=eval(['fix1.' fieldnames{ilist}]); |
---|
2448 | if ischar(val) |
---|
2449 | [civAllxml,uid_t]=add(civAllxml,uid_fix1,'element',fieldnames{ilist}); |
---|
2450 | [civAllxml,uid_t2]=add(civAllxml,uid_t,'chardata',val); |
---|
2451 | end |
---|
2452 | end |
---|
2453 | civAllCmd=[civAllCmd ' fix1 ']; |
---|
2454 | end |
---|
2455 | end |
---|
2456 | |
---|
2457 | %PATCH1 |
---|
2458 | if box_test(3)==1 |
---|
2459 | if isequal(civAll,0) |
---|
2460 | cmd_PATCH=RUN_PATCH(filecell.nc.civ1{ifile,j},nx_patch1,ny_patch1,rho_patch1,subdomain_patch1,thresh_patch1,test_interp); |
---|
2461 | cmd=[cmd '\n' cmd_PATCH]; |
---|
2462 | else |
---|
2463 | patch1.inputFileName=filecell.nc.civ1{ifile,j} ; |
---|
2464 | patch1.nopt=subdomain_patch1; |
---|
2465 | patch1.maxdiff=thresh_patch1; |
---|
2466 | patch1.ro=rho_patch1; |
---|
2467 | test_grid=get(handles.get_gridpatch1,'Value'); |
---|
2468 | if test_grid |
---|
2469 | patch1.gridflag='y'; |
---|
2470 | gridname=get(handles.grid_patch1,'String'); |
---|
2471 | if isequal(gridname(end-3:end),'grid') |
---|
2472 | nbslice_grid=str2num(gridname(1:end-4)); % |
---|
2473 | if ~isempty(nbslice_grid) |
---|
2474 | num1_grid=mod(num1_civ1(ifile)-1,nbslice_grid)+1; |
---|
2475 | patch1.gridPatch=[filebase '_' name_generator(gridname,num1_grid,1,'.grid','_i')]; |
---|
2476 | if ~exist(patch1.gridPatch,'file') |
---|
2477 | msgbox_uvmat('ERROR','grid file absent for patch1') |
---|
2478 | end |
---|
2479 | elseif exist(gridname,'file') |
---|
2480 | patch1.gridPatch=gridname; |
---|
2481 | else |
---|
2482 | msgbox_uvmat('ERROR','grid file absent for patch1') |
---|
2483 | end |
---|
2484 | end |
---|
2485 | else |
---|
2486 | patch1.gridPatch='n'; |
---|
2487 | patch1.gridflag='n'; |
---|
2488 | patch1.m=nx_patch1; |
---|
2489 | patch1.n=ny_patch1; |
---|
2490 | end |
---|
2491 | patch1.convectFlow='n'; |
---|
2492 | fieldnames=fields(patch1); |
---|
2493 | [civAllxml,uid_patch1]=add(civAllxml,1,'element','patch1'); |
---|
2494 | for ilist=1:length(fieldnames) |
---|
2495 | val=eval(['patch1.' fieldnames{ilist}]); |
---|
2496 | if ischar(val) |
---|
2497 | [civAllxml,uid_t]=add(civAllxml,uid_patch1,'element',fieldnames{ilist}); |
---|
2498 | [civAllxml,uid_t2]=add(civAllxml,uid_t,'chardata',val); |
---|
2499 | end |
---|
2500 | end |
---|
2501 | civAllCmd=[civAllCmd ' patch1 ']; |
---|
2502 | end |
---|
2503 | end |
---|
2504 | |
---|
2505 | if box_test(4)==1 | box_test(5)==1 | box_test(6)==1 |
---|
2506 | filename_cmx=filecell.nc.civ2{ifile,j};%output netcdf file |
---|
2507 | filename_cmx([end-1:end])=[ 'cm'];%name of cmx file |
---|
2508 | filename_cmx=[filename_cmx 'x']; |
---|
2509 | end |
---|
2510 | |
---|
2511 | if box_test(4)==1 |
---|
2512 | par_civ2.filename_ima_a=filecell.ima1.civ2{ifile,j}; |
---|
2513 | %par_civ2.filename_ima_a([end-3:end])=[];%remove .png extension |
---|
2514 | par_civ2.filename_ima_b=filecell.ima2.civ2{ifile,j}; |
---|
2515 | %par_civ2.filename_ima_b([end-3:end])=[];%remove .png extension |
---|
2516 | namelog=[filename_cmx([1:end-3]) 'log']; |
---|
2517 | par_civ2.Dt=num2str(time(num2_civ2(ifile),num_b_civ2(j))-time(num1_civ2(ifile),num_a_civ2(j))); |
---|
2518 | par_civ2.T0=num2str((time(num2_civ1(ifile),num_b_civ2(j))+time(num1_civ2(ifile),num_a_civ2(j)))/2); |
---|
2519 | par_civ2.term_a=num2stra(num_a_civ2(j),nom_type_nc); |
---|
2520 | par_civ2.term_b=num2stra(num_b_civ2(j),nom_type_nc); |
---|
2521 | par_civ2.filename_nc1=filecell.nc.civ1{ifile,j}; |
---|
2522 | par_civ2.filename_nc1([end-2:end])=[]; % remove '.nc' |
---|
2523 | test_mask=get(handles.get_mask_civ2,'Value'); |
---|
2524 | if test_mask==0 |
---|
2525 | par_civ2.maskname='noFile use default'; |
---|
2526 | par_civ2.maskflag='n'; |
---|
2527 | else |
---|
2528 | maskdispl=get(handles.mask_civ2,'String'); |
---|
2529 | if exist(maskdispl,'file') |
---|
2530 | par_civ2.maskname=maskdispl; |
---|
2531 | par_civ2.maskflag='y'; |
---|
2532 | else |
---|
2533 | maskbase=[filebase '_' maskdispl]; % |
---|
2534 | nbslice_mask=str2num(maskdispl(1:end-4)); % |
---|
2535 | num1_mask=mod(num1_civ2(ifile)-1,nbslice_mask)+1; |
---|
2536 | par_civ2.maskname=name_generator(maskbase,num1_mask,1,'.png','_i'); |
---|
2537 | if exist(par_civ2.maskname,'file') |
---|
2538 | par_civ2.maskflag='y'; |
---|
2539 | else |
---|
2540 | par_civ2.maskname='noFile use default'; |
---|
2541 | par_civ2.maskflag='n'; |
---|
2542 | end |
---|
2543 | end |
---|
2544 | end |
---|
2545 | %TESTgrid |
---|
2546 | test_grid=get(handles.browse_gridciv2,'Value'); |
---|
2547 | gridname=get(handles.grid_civ2,'String'); |
---|
2548 | gridflag='y'; |
---|
2549 | if numel(gridname)>=4 && isequal(gridname(end-3:end),'grid') |
---|
2550 | nbslice_grid=str2num(gridname(1:end-4)); % |
---|
2551 | if ~isempty(nbslice_grid) |
---|
2552 | par_civ2.gridflag='y'; |
---|
2553 | num1_grid=mod(num1_civ2(ifile)-1,nbslice_grid)+1; |
---|
2554 | par_civ2.gridname=[filebase '_' name_generator(gridname,num1_grid,1,'.grid','_i')]; |
---|
2555 | if exist(par_civ2.gridname,'file') |
---|
2556 | par_civ2.gridflag='y'; |
---|
2557 | else |
---|
2558 | par_civ2.gridname='noFile use default'; |
---|
2559 | par_civ2.gridflag='n'; |
---|
2560 | end |
---|
2561 | elseif exist(gridname,'file') |
---|
2562 | par_civ2.gridflag='y'; |
---|
2563 | else |
---|
2564 | par_civ2.gridname='noFile use default'; |
---|
2565 | par_civ2.gridflag='n'; |
---|
2566 | end |
---|
2567 | end |
---|
2568 | %endTESTgrid |
---|
2569 | i_cmd=i_cmd+1; |
---|
2570 | cmd_CIV2=BATCH_CIV2(filename_cmx,namelog,par_civ2); |
---|
2571 | if isequal(civAll,0) |
---|
2572 | if(isunix) |
---|
2573 | cmd=[cmd '\n' 'cp -f ' filename_cmx '2 ' filename_cmx '\n' cmd_CIV2]; |
---|
2574 | else |
---|
2575 | cmd=[cmd '\n' 'copy /Y ' filename_cmx '2 ' filename_cmx '\n' cmd_CIV2]; |
---|
2576 | end |
---|
2577 | else |
---|
2578 | civAllCmd=[civAllCmd ' civ2 ']; |
---|
2579 | str=BATCH_CIV2_Unified(filename_cmx([1:end-4]),namelog,par_civ2); |
---|
2580 | fieldnames=fields(str); |
---|
2581 | [civAllxml,uid_civ2]=add(civAllxml,1,'element','civ2'); |
---|
2582 | for ilist=1:length(fieldnames) |
---|
2583 | val=eval(['str.' fieldnames{ilist}]); |
---|
2584 | if ischar(val) |
---|
2585 | [civAllxml,uid_t]=add(civAllxml,uid_civ2,'element',fieldnames{ilist}); |
---|
2586 | [civAllxml,uid_t2]=add(civAllxml,uid_t,'chardata',val); |
---|
2587 | end |
---|
2588 | end |
---|
2589 | end |
---|
2590 | end |
---|
2591 | |
---|
2592 | % FIX2 |
---|
2593 | if box_test(5)==1 |
---|
2594 | test_mask=get(handles.get_mask_fix2,'Value'); |
---|
2595 | if test_mask==0 |
---|
2596 | maskname=''; %no mask used |
---|
2597 | else |
---|
2598 | maskdispl=get(handles.mask_fix2,'String'); |
---|
2599 | maskbase=[filebase '_' maskdispl]; % |
---|
2600 | nbslice_mask=str2num(maskdispl(1:end-4)); % |
---|
2601 | num1_mask=mod(num1_civ2(ifile)-1,nbslice_mask)+1; |
---|
2602 | maskname =name_generator(maskbase,num1_mask,1,'.png','_i'); |
---|
2603 | end |
---|
2604 | if isequal(civAll,0) |
---|
2605 | cmd_FIX=[fix_exe ' -f ' filecell.nc.civ2{ifile,j} ' -fi1 ' num2str(flagindex2(1)) ... |
---|
2606 | ' -fi2 ' num2str(flagindex2(2)) ' -fi3 ' num2str(flagindex2(3)) ... |
---|
2607 | ' -threshC ' num2str(thresh_vec2C) ' -threshV ' num2str(thresh_vel2) ' -maskName ' maskname]; |
---|
2608 | cmd=[cmd '\n' cmd_FIX]; |
---|
2609 | else |
---|
2610 | fix2.inputFileName=filecell.nc.civ2{ifile,j} ; |
---|
2611 | fix2.fi1=num2str(flagindex2(1)); |
---|
2612 | fix2.fi2=num2str(flagindex2(2)); |
---|
2613 | fix2.fi3=num2str(flagindex2(3)); |
---|
2614 | fix2.threshC=num2str(thresh_vec2C); |
---|
2615 | fix2.threshV=num2str(thresh_vel2); |
---|
2616 | fieldnames=fields(fix2); |
---|
2617 | [civAllxml,uid_fix2]=add(civAllxml,1,'element','fix2'); |
---|
2618 | for ilist=1:length(fieldnames) |
---|
2619 | val=eval(['fix2.' fieldnames{ilist}]); |
---|
2620 | if ischar(val) |
---|
2621 | [civAllxml,uid_t]=add(civAllxml,uid_fix2,'element',fieldnames{ilist}); |
---|
2622 | [civAllxml,uid_t2]=add(civAllxml,uid_t,'chardata',val); |
---|
2623 | end |
---|
2624 | end |
---|
2625 | civAllCmd=[civAllCmd ' fix2 ']; |
---|
2626 | end |
---|
2627 | end |
---|
2628 | |
---|
2629 | %PATCH2 |
---|
2630 | if box_test(6)==1 |
---|
2631 | if isequal(civAll,0) |
---|
2632 | cmd_PATCH=RUN_PATCH(filecell.nc.civ2{ifile,j},nx_patch2,ny_patch2,rho_patch2,subdomain_patch2,thresh_patch2,test_interp); |
---|
2633 | cmd=[cmd '\n' cmd_PATCH]; |
---|
2634 | else |
---|
2635 | patch2.inputFileName=filecell.nc.civ1{ifile,j} ; |
---|
2636 | patch2.nopt=subdomain_patch1; |
---|
2637 | patch2.maxdiff=thresh_patch1; |
---|
2638 | patch2.ro=rho_patch1; |
---|
2639 | test_grid=get(handles.get_gridpatch2,'Value'); |
---|
2640 | if test_grid |
---|
2641 | patch2.gridflag='y'; |
---|
2642 | gridname=get(handles.grid_patch2,'String'); |
---|
2643 | if isequal(gridname(end-3:end),'grid') |
---|
2644 | nbslice_grid=str2num(gridname(1:end-4)); % |
---|
2645 | if ~isempty(nbslice_grid) |
---|
2646 | num1_grid=mod(num1_civ2(ifile)-1,nbslice_grid)+1; |
---|
2647 | patch2.gridPatch=[filebase '_' name_generator(gridname,num1_grid,1,'.grid','_i')]; |
---|
2648 | if ~exist(patch2.gridPatch,'file') |
---|
2649 | msgbox_uvmat('ERROR','grid file absent for patch2') |
---|
2650 | end |
---|
2651 | elseif exist(gridname,'file') |
---|
2652 | patch2.gridPatch=gridname; |
---|
2653 | else |
---|
2654 | msgbox_uvmat('ERROR','grid file absent for patch2') |
---|
2655 | end |
---|
2656 | end |
---|
2657 | else |
---|
2658 | patch2.gridPatch='n'; |
---|
2659 | patch2.gridflag='n'; |
---|
2660 | patch2.m=nx_patch2; |
---|
2661 | patch2.n=ny_patch2; |
---|
2662 | end |
---|
2663 | patch2.convectFlow='n'; |
---|
2664 | fieldnames=fields(patch2); |
---|
2665 | [civAllxml,uid_patch2]=add(civAllxml,1,'element','patch2'); |
---|
2666 | for ilist=1:length(fieldnames) |
---|
2667 | val=eval(['patch2.' fieldnames{ilist}]); |
---|
2668 | if ischar(val) |
---|
2669 | [civAllxml,uid_t]=add(civAllxml,uid_patch2,'element',fieldnames{ilist}); |
---|
2670 | [civAllxml,uid_t2]=add(civAllxml,uid_t,'chardata',val); |
---|
2671 | end |
---|
2672 | end |
---|
2673 | civAllCmd=[civAllCmd ' patch2 ']; |
---|
2674 | end |
---|
2675 | end |
---|
2676 | if isequal(civAll,1) |
---|
2677 | save(civAllxml,[filename_cmx([1:end-4]) '.xml']); |
---|
2678 | cmd=char({cmd;[Civ_exe ' -f ' [filename_cmx([1:end-4]) '.xml'] ' ' civAllCmd]}); |
---|
2679 | end |
---|
2680 | |
---|
2681 | % create the .bat file: |
---|
2682 | if sge |
---|
2683 | [Rootbat,Filebat,extbat]=fileparts(filename_cmx); |
---|
2684 | filename_bat=fullfile(Rootbat,['job_' Filebat extbat]); |
---|
2685 | else |
---|
2686 | filename_bat=filename_cmx; |
---|
2687 | end |
---|
2688 | filename_bat(end-2:end)='bat'; |
---|
2689 | fid=fopen(filename_bat,'w'); |
---|
2690 | fprintf(fid,cmd) |
---|
2691 | fclose(fid) |
---|
2692 | %dlmwrite(filename_bat,cmd,'');%write commands in filename_bat |
---|
2693 | if sge |
---|
2694 | pvalue=num2str((1-ind_answer)*500); |
---|
2695 | namelog=[filename_bat '.patch.log']; |
---|
2696 | ['!qsub -p ' pvalue ' -q civ.q -e ' filename_cmx(1:end-4) '.errors -o ' filename_cmx(1:end-4) '.log' ' ' filename_bat]; |
---|
2697 | eval( ['!qsub -p ' pvalue ' -q civ.q -e ' filename_cmx(1:end-4) '.errors -o ' filename_cmx(1:end-4) '.log' ' ' filename_bat]); |
---|
2698 | else |
---|
2699 | if(isunix) |
---|
2700 | cmdtodo=['. ' filename_bat ];%removed for Mathieu tests %' && rm -f ' filename_bat] ; |
---|
2701 | else |
---|
2702 | cmdtodo=[filename_bat];%removed for Mathieu tests %' && del /F /Q ' filename_bat' ; |
---|
2703 | end |
---|
2704 | count= fprintf(p1,'%s\n', cmdtodo); |
---|
2705 | end |
---|
2706 | end |
---|
2707 | end |
---|
2708 | if ~sge |
---|
2709 | fclose(p1); |
---|
2710 | fclose(p0); |
---|
2711 | delete(name_lock); |
---|
2712 | end |
---|
2713 | |
---|
2714 | set(handles.BATCH, 'Enable','On') |
---|
2715 | set(handles.BATCH,'BackgroundColor',[1 0 0]) |
---|
2716 | |
---|
2717 | %save interface state |
---|
2718 | if isfield(filecell,'nc') |
---|
2719 | if isfield(filecell.nc,'civ2') |
---|
2720 | fileresu=filecell.nc.civ2{1,1}; |
---|
2721 | else |
---|
2722 | fileresu=filecell.nc.civ1{1,1}; |
---|
2723 | end |
---|
2724 | end |
---|
2725 | [RootPath,RootFile,field_count,str2,str_a,str_b,ext,nom_type,subdir]=name2display(fileresu); |
---|
2726 | namedoc=fullfile(RootPath,subdir,RootFile); |
---|
2727 | detect=1; |
---|
2728 | while detect==1 |
---|
2729 | namefigfull=[namedoc '.fig']; |
---|
2730 | hh=dir(namefigfull); |
---|
2731 | if ~isempty(hh) |
---|
2732 | detect=1; |
---|
2733 | namedoc=[namedoc '.0']; |
---|
2734 | else |
---|
2735 | detect=0; |
---|
2736 | end |
---|
2737 | end |
---|
2738 | saveas(gcbf,namefigfull);%save the interface with name namefigfull (A CHANGER EN FICHIER .xml) |
---|
2739 | |
---|
2740 | %------------------------------------------------------------------------ |
---|
2741 | %OUTPUT: |
---|
2742 | % filecell: structure of input and output files |
---|
2743 | % .ima1.civ1{i,j}, .ima1.civ2{i,j}; set of first image names for correlations, for civ1 and civ2 |
---|
2744 | % .ima2.civ1{i,j}, .ima2.civ2{i,j} ; set of second image names for correlations |
---|
2745 | % .imaA1.civ1{i,j}, .ima1.civ2{i,j}; set of first image names for correlations, for civ1 and civ2, with camA in stereo case (then .ima1 corresponds to camB) |
---|
2746 | % .imaA2.civ1{i,j}, .ima2.civ2{i,j} ; set of second image names for correlations, with camA in stereo case (then .ima1 corresponds to camB) |
---|
2747 | % .nc.civ1{i,j}, .nc.civ2{i,j}; set of nc files for PIV results |
---|
2748 | % .ncA.civ1{i,j}, .ncA.civ2{i,j}; set of nc files for PIV results with camA (then .nc corresponds to camB) |
---|
2749 | % .st{i,j}; set of nc files for the combined stereo fields |
---|
2750 | function [filecell,num1_civ1,num2_civ1,num_a_civ1,num_b_civ1,num1_civ2,num2_civ2,num_a_civ2,num_b_civ2,nom_type_nc,file_ref_fix1,file_ref_fix2]=... |
---|
2751 | set_civ_filenames(handles,compare,box_test) |
---|
2752 | %------------------------------------------------------------------------ |
---|
2753 | %get the filename root, nomenclature and numbers |
---|
2754 | filebase=get(handles.displ_filebase,'String'); |
---|
2755 | browse=get(handles.browse_root,'UserData'); |
---|
2756 | compare_list=get(handles.compare,'String'); |
---|
2757 | val=get(handles.compare,'Value'); |
---|
2758 | compare=compare_list{val}; |
---|
2759 | if strcmp(compare,'displacement') |
---|
2760 | mode='displacement'; |
---|
2761 | else |
---|
2762 | mode_list=get(handles.mode,'String'); |
---|
2763 | mode_value=get(handles.mode,'Value'); |
---|
2764 | mode=mode_list{mode_value}; |
---|
2765 | end |
---|
2766 | time=get(handles.displ_filebase,'UserData'); %get the set of times |
---|
2767 | ext_ima=get(handles.ext_ima,'String'); |
---|
2768 | nom_type_nc=browse.nom_type_nc; |
---|
2769 | nom_type_ima2=browse.nom_type_ima; |
---|
2770 | if isequal(nom_type_ima2,[]),nom_type_ima2='ima_num';end; %default |
---|
2771 | if isequal(nom_type_nc,[]),nom_type_nc='_i1-i2';end; %default |
---|
2772 | [num1_civ1,num2_civ1,num_a_civ1,num_b_civ1,num1_civ2,num2_civ2,num_a_civ2,num_b_civ2]=... |
---|
2773 | find_pair_indices(handles,mode); |
---|
2774 | |
---|
2775 | %determine the new filebase for 'displacement' mode (comparison of two series) |
---|
2776 | filebase_B=filebase;% root name of the second field series for stereo |
---|
2777 | if strcmp(compare,'displacement') || strcmp(compare,'stereo PIV') |
---|
2778 | test_disp=1; |
---|
2779 | nom_type_ima1=browse.nom_type_ima_1; %nomenclature type of the second file series |
---|
2780 | [Path2,Name2]=fileparts(filebase_B); |
---|
2781 | Path1=Path2; |
---|
2782 | Name1=get(handles.displ_filebase2,'String');% root name of the first field series for stereo |
---|
2783 | filebase_A=fullfile(Path1,Name1); |
---|
2784 | if length(Name1)>6 |
---|
2785 | Name1=Name1(end-5:end); |
---|
2786 | end |
---|
2787 | if length(Name2)>6 |
---|
2788 | Name2=Name2(end-5:end); |
---|
2789 | end |
---|
2790 | filebase_AB=fullfile(Path2,[Name2 '-' Name1]); |
---|
2791 | else |
---|
2792 | test_disp=0; |
---|
2793 | filebase_A=filebase; |
---|
2794 | nom_type_ima1=nom_type_ima2; |
---|
2795 | filebase_AB=filebase; |
---|
2796 | end |
---|
2797 | if strcmp(compare,'displacement') |
---|
2798 | filebase_ima1=filebase_A; |
---|
2799 | filebase_ima2=filebase_B; |
---|
2800 | filebase_nc=filebase_AB; %root name for the result of civ2 |
---|
2801 | else |
---|
2802 | filebase_ima1=filebase_B; |
---|
2803 | filebase_ima2=filebase_B; |
---|
2804 | filebase_nc=filebase_B; |
---|
2805 | end |
---|
2806 | |
---|
2807 | %determine reference files for fix: |
---|
2808 | file_ref_fix1={};%default |
---|
2809 | file_ref_fix2={}; |
---|
2810 | nbfield=length(num1_civ1); |
---|
2811 | nbslice=length(num_a_civ1); |
---|
2812 | if box_test(2)==1% fix1 performed |
---|
2813 | ref=get(handles.ref_fix1,'UserData');%read data on the ref file stored by get_ref_fix1_Callback |
---|
2814 | if ~isempty(ref) |
---|
2815 | first_i=str2num(get(handles.first_i,'String')); |
---|
2816 | last_i=str2num(get(handles.last_i,'String')); |
---|
2817 | incr_i=str2num(get(handles.incr_i,'String')); |
---|
2818 | first_j=str2num(get(handles.first_j,'String')); |
---|
2819 | last_j=str2num(get(handles.last_j,'String')); |
---|
2820 | incr_j=str2num(get(handles.incr_j,'String')); |
---|
2821 | num_i_ref=[first_i:incr_i:last_i]; |
---|
2822 | num_j_ref=[first_j:incr_j:last_j]; |
---|
2823 | if isequal(mode,'displacement') |
---|
2824 | num_i1=num_i_ref; |
---|
2825 | num_i2=num_i_ref; |
---|
2826 | num_j1=num_j_ref; |
---|
2827 | num_j2=num_j_ref; |
---|
2828 | elseif isequal(mode,'pair j1-j2')% isequal(mode,'st_pair j1-j2') |
---|
2829 | num_i1=num_i_ref; |
---|
2830 | num_i2=num_i1; |
---|
2831 | num_j1=ref.num_a*ones(size(num_i_ref)); |
---|
2832 | num_j2=ref.num_b*ones(size(num_i_ref)); |
---|
2833 | elseif isequal(mode,'series(Di)') % isequal(mode,'st_series(Di)') |
---|
2834 | delta1=floor((ref.num2-ref.num1)/2); |
---|
2835 | delta2=ceil((ref.num2-ref.num1)/2); |
---|
2836 | num_i1=num_i_ref-delta1*ones(size(num_i_ref)); |
---|
2837 | num_i2=num_i_ref+delta2*ones(size(num_i_ref)); |
---|
2838 | if isempty(ref.num_a) |
---|
2839 | ref.num_a=1; |
---|
2840 | end |
---|
2841 | num_j1=ref.num_a*ones(size(num_i1)); |
---|
2842 | num_j2=num_j1; |
---|
2843 | elseif isequal(mode,'series(Dj)')%| isequal(mode,'st_series(Dj)') |
---|
2844 | delta1=floor((ref.num_b-ref.num_a)/2); |
---|
2845 | delta2=ceil((ref.num_b-ref.num_a)/2); |
---|
2846 | num_i1=ref.num1*ones(size(num_i_ref)); |
---|
2847 | num_i2=num_i1; |
---|
2848 | num_j1=num_j_ref-delta1*ones(size(num_j_ref)); |
---|
2849 | num_j2=num_j_ref+delta2*ones(size(num_j_ref)); |
---|
2850 | end |
---|
2851 | for ifile=1:nbfield |
---|
2852 | for j=1:nbslice |
---|
2853 | file_ref=name_generator(ref.filebase,num_i1(ifile),num_j1(j),'.nc',ref.nom_type,1,num_i2(ifile),num_j2(j),ref.subdir);% |
---|
2854 | file_ref_fix1(ifile,j)={file_ref}; |
---|
2855 | if ~exist(file_ref,'file') |
---|
2856 | msgbox_uvmat('ERROR',['reference file ' file_ref ' not found for fix1']) |
---|
2857 | filecell=[]; |
---|
2858 | return |
---|
2859 | end |
---|
2860 | end |
---|
2861 | end |
---|
2862 | end |
---|
2863 | end |
---|
2864 | |
---|
2865 | %determine reference files for fix2: |
---|
2866 | if box_test(5)==1% fix2 performed |
---|
2867 | ref=get(handles.ref_fix2,'UserData'); |
---|
2868 | if ~isempty(ref) |
---|
2869 | first_i=str2num(get(handles.first_i,'String')); |
---|
2870 | last_i=str2num(get(handles.last_i,'String')); |
---|
2871 | incr_i=str2num(get(handles.incr_i,'String')); |
---|
2872 | first_j=str2num(get(handles.first_j,'String')); |
---|
2873 | last_j=str2num(get(handles.last_j,'String')); |
---|
2874 | incr_j=str2num(get(handles.incr_j,'String')); |
---|
2875 | num_i_ref=[first_i:incr_i:last_i]; |
---|
2876 | num_j_ref=[first_j:incr_j:last_j]; |
---|
2877 | if isequal(mode,'displacement') |
---|
2878 | num_i1=num_i_ref; |
---|
2879 | num_i2=num_i_ref; |
---|
2880 | num_j1=num_j_ref; |
---|
2881 | num_j2=num_j_ref; |
---|
2882 | elseif isequal(mode,'pair j1-j2') |
---|
2883 | num_i1=num_i_ref; |
---|
2884 | num_i2=num_i1; |
---|
2885 | num_j1=ref.num_a; |
---|
2886 | num_j2=ref.num_b; |
---|
2887 | elseif isequal(mode,'series(Di)') |
---|
2888 | delta1=floor((ref.num2-ref.num1)/2); |
---|
2889 | delta2=ceil((ref.num2-ref.num1)/2); |
---|
2890 | num_i1=num_i_ref-delta1*ones(size(num_i_ref)); |
---|
2891 | num_i2=num_i_ref+delta2*ones(size(num_i_ref)); |
---|
2892 | num_j1=ref.num_a*ones(size(num_i1)); |
---|
2893 | num_j2=num_j1; |
---|
2894 | elseif isequal(mode,'series(Dj)') |
---|
2895 | delta1=floor((ref.num_b-ref.num_a)/2); |
---|
2896 | delta2=ceil((ref.num_b-ref.num_a)/2); |
---|
2897 | num_i1=ref.num1*ones(size(num_i_ref)); |
---|
2898 | num_i2=num_i1; |
---|
2899 | num_j1=num_j_ref-delta1*ones(size(num_j_ref)); |
---|
2900 | num_j2=num_j_ref+delta2*ones(size(num_j_ref)); |
---|
2901 | end |
---|
2902 | for ifile=1:nbfield |
---|
2903 | for j=1:nbslice |
---|
2904 | file_ref=name_generator(ref.filebase,num_i1(ifile),num_j1(j),'.nc',ref.nom_type,1,num_i2(ifile),num_j2(j),ref.subdir);% |
---|
2905 | file_ref_fix2(ifile,j)={file_ref}; |
---|
2906 | if ~exist(file_ref,'file') |
---|
2907 | msgbox_uvmat('ERROR',['reference file ' file_ref ' not found for fix2']) |
---|
2908 | filecell=[]; |
---|
2909 | return |
---|
2910 | end |
---|
2911 | end |
---|
2912 | end |
---|
2913 | end |
---|
2914 | end |
---|
2915 | |
---|
2916 | %check dir |
---|
2917 | subdir_civ1=get(handles.subdir_civ1,'String');%subdirectory subdir_civ1 for the netcdf output data |
---|
2918 | subdir_civ2=get(handles.subdir_civ2,'String'); |
---|
2919 | if isequal(subdir_civ1,''),subdir_civ1='A'; end% put default subdir |
---|
2920 | if isequal(subdir_civ2,''),subdir_civ2=subdir_civ1; end% put default subdir |
---|
2921 | currentdir=pwd;%store the current working directory |
---|
2922 | [Path_ima,Name]=fileparts(filebase);%Path of the image files (.civ) |
---|
2923 | if ~exist(Path_ima,'dir') |
---|
2924 | msgbox_uvmat('ERROR',['path to images ' Path_ima ' not found']) |
---|
2925 | filecell=[]; |
---|
2926 | return |
---|
2927 | end |
---|
2928 | cd(Path_ima);%move to the directory of the images: needed to create the result dir by 'mkdir' |
---|
2929 | dircur=pwd; %current working directory |
---|
2930 | m2=''; |
---|
2931 | [erread,message]=fileattrib(Path_ima); |
---|
2932 | if ~isempty(message) & ~isequal(message.UserWrite,1) |
---|
2933 | msgbox_uvmat('ERROR',['No writting access to ' Path_ima]) |
---|
2934 | filecell=[]; |
---|
2935 | cd(currentdir); |
---|
2936 | return |
---|
2937 | end |
---|
2938 | |
---|
2939 | %check the existence of the netcdf and image files involved |
---|
2940 | % %%%%%%%%%%%% case CIV1 activated %%%%%%%%%%%%% |
---|
2941 | if box_test(1)==1; |
---|
2942 | detect=1; |
---|
2943 | while detect==1 %create a new subdir if the netcdf files already exist |
---|
2944 | for ifile=1:nbfield; |
---|
2945 | for j=1:nbslice |
---|
2946 | filename=name_generator(filebase_nc,num1_civ1(ifile),num_a_civ1(j),'.nc',nom_type_nc,1,num2_civ1(ifile),num_b_civ1(j),subdir_civ1); |
---|
2947 | detect=exist(filename,'file')==2; |
---|
2948 | if detect% if a netcdf file already exists |
---|
2949 | subdir_civ1=[subdir_civ1 '.0']; |
---|
2950 | subdir_civ2=subdir_civ1; |
---|
2951 | break |
---|
2952 | end |
---|
2953 | filecell.nc.civ1(ifile,j)={filename}; |
---|
2954 | end |
---|
2955 | if detect% if a netcdf file already exists |
---|
2956 | break |
---|
2957 | end |
---|
2958 | end |
---|
2959 | %create the new subdir_civ1 |
---|
2960 | if ~exist(fullfile(Path_ima,subdir_civ1),'dir') |
---|
2961 | [m1,m2,m3]=mkdir(subdir_civ1); |
---|
2962 | if ~isequal(m2,'') |
---|
2963 | msgbox_uvmat('ERROR', m2) |
---|
2964 | %msgbox(m2);%error message for directory creation |
---|
2965 | end |
---|
2966 | end |
---|
2967 | if strcmp(compare,'stereo PIV')&&(strcmp(mode,'pair j1-j2')||strcmp(mode,'series(Dj)')||strcmp(mode,'series(Di)'))%check second nc series |
---|
2968 | for ifile=1:nbfield |
---|
2969 | for j=1:nbslice |
---|
2970 | filename=name_generator(filebase_A,num1_civ1(ifile),num_a_civ1(j),'.nc',nom_type_nc,1,num2_civ1(ifile),num_b_civ1(j),subdir_civ1);% |
---|
2971 | detect=exist(filename,'file')==2; |
---|
2972 | if detect% if a netcdf file already exists |
---|
2973 | subdir_civ1=[subdir_civ1 '.0']; |
---|
2974 | subdir_civ2=subdir_civ1; |
---|
2975 | break |
---|
2976 | end |
---|
2977 | filecell.ncA.civ1(ifile,j)={filename}; |
---|
2978 | end |
---|
2979 | if detect% if a netcdf file already exists |
---|
2980 | break |
---|
2981 | end |
---|
2982 | end |
---|
2983 | %create the new subdir_civ1 |
---|
2984 | if ~exist(fullfile(Path_ima,subdir_civ1),'dir') |
---|
2985 | [m1,m2,m3]=mkdir(subdir_civ1); |
---|
2986 | if ~isequal(m2,'') |
---|
2987 | msgbox_uvmat('ERROR', m2) |
---|
2988 | end |
---|
2989 | end |
---|
2990 | end |
---|
2991 | end |
---|
2992 | % get image names |
---|
2993 | for ifile=1:nbfield |
---|
2994 | for j=1:nbslice |
---|
2995 | filename=name_generator(filebase_ima1, num1_civ1(ifile),num_a_civ1(j),ext_ima,nom_type_ima1); |
---|
2996 | idetect(j)=exist(filename,'file')==2; |
---|
2997 | filecell.ima1.civ1(ifile,j)={filename}; %first image |
---|
2998 | filename=name_generator(filebase_ima2, num2_civ1(ifile),num_b_civ1(j),ext_ima,nom_type_ima2); |
---|
2999 | idetect_1(j)=exist(filename,'file')==2; |
---|
3000 | filecell.ima2.civ1(ifile,j)={filename};%second image |
---|
3001 | end |
---|
3002 | [idetectmin,indexj]=min(idetect); |
---|
3003 | if idetectmin==0, |
---|
3004 | msgbox_uvmat('ERROR',[filecell.ima1.civ1{ifile,indexj} ' not found']) |
---|
3005 | filecell=[]; |
---|
3006 | return |
---|
3007 | end |
---|
3008 | [idetectmin,indexj]=min(idetect_1); |
---|
3009 | if idetectmin==0, |
---|
3010 | msgbox_uvmat('ERROR',[filecell.ima2.civ1{ifile,indexj} ' not found']) |
---|
3011 | filecell=[]; |
---|
3012 | cd(currentdir) |
---|
3013 | return |
---|
3014 | end |
---|
3015 | end |
---|
3016 | if strcmp(compare,'stereo PIV') && (strcmp(mode,'pair j1-j2') || strcmp(mode,'series(Dj)') || strcmp(mode,'series(Di)')) |
---|
3017 | for ifile=1:nbfield |
---|
3018 | for j=1:nbslice |
---|
3019 | filename=name_generator(filebase_A, num1_civ1(ifile),num_a_civ1(j),ext_ima,nom_type_ima1); |
---|
3020 | idetect(j)=exist(filename,'file')==2; |
---|
3021 | filecell.imaA1.civ1(ifile,j)={filename} ;%first image |
---|
3022 | filename=name_generator(filebase_A, num2_civ1(ifile),num_b_civ1(j),ext_ima,nom_type_ima2); |
---|
3023 | idetect_1(j)=exist(filename,'file')==2; |
---|
3024 | filecell.imaA2.civ1(ifile,j)={filename};%second image |
---|
3025 | end |
---|
3026 | [idetectmin,indexj]=min(idetect); |
---|
3027 | if idetectmin==0, |
---|
3028 | msgbox_uvmat('ERROR',[filecell.imaA1.civ1{ifile,indexj} ' not found']) |
---|
3029 | filecell=[]; |
---|
3030 | cd(currentdir) |
---|
3031 | return |
---|
3032 | end |
---|
3033 | [idetectmin,indexj]=min(idetect_1); |
---|
3034 | if idetectmin==0, |
---|
3035 | msgbox_uvmat('ERROR',[filecell.imaA2.civ1{ifile,indexj} ' not found']) |
---|
3036 | filecell=[]; |
---|
3037 | cd(currentdir) |
---|
3038 | return |
---|
3039 | end |
---|
3040 | end |
---|
3041 | end |
---|
3042 | |
---|
3043 | %%%%%%%%%%%%% fix1 or patch1 activated but no civ1 %%%%%%%%%%%%% |
---|
3044 | elseif (box_test(2)==1 || box_test(3)==1); |
---|
3045 | for ifile=1:nbfield |
---|
3046 | for j=1:nbslice |
---|
3047 | filename=name_generator(filebase_nc,num1_civ1(ifile),num_a_civ1(j),'.nc',... |
---|
3048 | nom_type_nc,1,num2_civ1(ifile),num_b_civ1(j),subdir_civ1);% |
---|
3049 | detect=exist(filename,'file')==2; |
---|
3050 | filecell.nc.civ1(ifile,j)={filename}; |
---|
3051 | end |
---|
3052 | end |
---|
3053 | if strcmp(compare,'stereo PIV') |
---|
3054 | for ifile=1:nbfield |
---|
3055 | for j=1:nbslice |
---|
3056 | filename=name_generator(filebase_A,num1_civ1(ifile),num_a_civ1(j),'.nc',nom_type_nc,1,num2_civ1(ifile),num_b_civ1(j),subdir_civ1);% |
---|
3057 | filecell.ncA.civ1(ifile,j)={filename}; |
---|
3058 | if ~exist(filename,'file') |
---|
3059 | msgbox_uvmat('ERROR',['input file ' filename ' not found']) |
---|
3060 | set(handles.RUN, 'Enable','On') |
---|
3061 | set(handles.RUN,'BackgroundColor',[1 0 0]) |
---|
3062 | set(handles.BATCH, 'Enable','On') |
---|
3063 | set(handles.BATCH,'BackgroundColor',[1 0 0]) |
---|
3064 | filecell=[]; |
---|
3065 | cd(currentdir) |
---|
3066 | return |
---|
3067 | end |
---|
3068 | end |
---|
3069 | end |
---|
3070 | end |
---|
3071 | end |
---|
3072 | |
---|
3073 | %%%%%%%%%%%%% if civ2 performed with pairs different than civ1 %%%%%%%%%%%%% |
---|
3074 | testdiff=0; |
---|
3075 | if (box_test(4)==1)&&... |
---|
3076 | ((get(handles.list_pair_civ1,'Value')~=get(handles.list_pair_civ2,'Value'))||~isequal(subdir_civ2,subdir_civ1)) |
---|
3077 | testdiff=1; |
---|
3078 | detect=1; |
---|
3079 | while detect==1 %create a new subdir if the netcdf files already exist |
---|
3080 | for ifile=1:nbfield |
---|
3081 | for j=1:nbslice |
---|
3082 | filename=name_generator(filebase_nc,num1_civ2(ifile),num_a_civ2(j),'.nc',nom_type_nc,1,num2_civ2(ifile),num_b_civ2(j),subdir_civ2);% |
---|
3083 | detect=exist(filename,'file')==2; |
---|
3084 | if detect% if a netcdf file already exists |
---|
3085 | subdir_civ2=[subdir_civ2 '.0']; |
---|
3086 | break |
---|
3087 | end |
---|
3088 | filecell.nc.civ2(ifile,j)={filename}; |
---|
3089 | end |
---|
3090 | if detect% if a netcdf file already exists |
---|
3091 | break |
---|
3092 | end |
---|
3093 | end |
---|
3094 | %create the new subdir_civ2 |
---|
3095 | if ~exist(fullfile(Path_ima,subdir_civ2),'dir') |
---|
3096 | [m1,m2,m3]=mkdir(subdir_civ2); |
---|
3097 | if ~isequal(m2,'') |
---|
3098 | msgbox_uvmat('ERROR', m2) |
---|
3099 | end |
---|
3100 | end |
---|
3101 | if strcmp(compare,'stereo PIV')%check second nc series |
---|
3102 | for ifile=1:nbfield |
---|
3103 | for j=1:nbslice |
---|
3104 | filename=name_generator(filebase_A,num1_civ2(ifile),num_a_civ2(j),'.nc',... |
---|
3105 | nom_type_nc,1,num2_civ2(ifile),num_b_civ1(j),subdir_civ2);% |
---|
3106 | detect=exist(filename,'file')==2; |
---|
3107 | if detect% if a netcdf file already exists |
---|
3108 | subdir_civ2=[subdir_civ2 '.0']; |
---|
3109 | break |
---|
3110 | end |
---|
3111 | filecell.ncA.civ2(ifile,j)={filename}; |
---|
3112 | end |
---|
3113 | if detect% if a netcdf file already exists |
---|
3114 | break |
---|
3115 | end |
---|
3116 | end |
---|
3117 | %create the new subdir_civ1 |
---|
3118 | if ~exist(fullfile(Path_ima,subdir_civ2),'dir') |
---|
3119 | [m1,m2,m3]=mkdir(subdir_civ2); |
---|
3120 | if ~isequal(m2,'') |
---|
3121 | msgbox_uvmat('ERROR', m2) |
---|
3122 | %msgbox(m2);%error message for directory creation |
---|
3123 | end |
---|
3124 | end |
---|
3125 | end |
---|
3126 | end |
---|
3127 | end |
---|
3128 | cd(currentdir);%come back to the current working directory |
---|
3129 | |
---|
3130 | |
---|
3131 | %%%%%%%%%%%%% if civ2 results are obtained or used %%%%%%%%%%%%% |
---|
3132 | if box_test(4)==1 || box_test(5)==1 || box_test(6)==1 %civ2 |
---|
3133 | %check source netcdf file of civ1 estimates |
---|
3134 | if box_test(1)==0; %no civ1 performed |
---|
3135 | for ifile=1:nbfield |
---|
3136 | for j=1:nbslice |
---|
3137 | filename=name_generator(filebase_nc,num1_civ1(ifile),num_a_civ1(j),'.nc',... |
---|
3138 | nom_type_nc,1,num2_civ1(ifile),num_b_civ1(j),subdir_civ1);% |
---|
3139 | filecell.nc.civ1(ifile,j)={filename};% name of the civ1 file |
---|
3140 | if ~exist(filename,'file') |
---|
3141 | msgbox_uvmat('ERROR',['input file ' filename ' not found']) |
---|
3142 | filecell=[]; |
---|
3143 | return |
---|
3144 | end |
---|
3145 | if ~testdiff % civ2 or patch2 are written in the same file as civ1 |
---|
3146 | if box_test(4)==0 ; %check the existence of civ2 if it is not calculated |
---|
3147 | Data=nc2struct(filename,'ListGlobalAttribute','civ2'); |
---|
3148 | if isempty(Data.civ2)||isequal(Data.civ2,0) |
---|
3149 | msgbox_uvmat('ERROR',['no civ2 data in ' filename]) |
---|
3150 | filecell=[]; |
---|
3151 | return |
---|
3152 | end |
---|
3153 | elseif box_test(3)==0; %check the existence of patch if it is not calculated |
---|
3154 | Data=nc2struct(filename,'ListGlobalAttribute','patch'); |
---|
3155 | if isempty(Data.patch)||isequal(Data.patch,0) |
---|
3156 | msgbox_uvmat('ERROR',['no patch data in ' filename]) |
---|
3157 | filecell=[]; |
---|
3158 | return |
---|
3159 | end |
---|
3160 | end |
---|
3161 | end |
---|
3162 | end |
---|
3163 | end |
---|
3164 | if strcmp(compare,'stereo PIV') |
---|
3165 | for ifile=1:nbfield |
---|
3166 | for j=1:nbslice |
---|
3167 | filename=name_generator(filebase_A,num1_civ2(ifile),num_a_civ2(j),'.nc',... |
---|
3168 | nom_type_nc,1,num2_civ2(ifile),num_b_civ2(j),subdir_civ2);% |
---|
3169 | filecell.ncA.civ2(ifile,j)={filename}; |
---|
3170 | if ~exist(filename,'file') |
---|
3171 | msgbox_uvmat('ERROR',['input file ' filename ' not found']) |
---|
3172 | set(handles.RUN, 'Enable','On') |
---|
3173 | set(handles.RUN,'BackgroundColor',[1 0 0]) |
---|
3174 | set(handles.BATCH, 'Enable','On') |
---|
3175 | set(handles.BATCH,'BackgroundColor',[1 0 0]) |
---|
3176 | cd(currentdir) |
---|
3177 | return |
---|
3178 | end |
---|
3179 | end |
---|
3180 | end |
---|
3181 | end |
---|
3182 | end |
---|
3183 | |
---|
3184 | detect=1; |
---|
3185 | % while detect==1%creates a new subdir if the netcdf files already contain civ2 data |
---|
3186 | for ifile=1:nbfield |
---|
3187 | for j=1:nbslice |
---|
3188 | filename=name_generator(filebase_nc,num1_civ2(ifile),num_a_civ2(j),'.nc',... |
---|
3189 | nom_type_nc,1,num2_civ2(ifile),num_b_civ2(j),subdir_civ2); |
---|
3190 | detect=exist(filename,'file')==2; |
---|
3191 | filecell.nc.civ2(ifile,j)={filename}; |
---|
3192 | end |
---|
3193 | end |
---|
3194 | %get first image names for civ2 |
---|
3195 | if box_test(1)==1 & isequal(num1_civ1,num1_civ2) & isequal(num_a_civ1,num_a_civ2) |
---|
3196 | filecell.ima1.civ2=filecell.ima1.civ1; |
---|
3197 | elseif box_test(4)==1 |
---|
3198 | for ifile=1:nbfield |
---|
3199 | for j=1:nbslice |
---|
3200 | filename=name_generator(filebase_ima1, num1_civ2(ifile),num_a_civ2(j),ext_ima,nom_type_ima1); |
---|
3201 | idetect_2(j)=exist(filename,'file')==2; |
---|
3202 | filecell.ima1.civ2(ifile,j)={filename};%first image |
---|
3203 | end |
---|
3204 | [idetectmin,indexj]=min(idetect_2); |
---|
3205 | if idetectmin==0, |
---|
3206 | msgbox_uvmat('ERROR',['input image ' filecell.ima1.civ2{ifile,indexj} ' not found']) |
---|
3207 | filecell=[]; |
---|
3208 | return |
---|
3209 | end |
---|
3210 | end |
---|
3211 | end |
---|
3212 | |
---|
3213 | %get second image names for civ2 |
---|
3214 | if box_test(1)==1 & isequal(num2_civ1,num2_civ2) & isequal(num_b_civ1,num_b_civ2) |
---|
3215 | filecell.ima2.civ2=filecell.ima2.civ1; |
---|
3216 | elseif box_test(4)==1 |
---|
3217 | for ifile=1:nbfield |
---|
3218 | for j=1:nbslice |
---|
3219 | filename=name_generator(filebase_ima2, num2_civ2(ifile),num_b_civ2(j),ext_ima,nom_type_ima2); |
---|
3220 | idetect_3(j)=exist(filename,'file')==2; |
---|
3221 | filecell.ima2.civ2(ifile,j)={filename};%first image |
---|
3222 | end |
---|
3223 | [idetectmin,indexj]=min(idetect_3); |
---|
3224 | if idetectmin==0, |
---|
3225 | msgbox_uvmat('ERROR',['input image ' filecell.ima2.civ2{ifile,indexj} ' not found']) |
---|
3226 | filecell=[]; |
---|
3227 | return |
---|
3228 | end |
---|
3229 | end |
---|
3230 | end |
---|
3231 | end |
---|
3232 | if (box_test(5)==1 || box_test(6)==1 ) && box_test(4)==0 % need to read an existing netcdf civ2 file |
---|
3233 | if ~testdiff |
---|
3234 | filecell.nc.civ2=filecell.nc.civ1;% file already checked |
---|
3235 | else % check the civ2 files |
---|
3236 | for ifile=1:nbfield |
---|
3237 | for j=1:nbslice |
---|
3238 | filename=name_generator(filebase_nc,num1_civ2(ifile),num_a_civ2(j),'.nc',... |
---|
3239 | nom_type_nc,1,num2_civ2(ifile),num_b_civ2(j),subdir_civ2);% |
---|
3240 | filecell.nc.civ2(ifile,j)={filename}; |
---|
3241 | if ~exist(filename,'file') |
---|
3242 | msgbox_uvmat('ERROR',['input file ' filename ' not found']) |
---|
3243 | filecell=[]; |
---|
3244 | return |
---|
3245 | else |
---|
3246 | Data=nc2struct(filename,'ListGlobalAttribute','civ2'); |
---|
3247 | if isempty(Data.civ2)||isequal(Data.civ2,0) |
---|
3248 | msgbox_uvmat('ERROR',['no civ2 data in ' filename]) |
---|
3249 | filecell=[]; |
---|
3250 | return |
---|
3251 | end |
---|
3252 | end |
---|
3253 | end |
---|
3254 | end |
---|
3255 | end |
---|
3256 | end |
---|
3257 | |
---|
3258 | %%%%%%%%%%%%% if stereo fields are calculated by PATCH %%%%%%%%%%%%% |
---|
3259 | if strcmp(compare,'stereo PIV') |
---|
3260 | if box_test(3)==1 & isequal(get(handles.test_stereo1,'Value'),1) |
---|
3261 | for ifile=1:nbfield |
---|
3262 | for j=1:nbslice |
---|
3263 | filename=name_generator(filebase_AB,num1_civ1(ifile),num_a_civ1(j),'.nc',... |
---|
3264 | nom_type_nc,1,num2_civ1(ifile),num_b_civ1(j),subdir_civ1);% |
---|
3265 | filecell.st(ifile,j)={filename}; |
---|
3266 | end |
---|
3267 | end |
---|
3268 | end |
---|
3269 | if box_test(6)==1 & isequal(get(handles.test_stereo2,'Value'),1) |
---|
3270 | for ifile=1:nbfield |
---|
3271 | for j=1:nbslice |
---|
3272 | filename=name_generator(filebase_AB,num1_civ2(ifile),num_a_civ2(j),'.nc',... |
---|
3273 | nom_type_nc,1,num2_civ2(ifile),num_b_civ2(j),subdir_civ2);% |
---|
3274 | filecell.st(ifile,j)={filename}; |
---|
3275 | end |
---|
3276 | end |
---|
3277 | end |
---|
3278 | end |
---|
3279 | set(handles.subdir_civ1,'String',subdir_civ1);%update the edit box |
---|
3280 | set(handles.subdir_civ2,'String',subdir_civ2);%update the edit box |
---|
3281 | browse.nom_type_nc=nom_type_nc; |
---|
3282 | set(handles.browse_root,'UserData',browse); %update the nomenclature type for uvmat |
---|
3283 | |
---|
3284 | |
---|
3285 | %COPY IMAGES TO THE FORMAT .png IF NEEDED |
---|
3286 | if isequal(nom_type_ima1,'*') |
---|
3287 | nom_type_imanew='_i'; |
---|
3288 | else |
---|
3289 | nom_type_imanew1=nom_type_ima1; |
---|
3290 | end |
---|
3291 | if isequal(nom_type_ima2,'*') |
---|
3292 | nom_type_imanew='_i'; |
---|
3293 | else |
---|
3294 | nom_type_imanew2=nom_type_ima2; |
---|
3295 | end |
---|
3296 | if ~isequal(ext_ima,'.png') |
---|
3297 | %npxy=get(handles.ext_ima,'UserData'); |
---|
3298 | % % if numel(npxy)<2 |
---|
3299 | % |
---|
3300 | % filename=name_generator(filebase_ima1,num1_civ1(1),num_a_civ1(1),ext_ima,nom_type_ima1); |
---|
3301 | % A=imread(filename); |
---|
3302 | % npxy=size(A); |
---|
3303 | % % end |
---|
3304 | % npy=npxy(1); |
---|
3305 | % npx=npxy(2); |
---|
3306 | if box_test(1)==1 %if civ1 is performed |
---|
3307 | h = waitbar(0,['copy images to the .png format for civ1']);% display a wait bar |
---|
3308 | for ifile=1:nbfield |
---|
3309 | waitbar(ifile/nbfield); |
---|
3310 | for j=1:nbslice |
---|
3311 | filename=name_generator(filebase_ima1,num1_civ1(ifile),num_a_civ1(j),'.png',nom_type_imanew1); |
---|
3312 | if ~exist(filename,'file') |
---|
3313 | A=read_image(filecell.ima1.civ1{ifile,j},nom_type_ima2,num1_civ1(ifile)); |
---|
3314 | imwrite(A,filename,'BitDepth',16); |
---|
3315 | end |
---|
3316 | filecell.ima1.civ1(ifile,j)={filename}; |
---|
3317 | filename=name_generator(filebase_ima2, num2_civ1(ifile),num_b_civ1(j),'.png',nom_type_imanew2); |
---|
3318 | if ~exist(filename,'file') |
---|
3319 | A=read_image(filecell.ima2.civ1{ifile,j},nom_type_ima2,num2_civ1(ifile)); |
---|
3320 | imwrite(A,filename,'BitDepth',16); |
---|
3321 | end |
---|
3322 | filecell.ima2.civ1(ifile,j)={filename}; |
---|
3323 | end |
---|
3324 | end |
---|
3325 | close(h) |
---|
3326 | end |
---|
3327 | if box_test(4)==1 %if civ2 is performed |
---|
3328 | h = waitbar(0,['copy images to the .png format for civ2']);% display a wait bar |
---|
3329 | for ifile=1:nbfield |
---|
3330 | waitbar(ifile/nbfield); |
---|
3331 | for j=1:nbslice |
---|
3332 | filename=name_generator(filebase_ima1,num1_civ2(ifile),num_a_civ2(j),'.png',nom_type_imanew1); |
---|
3333 | if ~exist(filename,'file') |
---|
3334 | A=read_image(cell2mat(filecell.ima1.civ2(ifile,j)),nom_type_ima2,num1_civ2(ifile)); |
---|
3335 | imwrite(A,filename,'BitDepth',16); |
---|
3336 | end |
---|
3337 | filecell.ima1.civ2(ifile,j)={filename}; |
---|
3338 | filename=name_generator(filebase_ima2, num2_civ2(ifile),num_b_civ2(j),'.png',nom_type_imanew2); |
---|
3339 | if ~exist(filename,'file') |
---|
3340 | A=read_image(cell2mat(filecell.ima2.civ2(ifile,j)),nom_type_ima2,num2.civ1(ifile)); |
---|
3341 | imwrite(A,filename,'BitDepth',16); |
---|
3342 | end |
---|
3343 | filecell.ima2.civ2(ifile,j)={filename}; |
---|
3344 | end |
---|
3345 | end |
---|
3346 | close(h); |
---|
3347 | end |
---|
3348 | end |
---|
3349 | |
---|
3350 | %------------------------------------------------------------------------ |
---|
3351 | %CIV1 CIV1 CIV1 CIV1 |
---|
3352 | function RUN_CIV1(handles,filecell,filecell_1,filecell_nc1,num1,num2,num_a,num_b,nom_type_nc) |
---|
3353 | %------------------------------------------------------------------------ |
---|
3354 | %pixels per cm and matrix of the image times, read from the .civ file by uvmat |
---|
3355 | global civ1_exe sge%name of the executable for civ1 calculation |
---|
3356 | |
---|
3357 | %get civ parameters |
---|
3358 | ibx_val=str2num(get(handles.ibx,'String')); |
---|
3359 | if isempty(ibx_val) |
---|
3360 | ibx='21'; set(handles.ibx,'String','21') |
---|
3361 | else |
---|
3362 | ibx=num2str(ibx_val); |
---|
3363 | end |
---|
3364 | iby_val=str2num(get(handles.iby,'String')); |
---|
3365 | if isempty(iby_val) |
---|
3366 | iby='21'; set(handles.iby,'String','21') |
---|
3367 | else |
---|
3368 | iby=num2str(iby_val); |
---|
3369 | end |
---|
3370 | isx=get(handles.isx,'String'); |
---|
3371 | if isempty(str2num(isx)), isx='41'; set(handles.isx,'String','41'), end; %default |
---|
3372 | if str2num(isx)<ibx_val+8,isx=num2str(ibx_val+8); set(handles.isx,'String',num2str(ibx_val+8)); end |
---|
3373 | isy=get(handles.isy,'String'); |
---|
3374 | if isempty(str2num(isy)), isy='41'; set(handles.isy,'String','41'), end;%default |
---|
3375 | if str2num(isy)<iby_val+8,isy=num2str(iby_val+8); set(handles.isy,'String',num2str(iby_val+8)); end |
---|
3376 | shiftx=get(handles.shiftx,'String'); |
---|
3377 | if isempty(str2num(shiftx)), shiftx='0'; set(handles.shiftx,'String','0'), end;%default |
---|
3378 | shifty=get(handles.shifty,'String'); |
---|
3379 | if isempty(str2num(shifty)), shifty='0'; set(handles.shifty,'String','0'), end;%default |
---|
3380 | rho=get(handles.rho,'String'); |
---|
3381 | dx=get(handles.dx_civ1,'String'); |
---|
3382 | if isequal(str2num(dx),[]), dx='20'; set(handles.dx_civ1,'String','20'); end%default |
---|
3383 | dy=get(handles.dy_civ1,'String'); |
---|
3384 | if isequal(str2num(dy),[]), dy='20'; set(handles.dy_civ1,'String','20');end %default |
---|
3385 | if isequal(str2num(dy),[]), dy='20'; end%default |
---|
3386 | pxcmx='1'; %velocity fields are expressed in pixel displacement |
---|
3387 | pxcmy='1'; |
---|
3388 | image_first=cell2mat(filecell(1,1)); |
---|
3389 | if ~exist(image_first,'file') |
---|
3390 | msgbox_uvmat('ERROR',['image ' image_first 'not found']) |
---|
3391 | set(handles.RUN, 'Enable','On') |
---|
3392 | set(handles.RUN,'BackgroundColor',[1 0 0]) |
---|
3393 | return |
---|
3394 | end |
---|
3395 | A=imread(cell2mat(filecell(1,1)));%read the first image to get the size |
---|
3396 | sizim=size(A); |
---|
3397 | npx=num2str(sizim(2)); |
---|
3398 | npy=num2str(sizim(1)); |
---|
3399 | time=get(handles.displ_filebase,'UserData'); %get the set of times |
---|
3400 | gridname='';%default ='noFile use default' |
---|
3401 | gridflag='n';%default |
---|
3402 | test_grid=get(handles.browse_gridciv1,'Value'); |
---|
3403 | nbslice_grid=[]; |
---|
3404 | if test_grid |
---|
3405 | gridname=get(handles.grid_civ1,'String'); |
---|
3406 | if numel(gridname)>4 && isequal(gridname(end-3:end),'grid') |
---|
3407 | nbslice_grid=str2num(gridname(1:end-4)); % |
---|
3408 | if ~isempty(nbslice_grid) |
---|
3409 | gridflag='y'; |
---|
3410 | end |
---|
3411 | elseif exist(gridname,'file') |
---|
3412 | gridflag='y'; |
---|
3413 | else |
---|
3414 | msgbox_uvmat('ERROR',['input grid file ' gridname ' not found']) |
---|
3415 | return |
---|
3416 | end |
---|
3417 | end |
---|
3418 | if isequal(get(handles.ImaThreshold,'Value'),1) |
---|
3419 | threshflag='y'; |
---|
3420 | min_ima=get(handles.MinIma,'String'); |
---|
3421 | max_ima=get(handles.MaxIma,'String'); |
---|
3422 | else |
---|
3423 | threshflag='n'; |
---|
3424 | min_ima='0'; |
---|
3425 | max_ima='4096'; |
---|
3426 | end |
---|
3427 | %main loop |
---|
3428 | filebase=get(handles.displ_filebase,'String'); |
---|
3429 | sizcell=size(filecell); |
---|
3430 | nbfield=sizcell(1); |
---|
3431 | nbslice=sizcell(2); |
---|
3432 | icount=0; |
---|
3433 | for ifile=1:nbfield |
---|
3434 | for j=1:nbslice |
---|
3435 | icount=icount+1; |
---|
3436 | barlength=0.188*icount/(nbfield*nbslice); |
---|
3437 | set(handles.waitbar_1,'Position',[0.946 0.877-barlength 0.03 barlength]) |
---|
3438 | drawnow |
---|
3439 | filename_ima=cell2mat(filecell(ifile,j)); |
---|
3440 | filename_ima([end-3:end])=[];%remove .png extension |
---|
3441 | filename_ima_1=cell2mat(filecell_1(ifile,j)); |
---|
3442 | filename_ima_1([end-3:end])=[];%remove .png extension |
---|
3443 | filename_cmx=cell2mat(filecell_nc1(ifile,j));%output netcdf file |
---|
3444 | filename_cmx([end-1:end])=[ 'cm'];%name of cmx file |
---|
3445 | filename_cmx=[filename_cmx 'x']; |
---|
3446 | namelog=[filename_cmx([1:end-3]) 'log']; |
---|
3447 | if size(time,1)>=num2(ifile) & size(time,2)>=num_b(j) |
---|
3448 | Dt=num2str(time(num2(ifile),num_b(j))-time(num1(ifile),num_a(j))); |
---|
3449 | if isequal(Dt,'0') |
---|
3450 | Dt='1' ;%case of 'displacement' mode |
---|
3451 | end |
---|
3452 | T0=num2str((time(num2(ifile),num_b(j))+time(num1(ifile),num_a(j)))/2); |
---|
3453 | else |
---|
3454 | Dt='1'; |
---|
3455 | T0='0'; |
---|
3456 | end |
---|
3457 | term_a=num2stra(num_a(j),nom_type_nc);%UTILITE? |
---|
3458 | term_b=num2stra(num_b(j),nom_type_nc);% |
---|
3459 | if test_grid && ~isempty(nbslice_grid) |
---|
3460 | num1_grid=mod(num1(ifile)-1,nbslice_grid)+1 |
---|
3461 | gridname=[filebase '_' name_generator(gridname,num1_grid,1,'.grid','_i')]; |
---|
3462 | if ~exist(gridname,'file') |
---|
3463 | msgbox_uvmat('ERROR',['missing grid file ' gridname]) |
---|
3464 | return |
---|
3465 | end |
---|
3466 | end |
---|
3467 | test_mask=get(handles.get_mask_civ1,'Value'); |
---|
3468 | if test_mask==0 |
---|
3469 | maskname='noFile use default'; |
---|
3470 | maskflag='n'; |
---|
3471 | else |
---|
3472 | maskdispl=get(handles.mask_civ1,'String');%look for mask name in edit box |
---|
3473 | maskbase=[filebase '_' maskdispl];% |
---|
3474 | nbslice=str2num(maskdispl(1:end-4)); % |
---|
3475 | num1_mask=mod(num1(ifile)-1,nbslice)+1; |
---|
3476 | maskname=name_generator(maskbase,num1_mask,1,'.png','_i'); |
---|
3477 | if exist(maskname,'file') |
---|
3478 | maskflag='y'; |
---|
3479 | else |
---|
3480 | maskname='noFile use default'; |
---|
3481 | maskflag='n'; |
---|
3482 | end |
---|
3483 | end |
---|
3484 | textcmx={'############## CMX file';... |
---|
3485 | ['FirstImage ' filename_ima];... |
---|
3486 | ['LastImage ' filename_ima_1];... |
---|
3487 | 'XX' ;... |
---|
3488 | ['Mask ' maskflag] ;... |
---|
3489 | ['MaskName ' maskname];... |
---|
3490 | ['ImageSize ' npx ' ' npy];... %VERIFIER CAS GENERAL ? |
---|
3491 | ['CorrelationBoxesSize ' ibx ' ' iby];... |
---|
3492 | ['SearchBoxeSize ' isx ' ' isy];... |
---|
3493 | ['RO ' rho];... |
---|
3494 | ['GridSpacing ' dx ' ' dy];... |
---|
3495 | 'XX 1.0';... |
---|
3496 | ['Dt_TO ' Dt ' ' T0];... |
---|
3497 | ['PixCmXY ' pxcmx ' ' pxcmy];... |
---|
3498 | 'XX 1';... |
---|
3499 | ['ShiftXY ' shiftx ' ' shifty];... |
---|
3500 | ['Grid ' gridflag];... |
---|
3501 | ['GridName ' gridname] ;... |
---|
3502 | 'XX 85';... |
---|
3503 | 'XX 1.0';... |
---|
3504 | 'XX 1.0';... |
---|
3505 | 'Hart 1';... |
---|
3506 | 'DecimalShift 0';... |
---|
3507 | 'Deformation 0';... |
---|
3508 | 'CorrelationMin 0';... |
---|
3509 | 'IntensityMin 0';... |
---|
3510 | ['SeuilImage ' threshflag];... |
---|
3511 | ['SeuilImageValues ' min_ima ' ' max_ima];... |
---|
3512 | ['ImageToUse ' term_a ' ' term_b];... % VERIFIER ? |
---|
3513 | 'ImageUsedBefore null null'}; |
---|
3514 | textout=char(textcmx); |
---|
3515 | % dlmwrite(filename_cmx,textout,''); |
---|
3516 | fid=fopen([filename_cmx],'w'); |
---|
3517 | fprintf(fid, ['############## CMX file' '\n']); |
---|
3518 | fprintf(fid, ['FirstImage ' regexprep(filename_ima,'\\','\\\\') '\n' ]); |
---|
3519 | fprintf(fid, ['LastImage ' regexprep(filename_ima_1,'\\','\\\\') '\n' ]); |
---|
3520 | fprintf(fid, ['XX' '\n' ]); |
---|
3521 | fprintf(fid, ['Mask ' maskflag '\n' ]); |
---|
3522 | fprintf(fid, ['MaskName ' maskname '\n' ]); |
---|
3523 | fprintf(fid, ['ImageSize ' npx ' ' npy '\n' ]); %VERIFIER CAS GENERAL ? |
---|
3524 | fprintf(fid, ['CorrelationBoxesSize ' ibx ' ' iby '\n' ]); |
---|
3525 | fprintf(fid, ['SearchBoxeSize ' isx ' ' isy '\n' ]); |
---|
3526 | fprintf(fid, ['RO ' rho '\n' ]); |
---|
3527 | fprintf(fid, ['GridSpacing ' dx ' ' dy '\n' ]); |
---|
3528 | fprintf(fid, ['XX 1.0' '\n' ]); |
---|
3529 | fprintf(fid, ['Dt_TO ' Dt ' ' T0 '\n' ]); |
---|
3530 | fprintf(fid, ['PixCmXY ' pxcmx ' ' pxcmy '\n' ]); |
---|
3531 | fprintf(fid, ['XX 1' '\n' ]); |
---|
3532 | fprintf(fid, ['ShiftXY ' shiftx ' ' shifty '\n' ]); |
---|
3533 | fprintf(fid, ['Grid ' gridflag '\n' ]); |
---|
3534 | fprintf(fid, ['GridName ' gridname '\n' ]); |
---|
3535 | fprintf(fid, ['XX 85' '\n' ]); |
---|
3536 | fprintf(fid, ['XX 1.0' '\n' ]); |
---|
3537 | fprintf(fid, ['XX 1.0' '\n' ]); |
---|
3538 | fprintf(fid, ['Hart 1' '\n' ]); |
---|
3539 | fprintf(fid, [ 'DecimalShift 0' '\n' ]); |
---|
3540 | fprintf(fid, ['Deformation 0' '\n' ]); |
---|
3541 | fprintf(fid, ['CorrelationMin 0' '\n' ]); |
---|
3542 | fprintf(fid, ['IntensityMin 0' '\n' ]); |
---|
3543 | fprintf(fid, ['SeuilImage n' '\n' ]); |
---|
3544 | fprintf(fid, ['SeuilImageValues 0 4096' '\n' ]); |
---|
3545 | fprintf(fid, ['ImageToUse ' term_a ' ' term_b '\n' ]); % VERIFIER ? |
---|
3546 | fprintf(fid, ['ImageUsedBefore null null' '\n' ]); |
---|
3547 | fclose(fid); |
---|
3548 | |
---|
3549 | s=-1; |
---|
3550 | display(['!' civ1_exe ' -f ' filename_cmx ' > ' namelog]) |
---|
3551 | eval(['!' civ1_exe ' -f ' filename_cmx ' > ' namelog]); |
---|
3552 | % if sge%dispatch computation on the cluster using interactive queue |
---|
3553 | % % [s,w] = unix(['qrsh -q fast.q ' civ1_exe ' -f ' filename_cmx ' > ' namelog ' 2>&1' ]); |
---|
3554 | % end |
---|
3555 | % if s~=0 |
---|
3556 | % % ['!' civ1_exe ' -f ' filename_cmx ' > ' namelog] |
---|
3557 | % % eval(['!' civ1_exe ' -f ' filename_cmx ' > ' namelog]); |
---|
3558 | % end |
---|
3559 | end |
---|
3560 | end |
---|
3561 | |
---|
3562 | %------------------------------------------------------------------------ |
---|
3563 | % RUN CIV2 CIV2 CIV2 CIV2 |
---|
3564 | function RUN_CIV2(handles,filecell_2,filecell_3,filecell_nc1,filecell_nc2,num1,num2,num_a,num_b,nom_type_nc) |
---|
3565 | %------------------------------------------------------------------------ |
---|
3566 | %filecell_2: names of first image |
---|
3567 | %filecell_3: names of second images |
---|
3568 | global civ2_exe sge |
---|
3569 | |
---|
3570 | %names of the civ2 fields |
---|
3571 | field.vel_type='civ2'; |
---|
3572 | field.nb='nb_vectors2'; |
---|
3573 | field.X='vec2_X'; |
---|
3574 | field.Y='vec2_Y'; |
---|
3575 | field.U='vec2_U'; |
---|
3576 | field.V='vec2_V'; |
---|
3577 | |
---|
3578 | %get civ parameters |
---|
3579 | ibx=get(handles.ibx_civ2,'String'); |
---|
3580 | iby=get(handles.iby_civ2,'String'); |
---|
3581 | rho=get(handles.rho_civ2,'String'); |
---|
3582 | decimal=int2str(get(handles.decimal,'Value')); |
---|
3583 | deformation=int2str(get(handles.deformation,'Value')); |
---|
3584 | dx=get(handles.dx_civ2,'String'); |
---|
3585 | dy=get(handles.dy_civ2,'String'); |
---|
3586 | if isequal(str2num(dx),[]) |
---|
3587 | dx='20';%default |
---|
3588 | end |
---|
3589 | if isequal(str2num(dy),[]) |
---|
3590 | dy='20';%default |
---|
3591 | end |
---|
3592 | pxcmx='1';%velocity fields are expressed in pixel displacement |
---|
3593 | pxcmy='1'; |
---|
3594 | A=imread(cell2mat(filecell_2(1,1)));%read the first image to get the size |
---|
3595 | sizim=size(A); |
---|
3596 | npx=num2str(sizim(2)); |
---|
3597 | npy=num2str(sizim(1)); |
---|
3598 | time=get(handles.displ_filebase,'UserData'); %get the set of times |
---|
3599 | filebase=get(handles.displ_filebase,'String'); |
---|
3600 | %grid |
---|
3601 | gridname='';%default ='noFile use default' |
---|
3602 | gridflag='n';%default |
---|
3603 | test_grid=get(handles.browse_gridciv2,'Value'); |
---|
3604 | nbslice_grid=[]; |
---|
3605 | if test_grid |
---|
3606 | gridname=get(handles.grid_civ2,'String'); |
---|
3607 | if numel(gridname)>4 && isequal(gridname(end-3:end),'grid') |
---|
3608 | nbslice_grid=str2num(gridname(1:end-4)); % |
---|
3609 | if ~isempty(nbslice_grid) |
---|
3610 | gridflag='y'; |
---|
3611 | end |
---|
3612 | elseif exist(gridname,'file') |
---|
3613 | gridflag='y'; |
---|
3614 | else |
---|
3615 | msgbox_uvmat('ERROR',['input grid file ' gridname ' not found']) |
---|
3616 | return |
---|
3617 | end |
---|
3618 | end |
---|
3619 | sizcell=size(filecell_2); |
---|
3620 | nbfield=sizcell(1); |
---|
3621 | nbslice=sizcell(2); |
---|
3622 | |
---|
3623 | %main loop |
---|
3624 | icount=0; |
---|
3625 | for ifile=1:nbfield |
---|
3626 | for j=1:nbslice |
---|
3627 | icount=icount+1; |
---|
3628 | barlength=0.188*icount/(nbfield*nbslice); |
---|
3629 | set(handles.waitbar_civ2,'Position',[0.946 0.407-barlength 0.03 barlength]) |
---|
3630 | drawnow |
---|
3631 | filename_ima_2=cell2mat(filecell_2(ifile,j)); |
---|
3632 | filename_ima_2([end-3:end])=[];%remove .png extension |
---|
3633 | filename_ima_3=cell2mat(filecell_3(ifile,j)); |
---|
3634 | filename_ima_3([end-3:end])=[];%remove .png extension |
---|
3635 | filename_cmx=cell2mat(filecell_nc2(ifile,j));%output netcdf file |
---|
3636 | filename_cmx([end-1:end])=[ 'cm'];%name of cmx file |
---|
3637 | filename_cmx=[filename_cmx 'x']; |
---|
3638 | namelog=[filename_cmx([1:end-3]) 'log']; |
---|
3639 | if size(time,1)>=num2(ifile) & size(time,2)>=num_b(j) |
---|
3640 | Dt=num2str(time(num2(ifile),num_b(j))-time(num1(ifile),num_a(j))); |
---|
3641 | if isequal(Dt,'0') |
---|
3642 | Dt='1' ;%case of 'displacement' mode |
---|
3643 | end |
---|
3644 | T0=num2str((time(num2(ifile),num_b(j))+time(num1(ifile),num_a(j)))/2); |
---|
3645 | else |
---|
3646 | Dt='1'; |
---|
3647 | T0='0'; |
---|
3648 | end |
---|
3649 | term_a=num2stra(num_a(j),nom_type_nc); |
---|
3650 | term_b=num2stra(num_b(j),nom_type_nc); |
---|
3651 | filename_nc1=cell2mat(filecell_nc1(ifile,j)); |
---|
3652 | filename_nc1([end-2:end])=[]; % remove '.nc' |
---|
3653 | if test_grid && ~isempty(nbslice_grid) |
---|
3654 | num1_grid=mod(num1(ifile)-1,nbslice_grid)+1 |
---|
3655 | gridname=[filebase '_' name_generator(gridname,num1_grid,1,'.grid','_i')]; |
---|
3656 | if ~exist(gridname,'file') |
---|
3657 | msgbox_uvmat('ERROR',['missing grid file ' gridname]) |
---|
3658 | return |
---|
3659 | end |
---|
3660 | end |
---|
3661 | test_mask=get(handles.get_mask_civ2,'Value'); |
---|
3662 | if test_mask==0 |
---|
3663 | maskname='noFile use default'; |
---|
3664 | maskflag='n'; |
---|
3665 | else |
---|
3666 | maskdispl=get(handles.mask_civ2,'String'); |
---|
3667 | maskbase=[filebase '_' maskdispl]; % |
---|
3668 | nbslice_mask=str2num(maskdispl(1:end-4)); % |
---|
3669 | num1_mask=mod(num1(ifile)-1,nbslice_mask)+1; |
---|
3670 | maskname =name_generator(maskbase,num1_mask,1,'.png','_i'); |
---|
3671 | if ~exist(maskname,'file') |
---|
3672 | maskflag='y'; |
---|
3673 | else |
---|
3674 | maskname='noFile use default'; |
---|
3675 | maskflag='n'; |
---|
3676 | end |
---|
3677 | end |
---|
3678 | |
---|
3679 | textcmx={'############## CMX file';... |
---|
3680 | ['FirstImage ' filename_ima_2];... |
---|
3681 | ['LastImage ' filename_ima_3];... |
---|
3682 | 'XX' ;... |
---|
3683 | ['Mask ' maskflag];... |
---|
3684 | ['MaskName ' maskname];... |
---|
3685 | ['ImageSize ' npx ' ' npy];... |
---|
3686 | ['CorrelationBoxesSize ' ibx ' ' iby];... |
---|
3687 | ['SearchBoxeSize ' ibx ' ' iby];... |
---|
3688 | ['RO ' rho];... |
---|
3689 | ['GridSpacing ' dx ' ' dy];... |
---|
3690 | 'XX 1.0';... |
---|
3691 | ['Dt_TO ' Dt ' ' T0];... |
---|
3692 | ['PixCmXY ' pxcmx ' ' pxcmy];... |
---|
3693 | 'XX 1';... |
---|
3694 | ['ShiftXY 0 0'];... |
---|
3695 | ['Grid ' gridflag];... |
---|
3696 | ['GridName ' gridname];... |
---|
3697 | 'XX 85';... |
---|
3698 | 'XX 1.0';... |
---|
3699 | 'XX 1.0';... |
---|
3700 | 'Hart 1';... |
---|
3701 | ['DecimalShift ' decimal];... |
---|
3702 | ['Deformation ' deformation];... |
---|
3703 | 'CorrelationMin 0';... |
---|
3704 | 'IntensityMin 0';... |
---|
3705 | 'SeuilImage n';... |
---|
3706 | 'SeuilImageValues 0 4096';... |
---|
3707 | ['ImageToUse ' term_a ' ' term_b];... % VERIFIER ? |
---|
3708 | ['ImageUsedBefore ' filename_nc1]}; |
---|
3709 | textout=char(textcmx); |
---|
3710 | dlmwrite(filename_cmx,textout,''); |
---|
3711 | s=-1; |
---|
3712 | display(['!' civ2_exe ' -f ' filename_cmx ' > ' namelog]) |
---|
3713 | eval(['!' civ2_exe ' -f ' filename_cmx ' > ' namelog]); |
---|
3714 | |
---|
3715 | % if sge%dispatch computation on the cluster using interactive queue |
---|
3716 | % [s,w] = unix(['qrsh -q fast.q ' civ2_exe ' -f ' filename_cmx ' > ' namelog ' 2>&1']); |
---|
3717 | % end |
---|
3718 | % if s~=0 |
---|
3719 | % eval(['!' civ2_exe ' -f ' filename_cmx ' > ' namelog]); |
---|
3720 | % ['!' civ2_exe ' -f ' filename_cmx ' > ' namelog] |
---|
3721 | % end |
---|
3722 | end |
---|
3723 | end |
---|
3724 | % close(h) |
---|
3725 | |
---|
3726 | %------------------------------------------------------------------------ |
---|
3727 | % --- PATCH |
---|
3728 | function cmd_PATCH=RUN_PATCH(filename_nc,nx_patch,ny_patch,rho_patch,subdomain_patch,thresh_value,test_interp) |
---|
3729 | %------------------------------------------------------------------------ |
---|
3730 | global patch_exe patch_new_exe |
---|
3731 | namelog=[filename_nc([1:end-3]) '_patch.log']; |
---|
3732 | if test_interp==0 |
---|
3733 | cmd_PATCH=[patch_exe ' -f ' filename_nc ' -m ' nx_patch ' -n ' ny_patch ' -ro ' rho_patch ' -nopt ' subdomain_patch ... |
---|
3734 | ' > ' namelog ' 2>&1']; % redirect standard output to the log file |
---|
3735 | else %nouveau programme patch |
---|
3736 | cmd_PATCH=[patch_new_exe ' -f ' filename_nc ' -m ' nx_patch ' -n ' ny_patch ' -ro ' rho_patch ... |
---|
3737 | ' -max ' thresh_value ' -nopt ' subdomain_patch ' > ' namelog ' 2>&1']; % redirect standard output to the log file |
---|
3738 | end |
---|
3739 | |
---|
3740 | %------------------------------------------------------------------------ |
---|
3741 | % --- STEREO Interp |
---|
3742 | function cmd=RUN_STINTERP(stinterp_exe,filename_A_nc,filename_B_nc,filename_nc,nx_patch,ny_patch,rho_patch,subdomain_patch,thresh_value,xmlA,xmlB) |
---|
3743 | %------------------------------------------------------------------------ |
---|
3744 | namelog=[filename_nc([1:end-3]) '_stinterp.log']; |
---|
3745 | cmd=[stinterp_exe ' -f1 ' filename_A_nc ' -f2 ' filename_B_nc ' -f ' filename_nc ... |
---|
3746 | ' -m ' nx_patch ' -n ' ny_patch ' -ro ' rho_patch ' -nopt ' subdomain_patch ' -c1 ' xmlA ' -c2 ' xmlB ' -xy x -Nfy 1024 > ' namelog ' 2>&1']; % redirect standard output to the log file |
---|
3747 | |
---|
3748 | %------------------------------------------------------------------------ |
---|
3749 | % --- Executes on button press in CIV1. |
---|
3750 | function CIV1_Callback(hObject, eventdata, handles) |
---|
3751 | %------------------------------------------------------------------------ |
---|
3752 | val=get(handles.CIV1,'Value'); |
---|
3753 | if isequal(val,1) |
---|
3754 | enable_civ1(handles,'on') |
---|
3755 | enable_pair1(handles,'on') |
---|
3756 | else |
---|
3757 | enable_civ1(handles,'off') |
---|
3758 | end |
---|
3759 | find_netcpair_civ1(hObject, eventdata, handles); |
---|
3760 | |
---|
3761 | %------------------------------------------------------------------------ |
---|
3762 | % --- Executes on button press in FIX1. |
---|
3763 | function FIX1_Callback(hObject, eventdata, handles) |
---|
3764 | %------------------------------------------------------------------------ |
---|
3765 | enable_fix1(handles,get(handles.FIX1,'Value')) |
---|
3766 | |
---|
3767 | %------------------------------------------------------------------------ |
---|
3768 | % --- Executes on button press in PATCH1. |
---|
3769 | function PATCH1_Callback(hObject, eventdata, handles) |
---|
3770 | %------------------------------------------------------------------------ |
---|
3771 | if get(handles.PATCH1,'Value')==1 |
---|
3772 | enable_patch1(handles) |
---|
3773 | else |
---|
3774 | desable_patch1(handles) |
---|
3775 | end |
---|
3776 | |
---|
3777 | %------------------------------------------------------------------------ |
---|
3778 | % --- Executes on button press in CIV2. |
---|
3779 | function CIV2_Callback(hObject, eventdata, handles) |
---|
3780 | %------------------------------------------------------------------------ |
---|
3781 | state=get(handles.CIV2,'Value'); |
---|
3782 | enable_civ2(handles,state) |
---|
3783 | if state |
---|
3784 | find_netcpair_civ2(hObject, eventdata, handles) |
---|
3785 | enable_pair1(handles,'on') |
---|
3786 | end |
---|
3787 | |
---|
3788 | %------------------------------------------------------------------------ |
---|
3789 | % --- Executes on button press in FIX2. |
---|
3790 | function FIX2_Callback(hObject, eventdata, handles) |
---|
3791 | %------------------------------------------------------------------------ |
---|
3792 | if get(handles.FIX2,'Value')==1 |
---|
3793 | enable_fix2(handles) |
---|
3794 | if get(handles.CIV2,'Value')==0 |
---|
3795 | find_netcpair_civ2(hObject, eventdata, handles) % select the available netcdf files |
---|
3796 | end |
---|
3797 | else |
---|
3798 | desable_fix2(handles) |
---|
3799 | end |
---|
3800 | |
---|
3801 | %------------------------------------------------------------------------ |
---|
3802 | % --- Executes on button press in PATCH2. |
---|
3803 | function PATCH2_Callback(hObject, eventdata, handles) |
---|
3804 | %------------------------------------------------------------------------ |
---|
3805 | if get(handles.PATCH2,'Value')==1 |
---|
3806 | enable_patch2(handles) |
---|
3807 | if get(handles.CIV2,'Value')==0 |
---|
3808 | find_netcpair_civ2(hObject, eventdata, handles) % select the available netcdf files |
---|
3809 | end |
---|
3810 | else |
---|
3811 | desable_patch2(handles) |
---|
3812 | end |
---|
3813 | |
---|
3814 | %------------------------------------------------------------------------ |
---|
3815 | function first_i_Callback(hObject, eventdata, handles) |
---|
3816 | %------------------------------------------------------------------------ |
---|
3817 | % last_i_Callback(hObject, eventdata, handles) |
---|
3818 | first_i=str2num(get(handles.first_i,'String')); |
---|
3819 | % last_i=str2num(get(handles.last_i,'String')); |
---|
3820 | % ref_i=ceil((first_i+last_i)/2); |
---|
3821 | set(handles.ref_i,'String', num2str(first_i))% reference index for pair dt = first index |
---|
3822 | ref_i_Callback(hObject, eventdata, handles)%refresh dispaly of dt for pairs (in case of non constant dt) |
---|
3823 | |
---|
3824 | %------------------------------------------------------------------------ |
---|
3825 | function first_j_Callback(hObject, eventdata, handles) |
---|
3826 | %------------------------------------------------------------------------ |
---|
3827 | first_j=str2num(get(handles.first_j,'String')); |
---|
3828 | set(handles.ref_j,'String', num2str(first_j))% reference index for pair dt = first index |
---|
3829 | ref_j_Callback(hObject, eventdata, handles)%refresh dispaly of dt for pairs (in case of non constant dt) |
---|
3830 | |
---|
3831 | %------------------------------------------------------------------------ |
---|
3832 | % --- Executes on button press in calcul_search: determine the search range isx,isy |
---|
3833 | function calcul_search_Callback(hObject, eventdata, handles) |
---|
3834 | %------------------------------------------------------------------------ |
---|
3835 | %determine pair numbers |
---|
3836 | list_pair=get(handles.list_pair_civ1,'String');%get the menu of image pairs |
---|
3837 | index=get(handles.list_pair_civ1,'Value'); |
---|
3838 | displ_num=get(handles.list_pair_civ1,'UserData'); |
---|
3839 | time=get(handles.displ_filebase,'UserData'); %get the set of times |
---|
3840 | pxcm_xy=get(handles.calcul_search,'UserData'); |
---|
3841 | pxcmx=pxcm_xy(1); |
---|
3842 | pxcmy=pxcm_xy(2); |
---|
3843 | mode_list=get(handles.mode,'String'); |
---|
3844 | mode_value=get(handles.mode,'Value'); |
---|
3845 | mode=mode_list{mode_value}; |
---|
3846 | if isequal (mode, 'series(Di)' ) |
---|
3847 | ref_i=str2num(get(handles.ref_i,'String')); |
---|
3848 | num1=ref_i-floor(index/2);% first image numbers |
---|
3849 | num2=ref_i+ceil(index/2); |
---|
3850 | num_a=1; |
---|
3851 | num_b=1; |
---|
3852 | elseif isequal (mode, 'series(Dj)') |
---|
3853 | num1=1; |
---|
3854 | num2=1; |
---|
3855 | ref_j=str2num(get(handles.ref_j,'String')); |
---|
3856 | num_a=ref_j-floor(index/2);% first image numbers |
---|
3857 | num_b=ref_j+ceil(index/2); |
---|
3858 | elseif isequal(mode,'pair j1-j2') %case of bursts (png_old or png_2D) |
---|
3859 | ref_i=str2num(get(handles.ref_i,'String')); |
---|
3860 | num1=ref_i; |
---|
3861 | num2=ref_i; |
---|
3862 | num_a=displ_num(1,index); |
---|
3863 | num_b=displ_num(2,index); |
---|
3864 | end |
---|
3865 | dt=time(num2,num_b)-time(num1,num_a); |
---|
3866 | ibx=str2num(get(handles.ibx,'String')); |
---|
3867 | iby=str2num(get(handles.iby,'String')); |
---|
3868 | umin=dt*pxcmx*str2num(get(handles.umin,'String')); |
---|
3869 | umax=dt*pxcmx*str2num(get(handles.umax,'String')); |
---|
3870 | vmin=dt*pxcmy*str2num(get(handles.vmin,'String')); |
---|
3871 | vmax=dt*pxcmy*str2num(get(handles.vmax,'String')); |
---|
3872 | shiftx=round((umin+umax)/2); |
---|
3873 | shifty=round((vmin+vmax)/2); |
---|
3874 | isx=(umax+2-shiftx)*2+ibx; |
---|
3875 | isx=2*ceil(isx/2)+1; |
---|
3876 | isy=(vmax+2-shifty)*2+iby; |
---|
3877 | isy=2*ceil(isy/2)+1; |
---|
3878 | set(handles.shiftx,'String',num2str(shiftx)); |
---|
3879 | set(handles.shifty,'String',num2str(shifty)); |
---|
3880 | set(handles.isx,'String',num2str(isx)); |
---|
3881 | set(handles.isy,'String',num2str(isy)); |
---|
3882 | |
---|
3883 | %------------------------------------------------------------------------ |
---|
3884 | % --- Executes on carriage return on the subdir civ1 edit window |
---|
3885 | function subdir_civ1_Callback(hObject, eventdata, handles) |
---|
3886 | %------------------------------------------------------------------------ |
---|
3887 | subdir=get(handles.subdir_civ1,'String'); |
---|
3888 | set(handles.subdir_civ2,'String',subdir); |
---|
3889 | if get(handles.CIV1,'Value')==0 |
---|
3890 | find_netcpair_civ1(hObject, eventdata, handles); %update the list of available pairs from netcdf files in the new directory |
---|
3891 | end |
---|
3892 | |
---|
3893 | %------------------------------------------------------------------------ |
---|
3894 | % --- Executes on carriage return on the subdir civ1 edit window |
---|
3895 | function subdir_civ2_Callback(hObject, eventdata, handles) |
---|
3896 | %------------------------------------------------------------------------ |
---|
3897 | %update the list of available pairs from netcdf files in the new directory |
---|
3898 | if get(handles.CIV2,'Value')==0 & get(handles.CIV1,'Value')==0 & get(handles.FIX1,'Value')==0 & get(handles.PATCH1,'Value')==0 |
---|
3899 | find_netcpair_civ2(hObject, eventdata, handles); |
---|
3900 | end |
---|
3901 | |
---|
3902 | %------------------------------------------------------------------------ |
---|
3903 | % --- Executes on button press in get_mask_civ1. |
---|
3904 | function get_mask_civ1_Callback(hObject, eventdata, handles) |
---|
3905 | %------------------------------------------------------------------------ |
---|
3906 | maskval=get(handles.get_mask_civ1,'Value'); |
---|
3907 | if isequal(maskval,0) |
---|
3908 | set(handles.mask_civ1,'String','') |
---|
3909 | else |
---|
3910 | mask_displ='no mask'; %default |
---|
3911 | filebase=get(handles.displ_filebase,'String'); |
---|
3912 | [ nbslice_mask, flag_mask]=get_mask(filebase,handles); |
---|
3913 | if isequal(flag_mask,1) |
---|
3914 | mask_displ=[num2str(nbslice_mask) 'mask']; |
---|
3915 | elseif get(handles.compare,'Value')>1 & ~isequal(mask_displ,'no mask')% look for the second mask series |
---|
3916 | common_path=fileparts(filebase); |
---|
3917 | filebase_a=fullfile(common_path,get(handles.displ_filebase2,'String')); |
---|
3918 | [nbslice_a, flag_mask_a]=get_mask(filebase_a,handles); |
---|
3919 | if isequal(flag_mask_a,0) || ~isequal(nbslice_a,nbslice_mask) |
---|
3920 | mask_displ='no mask'; |
---|
3921 | end |
---|
3922 | end |
---|
3923 | if isequal(mask_displ,'no mask') |
---|
3924 | [FileName, PathName, filterindex] = uigetfile( ... |
---|
3925 | {'*.png', ' (*.png)'; |
---|
3926 | '*.png', '.png files '; ... |
---|
3927 | '*.*', 'All Files (*.*)'}, ... |
---|
3928 | 'Pick a mask file *.png',filebase); |
---|
3929 | mask_displ=fullfile(PathName,FileName); |
---|
3930 | if ~exist(mask_displ,'file') |
---|
3931 | mask_displ='no mask'; |
---|
3932 | end |
---|
3933 | end |
---|
3934 | if isequal(mask_displ,'no mask') |
---|
3935 | set(handles.get_mask_civ1,'Value',0) |
---|
3936 | set(handles.get_mask_fix1,'Value',0) |
---|
3937 | set(handles.get_mask_civ2,'Value',0) |
---|
3938 | set(handles.get_mask_fix2,'Value',0) |
---|
3939 | else |
---|
3940 | set(handles.get_mask_fix1,'Value',1) |
---|
3941 | set(handles.get_mask_fix2,'Value',1) |
---|
3942 | end |
---|
3943 | set(handles.mask_civ1,'String',mask_displ) |
---|
3944 | set(handles.mask_fix1,'String',mask_displ) |
---|
3945 | set(handles.mask_civ2,'String',mask_displ) |
---|
3946 | set(handles.mask_fix2,'String',mask_displ) |
---|
3947 | end |
---|
3948 | |
---|
3949 | %------------------------------------------------------------------------ |
---|
3950 | % --- Executes on button press in get_mask_fix1. |
---|
3951 | function get_mask_fix1_Callback(hObject, eventdata, handles) |
---|
3952 | %------------------------------------------------------------------------ |
---|
3953 | maskval=get(handles.get_mask_fix1,'Value'); |
---|
3954 | if isequal(maskval,0) |
---|
3955 | set(handles.mask_fix1,'String','') |
---|
3956 | else |
---|
3957 | mask_displ='no mask'; %default |
---|
3958 | filebase=get(handles.displ_filebase,'String'); |
---|
3959 | [nbslice, flag_mask]=get_mask(filebase,handles); |
---|
3960 | if isequal(flag_mask,1) |
---|
3961 | mask_displ=[num2str(nbslice) 'mask']; |
---|
3962 | elseif get(handles.compare,'Value')>1 & ~isequal(mask_displ,'no mask')% look for the second mask series |
---|
3963 | filebase_a=get(handles.displ_filebase2,'String'); |
---|
3964 | [nbslice_a, flag_mask_a]=get_mask(filebase_a,handles); |
---|
3965 | if isequal(flag_mask_a,0) | ~isequal(nbslice_a,nbslice) |
---|
3966 | mask_displ='no mask'; |
---|
3967 | end |
---|
3968 | end |
---|
3969 | if isequal(mask_displ,'no mask') |
---|
3970 | [FileName, PathName, filterindex] = uigetfile( ... |
---|
3971 | {'*.png', ' (*.png)'; |
---|
3972 | '*.png', '.png files '; ... |
---|
3973 | '*.*', 'All Files (*.*)'}, ... |
---|
3974 | 'Pick a mask file *.png',filebase); |
---|
3975 | mask_displ=fullfile(PathName,FileName); |
---|
3976 | if ~exist(mask_displ,'file') |
---|
3977 | mask_displ='no mask'; |
---|
3978 | end |
---|
3979 | end |
---|
3980 | if isequal(mask_displ,'no mask') |
---|
3981 | set(handles.get_mask_fix1,'Value',0) |
---|
3982 | set(handles.get_mask_civ2,'Value',0) |
---|
3983 | set(handles.get_mask_fix2,'Value',0) |
---|
3984 | else |
---|
3985 | %set(handles.get_mask_civ2,'Value',1) |
---|
3986 | set(handles.get_mask_fix2,'Value',1) |
---|
3987 | end |
---|
3988 | set(handles.mask_fix1,'String',mask_displ) |
---|
3989 | set(handles.mask_civ2,'String',mask_displ) |
---|
3990 | set(handles.mask_fix2,'String',mask_displ) |
---|
3991 | end |
---|
3992 | |
---|
3993 | %------------------------------------------------------------------------ |
---|
3994 | % --- Executes on button press in get_mask_civ2. |
---|
3995 | function get_mask_civ2_Callback(hObject, eventdata, handles) |
---|
3996 | %------------------------------------------------------------------------ |
---|
3997 | maskval=get(handles.get_mask_civ2,'Value'); |
---|
3998 | if isequal(maskval,0) |
---|
3999 | set(handles.mask_civ2,'String','') |
---|
4000 | else |
---|
4001 | mask_displ='no mask'; %default |
---|
4002 | filebase=get(handles.displ_filebase,'String'); |
---|
4003 | [nbslice, flag_mask]=get_mask(filebase,handles); |
---|
4004 | if isequal(flag_mask,1) |
---|
4005 | mask_displ=[num2str(nbslice) 'mask']; |
---|
4006 | elseif get(handles.compare,'Value')>1 & ~isequal(mask_displ,'no mask')% look for the second mask series |
---|
4007 | filebase_a=get(handles.displ_filebase2,'String'); |
---|
4008 | [nbslice_a, flag_mask_a]=get_mask(filebase_a,handles); |
---|
4009 | if isequal(flag_mask_a,0) | ~isequal(nbslice_a,nbslice) |
---|
4010 | mask_displ='no mask'; |
---|
4011 | end |
---|
4012 | end |
---|
4013 | if isequal(mask_displ,'no mask') |
---|
4014 | [FileName, PathName, filterindex] = uigetfile( ... |
---|
4015 | {'*.png', ' (*.png)'; |
---|
4016 | '*.png', '.png files '; ... |
---|
4017 | '*.*', 'All Files (*.*)'}, ... |
---|
4018 | 'Pick a mask file *.png',filebase); |
---|
4019 | mask_displ=fullfile(PathName,FileName); |
---|
4020 | if ~exist(mask_displ,'file') |
---|
4021 | mask_displ='no mask'; |
---|
4022 | end |
---|
4023 | end |
---|
4024 | if isequal(mask_displ,'no mask') |
---|
4025 | set(handles.get_mask_civ2,'Value',0) |
---|
4026 | set(handles.get_mask_fix2,'Value',0) |
---|
4027 | else |
---|
4028 | set(handles.get_mask_fix2,'Value',1) |
---|
4029 | end |
---|
4030 | set(handles.mask_civ2,'String',mask_displ) |
---|
4031 | set(handles.mask_fix2,'String',mask_displ) |
---|
4032 | end |
---|
4033 | |
---|
4034 | %------------------------------------------------------------------------ |
---|
4035 | % --- Executes on button press in get_mask_fix2. |
---|
4036 | function get_mask_fix2_Callback(hObject, eventdata, handles) |
---|
4037 | %------------------------------------------------------------------------ |
---|
4038 | maskval=get(handles.get_mask_fix2,'Value'); |
---|
4039 | if isequal(maskval,0) |
---|
4040 | set(handles.mask_fix2,'String','') |
---|
4041 | else |
---|
4042 | mask_displ='no mask'; %default |
---|
4043 | filebase=get(handles.displ_filebase,'String'); |
---|
4044 | [nbslice, flag_mask]=get_mask(filebase,handles); |
---|
4045 | if isequal(flag_mask,1) |
---|
4046 | mask_displ=[num2str(nbslice) 'mask']; |
---|
4047 | elseif get(handles.compare,'Value')>1 & ~isequal(mask_displ,'no mask')% look for the second mask series |
---|
4048 | filebase_a=get(handles.displ_filebase2,'String'); |
---|
4049 | [nbslice_a, flag_mask_a]=get_mask(filebase_a,handles); |
---|
4050 | if isequal(flag_mask_a,0) | ~isequal(nbslice_a,nbslice) |
---|
4051 | mask_displ='no mask'; |
---|
4052 | end |
---|
4053 | end |
---|
4054 | if isequal(mask_displ,'no mask') |
---|
4055 | [FileName, PathName, filterindex] = uigetfile( ... |
---|
4056 | {'*.png', ' (*.png)'; |
---|
4057 | '*.png', '.png files '; ... |
---|
4058 | '*.*', 'All Files (*.*)'}, ... |
---|
4059 | 'Pick a mask file *.png',filebase); |
---|
4060 | mask_displ=fullfile(PathName,FileName); |
---|
4061 | if ~exist(mask_displ,'file') |
---|
4062 | mask_displ='no mask'; |
---|
4063 | end |
---|
4064 | end |
---|
4065 | if isequal(mask_displ,'no mask') |
---|
4066 | set(handles.get_mask_fix2,'Value',0) |
---|
4067 | end |
---|
4068 | set(handles.mask_fix2,'String',mask_displ) |
---|
4069 | end |
---|
4070 | |
---|
4071 | %------------------------------------------------------------------------ |
---|
4072 | % --- function called to look for mask files |
---|
4073 | function [nbslice, flag_mask]=get_mask(filebase,handles) |
---|
4074 | %------------------------------------------------------------------------ |
---|
4075 | %detect mask files, images with appropriate file base |
---|
4076 | %[filebase '_' xx 'mask'], xx=nbslice |
---|
4077 | %flag_mask=1 indicates detection |
---|
4078 | |
---|
4079 | flag_mask=0;%default |
---|
4080 | nbslice=1; |
---|
4081 | |
---|
4082 | % subdir=get(handles.subdir_civ1,'String'); |
---|
4083 | [Path,Name]=fileparts(filebase); |
---|
4084 | if ~isdir(Path) |
---|
4085 | msgbox_uvmat('ERROR','no path for input files') |
---|
4086 | return |
---|
4087 | end |
---|
4088 | currentdir=pwd; |
---|
4089 | cd(Path);%move in the dir of the root name filebase |
---|
4090 | maskfiles=dir([Name '_*mask_*.png']);%look for mask files |
---|
4091 | cd(currentdir);%come back to the current working directory |
---|
4092 | if ~isempty(maskfiles) |
---|
4093 | % msgbox_uvmat('ERROR','no mask available, to create it use Tools/Make mask in the upper menu bar of uvmat') |
---|
4094 | % else |
---|
4095 | flag_mask=1; |
---|
4096 | maskname=maskfiles(1).name;% take the first mask file in the list |
---|
4097 | [Path2,Name,ext]=fileparts(maskname); |
---|
4098 | Namedouble=double(Name); |
---|
4099 | val=(48>Namedouble)|(Namedouble>57);% select the non-numerical characters |
---|
4100 | ind_mask=findstr('mask',Name); |
---|
4101 | i=ind_mask-1; |
---|
4102 | while val(i)==0 & i>0 |
---|
4103 | i=i-1; |
---|
4104 | end |
---|
4105 | nbslice=str2num(Name(i+1:ind_mask-1)); |
---|
4106 | if ~isequal(nbslice,[]) & Name(i)=='_' |
---|
4107 | flag_mask=1; |
---|
4108 | else |
---|
4109 | msgbox_uvmat('ERROR',['bad mask file ' Name ext ' found in ' Path2]) |
---|
4110 | return |
---|
4111 | nbslice=1; |
---|
4112 | end |
---|
4113 | end |
---|
4114 | |
---|
4115 | %------------------------------------------------------------------------ |
---|
4116 | % --- function called to look for grid files |
---|
4117 | function [nbslice, flag_mask]=get_grid(filebase,handles) |
---|
4118 | %------------------------------------------------------------------------ |
---|
4119 | flag_mask=0;%default |
---|
4120 | nbslice=1; |
---|
4121 | [Path,Name]=fileparts(filebase); |
---|
4122 | currentdir=pwd; |
---|
4123 | cd(Path);%move in the dir of the root name filebase |
---|
4124 | maskfiles=dir([Name '_*grid_*.grid']);%look for mask files |
---|
4125 | cd(currentdir);%come back to the current working directory |
---|
4126 | if ~isempty(maskfiles) |
---|
4127 | flag_mask=1; |
---|
4128 | maskname=maskfiles(1).name;% take the first mask file in the list |
---|
4129 | [Path2,Name,ext]=fileparts(maskname); |
---|
4130 | Namedouble=double(Name); |
---|
4131 | val=(48>Namedouble)|(Namedouble>57);% select the non-numerical characters |
---|
4132 | ind_mask=findstr('grid',Name); |
---|
4133 | i=ind_mask-1; |
---|
4134 | while val(i)==0 & i>0 |
---|
4135 | i=i-1; |
---|
4136 | end |
---|
4137 | nbslice=str2num(Name(i+1:ind_mask-1)); |
---|
4138 | if ~isequal(nbslice,[]) & Name(i)=='_' |
---|
4139 | flag_mask=1; |
---|
4140 | else |
---|
4141 | msgbox_uvmat('ERROR',['bad grid file ' Name ext ' found in ' Path2]) |
---|
4142 | return |
---|
4143 | nbslice=1; |
---|
4144 | end |
---|
4145 | end |
---|
4146 | |
---|
4147 | %------------------------------------------------------------------------ |
---|
4148 | % --- transform numbers to letters |
---|
4149 | function str=num2stra(num,nom_type); |
---|
4150 | %------------------------------------------------------------------------ |
---|
4151 | if isequal(nom_type,'png_old') | isequal(nom_type,'netc_old') |isequal(nom_type,'raw_SMD') |
---|
4152 | str=char(96+num); |
---|
4153 | elseif isequal(nom_type,'_i')|isequal(nom_type,'_i1-i2')... |
---|
4154 | |isequal(nom_type,'ima_num')| isequal(nom_type,'avi')| isequal(nom_type,'none') |
---|
4155 | str=''; |
---|
4156 | else |
---|
4157 | str=num2str(num); |
---|
4158 | end |
---|
4159 | |
---|
4160 | %------------------------------------------------------------------------ |
---|
4161 | function mask_civ1_Callback(hObject, eventdata, handles) |
---|
4162 | %------------------------------------------------------------------------ |
---|
4163 | set(handles.mask_civ1,'UserData',[]) |
---|
4164 | set(handles.mask_civ1,'String','') |
---|
4165 | |
---|
4166 | %------------------------------------------------------------------------ |
---|
4167 | function mask_civ2_Callback(hObject, eventdata, handles) |
---|
4168 | %------------------------------------------------------------------------ |
---|
4169 | set(handles.mask_civ2,'UserData',[]) |
---|
4170 | set(handles.mask_civ2,'String','') |
---|
4171 | |
---|
4172 | %------------------------------------------------------------------------ |
---|
4173 | function mask_fix1_Callback(hObject, eventdata, handles) |
---|
4174 | %------------------------------------------------------------------------ |
---|
4175 | set(handles.mask_fix1,'UserData',[]) |
---|
4176 | set(handles.mask_fix1,'String','') |
---|
4177 | |
---|
4178 | %------------------------------------------------------------------------ |
---|
4179 | function mask_fix2_Callback(hObject, eventdata, handles) |
---|
4180 | %------------------------------------------------------------------------ |
---|
4181 | set(handles.mask_fix2,'UserData',[]) |
---|
4182 | set(handles.mask_fix2,'String','') |
---|
4183 | |
---|
4184 | %------------------------------------------------------------------------ |
---|
4185 | % --- Executes on button press in list_subdir_civ1. |
---|
4186 | function list_subdir_civ1_Callback(hObject, eventdata, handles) |
---|
4187 | %------------------------------------------------------------------------ |
---|
4188 | list_subdir_civ1=get(handles.list_subdir_civ1,'String'); |
---|
4189 | val=get(handles.list_subdir_civ1,'Value'); |
---|
4190 | if val>1 |
---|
4191 | subdir=list_subdir_civ1{val}; |
---|
4192 | set(handles.subdir_civ1,'String',subdir); |
---|
4193 | set(handles.list_subdir_civ1,'Value',1); |
---|
4194 | end |
---|
4195 | |
---|
4196 | %------------------------------------------------------------------------ |
---|
4197 | % --- Executes on button press in list_subdir_civ2. |
---|
4198 | function list_subdir_civ2_Callback(hObject, eventdata, handles) |
---|
4199 | %------------------------------------------------------------------------ |
---|
4200 | list_subdir_civ2=get(handles.list_subdir_civ2,'String'); |
---|
4201 | val=get(handles.list_subdir_civ2,'Value'); |
---|
4202 | if val>1 |
---|
4203 | subdir=list_subdir_civ2{val}; |
---|
4204 | set(handles.subdir_civ2,'String',subdir); |
---|
4205 | set(handles.list_subdir_civ2,'Value',1); |
---|
4206 | end |
---|
4207 | |
---|
4208 | %------------------------------------------------------------------------ |
---|
4209 | % --- Executes on button press in browse_gridciv1. |
---|
4210 | function browse_gridciv1_Callback(hObject, eventdata, handles) |
---|
4211 | %------------------------------------------------------------------------ |
---|
4212 | value=get(handles.browse_gridciv1,'Value'); |
---|
4213 | testgrid=0; |
---|
4214 | if value |
---|
4215 | filebase=get(handles.displ_filebase,'String'); |
---|
4216 | [nbslice, flag_grid]=get_grid(filebase,handles) |
---|
4217 | if isequal(flag_grid,1) |
---|
4218 | filegrid=[num2str(nbslice) 'grid']; |
---|
4219 | testgrid=1; |
---|
4220 | else |
---|
4221 | [FileName, PathName, filterindex] = uigetfile( ... |
---|
4222 | {'*.grid', ' (*.grid)'; |
---|
4223 | '*.grid', '.grid files '; ... |
---|
4224 | '*.*', 'All Files (*.*)'}, ... |
---|
4225 | 'Pick a file',filebase); |
---|
4226 | filegrid=fullfile(PathName,FileName); |
---|
4227 | if ~(isempty(FileName)||isempty(PathName)||isequal(FileName,0)||~exist(filegrid,'file')) |
---|
4228 | testgrid=1; |
---|
4229 | end |
---|
4230 | end |
---|
4231 | end |
---|
4232 | if testgrid |
---|
4233 | set(handles.browse_gridciv2,'Value',1) |
---|
4234 | set(handles.get_gridpatch1,'Value',1) |
---|
4235 | set(handles.get_gridpatch2,'Value',1) |
---|
4236 | set(handles.dx_civ1,'Visible','off'); |
---|
4237 | set(handles.dy_civ1,'Visible','off'); |
---|
4238 | set(handles.dx_civ2,'Visible','off'); |
---|
4239 | set(handles.dy_civ2,'Visible','off'); |
---|
4240 | set(handles.grid_civ1,'String',filegrid) |
---|
4241 | set(handles.grid_patch1,'String',filegrid) |
---|
4242 | set(handles.grid_civ2,'String',filegrid) |
---|
4243 | set(handles.grid_patch2,'String',filegrid) |
---|
4244 | else |
---|
4245 | set(handles.browse_gridciv1,'Value',0); |
---|
4246 | set(handles.browse_gridciv2,'Value',0); |
---|
4247 | set(handles.get_gridpatch1,'Value',0) |
---|
4248 | set(handles.get_gridpatch2,'Value',0) |
---|
4249 | set(handles.dx_civ1,'Visible','on'); |
---|
4250 | set(handles.dy_civ1,'Visible','on'); |
---|
4251 | set(handles.dx_civ2,'Visible','on'); |
---|
4252 | set(handles.dy_civ2,'Visible','on'); |
---|
4253 | set(handles.grid_civ1,'String','') |
---|
4254 | set(handles.grid_patch1,'String','') |
---|
4255 | set(handles.grid_civ2,'String','') |
---|
4256 | set(handles.grid_patch2,'String','') |
---|
4257 | end |
---|
4258 | |
---|
4259 | %------------------------------------------------------------------------ |
---|
4260 | % --- Executes on button press in browse_gridciv1. |
---|
4261 | function browse_gridciv2_Callback(hObject, eventdata, handles) |
---|
4262 | %------------------------------------------------------------------------ |
---|
4263 | value=get(handles.browse_gridciv2,'Value'); |
---|
4264 | if value |
---|
4265 | filebase=get(handles.displ_filebase,'String'); |
---|
4266 | [nbslice, flag_grid]=get_grid(filebase,handles) |
---|
4267 | if isequal(flag_grid,1) |
---|
4268 | mask_displ=[num2str(nbslice) 'grid']; |
---|
4269 | set(handles.grid_civ2,'String',mask_displ) |
---|
4270 | set(handles.dx_civ2,'Visible','off'); |
---|
4271 | set(handles.dy_civ2,'Visible','off'); |
---|
4272 | else |
---|
4273 | [FileName, PathName, filterindex] = uigetfile( ... |
---|
4274 | {'*.grid', ' (*.grid)'; |
---|
4275 | '*.grid', '.grid files '; ... |
---|
4276 | '*.*', 'All Files (*.*)'}, ... |
---|
4277 | 'Pick a file',filebase); |
---|
4278 | filegrid=fullfile(PathName,FileName); |
---|
4279 | if isempty(FileName)|isempty(PathName)|isequal(FileName,0)|~exist(filegrid,'file') |
---|
4280 | set(handles.browse_gridciv2,'Value',0); |
---|
4281 | set(handles.grid_civ2,'string',''); |
---|
4282 | set(handles.dx_civ2,'Visible','on'); |
---|
4283 | set(handles.dy_civ2,'Visible','on'); |
---|
4284 | set(handles.grid_civ2,'string',''); |
---|
4285 | else |
---|
4286 | set(handles.grid_civ2,'string',filegrid); |
---|
4287 | set(handles.dx_civ2,'Visible','off'); |
---|
4288 | set(handles.dy_civ2,'Visible','off'); |
---|
4289 | set(handles.grid_civ2,'string',filegrid); |
---|
4290 | end |
---|
4291 | end |
---|
4292 | else |
---|
4293 | set(handles.grid_civ2,'string',''); |
---|
4294 | set(handles.dx_civ2,'Visible','on'); |
---|
4295 | set(handles.dy_civ2,'Visible','on'); |
---|
4296 | set(handles.grid_civ2,'string',''); |
---|
4297 | end |
---|
4298 | |
---|
4299 | % % --- Executes on button press in browse_gridciv2. |
---|
4300 | % function browse_gridciv2_Callback(hObject, eventdata, handles) |
---|
4301 | % |
---|
4302 | % filebase=get(handles.displ_filebase,'String'); |
---|
4303 | % [FileName, PathName, filterindex] = uigetfile( ... |
---|
4304 | % {'*.grid', ' (*.grid)'; |
---|
4305 | % '*.grid', '.grid files '; ... |
---|
4306 | % '*.*', 'All Files (*.*)'}, ... |
---|
4307 | % 'Pick a file',filebase); |
---|
4308 | % filegrid=fullfile(PathName,FileName); |
---|
4309 | % set(handles.grid_civ2,'string',filegrid); |
---|
4310 | % set(handles.dx_civ2,'String',' '); |
---|
4311 | % set(handles.dy_civ2,'String',' '); |
---|
4312 | % % set(handles.grid_patch2,'string',filegrid); |
---|
4313 | |
---|
4314 | % --- Executes on button press in get_gridpatch1. |
---|
4315 | function get_gridpatch1_Callback(hObject, eventdata, handles) |
---|
4316 | % hObject handle to get_gridpatch1 (see GCBO) |
---|
4317 | % eventdata reserved - to be defined in a future version of MATLAB |
---|
4318 | % handles structure with handles and user data (see GUIDATA) |
---|
4319 | |
---|
4320 | filebase=get(handles.displ_filebase,'String'); |
---|
4321 | [FileName, PathName, filterindex] = uigetfile( ... |
---|
4322 | {'*.grid', ' (*.grid)'; |
---|
4323 | '*.grid', '.grid files '; ... |
---|
4324 | '*.*', 'All Files (*.*)'}, ... |
---|
4325 | 'Pick a file',filebase); |
---|
4326 | filegrid=fullfile(PathName,FileName); |
---|
4327 | set(handles.grid_patch1,'string',filegrid); |
---|
4328 | % set(handles.grid_patch2,'string',filegrid |
---|
4329 | |
---|
4330 | %------------------------------------------------------------------------ |
---|
4331 | % --- Executes on button press in get_gridpatch2. |
---|
4332 | function get_gridpatch2_Callback(hObject, eventdata, handles) |
---|
4333 | %------------------------------------------------------------------------ |
---|
4334 | |
---|
4335 | %------------------------------------------------------------------------ |
---|
4336 | function enable_civ1(handles,state) |
---|
4337 | %------------------------------------------------------------------------ |
---|
4338 | if isequal(state,0) |
---|
4339 | state='off'; |
---|
4340 | end |
---|
4341 | if isequal(state,1) |
---|
4342 | state='on'; |
---|
4343 | end |
---|
4344 | if isequal(state,'on') |
---|
4345 | set(handles.frame_civ1,'BackgroundColor',[1 1 0]) |
---|
4346 | set(handles.frame_para_civ1,'BackgroundColor',[1 1 0]) |
---|
4347 | set(handles.frame_grid_civ1,'BackgroundColor',[1 1 0]) |
---|
4348 | else |
---|
4349 | set(handles.frame_civ1,'BackgroundColor',[0.831 0.816 0.784]) |
---|
4350 | set(handles.frame_para_civ1,'BackgroundColor',[0.831 0.816 0.784]) |
---|
4351 | set(handles.frame_grid_civ1,'BackgroundColor',[0.831 0.816 0.784]) |
---|
4352 | end |
---|
4353 | set(handles.ibx,'Visible',state) |
---|
4354 | set(handles.iby,'Visible',state) |
---|
4355 | set(handles.isx,'Visible',state) |
---|
4356 | set(handles.isy,'Visible',state) |
---|
4357 | set(handles.shiftx,'Visible',state) |
---|
4358 | set(handles.shifty,'Visible',state) |
---|
4359 | set(handles.rho,'Visible',state) |
---|
4360 | set(handles.dx_civ1,'Visible',state) |
---|
4361 | set(handles.dy_civ1,'Visible',state) |
---|
4362 | set(handles.calcul_search,'Visible',state) |
---|
4363 | set(handles.u_text,'Visible',state) |
---|
4364 | set(handles.v_text,'Visible',state) |
---|
4365 | set(handles.min,'Visible',state) |
---|
4366 | set(handles.max,'Visible',state) |
---|
4367 | set(handles.umin,'Visible',state) |
---|
4368 | set(handles.umax,'Visible',state) |
---|
4369 | set(handles.vmin,'Visible',state) |
---|
4370 | set(handles.vmax,'Visible',state) |
---|
4371 | set(handles.grid_civ1,'Visible',state) |
---|
4372 | set(handles.mask_civ1,'Visible',state) |
---|
4373 | set(handles.browse_gridciv1,'Visible',state) |
---|
4374 | set(handles.get_mask_civ1,'Visible',state) |
---|
4375 | set(handles.parameters,'Visible',state) |
---|
4376 | set(handles.grid,'Visible',state) |
---|
4377 | set(handles.dx_civ1,'Visible',state) |
---|
4378 | set(handles.dy_civ1,'Visible',state) |
---|
4379 | set(handles.ImaThreshold,'Visible',state) |
---|
4380 | if isequal(state,'off') |
---|
4381 | set(handles.MinIma,'Visible','off') |
---|
4382 | set(handles.MaxIma,'Visible','off') |
---|
4383 | set(handles.ImaThreshold,'Value',0) |
---|
4384 | end |
---|
4385 | set(handles.dx_civ1_title,'Visible',state) |
---|
4386 | set(handles.dy_civ1_title,'Visible',state) |
---|
4387 | set(handles.ImaThreshold_title,'Visible',state) |
---|
4388 | set(handles.ib_title,'Visible',state) |
---|
4389 | set(handles.is_title,'Visible',state) |
---|
4390 | set(handles.shift_title,'Visible',state) |
---|
4391 | set(handles.rho_title,'Visible',state) |
---|
4392 | |
---|
4393 | %------------------------------------------------------------------------ |
---|
4394 | function enable_fix1(handles,state) |
---|
4395 | %------------------------------------------------------------------------ |
---|
4396 | if isequal(state,0) |
---|
4397 | state='off'; |
---|
4398 | end |
---|
4399 | if isequal(state,1) |
---|
4400 | state='on'; |
---|
4401 | end |
---|
4402 | if isequal(state,'on') |
---|
4403 | set(handles.frame_fix1,'BackgroundColor',[1 1 0]) |
---|
4404 | else |
---|
4405 | set(handles.frame_fix1,'BackgroundColor',[0.7 0.7 0.7]) |
---|
4406 | end |
---|
4407 | set(handles.REMOVE,'Visible',state) |
---|
4408 | set(handles.vec_Fmin2,'Visible',state) |
---|
4409 | set(handles.vec_F2,'Visible',state) |
---|
4410 | set(handles.vec_F3,'Visible',state) |
---|
4411 | set(handles.thresh_vecC,'Visible',state) |
---|
4412 | set(handles.thresh_vecC_title,'Visible',state) |
---|
4413 | set(handles.thresh_vel,'Visible',state) |
---|
4414 | set(handles.thresh_vel_text,'Visible',state) |
---|
4415 | set(handles.mask_fix1,'Visible',state) |
---|
4416 | set(handles.get_mask_fix1,'Visible',state) |
---|
4417 | set(handles.get_ref_fix1,'Visible',state) |
---|
4418 | set(handles.ref_fix1,'Visible',state) |
---|
4419 | set(handles.inf_sup1,'Visible',state) |
---|
4420 | set(handles.field_ref1,'Visible',state) |
---|
4421 | |
---|
4422 | %------------------------------------------------------------------------ |
---|
4423 | function enable_patch1(handles) |
---|
4424 | %------------------------------------------------------------------------ |
---|
4425 | global patch_new_exe |
---|
4426 | set(handles.frame_patch1,'BackgroundColor',[1 1 0]) |
---|
4427 | set(handles.rho_patch1,'Visible','on') |
---|
4428 | set(handles.rho_text1,'Visible','on') |
---|
4429 | set(handles.thresh_patch1,'Visible','on') |
---|
4430 | set(handles.thresh_text1,'Visible','on') |
---|
4431 | set(handles.subdomain_patch1,'Visible','on') |
---|
4432 | set(handles.subdomain_text1,'Visible','on') |
---|
4433 | set(handles.nx_patch1,'Visible','on') |
---|
4434 | set(handles.ny_patch1,'Visible','on') |
---|
4435 | set(handles.nx_patch1_title,'Visible','on') |
---|
4436 | set(handles.ny_patch1_title,'Visible','on') |
---|
4437 | if (~isequal(patch_new_exe,[]) & ~isequal(patch_new_exe,[])) |
---|
4438 | set(handles.test_interp,'Visible','on'); |
---|
4439 | end |
---|
4440 | set(handles.get_gridpatch1,'Visible','on') |
---|
4441 | set(handles.grid_patch1,'string','none'); |
---|
4442 | set(handles.grid_patch1,'Visible','on') |
---|
4443 | |
---|
4444 | %------------------------------------------------------------------------ |
---|
4445 | function desable_patch1(handles) |
---|
4446 | %------------------------------------------------------------------------ |
---|
4447 | set(handles.frame_patch1,'BackgroundColor',[0.831 0.816 0.784]) |
---|
4448 | set(handles.rho_patch1,'Visible','off') |
---|
4449 | set(handles.rho_text1,'Visible','off') |
---|
4450 | set(handles.thresh_patch1,'Visible','off') |
---|
4451 | set(handles.thresh_text1,'Visible','off') |
---|
4452 | set(handles.subdomain_patch1,'Visible','off') |
---|
4453 | set(handles.subdomain_text1,'Visible','off') |
---|
4454 | set(handles.nx_patch1,'Visible','off') |
---|
4455 | set(handles.ny_patch1,'Visible','off') |
---|
4456 | set(handles.nx_patch1_title,'Visible','off') |
---|
4457 | set(handles.ny_patch1_title,'Visible','off') |
---|
4458 | set(handles.test_interp,'Visible','off') |
---|
4459 | set(handles.get_gridpatch1,'Visible','off') |
---|
4460 | set(handles.grid_patch1,'Visible','off') |
---|
4461 | |
---|
4462 | %------------------------------------------------------------------------ |
---|
4463 | function enable_civ2(handles,state) |
---|
4464 | %------------------------------------------------------------------------ |
---|
4465 | if isequal(state,0) |
---|
4466 | state='off'; |
---|
4467 | end |
---|
4468 | if isequal(state,1) |
---|
4469 | state='on'; |
---|
4470 | end |
---|
4471 | if isequal(state,'on') |
---|
4472 | set(handles.frame_civ2,'BackgroundColor',[1 1 0]) |
---|
4473 | set(handles.frame_para_civ2,'BackgroundColor',[1 1 0]) |
---|
4474 | set(handles.frame_grid_civ2,'BackgroundColor',[1 1 0]) |
---|
4475 | set(handles.frame_subdirciv2,'BackgroundColor',[1 1 0]) |
---|
4476 | else |
---|
4477 | set(handles.frame_civ2,'BackgroundColor',[0.831 0.816 0.784]) |
---|
4478 | set(handles.frame_para_civ2,'BackgroundColor',[0.831 0.816 0.784]) |
---|
4479 | set(handles.frame_grid_civ2,'BackgroundColor',[0.831 0.816 0.784]) |
---|
4480 | set(handles.frame_subdirciv2,'BackgroundColor',[0.831 0.816 0.784]) |
---|
4481 | end |
---|
4482 | set(handles.ibx_civ2,'Visible',state) |
---|
4483 | set(handles.iby_civ2,'Visible',state) |
---|
4484 | set(handles.decimal,'Visible',state) |
---|
4485 | set(handles.deformation,'Visible',state) |
---|
4486 | set(handles.rho_civ2,'Visible',state) |
---|
4487 | set(handles.dx_civ2,'Visible',state) |
---|
4488 | set(handles.dy_civ2,'Visible',state) |
---|
4489 | set(handles.browse_gridciv2,'Visible',state) |
---|
4490 | set(handles.get_mask_civ2,'Visible',state) |
---|
4491 | set(handles.parameters,'Visible',state) |
---|
4492 | set(handles.grid,'Visible',state) |
---|
4493 | set(handles.parameters_text,'Visible',state) |
---|
4494 | set(handles.grid_text,'Visible',state) |
---|
4495 | set(handles.grid_civ2,'Visible',state) |
---|
4496 | set(handles.mask_civ2,'Visible',state) |
---|
4497 | set(handles.dx_civ2_title,'Visible',state) |
---|
4498 | set(handles.dy_civ2_title,'Visible',state) |
---|
4499 | set(handles.ibx_civ2_text,'Visible',state) |
---|
4500 | set(handles.rho_civ2_title,'Visible',state) |
---|
4501 | set(handles.ImaThreshold2,'Visible',state) |
---|
4502 | set(handles.ImaThreshold_title2,'Visible',state) |
---|
4503 | if isequal(state,'off') |
---|
4504 | set(handles.MinIma2,'Visible','off') |
---|
4505 | set(handles.MaxIma2,'Visible','off') |
---|
4506 | set(handles.ImaThreshold2,'Value',0) |
---|
4507 | if isequal(get(handles.FIX2,'Value'),0) & isequal(get(handles.PATCH2,'Value'),0) |
---|
4508 | set(handles.list_pair_civ2,'Visible','off') |
---|
4509 | set(handles.subdir_civ2,'Visible','off') |
---|
4510 | set(handles.subdir_civ2_text,'Visible','off') |
---|
4511 | end |
---|
4512 | else |
---|
4513 | set(handles.list_pair_civ2,'Visible','on') |
---|
4514 | set(handles.subdir_civ2,'Visible','on') |
---|
4515 | set(handles.subdir_civ2_text,'Visible','on') |
---|
4516 | end |
---|
4517 | |
---|
4518 | %------------------------------------------------------------------------ |
---|
4519 | function enable_fix2(handles) |
---|
4520 | %------------------------------------------------------------------------ |
---|
4521 | set(handles.frame_fix2,'BackgroundColor',[1 1 0]) |
---|
4522 | set(handles.REMOVE2,'Visible','on') |
---|
4523 | set(handles.vec_Fmin2_2,'Visible','on') |
---|
4524 | set(handles.vec_F4,'Visible','on') |
---|
4525 | set(handles.vec_F3_2,'Visible','on') |
---|
4526 | set(handles.thresh_vec2C,'Visible','on') |
---|
4527 | set(handles.thresh_vec2C_text,'Visible','on') |
---|
4528 | set(handles.thresh_vel2,'Visible','on') |
---|
4529 | set(handles.thresh_vel2_text,'Visible','on') |
---|
4530 | set(handles.mask_fix2,'Visible','on') |
---|
4531 | set(handles.get_mask_fix2,'Visible','on') |
---|
4532 | set(handles.list_pair_civ2,'Visible','on') |
---|
4533 | set(handles.subdir_civ2,'Visible','on') |
---|
4534 | set(handles.subdir_civ2_text,'Visible','on') |
---|
4535 | set(handles.get_ref_fix2,'Visible','on') |
---|
4536 | set(handles.ref_fix2,'Visible','on') |
---|
4537 | set(handles.inf_sup2,'Visible','on') |
---|
4538 | set(handles.field_ref2,'Visible','on') |
---|
4539 | |
---|
4540 | %------------------------------------------------------------------------ |
---|
4541 | function desable_fix2(handles) |
---|
4542 | %------------------------------------------------------------------------ |
---|
4543 | set(handles.frame_fix2,'BackgroundColor',[0.831 0.816 0.784]) |
---|
4544 | set(handles.REMOVE2,'Visible','off') |
---|
4545 | set(handles.vec_Fmin2_2,'Visible','off') |
---|
4546 | set(handles.vec_F4,'Visible','off') |
---|
4547 | set(handles.vec_F3_2,'Visible','off') |
---|
4548 | set(handles.thresh_vec2C,'Visible','off') |
---|
4549 | set(handles.thresh_vec2C_text,'Visible','off') |
---|
4550 | set(handles.thresh_vel2,'Visible','off') |
---|
4551 | set(handles.thresh_vel2_text,'Visible','off') |
---|
4552 | set(handles.mask_fix2,'Visible','off') |
---|
4553 | set(handles.get_mask_fix2,'Visible','off') |
---|
4554 | set(handles.get_ref_fix2,'Visible','off') |
---|
4555 | set(handles.ref_fix2,'Visible','off') |
---|
4556 | set(handles.inf_sup2,'Visible','off') |
---|
4557 | set(handles.field_ref2,'Visible','off') |
---|
4558 | if isequal(get(handles.CIV2,'Value'),0) & isequal(get(handles.PATCH2,'Value'),0) |
---|
4559 | set(handles.list_pair_civ2,'Visible','off') |
---|
4560 | set(handles.subdir_civ2,'Visible','off') |
---|
4561 | set(handles.subdir_civ2_text,'Visible','off') |
---|
4562 | end |
---|
4563 | |
---|
4564 | %------------------------------------------------------------------------ |
---|
4565 | function enable_patch2(handles) |
---|
4566 | %------------------------------------------------------------------------ |
---|
4567 | set(handles.frame_patch2,'BackgroundColor',[1 1 0]) |
---|
4568 | %set(handles.rho_patch2,'Visible','on') |
---|
4569 | set(handles.rho_text2,'Visible','on') |
---|
4570 | set(handles.thresh_patch2,'Visible','on') |
---|
4571 | set(handles.thresh_text2,'Visible','on') |
---|
4572 | set(handles.subdomain_patch2,'Visible','on') |
---|
4573 | set(handles.subdomain_text2,'Visible','on') |
---|
4574 | set(handles.nx_patch2,'Visible','on') |
---|
4575 | set(handles.ny_patch2,'Visible','on') |
---|
4576 | set(handles.nx_patch2_title,'Visible','on') |
---|
4577 | set(handles.ny_patch2_title,'Visible','on') |
---|
4578 | set(handles.get_gridpatch2,'Visible','on') |
---|
4579 | set(handles.grid_patch2,'Visible','on') |
---|
4580 | set(handles.list_pair_civ2,'Visible','on') |
---|
4581 | set(handles.subdir_civ2,'Visible','on') |
---|
4582 | set(handles.subdir_civ2_text,'Visible','on') |
---|
4583 | |
---|
4584 | %------------------------------------------------------------------------ |
---|
4585 | function desable_patch2(handles) |
---|
4586 | %------------------------------------------------------------------------ |
---|
4587 | set(handles.frame_patch2,'BackgroundColor',[0.831 0.816 0.784]) |
---|
4588 | set(handles.rho_patch2,'Visible','off') |
---|
4589 | set(handles.rho_text2,'Visible','off') |
---|
4590 | set(handles.thresh_patch2,'Visible','off') |
---|
4591 | set(handles.thresh_text2,'Visible','off') |
---|
4592 | set(handles.subdomain_patch2,'Visible','off') |
---|
4593 | set(handles.subdomain_text2,'Visible','off') |
---|
4594 | set(handles.nx_patch2,'Visible','off') |
---|
4595 | set(handles.ny_patch2,'Visible','off') |
---|
4596 | set(handles.nx_patch2_title,'Visible','off') |
---|
4597 | set(handles.ny_patch2_title,'Visible','off') |
---|
4598 | set(handles.get_gridpatch2,'Visible','off') |
---|
4599 | set(handles.grid_patch2,'Visible','off') |
---|
4600 | if isequal(get(handles.CIV2,'Value'),0) & isequal(get(handles.FIX2,'Value'),0) |
---|
4601 | set(handles.list_pair_civ2,'Visible','off') |
---|
4602 | set(handles.subdir_civ2,'Visible','off') |
---|
4603 | set(handles.subdir_civ2_text,'Visible','off') |
---|
4604 | end |
---|
4605 | |
---|
4606 | %------------------------------------------------------------------------ |
---|
4607 | function enable_pair1(handles,state) |
---|
4608 | %------------------------------------------------------------------------ |
---|
4609 | set(handles.subdir_civ1,'Visible',state) |
---|
4610 | set(handles.list_subdir_civ1,'Visible',state) |
---|
4611 | set(handles.SUBDIR_CIV1_txt,'Visible',state) |
---|
4612 | set(handles.frame_subdirciv1,'Visible',state) |
---|
4613 | set(handles.list_pair_civ1,'Visible',state) |
---|
4614 | set(handles.PAIR_txt,'Visible',state) |
---|
4615 | %set(handles.dt_display_txt,'Visible',state) |
---|
4616 | set(handles.dt_unit,'Visible',state) |
---|
4617 | set(handles.PAIR_frame,'Visible',state) |
---|
4618 | |
---|
4619 | %------------------------------------------------------------------------ |
---|
4620 | % --- Read the parameters for civ1 on the interface |
---|
4621 | function par=read_param_civ1(handles,file_ima) |
---|
4622 | %------------------------------------------------------------------------ |
---|
4623 | ibx_val=str2num(get(handles.ibx,'String')); |
---|
4624 | par.ibx=num2str(ibx_val); |
---|
4625 | iby_val=str2num(get(handles.iby,'String')); |
---|
4626 | par.iby=num2str(iby_val); |
---|
4627 | isx=get(handles.isx,'String'); |
---|
4628 | if isempty(str2num(isx)), isx='41'; set(handles.isx,'String','41'), end; %default |
---|
4629 | if str2num(isx)<ibx_val+8,isx=num2str(ibx_val+8); set(handles.isx,'String',num2str(ibx_val+8)); end |
---|
4630 | isy=get(handles.isy,'String'); |
---|
4631 | if isempty(str2num(isy)), isy='41'; set(handles.isy,'String','41'), end;%default |
---|
4632 | if str2num(isy)<iby_val+8,isy=num2str(iby_val+8); set(handles.isy,'String',num2str(iby_val+8)); end |
---|
4633 | par.isx=get(handles.isx,'String'); |
---|
4634 | par.isy=get(handles.isy,'String'); |
---|
4635 | par.shiftx=get(handles.shiftx,'String'); |
---|
4636 | par.shifty=get(handles.shifty,'String'); |
---|
4637 | if isempty(str2num(par.isx)) |
---|
4638 | par.isx='41';%default |
---|
4639 | set(handles.isx,'String','41'); |
---|
4640 | end |
---|
4641 | if isempty(str2num(par.isy)) |
---|
4642 | par.isy='41'; %default |
---|
4643 | set(handles.isy,'String','41'); |
---|
4644 | end |
---|
4645 | if isempty(str2num(par.shiftx)) |
---|
4646 | par.shiftx='0';%default |
---|
4647 | set(handles.shiftx,'String','0'); |
---|
4648 | end |
---|
4649 | if isempty(str2num(par.shifty)) |
---|
4650 | par.shifty='0'; %default |
---|
4651 | set(handles.shifty,'String','0'); |
---|
4652 | end |
---|
4653 | par.rho=get(handles.rho,'String'); |
---|
4654 | par.dx=get(handles.dx_civ1,'String'); |
---|
4655 | par.dy=get(handles.dy_civ1,'String'); |
---|
4656 | if isequal(str2num(par.dx),[]) |
---|
4657 | if isempty(get(handles.grid_civ1,'String')); |
---|
4658 | par.dx='0'; %just read by civ program, not used |
---|
4659 | else |
---|
4660 | par.dx='20';%default |
---|
4661 | set(handles.dx_civ1,'String','20'); |
---|
4662 | end |
---|
4663 | end |
---|
4664 | if isequal(str2num(par.dy),[]) |
---|
4665 | if isempty(get(handles.grid_civ1,'String')); |
---|
4666 | par.dy='0';%just read by civ program, not used |
---|
4667 | else |
---|
4668 | par.dy='20';%default |
---|
4669 | set(handles.dy_civ1_title,'String','20'); |
---|
4670 | end |
---|
4671 | end |
---|
4672 | par.pxcmx='1'; %velocities are expressed in pixel dispalcement |
---|
4673 | par.pxcmy='1'; |
---|
4674 | % end |
---|
4675 | A=imread(file_ima);%read the first image to get the size |
---|
4676 | sizim=size(A); |
---|
4677 | par.npx=num2str(sizim(2)); |
---|
4678 | par.npy=num2str(sizim(1)); |
---|
4679 | time=get(handles.displ_filebase,'UserData'); %get the set of times |
---|
4680 | par.gridname=get(handles.grid_civ1,'String'); |
---|
4681 | par.gridflag='y'; |
---|
4682 | if isequal(par.gridname,'')| isempty(par.gridname) |
---|
4683 | par.gridname='nogrid'; |
---|
4684 | par.gridflag='n'; |
---|
4685 | end |
---|
4686 | |
---|
4687 | %------------------------------------------------------------------------ |
---|
4688 | function par=read_param_civ2(handles,file_ima) |
---|
4689 | %------------------------------------------------------------------------ |
---|
4690 | par.ibx=get(handles.ibx_civ2,'String'); |
---|
4691 | par.iby=get(handles.iby_civ2,'String'); |
---|
4692 | par.rho=get(handles.rho_civ2,'String'); |
---|
4693 | par.decimal=int2str(get(handles.decimal,'Value')); |
---|
4694 | par.deformation=int2str(get(handles.deformation,'Value')); |
---|
4695 | par.dx=get(handles.dx_civ2,'String'); |
---|
4696 | par.dy=get(handles.dy_civ2,'String'); |
---|
4697 | if isequal(str2num(par.dx),[]) |
---|
4698 | if isempty(get(handles.grid_civ2,'String')); |
---|
4699 | par.dx='0'; %just read by civ program, not used |
---|
4700 | else |
---|
4701 | par.dx='20';%default |
---|
4702 | set(handles.dx_civ2,'String','20'); |
---|
4703 | end |
---|
4704 | end |
---|
4705 | if isequal(str2num(par.dy),[]) |
---|
4706 | if isempty(get(handles.grid_civ2,'String')); |
---|
4707 | par.dy='0';%just read by civ program, not used |
---|
4708 | else |
---|
4709 | par.dy='20';%default |
---|
4710 | set(handles.dy_civ2,'String','20'); |
---|
4711 | end |
---|
4712 | end |
---|
4713 | par.pxcmx='1'; |
---|
4714 | par.pxcmy='1'; |
---|
4715 | A=imread(file_ima);%read the first image to get the size |
---|
4716 | sizim=size(A); |
---|
4717 | par.npx=num2str(sizim(2)); |
---|
4718 | par.npy=num2str(sizim(1)); |
---|
4719 | time=get(handles.displ_filebase,'UserData'); %get the set of times |
---|
4720 | par.gridname=get(handles.grid_civ2,'String'); |
---|
4721 | par.gridflag='y'; |
---|
4722 | if isequal(par.gridname,'')| isempty(par.gridname) |
---|
4723 | par.gridname='nogrid'; |
---|
4724 | par.gridflag='n'; |
---|
4725 | end |
---|
4726 | |
---|
4727 | %------------------------------------------------------------------------ |
---|
4728 | % --- CIV1 CIV1 CIV1 CIV1 |
---|
4729 | function cmd_CIV1=BATCH_CIV1(filename,namelog,par,handles) |
---|
4730 | %------------------------------------------------------------------------ |
---|
4731 | %pixels per cm and matrix of the image times, read from the .civ file by uvmat |
---|
4732 | global civ1_exe Civ_exe sge%name of the executable for civ1 calculation |
---|
4733 | |
---|
4734 | %changes : filename_cmx -> filename ( no extension ) |
---|
4735 | |
---|
4736 | if isequal(par.Dt,'0') |
---|
4737 | par.Dt='1' ;%case of 'displacement' mode |
---|
4738 | end |
---|
4739 | % |
---|
4740 | % textcmx={'############## CMX file';... |
---|
4741 | % ['FirstImage ' par.filename_ima_a];... |
---|
4742 | % ['LastImage ' par.filename_ima_b];... |
---|
4743 | % 'XX' ;... |
---|
4744 | % ['Mask ' par.maskflag] ;... |
---|
4745 | % ['MaskName ' par.maskname];... |
---|
4746 | % ['ImageSize ' par.npx ' ' par.npy];... %VERIFIER CAS GENERAL ? |
---|
4747 | % ['CorrelationBoxesSize ' par.ibx ' ' par.iby];... |
---|
4748 | % ['SearchBoxeSize ' par.isx ' ' par.isy];... |
---|
4749 | % ['RO ' par.rho];... |
---|
4750 | % ['GridSpacing ' par.dx ' ' par.dy];... |
---|
4751 | % 'XX 1.0';... |
---|
4752 | % ['Dt_TO ' par.Dt ' ' par.T0];... |
---|
4753 | % ['PixCmXY ' par.pxcmx ' ' par.pxcmy];... |
---|
4754 | % 'XX 1';... |
---|
4755 | % ['ShiftXY ' par.shiftx ' ' par.shifty];... |
---|
4756 | % ['Grid ' par.gridflag];... |
---|
4757 | % ['GridName ' par.gridname] ;... |
---|
4758 | % 'XX 85';... |
---|
4759 | % 'XX 1.0';... |
---|
4760 | % 'XX 1.0';... |
---|
4761 | % 'Hart 1';... |
---|
4762 | % 'DecimalShift 0';... |
---|
4763 | % 'Deformation 0';... |
---|
4764 | % 'CorrelationMin 0';... |
---|
4765 | % 'IntensityMin 0';... |
---|
4766 | % 'SeuilImage n';... |
---|
4767 | % 'SeuilImageValues 0 4096';... |
---|
4768 | % ['ImageToUse ' par.term_a ' ' par.term_b];... % VERIFIER ? |
---|
4769 | % 'ImageUsedBefore null null'}; |
---|
4770 | % |
---|
4771 | % textout=char(textcmx); |
---|
4772 | |
---|
4773 | fid=fopen([filename '.cmx'],'w'); |
---|
4774 | fprintf(fid,['############## CMX file' '\n' ]); |
---|
4775 | fprintf(fid, ['FirstImage ' par.filename_ima_a '\n' ]); |
---|
4776 | fprintf(fid, ['LastImage ' par.filename_ima_b '\n' ]); |
---|
4777 | fprintf(fid, ['XX' '\n' ]); |
---|
4778 | fprintf(fid, ['Mask ' par.maskflag '\n' ]); |
---|
4779 | fprintf(fid, ['MaskName ' par.maskname '\n' ]); |
---|
4780 | fprintf(fid, ['ImageSize ' par.npx ' ' par.npy '\n' ]); %VERIFIER CAS GENERAL ? |
---|
4781 | fprintf(fid, ['CorrelationBoxesSize ' par.ibx ' ' par.iby '\n' ]); |
---|
4782 | fprintf(fid, ['SearchBoxeSize ' par.isx ' ' par.isy '\n' ]); |
---|
4783 | fprintf(fid, ['RO ' par.rho '\n' ]); |
---|
4784 | fprintf(fid, ['GridSpacing ' par.dx ' ' par.dy '\n' ]); |
---|
4785 | fprintf(fid, ['XX 1.0' '\n' ]); |
---|
4786 | fprintf(fid, ['Dt_TO ' par.Dt ' ' par.T0 '\n' ]); |
---|
4787 | fprintf(fid, ['PixCmXY ' par.pxcmx ' ' par.pxcmy '\n' ]); |
---|
4788 | fprintf(fid, ['XX 1' '\n' ]); |
---|
4789 | fprintf(fid, ['ShiftXY ' par.shiftx ' ' par.shifty '\n' ]); |
---|
4790 | fprintf(fid, ['Grid ' par.gridflag '\n' ]); |
---|
4791 | fprintf(fid, ['GridName ' par.gridname '\n' ]); |
---|
4792 | fprintf(fid, ['XX 85' '\n' ]); |
---|
4793 | fprintf(fid, ['XX 1.0' '\n' ]); |
---|
4794 | fprintf(fid, ['XX 1.0' '\n' ]); |
---|
4795 | fprintf(fid, ['Hart 1' '\n' ]); |
---|
4796 | fprintf(fid, [ 'DecimalShift 0' '\n' ]); |
---|
4797 | fprintf(fid, ['Deformation 0' '\n' ]); |
---|
4798 | fprintf(fid, ['CorrelationMin 0' '\n' ]); |
---|
4799 | fprintf(fid, ['IntensityMin 0' '\n' ]); |
---|
4800 | fprintf(fid, ['SeuilImage n' '\n' ]); |
---|
4801 | fprintf(fid, ['SeuilImageValues 0 4096' '\n' ]); |
---|
4802 | fprintf(fid, ['ImageToUse ' par.term_a ' ' par.term_b '\n' ]); % VERIFIER ? |
---|
4803 | fprintf(fid, ['ImageUsedBefore null null' '\n' ]); |
---|
4804 | fclose(fid); |
---|
4805 | |
---|
4806 | if sge |
---|
4807 | cmd_CIV1=[civ1_exe ' -f ' filename '.cmx' ]; % redirect standard output to the log file |
---|
4808 | else |
---|
4809 | cmd_CIV1=[civ1_exe ' -f ' filename_cmx ' > ' namelog ' 2>&1']; % redirect standard output to the log file |
---|
4810 | end |
---|
4811 | if(isunix) |
---|
4812 | [Rootbat,Filebat,extbat]=fileparts(namelog); |
---|
4813 | ncName=fullfile(Rootbat,[ Filebat '.nc']); |
---|
4814 | cmd_CIV1=[cmd_CIV1 '\n' 'mv ' namelog ' ' namelog '.civ1.log' '\n' 'chmod g+w ' ncName]; |
---|
4815 | else |
---|
4816 | cmd_CIV1=[cmd_CIV1 '\n' 'copy /Y ' namelog ' ' namelog '.civ1.log']; |
---|
4817 | end |
---|
4818 | |
---|
4819 | %------------------------------------------------------------------------ |
---|
4820 | % --- CIV1 Unified |
---|
4821 | function xml_civ1_parameters=BATCH_CIV1_Unified(filename,namelog,par) |
---|
4822 | %------------------------------------------------------------------------ |
---|
4823 | %pixels per cm and matrix of the image times, read from the .civ file by uvmat |
---|
4824 | global civ1_exe Civ_exe%name of the executable for civ1 calculation |
---|
4825 | |
---|
4826 | civ1.image1=par.filename_ima_a; |
---|
4827 | civ1.image2=par.filename_ima_b; |
---|
4828 | civ1.imageSize_X=par.npx; |
---|
4829 | civ1.imageSize_Y=par.npy; |
---|
4830 | civ1.outputFileName=[filename '.nc']; |
---|
4831 | civ1.correlationBoxesSize_X=par.ibx; |
---|
4832 | civ1.correlationBoxesSize_Y=par.iby; |
---|
4833 | civ1.searchBoxesSize_X=par.isx; |
---|
4834 | civ1.searchBoxesSize_Y=par.isy; |
---|
4835 | civ1.globalShift_X=par.shiftx; |
---|
4836 | civ1.globalShift_Y=par.shifty; |
---|
4837 | civ1.ro=par.rho; |
---|
4838 | civ1.hart='y'; |
---|
4839 | if isequal(par.gridflag,'y') |
---|
4840 | civ1.grid=par.gridname; |
---|
4841 | else |
---|
4842 | civ1.grid='n'; |
---|
4843 | civ1.gridSpacing_X=par.dx; |
---|
4844 | civ1.gridSpacing_Y=par.dy; |
---|
4845 | end |
---|
4846 | if isequal(par.maskflag,'y') |
---|
4847 | civ1.mask=par.maskname; |
---|
4848 | end |
---|
4849 | civ1.dt=par.Dt; |
---|
4850 | civ1.unit='pixel'; |
---|
4851 | civ1.absolut_time_T0=par.T0; |
---|
4852 | civ1.pixcmx=par.pxcmx; |
---|
4853 | civ1.pixcmy=par.pxcmy; |
---|
4854 | civ1.convectFlow='n'; |
---|
4855 | |
---|
4856 | xml_civ1_parameters=civ1; |
---|
4857 | |
---|
4858 | %------------------------------------------------------------------------ |
---|
4859 | % --- CIV2 Unified |
---|
4860 | function civ2=BATCH_CIV2_Unified(filename,namelog,par) |
---|
4861 | %------------------------------------------------------------------------ |
---|
4862 | %pixels per cm and matrix of the image times, read from the .civ file by uvmat |
---|
4863 | global civ2_exe Civ_exe%name of the executable for civ1 calculation |
---|
4864 | |
---|
4865 | civ2.image1=par.filename_ima_a; |
---|
4866 | civ2.image2=par.filename_ima_b; |
---|
4867 | civ2.imageSize_X=par.npx; |
---|
4868 | civ2.imageSize_Y=par.npy; |
---|
4869 | civ2.inputFileName=[par.filename_nc1 '.nc']; |
---|
4870 | civ2.outputFileName=[filename '.nc']; |
---|
4871 | civ2.correlationBoxesSize_X=par.ibx; |
---|
4872 | civ2.correlationBoxesSize_Y=par.iby; |
---|
4873 | civ2.ro=par.rho; |
---|
4874 | %civ2.decimalShift=par.decimal; |
---|
4875 | %civ2.deformation=par.deformation; |
---|
4876 | if isequal(par.decimal,'1') |
---|
4877 | civ2.decimalShift='y'; |
---|
4878 | else |
---|
4879 | civ2.decimalShift='n'; |
---|
4880 | end |
---|
4881 | if isequal(par.deformation,'1') |
---|
4882 | civ2.deformation='y'; |
---|
4883 | else |
---|
4884 | civ2.deformation='n'; |
---|
4885 | end |
---|
4886 | if isequal(par.gridflag,'y') |
---|
4887 | civ2.grid=par.gridname; |
---|
4888 | else |
---|
4889 | civ2.grid='n'; |
---|
4890 | civ2.gridSpacing_X=par.dx; |
---|
4891 | civ2.gridSpacing_Y=par.dy; |
---|
4892 | end |
---|
4893 | civ2.gridSpacing_X='10'; |
---|
4894 | civ2.gridSpacing_Y='10';%NOTE: faut mettre gridSpacing pourque ca tourne, meme si c'est la grille qui est utilisee |
---|
4895 | if isequal(par.maskflag,'y') |
---|
4896 | civ2.mask=par.maskname; |
---|
4897 | else |
---|
4898 | civ2.mask='n'; |
---|
4899 | end |
---|
4900 | civ2.dt=par.Dt; |
---|
4901 | civ2.unit='pixel'; |
---|
4902 | civ2.absolut_time_T0=par.T0; |
---|
4903 | civ2.pixcmx=par.pxcmx; |
---|
4904 | civ2.pixcmy=par.pxcmy; |
---|
4905 | civ2.convectFlow='n'; |
---|
4906 | civ2.pixcmx=par.pxcmx; |
---|
4907 | civ2.pixcmy=par.pxcmy; |
---|
4908 | civ2.convectFlow='n'; |
---|
4909 | |
---|
4910 | %------------------------------------------------------------------------ |
---|
4911 | % --- CIV2 CIV2 CIV2 CIV2 |
---|
4912 | function cmd_CIV2=BATCH_CIV2(filename_cmx,namelog,par) |
---|
4913 | %------------------------------------------------------------------------ |
---|
4914 | %pixels per cm and matrix of the image times, read from the .civ file by uvmat |
---|
4915 | global civ2_exe sge%name of the executable for civ1 calculation |
---|
4916 | if isequal(par.Dt,'0') |
---|
4917 | par.Dt='1' ;%case of 'displacement' mode |
---|
4918 | end |
---|
4919 | textcmx=['############## CMX file' '\n'... |
---|
4920 | ['FirstImage ' par.filename_ima_a] '\n'... |
---|
4921 | ['LastImage ' par.filename_ima_b] '\n'... |
---|
4922 | 'XX' '\n'... |
---|
4923 | ['Mask ' par.maskflag] '\n'... |
---|
4924 | ['MaskName ' par.maskname] '\n'... |
---|
4925 | ['ImageSize ' par.npx ' ' par.npy] '\n'... |
---|
4926 | ['CorrelationBoxesSize ' par.ibx ' ' par.iby] '\n'... |
---|
4927 | ['SearchBoxeSize ' par.ibx ' ' par.iby] '\n'... |
---|
4928 | ['RO ' par.rho] '\n'... |
---|
4929 | ['GridSpacing ' par.dx ' ' par.dy] '\n'... |
---|
4930 | 'XX 1.0' '\n'... |
---|
4931 | ['Dt_TO ' par.Dt ' ' par.T0] '\n'... |
---|
4932 | ['PixCmXY ' par.pxcmx ' ' par.pxcmy] '\n'... |
---|
4933 | 'XX 1' '\n'... |
---|
4934 | ['ShiftXY 0 0'] '\n'... |
---|
4935 | ['Grid ' par.gridflag] '\n'... |
---|
4936 | ['GridName ' par.gridname] '\n'... |
---|
4937 | 'XX 85' '\n'... |
---|
4938 | 'XX 1.0' '\n'... |
---|
4939 | 'XX 1.0' '\n'... |
---|
4940 | 'Hart 1' '\n'... |
---|
4941 | ['DecimalShift ' par.decimal] '\n'... |
---|
4942 | ['Deformation ' par.deformation] '\n'... |
---|
4943 | 'CorrelationMin 0' '\n'... |
---|
4944 | 'IntensityMin 0' '\n'... |
---|
4945 | 'SeuilImage n' '\n'... |
---|
4946 | 'SeuilImageValues 0 4096' '\n'... |
---|
4947 | ['ImageToUse ' par.term_a ' ' par.term_b] '\n'... % VERIFIER ? |
---|
4948 | ['ImageUsedBefore ' par.filename_nc1]]; |
---|
4949 | textout=char(textcmx); |
---|
4950 | fid=fopen([filename_cmx '2'],'w'); |
---|
4951 | fprintf(fid,textout); |
---|
4952 | fclose(fid) |
---|
4953 | if sge |
---|
4954 | cmd_CIV2=[civ2_exe ' -f ' filename_cmx ]; % redirect standard output to the log file |
---|
4955 | else |
---|
4956 | cmd_CIV2=[civ2_exe ' -f ' filename_cmx ' > ' namelog ' 2>&1']; % redirect standard output to the log file |
---|
4957 | end |
---|
4958 | |
---|
4959 | %------------------------------------------------------------------------ |
---|
4960 | % --- Executes on button press in HELP. |
---|
4961 | function HELP_Callback(hObject, eventdata, handles) |
---|
4962 | %------------------------------------------------------------------------ |
---|
4963 | path_to_uvmat=which ('uvmat');% check the path of uvmat |
---|
4964 | pathelp=fileparts(path_to_uvmat); |
---|
4965 | helpfile=fullfile(pathelp,'uvmat_doc','uvmat_doc.html'); |
---|
4966 | if isempty(dir(helpfile)), msgbox_uvmat('ERROR','Please put the help file uvmat_doc.html in the sub-directory /uvmat_doc of the UVMAT package') |
---|
4967 | else |
---|
4968 | addpath (fullfile(pathelp,'uvmat_doc')) |
---|
4969 | web([helpfile '#civ']) |
---|
4970 | end |
---|
4971 | |
---|
4972 | %------------------------------------------------------------------------ |
---|
4973 | %--read images and convert them to the uint16 format used for PIV |
---|
4974 | function A=read_image(filename,nom_type,npx,npy,num); |
---|
4975 | %------------------------------------------------------------------------ |
---|
4976 | %npx, npy are the dimensions needed for the raw SMD images |
---|
4977 | %num is the view number needed for an avi movie |
---|
4978 | if isequal(nom_type,'avi') |
---|
4979 | mov=aviread(filename,num); |
---|
4980 | A=frame2im(mov(1)); |
---|
4981 | A=sum(double(A),3); |
---|
4982 | A=uint16(A); |
---|
4983 | elseif isequal(nom_type,'raw_SMD') |
---|
4984 | [fid,message]=fopen(filename,'r'); |
---|
4985 | B=fread(fid,Inf,'int16',0,'ieee-le');%read 16 bit binary file |
---|
4986 | A=(reshape(B,npx,npy))'; %remplissage ligne par ligne avec une matrice colonne ? transposer(uB) pour avoir une matrice ligne |
---|
4987 | A=uint16(A); |
---|
4988 | fclose(fid); |
---|
4989 | else |
---|
4990 | A=imread(filename); |
---|
4991 | siz=size(A); |
---|
4992 | if length(siz)==3;%color images |
---|
4993 | A=sum(double(A),3); |
---|
4994 | end |
---|
4995 | A=uint16(A); |
---|
4996 | end |
---|
4997 | |
---|
4998 | % %---------------------------------------------------------------- |
---|
4999 | % %Executes on carriage return on the time interval dt |
---|
5000 | % %---------------------------------------------------------------- |
---|
5001 | % function dt_Callback(hObject, eventdata, handles) |
---|
5002 | % %determine the set of times and possible intervals for CIV |
---|
5003 | % % answer=inputdlg('time interval between images?'); |
---|
5004 | % dt=(1/1000)*str2num(get(handles.dt,'String')); |
---|
5005 | % nbfield=str2num(get(handles.nb_field,'String')); %last image number selected in the processing series |
---|
5006 | % time=(dt*[0:nbfield-1])'; |
---|
5007 | % % set(handles.incr_i,'UserData',dt);%store the time interval between successive images |
---|
5008 | % set(handles.displ_filebase,'UserData',time); %store the set of times |
---|
5009 | % for index=1:min(nbfield-1,200) |
---|
5010 | % displ_num(1,index)=1; |
---|
5011 | % displ_num(2,index)=1; |
---|
5012 | % displ_num(3,index)=-floor(index/2); |
---|
5013 | % displ_num(4,index)=ceil(index/2); |
---|
5014 | % end |
---|
5015 | % set(handles.list_pair_civ1,'Value',1); |
---|
5016 | % set(handles.list_pair_civ1,'UserData',displ_num); |
---|
5017 | % set(handles.list_pair_civ2,'Value',1); |
---|
5018 | % %update the list of time intervals |
---|
5019 | % find_netcpair_civ1(hObject, eventdata, handles) |
---|
5020 | % find_netcpair_civ2(hObject, eventdata, handles) |
---|
5021 | |
---|
5022 | %------------------------------------------------------------------------ |
---|
5023 | function ref_i_Callback(hObject, eventdata, handles) |
---|
5024 | %------------------------------------------------------------------------ |
---|
5025 | mode_list=get(handles.mode,'String'); |
---|
5026 | mode_value=get(handles.mode,'Value'); |
---|
5027 | mode=mode_list{mode_value}; |
---|
5028 | %if isequal(get(handles.CIV1,'Value'),0)|| isequal(mode,'series(Di)') |
---|
5029 | find_netcpair_civ1(hObject, eventdata, handles);% update the menu of pairs depending on the available netcdf files |
---|
5030 | %end |
---|
5031 | if isequal(mode,'series(Di)') || ...% we do patch2 only |
---|
5032 | (get(handles.CIV2,'Value')==0 & get(handles.CIV1,'Value')==0 & get(handles.FIX1,'Value')==0 & get(handles.PATCH1,'Value')==0) |
---|
5033 | find_netcpair_civ2(hObject, eventdata, handles); |
---|
5034 | end |
---|
5035 | |
---|
5036 | %------------------------------------------------------------------------ |
---|
5037 | function ref_j_Callback(hObject, eventdata, handles) |
---|
5038 | %------------------------------------------------------------------------ |
---|
5039 | mode_list=get(handles.mode,'String'); |
---|
5040 | mode_value=get(handles.mode,'Value'); |
---|
5041 | mode=mode_list{mode_value}; |
---|
5042 | if isequal(get(handles.CIV1,'Value'),0)| isequal(mode,'series(Dj)') |
---|
5043 | find_netcpair_civ1(hObject, eventdata, handles);% update the menu of pairs depending on the available netcdf files |
---|
5044 | end |
---|
5045 | if isequal(mode,'series(Dj)') | ... |
---|
5046 | (get(handles.CIV2,'Value')==0 & get(handles.CIV1,'Value')==0 & get(handles.FIX1,'Value')==0 & get(handles.PATCH1,'Value')==0) |
---|
5047 | find_netcpair_civ2(hObject, eventdata, handles); |
---|
5048 | end |
---|
5049 | |
---|
5050 | %------------------------------------------------------------------------ |
---|
5051 | % --- Executes on button press in compare. |
---|
5052 | function compare_Callback(hObject, eventdata, handles) |
---|
5053 | %------------------------------------------------------------------------ |
---|
5054 | test=get(handles.compare,'Value'); |
---|
5055 | if test==2 || test==3 |
---|
5056 | filebase=get(handles.displ_filebase,'String'); |
---|
5057 | browse=get(handles.browse_root,'Userdata'); |
---|
5058 | browse.nom_type_ima1=browse.nom_type_ima; |
---|
5059 | set(handles.browse_root,'UserData',browse); |
---|
5060 | set(handles.sub_txt,'Visible','on') |
---|
5061 | set(handles.displ_filebase2,'Visible','On');%mkes the second file input window visible |
---|
5062 | mode_store=get(handles.mode,'String');%get the present 'mode' |
---|
5063 | set(handles.compare,'UserData',mode_store);%store the mode display |
---|
5064 | set(handles.mode,'Visible','off') |
---|
5065 | if test==2 |
---|
5066 | set(handles.mode,'Visible','off') |
---|
5067 | else |
---|
5068 | set(handles.mode,'Visible','on') |
---|
5069 | end |
---|
5070 | |
---|
5071 | % open an image file with the browser |
---|
5072 | ind_opening=1;%default |
---|
5073 | browse.incr_pair=[0 0]; %default |
---|
5074 | oldfile=get(handles.displ_filebase,'String'); |
---|
5075 | menu={'*.xml;*.avi;*.AVI;*.nc','(*.xml,*.avi,*.nc)'; ... |
---|
5076 | '*.xml', '.xml files';'*.avi;*.AVI', '.avi files';'*.nc', '.nc files';... |
---|
5077 | '*.*', 'All Files (*.*)'}; |
---|
5078 | [FileName, PathName, filtindex] = uigetfile( menu, 'Pick a file',oldfile); |
---|
5079 | fileinput=[PathName FileName];%complete file name |
---|
5080 | sizf=size(fileinput); |
---|
5081 | if (~ischar(fileinput)|~isequal(sizf(1),1)),return;end %stop if fileinput not a character string |
---|
5082 | [path,name,ext]=fileparts(fileinput); |
---|
5083 | [path1]=fileparts(filebase); |
---|
5084 | if ~strcmp(path1,path) |
---|
5085 | msgbox_uvmat('ERROR','The two input image series must be in the same directory') |
---|
5086 | return |
---|
5087 | end |
---|
5088 | set(handles.displ_filebase2,'String',name); |
---|
5089 | [RootPath,RootFile,field_count,str2,str_a,str_b,xx,nom_type,subdir]=name2display(name); |
---|
5090 | browse=get(handles.browse_root,'UserData'); |
---|
5091 | browse.nom_type_ima_1=nom_type; |
---|
5092 | set(handles.browse_root,'UserData',browse) |
---|
5093 | |
---|
5094 | %check image extension |
---|
5095 | if ~strcmp(ext,get(handles.ext_ima,'String')) |
---|
5096 | msgbox_uvmat('ERROR','The two input image series must have the same extenion name') |
---|
5097 | return |
---|
5098 | end |
---|
5099 | |
---|
5100 | %check image size |
---|
5101 | A=imread(fileinput); |
---|
5102 | npxy=get(handles.ext_ima,'UserData'); |
---|
5103 | if ~isequal(npxy(1),size(A,1))|| ~isequal(npxy(2),size(A,2)) |
---|
5104 | msgbox_uvmat('ERROR','The two input image series must have the same size') |
---|
5105 | return |
---|
5106 | end |
---|
5107 | else |
---|
5108 | set(handles.mode,'Visible','on') |
---|
5109 | set(handles.displ_filebase2,'Visible','Off'); |
---|
5110 | set(handles.sub_txt,'Visible','off') |
---|
5111 | set(handles.displ_filebase2,'String',[]); |
---|
5112 | mode_store=get(handles.compare,'UserData'); |
---|
5113 | set(handles.mode,'String',mode_store) |
---|
5114 | set(handles.test_stereo1,'Value',0) |
---|
5115 | set(handles.test_stereo2,'Value',0) |
---|
5116 | end |
---|
5117 | mode_Callback(hObject, eventdata, handles) |
---|
5118 | |
---|
5119 | %------------------------------------------------------------------------ |
---|
5120 | % --- Executes on button press in get_ref_fix1. |
---|
5121 | function get_ref_fix1_Callback(hObject, eventdata, handles) |
---|
5122 | %------------------------------------------------------------------------ |
---|
5123 | filebase=get(handles.displ_filebase,'String'); |
---|
5124 | [FileName, PathName, filterindex] = uigetfile( ... |
---|
5125 | {'*.nc', ' (*.nc)'; |
---|
5126 | '*.nc', 'netcdf files '; ... |
---|
5127 | '*.*', 'All Files (*.*)'}, ... |
---|
5128 | 'Pick a file',filebase); |
---|
5129 | |
---|
5130 | fileinput=[PathName FileName]; |
---|
5131 | sizf=size(fileinput); |
---|
5132 | if (~ischar(fileinput)|~isequal(sizf(1),1)),return;end %stop if fileinput not a character string |
---|
5133 | [Path,File,field_count,str2,str_a,str_b,ref.ext,ref.nom_type,ref.subdir]=name2display(fileinput); |
---|
5134 | ref.filebase=fullfile(Path,File); |
---|
5135 | ref.num_a=stra2num(str_a); |
---|
5136 | ref.num_b=stra2num(str_b); |
---|
5137 | ref.num1=str2num(field_count); |
---|
5138 | ref.num2=str2num(str2); |
---|
5139 | browse=[];%initialisation |
---|
5140 | if ~isequal(ref.ext,'.nc') |
---|
5141 | msgbox_uvmat('ERROR','the reference file must be in netcdf format (*.nc)') |
---|
5142 | return |
---|
5143 | end |
---|
5144 | set(handles.ref_fix1,'String',[fullfile(ref.subdir,File) '....nc']); |
---|
5145 | set(handles.ref_fix1,'UserData',ref) |
---|
5146 | menu_field{1}='civ1'; |
---|
5147 | Data=nc2struct(fileinput,[]); |
---|
5148 | if isfield(Data,'patch') & isequal(Data.patch,1) |
---|
5149 | menu_field{2}='filter1'; |
---|
5150 | end |
---|
5151 | if isfield(Data,'civ2') & isequal(Data.civ2,1) |
---|
5152 | menu_field{3}='civ2'; |
---|
5153 | end |
---|
5154 | if isfield(Data,'patch2') & isequal(Data.patch2,1) |
---|
5155 | menu_field{4}='filter2'; |
---|
5156 | end |
---|
5157 | set(handles.field_ref1,'String',menu_field); |
---|
5158 | set(handles.field_ref1,'Value',length(menu_field)); |
---|
5159 | set(handles.inf_sup1,'Value',2); |
---|
5160 | set(handles.thresh_vel,'String','1');%default threshold |
---|
5161 | set(handles.ref_fix1,'Enable','on') |
---|
5162 | |
---|
5163 | %------------------------------------------------------------------------ |
---|
5164 | % --- Executes on button press in get_ref_fix2. |
---|
5165 | function get_ref_fix2_Callback(hObject, eventdata, handles) |
---|
5166 | %------------------------------------------------------------------------ |
---|
5167 | if isequal(get(handles.get_ref_fix2,'Value'),1) |
---|
5168 | filebase=get(handles.displ_filebase,'String'); |
---|
5169 | [FileName, PathName, filterindex] = uigetfile( ... |
---|
5170 | {'*.nc', ' (*.nc)'; |
---|
5171 | '*.nc', 'netcdf files '; ... |
---|
5172 | '*.*', 'All Files (*.*)'}, ... |
---|
5173 | 'Pick a file',filebase); |
---|
5174 | fileinput=[PathName FileName]; |
---|
5175 | sizf=size(fileinput); |
---|
5176 | if (~ischar(fileinput)|~isequal(sizf(1),1)),return;end %stop if fileinput not a character string |
---|
5177 | [Path,File,field_count,str2,str_a,str_b,ref.ext,ref.nom_type,ref.subdir]=name2display(fileinput); |
---|
5178 | ref.filebase=fullfile(Path,File); |
---|
5179 | ref.num_a=stra2num(str_a); |
---|
5180 | ref.num_b=stra2num(str_b); |
---|
5181 | ref.num1=str2num(field_count); |
---|
5182 | ref.num2=str2num(str2); |
---|
5183 | browse=[];%initialisation |
---|
5184 | if ~isequal(ref.ext,'.nc') |
---|
5185 | msgbox_uvmat('ERROR','the reference file must be in netcdf format (*.nc)') |
---|
5186 | return |
---|
5187 | end |
---|
5188 | set(handles.ref_fix2,'String',[fullfile(ref.subdir,File) '....nc']); |
---|
5189 | set(handles.ref_fix2,'UserData',ref) |
---|
5190 | menu_field{1}='civ1'; |
---|
5191 | Data=nc2struct(fileinput,[]); |
---|
5192 | if isfield(Data,'patch') & isequal(Data.patch,1) |
---|
5193 | menu_field{2}='filter1'; |
---|
5194 | end |
---|
5195 | if isfield(Data,'civ2') & isequal(Data.civ2,1) |
---|
5196 | menu_field{3}='civ2'; |
---|
5197 | end |
---|
5198 | if isfield(Data,'patch2') & isequal(Data.patch2,1) |
---|
5199 | menu_field{4}='filter2'; |
---|
5200 | end |
---|
5201 | set(handles.field_ref2,'String',menu_field); |
---|
5202 | set(handles.field_ref2,'Value',length(menu_field)); |
---|
5203 | set(handles.inf_sup2,'Value',2); |
---|
5204 | set(handles.thresh_vel2,'String','1');%default threshold |
---|
5205 | set(handles.ref_fix2,'Enable','on') |
---|
5206 | set(handles.ref_fix2,'Visible','on') |
---|
5207 | set(handles.field_ref2,'Visible','on') |
---|
5208 | else |
---|
5209 | set(handles.ref_fix2,'Visible','off') |
---|
5210 | set(handles.field_ref2,'Visible','off') |
---|
5211 | end |
---|
5212 | |
---|
5213 | %------------------------------------------------------------------------ |
---|
5214 | function ref_fix1_Callback(hObject, eventdata, handles) |
---|
5215 | %------------------------------------------------------------------------ |
---|
5216 | set(handles.inf_sup1,'Value',1); |
---|
5217 | set(handles.field_ref1,'Value',1) |
---|
5218 | set(handles.field_ref1,'String',{' '}) |
---|
5219 | set(handles.ref_fix1,'UserData',[]); |
---|
5220 | set(handles.ref_fix1,'String',''); |
---|
5221 | set(handles.thresh_vel1,'String','0'); |
---|
5222 | |
---|
5223 | %------------------------------------------------------------------------ |
---|
5224 | function ref_fix2_Callback(hObject, eventdata, handles) |
---|
5225 | %------------------------------------------------------------------------ |
---|
5226 | set(handles.inf_sup2,'Value',1); |
---|
5227 | set(handles.field_ref2,'Value',1) |
---|
5228 | set(handles.field_ref2,'String',{' '}) |
---|
5229 | set(handles.ref_fix2,'UserData',[]); |
---|
5230 | set(handles.ref_fix2,'String',''); |
---|
5231 | set(handles.thresh_vel2,'String','0'); |
---|
5232 | |
---|
5233 | %------------------------------------------------------------------------ |
---|
5234 | % transform letters to numbers |
---|
5235 | function numres=stra2num(str) |
---|
5236 | %------------------------------------------------------------------------ |
---|
5237 | numres=double(str)-96; |
---|
5238 | if double(str) >= 48 & double(str) <= 57 % = 1 for numbers |
---|
5239 | numres=str2num(str); |
---|
5240 | end |
---|
5241 | |
---|
5242 | %------------------------------------------------------------------------ |
---|
5243 | % --- Executes on button press in test_stereo1. |
---|
5244 | function test_stereo1_Callback(hObject, eventdata, handles) |
---|
5245 | %------------------------------------------------------------------------ |
---|
5246 | if isequal(get(handles.test_stereo1,'Value'),0) |
---|
5247 | set(handles.subdomain_patch1,'Visible','on') |
---|
5248 | set(handles.rho_patch1,'Visible','on') |
---|
5249 | else |
---|
5250 | set(handles.subdomain_patch1,'Visible','off') |
---|
5251 | set(handles.rho_patch1,'Visible','off') |
---|
5252 | end |
---|
5253 | |
---|
5254 | %------------------------------------------------------------------------ |
---|
5255 | % --- Executes on button press in test_stereo2. |
---|
5256 | function test_stereo2_Callback(hObject, eventdata, handles) |
---|
5257 | %------------------------------------------------------------------------ |
---|
5258 | if isequal(get(handles.test_stereo2,'Value'),0) |
---|
5259 | set(handles.subdomain_patch2,'Visible','on') |
---|
5260 | set(handles.rho_patch2,'Visible','on') |
---|
5261 | else |
---|
5262 | set(handles.subdomain_patch2,'Visible','off') |
---|
5263 | set(handles.rho_patch2,'Visible','off') |
---|
5264 | end |
---|
5265 | |
---|
5266 | %------------------------------------------------------------------------ |
---|
5267 | % --- Executes on button press in ImaThreshold. |
---|
5268 | function ImaThreshold_Callback(hObject, eventdata, handles) |
---|
5269 | %------------------------------------------------------------------------ |
---|
5270 | if isequal(get(handles.ImaThreshold,'Value'),1) |
---|
5271 | set(handles.MinIma,'Visible','on') |
---|
5272 | set(handles.MaxIma,'Visible','on') |
---|
5273 | else |
---|
5274 | set(handles.MinIma,'Visible','off') |
---|
5275 | set(handles.MaxIma,'Visible','off') |
---|
5276 | end |
---|
5277 | |
---|
5278 | %------------------------------------------------------------------------ |
---|
5279 | % --- Executes on button press in ImaThreshold2. |
---|
5280 | function ImaThreshold2_Callback(hObject, eventdata, handles) |
---|
5281 | %------------------------------------------------------------------------ |
---|
5282 | if isequal(get(handles.ImaThreshold2,'Value'),1) |
---|
5283 | set(handles.MinIma2,'Visible','on') |
---|
5284 | set(handles.MaxIma2,'Visible','on') |
---|
5285 | else |
---|
5286 | set(handles.MinIma2,'Visible','off') |
---|
5287 | set(handles.MaxIma2,'Visible','off') |
---|
5288 | end |
---|
5289 | |
---|