1 | %'series': master function associated to the GUI series.m for analysis field series |
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2 | %------------------------------------------------------------------------ |
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3 | % function varargout = series(varargin) |
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4 | % associated with the GUI series.fig |
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5 | % |
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6 | %INPUT |
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7 | % param: structure with input parameters (link with the GUI uvmat) |
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8 | % .menu_coord_str: string for the TransformName (menu for coordinate transforms) |
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9 | % .menu_coord_val: value for TransformName (menu for coordinate transforms) |
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10 | % .FileName: input file name |
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11 | % .FileName_1: second input file name |
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12 | % .list_field: menu of input fields |
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13 | % .index_fields: chosen index |
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14 | % .civ1=0 or 1, .interp1, ... : input civ field type |
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15 | % |
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16 | %AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA |
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17 | % Copyright Joel Sommeria, 2008, LEGI / CNRS-UJF-INPG, sommeria@coriolis-legi.org. |
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18 | %AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA |
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19 | % This file is part of the toolbox UVMAT. |
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20 | % |
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21 | % UVMAT is free software; you can redistribute it and/or modify |
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22 | % it under the terms of the GNU General Public License as published by |
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23 | % the Free Software Foundation; either version 2 of the License, or |
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24 | % (at your option) any later version. |
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25 | % |
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26 | % UVMAT is distributed in the hope that it will be useful, |
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27 | % but WITHOUT ANY WARRANTY; without even the implied warranty of |
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28 | % MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the |
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29 | % GNU General Public License (file UVMAT/COPYING.txt) for more details. |
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30 | %AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA |
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31 | |
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32 | %------------------------------------------------------------------------ |
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33 | %------------------------------------------------------------------------ |
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34 | % I - MAIN FUNCTION series |
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35 | %------------------------------------------------------------------------ |
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36 | %------------------------------------------------------------------------ |
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37 | function varargout = series(varargin) |
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38 | |
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39 | % Begin initialization code - DO NOT EDIT |
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40 | gui_Singleton = 1; |
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41 | gui_State = struct('gui_Name', mfilename, ... |
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42 | 'gui_Singleton', gui_Singleton, ... |
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43 | 'gui_OpeningFcn', @series_OpeningFcn, ... |
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44 | 'gui_OutputFcn', @series_OutputFcn, ... |
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45 | 'gui_LayoutFcn', [] , ... |
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46 | 'gui_Callback', []); |
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47 | if nargin && ischar(varargin{1}) |
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48 | gui_State.gui_Callback = str2func(varargin{1}); |
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49 | end |
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50 | |
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51 | if nargout |
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52 | [varargout{1:nargout}] = gui_mainfcn(gui_State, varargin{:}); |
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53 | else |
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54 | gui_mainfcn(gui_State, varargin{:}); |
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55 | end |
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56 | % End initialization code - DO NOT EDIT |
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57 | |
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58 | %-------------------------------------------------------------------------- |
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59 | % --- Executes just before series is made visible. |
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60 | %-------------------------------------------------------------------------- |
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61 | function series_OpeningFcn(hObject, eventdata, handles,Param) |
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62 | |
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63 | % Choose default command line output for series |
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64 | handles.output = hObject; |
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65 | % Update handles structure |
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66 | guidata(hObject, handles); |
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67 | |
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68 | %% initial settings |
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69 | set(0,'Unit','points') |
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70 | ScreenSize=get(0,'ScreenSize');%size of the current screen |
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71 | Width=750;% prefered width of the GUI in points (1/72 inch) |
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72 | Height=520; |
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73 | %adjust to screen size (reduced by a min margin) |
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74 | RescaleFactor=min((ScreenSize(3)-80)/Width,(ScreenSize(4)-80)/Height); |
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75 | if RescaleFactor>1 |
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76 | %RescaleFactor=RescaleFactor/2+1/2; %reduce the rescale factor to provide an increased margin for a big screen |
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77 | RescaleFactor=min(RescaleFactor,1); |
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78 | end |
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79 | Width=Width*RescaleFactor; |
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80 | Height=Height*RescaleFactor; |
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81 | LeftX=80*RescaleFactor;%position of the left fig side, in pixels (put to the left side, with some margin) |
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82 | LowY=round(ScreenSize(4)/2-Height/2); % put at the middle height on the screen |
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83 | set(hObject,'Units','points') |
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84 | set(hObject,'Position',[LeftX LowY Width Height]) |
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85 | set(handles.PairString,'ColumnName',{'pairs'}) |
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86 | set(handles.PairString,'ColumnEditable',false) |
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87 | set(handles.PairString,'ColumnFormat',{'char'}) |
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88 | set(handles.PairString,'Data',{''}) |
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89 | series_ResizeFcn(hObject, eventdata, handles)%resize table according to series GUI size |
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90 | set(hObject,'WindowButtonDownFcn',{'mouse_down'})%allows mouse action with right button (zoom for uicontrol display) |
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91 | % check default input data |
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92 | if ~exist('Param','var') |
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93 | Param=[]; %default |
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94 | end |
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95 | |
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96 | %% list of builtin functions in the mebu ActionName |
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97 | ActionList={'check_data_files';'aver_stat';'time_series';'merge_proj'};% WARNING: fits with nb_builtin_ACTION=4 in ActionName_callback |
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98 | NbBuiltinAction=numel(ActionList); |
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99 | [path_series,name,ext]=fileparts(which('series'));% path to the GUI series |
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100 | path_series_fct=fullfile(path_series,'series');%path of the functions in subdirectroy 'series' |
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101 | ActionExtList={'.m';'.sh'};% default choice of extensions (Matlab fct .m or compiled version .sh |
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102 | ActionPathList=cell(NbBuiltinAction,numel(ActionExtList));%initiate the cell matrix of Action fct paths |
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103 | ActionPathList(:)={path_series_fct}; %set the default path to series fcts to all list members |
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104 | RunModeList={'local';'background'};% default choice of extensions (Matlab fct .m or compiled version .sh) |
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105 | [s,w]=system('oarstat');% look for cluster system 'oar' |
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106 | if isequal(s,0) |
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107 | RunModeList=[RunModeList;{'cluster_oar'}]; |
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108 | end |
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109 | [s,w]=system('qstat');% look for cluster system 'sge' |
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110 | if isequal(s,0) |
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111 | RunModeList=[RunModeList;{'cluster_sge'}]; |
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112 | end |
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113 | set(handles.RunMode,'String',RunModeList) |
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114 | |
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115 | %% list of builtin transform functions in the mebu TransformName |
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116 | TransformList={'';'sub_field';'phys';'phys_polar'};% WARNING: must fit with the corresponding menu in uvmat and nb_builtin_transform=4 in TransformName_callback |
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117 | NbBuiltinTransform=numel(TransformList); |
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118 | path_transform_fct=fullfile(path_series,'transform_field'); |
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119 | TransformPathList=cell(NbBuiltinTransform,1);%initiate the cell matrix of Action fct paths |
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120 | TransformPathList(:)={path_transform_fct}; %set the default path to series fcts to all list members |
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121 | |
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122 | %% get the user defined functions stored in the personal file uvmat_perso.mat |
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123 | dir_perso=prefdir; |
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124 | profil_perso=fullfile(dir_perso,'uvmat_perso.mat'); |
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125 | if exist(profil_perso,'file') |
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126 | h=load (profil_perso); |
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127 | %get the list of previous input files in the upper bar menu Open |
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128 | if isfield(h,'MenuFile') |
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129 | for ifile=1:min(length(h.MenuFile),5) |
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130 | eval(['set(handles.MenuFile_' num2str(ifile) ',''Label'',h.MenuFile{ifile});']) |
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131 | end |
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132 | end |
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133 | %get the menu of actions |
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134 | if isfield(h,'ActionExtListUser') && iscell(h.ActionExtListUser) |
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135 | ActionExtList=[ActionExtList; h.ActionExtListUser]; |
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136 | end |
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137 | if isfield(h,'ActionListUser') && iscell(h.ActionListUser) && isfield(h,'ActionPathListUser') && iscell(h.ActionPathListUser) |
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138 | ActionList=[ActionList;h.ActionListUser]; |
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139 | ActionPathList=[ActionPathList;h.ActionPathListUser]; |
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140 | end |
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141 | %get the menu of transform fct |
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142 | if isfield(h,'TransformListUser') && iscell(h.TransformListUser) && isfield(h,'TransformPathListUser') && iscell(h.TransformPathListUser) |
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143 | TransformList=[TransformList;h.TransformListUser]; |
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144 | TransformPathList=[TransformPathList;h.TransformPathListUser]; |
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145 | end |
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146 | end |
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147 | |
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148 | %% selection of the input Action fct |
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149 | ActionCheckExist=true(size(ActionList));%initiate the check of the path to the listed action fct |
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150 | for ilist=NbBuiltinAction+1:numel(ActionList)%check the validity of the path of the user defined Action fct |
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151 | ActionCheckExist(ilist)=exist(fullfile(ActionPathList{ilist},[ActionList{ilist} '.m']),'file'); |
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152 | end |
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153 | ActionPathList=ActionPathList(ActionCheckExist,:);% suppress the menu options which are not valid anymore |
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154 | ActionList=ActionList(ActionCheckExist); |
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155 | set(handles.ActionName,'String',[ActionList;{'more...'}]) |
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156 | set(handles.ActionName,'UserData',ActionPathList) |
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157 | ActionIndex=[]; |
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158 | if isfield(Param,'ActionName')% copy the selected menu index transferred in Param from uvmat |
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159 | ActionIndex=find(strcmp(Param.ActionName,ActionList),1); |
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160 | end |
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161 | if isempty(ActionIndex) |
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162 | ActionIndex=1; |
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163 | end |
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164 | set(handles.ActionName,'Value',ActionIndex) |
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165 | set(handles.ActionPath,'String',ActionPathList{ActionIndex}) |
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166 | set(handles.ActionExt,'Value',1) |
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167 | set(handles.ActionExt,'String',ActionExtList) |
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168 | |
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169 | %% selection of the input transform fct |
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170 | TransformCheckExist=true(size(TransformList)); |
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171 | for ilist=NbBuiltinTransform+1:numel(TransformList) |
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172 | TransformCheckExist(ilist)=exist(fullfile(TransformPathList{ilist},[TransformList{ilist} '.m']),'file'); |
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173 | end |
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174 | TransformPathList=TransformPathList(TransformCheckExist); |
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175 | TransformList=TransformList(TransformCheckExist); |
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176 | set(handles.TransformName,'String',[TransformList;{'more...'}]) |
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177 | set(handles.TransformName,'UserData',TransformPathList) |
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178 | TransformIndex=[]; |
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179 | if isfield(Param,'TransformName')% copy the selected menu index transferred in Param from uvmat |
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180 | TransformIndex=find(strcmp(Param.TransformName,TransformList),1); |
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181 | end |
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182 | if isempty(TransformIndex) |
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183 | TransformIndex=1; |
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184 | end |
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185 | set(handles.TransformName,'Value',TransformIndex) |
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186 | set(handles.TransformPath,'String',TransformPathList{TransformIndex}) |
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187 | |
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188 | %% fields input initialisation |
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189 | if isfield(Param,'list_fields')&& isfield(Param,'index_fields') &&~isempty(Param.list_fields) &&~isempty(Param.index_fields) |
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190 | set(handles.FieldName,'String',Param.list_fields);% list menu fields |
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191 | set(handles.FieldName,'Value',Param.index_fields);% selected string index |
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192 | end |
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193 | if isfield(Param,'Coord_x_str')&& isfield(Param,'Coord_x_val') |
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194 | set(handles.Coord_x,'String',Param.Coord_x_str);% list menu fields |
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195 | set(handles.Coord_x,'Value',Param.Coord_x_val);% selected string index |
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196 | end |
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197 | if isfield(Param,'Coord_y_str')&& isfield(Param,'Coord_y_val') |
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198 | set(handles.Coord_y,'String',Param.Coord_y_str);% list menu fields |
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199 | set(handles.Coord_y,'Value',Param.Coord_y_val);% selected string index |
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200 | end |
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201 | |
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202 | %% Adjust the GUI according to the binaries available in PARAM.xml |
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203 | % path_uvmat=fileparts(which('uvmat')); %path to civ |
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204 | % addpath (path_uvmat) ; %add the path to civ, (useful in case of change of working directory after civ has been s opened in the working directory) |
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205 | % errormsg=[];%default error message |
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206 | % xmlfile='PARAM.xml'; |
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207 | % if exist(xmlfile,'file') |
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208 | % try |
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209 | % t=xmltree(xmlfile); |
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210 | % sparam=convert(t); |
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211 | % catch ME |
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212 | % errormsg={' Unable to read the file PARAM.xml defining the binaries:';ME.message}; |
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213 | % end |
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214 | % else |
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215 | % errormsg=[xmlfile ' not found: path to binaries undefined']; |
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216 | % end |
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217 | % if ~isempty(errormsg) |
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218 | % msgbox_uvmat('WARNING',errormsg); |
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219 | % end |
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220 | % test_batch=0;%default: ,no batch mode available |
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221 | % if isfield(sparam,'BatchParam') && isfield(sparam.BatchParam,'BatchMode') |
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222 | % test_batch=strcmp(sparam.BatchParam.BatchMode,'sge'); %sge is currently the only implemented batch mod |
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223 | % end |
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224 | % RUNVal=get(handles.RunMode,'Value'); |
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225 | % if test_batch==0 |
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226 | % if RUNVal>2 |
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227 | % set(handles.RunMode,'Value',1) |
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228 | % end |
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229 | % set(handles.RunMode,'String',{'local';'background'}) |
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230 | % else |
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231 | % set(handles.RunMode,'String',{'local';'background';'cluster'}) |
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232 | % end |
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233 | |
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234 | %% introduce the input file name(s) if defined from input Param |
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235 | if isfield(Param,'FileName') |
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236 | InputTable={'','','','',''}; % refresh the file input table |
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237 | set(handles.InputTable,'Data',InputTable) |
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238 | if isfield(Param,'FileName_1') |
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239 | display_file_name(handles,Param.FileName_1,0) |
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240 | display_file_name(handles,Param.FileName,1) |
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241 | else |
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242 | display_file_name(handles,Param.FileName,0) |
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243 | end |
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244 | end |
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245 | if isfield(Param,'incr_i') |
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246 | set(handles.num_incr_i,'String',num2str(Param.incr_i)) |
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247 | end |
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248 | if isfield(Param,'incr_j') |
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249 | set(handles.num_incr_j,'String',num2str(Param.incr_j)) |
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250 | end |
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251 | |
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252 | |
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253 | %------------------------------------------------------------------------ |
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254 | % --- Outputs from this function are returned to the command line. |
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255 | function varargout = series_OutputFcn(hObject, eventdata, handles) |
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256 | %------------------------------------------------------------------------ |
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257 | % varargout cell array for returning output args (see VARARGOUT); |
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258 | % hObject handle to figure |
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259 | % eventdata reserved - to be defined in a future version of MATLAB |
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260 | % handles structure with handles and user data (see GUIDATA) |
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261 | % Get default command line output from handles structure |
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262 | varargout{1} = handles.output; |
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263 | |
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264 | %------------------------------------------------------------------------ |
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265 | %------------------------------------------------------------------------ |
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266 | % II - FUNCTIONS FOR INTRODUCING THE INPUT FILES |
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267 | % automatically sets the global properties when the rootfile name is introduced |
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268 | % then activate the view-field actionname if selected |
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269 | % it is activated either by clicking on the RootPath window or by the |
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270 | % browser |
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271 | %------------------------------------------------------------------------ |
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272 | %------------------------------------------------------------------------ |
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273 | function MenuBrowse_Callback(hObject, eventdata, handles) |
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274 | %------------------------------------------------------------------------ |
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275 | %get the previous input file in the Input Table |
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276 | oldfile=''; %default |
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277 | SeriesData=get(handles.series,'UserData'); |
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278 | if isfield(SeriesData,'RefFile') |
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279 | oldfile=SeriesData.RefFile{1}; |
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280 | end |
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281 | if ~exist(oldfile,'file') |
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282 | dir_perso=prefdir; |
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283 | profil_perso=fullfile(dir_perso,'uvmat_perso.mat'); |
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284 | if exist(profil_perso,'file') |
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285 | h=load (profil_perso); |
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286 | if isfield(h,'RootPath')&&ischar(h.RootPath) |
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287 | oldfile=h.RootPath; |
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288 | end |
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289 | end |
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290 | end |
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291 | fileinput=uigetfile_uvmat('file browser',oldfile); |
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292 | if ~isempty(fileinput) |
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293 | display_file_name(handles,fileinput,0) |
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294 | end |
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295 | % |
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296 | % [FileName, PathName] = uigetfile( ... |
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297 | % {'*.xml;*.xls;*.png;*.tif;*.avi;*.AVI;*.nc', ' (*.xml,*.xls, *.png,*.tif, *.avi,*.nc)'; |
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298 | % '*.xml', '.xml files '; ... |
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299 | % '*.xls', '.xls files '; ... |
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300 | % '*.png','.png image files'; ... |
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301 | % '*.tif','.tif image files'; ... |
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302 | % '*.avi;*.AVI','.avi movie files'; ... |
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303 | % '*.nc','.netcdf files'; ... |
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304 | % '*.*', 'All Files (*.*)'}, ... |
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305 | % 'Pick a file',oldfile); |
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306 | % fileinput=[PathName FileName];%complete file name |
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307 | % [path,name,ext]=fileparts(fileinput); |
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308 | % if isequal(ext,'.xml') |
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309 | % [Param,Heading]=xml2struct(fileinput); |
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310 | % if ~strcmp(Heading,'Series') |
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311 | % msg_box_uvmat('ERROR','xml file heading is not <Series>') |
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312 | % else |
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313 | % fill_GUI(Param,handles.series);%fill the GUI with the parameters retrieved from the xml file |
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314 | % if isfield(Param,'CheckObject')&& Param.CheckObject |
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315 | % set_object(Param.ProjObject) |
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316 | % end |
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317 | % set(handles.REFRESH,'UserData',1:size(Param.InputTable,1)) |
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318 | % REFRESH_Callback([],[], handles) |
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319 | % return |
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320 | % end |
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321 | % elseif isequal(ext,'.xls') |
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322 | % msg_box_uvmat('ERROR','input file type not implemented')%A Faire: ouvrir le fichier pour naviguer |
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323 | % else |
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324 | % display_file_name(handles,fileinput,0) |
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325 | % end |
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326 | |
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327 | % -------------------------------------------------------------------- |
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328 | function MenuFile_1_Callback(hObject, eventdata, handles) |
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329 | fileinput=get(handles.MenuFile_1,'Label'); |
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330 | display_file_name(handles,fileinput,0) |
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331 | |
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332 | % -------------------------------------------------------------------- |
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333 | function MenuFile_2_Callback(hObject, eventdata, handles) |
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334 | fileinput=get(handles.MenuFile_2,'Label'); |
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335 | display_file_name(handles,fileinput,0) |
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336 | |
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337 | % -------------------------------------------------------------------- |
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338 | function MenuFile_3_Callback(hObject, eventdata, handles) |
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339 | fileinput=get(handles.MenuFile_3,'Label'); |
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340 | display_file_name( handles,fileinput,0) |
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341 | |
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342 | % -------------------------------------------------------------------- |
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343 | function MenuFile_4_Callback(hObject, eventdata, handles) |
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344 | fileinput=get(handles.MenuFile_4,'Label'); |
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345 | display_file_name(handles,fileinput,0) |
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346 | |
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347 | % -------------------------------------------------------------------- |
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348 | function MenuFile_5_Callback(hObject, eventdata, handles) |
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349 | fileinput=get(handles.MenuFile_5,'Label'); |
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350 | display_file_name(handles,fileinput,0) |
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351 | |
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352 | % -------------------------------------------------------------------- |
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353 | function MenuBrowse_insert_Callback(hObject, eventdata, handles) |
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354 | InputTable=get(handles.InputTable,'Data'); |
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355 | RootPathCell=InputTable(:,1); |
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356 | SubDirCell=InputTable(:,3); |
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357 | RootFileCell=InputTable(:,2); |
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358 | oldfile=''; %default |
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359 | if isempty(RootPathCell)||isequal(RootPathCell,{''})%loads the previously stored file name and set it as default in the file_input box |
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360 | dir_perso=prefdir; |
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361 | profil_perso=fullfile(dir_perso,'uvmat_perso.mat'); |
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362 | if exist(profil_perso,'file') |
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363 | h=load (profil_perso); |
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364 | if isfield(h,'filebase')&ischar(h.filebase) |
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365 | oldfile=h.filebase; |
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366 | end |
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367 | if isfield(h,'RootPath')&ischar(h.RootPath) |
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368 | oldfile=h.RootPath; |
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369 | end |
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370 | end |
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371 | else |
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372 | oldfile=fullfile(RootPathCell{1},RootFileCell{1}); |
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373 | end |
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374 | [FileName, PathName, filterindex] = uigetfile( ... |
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375 | {'*.xml;*.xls;*.png;*.avi;*.AVI;*.nc', ' (*.xml,*.xls, *.png, *.avi,*.nc)'; |
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376 | '*.xml', '.xml files '; ... |
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377 | '*.xls', '.xls files '; ... |
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378 | '*.png','.png image files'; ... |
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379 | '*.avi;*.AVI','.avi movie files'; ... |
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380 | '*.nc','.netcdf files'; ... |
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381 | '*.*', 'All Files (*.*)'}, ... |
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382 | 'Pick a file',oldfile); |
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383 | fileinput=[PathName FileName];%complete file name |
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384 | sizf=size(fileinput); |
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385 | if (~ischar(fileinput)|~isequal(sizf(1),1)),return;end |
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386 | [path,name,ext]=fileparts(fileinput); |
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387 | if isequal(ext,'.xml') |
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388 | msgbox_uvmat('ERROR','input file type not implemented')%A Faire: ouvrir le fichier pour naviguer |
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389 | elseif isequal(ext,'.xls') |
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390 | msgbox_uvmat('ERROR','input file type not implemented')%A Faire: ouvrir le fichier pour naviguer |
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391 | else |
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392 | display_file_name(handles,fileinput,'append') |
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393 | end |
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394 | |
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395 | % -------------------------------------------------------------------- |
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396 | function MenuFile_insert_1_Callback(hObject, eventdata, handles) |
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397 | % -------------------------------------------------------------------- |
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398 | fileinput=get(handles.MenuFile_insert_1,'Label'); |
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399 | display_file_name(handles,fileinput,'append') |
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400 | |
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401 | % -------------------------------------------------------------------- |
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402 | function MenuFile_insert_2_Callback(hObject, eventdata, handles) |
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403 | % -------------------------------------------------------------------- |
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404 | fileinput=get(handles.MenuFile_insert_2,'Label'); |
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405 | display_file_name(handles,fileinput,'append') |
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406 | |
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407 | % -------------------------------------------------------------------- |
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408 | function MenuFile_insert_3_Callback(hObject, eventdata, handles) |
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409 | % -------------------------------------------------------------------- |
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410 | fileinput=get(handles.MenuFile_insert_3,'Label'); |
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411 | display_file_name( handles,fileinput,'append') |
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412 | |
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413 | % -------------------------------------------------------------------- |
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414 | function MenuFile_insert_4_Callback(hObject, eventdata, handles) |
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415 | % -------------------------------------------------------------------- |
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416 | fileinput=get(handles.MenuFile_insert_4,'Label'); |
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417 | display_file_name( handles,fileinput,'append') |
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418 | |
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419 | % -------------------------------------------------------------------- |
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420 | function MenuFile_insert_5_Callback(hObject, eventdata, handles) |
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421 | % -------------------------------------------------------------------- |
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422 | fileinput=get(handles.MenuFile_insert_5,'Label'); |
---|
423 | display_file_name(handles,fileinput,'append') |
---|
424 | |
---|
425 | %------------------------------------------------------------------------ |
---|
426 | % --- Executes when entered data in editable cell(s) in InputTable. |
---|
427 | function InputTable_CellEditCallback(hObject, eventdata, handles) |
---|
428 | %------------------------------------------------------------------------ |
---|
429 | set(handles.REFRESH,'Visible','on') |
---|
430 | set(handles.REFRESH_title,'Visible','on') |
---|
431 | iview=eventdata.Indices(1); |
---|
432 | view_set=get(handles.REFRESH,'UserData'); |
---|
433 | if isempty(find(view_set==iview)) |
---|
434 | set(handles.REFRESH,'UserData',[view_set iview]) |
---|
435 | end |
---|
436 | %% enable other menus and uicontrols |
---|
437 | set(handles.MenuOpen_insert,'Enable','on') |
---|
438 | set(handles.MenuFile_insert_1,'Enable','on') |
---|
439 | set(handles.MenuFile_insert_2,'Enable','on') |
---|
440 | set(handles.MenuFile_insert_3,'Enable','on') |
---|
441 | set(handles.MenuFile_insert_4,'Enable','on') |
---|
442 | set(handles.MenuFile_insert_5,'Enable','on') |
---|
443 | set(handles.RUN, 'Enable','On') |
---|
444 | set(handles.RUN,'BackgroundColor',[1 0 0])% set RUN button to red |
---|
445 | |
---|
446 | %------------------------------------------------------------------------ |
---|
447 | % --- Executes on button press in REFRESH. |
---|
448 | function REFRESH_Callback(hObject, eventdata, handles) |
---|
449 | %------------------------------------------------------------------------ |
---|
450 | InputTable=get(handles.InputTable,'Data'); |
---|
451 | view_set=get(handles.REFRESH,'UserData'); |
---|
452 | set(handles.REFRESH,'BackgroundColor',[1 1 0])% set REFRESH button to yellow color (indicate activation) |
---|
453 | drawnow |
---|
454 | for iview=view_set |
---|
455 | RootPath=fullfile(InputTable{iview,1},InputTable{iview,2}); |
---|
456 | if ~exist(RootPath,'dir') |
---|
457 | i1_series=[]; |
---|
458 | RootPath=fileparts(RootPath); %will try the upped forldr |
---|
459 | else |
---|
460 | [RootPath,SubDir,RootFile,i1_series,i2_series,j1_series,j2_series,tild,FileType,FileInfo,MovieObject]=... |
---|
461 | find_file_series(fullfile(InputTable{iview,1},InputTable{iview,2}),[InputTable{iview,3} InputTable{iview,4} InputTable{iview,5}]); |
---|
462 | end |
---|
463 | if isempty(i1_series) |
---|
464 | [FileName, PathName] = uigetfile( ... |
---|
465 | {'*.xml;*.xls;*.png;*.tif;*.avi;*.AVI;*.nc', ' (*.xml,*.xls, *.png,*.tif, *.avi,*.nc)'; |
---|
466 | '*.xml', '.xml files '; ... |
---|
467 | '*.xls', '.xls files '; ... |
---|
468 | '*.png','.png image files'; ... |
---|
469 | '*.tif','.tif image files'; ... |
---|
470 | '*.avi;*.AVI','.avi movie files'; ... |
---|
471 | '*.nc','.netcdf files'; ... |
---|
472 | '*.*', 'All Files (*.*)'}, ... |
---|
473 | ['unvalid entry at line ' num2str(iview) ', pick a new input file'],RootPath); |
---|
474 | fileinput=[PathName FileName];%complete file name |
---|
475 | if isempty(fileinput) %abandon if the operation has been cancelled: no input from browser |
---|
476 | set(handles.REFRESH,'BackgroundColor',[1 0 0])% set REFRESH back to red color |
---|
477 | return; |
---|
478 | end |
---|
479 | [path,name,ext]=fileparts(fileinput); |
---|
480 | display_file_name(handles,fileinput,iview) |
---|
481 | else |
---|
482 | update_rootinfo(handles,i1_series,i2_series,j1_series,j2_series,FileType,FileInfo,MovieObject,iview) |
---|
483 | end |
---|
484 | end |
---|
485 | set(handles.REFRESH,'Visible','off') |
---|
486 | set(handles.REFRESH_title,'Visible','off') |
---|
487 | set(handles.REFRESH,'UserData',[]) |
---|
488 | |
---|
489 | %------------------------------------------------------------------------ |
---|
490 | % --- Function called when a new file is opened, either by series_OpeningFcn or by the browser |
---|
491 | function display_file_name(handles,fileinput,iview) |
---|
492 | %------------------------------------------------------------------------ |
---|
493 | % |
---|
494 | % INPUT: |
---|
495 | % handles: handles of elements in the GUI |
---|
496 | % fileinput: input file name, including path |
---|
497 | % iview: line index in the input table |
---|
498 | |
---|
499 | %% get the input root name, indices, file extension and nomenclature NomType |
---|
500 | if ~exist(fileinput,'file') |
---|
501 | msgbox_uvmat('ERROR',['input file ' fileinput ' does not exist']) |
---|
502 | return |
---|
503 | end |
---|
504 | |
---|
505 | %% enable other menus and uicontrols |
---|
506 | set(handles.MenuOpen_insert,'Enable','on') |
---|
507 | set(handles.MenuFile_insert_1,'Enable','on') |
---|
508 | set(handles.MenuFile_insert_2,'Enable','on') |
---|
509 | set(handles.MenuFile_insert_3,'Enable','on') |
---|
510 | set(handles.MenuFile_insert_4,'Enable','on') |
---|
511 | set(handles.MenuFile_insert_5,'Enable','on') |
---|
512 | set(handles.RUN, 'Enable','On') |
---|
513 | set(handles.RUN,'BackgroundColor',[1 0 0])% set RUN button to red |
---|
514 | set(handles.InputTable,'BackgroundColor',[1 1 0]) % set RootPath edit box to yellow |
---|
515 | drawnow |
---|
516 | |
---|
517 | %% detect root name, nomenclature and indices in the input file name: |
---|
518 | [FilePath,FileName,FileExt]=fileparts(fileinput); |
---|
519 | % detect the file type, get the movie object if relevant, and look for the corresponding file series: |
---|
520 | % the root name and indices may be corrected by including the first index i1 if a corresponding xml file exists |
---|
521 | [RootPath,SubDir,RootFile,i1_series,i2_series,j1_series,j2_series,NomType,FileType,FileInfo,MovieObject,i1,i2,j1,j2]=find_file_series(FilePath,[FileName FileExt]); |
---|
522 | if isempty(RootFile)&&isempty(i1_series) |
---|
523 | errormsg='no input file in the series'; |
---|
524 | return |
---|
525 | end |
---|
526 | |
---|
527 | %% fill the list of file series |
---|
528 | InputTable=get(handles.InputTable,'Data'); |
---|
529 | if strcmp(iview,'append') % display the input data as a new line in the table |
---|
530 | iview=size(InputTable,1); |
---|
531 | InputTable(iview+1,:)={'','','','',''}; |
---|
532 | InputTable(iview,:)=[{RootPath},{SubDir},{RootFile},{NomType},{FileExt}]; |
---|
533 | elseif iview==0 % or re-initialise the list of input file series |
---|
534 | iview=1; |
---|
535 | InputTable=[{'','','','',''};{'','','','',''}]; |
---|
536 | InputTable(iview,:)=[{RootPath},{SubDir},{RootFile},{NomType},{FileExt}]; |
---|
537 | set(handles.TimeTable,'Data',[{[]},{[]},{[]},{[]}]) |
---|
538 | set(handles.MinIndex,'Data',[{[]},{[]}]) |
---|
539 | set(handles.MaxIndex,'Data',[{[]},{[]}]) |
---|
540 | set(handles.ListView,'Value',1) |
---|
541 | set(handles.ListView,'String',{'1'}) |
---|
542 | end |
---|
543 | nbview=size(InputTable,1); |
---|
544 | set(handles.ListView,'String',mat2cell((1:nbview)',ones(nbview,1))) |
---|
545 | set(handles.ListView,'Value',iview) |
---|
546 | set(handles.InputTable,'Data',InputTable) |
---|
547 | |
---|
548 | %% determine the selected reference field indices for pair display |
---|
549 | if isempty(i1) |
---|
550 | i1=1; |
---|
551 | end |
---|
552 | if isempty(i2) |
---|
553 | i2=i1; |
---|
554 | end |
---|
555 | ref_i=floor((i1+i2)/2);% reference image number corresponding to the file |
---|
556 | set(handles.num_ref_i,'String',num2str(ref_i)); |
---|
557 | % set(handles.num_ref_i,'UserData',[i1 i2])%store the indices for future opening |
---|
558 | if isempty(j1) |
---|
559 | j1=1; |
---|
560 | end |
---|
561 | if isempty(j2) |
---|
562 | j2=j1; |
---|
563 | end |
---|
564 | ref_j=floor((j1+j2)/2);% reference image number corresponding to the file |
---|
565 | set(handles.num_ref_j,'String',num2str(ref_j)); |
---|
566 | % set(handles.num_ref_j,'UserData',[j1 j2]);%store the indices for future opening |
---|
567 | |
---|
568 | %% update the list of recent files in the menubar and save it for future opening |
---|
569 | MenuFile=[{get(handles.MenuFile_1,'Label')};{get(handles.MenuFile_2,'Label')};... |
---|
570 | {get(handles.MenuFile_3,'Label')};{get(handles.MenuFile_4,'Label')};{get(handles.MenuFile_5,'Label')}]; |
---|
571 | str_find=strcmp(fileinput,MenuFile); |
---|
572 | if isempty(find(str_find,1)) |
---|
573 | MenuFile=[{fileinput};MenuFile];%insert the current file if not already in the list |
---|
574 | end |
---|
575 | for ifile=1:min(length(MenuFile),5) |
---|
576 | eval(['set(handles.MenuFile_' num2str(ifile) ',''Label'',MenuFile{ifile});']) |
---|
577 | eval(['set(handles.MenuFile_insert_' num2str(ifile) ',''Label'',MenuFile{ifile});']) |
---|
578 | end |
---|
579 | dir_perso=prefdir; |
---|
580 | profil_perso=fullfile(dir_perso,'uvmat_perso.mat'); |
---|
581 | if exist(profil_perso,'file') |
---|
582 | save (profil_perso,'MenuFile','-append'); %store the file names for future opening of uvmat |
---|
583 | else |
---|
584 | save (profil_perso,'MenuFile','-V6'); %store the file names for future opening of uvmat |
---|
585 | end |
---|
586 | % save the opened file to initiate future opening |
---|
587 | SeriesData=get(handles.series,'UserData'); |
---|
588 | SeriesData.RefFile{iview}=fileinput; |
---|
589 | set(handles.series,'UserData',SeriesData) |
---|
590 | |
---|
591 | set(handles.InputTable,'BackgroundColor',[1 1 1]) |
---|
592 | |
---|
593 | %% initiate input file series and refresh the current field view: |
---|
594 | update_rootinfo(handles,i1_series,i2_series,j1_series,j2_series,FileType,FileInfo,MovieObject,iview); |
---|
595 | |
---|
596 | %------------------------------------------------------------------------ |
---|
597 | % --- Update information about a new field series (indices to scan, timing, |
---|
598 | % calibration from an xml file |
---|
599 | function update_rootinfo(handles,i1_series,i2_series,j1_series,j2_series,FileType,FileInfo,VideoObject,iview) |
---|
600 | %------------------------------------------------------------------------ |
---|
601 | %% update the output dir |
---|
602 | InputTable=get(handles.InputTable,'Data'); |
---|
603 | SubDir=sort(InputTable(1:end-1,2)); %set of subdirectories sorted in alphabetical order |
---|
604 | SubDirOut=SubDir{1}; |
---|
605 | if numel(SubDir)>1 |
---|
606 | for ilist=2:numel(SubDir) |
---|
607 | SubDirOut=[SubDirOut '-' SubDir{ilist}]; |
---|
608 | end |
---|
609 | end |
---|
610 | set(handles.OutputSubDir,'String',SubDirOut) |
---|
611 | |
---|
612 | %% display the min and max indices for the file series |
---|
613 | if size(i1_series,2)==2 && min(min(i1_series(:,1,:)))==0 |
---|
614 | MinIndex_j=1;% index j set to 1 by default |
---|
615 | MaxIndex_j=1; |
---|
616 | MinIndex_i=find(i1_series(:,2,:), 1 )-1; |
---|
617 | MaxIndex_i=find(i1_series(:,2,:), 1, 'last' )-1; |
---|
618 | else |
---|
619 | pair_max=squeeze(max(i1_series,[],1)); %max on pair index |
---|
620 | j_max=max(pair_max,[],1); |
---|
621 | MaxIndex_i=find(j_max, 1, 'last' )-1;% max ref index i |
---|
622 | MinIndex_i=find(j_max, 1 )-1;% min ref index i |
---|
623 | diff_i_max=diff(j_max); |
---|
624 | if ~isempty(diff_i_max) && isequal (diff_i_max,diff_i_max(1)*ones(size(diff_i_max))) |
---|
625 | set(handles.num_incr_i,'String',num2str(diff_i_max(1)))% detect an increment to dispaly by default |
---|
626 | end |
---|
627 | i_max=max(pair_max,[],2); |
---|
628 | MaxIndex_j=max(find(i_max))-1;% max ref index i |
---|
629 | MinIndex_j=min(find(i_max))-1;% min ref index i |
---|
630 | diff_j_max=diff(i_max); |
---|
631 | if isequal (diff_j_max,diff_j_max(1)*ones(size(diff_j_max))) |
---|
632 | set(handles.num_incr_j,'String',num2str(diff_j_max(1))) |
---|
633 | end |
---|
634 | end |
---|
635 | MinIndex=get(handles.MinIndex,'Data');%retrieve the min indices in the table MinIndex |
---|
636 | MaxIndex=get(handles.MaxIndex,'Data');%retrieve the max indices in the table MaxIndex |
---|
637 | if isequal(MinIndex_i,-1) |
---|
638 | MinIndex_i=0; |
---|
639 | end |
---|
640 | if isequal(MinIndex_j,-1) |
---|
641 | MinIndex_j=0; |
---|
642 | end |
---|
643 | MinIndex{iview,1}=MinIndex_i; |
---|
644 | MinIndex{iview,2}=MinIndex_j; |
---|
645 | MaxIndex{iview,1}=MaxIndex_i; |
---|
646 | MaxIndex{iview,2}=MaxIndex_j; |
---|
647 | |
---|
648 | set(handles.MinIndex,'Data',MinIndex)%display the min indices in the table MinIndex |
---|
649 | set(handles.MaxIndex,'Data',MaxIndex)%display the max indices in the table MaxIndex |
---|
650 | |
---|
651 | %% adjust the first and last indices, only if requested by the bounds |
---|
652 | % i index, compare input to min index i |
---|
653 | first_i=str2num(get(handles.num_first_i,'String'));%retrieve previous first i |
---|
654 | ref_i=str2num(get(handles.num_ref_i,'String'));%index i given by the input field |
---|
655 | if isempty(first_i) |
---|
656 | first_i=ref_i;% first_i updated by the input value |
---|
657 | elseif first_i < MinIndex_i |
---|
658 | first_i=MinIndex_i; % first_i set to the min i index (restricted by oter input lines) |
---|
659 | elseif first_i >MaxIndex_i |
---|
660 | first_i=MaxIndex_i;% first_i set to the max i index (restricted by oter input lines) |
---|
661 | end |
---|
662 | % j index, compare input to min index j |
---|
663 | first_j=str2num(get(handles.num_first_j,'String')); |
---|
664 | ref_j=str2num(get(handles.num_ref_j,'String'));%index j given by the input field |
---|
665 | if isempty(first_j) |
---|
666 | first_j=ref_j;% first_j updated by the input value |
---|
667 | elseif first_j<MinIndex_j |
---|
668 | first_j=MinIndex_j; % first_j set to the min j index (restricted by oter input lines) |
---|
669 | elseif first_j >MaxIndex_j |
---|
670 | first_j=MaxIndex_j; % first_j set to the max j index (restricted by oter input lines) |
---|
671 | end |
---|
672 | % i index, compare input to max index i |
---|
673 | last_i=str2num(get(handles.num_last_i,'String')); |
---|
674 | if isempty(last_i) |
---|
675 | last_i=ref_i; |
---|
676 | elseif last_i > MaxIndex_i |
---|
677 | last_i=MaxIndex_i; |
---|
678 | elseif last_i<first_i |
---|
679 | last_i=first_i; |
---|
680 | end |
---|
681 | % j index, compare input to max index j |
---|
682 | last_j=str2num(get(handles.num_last_j,'String')); |
---|
683 | if isempty(last_j) |
---|
684 | last_j=ref_j; |
---|
685 | elseif last_j>MaxIndex_j |
---|
686 | last_j=MaxIndex_j; |
---|
687 | elseif last_j<first_j |
---|
688 | last_j=first_j; |
---|
689 | end |
---|
690 | set(handles.num_first_i,'String',num2str(first_i)); |
---|
691 | set(handles.num_first_j,'String',num2str(first_j)); |
---|
692 | set(handles.num_last_i,'String',num2str(last_i)); |
---|
693 | set(handles.num_last_j,'String',num2str(last_j)); |
---|
694 | |
---|
695 | %% read timing and total frame number from the current file (movie files) may be overrid by xml file |
---|
696 | InputTable=get(handles.InputTable,'Data'); |
---|
697 | FileBase=fullfile(InputTable{iview,1},InputTable{iview,3}); |
---|
698 | time=[];%default |
---|
699 | TimeSource=''; |
---|
700 | % case of movies |
---|
701 | if strcmp(InputTable{iview,4},'*') |
---|
702 | if ~isempty(VideoObject) |
---|
703 | imainfo=get(VideoObject); |
---|
704 | time=zeros(imainfo.NumberOfFrames+1,2); |
---|
705 | time(:,2)=(0:1/imainfo.FrameRate:(imainfo.NumberOfFrames)/imainfo.FrameRate)'; |
---|
706 | TimeSource='video'; |
---|
707 | % set(han:dles.Dt_txt,'String',['Dt=' num2str(1000/imainfo.FrameRate) 'ms']);%display the elementary time interval in millisec |
---|
708 | ColorType='truecolor'; |
---|
709 | elseif ~isempty(imformats(regexprep(InputTable{iview,5},'^.',''))) || isequal(InputTable{iview,5},'.vol')%&& isequal(NomType,'*')% multi-frame image |
---|
710 | if ~isempty(InputTable{iview,2}) |
---|
711 | imainfo=imfinfo(fullfile(InputTable{iview,1},InputTable{iview,2},[InputTable{iview,3} InputTable{iview,5}])); |
---|
712 | else |
---|
713 | imainfo=imfinfo([FileBase InputTable{iview,5}]); |
---|
714 | end |
---|
715 | ColorType=imainfo.ColorType;%='truecolor' for color images |
---|
716 | if length(imainfo) >1 %case of image with multiple frames |
---|
717 | nbfield=length(imainfo); |
---|
718 | nbfield_j=1; |
---|
719 | end |
---|
720 | end |
---|
721 | end |
---|
722 | |
---|
723 | %% read image documentation file if found |
---|
724 | XmlData=[]; |
---|
725 | NbSlice_calib={}; |
---|
726 | XmlFileName=find_imadoc(InputTable{iview,1},InputTable{iview,2},InputTable{iview,3},InputTable{iview,5}); |
---|
727 | TimeUnit=''; |
---|
728 | if ~isempty(XmlFileName) |
---|
729 | [XmlData,warntext]=imadoc2struct(XmlFileName); |
---|
730 | if isfield(XmlData,'Heading') && isfield(XmlData.Heading,'ImageName') && ischar(XmlData.Heading.ImageName) |
---|
731 | [PP,FF,ext_ima_read]=fileparts(XmlData.Heading.ImageName); |
---|
732 | end |
---|
733 | if isfield(XmlData,'Time') |
---|
734 | time=XmlData.Time; |
---|
735 | TimeSource='xml'; |
---|
736 | end |
---|
737 | if isfield(XmlData,'Camera') |
---|
738 | if isfield(XmlData.Camera,'NbSlice')&& ~isempty(XmlData.Camera.NbSlice) |
---|
739 | NbSlice_calib{iview}=XmlData.Camera.NbSlice;% Nbre of slices for Zindex in phys transform |
---|
740 | if ~isequal(NbSlice_calib{iview},NbSlice_calib{1}) |
---|
741 | msgbox_uvmat('WARNING','inconsistent number of Z indices for the two field series'); |
---|
742 | end |
---|
743 | end |
---|
744 | if isfield(XmlData.Camera,'TimeUnit')&& ~isempty(XmlData.Camera.TimeUnit) |
---|
745 | TimeUnit=XmlData.Camera.TimeUnit; |
---|
746 | end |
---|
747 | end |
---|
748 | if ~isempty(warntext) |
---|
749 | msgbox_uvmat('WARNING',warntext) |
---|
750 | end |
---|
751 | end |
---|
752 | |
---|
753 | %% update time table |
---|
754 | if ~isempty(time) |
---|
755 | TimeTable=get(handles.TimeTable,'Data'); |
---|
756 | first_i=str2num(get(handles.num_first_i,'String')); |
---|
757 | last_i=str2num(get(handles.num_last_i,'String')); |
---|
758 | first_j=str2num(get(handles.num_first_j,'String')); |
---|
759 | last_j=str2num(get(handles.num_last_j,'String')); |
---|
760 | MinIndexTable=get(handles.MinIndex,'Data'); |
---|
761 | MinIndex_i=MinIndexTable{iview,1}; |
---|
762 | MinIndex_j=MinIndexTable{iview,2}; |
---|
763 | MaxIndexTable=get(handles.MaxIndex,'Data'); |
---|
764 | MaxIndex_i=MaxIndexTable{iview,1}; |
---|
765 | MaxIndex_j=MaxIndexTable{iview,2}; |
---|
766 | if isempty(MinIndex_j)% only i index |
---|
767 | if MinIndex_i>0 |
---|
768 | TimeTable{iview,1}=time(MinIndex_i+1); |
---|
769 | end |
---|
770 | TimeTable{iview,2}=time(first_i+1); |
---|
771 | TimeTable{iview,3}=time(last_i+1); |
---|
772 | TimeTable{iview,4}=time(MaxIndex_i+1); |
---|
773 | elseif ~isempty(time) |
---|
774 | if MinIndex_i>0 |
---|
775 | TimeTable{iview,1}=time(MinIndex_i,MinIndex_j); |
---|
776 | end |
---|
777 | if size(time)>=[last_i+1 last_j+1] |
---|
778 | TimeTable{iview,2}=time(first_i+1,first_j+1); |
---|
779 | TimeTable{iview,3}=time(last_i+1,last_j+1); |
---|
780 | end |
---|
781 | if size(time)>=[MaxIndex_i+1 MaxIndex_j+1]; |
---|
782 | TimeTable{iview,4}=time(MaxIndex_i+1,MaxIndex_j+1); |
---|
783 | end |
---|
784 | end |
---|
785 | set(handles.TimeTable,'Data',TimeTable) |
---|
786 | end |
---|
787 | |
---|
788 | %% number of slices |
---|
789 | NbSlice=1;%default |
---|
790 | check_calib=0; |
---|
791 | if isfield(XmlData,'GeometryCalib') |
---|
792 | check_calib=1; |
---|
793 | if isfield(XmlData.GeometryCalib,'SliceCoord') |
---|
794 | siz=size(XmlData.GeometryCalib.SliceCoord); |
---|
795 | if siz(1)>1 |
---|
796 | NbSlice=siz(1); |
---|
797 | end |
---|
798 | end |
---|
799 | end |
---|
800 | set(handles.num_NbSlice,'String',num2str(NbSlice)) |
---|
801 | |
---|
802 | %% update pair menus |
---|
803 | set(handles.Pairs,'Visible','on') |
---|
804 | set(handles.PairString,'Visible','on') |
---|
805 | ListView=get(handles.ListView,'String'); |
---|
806 | ListView{iview}=num2str(iview); |
---|
807 | set(handles.ListView,'String',ListView); |
---|
808 | set(handles.ListView,'Value',iview) |
---|
809 | update_mode(handles,i1_series,i2_series,j1_series,j2_series,time) |
---|
810 | |
---|
811 | %% update the series info in 'UserData' |
---|
812 | SeriesData=get(handles.series,'UserData'); |
---|
813 | SeriesData.i1_series{iview}=i1_series; |
---|
814 | SeriesData.i2_series{iview}=i2_series; |
---|
815 | SeriesData.j1_series{iview}=j1_series; |
---|
816 | SeriesData.j2_series{iview}=j2_series; |
---|
817 | SeriesData.FileType{iview}=FileType; |
---|
818 | SeriesData.FileInfo{iview}=FileInfo; |
---|
819 | SeriesData.Time{iview}=time; |
---|
820 | if ~isempty(TimeSource) |
---|
821 | SeriesData.TimeSource=TimeSource; |
---|
822 | end |
---|
823 | if ~isempty(TimeUnit) |
---|
824 | SeriesData.TimeUnit=TimeUnit; |
---|
825 | end |
---|
826 | if check_calib |
---|
827 | SeriesData.GeometryCalib{iview}=XmlData.GeometryCalib; |
---|
828 | end |
---|
829 | set(handles.series,'UserData',SeriesData) |
---|
830 | |
---|
831 | %% enable j index visibilitycellfun(@isempty,regexp(PairString,'^j')) |
---|
832 | % state='off'; |
---|
833 | check_jindex=~cellfun(@isempty,SeriesData.j1_series); %look for non empty j indices |
---|
834 | if isempty(find(check_jindex)) |
---|
835 | enable_j(handles,'off') % no j index needed |
---|
836 | else |
---|
837 | PairString=get(handles.PairString,'Data'); |
---|
838 | if isempty(find(cellfun(@isempty,regexp(PairString,'^j'))))% if all pair string begins by j (burst) |
---|
839 | enable_j(handles,'off') % no j index needed |
---|
840 | else |
---|
841 | enable_j(handles,'on') |
---|
842 | end |
---|
843 | end |
---|
844 | |
---|
845 | %% display the set of existing files as an image |
---|
846 | set(handles.FileStatus,'Units','pixels') |
---|
847 | Position=get(handles.FileStatus,'Position'); |
---|
848 | set(handles.FileStatus,'Units','normalized') |
---|
849 | xI=0.5:Position(3)-0.5; |
---|
850 | nbview=numel(SeriesData.i1_series); |
---|
851 | pair_max=cell(1,nbview); |
---|
852 | for iview=1:nbview |
---|
853 | pair_max{iview}=squeeze(max(SeriesData.i1_series{iview},[],1)); %max on pair index |
---|
854 | if (strcmp(get(handles.num_first_j,'Visible'),'off')&& size(pair_max{iview},2)~=1) |
---|
855 | pair_max{iview}=squeeze(max(pair_max{iview},[],1)); % consider only the i index |
---|
856 | end |
---|
857 | index_min(iview)=find(pair_max{iview}>0, 1 ); |
---|
858 | index_max(iview)=find(pair_max{iview}>0, 1, 'last' ); |
---|
859 | end |
---|
860 | index_min=min(index_min); |
---|
861 | index_max=max(index_max); |
---|
862 | range_index=index_max-index_min+1; |
---|
863 | scale_y=Position(4)/nbview; |
---|
864 | scale_x=Position(3)/range_index; |
---|
865 | x=(0.5:range_index-0.5)*Position(3)/range_index; |
---|
866 | % y=(0.5:nbview-0.5)*Position(4)/nbview; |
---|
867 | range_y=max(1,floor(Position(4)/nbview)); |
---|
868 | CData=zeros(nbview*range_y,Position(3)); |
---|
869 | for iview=1:nbview |
---|
870 | ind_y=1+(iview-1)*range_y:iview*range_y; |
---|
871 | LineData=zeros(1,range_index); |
---|
872 | x_index=find(pair_max{iview}>0)-index_min+1; |
---|
873 | LineData(x_index)=1; |
---|
874 | if numel(x)>1 |
---|
875 | LineData=interp1(x,LineData,xI,'nearest'); |
---|
876 | CData(ind_y,:)=ones(size(ind_y'))*LineData; |
---|
877 | end |
---|
878 | end |
---|
879 | CData=cat(3,zeros(size(CData)),CData,zeros(size(CData))); |
---|
880 | set(handles.FileStatus,'CData',CData); |
---|
881 | |
---|
882 | |
---|
883 | %% enable field and veltype menus, in accordance with the current action |
---|
884 | ActionName_Callback([],[], handles) |
---|
885 | |
---|
886 | %% check for pair display |
---|
887 | check_pairs=0; |
---|
888 | for iview=1:numel(SeriesData.i2_series) |
---|
889 | if ~isempty(SeriesData.i2_series{iview})||~isempty(SeriesData.j2_series{iview}) |
---|
890 | check_pairs=1; |
---|
891 | end |
---|
892 | end |
---|
893 | if check_pairs |
---|
894 | set(handles.Pairs,'Visible','on') |
---|
895 | set(handles.PairString,'Visible','on') |
---|
896 | else |
---|
897 | set(handles.Pairs,'Visible','off') |
---|
898 | set(handles.PairString,'Visible','off') |
---|
899 | end |
---|
900 | |
---|
901 | %% set length of waitbar |
---|
902 | displ_time(handles) |
---|
903 | |
---|
904 | |
---|
905 | %% set default options in menu 'Fields' |
---|
906 | switch FileType |
---|
907 | case {'civx','civdata'} |
---|
908 | [FieldList,ColorList]=set_field_list('U','V','C'); |
---|
909 | set(handles.FieldName,'String',[{'image'};FieldList;{'get_field...'}]);%standard menu for civx data |
---|
910 | set(handles.FieldName,'Value',2) % set menu to 'velocity |
---|
911 | set(handles.Coord_x,'Value',1); |
---|
912 | set(handles.Coord_x,'String',{'X'}); |
---|
913 | set(handles.Coord_y,'Value',1); |
---|
914 | set(handles.Coord_y,'String',{'Y'}); |
---|
915 | case 'netcdf' |
---|
916 | set(handles.FieldName,'Value',1) |
---|
917 | set(handles.FieldName,'String',{'get_field...'}) |
---|
918 | if isempty(i2_series) |
---|
919 | i2=[]; |
---|
920 | else |
---|
921 | i2=i2_series(1,ref_j+1,ref_i+1); |
---|
922 | end |
---|
923 | if isempty(j1_series) |
---|
924 | j1=[];j2=[]; |
---|
925 | else |
---|
926 | j1=j1_series(1,ref_j+1,ref_i+1); |
---|
927 | if isempty(j2_series) |
---|
928 | j2=[]; |
---|
929 | else |
---|
930 | j2=j2_series(1,ref_j+1,ref_i+1); |
---|
931 | end |
---|
932 | end |
---|
933 | FileName=fullfile_uvmat(InputTable{iview,1},InputTable{iview,2},InputTable{iview,3},InputTable{iview,5},InputTable{iview,4},i1_series(1,ref_j+1,ref_i+1),i2,j1,j2); |
---|
934 | % hget_field=get_field(FileName); |
---|
935 | % hhget_field=guidata(hget_field); |
---|
936 | % get_field('RUN_Callback',hhget_field.RUN,[],hhget_field); |
---|
937 | otherwise |
---|
938 | set(handles.FieldName,'Value',1) % set menu to 'image' |
---|
939 | set(handles.FieldName,'String',{'image'}) |
---|
940 | set(handles.Coord_x,'Value',1); |
---|
941 | set(handles.Coord_x,'String',{'AX'}); |
---|
942 | set(handles.Coord_y,'Value',1); |
---|
943 | set(handles.Coord_y,'String',{'AY'}); |
---|
944 | end |
---|
945 | |
---|
946 | %------------------------------------------------------------------------ |
---|
947 | function num_first_i_Callback(hObject, eventdata, handles) |
---|
948 | %------------------------------------------------------------------------ |
---|
949 | num_last_i_Callback(hObject, eventdata, handles) |
---|
950 | |
---|
951 | %------------------------------------------------------------------------ |
---|
952 | function num_last_i_Callback(hObject, eventdata, handles) |
---|
953 | %------------------------------------------------------------------------ |
---|
954 | SeriesData=get(handles.series,'UserData'); |
---|
955 | if ~isfield(SeriesData,'Time') |
---|
956 | SeriesData.Time{1}=[]; |
---|
957 | end |
---|
958 | displ_time(handles); |
---|
959 | |
---|
960 | %------------------------------------------------------------------------ |
---|
961 | function num_first_j_Callback(hObject, eventdata, handles) |
---|
962 | %------------------------------------------------------------------------ |
---|
963 | num_last_j_Callback(hObject, eventdata, handles) |
---|
964 | |
---|
965 | %------------------------------------------------------------------------ |
---|
966 | function num_last_j_Callback(hObject, eventdata, handles) |
---|
967 | %------------------------------------------------------------------------ |
---|
968 | first_j=str2num(get(handles.num_first_j,'String')); |
---|
969 | last_j=str2num(get(handles.num_last_j,'String')); |
---|
970 | ref_j=ceil((first_j+last_j)/2); |
---|
971 | set(handles.num_ref_j,'String', num2str(ref_j)) |
---|
972 | num_ref_j_Callback(hObject, eventdata, handles) |
---|
973 | SeriesData=get(handles.series,'UserData'); |
---|
974 | if ~isfield(SeriesData,'Time') |
---|
975 | SeriesData.Time{1}=[]; |
---|
976 | end |
---|
977 | displ_time(handles); |
---|
978 | |
---|
979 | |
---|
980 | %------------------------------------------------------------------------ |
---|
981 | % ---- find the times corresponding to the first and last indices of a series |
---|
982 | function displ_time(handles) |
---|
983 | %------------------------------------------------------------------------ |
---|
984 | SeriesData=get(handles.series,'UserData');% |
---|
985 | ref_i=[str2num(get(handles.num_first_i,'String')) str2num(get(handles.num_last_i,'String'))]; |
---|
986 | ref_j=[str2num(get(handles.num_first_j,'String')) str2num(get(handles.num_last_j,'String'))]; |
---|
987 | TimeTable=get(handles.TimeTable,'Data'); |
---|
988 | Pairs=get(handles.PairString,'Data'); |
---|
989 | for iview=1:size(TimeTable,1) |
---|
990 | if size(SeriesData.Time,1)<iview |
---|
991 | break |
---|
992 | end |
---|
993 | i1=ref_i; |
---|
994 | j1=ref_j; |
---|
995 | i2=ref_i; |
---|
996 | j2=ref_j; |
---|
997 | % case of pairs |
---|
998 | if ~isempty(Pairs{iview,1}) |
---|
999 | r=regexp(Pairs{iview,1},'(?<mode>(Di=)|(Dj=)) -*(?<num1>\d+)\|(?<num2>\d+)','names'); |
---|
1000 | if isempty(r) |
---|
1001 | r=regexp(Pairs{iview,1},'(?<num1>\d+)(?<mode>-)(?<num2>\d+)','names'); |
---|
1002 | end |
---|
1003 | switch r.mode |
---|
1004 | case 'Di=' % case 'series(Di)') |
---|
1005 | i1=ref_i-str2num(r.num1); |
---|
1006 | i2=ref_i+str2num(r.num2); |
---|
1007 | case 'Dj=' % case 'series(Dj)' |
---|
1008 | j1=ref_j-str2num(r.num1); |
---|
1009 | j2=ref_j+str2num(r.num2); |
---|
1010 | case '-' % case 'bursts' |
---|
1011 | j1=str2num(r.num1)*ones(size(ref_i)); |
---|
1012 | j2=str2num(r.num2)*ones(size(ref_i)); |
---|
1013 | end |
---|
1014 | end |
---|
1015 | TimeTable{iview,2}=[]; |
---|
1016 | TimeTable{iview,3}=[]; |
---|
1017 | if size(SeriesData.Time{iview},1)>=i2(2)&&size(SeriesData.Time{iview},1)>=j2(2) |
---|
1018 | if isempty(ref_j) |
---|
1019 | time_first=(SeriesData.Time{iview}(i1(1)+1)+SeriesData.Time{iview}(i2(1)+1))/2; |
---|
1020 | time_last=(SeriesData.Time{iview}(i1(2)+1)+SeriesData.Time{iview}(i2(2))+1)/2; |
---|
1021 | else |
---|
1022 | time_first=(SeriesData.Time{iview}(i1(1)+1,j1(1)+1)+SeriesData.Time{iview}(i2(1)+1,j2(1)+1))/2; |
---|
1023 | time_last=(SeriesData.Time{iview}(i1(2)+1,j1(2)+1)+SeriesData.Time{iview}(i2(2)+1,j2(2)+1))/2; |
---|
1024 | end |
---|
1025 | TimeTable{iview,2}=time_first; %TODO: take into account pairs |
---|
1026 | TimeTable{iview,3}=time_last; %TODO: take into account pairs |
---|
1027 | end |
---|
1028 | end |
---|
1029 | set(handles.TimeTable,'Data',TimeTable) |
---|
1030 | |
---|
1031 | %% set the waitbar position with respect to the min and max in the series |
---|
1032 | for iview=1:numel(SeriesData.i1_series) |
---|
1033 | pair_max{iview}=squeeze(max(SeriesData.i1_series{iview},[],1)); %max on pair index |
---|
1034 | if (strcmp(get(handles.num_first_j,'Visible'),'off')&& size(pair_max{iview},2)~=1) |
---|
1035 | pair_max{iview}=squeeze(max(pair_max{iview},[],1)); % consider only the i index |
---|
1036 | end |
---|
1037 | pair_max{iview}=reshape(pair_max{iview},1,[]); |
---|
1038 | index_min(iview)=find(pair_max{iview}>0, 1 ); |
---|
1039 | index_max(iview)=find(pair_max{iview}>0, 1, 'last' ); |
---|
1040 | end |
---|
1041 | [index_min,iview_min]=min(index_min); |
---|
1042 | [index_max,iview_max]=min(index_max); |
---|
1043 | if size(SeriesData.i1_series{iview_min},2)==1% movie |
---|
1044 | index_first=ref_i(1); |
---|
1045 | index_last=ref_i(2); |
---|
1046 | else |
---|
1047 | index_first=(ref_i(1)-1)*(size(SeriesData.i1_series{iview_min},1))+ref_j(1)+1; |
---|
1048 | index_last=(ref_i(2)-1)*(size(SeriesData.i1_series{iview_max},1))+ref_j(2)+1; |
---|
1049 | end |
---|
1050 | range=index_max-index_min+1; |
---|
1051 | coeff_min=(index_first-index_min)/range; |
---|
1052 | coeff_max=(index_last-index_min+1)/range; |
---|
1053 | Position=get(handles.Waitbar,'Position');% position of the waitbar:= [ x,y, width, height] |
---|
1054 | Position_status=get(handles.FileStatus,'Position'); |
---|
1055 | Position(1)=coeff_min*Position_status(3)+Position_status(1); |
---|
1056 | Position(3)=Position_status(3)*(coeff_max-coeff_min); |
---|
1057 | set(handles.Waitbar,'Position',Position) |
---|
1058 | update_waitbar(handles.Waitbar,0) |
---|
1059 | |
---|
1060 | %------------------------------------------------------------------------ |
---|
1061 | % --- Executes when selected cell(s) is changed in PairString. |
---|
1062 | function PairString_CellSelectionCallback(hObject, eventdata, handles) |
---|
1063 | %------------------------------------------------------------------------ |
---|
1064 | set(handles.ListView,'Value',eventdata.Indices(1))% detect the selected raw index |
---|
1065 | ListView_Callback ([],[],handles) % update the list of available pairs |
---|
1066 | |
---|
1067 | %------------------------------------------------------------------------ |
---|
1068 | %------------------------------------------------------------------------ |
---|
1069 | % III - FUNCTIONS ASSOCIATED TO THE FRAME SET PAIRS |
---|
1070 | %------------------------------------------------------------------------ |
---|
1071 | %------------------------------------------------------------------------ |
---|
1072 | % --- Executes on selection change in ListView. |
---|
1073 | function ListView_Callback(hObject, eventdata, handles) |
---|
1074 | %------------------------------------------------------------------------ |
---|
1075 | SeriesData=get(handles.series,'UserData'); |
---|
1076 | i2_series=[]; |
---|
1077 | j2_series=[]; |
---|
1078 | iview=get(handles.ListView,'Value'); |
---|
1079 | if ~isempty(SeriesData.i2_series{iview}) |
---|
1080 | i2_series=SeriesData.i2_series{iview}; |
---|
1081 | end |
---|
1082 | if ~isempty(SeriesData.j2_series{iview}) |
---|
1083 | j2_series=SeriesData.j2_series{iview}; |
---|
1084 | end |
---|
1085 | update_mode(handles,SeriesData.i1_series{iview},SeriesData.i2_series{iview},... |
---|
1086 | SeriesData.j1_series{iview},SeriesData.j2_series{iview},SeriesData.Time{iview}) |
---|
1087 | |
---|
1088 | %------------------------------------------------------------------------ |
---|
1089 | % --- Executes on button press in mode. |
---|
1090 | function mode_Callback(hObject, eventdata, handles) |
---|
1091 | %------------------------------------------------------------------------ |
---|
1092 | SeriesData=get(handles.series,'UserData'); |
---|
1093 | iview=get(handles.ListView,'Value'); |
---|
1094 | mode_list=get(handles.mode,'String'); |
---|
1095 | mode=mode_list{get(handles.mode,'Value')}; |
---|
1096 | if isequal(mode,'bursts') |
---|
1097 | enable_i(handles,'On') |
---|
1098 | enable_j(handles,'Off') %do not display j index scanning in burst mode (j is fixed by the burst choice) |
---|
1099 | else |
---|
1100 | enable_i(handles,'On') |
---|
1101 | enable_j(handles,'Off') |
---|
1102 | end |
---|
1103 | fill_ListPair(handles,SeriesData.i1_series{iview},SeriesData.i2_series{iview},... |
---|
1104 | SeriesData.j1_series{iview},SeriesData.j2_series{iview},SeriesData.Time{iview}) |
---|
1105 | ListPairs_Callback([],[],handles) |
---|
1106 | |
---|
1107 | %------------------------------------------------------------- |
---|
1108 | % --- Executes on selection in ListPairs. |
---|
1109 | function ListPairs_Callback(hObject,eventdata,handles) |
---|
1110 | %------------------------------------------------------------ |
---|
1111 | list_pair=get(handles.ListPairs,'String');%get the menu of image pairs |
---|
1112 | if isempty(list_pair) |
---|
1113 | string=''; |
---|
1114 | else |
---|
1115 | string=list_pair{get(handles.ListPairs,'Value')}; |
---|
1116 | string=regexprep(string,',.*','');%removes time indication (after ',') |
---|
1117 | end |
---|
1118 | PairString=get(handles.PairString,'Data'); |
---|
1119 | iview=get(handles.ListView,'Value'); |
---|
1120 | PairString{iview,1}=string; |
---|
1121 | % report the selected pair string to the table PairString |
---|
1122 | set(handles.PairString,'Data',PairString) |
---|
1123 | |
---|
1124 | %------------------------------------------------------------------------ |
---|
1125 | function num_ref_i_Callback(hObject, eventdata, handles) |
---|
1126 | %------------------------------------------------------------------------ |
---|
1127 | mode_list=get(handles.mode,'String'); |
---|
1128 | mode=mode_list{get(handles.mode,'Value')}; |
---|
1129 | SeriesData=get(handles.series,'UserData'); |
---|
1130 | iview=get(handles.ListView,'Value'); |
---|
1131 | fill_ListPair(handles,SeriesData.i1_series{iview},SeriesData.i2_series{iview},... |
---|
1132 | SeriesData.j1_series{iview},SeriesData.j2_series{iview},SeriesData.Time{iview});% update the menu of pairs depending on the available netcdf files |
---|
1133 | ListPairs_Callback([],[],handles) |
---|
1134 | |
---|
1135 | %------------------------------------------------------------------------ |
---|
1136 | function num_ref_j_Callback(hObject, eventdata, handles) |
---|
1137 | %------------------------------------------------------------------------ |
---|
1138 | num_ref_i_Callback(hObject, eventdata, handles) |
---|
1139 | |
---|
1140 | %------------------------------------------------------------------------ |
---|
1141 | function update_mode(handles,i1_series,i2_series,j1_series,j2_series,time) |
---|
1142 | %------------------------------------------------------------------------ |
---|
1143 | % check_burst=0; |
---|
1144 | if isempty(j2_series)% no j pair |
---|
1145 | if isempty(i2_series) |
---|
1146 | set(handles.mode,'Value',1) |
---|
1147 | set(handles.mode,'String',{''})% no pair menu to display |
---|
1148 | else |
---|
1149 | set(handles.mode,'Value',1) |
---|
1150 | set(handles.mode,'String',{'series(Di)'}) % pair menu with only option Di |
---|
1151 | end |
---|
1152 | else %existence of j pairs |
---|
1153 | pair_max=squeeze(max(i1_series,[],1)); %max on pair index |
---|
1154 | j_max=max(pair_max,[],1); |
---|
1155 | MaxIndex_i=max(find(j_max))-1;% max ref index i |
---|
1156 | MinIndex_i=min(find(j_max))-1;% min ref index i |
---|
1157 | i_max=max(pair_max,[],2); |
---|
1158 | MaxIndex_j=max(find(i_max))-1;% max ref index i |
---|
1159 | MinIndex_j=min(find(i_max))-1;% min ref index i |
---|
1160 | if MaxIndex_j==MinIndex_j |
---|
1161 | set(handles.mode,'Value',1); |
---|
1162 | set(handles.mode,'String',{'bursts'}) |
---|
1163 | % check_burst=1; |
---|
1164 | elseif MaxIndex_i==MinIndex_i |
---|
1165 | set(handles.mode,'Value',1); |
---|
1166 | set(handles.mode,'String',{'series(Dj)'}) |
---|
1167 | else |
---|
1168 | set(handles.mode,'String',{'bursts';'series(Dj)'}) |
---|
1169 | if (MaxIndex_j-MinIndex_j)>10 |
---|
1170 | set(handles.mode,'Value',2);%set mode to series(Dj) if more than 10 j values |
---|
1171 | else |
---|
1172 | set(handles.mode,'Value',1); |
---|
1173 | % check_burst=1; |
---|
1174 | end |
---|
1175 | end |
---|
1176 | end |
---|
1177 | % if check_burst |
---|
1178 | % enable_i(handles,'On') |
---|
1179 | % enable_j(handles,'Off') %do not display j index scanning in burst mode (j is fixed by the burst choice) |
---|
1180 | % else |
---|
1181 | % enable_i(handles,'On') |
---|
1182 | % if isempty(j1_series) |
---|
1183 | % enable_j(handles,'Off') |
---|
1184 | % else |
---|
1185 | % enable_j(handles,'On') |
---|
1186 | % end |
---|
1187 | % end |
---|
1188 | fill_ListPair(handles,i1_series,i2_series,j1_series,j2_series,time) |
---|
1189 | ListPairs_Callback([],[],handles) |
---|
1190 | |
---|
1191 | %-------------------------------------------------------------- |
---|
1192 | % determine the menu for civ1 pairstring depending on existing netcdf files |
---|
1193 | % with the reference indices num_ref_i and num_ref_j |
---|
1194 | %---------------------------------------------------------------- |
---|
1195 | function fill_ListPair(handles,i1_series,i2_series,j1_series,j2_series,time) |
---|
1196 | |
---|
1197 | mode_list=get(handles.mode,'String'); |
---|
1198 | mode=mode_list{get(handles.mode,'Value')}; |
---|
1199 | ref_i=str2num(get(handles.num_ref_i,'String')); |
---|
1200 | if isempty(ref_i) |
---|
1201 | ref_i=1; |
---|
1202 | end |
---|
1203 | if strcmp(get(handles.num_ref_j,'Visible'),'on') |
---|
1204 | ref_j=str2num(get(handles.num_ref_j,'String')); |
---|
1205 | if isempty(ref_j) |
---|
1206 | ref_j=1; |
---|
1207 | end |
---|
1208 | else |
---|
1209 | ref_j=1; |
---|
1210 | end |
---|
1211 | TimeUnit=get(handles.TimeUnit,'String'); |
---|
1212 | if length(TimeUnit)>=1 |
---|
1213 | dtunit=['m' TimeUnit]; |
---|
1214 | else |
---|
1215 | dtunit='e-03'; |
---|
1216 | end |
---|
1217 | |
---|
1218 | displ_pair={}; |
---|
1219 | if strcmp(mode,'series(Di)') |
---|
1220 | if isempty(i2_series) |
---|
1221 | msgbox_uvmat('ERROR','no i1-i2 pair available') |
---|
1222 | return |
---|
1223 | end |
---|
1224 | diff_i=i2_series-i1_series; |
---|
1225 | min_diff=min(diff_i(diff_i>0)); |
---|
1226 | max_diff=max(diff_i(diff_i>0)); |
---|
1227 | for ipair=min_diff:max_diff |
---|
1228 | if numel(diff_i(diff_i==ipair))>0 |
---|
1229 | pair_string=['Di= ' num2str(-floor(ipair/2)) '|' num2str(ceil(ipair/2)) ]; |
---|
1230 | if ~isempty(time) |
---|
1231 | if ref_i<=floor(ipair/2) |
---|
1232 | ref_i=floor(ipair/2)+1;% shift ref_i to get the first pair |
---|
1233 | end |
---|
1234 | Dt=time(ref_i+ceil(ipair/2),ref_j)-time(ref_i-floor(ipair/2),ref_j); |
---|
1235 | pair_string=[pair_string ', Dt=' num2str(Dt) ' ' dtunit]; |
---|
1236 | end |
---|
1237 | displ_pair=[displ_pair;{pair_string}]; |
---|
1238 | end |
---|
1239 | end |
---|
1240 | if ~isempty(displ_pair) |
---|
1241 | displ_pair=[displ_pair;{'Di=*|*'}]; |
---|
1242 | end |
---|
1243 | elseif strcmp(mode,'series(Dj)') |
---|
1244 | if isempty(j2_series) |
---|
1245 | msgbox_uvmat('ERROR','no j1-j2 pair available') |
---|
1246 | return |
---|
1247 | end |
---|
1248 | diff_j=j2_series-j1_series; |
---|
1249 | min_diff=min(diff_j(diff_j>0)); |
---|
1250 | max_diff=max(diff_j(diff_j>0)); |
---|
1251 | for ipair=min_diff:max_diff |
---|
1252 | if numel(diff_j(diff_j==ipair))>0 |
---|
1253 | pair_string=['Dj= ' num2str(-floor(ipair/2)) '|' num2str(ceil(ipair/2)) ]; |
---|
1254 | if ~isempty(time) |
---|
1255 | if ref_j<=floor(ipair/2) |
---|
1256 | ref_j=floor(ipair/2)+1;% shift ref_i to get the first pair |
---|
1257 | end |
---|
1258 | Dt=time(ref_i,ref_j+ceil(ipair/2))-time(ref_i,ref_j-floor(ipair/2)); |
---|
1259 | pair_string=[pair_string ', Dt=' num2str(Dt) ' ' dtunit]; |
---|
1260 | end |
---|
1261 | displ_pair=[displ_pair;{pair_string}]; |
---|
1262 | end |
---|
1263 | end |
---|
1264 | if ~isempty(displ_pair) |
---|
1265 | displ_pair=[displ_pair;{'Dj=*|*'}]; |
---|
1266 | end |
---|
1267 | elseif strcmp(mode,'bursts') |
---|
1268 | if isempty(j2_series) |
---|
1269 | msgbox_uvmat('ERROR','no j1-j2 pair available') |
---|
1270 | return |
---|
1271 | end |
---|
1272 | diff_j=j2_series-j1_series; |
---|
1273 | min_j1=min(j1_series(j1_series>0)); |
---|
1274 | max_j1=max(j1_series(j1_series>0)); |
---|
1275 | min_j2=min(j2_series(j2_series>0)); |
---|
1276 | max_j2=max(j2_series(j2_series>0)); |
---|
1277 | for pair1=min_j1:min(max_j1,min_j1+20) |
---|
1278 | for pair2=min_j2:min(max_j2,min_j2+20) |
---|
1279 | if numel(j1_series(j1_series==pair1))>0 && numel(j2_series(j2_series==pair2))>0 |
---|
1280 | displ_pair=[displ_pair;{['j= ' num2str(pair1) '-' num2str(pair2)]}]; |
---|
1281 | end |
---|
1282 | end |
---|
1283 | end |
---|
1284 | if ~isempty(displ_pair) |
---|
1285 | displ_pair=[displ_pair;{'j=*-*'}]; |
---|
1286 | end |
---|
1287 | end |
---|
1288 | set(handles.num_ref_i,'String',num2str(ref_i)) % update ref_i and ref_j |
---|
1289 | set(handles.num_ref_j,'String',num2str(ref_j)) |
---|
1290 | |
---|
1291 | %% display list of pairstring |
---|
1292 | displ_pair_list=get(handles.ListPairs,'String'); |
---|
1293 | NewVal=[]; |
---|
1294 | if ~isempty(displ_pair_list) |
---|
1295 | Val=get(handles.ListPairs,'Value'); |
---|
1296 | NewVal=find(strcmp(displ_pair_list{Val},displ_pair),1);% look at the previous display in the new menu displ_pï¿œir |
---|
1297 | end |
---|
1298 | if ~isempty(NewVal) |
---|
1299 | set(handles.ListPairs,'Value',NewVal) |
---|
1300 | else |
---|
1301 | set(handles.ListPairs,'Value',1) |
---|
1302 | end |
---|
1303 | set(handles.ListPairs,'String',displ_pair) |
---|
1304 | |
---|
1305 | %------------------------------------- |
---|
1306 | function enable_i(handles,state) |
---|
1307 | set(handles.i_txt,'Visible',state) |
---|
1308 | set(handles.num_first_i,'Visible',state) |
---|
1309 | set(handles.num_last_i,'Visible',state) |
---|
1310 | set(handles.num_incr_i,'Visible',state) |
---|
1311 | % set(handles.num_MaxIndex_i,'Visible',state) |
---|
1312 | set(handles.num_ref_i,'Visible',state) |
---|
1313 | set(handles.ref_i_text,'Visible',state) |
---|
1314 | |
---|
1315 | %----------------------------------- |
---|
1316 | function enable_j(handles,state) |
---|
1317 | set(handles.j_txt,'Visible',state) |
---|
1318 | set(handles.num_first_j,'Visible',state) |
---|
1319 | set(handles.num_last_j,'Visible',state) |
---|
1320 | set(handles.num_incr_j,'Visible',state) |
---|
1321 | set(handles.num_ref_j,'Visible',state) |
---|
1322 | set(handles.ref_j_text,'Visible',state) |
---|
1323 | % if strcmp(state,'off') |
---|
1324 | % set(handles.MinIndex,'ColumnName',{'imax'}) |
---|
1325 | % set(handles.MinIndex,'ColumnEditable',logical(0)) |
---|
1326 | % else |
---|
1327 | % set(handles.MinIndex,'ColumnName',{'imax','jmax'}) |
---|
1328 | % end |
---|
1329 | |
---|
1330 | |
---|
1331 | %%%%%%%%%%%%%%%%%%%% |
---|
1332 | %% MAIN ActionName FUNCTIONS |
---|
1333 | %%%%%%%%%%%%%%%%%%%% |
---|
1334 | %------------------------------------------------------------------------ |
---|
1335 | % --- Executes on button press in RUN. |
---|
1336 | function RUN_Callback(hObject, eventdata, handles) |
---|
1337 | %------------------------------------------------------------------------ |
---|
1338 | |
---|
1339 | set(handles.RUN,'BusyAction','queue'); |
---|
1340 | set(0,'CurrentFigure',handles.series) |
---|
1341 | set(handles.RUN, 'Enable','Off') |
---|
1342 | set(handles.RUN,'BackgroundColor',[0.831 0.816 0.784]) |
---|
1343 | drawnow |
---|
1344 | |
---|
1345 | %% read the input parameters and set the output dir and nomenclature |
---|
1346 | [Series,OutputDir,errormsg]=prepare_jobs(handles);% get parameters form the GUI series |
---|
1347 | if ~isempty(errormsg) |
---|
1348 | if ~strcmp(errormsg,'Cancel') |
---|
1349 | msgbox_uvmat('ERROR',errormsg) |
---|
1350 | end |
---|
1351 | STOP_Callback([],[], handles) |
---|
1352 | return |
---|
1353 | end |
---|
1354 | OutputNomType=nomtype2pair(Series.InputTable{1,4});% nomenclature for output files |
---|
1355 | DirXml=fullfile(OutputDir,'0_XML'); |
---|
1356 | if ~exist(DirXml,'dir') |
---|
1357 | [tild,msg1]=mkdir(DirXml); |
---|
1358 | if ~strcmp(msg1,'') |
---|
1359 | msgbox_uvmat('ERROR',['cannot create ' DirXml ': ' msg1]);%error message for directory creation |
---|
1360 | return |
---|
1361 | end |
---|
1362 | end |
---|
1363 | |
---|
1364 | %% select the Action modes |
---|
1365 | RunMode='local';%default |
---|
1366 | if isfield(Series.Action,'RunMode') |
---|
1367 | RunMode=Series.Action.RunMode; |
---|
1368 | end |
---|
1369 | ActionExt='.m';%default |
---|
1370 | if isfield(Series.Action,'ActionExt') |
---|
1371 | ActionExt=Series.Action.ActionExt;% '.m' or '.sh' (compiled) |
---|
1372 | end |
---|
1373 | ActionName=Series.Action.ActionName; |
---|
1374 | ActionPath=Series.Action.ActionPath; |
---|
1375 | path_series=fileparts(which('series')); |
---|
1376 | |
---|
1377 | %% create the Action fct handle if RunMode option = 'local' |
---|
1378 | if strcmp(RunMode,'local') |
---|
1379 | if ~isequal(ActionPath,path_series) |
---|
1380 | eval(['spath=which(''' ActionName ''');']) %spath = current path of the selected function ACTION |
---|
1381 | if ~exist(ActionPath,'dir') |
---|
1382 | msgbox_uvmat('ERROR',['The prescribed function path ' ActionPath ' does not exist']); |
---|
1383 | return |
---|
1384 | end |
---|
1385 | if ~isequal(spath,ActionPath) |
---|
1386 | addpath(ActionPath)% add the prescribed path if not the current one |
---|
1387 | end |
---|
1388 | end |
---|
1389 | eval(['h_fun=@' ActionName ';'])%create a function handle for ACTION |
---|
1390 | if ~isequal(ActionPath,path_series) |
---|
1391 | rmpath(ActionPath)% add the prescribed path if not the current one |
---|
1392 | end |
---|
1393 | end |
---|
1394 | |
---|
1395 | %% Get RunTime code from the file PARAM.xml (needed to run compiled functions) |
---|
1396 | errormsg='';%default error message |
---|
1397 | xmlfile=fullfile(path_series,'PARAM.xml'); |
---|
1398 | test_batch=0;%default: ,no batch mode available |
---|
1399 | if ~exist(xmlfile,'file') |
---|
1400 | [success,message]=copyfile(fullfile(path_series,'PARAM.xml.default'),xmlfile); |
---|
1401 | end |
---|
1402 | RunTime=''; |
---|
1403 | if strcmp(ActionExt,'.sh') |
---|
1404 | if exist(xmlfile,'file') |
---|
1405 | s=xml2struct(xmlfile); |
---|
1406 | if strcmp(RunMode,'cluster_oar') && isfield(s,'BatchParam') |
---|
1407 | if isfield(s.BatchParam,'RunTime') |
---|
1408 | RunTime=s.BatchParam.RunTime; |
---|
1409 | end |
---|
1410 | if isfield(s.BatchParam,'NbCore') |
---|
1411 | NbCore=s.BatchParam.NbCore; |
---|
1412 | end |
---|
1413 | elseif (strcmp(RunMode,'background')||strcmp(RunMode,'local')) && isfield(s,'RunParam') |
---|
1414 | if isfield(s.RunParam,'RunTime') |
---|
1415 | RunTime=s.RunParam.RunTime; |
---|
1416 | end |
---|
1417 | if isfield(s.RunParam,'NbCore') |
---|
1418 | NbCore=s.RunParam.NbCore; |
---|
1419 | end |
---|
1420 | end |
---|
1421 | end |
---|
1422 | if isempty(RunTime) && strcmp(RunMode,'cluster_oar') |
---|
1423 | msgbox_uvmat('ERROR','RunTime name not found in PARAM.xml, compiled version .sh cannot run on cluster') |
---|
1424 | return |
---|
1425 | end |
---|
1426 | % Series.RunTime=RunTime; |
---|
1427 | end |
---|
1428 | |
---|
1429 | %% set nbre of cluster cores and processes |
---|
1430 | switch RunMode |
---|
1431 | case {'local','background'} |
---|
1432 | NbCore=1;% no need to split the calculation |
---|
1433 | case 'cluster_oar' |
---|
1434 | if strcmp(Series.Action.ActionExt,'.m')% case of Matlab function (uncompiled) |
---|
1435 | NbCore=1;% one core used only (limitation of Matlab licences) |
---|
1436 | msgbox_uvmat('WARNING','Number of cores =1: select the compiled version civ_matlab.sh for multi-core processing'); |
---|
1437 | extra_oar=''; |
---|
1438 | else |
---|
1439 | answer=inputdlg({'Number of cores (max 36)','extra oar options'},'oarsub parameter',1,{'12',''}); |
---|
1440 | NbCore=str2double(answer{1}); |
---|
1441 | extra_oar=answer{2}; |
---|
1442 | end |
---|
1443 | end |
---|
1444 | if ~isfield(Series.IndexRange,'NbSlice') |
---|
1445 | Series.IndexRange.NbSlice=[]; |
---|
1446 | end |
---|
1447 | if isempty(Series.IndexRange.NbSlice) |
---|
1448 | NbProcess=NbCore;% choose one process per core |
---|
1449 | else |
---|
1450 | NbProcess=Series.IndexRange.NbSlice;% the nbre of run processes is equal to the number of slices |
---|
1451 | NbCore=min(NbCore,NbProcess);% at least one process per core |
---|
1452 | end |
---|
1453 | |
---|
1454 | |
---|
1455 | %% read index ranges |
---|
1456 | [first_i,incr_i,last_i,first_j,incr_j,last_j,errormsg]=get_index_range(Series.IndexRange); |
---|
1457 | if ~isempty(errormsg) |
---|
1458 | msgbox_uvmat('ERROR',['series/Run_Callback/get_index_range' errormsg]) |
---|
1459 | set(handles.RUN, 'Enable','On'), |
---|
1460 | set(handles.RUN,'BackgroundColor',[1 0 0]) |
---|
1461 | return |
---|
1462 | else |
---|
1463 | BlockLength=ceil(numel(first_i:incr_i:last_i)/NbProcess); |
---|
1464 | end |
---|
1465 | nbfield_j=numel(first_j:incr_j:last_j); |
---|
1466 | |
---|
1467 | %% record nbre of output files and starting time for computation for status |
---|
1468 | StatusData=get(handles.status,'UserData'); |
---|
1469 | if isfield(StatusData,'OutputFileMode') |
---|
1470 | switch StatusData.OutputFileMode |
---|
1471 | case 'NbInput' |
---|
1472 | StatusData.NbOutputFile=numel(first_i:incr_i:last_i)*numel(first_j:incr_j:last_j); |
---|
1473 | case 'NbInput_i' |
---|
1474 | StatusData.NbOutputFile=numel(first_i:incr_i:last_i); |
---|
1475 | case 'NbSlice' |
---|
1476 | StatusData.NbOutputFile=str2num(get(handles.num_NbSlice,'String')); |
---|
1477 | end |
---|
1478 | end |
---|
1479 | StatusData.TimeStart=now; |
---|
1480 | set(handles.status,'UserData',StatusData) |
---|
1481 | |
---|
1482 | %% direct processing on the current Matlab session |
---|
1483 | if strcmp (RunMode,'local') |
---|
1484 | Series.RUNHandle=handles.RUN; |
---|
1485 | Series.WaitbarHandle=handles.Waitbar; |
---|
1486 | for iprocess=1:NbProcess |
---|
1487 | if isempty(Series.IndexRange.NbSlice) |
---|
1488 | Series.IndexRange.first_i=first_i+(iprocess-1)*BlockLength*incr_i; |
---|
1489 | if Series.IndexRange.first_i>last_i |
---|
1490 | break |
---|
1491 | end |
---|
1492 | Series.IndexRange.last_i=min(first_i+(iprocess)*BlockLength*incr_i-1,last_i); |
---|
1493 | else |
---|
1494 | Series.IndexRange.first_i= first_i+incr_i*(iprocess-1); |
---|
1495 | Series.IndexRange.incr_i=incr_i*Series.IndexRange.NbSlice; |
---|
1496 | end |
---|
1497 | t=struct2xml(Series); |
---|
1498 | t=set(t,1,'name','Series'); |
---|
1499 | filexml=fullfile_uvmat(DirXml,'',Series.InputTable{1,3},'.xml',OutputNomType,... |
---|
1500 | Series.IndexRange.first_i,Series.IndexRange.last_i,first_j,last_j); |
---|
1501 | save(t,filexml); |
---|
1502 | switch ActionExt |
---|
1503 | case '.m' |
---|
1504 | h_fun(Series); |
---|
1505 | case '.sh' |
---|
1506 | switch computer |
---|
1507 | case {'PCWIN','PCWIN64'} %Windows system |
---|
1508 | filexml=regexprep(filexml,'\\','\\\\');% add '\' so that '\' are left as characters |
---|
1509 | system([fullfile(ActionPath,[ActionName '.sh']) ' ' RunTime ' ' filexml]);% TODO: adapt to DOS system |
---|
1510 | case {'GLNX86','GLNXA64','MACI64'}%Linux system |
---|
1511 | system([fullfile(ActionPath,[ActionName '.sh']) ' ' RunTime ' ' filexml]); |
---|
1512 | end |
---|
1513 | end |
---|
1514 | end |
---|
1515 | elseif strcmp(get(handles.OutputDirExt,'Visible'),'off') |
---|
1516 | msgbox_uvmat('ERROR',['no output file for Action ' ActionName ', use run mode = local']);% a output dir is needed for background option |
---|
1517 | return |
---|
1518 | else |
---|
1519 | %% processing on a different session of the same computer (background) or cluster, create executable files |
---|
1520 | batch_file_list=cell(NbProcess,1);% initiate the list of executable files |
---|
1521 | DirBat=fullfile(OutputDir,'0_BAT'); |
---|
1522 | %create subdirectory for executable files |
---|
1523 | if ~exist(DirBat,'dir') |
---|
1524 | [tild,msg1]=mkdir(DirBat); |
---|
1525 | if ~strcmp(msg1,'') |
---|
1526 | msgbox_uvmat('ERROR',['cannot create ' DirBat ': ' msg1]);%error message for directory creation |
---|
1527 | return |
---|
1528 | end |
---|
1529 | end |
---|
1530 | %create subdirectory for log files |
---|
1531 | DirLog=fullfile(OutputDir,'0_LOG'); |
---|
1532 | if ~exist(DirLog,'dir') |
---|
1533 | [tild,msg1]=mkdir(DirLog); |
---|
1534 | if ~strcmp(msg1,'') |
---|
1535 | msgbox_uvmat('ERROR',['cannot create ' DirLog ': ' msg1]);%error message for directory creation |
---|
1536 | return |
---|
1537 | end |
---|
1538 | end |
---|
1539 | for iprocess=1:NbProcess |
---|
1540 | if isempty(Series.IndexRange.NbSlice)% process by blocks of i index |
---|
1541 | Series.IndexRange.first_i=first_i+(iprocess-1)*BlockLength*incr_i; |
---|
1542 | if Series.IndexRange.first_i>last_i |
---|
1543 | NbProcess=iprocess-1; |
---|
1544 | break% leave the loop, we are at the end of the calculation |
---|
1545 | end |
---|
1546 | Series.IndexRange.last_i=min(last_i,first_i+(iprocess)*BlockLength*incr_i-1); |
---|
1547 | else% process by slices of i index if NbSlice is defined, computation in a single process if NbSlice =1 |
---|
1548 | Series.IndexRange.first_i= first_i+iprocess-1; |
---|
1549 | Series.IndexRange.incr_i=incr_i*Series.IndexRange.NbSlice; |
---|
1550 | end |
---|
1551 | |
---|
1552 | % create, fill and save the xml parameter file |
---|
1553 | t=struct2xml(Series); |
---|
1554 | t=set(t,1,'name','Series'); |
---|
1555 | filexml=fullfile_uvmat(DirXml,'',Series.InputTable{1,3},'.xml',OutputNomType,... |
---|
1556 | Series.IndexRange.first_i,Series.IndexRange.last_i,first_j,last_j); |
---|
1557 | save(t,filexml);% save the parameter file |
---|
1558 | |
---|
1559 | %create the executable file |
---|
1560 | % filebat=fullfile_uvmat(DirBat,'',Series.InputTable{1,3},'.bat',OutputNomType,... |
---|
1561 | % Series.IndexRange.first_i,Series.IndexRange.last_i,first_j,last_j); |
---|
1562 | filebat=fullfile_uvmat(DirBat,'',Series.InputTable{1,3},'.sh',OutputNomType,... |
---|
1563 | Series.IndexRange.first_i,Series.IndexRange.last_i,first_j,last_j); |
---|
1564 | batch_file_list{iprocess}=filebat; |
---|
1565 | [fid,message]=fopen(filebat,'w');% create the executable file |
---|
1566 | if isequal(fid,-1) |
---|
1567 | msgbox_uvmat('ERROR', ['creation of .bat file: ' message]); |
---|
1568 | return |
---|
1569 | end |
---|
1570 | |
---|
1571 | % set the log file name |
---|
1572 | filelog=fullfile_uvmat(DirLog,'',Series.InputTable{1,3},'.log',OutputNomType,... |
---|
1573 | Series.IndexRange.first_i,Series.IndexRange.last_i,first_j,last_j); |
---|
1574 | |
---|
1575 | % fill and save the executable file |
---|
1576 | switch ActionExt |
---|
1577 | case '.m'% Matlab function |
---|
1578 | switch computer |
---|
1579 | case {'GLNX86','GLNXA64','MACI64'} |
---|
1580 | cmd=[... |
---|
1581 | '#!/bin/bash \n'... |
---|
1582 | '. /etc/sysprofile \n'... |
---|
1583 | 'matlab -nodisplay -nosplash -nojvm -logfile ''' filelog ''' <<END_MATLAB \n'... |
---|
1584 | 'addpath(''' path_series '''); \n'... |
---|
1585 | 'addpath(''' Series.Action.ActionPath '''); \n'... |
---|
1586 | '' Series.Action.ActionName '( ''' filexml '''); \n'... |
---|
1587 | 'exit \n'... |
---|
1588 | 'END_MATLAB \n']; |
---|
1589 | fprintf(fid,cmd);%fill the executable file with the char string cmd |
---|
1590 | fclose(fid);% close the executable file |
---|
1591 | system(['chmod +x ' filebat]);% set the file to executable |
---|
1592 | case {'PCWIN','PCWIN64'} |
---|
1593 | text_matlabscript=['matlab -automation -logfile ' regexprep(filelog,'\\','\\\\')... |
---|
1594 | ' -r "addpath(''' regexprep(path_series,'\\','\\\\') ''');'... |
---|
1595 | 'addpath(''' regexprep(Series.Action.ActionPath,'\\','\\\\') ''');'... |
---|
1596 | '' Series.Action.ActionName '( ''' regexprep(filexml,'\\','\\\\') ''');exit"']; |
---|
1597 | fprintf(fid,text_matlabscript);%fill the executable file with the char string cmd |
---|
1598 | fclose(fid);% close the executable file |
---|
1599 | end |
---|
1600 | case '.sh' % compiled Matlab function |
---|
1601 | switch computer |
---|
1602 | case {'GLNX86','GLNXA64','MACI64'} |
---|
1603 | cmd=['#!/bin/bash \n '... |
---|
1604 | '#$ -cwd \n '... |
---|
1605 | 'hostname && date \n '... |
---|
1606 | 'umask 002 \n'... |
---|
1607 | fullfile(ActionPath,[ActionName '.sh']) ' ' RunTime ' ' filexml];%allow writting access to created files for user group |
---|
1608 | fprintf(fid,cmd);%fill the executable file with the char string cmd |
---|
1609 | fclose(fid);% close the executable file |
---|
1610 | system(['chmod +x ' filebat]);% set the file to executable |
---|
1611 | |
---|
1612 | case {'PCWIN','PCWIN64'} % TODO: adapt to Windows system |
---|
1613 | % cmd=['matlab -automation -logfile ' regexprep(filelog,'\\','\\\\')... |
---|
1614 | % ' -r "addpath(''' regexprep(path_series,'\\','\\\\') ''');'... |
---|
1615 | % 'addpath(''' regexprep(Series.Action.ActionPath,'\\','\\\\') ''');'... |
---|
1616 | % '' Series.Action.ActionName '( ''' regexprep(filexml,'\\','\\\\') ''');exit"']; |
---|
1617 | fprintf(fid,cmd); |
---|
1618 | fclose(fid); |
---|
1619 | % dos([filebat ' &']); |
---|
1620 | end |
---|
1621 | end |
---|
1622 | end |
---|
1623 | end |
---|
1624 | |
---|
1625 | %% launch the executable files for background or cluster processing |
---|
1626 | switch RunMode |
---|
1627 | case 'background' |
---|
1628 | for iprocess=1:NbProcess |
---|
1629 | system([batch_file_list{iprocess} ' &'])% directly execute the command file for each process |
---|
1630 | end |
---|
1631 | case 'cluster_oar' % option 'oar-parexec' used |
---|
1632 | %create subdirectory for oar command and log files |
---|
1633 | DirOAR=fullfile(OutputDir,'0_OAR'); |
---|
1634 | if ~exist(DirOAR,'dir') |
---|
1635 | [tild,msg1]=mkdir(DirOAR); |
---|
1636 | if ~strcmp(msg1,'') |
---|
1637 | msgbox_uvmat('ERROR',['cannot create ' DirOAR ': ' msg1]);%error message for directory creation |
---|
1638 | return |
---|
1639 | end |
---|
1640 | end |
---|
1641 | max_walltime=3600*12; % 12h max total calculation |
---|
1642 | walltime_onejob=600;%seconds, max estimated time for asingle file index value |
---|
1643 | filename_joblist=fullfile(DirOAR,'job_list.txt');%create name of the global executable file |
---|
1644 | fid=fopen(filename_joblist,'w'); |
---|
1645 | for p=1:length(batch_file_list) |
---|
1646 | fprintf(fid,[batch_file_list{p} '\n']);% list of exe files |
---|
1647 | end |
---|
1648 | fclose(fid); |
---|
1649 | system(['chmod +x ' filename_joblist]);% set the file to executable |
---|
1650 | oar_command=['oarsub -n CIVX '... |
---|
1651 | '-t idempotent --checkpoint ' num2str(walltime_onejob+60) ' '... |
---|
1652 | '-l /core=' num2str(NbCore) ','... |
---|
1653 | 'walltime=' datestr(min(1.05*walltime_onejob/86400*max(NbProcess*BlockLength*nbfield_j,NbCore)/NbCore,max_walltime/86400),13) ' '... |
---|
1654 | '-E ' regexprep(filename_joblist,'\.txt\>','.stderr') ' '... |
---|
1655 | '-O ' regexprep(filename_joblist,'\.txt\>','.stdout') ' '... |
---|
1656 | extra_oar ' '... |
---|
1657 | '"oar-parexec -s -f ' filename_joblist ' '... |
---|
1658 | '-l ' filename_joblist '.log"\n']; |
---|
1659 | filename_oarcommand=fullfile(DirOAR,'oar_command'); |
---|
1660 | fid=fopen(filename_oarcommand,'w'); |
---|
1661 | fprintf(fid,oar_command); |
---|
1662 | fclose(fid); |
---|
1663 | fprintf(oar_command);% display in command line |
---|
1664 | %system(['chmod +x ' oar_command]);% set the file to executable |
---|
1665 | system(oar_command); |
---|
1666 | end |
---|
1667 | |
---|
1668 | %% reset the GUI series |
---|
1669 | update_waitbar(handles.Waitbar,1); % put the waitbar to end position to indicate launching is finished |
---|
1670 | set(handles.RUN, 'Enable','On') |
---|
1671 | set(handles.RUN,'BackgroundColor',[1 0 0]) |
---|
1672 | set(handles.RUN, 'Value',0) |
---|
1673 | |
---|
1674 | %------------------------------------------------------------------------ |
---|
1675 | function STOP_Callback(hObject, eventdata, handles) |
---|
1676 | %------------------------------------------------------------------------ |
---|
1677 | set(handles.RUN, 'BusyAction','cancel') |
---|
1678 | set(handles.RUN,'BackgroundColor',[1 0 0]) |
---|
1679 | set(handles.RUN,'enable','on') |
---|
1680 | set(handles.RUN, 'Value',0) |
---|
1681 | |
---|
1682 | % %------------------------------------------------------------------------ |
---|
1683 | % % --- Executes on button press in BIN. |
---|
1684 | % function BIN_Callback(hObject, eventdata, handles) |
---|
1685 | % %------------------------------------------------------------------------ |
---|
1686 | % cmd=['#!/bin/bash \n '... |
---|
1687 | % '#$ -cwd \n '... |
---|
1688 | % 'hostname && date \n '... |
---|
1689 | % 'umask 002 \n'... |
---|
1690 | % Param.xml.CivmBin ' ' Param.xml.RunTime ' ' filename_xml ' ' OutputFile '.nc']; |
---|
1691 | % |
---|
1692 | %------------------------------------------------------------------------ |
---|
1693 | % --- Main launch command, called by RUN and BATCH |
---|
1694 | |
---|
1695 | function [Series,OutputDir,errormsg]=prepare_jobs(handles) |
---|
1696 | %INPUT: |
---|
1697 | % handles: handles of graphic objects on the GUI series |
---|
1698 | |
---|
1699 | %------------------------------------------------------------------------ |
---|
1700 | OutputDir=''; |
---|
1701 | errormsg=''; |
---|
1702 | |
---|
1703 | %% Read parameters from series |
---|
1704 | Series=read_GUI(handles.series); |
---|
1705 | |
---|
1706 | %% get_field GUI |
---|
1707 | % if isfield(Series,'InputFields')&&isfield(Series.InputFields,'Field') |
---|
1708 | % if strcmp(Series.InputFields.Field,'get_field...') |
---|
1709 | % hget_field=findobj(allchild(0),'name','get_field'); |
---|
1710 | % Series.GetField=read_GUI(hget_field); |
---|
1711 | % end |
---|
1712 | % end |
---|
1713 | |
---|
1714 | %% create the output data directory |
---|
1715 | %determine the root file corresponding to the first sub dir |
---|
1716 | if get(handles.RUN,'value') && isfield(Series,'OutputSubDir') |
---|
1717 | SubDirOut=[get(handles.OutputSubDir,'String') Series.OutputDirExt]; |
---|
1718 | SubDirOutNew=SubDirOut; |
---|
1719 | SeriesData=get(handles.series,'UserData'); |
---|
1720 | if size(Series.InputTable,1)>1 && isfield(SeriesData,'AllowInputSort') && SeriesData.AllowInputSort |
---|
1721 | [tild,iview]=sort(Series.InputTable(:,2)); %subdirectories sorted in alphabetical order |
---|
1722 | Series.InputTable=Series.InputTable(iview,:); |
---|
1723 | end |
---|
1724 | detect=exist(fullfile(Series.InputTable{1,1},SubDirOutNew),'dir');% test if the dir already exist |
---|
1725 | check_create=1; %need to create the result directory by default |
---|
1726 | while detect |
---|
1727 | answer=msgbox_uvmat('INPUT_Y-N',['use existing ouput directory: ' fullfile(Series.InputTable{1,1},SubDirOutNew) ', possibly delete previous data']); |
---|
1728 | if strcmp(answer,'Cancel') |
---|
1729 | errormsg='Cancel'; |
---|
1730 | return |
---|
1731 | elseif strcmp(answer,'Yes') |
---|
1732 | detect=0; |
---|
1733 | check_create=0; |
---|
1734 | else |
---|
1735 | r=regexp(SubDirOutNew,'(?<root>.*\D)(?<num1>\d+)$','names');%detect whether name ends by a number |
---|
1736 | if isempty(r) |
---|
1737 | r(1).root=[SubDirOutNew '_']; |
---|
1738 | r(1).num1='0'; |
---|
1739 | end |
---|
1740 | SubDirOutNew=[r(1).root num2str(str2num(r(1).num1)+1)];%increment the index by 1 or put 1 |
---|
1741 | detect=exist(fullfile(Series.InputTable{1,1},SubDirOutNew),'dir');% test if the dir already exists |
---|
1742 | check_create=1; |
---|
1743 | end |
---|
1744 | end |
---|
1745 | Series.OutputDirExt=regexprep(SubDirOutNew,Series.OutputSubDir,''); |
---|
1746 | Series.OutputRootFile=Series.InputTable{1,3};% the first sorted RootFile taken for output |
---|
1747 | set(handles.OutputDirExt,'String',Series.OutputDirExt) |
---|
1748 | OutputDir=fullfile(Series.InputTable{1,1},[Series.OutputSubDir Series.OutputDirExt]);% full name (with path) of output directory |
---|
1749 | if check_create % create output directory if it does not exist |
---|
1750 | [tild,msg1]=mkdir(OutputDir); |
---|
1751 | if ~strcmp(msg1,'') |
---|
1752 | errormsg=['cannot create ' OutputDir ': ' msg1];%error message for directory creation |
---|
1753 | return |
---|
1754 | end |
---|
1755 | end |
---|
1756 | % RootOut=fullfile(OutputDir,Series.InputTable{1,3});% name of the parameter xml file set in this directory |
---|
1757 | end |
---|
1758 | |
---|
1759 | %% removes unused information on Series |
---|
1760 | if isfield(Series,'Pairs') |
---|
1761 | Series=rmfield(Series,'Pairs'); %info Pairs not needed for output |
---|
1762 | end |
---|
1763 | Series.IndexRange=rmfield(Series.IndexRange,'TimeTable'); |
---|
1764 | % Series.IndexRange=rmfield(Series.IndexRange,'MinIndex'); |
---|
1765 | % Series.IndexRange=rmfield(Series.IndexRange,'MaxIndex'); |
---|
1766 | empty_line=false(size(Series.InputTable,1),1); |
---|
1767 | for iline=1:size(Series.InputTable,1) |
---|
1768 | empty_line(iline)=isequal(Series.InputTable(iline,1:3),{'','',''}); |
---|
1769 | end |
---|
1770 | Series.InputTable(empty_line,:)=[]; |
---|
1771 | |
---|
1772 | %------------------------------------------------------------------------ |
---|
1773 | % --- Executes on selection change in ActionName. |
---|
1774 | function ActionName_Callback(hObject, eventdata, handles) |
---|
1775 | %------------------------------------------------------------------------ |
---|
1776 | %% stop any ongoing series processing |
---|
1777 | if isequal(get(handles.RUN,'Value'),1) |
---|
1778 | answer= msgbox_uvmat('INPUT_Y-N','stop current Action process?'); |
---|
1779 | if strcmp(answer,'Yes') |
---|
1780 | STOP_Callback(hObject, eventdata, handles) |
---|
1781 | else |
---|
1782 | return |
---|
1783 | end |
---|
1784 | end |
---|
1785 | set(handles.ActionName,'BackgroundColor',[1 1 0]) |
---|
1786 | drawnow |
---|
1787 | |
---|
1788 | %% get Action name and path |
---|
1789 | nb_builtin_ACTION=4; %nbre of functions initially proposed in the menu ActionName (as defined in the Opening fct of series) |
---|
1790 | ActionList=get(handles.ActionName,'String');% list menu fields |
---|
1791 | ActionIndex=get(handles.ActionName,'Value'); |
---|
1792 | if ~isequal(ActionIndex,1) |
---|
1793 | InputTable=get(handles.InputTable,'Data'); |
---|
1794 | if isempty(InputTable{1,4}) |
---|
1795 | msgbox_uvmat('ERROR','no input file available: use Open in the menu bar') |
---|
1796 | return |
---|
1797 | end |
---|
1798 | end |
---|
1799 | ActionName= ActionList{get(handles.ActionName,'Value')}; % selected function name |
---|
1800 | ActionPathList=get(handles.ActionName,'UserData');%list of recorded paths to functions of the list ActionName |
---|
1801 | |
---|
1802 | %% add a new function to the menu if 'more...' has been selected in the menu ActionName |
---|
1803 | if isequal(ActionName,'more...') |
---|
1804 | [FileName, PathName] = uigetfile( ... |
---|
1805 | {'*.m', ' (*.m)'; |
---|
1806 | '*.m', '.m files '; ... |
---|
1807 | '*.*', 'All Files (*.*)'}, ... |
---|
1808 | 'Pick a series processing function ',get(handles.ActionPath,'String')); |
---|
1809 | if length(FileName)<2 |
---|
1810 | return |
---|
1811 | end |
---|
1812 | [ActionPath,ActionName,ActionExt]=fileparts(FileName); |
---|
1813 | |
---|
1814 | % insert the choice in the menu ActionName |
---|
1815 | ActionIndex=find(strcmp(ActionName,ActionList),1);% look for the selected function in the menu Action |
---|
1816 | if isempty(ActionIndex)%the input string does not exist in the menu |
---|
1817 | ActionIndex= length(ActionList); |
---|
1818 | ActionList=[ActionList(1:end-1);{ActionName};ActionList(end)];% the selected function is appended in the menu, before the last item 'more...' |
---|
1819 | set(handles.ActionName,'String',ActionList) |
---|
1820 | end |
---|
1821 | |
---|
1822 | % record the file extension and extend the path list if it is a new extension |
---|
1823 | ActionExtList=get(handles.ActionExt,'String'); |
---|
1824 | ActionExtIndex=find(strcmp(ActionExt,ActionExtList), 1); |
---|
1825 | if isempty(ActionExtIndex) |
---|
1826 | set(handles.ActionExt,'String',[ActionExtList;{ActionExt}]) |
---|
1827 | ActionExtIndex=numel(ActionExtList)+1; |
---|
1828 | ActionPathNew=cell(size(ActionPathList,1),1);%new column of ActionPath |
---|
1829 | ActionPathList=[ActionPathList ActionPathNew]; |
---|
1830 | end |
---|
1831 | set(handles.ActionName,'UserData',ActionPathList); |
---|
1832 | |
---|
1833 | % remove old Action options in the menu (keeping a menu length <nb_builtin_ACTION+5) |
---|
1834 | if length(ActionList)>nb_builtin_ACTION+5; %nb_builtin=nbre of functions always remaining in the initial menu |
---|
1835 | nbremove=length(ActionList)-nb_builtin_ACTION-5; |
---|
1836 | ActionList(nb_builtin_ACTION+1:end-5)=[]; |
---|
1837 | ActionPathList(nb_builtin_ACTION+1:end-4,:)=[]; |
---|
1838 | ActionIndex=ActionIndex-nbremove; |
---|
1839 | end |
---|
1840 | |
---|
1841 | % record action menu, choice and path |
---|
1842 | set(handles.ActionName,'Value',ActionIndex) |
---|
1843 | set(handles.ActionName,'String',ActionList) |
---|
1844 | set(handles.ActionExt,'Value',ActionExtIndex) |
---|
1845 | ActionPathList{ActionIndex,ActionExtIndex}=PathName; |
---|
1846 | |
---|
1847 | %record the user defined menu additions in personal file profil_perso |
---|
1848 | dir_perso=prefdir; |
---|
1849 | profil_perso=fullfile(dir_perso,'uvmat_perso.mat'); |
---|
1850 | if nb_builtin_ACTION+1<=numel(ActionList)-1 |
---|
1851 | ActionListUser=ActionList(nb_builtin_ACTION+1:numel(ActionList)-1); |
---|
1852 | ActionPathListUser=ActionPathList(nb_builtin_ACTION+1:numel(ActionList)-1,:); |
---|
1853 | ActionExtListUser={}; |
---|
1854 | if numel(ActionExtList)>2 |
---|
1855 | ActionExtListUser=ActionExtList(3:end); |
---|
1856 | end |
---|
1857 | if exist(profil_perso,'file') |
---|
1858 | save(profil_perso,'ActionListUser','ActionPathListUser','ActionExtListUser','-append') |
---|
1859 | else |
---|
1860 | save(profil_perso,'ActionListUser','ActionPathListUser','ActionExtListUser','-V6') |
---|
1861 | end |
---|
1862 | end |
---|
1863 | end |
---|
1864 | |
---|
1865 | %% check the current ActionPath to the selected function |
---|
1866 | ActionPath=ActionPathList{ActionIndex};%current recorded path |
---|
1867 | set(handles.ActionPath,'String',ActionPath); %show the path to the senlected function |
---|
1868 | |
---|
1869 | %% reinitialise the waitbar |
---|
1870 | update_waitbar(handles.Waitbar,0) |
---|
1871 | |
---|
1872 | %% default setting for the visibility of the GUI elements |
---|
1873 | % set(handles.FieldTransform,'Visible','off') |
---|
1874 | % set(handles.CheckObject,'Visible','off'); |
---|
1875 | % set(handles.ProjObject,'Visible','off'); |
---|
1876 | % set(handles.CheckMask,'Visible','off') |
---|
1877 | % set(handles.Mask,'Visible','off') |
---|
1878 | |
---|
1879 | %% create the function handle for Action |
---|
1880 | path_series=which('series'); |
---|
1881 | if ~isequal(ActionPath,path_series) |
---|
1882 | eval(['spath=which(''' ActionName ''');']) %spath = current path of the selected function ACTION |
---|
1883 | if ~exist(ActionPath,'dir') |
---|
1884 | errormsg=['The prescribed function path ' ActionPath ' does not exist']; |
---|
1885 | return |
---|
1886 | end |
---|
1887 | if ~isequal(spath,ActionPath) |
---|
1888 | addpath(ActionPath)% add the prescribed path if not the current one |
---|
1889 | end |
---|
1890 | end |
---|
1891 | eval(['h_fun=@' ActionName ';'])%create a function handle for ACTION |
---|
1892 | if ~isequal(ActionPath,path_series) |
---|
1893 | rmpath(ActionPath)% add the prescribed path if not the current one |
---|
1894 | end |
---|
1895 | |
---|
1896 | %% Activate the Action fct |
---|
1897 | [Series,tild,errormsg]=prepare_jobs(handles);% read the parameters from the GUI series |
---|
1898 | if ~isempty(errormsg) |
---|
1899 | if ~strcmp(errormsg,'Cancel') |
---|
1900 | msgbox_uvmat('ERROR',errormsg) |
---|
1901 | end |
---|
1902 | return |
---|
1903 | end |
---|
1904 | ParamOut=h_fun(Series); |
---|
1905 | |
---|
1906 | %% Put the first line of the selected Action fct as tooltip help |
---|
1907 | try |
---|
1908 | [fid,errormsg] =fopen([ActionName '.m']); |
---|
1909 | InputText=textscan(fid,'%s',1,'delimiter','\n'); |
---|
1910 | fclose(fid); |
---|
1911 | set(handles.ActionName,'ToolTipString',InputText{1}{1})% put the first line of the selected function as tooltip help |
---|
1912 | end |
---|
1913 | |
---|
1914 | %% Detect the types of input files |
---|
1915 | SeriesData=get(handles.series,'UserData'); |
---|
1916 | nb_civ=0;nb_netcdf=0; |
---|
1917 | if ~isempty(SeriesData) |
---|
1918 | nb_civ=numel(find(strcmp('civx',SeriesData.FileType)|strcmp('civdata',SeriesData.FileType))); |
---|
1919 | nb_netcdf=numel(find(strcmp('netcdf',SeriesData.FileType))); |
---|
1920 | end |
---|
1921 | |
---|
1922 | %% Check whether alphabetical sorting of input Subdir is alowed by the Action fct (for multiples series entries) |
---|
1923 | SeriesData.AllowInputSort=0;%default |
---|
1924 | if isfield(ParamOut,'AllowInputSort')&&isequal(ParamOut.AllowInputSort,'on') |
---|
1925 | SeriesData.AllowInputSort=1; |
---|
1926 | end |
---|
1927 | |
---|
1928 | %% Impose the whole input file index range if requested |
---|
1929 | if isfield(ParamOut,'WholeIndexRange')&&isequal(ParamOut.WholeIndexRange,'on') |
---|
1930 | MinIndex=get(handles.MinIndex,'Data'); |
---|
1931 | MaxIndex=get(handles.MaxIndex,'Data'); |
---|
1932 | if ~isempty(MinIndex) |
---|
1933 | set(handles.num_first_i,'String',num2str(MinIndex{1})) |
---|
1934 | set(handles.num_last_i,'String',num2str(MaxIndex{1})) |
---|
1935 | set(handles.num_incr_i,'String','1') |
---|
1936 | if size(MinIndex,2)>=2 |
---|
1937 | set(handles.num_first_j,'String',num2str(MinIndex{1,2})) |
---|
1938 | set(handles.num_last_j,'String',num2str(MaxIndex{1,2})) |
---|
1939 | set(handles.num_incr_j,'String','1') |
---|
1940 | end |
---|
1941 | end |
---|
1942 | else |
---|
1943 | % check index ranges |
---|
1944 | first_i=1;last_i=1;first_j=1;last_j=1; |
---|
1945 | if isfield(Series.IndexRange,'first_i') |
---|
1946 | first_i=Series.IndexRange.first_i; |
---|
1947 | incr_i=Series.IndexRange.incr_i; |
---|
1948 | last_i=Series.IndexRange.last_i; |
---|
1949 | end |
---|
1950 | if isfield(Series.IndexRange,'first_j') |
---|
1951 | first_j=Series.IndexRange.first_j; |
---|
1952 | incr_j=Series.IndexRange.incr_j; |
---|
1953 | last_j=Series.IndexRange.last_j; |
---|
1954 | end |
---|
1955 | if last_i < first_i || last_j < first_j , msgbox_uvmat('ERROR','last field number must be larger than the first one'),... |
---|
1956 | set(handles.RUN, 'Enable','On'), set(handles.RUN,'BackgroundColor',[1 0 0]),return,end; |
---|
1957 | end |
---|
1958 | |
---|
1959 | %% NbSlice visibility |
---|
1960 | NbSliceVisible='off';%default |
---|
1961 | if isfield(ParamOut,'NbSlice') && isequal(ParamOut.NbSlice,'on') |
---|
1962 | NbSliceVisible='on'; |
---|
1963 | set(handles.num_NbProcess,'String',get(handles.num_NbSlice,'String'))% the nbre of processes is imposed as the nbre of slices |
---|
1964 | else |
---|
1965 | set(handles.num_NbProcess,'String','')% free nbre of processes |
---|
1966 | end |
---|
1967 | set(handles.num_NbSlice,'Visible',NbSliceVisible) |
---|
1968 | set(handles.NbSlice_title,'Visible',NbSliceVisible) |
---|
1969 | |
---|
1970 | %% Visibility of VelType and VelType_1 menus |
---|
1971 | VelTypeVisible='off'; %hidden by default |
---|
1972 | VelType_1Visible='off'; |
---|
1973 | InputFieldsVisible='off';%visibility of the frame Fields |
---|
1974 | if isfield(ParamOut,'VelType') |
---|
1975 | if strcmp( ParamOut.VelType,'one')||strcmp( ParamOut.VelType,'two') |
---|
1976 | if nb_civ>=1 |
---|
1977 | VelTypeVisible='on'; |
---|
1978 | InputFieldsVisible='on'; |
---|
1979 | end |
---|
1980 | end |
---|
1981 | if strcmp( ParamOut.VelType,'two') |
---|
1982 | if nb_civ>=2 |
---|
1983 | VelType_1Visible='on'; |
---|
1984 | end |
---|
1985 | end |
---|
1986 | end |
---|
1987 | set(handles.VelType,'Visible',VelTypeVisible) |
---|
1988 | set(handles.VelType_text,'Visible',VelTypeVisible); |
---|
1989 | set(handles.VelType_1,'Visible',VelType_1Visible) |
---|
1990 | set(handles.VelType_text_1,'Visible',VelType_1Visible); |
---|
1991 | |
---|
1992 | %% Visibility of FieldName and FieldName_1 menus |
---|
1993 | FieldNameVisible='off'; %hidden by default |
---|
1994 | FieldName_1Visible='off'; %hidden by default |
---|
1995 | if isfield(ParamOut,'FieldName') |
---|
1996 | if strcmp( ParamOut.FieldName,'one')||strcmp( ParamOut.FieldName,'two') |
---|
1997 | if (nb_civ+nb_netcdf)>=1 |
---|
1998 | InputFieldsVisible='on'; |
---|
1999 | FieldNameVisible='on'; |
---|
2000 | end |
---|
2001 | end |
---|
2002 | if strcmp( ParamOut.FieldName,'two') |
---|
2003 | if (nb_civ+nb_netcdf)>=1 |
---|
2004 | FieldName_1Visible='on'; |
---|
2005 | end |
---|
2006 | end |
---|
2007 | end |
---|
2008 | set(handles.InputFields,'Visible',InputFieldsVisible) |
---|
2009 | set(handles.FieldName,'Visible',FieldNameVisible) % test for MenuBorser |
---|
2010 | set(handles.FieldName_1,'Visible',FieldName_1Visible) |
---|
2011 | |
---|
2012 | %% Visibility of FieldTransform menu |
---|
2013 | FieldTransformVisible='off'; %hidden by default |
---|
2014 | if isfield(ParamOut,'FieldTransform') |
---|
2015 | FieldTransformVisible=ParamOut.FieldTransform; |
---|
2016 | TransformName_Callback([],[], handles) |
---|
2017 | end |
---|
2018 | set(handles.FieldTransform,'Visible',FieldTransformVisible) |
---|
2019 | if isfield(ParamOut,'TransformPath') |
---|
2020 | set(handles.ActionExt,'UserData',ParamOut.TransformPath) |
---|
2021 | else |
---|
2022 | set(handles.ActionExt,'UserData',[]) |
---|
2023 | end |
---|
2024 | |
---|
2025 | %% Visibility of projection object |
---|
2026 | ProjObjectVisible='off'; %hidden by default |
---|
2027 | if isfield(ParamOut,'ProjObject') |
---|
2028 | ProjObjectVisible=ParamOut.ProjObject; |
---|
2029 | end |
---|
2030 | set(handles.CheckObject,'Visible',ProjObjectVisible) |
---|
2031 | if ~get(handles.CheckObject,'Value') |
---|
2032 | ProjObjectVisible='off'; |
---|
2033 | end |
---|
2034 | set(handles.ProjObject,'Visible',ProjObjectVisible) |
---|
2035 | set(handles.DeleteObject,'Visible',ProjObjectVisible) |
---|
2036 | set(handles.ViewObject,'Visible',ProjObjectVisible) |
---|
2037 | |
---|
2038 | |
---|
2039 | %% Visibility of mask input |
---|
2040 | MaskVisible='off'; %hidden by default |
---|
2041 | if isfield(ParamOut,'Mask') |
---|
2042 | MaskVisible=ParamOut.Mask; |
---|
2043 | end |
---|
2044 | set(handles.Mask,'Visible',MaskVisible) |
---|
2045 | set(handles.CheckMask,'Visible',MaskVisible); |
---|
2046 | |
---|
2047 | %% definition of the directory containing the output files |
---|
2048 | OutputDirVisible='off'; |
---|
2049 | if isfield(ParamOut,'OutputDirExt')&&~isempty(ParamOut.OutputDirExt) |
---|
2050 | set(handles.OutputDirExt,'String',ParamOut.OutputDirExt) |
---|
2051 | OutputDirVisible='on'; |
---|
2052 | end |
---|
2053 | set(handles.OutputDirExt,'Visible',OutputDirVisible) |
---|
2054 | set(handles.OutputSubDir,'Visible',OutputDirVisible) |
---|
2055 | set(handles.OutputDir_title,'Visible',OutputDirVisible) |
---|
2056 | set(handles.RunMode,'Visible',OutputDirVisible) |
---|
2057 | set(handles.ActionExt,'Visible',OutputDirVisible) |
---|
2058 | set(handles.RunMode_title,'Visible',OutputDirVisible) |
---|
2059 | set(handles.ActionExt_title,'Visible',OutputDirVisible) |
---|
2060 | |
---|
2061 | %% Expected nbre of output files |
---|
2062 | if isfield(ParamOut,'OutputFileMode') |
---|
2063 | StatusData.OutputFileMode=ParamOut.OutputFileMode; |
---|
2064 | set(handles.status,'UserData',StatusData) |
---|
2065 | end |
---|
2066 | |
---|
2067 | %% definition of an additional parameter set, determined by an ancillary GUI |
---|
2068 | if isfield(ParamOut,'ActionInput') |
---|
2069 | set(handles.ActionInput,'Visible','on') |
---|
2070 | set(handles.ActionInput_title,'Visible','on') |
---|
2071 | set(handles.ActionInputView,'Visible','on') |
---|
2072 | set(handles.ActionInputView,'Value',0) |
---|
2073 | set(handles.ActionInput,'String',ActionName) |
---|
2074 | ParamOut.ActionInput.Program=ActionName; % record the program in ActionInput |
---|
2075 | SeriesData.ActionInput=ParamOut.ActionInput; |
---|
2076 | else |
---|
2077 | set(handles.ActionInput,'Visible','off') |
---|
2078 | set(handles.ActionInput_title,'Visible','off') |
---|
2079 | set(handles.ActionInputView,'Visible','off') |
---|
2080 | if isfield(SeriesData,'ActionInput') |
---|
2081 | SeriesData=rmfield(SeriesData,'ActionInput'); |
---|
2082 | end |
---|
2083 | end |
---|
2084 | set(handles.series,'UserData',SeriesData) |
---|
2085 | set(handles.ActionName,'BackgroundColor',[1 1 1]) |
---|
2086 | |
---|
2087 | %------------------------------------------------------------------------ |
---|
2088 | % --- Executes on button press in ActionInputView. |
---|
2089 | function ActionInputView_Callback(hObject, eventdata, handles) |
---|
2090 | %------------------------------------------------------------------------ |
---|
2091 | if get(handles.ActionInputView,'Value') |
---|
2092 | ActionName_Callback(hObject, eventdata, handles) |
---|
2093 | end |
---|
2094 | |
---|
2095 | %------------------------------------------------------------------------ |
---|
2096 | % --- Executes on selection change in FieldName. |
---|
2097 | function FieldName_Callback(hObject, eventdata, handles) |
---|
2098 | %------------------------------------------------------------------------ |
---|
2099 | field_str=get(handles.FieldName,'String'); |
---|
2100 | field_index=get(handles.FieldName,'Value'); |
---|
2101 | field=field_str{field_index(1)}; |
---|
2102 | if isequal(field,'get_field...') |
---|
2103 | hget_field=findobj(allchild(0),'name','get_field'); |
---|
2104 | if ~isempty(hget_field) |
---|
2105 | delete(hget_field)%delete opened versions of get_field |
---|
2106 | end |
---|
2107 | Series=read_GUI(handles.series); |
---|
2108 | Series.InputTable=Series.InputTable(1,:); |
---|
2109 | filecell=get_file_series(Series); |
---|
2110 | if exist(filecell{1,1},'file') |
---|
2111 | GetFieldData=get_field(filecell{1,1}); |
---|
2112 | FieldList={}; |
---|
2113 | XName=GetFieldData.XVarName; |
---|
2114 | if GetFieldData.CheckVector |
---|
2115 | UName=GetFieldData.PanelVectors.vector_x; |
---|
2116 | VName=GetFieldData.PanelVectors.vector_y; |
---|
2117 | XName=GetFieldData.XVarName; |
---|
2118 | YName=GetFieldData.YVarName; |
---|
2119 | CName=GetFieldData.PanelVectors.vec_color; |
---|
2120 | [FieldList,VecColorList]=set_field_list(UName,VName,CName); |
---|
2121 | elseif GetFieldData.CheckScalar |
---|
2122 | AName=GetFieldData.PanelScalar.scalar; |
---|
2123 | XName=GetFieldData.XVarName; |
---|
2124 | YName=GetFieldData.YVarName; |
---|
2125 | FieldList={AName}; |
---|
2126 | elseif GetFieldData.CheckPlot1D; |
---|
2127 | YName=GetFieldData.CheckPlot1D.ordinate; |
---|
2128 | end |
---|
2129 | set(handles.Coord_x,'String',{XName}) |
---|
2130 | set(handles.Coord_y,'String',{YName}) |
---|
2131 | set(handles.FieldName,'Value',1) |
---|
2132 | set(handles.FieldName,'String',[FieldList; {'get_field...'}]); |
---|
2133 | % set(handles.ColorScalar,'Value',1) |
---|
2134 | % set(handles.ColorScalar,'String',VecColorList); |
---|
2135 | % UvData.FileType{1}='netcdf'; |
---|
2136 | % set(handles.uvmat,'UserData',UvData) |
---|
2137 | end |
---|
2138 | % elseif isequal(field,'more...') |
---|
2139 | % str=calc_field; |
---|
2140 | % [ind_answer,v] = listdlg('PromptString','Select a file:',... |
---|
2141 | % 'SelectionMode','single',... |
---|
2142 | % 'ListString',str); |
---|
2143 | % % edit the choice in the fields and actionname menu |
---|
2144 | % scalar=cell2mat(str(ind_answer)); |
---|
2145 | % update_menu(handles.FieldName,scalar) |
---|
2146 | end |
---|
2147 | |
---|
2148 | %------------------------------------------------------------------------ |
---|
2149 | % --- Executes on selection change in FieldName_1. |
---|
2150 | function FieldName_1_Callback(hObject, eventdata, handles) |
---|
2151 | %------------------------------------------------------------------------ |
---|
2152 | field_str=get(handles.FieldName_1,'String'); |
---|
2153 | field_index=get(handles.FieldName_1,'Value'); |
---|
2154 | field=field_str{field_index}; |
---|
2155 | if isequal(field,'get_field...') |
---|
2156 | hget_field=findobj(allchild(0),'name','get_field_1'); |
---|
2157 | if ~isempty(hget_field) |
---|
2158 | delete(hget_field) |
---|
2159 | end |
---|
2160 | SeriesData=get(handles.series,'UserData'); |
---|
2161 | filename=SeriesData.CurrentInputFile_1; |
---|
2162 | if exist(filename,'file') |
---|
2163 | hget_field=get_field(filename); |
---|
2164 | set(hget_field,'name','get_field_1') |
---|
2165 | end |
---|
2166 | % elseif isequal(field,'more...') |
---|
2167 | % str=calc_field; |
---|
2168 | % [ind_answer,v] = listdlg('PromptString','Select a file:',... |
---|
2169 | % 'SelectionMode','single',... |
---|
2170 | % 'ListString',str); |
---|
2171 | % % edit the choice in the fields and actionname menu |
---|
2172 | % scalar=cell2mat(str(ind_answer)); |
---|
2173 | % update_menu(handles.FieldName_1,scalar) |
---|
2174 | end |
---|
2175 | |
---|
2176 | |
---|
2177 | %%%%%%%%%%%%% |
---|
2178 | function [ind_remove]=find_pairs(dirpair,ind_i,last_i) |
---|
2179 | indsel=ind_i; |
---|
2180 | indiff=diff(ind_i); %test index increment to detect multiplets (several pairs with the same index ind_i) and holes in the series |
---|
2181 | indiff=[1 indiff last_i-ind_i(end)+1];%for testing gaps with the imposed bounds |
---|
2182 | if ~isempty(indiff) |
---|
2183 | indiff2=diff(indiff); |
---|
2184 | indiffp=[indiff2 1]; |
---|
2185 | indiffm=[1 indiff2]; |
---|
2186 | ind_multi_m=find((indiff==0)&(indiffm<0))-1;%indices of first members of multiplets |
---|
2187 | ind_multi_p=find((indiff==0)&(indiffp>0));%indices of last members of multiplets |
---|
2188 | %for each multiplet, select the most recent file |
---|
2189 | ind_remove=[]; |
---|
2190 | for i=1:length(ind_multi_m) |
---|
2191 | ind_pairs=ind_multi_m(i):ind_multi_p(i); |
---|
2192 | for imulti=1:length(ind_pairs) |
---|
2193 | datepair(imulti)=datenum(dirpair(ind_pairs(imulti)).date);%dates of creation |
---|
2194 | end |
---|
2195 | [datenew,indsort2]=sort(datepair); %sort the multiplet by creation date |
---|
2196 | ind_s=indsort2(1:end-1);% |
---|
2197 | ind_remove=[ind_remove ind_pairs(ind_s)];%remove these indices, leave the last one |
---|
2198 | end |
---|
2199 | end |
---|
2200 | |
---|
2201 | %------------------------------------------------------------------------ |
---|
2202 | % --- determine the list of index pairstring of processing file |
---|
2203 | function [num_i1,num_i2,num_j1,num_j2,num_i_out,num_j_out]=find_file_indices(num_i,num_j,ind_shift,NomType,mode) |
---|
2204 | %------------------------------------------------------------------------ |
---|
2205 | num_i1=num_i;% set of first image numbers by default |
---|
2206 | num_i2=num_i; |
---|
2207 | num_j1=num_j; |
---|
2208 | num_j2=num_j; |
---|
2209 | num_i_out=num_i; |
---|
2210 | num_j_out=num_j; |
---|
2211 | % if isequal (NomType,'_1-2_1') || isequal (NomType,'_1-2') |
---|
2212 | if isequal(mode,'series(Di)') |
---|
2213 | num_i1_line=num_i+ind_shift(3);% set of first image numbers |
---|
2214 | num_i2_line=num_i+ind_shift(4); |
---|
2215 | % adjust the first and last field number |
---|
2216 | indsel=find(num_i1_line >= 1); |
---|
2217 | num_i_out=num_i(indsel); |
---|
2218 | num_i1_line=num_i1_line(indsel); |
---|
2219 | num_i2_line=num_i2_line(indsel); |
---|
2220 | num_j1=meshgrid(num_j,ones(size(num_i1_line))); |
---|
2221 | num_j2=meshgrid(num_j,ones(size(num_i1_line))); |
---|
2222 | [xx,num_i1]=meshgrid(num_j,num_i1_line); |
---|
2223 | [xx,num_i2]=meshgrid(num_j,num_i2_line); |
---|
2224 | elseif isequal (mode,'series(Dj)')||isequal (mode,'bursts') |
---|
2225 | if isequal(mode,'bursts') %case of bursts (png_old or png_2D) |
---|
2226 | num_j1=ind_shift(1)*ones(size(num_i)); |
---|
2227 | num_j2=ind_shift(2)*ones(size(num_i)); |
---|
2228 | else |
---|
2229 | num_j1_col=num_j+ind_shift(1);% set of first image numbers |
---|
2230 | num_j2_col=num_j+ind_shift(2); |
---|
2231 | % adjust the first field number |
---|
2232 | indsel=find((num_j1_col >= 1)); |
---|
2233 | num_j_out=num_j(indsel); |
---|
2234 | num_j1_col=num_j1_col(indsel); |
---|
2235 | num_j2_col=num_j2_col(indsel); |
---|
2236 | [num_i1,num_j1]=meshgrid(num_i,num_j1_col); |
---|
2237 | [num_i2,num_j2]=meshgrid(num_i,num_j2_col); |
---|
2238 | end |
---|
2239 | end |
---|
2240 | |
---|
2241 | %------------------------------------------------------------------------ |
---|
2242 | % --- Executes on button press in CheckObject. |
---|
2243 | function CheckObject_Callback(hObject, eventdata, handles) |
---|
2244 | %------------------------------------------------------------------------ |
---|
2245 | hset_object=findobj(allchild(0),'tag','set_object');%find the set_object interface handle |
---|
2246 | value=get(handles.CheckObject,'Value'); |
---|
2247 | if value |
---|
2248 | SeriesData=get(handles.series,'UserData'); |
---|
2249 | if ~(isfield(SeriesData,'ProjObject')&&~isempty(SeriesData.ProjObject)) |
---|
2250 | if ishandle(hset_object) |
---|
2251 | uistack(hset_object,'top')% show the GUI set_object if opened |
---|
2252 | else |
---|
2253 | %get the object file |
---|
2254 | InputTable=get(handles.InputTable,'Data'); |
---|
2255 | defaultname=InputTable{1,1}; |
---|
2256 | if isempty(defaultname) |
---|
2257 | defaultname={''}; |
---|
2258 | end |
---|
2259 | [FileName, PathName] = uigetfile( ... |
---|
2260 | {'*.xml;*.mat', ' (*.xml,*.mat)'; |
---|
2261 | '*.xml', '.xml files '; ... |
---|
2262 | '*.mat', '.mat matlab files '}, ... |
---|
2263 | 'Pick an xml object file (or use uvmat to create it)',defaultname); |
---|
2264 | fileinput=[PathName FileName];%complete file name |
---|
2265 | sizf=size(fileinput); |
---|
2266 | if (~ischar(fileinput)||~isequal(sizf(1),1)),return;end |
---|
2267 | %read the file |
---|
2268 | data=xml2struct(fileinput); |
---|
2269 | if ~isfield(data,'Type') |
---|
2270 | msgbox_uvmat('ERROR',[fileinput ' is not an object xml file']) |
---|
2271 | return |
---|
2272 | end |
---|
2273 | if ~isfield(data,'ProjMode') |
---|
2274 | data.ProjMode='none'; |
---|
2275 | end |
---|
2276 | hset_object=set_object(data);% call the set_object interface |
---|
2277 | end |
---|
2278 | ProjObject=read_GUI(hset_object); |
---|
2279 | set(handles.ProjObject,'String',ProjObject.Name);%display the object name |
---|
2280 | SeriesData=get(handles.series,'UserData'); |
---|
2281 | SeriesData.ProjObject=ProjObject; |
---|
2282 | set(handles.series,'UserData',SeriesData); |
---|
2283 | end |
---|
2284 | set(handles.DeleteObject,'Visible','on'); |
---|
2285 | set(handles.ViewObject,'Visible','on'); |
---|
2286 | set(handles.ProjObject,'Visible','on'); |
---|
2287 | else |
---|
2288 | set(handles.DeleteObject,'Visible','off'); |
---|
2289 | set(handles.ViewObject,'Visible','off'); |
---|
2290 | if ~ishandle(hset_object) |
---|
2291 | set(handles.ViewObject,'Value',0); |
---|
2292 | end |
---|
2293 | set(handles.ProjObject,'Visible','off'); |
---|
2294 | end |
---|
2295 | %set(handles.series,'UserData',SeriesData) |
---|
2296 | |
---|
2297 | %-------------------------------------------------------------- |
---|
2298 | function CheckMask_Callback(hObject, eventdata, handles) |
---|
2299 | value=get(handles.CheckMask,'Value'); |
---|
2300 | if value |
---|
2301 | msgbox_uvmat('ERROR','not implemented yet') |
---|
2302 | end |
---|
2303 | %-------------------------------------------------------------- |
---|
2304 | |
---|
2305 | %------------------------------------------------------------------- |
---|
2306 | %'uv_ncbrowser': interactively calls the netcdf file browser 'get_field.m' |
---|
2307 | function ncbrowser_uvmat(hObject, eventdata) |
---|
2308 | %------------------------------------------------------------------- |
---|
2309 | bla=get(gcbo,'String'); |
---|
2310 | ind=get(gcbo,'Value'); |
---|
2311 | filename=cell2mat(bla(ind)); |
---|
2312 | blank=find(filename==' '); |
---|
2313 | filename=filename(1:blank-1); |
---|
2314 | get_field(filename) |
---|
2315 | |
---|
2316 | % ------------------------------------------------------------------ |
---|
2317 | function MenuHelp_Callback(hObject, eventdata, handles) |
---|
2318 | %------------------------------------------------------------------- |
---|
2319 | path_to_uvmat=which ('uvmat');% check the path of uvmat |
---|
2320 | pathelp=fileparts(path_to_uvmat); |
---|
2321 | helpfile=fullfile(pathelp,'uvmat_doc','uvmat_doc.html'); |
---|
2322 | 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') |
---|
2323 | else |
---|
2324 | addpath (fullfile(pathelp,'uvmat_doc')) |
---|
2325 | web([helpfile '#series']) |
---|
2326 | end |
---|
2327 | |
---|
2328 | %------------------------------------------------------------------- |
---|
2329 | % --- Executes on selection change in TransformName. |
---|
2330 | function TransformName_Callback(hObject, eventdata, handles) |
---|
2331 | %---------------------------------------------------------------------- |
---|
2332 | TransformList=get(handles.TransformName,'String'); |
---|
2333 | TransformIndex=get(handles.TransformName,'Value'); |
---|
2334 | TransformName=TransformList{TransformIndex}; |
---|
2335 | TransformPathList=get(handles.TransformName,'UserData'); |
---|
2336 | nb_builtin_transform=4; |
---|
2337 | % ff=functions(list_transform{end}); |
---|
2338 | if isequal(TransformName,'more...'); |
---|
2339 | % coord_fct=''; |
---|
2340 | % prompt = {'Enter the name of the transform function'}; |
---|
2341 | % dlg_title = 'user defined transform'; |
---|
2342 | % num_lines= 1; |
---|
2343 | [FileName, PathName] = uigetfile( ... |
---|
2344 | {'*.m', ' (*.m)'; |
---|
2345 | '*.m', '.m files '; ... |
---|
2346 | '*.*', 'All Files (*.*)'}, ... |
---|
2347 | 'Pick a transform function',get(handles.TransformPath,'String')); |
---|
2348 | if isequal(FileName,0) |
---|
2349 | return %browser closed without choice |
---|
2350 | end |
---|
2351 | if isequal(PathName(end),'/')||isequal(PathName(end),'\') |
---|
2352 | PathName(end)=[]; |
---|
2353 | end |
---|
2354 | [TransformPath,TransformName,TransformExt]=fileparts(FileName);% removes extension .m |
---|
2355 | if ~strcmp(TransformExt,'.m') |
---|
2356 | msgbox_uvmat('ERROR','a Matlab function .m must be introduced'); |
---|
2357 | return |
---|
2358 | end |
---|
2359 | % insert the choice in the menu |
---|
2360 | TransformIndex=find(strcmp(TransformName,TransformList),1);% look for the selected function in the menu Action |
---|
2361 | if isempty(TransformIndex)%the input string does not exist in the menu |
---|
2362 | TransformIndex= length(TransformList); |
---|
2363 | TransformList=[TransformList(1:end-1);{TransformnName};TransformList(end)];% the selected function is appended in the menu, before the last item 'more...' |
---|
2364 | set(handles.TransformName,'String',TransformList) |
---|
2365 | TransformPathList=[TransformPathList;{TransformPath}]; |
---|
2366 | end |
---|
2367 | % save the new menu in the personal file 'uvmat_perso.mat' |
---|
2368 | dir_perso=prefdir;%personal Matalb directory |
---|
2369 | profil_perso=fullfile(dir_perso,'uvmat_perso.mat'); |
---|
2370 | if exist(profil_perso,'file') |
---|
2371 | for ilist=nb_builtin_transform+1:numel(TransformPathList) |
---|
2372 | TransformListUser{ilist-nb_builtin_transform}=TransformList{ilist}; |
---|
2373 | TransformPathListUser{ilist-nb_builtin_transform}=TransformPathList{ilist}; |
---|
2374 | end |
---|
2375 | save (profil_perso,'TransformPathListUser','TransformListUser','-append'); %store the root name for future opening of uvmat |
---|
2376 | end |
---|
2377 | end |
---|
2378 | |
---|
2379 | %display the current function path |
---|
2380 | set(handles.TransformPath,'String',TransformPathList{TransformIndex}); %show the path to the senlected function |
---|
2381 | set(handles.TransformName,'UserData',TransformPathList); |
---|
2382 | |
---|
2383 | |
---|
2384 | % -------------------------------------------------------------------- |
---|
2385 | function MenuExportConfig_Callback(hObject, eventdata, handles) |
---|
2386 | global Series |
---|
2387 | [Series,errormsg]=prepare_jobs(handles); |
---|
2388 | |
---|
2389 | evalin('base','global Series')%make CurData global in the workspace |
---|
2390 | display('current series config :') |
---|
2391 | evalin('base','Series') %display CurData in the workspace |
---|
2392 | commandwindow; %brings the Matlab command window to the front |
---|
2393 | |
---|
2394 | |
---|
2395 | % -------------------------------------------------------------------- |
---|
2396 | function MenuImportConfig_Callback(hObject, eventdata, handles) |
---|
2397 | % -------------------------------------------------------------------- |
---|
2398 | InputTable=get(handles.InputTable,'Data'); |
---|
2399 | [FileName, PathName] = uigetfile( ... |
---|
2400 | {'*.xml', ' (*.xml)'; |
---|
2401 | '*.xml', '.xml files '; ... |
---|
2402 | '*.*', 'All Files (*.*)'}, ... |
---|
2403 | 'Pick a file',InputTable{1,1}); |
---|
2404 | filexml=[PathName FileName];%complete file name |
---|
2405 | if isempty(filexml),return;end %abandon if no file is introduced by the browser |
---|
2406 | Param=xml2struct(filexml); |
---|
2407 | fill_GUI(Param,handles.series) |
---|
2408 | |
---|
2409 | % --- Executes on selection change in RunMode. |
---|
2410 | function RunMode_Callback(hObject, eventdata, handles) |
---|
2411 | |
---|
2412 | % --- Executes on selection change in Coord_x. |
---|
2413 | function Coord_x_Callback(hObject, eventdata, handles) |
---|
2414 | |
---|
2415 | |
---|
2416 | % --- Executes on selection change in Coord_y. |
---|
2417 | function Coord_y_Callback(hObject, eventdata, handles) |
---|
2418 | |
---|
2419 | |
---|
2420 | |
---|
2421 | % --- Executes when series is resized. |
---|
2422 | function series_ResizeFcn(hObject, eventdata, handles) |
---|
2423 | %% input table |
---|
2424 | set(handles.InputTable,'Unit','pixel') |
---|
2425 | Pos=get(handles.InputTable,'Position'); |
---|
2426 | set(handles.InputTable,'Unit','normalized') |
---|
2427 | ColumnWidth=round([0.5 0.14 0.14 0.14 0.08]*(Pos(3)-52)); |
---|
2428 | ColumnWidth=num2cell(ColumnWidth); |
---|
2429 | set(handles.InputTable,'ColumnWidth',ColumnWidth) |
---|
2430 | |
---|
2431 | %% MinIndex and MaxIndex |
---|
2432 | set(handles.MinIndex,'Unit','pixel') |
---|
2433 | Pos=get(handles.MinIndex,'Position'); |
---|
2434 | set(handles.MinIndex,'Unit','normalized') |
---|
2435 | ColumnWidth=get(handles.MinIndex,'ColumnWidth'); |
---|
2436 | if numel(ColumnWidth)==2 |
---|
2437 | ColumnWidth=num2cell(floor([0.5 0.5]*(Pos(3)-20))); |
---|
2438 | else |
---|
2439 | ColumnWidth={Pos(3)-5}; |
---|
2440 | end |
---|
2441 | set(handles.MinIndex,'ColumnWidth',ColumnWidth) |
---|
2442 | set(handles.MaxIndex,'ColumnWidth',ColumnWidth) |
---|
2443 | |
---|
2444 | %% TimeTable |
---|
2445 | set(handles.TimeTable,'Unit','pixel') |
---|
2446 | Pos=get(handles.TimeTable,'Position'); |
---|
2447 | set(handles.TimeTable,'Unit','normalized') |
---|
2448 | ColumnWidth=get(handles.TimeTable,'ColumnWidth'); |
---|
2449 | ColumnWidth=num2cell(floor([0.25 0.25 0.25 0.25]*(Pos(3)-20))); |
---|
2450 | set(handles.TimeTable,'ColumnWidth',ColumnWidth) |
---|
2451 | |
---|
2452 | |
---|
2453 | %% PairString |
---|
2454 | set(handles.PairString,'Unit','pixel') |
---|
2455 | Pos=get(handles.PairString,'Position'); |
---|
2456 | set(handles.PairString,'Unit','normalized') |
---|
2457 | set(handles.PairString,'ColumnWidth',{Pos(3)-5}) |
---|
2458 | |
---|
2459 | |
---|
2460 | % --- Executes on button press in status. |
---|
2461 | function status_Callback(hObject, eventdata, handles) |
---|
2462 | |
---|
2463 | if get(handles.status,'Value') |
---|
2464 | set(handles.status,'BackgroundColor',[1 1 0]) |
---|
2465 | drawnow |
---|
2466 | %StatusData.time_ref=get(handles.RUN,'UserData');% get the time of launch |
---|
2467 | Param=read_GUI(handles.series); |
---|
2468 | RootPath=Param.InputTable{1,1}; |
---|
2469 | if ~isfield(Param,'OutputSubDir') |
---|
2470 | msgbox_uvmat('ERROR','no directory defined for output files') |
---|
2471 | return |
---|
2472 | end |
---|
2473 | OutputSubDir=[Param.OutputSubDir Param.OutputDirExt];% subdirectory for output files |
---|
2474 | OutputDir=fullfile(RootPath,OutputSubDir); |
---|
2475 | uigetfile_uvmat('status_display',OutputDir) |
---|
2476 | |
---|
2477 | % hfig=findobj(allchild(0),'name','series_status'); |
---|
2478 | % if isempty(hfig) |
---|
2479 | % ScreenSize=get(0,'ScreenSize'); |
---|
2480 | % hfig=figure('DeleteFcn',@stop_status,'Position',[ScreenSize(3)-600 ScreenSize(4)-640 560 600]); |
---|
2481 | % set(hfig,'MenuBar','none')% suppress the menu bar |
---|
2482 | % set(hfig,'NumberTitle','off')%suppress the fig number in the title |
---|
2483 | % set(hfig,'name','series_status') |
---|
2484 | % set(hfig,'tag','series_status') |
---|
2485 | % uicontrol('Style','listbox','Units','normalized', 'Position',[0.05 0.09 0.9 0.71], 'Callback', @view_file,'tag','list','UserData',OutputDir); |
---|
2486 | % uicontrol('Style','edit','Units','normalized', 'Position', [0.05 0.87 0.9 0.1],'tag','titlebox','Max',2,'String',OutputDir); |
---|
2487 | % uicontrol('Style','frame','Units','normalized', 'Position', [0.05 0.81 0.9 0.05]); |
---|
2488 | % uicontrol('Style','pushbutton','Units','normalized', 'Position', [0.7 0.01 0.2 0.07],'String','Close','FontWeight','bold','FontUnits','points','FontSize',11,'Callback',@stop_status); |
---|
2489 | % uicontrol('Style','pushbutton','Units','normalized', 'Position', [0.1 0.01 0.2 0.07],'String','Refresh','FontWeight','bold','FontUnits','points','FontSize',11,'Callback',@refresh_GUI); |
---|
2490 | % %set(hrefresh,'UserData',StatusData) |
---|
2491 | % BarPosition=[0.05 0.81 0.01 0.05]; |
---|
2492 | % uicontrol('Style','frame','Units','normalized', 'Position',BarPosition ,'BackgroundColor',[1 0 0],'tag','waitbar'); |
---|
2493 | % drawnow |
---|
2494 | % end |
---|
2495 | % refresh_GUI(hfig) |
---|
2496 | else |
---|
2497 | %% delete current display fig if selection is off |
---|
2498 | set(handles.status,'BackgroundColor',[0 1 0]) |
---|
2499 | hfig=findobj(allchild(0),'name','series_status'); |
---|
2500 | if ~isempty(hfig) |
---|
2501 | delete(hfig) |
---|
2502 | end |
---|
2503 | return |
---|
2504 | end |
---|
2505 | |
---|
2506 | |
---|
2507 | %------------------------------------------------------------------------ |
---|
2508 | % launched by selecting a file on the list |
---|
2509 | function view_file(hObject, eventdata) |
---|
2510 | %------------------------------------------------------------------------ |
---|
2511 | list=get(hObject,'String'); |
---|
2512 | index=get(hObject,'Value'); |
---|
2513 | rootroot=get(hObject,'UserData'); |
---|
2514 | selectname=list{index}; |
---|
2515 | ind_dot=regexp(selectname,'\.\.\.'); |
---|
2516 | if ~isempty(ind_dot) |
---|
2517 | selectname=selectname(1:ind_dot-1); |
---|
2518 | end |
---|
2519 | FullSelectName=fullfile(rootroot,selectname); |
---|
2520 | if exist(FullSelectName,'dir')% a directory has been selected |
---|
2521 | ListFiles=dir(FullSelectName); |
---|
2522 | ListDisplay=cell(numel(ListFiles),1); |
---|
2523 | for ilist=2:numel(ListDisplay)% suppress the first line '.' |
---|
2524 | ListDisplay{ilist-1}=ListFiles(ilist).name; |
---|
2525 | end |
---|
2526 | set(hObject,'Value',1) |
---|
2527 | set(hObject,'String',ListDisplay) |
---|
2528 | if strcmp(selectname,'..') |
---|
2529 | FullSelectName=fileparts(fileparts(FullSelectName)); |
---|
2530 | end |
---|
2531 | set(hObject,'UserData',FullSelectName) |
---|
2532 | hfig=get(hObject,'parent'); |
---|
2533 | htitlebox=findobj(hfig,'tag','titlebox'); |
---|
2534 | set(htitlebox,'String',FullSelectName) |
---|
2535 | elseif exist(FullSelectName,'file')%visualise the vel field if it exists |
---|
2536 | FileType=get_file_type(FullSelectName); |
---|
2537 | if strcmp(FileType,'txt') |
---|
2538 | edit(FullSelectName) |
---|
2539 | elseif strcmp(FileType,'xml') |
---|
2540 | editxml(FullSelectName) |
---|
2541 | else |
---|
2542 | uvmat(FullSelectName) |
---|
2543 | end |
---|
2544 | set(gcbo,'Value',1) |
---|
2545 | end |
---|
2546 | |
---|
2547 | |
---|
2548 | %------------------------------------------------------------------------ |
---|
2549 | % launched by refreshing the status figure |
---|
2550 | function refresh_GUI(hfig) |
---|
2551 | %------------------------------------------------------------------------ |
---|
2552 | htitlebox=findobj(hfig,'tag','titlebox'); |
---|
2553 | hlist=findobj(hfig,'tag','list'); |
---|
2554 | hseries=findobj(allchild(0),'tag','series'); |
---|
2555 | hstatus=findobj(hseries,'tag','status'); |
---|
2556 | StatusData=get(hstatus,'UserData'); |
---|
2557 | OutputDir=get(htitlebox,'String'); |
---|
2558 | if ischar(OutputDir),OutputDir={OutputDir};end |
---|
2559 | ListFiles=dir(OutputDir{1}); |
---|
2560 | if numel(ListFiles)<1 |
---|
2561 | return |
---|
2562 | end |
---|
2563 | ListFiles(1)=[];%removes the first line ='.' |
---|
2564 | ListDisplay=cell(numel(ListFiles),1); |
---|
2565 | testrecent=0; |
---|
2566 | datnum=zeros(numel(ListDisplay),1); |
---|
2567 | for ilist=1:numel(ListDisplay) |
---|
2568 | ListDisplay{ilist}=ListFiles(ilist).name; |
---|
2569 | if ~ListFiles(ilist).isdir && isfield(ListFiles(ilist),'datenum') |
---|
2570 | datnum(ilist)=ListFiles(ilist).datenum;%only available in recent matlab versions |
---|
2571 | testrecent=1; |
---|
2572 | end |
---|
2573 | end |
---|
2574 | set(hlist,'String',ListDisplay) |
---|
2575 | |
---|
2576 | %% Look at date of creation |
---|
2577 | ListDisplay=ListDisplay(datnum~=0); |
---|
2578 | datnum=datnum(datnum~=0);%keep the non zero values corresponding to existing files |
---|
2579 | NbOutputFile=[]; |
---|
2580 | if isempty(datnum) |
---|
2581 | if testrecent |
---|
2582 | message='no civ result created yet'; |
---|
2583 | else |
---|
2584 | message=''; |
---|
2585 | end |
---|
2586 | else |
---|
2587 | [first,indfirst]=min(datnum); |
---|
2588 | [last,indlast]=max(datnum); |
---|
2589 | NbOutputFile_str='?'; |
---|
2590 | NbOutputFile=[]; |
---|
2591 | if isfield(StatusData,'NbOutputFile') |
---|
2592 | NbOutputFile=StatusData.NbOutputFile; |
---|
2593 | NbOutputFile_str=num2str(NbOutputFile); |
---|
2594 | end |
---|
2595 | message={[num2str(numel(datnum)) ' file(s) done over ' NbOutputFile_str] ;['oldest modification: ' ListDisplay{indfirst} ' : ' datestr(first)];... |
---|
2596 | ['latest modification: ' ListDisplay{indlast} ' : ' datestr(last)]}; |
---|
2597 | end |
---|
2598 | set(htitlebox,'String', [OutputDir{1};message]) |
---|
2599 | |
---|
2600 | %% update the waitbar |
---|
2601 | hwaitbar=findobj(hfig,'tag','waitbar'); |
---|
2602 | if ~isempty(NbOutputFile) |
---|
2603 | BarPosition=get(hwaitbar,'Position'); |
---|
2604 | BarPosition(3)=0.9*numel(datnum)/NbOutputFile; |
---|
2605 | set(hwaitbar,'Position',BarPosition) |
---|
2606 | end |
---|
2607 | %TODO: adjust waitbar |
---|
2608 | |
---|
2609 | % civ_files=get(hfig,'UserData'); |
---|
2610 | |
---|
2611 | % [filepath,filename,ext]=fileparts(civ_files{1}); |
---|
2612 | % [tild,SubDir,extdir]=fileparts(filepath); |
---|
2613 | % SubDir=[SubDir extdir]; |
---|
2614 | % option_civ=StatusData.option_civ; |
---|
2615 | % nbfiles=numel(civ_files); |
---|
2616 | % testrecent=0; |
---|
2617 | % count=0; |
---|
2618 | % datnum=zeros(1,nbfiles); |
---|
2619 | % filefound=cell(1,nbfiles); |
---|
2620 | % for ifile=1:nbfiles |
---|
2621 | % detect=exist(civ_files{ifile},'file'); % check the existence of the file |
---|
2622 | % option=0; |
---|
2623 | % if detect==0 |
---|
2624 | % option_str='not created'; |
---|
2625 | % else |
---|
2626 | % datfile=dir(civ_files{ifile}); |
---|
2627 | % if isfield(datfile,'datenum') |
---|
2628 | % datnum(ifile)=datfile.datenum;%only available in recent matlab versions |
---|
2629 | % testrecent=1; |
---|
2630 | % end |
---|
2631 | % filefound(ifile)={datfile.name}; |
---|
2632 | % |
---|
2633 | % % check the content netcdf file |
---|
2634 | % Data=nc2struct(civ_files{ifile},'ListGlobalAttribute','CivStage','patch2','fix2','civ2','patch','fix'); |
---|
2635 | % option_list={'civ1','fix1','patch1','civ2','fix2','patch2'}; |
---|
2636 | % if ~isempty(Data.CivStage) |
---|
2637 | % option=Data.CivStage;%case of Matlab civ |
---|
2638 | % else |
---|
2639 | % if ~isempty(Data.patch2) && isequal(Data.patch2,1) |
---|
2640 | % option=6; |
---|
2641 | % elseif ~isempty(Data.fix2) && isequal(Data.fix2,1) |
---|
2642 | % option=5; |
---|
2643 | % elseif ~isempty(Data.civ2) && isequal(Data.civ2,1); |
---|
2644 | % option=4; |
---|
2645 | % elseif ~isempty(Data.patch) && isequal(Data.patch,1); |
---|
2646 | % option=3; |
---|
2647 | % elseif ~isempty(Data.fix) && isequal(Data.fix,1); |
---|
2648 | % option=2; |
---|
2649 | % else |
---|
2650 | % option=1; |
---|
2651 | % end |
---|
2652 | % end |
---|
2653 | % option_str=option_list{option}; |
---|
2654 | % if datnum(ifile)<StatusData.time_ref |
---|
2655 | % option_str=[option_str ' --OLD--']; |
---|
2656 | % end |
---|
2657 | % end |
---|
2658 | % if option >= option_civ |
---|
2659 | % count=count+1; |
---|
2660 | % end |
---|
2661 | % [filepath,filename,ext]=fileparts(civ_files{ifile}); |
---|
2662 | % Tabchar{ifile,1}=[fullfile(SubDir,filename) ext '...' option_str]; |
---|
2663 | % end |
---|
2664 | % datnum=datnum(datnum~=0);%keep the non zero values corresponding to existing files |
---|
2665 | % if isempty(datnum) |
---|
2666 | % if testrecent |
---|
2667 | % message='no civ result created yet'; |
---|
2668 | % else |
---|
2669 | % message=''; |
---|
2670 | % end |
---|
2671 | % else |
---|
2672 | % datnum=datnum(datnum~=0);%keep the non zero values corresponding to existing files |
---|
2673 | % [first,ind]=min(datnum); |
---|
2674 | % [last,indlast]=max(datnum); |
---|
2675 | % message={[num2str(count) ' file(s) done over ' num2str(nbfiles)] ;['oldest modification: ' cell2mat(filefound(ind)) ' : ' datestr(first)];... |
---|
2676 | % ['latest modification: ' cell2mat(filefound(indlast)) ' : ' datestr(last)]}; |
---|
2677 | % end |
---|
2678 | % hlist=findobj(hfig,'tag','list'); |
---|
2679 | % htitlebox=findobj(hfig,'tag','titlebox'); |
---|
2680 | % hwaitbar=findobj(hfig,'tag','waitbar'); |
---|
2681 | % set(hlist,'String',Tabchar) |
---|
2682 | % set(htitlebox,'String', message) |
---|
2683 | % |
---|
2684 | %------------------------------------------------------------------------ |
---|
2685 | % launched by deleting the status figure |
---|
2686 | function stop_status(hObject, eventdata) |
---|
2687 | %------------------------------------------------------------------------ |
---|
2688 | hciv=findobj(allchild(0),'tag','series'); |
---|
2689 | hhciv=guidata(hciv); |
---|
2690 | set(hhciv.status,'value',0) %reset the status uicontrol in the GUI civ |
---|
2691 | set(hhciv.status,'BackgroundColor',[0 1 0]) |
---|
2692 | delete(gcbf) |
---|
2693 | |
---|
2694 | % --- Executes on selection change in ActionExt. |
---|
2695 | function ActionExt_Callback(hObject, eventdata, handles) |
---|
2696 | ActionExtList=get(handles.ActionExt,'String'); |
---|
2697 | ActionExt=ActionExtList{get(handles.ActionExt,'Value')}; |
---|
2698 | ActionList=get(handles.ActionName,'String'); |
---|
2699 | ActionName=ActionList{get(handles.ActionName,'Value')}; |
---|
2700 | TransformPath=''; |
---|
2701 | if ~isempty(get(handles.ActionExt,'UserData')) |
---|
2702 | TransformPath=get(handles.ActionExt,'UserData'); |
---|
2703 | end |
---|
2704 | if strcmp(ActionExt,'.sh') |
---|
2705 | set(handles.ActionExt,'BackgroundColor',[1 1 0]) |
---|
2706 | ActionFullName=fullfile(get(handles.ActionPath,'String'),[ActionName '.sh']); |
---|
2707 | if ~exist(ActionFullName,'file') |
---|
2708 | answer=msgbox_uvmat('INPUT_Y-N','compiled version has not been created: compile now?'); |
---|
2709 | if strcmp(answer,'Yes') |
---|
2710 | set(handles.ActionExt,'BackgroundColor',[1 1 0]) |
---|
2711 | path_uvmat=fileparts(which('series')); |
---|
2712 | currentdir=pwd; |
---|
2713 | cd(get(handles.ActionPath,'String'))% go to the directory of Action |
---|
2714 | % addpath(get(handles.TransformPath,'String')) |
---|
2715 | addpath(path_uvmat)% add the path to uvmat to run the fct 'compile' |
---|
2716 | % addpath(fullfile(path_uvmat,'transform_field'))% add the path to uvmat to run the fct 'compile' |
---|
2717 | compile(ActionName,TransformPath) |
---|
2718 | cd(currentdir) |
---|
2719 | end |
---|
2720 | |
---|
2721 | else |
---|
2722 | sh_file_info=dir(fullfile(get(handles.ActionPath,'String'),[ActionName '.sh'])); |
---|
2723 | m_file_info=dir(fullfile(get(handles.ActionPath,'String'),[ActionName '.m'])); |
---|
2724 | if isfield(m_file_info,'datenum') && m_file_info.datenum>sh_file_info.datenum |
---|
2725 | set(handles.ActionExt,'BackgroundColor',[1 1 0]) |
---|
2726 | drawnow |
---|
2727 | answer=msgbox_uvmat('INPUT_Y-N',[ActionName '.sh needs to be updated: recompile now?']); |
---|
2728 | if strcmp(answer,'Yes') |
---|
2729 | path_uvmat=fileparts(which('series')); |
---|
2730 | currentdir=pwd; |
---|
2731 | cd(get(handles.ActionPath,'String'))% go to the directory of Action |
---|
2732 | % addpath(get(handles.TransformPath,'String')) |
---|
2733 | addpath(path_uvmat)% add the path to uvmat to run the fct 'compile' |
---|
2734 | addpath(fullfile(path_uvmat,'transform_field'))% add the path to uvmat to run the fct 'compile' |
---|
2735 | compile(ActionName,TransformPath) |
---|
2736 | cd(currentdir) |
---|
2737 | end |
---|
2738 | end |
---|
2739 | end |
---|
2740 | set(handles.ActionExt,'BackgroundColor',[1 1 1]) |
---|
2741 | end |
---|
2742 | |
---|
2743 | |
---|
2744 | function ActionInput_Callback(hObject, eventdata, handles) |
---|
2745 | |
---|
2746 | |
---|
2747 | % --- Executes on button press in DeleteObject. |
---|
2748 | function DeleteObject_Callback(hObject, eventdata, handles) |
---|
2749 | if get(handles.DeleteObject,'Value') |
---|
2750 | SeriesData=get(handles.series,'UserData'); |
---|
2751 | SeriesData.ProjObject=[]; |
---|
2752 | set(handles.series,'UserData',SeriesData) |
---|
2753 | set(handles.ProjObject,'String','') |
---|
2754 | set(handles.CheckObject,'Value',0) |
---|
2755 | set(handles.DeleteObject,'Visible','off') |
---|
2756 | set(handles.ViewObject,'Visible','off') |
---|
2757 | set(handles.DeleteObject,'Value',0) |
---|
2758 | end |
---|
2759 | |
---|
2760 | % --- Executes on button press in ViewObject. |
---|
2761 | function ViewObject_Callback(hObject, eventdata, handles) |
---|
2762 | if get(handles.ViewObject,'Value') |
---|
2763 | UserData=get(handles.series,'UserData'); |
---|
2764 | set_object(UserData.ProjObject) |
---|
2765 | else |
---|
2766 | hset_object=findobj(allchild(0),'Tag','set_object'); |
---|
2767 | if ~isempty(hset_object) |
---|
2768 | delete(hset_object) |
---|
2769 | end |
---|
2770 | end |
---|
2771 | |
---|
2772 | |
---|
2773 | function num_NbProcess_Callback(hObject, eventdata, handles) |
---|
2774 | |
---|
2775 | |
---|
2776 | function num_NbSlice_Callback(hObject, eventdata, handles) |
---|
2777 | NbSlice=str2num(get(handles.num_NbSlice,'String')); |
---|
2778 | set(handles.num_NbProcess,'String',num2str(NbSlice)) |
---|