1 | %'find_field_cells': analyse the field structure for input in uvmat functions, grouping the variables into 'fields' with common coordinates |
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2 | %------------------------------------------------------------------------ |
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3 | % function [CellInfo,NbDim,errormsg]=find_field_cells(Data) |
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4 | % |
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5 | % OUTPUT: |
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6 | % CellInfo: cell of structures describing field cells |
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7 | % .CoordType: type of coordinates for each field cell = 'scattered','grid','tps'; |
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8 | % .CoordIndex: array of the indices of the variables representing the coordinates (in the order z,y,x) |
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9 | % .CoordSize: array of the nbre of values for each coordinate in a grid, nbre of points in the unstructured case |
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10 | % .NbCentres_tps: |
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11 | % .SubRange_tps |
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12 | % .VarIndex: arrays of the variable indices in the field cell |
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13 | % .VarIndex_ancillary: indices of ancillary variables |
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14 | % _color : color image, the last index, which is not a coordinate variable, represent the 3 color components rgb |
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15 | % _discrete: like scalar, but set of data points without continuity, represented as dots in a usual plot, instead of continuous lines otherwise |
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16 | % _errorflag: index of error flag |
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17 | % _image : B/W image, (behaves like scalar) |
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18 | % _vector_x,_y,_z: indices of variables giving the vector components x, y, z |
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19 | % _warnflag: index of warnflag |
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20 | % .ProjModeRequest= 'interp_lin', 'interp_tps' indicate whether lin interpolation or derivatives (tps) is needed to calculate the requested field |
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21 | % .FieldName = operation to be performed to finalise the field cell after projection |
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22 | % .SubCheck=0 /1 indicate that the field must be substracted (second entry in uvmat) |
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23 | % NbDim: array with the length of CellVarIndex, giving the space dimension of each field cell |
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24 | % errormsg: error message |
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25 | % |
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26 | % INPUT: |
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27 | % Data: structure representing fields, output of check_field_structure |
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28 | % .ListGlobalAttributes |
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29 | % .ListVarName: cell array listing the names (cahr strings) of the variables |
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30 | % .VarDimName: cell array of cells containing the set of dimension names for each variable of .ListVarName |
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31 | % .VarAttribute: cell array of structures containing the variable attributes: |
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32 | % .VarAttribute{ilist}.key=value, where ilist is the variable |
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33 | % index, key is the name of the attribute, value its value (char string or number) |
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34 | % .Attr1, .Attr2.... |
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35 | % case of actual data: |
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36 | % .Var1, .Var2... |
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37 | % case of data structure, without the data themselves |
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38 | % .LisDimName: list of dimension names |
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39 | % .DimValue: list of corresponding dimension values |
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40 | % HELP: |
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41 | % to get the dimensions of arrays common to the field #icell |
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42 | % VarIndex=CellVarIndex{icell}; % list of variable indices |
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43 | % DimIndex=Data.VarDimIndex{VarIndex(1)} % list of dimensions for each variable in the cell #icell |
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44 | |
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45 | %======================================================================= |
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46 | % Copyright 2008-2014, LEGI UMR 5519 / CNRS UJF G-INP, Grenoble, France |
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47 | % http://www.legi.grenoble-inp.fr |
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48 | % Joel.Sommeria - Joel.Sommeria (A) legi.cnrs.fr |
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49 | % |
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50 | % This file is part of the toolbox UVMAT. |
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51 | % |
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52 | % UVMAT is free software; you can redistribute it and/or modify |
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53 | % it under the terms of the GNU General Public License as published |
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54 | % by the Free Software Foundation; either version 2 of the license, |
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55 | % or (at your option) any later version. |
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56 | % |
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57 | % UVMAT is distributed in the hope that it will be useful, |
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58 | % but WITHOUT ANY WARRANTY; without even the implied warranty of |
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59 | % MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the |
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60 | % GNU General Public License (see LICENSE.txt) for more details. |
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61 | %======================================================================= |
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62 | |
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63 | % group the variables into 'fields' with common dimensions |
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64 | |
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65 | function [CellInfo,NbDim,errormsg]=find_field_cells(Data) |
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66 | CellInfo={}; |
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67 | NbDim=0; |
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68 | errormsg=''; |
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69 | if ~isfield(Data,'ListVarName'), errormsg='the list of variables .ListVarName is missing';return;end |
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70 | if ~isfield(Data,'VarDimName'), errormsg='the list of dimensions .VarDimName is missing';return;end |
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71 | nbvar=numel(Data.ListVarName);%number of variables in the field structure |
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72 | if ~isequal(numel(Data.VarDimName),nbvar), errormsg='.ListVarName and .VarDimName have unequal length';return;end |
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73 | % check the existence of variable data |
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74 | check_var=1; |
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75 | for ilist=1:numel(Data.ListVarName) |
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76 | if ~isfield(Data,Data.ListVarName{ilist}) |
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77 | check_var=0;% dimensions of data defined, data not needed for this function |
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78 | break |
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79 | end |
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80 | end |
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81 | if ~check_var && ~(isfield(Data,'ListDimName')&& isfield(Data,'DimValue')&&isequal(numel(Data.ListDimName),numel(Data.DimValue))) |
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82 | errormsg=['missing variable or values of dimensions' Data.ListVarName{ilist}]; |
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83 | return |
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84 | end |
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85 | |
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86 | |
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87 | %% role of variables and list of requested operations |
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88 | %ListRole={'coord_x','coord_y','coord_z','vector_x','vector_y','vector_z','vector_x_tps','vector_y_tps','warnflag','errorflag',... |
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89 | % 'ancillary','image','color','discrete','scalar','coord_tps'};% rmq vector_x_tps and vector_y_tps to be replaced by vector_x and vector_y |
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90 | Role=num2cell(blanks(nbvar));%initialize a cell array of nbvar blanks |
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91 | ProjModeRequest=regexprep(Role,' ',''); % fieldRequest set to '' by default |
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92 | FieldName=cell(size(Role)); % fieldRequest set to {} by default |
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93 | CheckSub=zeros(size(Role));% =1 for fields to substract |
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94 | Role=regexprep(Role,' ','scalar'); % Role set to 'scalar' by default |
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95 | if isfield(Data,'VarAttribute') |
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96 | for ivar=1:numel(Data.VarAttribute) |
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97 | if isfield(Data.VarAttribute{ivar},'Role') |
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98 | Role{ivar}=Data.VarAttribute{ivar}.Role; |
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99 | end |
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100 | if isfield(Data.VarAttribute{ivar},'ProjModeRequest') |
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101 | ProjModeRequest{ivar}=Data.VarAttribute{ivar}.ProjModeRequest; |
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102 | end |
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103 | if isfield(Data.VarAttribute{ivar},'FieldName') |
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104 | FieldName{ivar}=Data.VarAttribute{ivar}.FieldName; |
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105 | end |
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106 | if isfield(Data.VarAttribute{ivar},'CheckSub') |
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107 | CheckSub(ivar)=Data.VarAttribute{ivar}.CheckSub; |
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108 | end |
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109 | end |
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110 | end |
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111 | |
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112 | %% find scattered (unstructured) coordinates |
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113 | ivar_coord_x=find(strcmp('coord_x',Role));%find variables with Role='coord_x' |
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114 | check_select=false(1,nbvar); |
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115 | check_coord=false(1,nbvar); |
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116 | CellInfo=cell(1,numel(ivar_coord_x)); |
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117 | NbDim=zeros(1,numel(ivar_coord_x)); |
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118 | % loop on unstructured coordinate x -> different field cells |
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119 | for icell=1:numel(ivar_coord_x) |
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120 | DimCell=Data.VarDimName{ivar_coord_x(icell)};% cell of dimension names for ivar_coord_x(icell) |
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121 | if ischar(DimCell),DimCell={DimCell};end % transform char to cell for a single dimension |
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122 | % look for variables sharing dimension(s) with ivar_coord_x(icell) |
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123 | check_cell=zeros(numel(DimCell),nbvar); |
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124 | for idim=1:numel(DimCell) |
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125 | for ivar=1:nbvar |
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126 | check_cell(idim,ivar)=max(strcmp(DimCell{idim},Data.VarDimName{ivar})); |
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127 | end |
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128 | end |
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129 | check_cell=sum(check_cell,1)==numel(DimCell);%logical array=1 for variables belonging to the current cell |
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130 | VarIndex=find(check_cell);% list of detected variable indices |
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131 | if ~(numel(VarIndex)==1 && numel(DimCell)==1)% exclude case of isolated coord_x variable (treated later) |
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132 | if ~(numel(VarIndex)==1 && numel(DimCell)>1)% a variable is associated to coordinate |
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133 | CellInfo{icell}.CoordIndex=ivar_coord_x(icell); |
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134 | % size of coordinate var |
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135 | if check_var |
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136 | CellInfo{icell}.CoordSize=numel(Data.(Data.ListVarName{ivar_coord_x(icell)})); |
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137 | else |
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138 | for idim=1:numel(DimCell) |
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139 | check_index= strcmp(DimCell{idim},Data.ListDimName); |
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140 | CellInfo{icell}.CoordSize(idim)=Data.DimValue(check_index); |
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141 | end |
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142 | CellInfo{icell}.CoordSize=prod(CellInfo{icell}.CoordSize); |
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143 | end |
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144 | ind_y=find(strcmp('coord_y',Role(VarIndex))); |
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145 | if numel(VarIndex)==2||isempty(ind_y)% no variable, except possibly y |
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146 | NbDim(icell)=1; |
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147 | else |
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148 | CellInfo{icell}.CoordType='scattered'; |
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149 | ind_z=find(strcmp('coord_z',Role(VarIndex))); |
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150 | if numel(VarIndex)==3||isempty(ind_z)% no z variable, except possibly as a fct z(x,y) |
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151 | CellInfo{icell}.CoordIndex=[VarIndex(ind_y) CellInfo{icell}.CoordIndex]; |
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152 | NbDim(icell)=2; |
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153 | else |
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154 | CellInfo{icell}.CoordIndex=[VarIndex(ind_z) CellInfo{icell}.CoordIndex]; |
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155 | NbDim(icell)=3; |
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156 | end |
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157 | end |
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158 | end |
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159 | CellInfo{icell}.VarIndex=VarIndex; |
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160 | check_select=check_select|check_cell; |
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161 | end |
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162 | end |
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163 | |
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164 | %% look for tps coordinates |
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165 | ivar_remain=find(~check_select);% indices of remaining variables (not already selected) |
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166 | check_coord_tps= strcmp('coord_tps',Role(~check_select)); |
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167 | ivar_tps=ivar_remain(check_coord_tps);% variable indices corresponding to tps coordinates |
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168 | |
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169 | % loop on the tps coordinate sets |
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170 | for icell_tps=1:numel(ivar_tps) |
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171 | check_cell=zeros(1,nbvar);% =1 for the variables selected in the current cell |
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172 | check_cell(ivar_tps(icell_tps))=1;% mark the coordinate variable as selected |
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173 | DimCell=Data.VarDimName{ivar_tps(icell_tps)};% dimension names for the current tps coordinate variable |
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174 | icell=numel(CellInfo)+icell_tps; % new field cell index |
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175 | CellInfo{icell}.CoordIndex=ivar_tps(icell_tps);% index of the tps coordinate variable |
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176 | if numel(DimCell)==3 |
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177 | VarDimName=Data.VarDimName(~check_select); |
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178 | for ivardim=1:numel(VarDimName) |
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179 | if strcmp(VarDimName{ivardim},DimCell{3}) |
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180 | CellInfo{icell}.NbCentres_tps= ivar_remain(ivardim);% nbre of sites for each tps subdomain |
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181 | check_cell(ivar_remain(ivardim))=1;% mark the variable as selected |
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182 | elseif strcmp(VarDimName{ivardim}{1},DimCell{2}) && numel(VarDimName{ivardim})>=3 && strcmp(VarDimName{ivardim}{3},DimCell{3}) |
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183 | CellInfo{icell}.SubRange_tps=ivar_remain(ivardim);% subrange definiton for tps |
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184 | check_cell(ivar_remain(ivardim))=1;% mark the variable as selected |
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185 | elseif strcmp(VarDimName{ivardim}{1},DimCell{1}) && strcmp(VarDimName{ivardim}{2},DimCell{3})% variable |
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186 | check_cell(ivar_remain(ivardim))=1;% mark the variable as selected |
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187 | end |
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188 | end |
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189 | end |
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190 | CellInfo{icell}.CoordType='tps'; |
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191 | CellInfo{icell}.VarIndex=find(check_cell); |
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192 | if check_var |
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193 | NbDim(icell)=size(Data.(Data.ListVarName{CellInfo{icell}.CoordIndex}),2); |
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194 | CellInfo{icell}.CoordSize=size(Data.(Data.ListVarName{CellInfo{icell}.CoordIndex}),1)*size(Data.(Data.ListVarName{CellInfo{icell}.CoordIndex}),3); |
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195 | else |
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196 | check_index_1= strcmp(DimCell{1},Data.ListDimName); |
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197 | check_index_2= strcmp(DimCell{2},Data.ListDimName); |
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198 | NbDim(icell)=Data.DimValue(check_index_2); |
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199 | if numel(DimCell)>=3 |
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200 | check_index_3= strcmp(DimCell{3},Data.ListDimName); |
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201 | CellInfo{icell}.CoordSize=Data.DimValue(check_index_1)*Data.DimValue(check_index_3); |
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202 | end |
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203 | end |
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204 | check_select=check_select|check_cell; |
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205 | end |
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206 | |
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207 | %% look for coordinate variables and corresponding gridded data: |
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208 | % coordinate variables are variables associated with a single dimension, defining the coordinate values |
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209 | % two cases: 1)the coordiante variable represents the set of coordiante values |
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210 | % 2)the coordinate variable contains only two elements, representing the coordinate bounds for the dimension with the same name as the cordinate |
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211 | ivar_remain=find(~check_select);% indices of remaining variables, not already taken into account |
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212 | ListVarName=Data.ListVarName(~check_select);%list of remaining variables |
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213 | VarDimName=Data.VarDimName(~check_select);%dimensions of remaining variables |
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214 | check_coord_select= cellfun(@numel,VarDimName)==1|cellfun(@ischar,VarDimName)==1;% find remaining variables with a single dimension |
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215 | check_coord_select=check_coord_select & ~strcmp('ancillary',Role(~check_select));% do not select ancillary variables as coordinates |
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216 | %check_coord(~check_select)=check_coord_select; |
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217 | ListCoordIndex=ivar_remain(check_coord_select);% indices of remaining variables with a single dimension |
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218 | ListCoordName=ListVarName(check_coord_select);% corresponding names of remaining variables with a single dimension |
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219 | ListDimName=VarDimName(check_coord_select);% dimension names of remaining variables with a single dimension |
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220 | |
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221 | %remove redondant variables -> keep only one variable per dimension |
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222 | check_keep=logical(ones(size(ListDimName))); |
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223 | for idim=1:numel(ListDimName) |
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224 | prev_ind=strcmp(ListDimName{idim},ListDimName(1:idim-1));% check whether the dimension is already taken into account |
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225 | if ~isempty(prev_ind) |
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226 | if strcmp(ListCoordName{idim},ListDimName{idim}) %variable with the same name as the coordinate taken in priority |
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227 | check_keep(prev_ind)=0; |
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228 | else |
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229 | check_keep(idim)=0; |
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230 | end |
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231 | end |
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232 | end |
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233 | ListCoordIndex=ListCoordIndex(check_keep);% list of coordinate variable indices |
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234 | ListCoordName=ListCoordName(check_keep);% list of coordinate variable names |
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235 | ListDimName=ListDimName(check_keep);% list of coordinate dimension names |
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236 | |
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237 | % determine dimension sizes |
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238 | CoordSize=zeros(size(ListCoordIndex)); |
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239 | for ilist=1:numel(ListCoordIndex) |
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240 | if iscell(ListDimName{ilist}) |
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241 | ListDimName(ilist)=ListDimName{ilist};%transform cell to string |
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242 | end |
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243 | if check_var% if the list of dimensions has been directly defined, no variable data available |
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244 | CoordSize(ilist)=numel(Data.(ListCoordName{ilist}));% number of elements in the variable corresponding to the dimension #ilist |
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245 | else |
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246 | check_index= strcmp(ListDimName{ilist},Data.ListDimName);% find the index in the list of dimensions |
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247 | CoordSize(ilist)=Data.DimValue(check_index);% find the corresponding dimension value |
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248 | end |
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249 | if CoordSize(ilist)==2% case of uniform grid coordinate defined by lower and upper bounds only |
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250 | ListDimName{ilist}=ListCoordName{ilist};% replace the dimension name by the coordinate variable name |
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251 | end |
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252 | end |
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253 | |
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254 | %% group the remaining variables in cells sharing the same coordinate variables |
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255 | NewCellInfo={}; |
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256 | NewCellDimIndex={}; |
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257 | NewNbDim=[]; |
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258 | for ivardim=1:numel(VarDimName) % loop at the list of remaining variables |
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259 | DimCell=VarDimName{ivardim};% dimension names of the current variable |
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260 | if ischar(DimCell), DimCell={DimCell}; end %transform char to cell if needed |
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261 | DimIndices=[]; |
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262 | for idim=1:numel(DimCell) |
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263 | ind_dim=find(strcmp(DimCell{idim},ListDimName));%find the dim index in the list of dimensions ListDimName |
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264 | if ~isempty(ind_dim) |
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265 | DimIndices=[DimIndices ind_dim]; %update the list of dim indices included in DimCell |
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266 | if check_var && CoordSize(ind_dim)==2 % determine the size of the coordinate in case of coordinate definition limited to lower and upper bounds |
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267 | if isvector(Data.(ListVarName{ivardim})) |
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268 | if numel(Data.(ListVarName{ivardim}))>2 |
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269 | CoordSize(ind_dim)=numel(Data.(ListVarName{ivardim})); |
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270 | end |
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271 | else |
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272 | CoordSize(ind_dim)=size(Data.(ListVarName{ivardim}),idim); |
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273 | end |
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274 | end |
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275 | end |
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276 | end |
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277 | % look for cells of variables with the same coordinate variables |
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278 | check_previous=0; |
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279 | for iprev=1:numel(NewCellInfo) |
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280 | if isequal(DimIndices,NewCellDimIndex{iprev}) |
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281 | check_previous=1; |
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282 | NewCellInfo{iprev}.VarIndex=[NewCellInfo{iprev}.VarIndex ivar_remain(ivardim)];%append the current variable index to the found field cell |
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283 | break |
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284 | end |
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285 | end |
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286 | % create a new cell if no previous one contains the coordinate variables |
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287 | if ~check_previous |
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288 | nbcell=numel(NewCellInfo)+1; |
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289 | NewCellDimIndex{nbcell}=DimIndices; |
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290 | NewCellInfo{nbcell}.VarIndex=ivar_remain(ivardim);% create a new field cell with the current variable index |
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291 | NewNbDim(nbcell)=numel(DimIndices); |
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292 | NewCellInfo{nbcell}.CoordType='grid'; |
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293 | NewCellInfo{nbcell}.CoordSize=CoordSize(DimIndices); |
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294 | NewCellInfo{nbcell}.CoordIndex=ListCoordIndex(DimIndices); |
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295 | end |
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296 | end |
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297 | NbDim=[NbDim NewNbDim]; |
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298 | CellInfo=[CellInfo NewCellInfo]; |
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299 | |
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300 | %% suppress empty cells or cells with a single coordinate variable |
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301 | check_remove=false(size(CellInfo)); |
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302 | for icell=1:numel(check_remove) |
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303 | if isempty(CellInfo{icell})||(numel(CellInfo{icell}.VarIndex)==1 && check_coord(icell)) |
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304 | check_remove(icell)=1; |
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305 | end |
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306 | end |
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307 | CellInfo(check_remove)=[]; |
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308 | NbDim(check_remove)=[]; |
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309 | |
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310 | %% document roles of non-coordinate variables |
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311 | for icell=1:numel(CellInfo) |
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312 | VarIndex=CellInfo{icell}.VarIndex; |
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313 | for ivar=VarIndex |
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314 | if isfield(CellInfo{icell},['VarIndex_' Role{ivar}]) |
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315 | CellInfo{icell}.(['VarIndex_' Role{ivar}])=[CellInfo{icell}.(['VarIndex_' Role{ivar}]) ivar]; |
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316 | else |
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317 | CellInfo{icell}.(['VarIndex_' Role{ivar}])= ivar; |
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318 | end |
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319 | if ~isempty(ProjModeRequest{ivar}) |
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320 | CellInfo{icell}.ProjModeRequest=ProjModeRequest{ivar}; |
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321 | end |
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322 | if ~isempty(FieldName{ivar}) |
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323 | CellInfo{icell}.FieldName=FieldName{ivar}; |
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324 | end |
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325 | if CheckSub(ivar)==1 |
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326 | CellInfo{icell}.CheckSub=1; |
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327 | end |
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328 | end |
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329 | end |
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