updateScores

 updateScores : updates the raw scores using scoreFunction and coefficients 
 Coefficients are the A or E (can be a neural network) that were created
 during training.
 It saves the loaded data (seg files) at the same location with the new scores.

 INPUT : 
       dirname : directory with seg files 
       xChoice : 'segs' to load _seg.mat files, anything else loads *_seg*.mat 
       coefficients : A (segs) or E (regs), coefficients or network
       scoreFunction : function used to calculate score

 Copyright (C) 2016 Wiggins Lab 
 Written by Stella Stylianidou.
 University of Washington, 2016
 This file is part of SuperSegger.
 
 SuperSegger is free software: you can redistribute it and/or modify
 it under the terms of the GNU General Public License as published by
 the Free Software Foundation, either version 3 of the License, or
 (at your option) any later version.
 
 SuperSegger is distributed in the hope that it will be useful,
 but WITHOUT ANY WARRANTY; without even the implied warranty of
 MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
 GNU General Public License for more details.
 
 You should have received a copy of the GNU General Public License
 along with SuperSegger.  If not, see <http://www.gnu.org/licenses/>.

0001 function updateScores(dirname,xChoice,coefficients,scoreFunction)
0002 % updateScores : updates the raw scores using scoreFunction and coefficients
0003 % Coefficients are the A or E (can be a neural network) that were created
0004 % during training.
0005 % It saves the loaded data (seg files) at the same location with the new scores.
0006 %
0007 % INPUT :
0008 %       dirname : directory with seg files
0009 %       xChoice : 'segs' to load _seg.mat files, anything else loads *_seg*.mat
0010 %       coefficients : A (segs) or E (regs), coefficients or network
0011 %       scoreFunction : function used to calculate score
0012 %
0013 % Copyright (C) 2016 Wiggins Lab
0014 % Written by Stella Stylianidou.
0015 % University of Washington, 2016
0016 % This file is part of SuperSegger.
0017 %
0018 % SuperSegger is free software: you can redistribute it and/or modify
0019 % it under the terms of the GNU General Public License as published by
0020 % the Free Software Foundation, either version 3 of the License, or
0021 % (at your option) any later version.
0022 %
0023 % SuperSegger is distributed in the hope that it will be useful,
0024 % but WITHOUT ANY WARRANTY; without even the implied warranty of
0025 % MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
0026 % GNU General Public License for more details.
0027 %
0028 % You should have received a copy of the GNU General Public License
0029 % along with SuperSegger.  If not, see <http://www.gnu.org/licenses/>.
0030 
0031 
0032 if ~strcmp (xChoice,'segs') && ~strcmp (xChoice,'regs')
0033     disp('no x chosen, optimizing segments');
0034     xChoice = 'segs';
0035 end
0036 
0037 
0038 if strcmp (xChoice,'segs')
0039     contents = dir([dirname,'*_seg.mat']);
0040 else
0041     contents = dir([dirname,'*_seg*.mat']);
0042 end
0043 
0044 for i = 1 : numel(contents)
0045     dataname = [dirname,contents(i).name];
0046     data = load(dataname);
0047     if strcmp (xChoice,'segs')
0048         X = data.segs.info;
0049         [data.segs.scoreRaw] = scoreFunction (X,coefficients)';
0050         data.regs.score = ones(data.regs.num_regs,1);
0051     else
0052          X = data.regs.info;
0053         [data.regs.scoreRaw] = scoreFunction (X,coefficients)';
0054     end
0055     % save data with updated scores
0056     save(dataname,'-STRUCT','data');
0057 end
0058     
0059 end
0060