SVMCrossVal.git

@@ -80,10 +80,10 @@ switch task

         out.subjectdata  = fbs_load_mask(model.baseDir,subjects);

-        if(size(subjects,2)>1)

-            display(sprintf('No BATCH Support for Searchlight!'));

-            return

-        end

+%         if(size(subjects,2)>1)

+%             display(sprintf('No BATCH Support for Searchlight!'));

+%             return

+%         end

         fbsargs = struct;

         fbsargs.timeline        = timeLine;

@@ -1,6 +1,8 @@

 function output =  runFBSImageMaskMode(header,subjectdata,fbsargs)

 addpath('NIFTI_20090325');

+DEBUG = 1;

+

 savePath = fullfile('output',datestr(now,30));

 mkdir(savePath);

@@ -96,6 +98,17 @@ for s = 1:nSubjects

 %              sprintf(' %g%%\t complete',p);

 %          end

     end

+    if DEBUG == 1

+        figure;

+        hold on;

+        for i = 1:size(pst,2)

+            plot(mean(pst{:,i}{1}),'r-');

+            plot(mean(pst{:,i}{2}),'b-');

+        end

+        hold off;

+    end

+    

+    

     elapsed{s}.psth = toc;

     disp('psth done');

     warning(warn);

@@ -118,6 +131,8 @@ for s = 1:nSubjects

     % vdim = tmp(7:9); % Voxel-Size

     mask_image = load_nii(subjects{s}.roiFile.fname);

+    tmp = strfind(mask_image.fileprefix,filesep);

+    maskname = mask_image.fileprefix(tmp(end)+1:end);

     vdim = mask_image.hdr.dime.pixdim(2:4);

     if mask_image.hdr.dime.pixdim(1) == 1

@@ -143,7 +158,7 @@ for timeShiftIdx = fbsTimeLine

     frameEndIdx    = min(ceil(frameStartIdx+decodeDuration + 0.5*decodeDuration),-globalStart+globalEnd);

         for rIdx = 1:length(radiusList)

-            img3D{rIdx} = zeros(size(mask_image)); %output image prepare

+            img3D{rIdx}(:,:,:) = zeros(size(mask_image)); %output image prepare

         end

         for iVoxel = 1:nVoxel % linear structure avoids 3D-Loop.

@@ -155,6 +170,10 @@ for timeShiftIdx = fbsTimeLine

                 radius = radiusList(rIdx);

                 % get surrounding coordinate-IDs within radius

                 sphere = fbs_buildSphere(mapping,iVoxel,radius,vdim);

+%                 for i = 1: length(sphere)

+%                      sphere(i )

+%                      mapping.indexToCoordMap.get(sphere(i))

+%                 end

                 %build svm inputmatrix

                 svmdata = [];

@@ -164,7 +183,7 @@ for timeShiftIdx = fbsTimeLine

                     for dp = 1:size(pst{1,anyvoxel}{1,pstConditionGroup},1) % data point

                         svmlabel = [svmlabel; lm_getSVMLabel(labelMap,eventList(pstConditionGroup,1))];

                         row = [];

-                        for voxel = 1:size(sphere,2)

+                        for voxel = sphere

                             row = [row, pst{1,voxel}{1,pstConditionGroup}(dp,frameStartIdx:frameEndIdx)]; % label,[value,value,...],[value,value,...]...

                         end

                         svmdata  = [svmdata; row];

@@ -177,7 +196,7 @@ for timeShiftIdx = fbsTimeLine

                     svmdata   = svmdata(rndindex,:);

                     svmlabel  = svmlabel(rndindex);

                 end

-                

+                decode = 0;

                 decode = svm_single_crossval(svmlabel,svmdata,svmopts);

                 % save the decode value to the corresponding coordinate

@@ -193,9 +212,9 @@ for timeShiftIdx = fbsTimeLine

         for rIdx = 1:length(radiusList)

             radius = radiusList(rIdx);

-            nii = make_nii(img3D{radius},vdim,mask_image.hdr.hist.originator(1:3),16,...

+            nii = make_nii(img3D{rIdx},vdim,mask_image.hdr.hist.originator(1:3),16,...

                 sprintf('decode performance, time relative to onset: %g to %g sec',frameStartIdx,frameEndIdx));

-            save_nii(nii,fullfile(savePath,sprintf('%s-r%g-t%+03g',subjects{s}.name,radius,timeShiftIdx)));

+            save_nii(nii,fullfile(savePath,sprintf('%s-%s-r%g-t%+03g',subjects{s}.name,maskname,radius,timeShiftIdx)));

         end

     end %for each timeslice

     display('rastering done');

@@ -1,6 +1,6 @@

 function ui_main(varargin)

-DEFAULT.selectedSubject = [1];

+DEFAULT.selectedSubject = [2];

 DEFAULT.pststart        = -5;

 DEFAULT.pstend          = 15;

@@ -19,8 +19,8 @@ DEFAULT.searchlightradius = 3;

 DEFAULT.searchlightTimeline = '';

-%DEFAULT.wd  = fullfile('d:','Analyze','Choice','24pilot');

-DEFAULT.wd  = fullfile('/','media','fMRI');

+DEFAULT.wd  = fullfile('d:','Analyze','Choice','24pilot');

+% DEFAULT.wd  = fullfile('/','media','fMRI');

 %  Initialize and hide the GUI as it is being constructed.

     frameWidth=450;

@@ -270,7 +270,7 @@ function model = createFirstStepPanel(model,parent,DEFAULT)

         set(btnRunButton1,'Callback',{@cbRunPreprocessing,model,'COORD'}); % set here, because of model.    

         set(btnRunButton1,'Enable','on');

-        btnRunButton2 = uicontrol(pButtons,'String',sprintf('use this settings for FBS'),...

+        btnRunButton2 = uicontrol(pButtons,'String',sprintf('load ROI for FBS'),...

             'Units','normalized','Position',[0.33 0 0.33 1]);

         set(btnRunButton2,'Callback',{@cbRunPreprocessing,model,'FBS'}); % set here, because of model.  

         set(btnRunButton2,'Enable','on');