SVMCrossVal.git

@@ -1,10 +1,8 @@

-function outputStruct = calculateDecodePerformance(timeline,subjectStruct,model)

+function outputStruct = calculateDecodePerformance(timeline,subjectStruct,svmopts)

 outputStruct = struct;

-RANDOMIZE_DATAPOINTS = 0;

+RANDOMIZE_DATAPOINTS = 1;

-eventList       = inputStruct.eventList;

-

 timeLineStart   = timeline.frameShiftStart;

 timeLineEnd     = timeline.frameShiftEnd;

@@ -17,11 +15,8 @@ timeLineEnd     = timeline.frameShiftEnd;

 %     pst{iVoxel} = calculatePST(timeline,calculatePstOpts,rawdata);

 % end

-

-

-timePointArgs.pst = pst;

-

-timePointArgs.labelMap      = inputStruct.labelMap;

+timePointArgs.pst           = subjectStruct.pst;

+timePointArgs.labelMap      = labelMap;

 timePointArgs.eventList     = eventList;

 timePointMatrix = buildTimePointMatrix(timeline,timePointArgs);

@@ -0,0 +1,33 @@

+%% subject loop

+function decode = calculateMultiSubjectDecodePerformance(header,subjectdata,svmopts)

+

+

+

+decode = struct;

+decode.decodePerformance = [];

+decode.rawTimeCourse     = [];

+

+for subjectDataID = 1:size(subjectdata)

+%     SubjectID = cell2mat(subjectCell);

+    currentSubject = subjectdata{subjectDataID};

+

+    namehelper = strcat('s',currentSubject.name); %Vars can not start with numbers.

+

+    display(sprintf('calculating cross-validation performance time-shift for Subject %s. Please Wait. ...',currentSubject.name));

+    display('switching off all warnings');

+    warning_state               = warning('off','all');

+    display('calculating ...');

+    

+        decode.(namehelper)         = calculateDecodePerformance(header.timeline,currentSubject,svmopts);

+

+    display('... done');

+    display('restoring warnings');

+    warning(warning_state);

+

+    decode.decodePerformance    = [decode.decodePerformance decode.(namehelper).decodePerformance];

+    decode.rawTimeCourse        = [decode.rawTimeCourse decode.(namehelper).rawTimeCourse];

+

+    assignin('base','decode',decode);

+end

+

+end

@@ -1,10 +1,20 @@

-function main(model,task)

-

-% parse the GUI and pass parameters as structure

+function main(model,task,subtask)

 disp('RUN');

+switch task 

+    

+    case 'pre'

+        preprocess(model,subtask);

+    case 'decode'

+        decode(model,subtask);

+end

+end

 % disp('all warnings OFF')

 % warn = warning('off','all');

+

+function preprocess(model,task)

+% parse the GUI and pass parameters as structure

+

 timeLine = getTimeLineParams(model);

 subjects = getSubjectCellList(model);

 classDef = parseClassDef(model);

@@ -16,6 +26,14 @@ mask     = ['^' cell2mat(getImageFileMask(model)) '.*\.img$'];

 switch task

     case 'COORD'

         disp('COORD');

+       

+        out = struct;

+        out.header = struct;

+        out.header.type = 'COORD';

+        out.header.timeline = timeLine;

+        out.header.classDef = classDef;

+        

+        

         coordargs = struct;

         coordargs.subjects      = subjects;

         coordargs.timeline      = timeLine;

@@ -25,7 +43,9 @@ switch task

         coordargs.coords        = parseCoordinateTextField(model);

         coordargs.mask          = mask;

-        runCoordTable(coordargs)

+        out.subjectdata = runCoordTable(coordargs);

+        

+        assignin('base','preprocessedData',out);

     case 'ROI'

         disp('ROI');

@@ -41,16 +61,27 @@ switch task

         runROIImageMaskMode(roiargs);

     case 'FBS'

-        disp('FBS')

+        disp('not implemented')

+end

+end

+function decode(model,task)

+switch task

     case 'SVM'

-        disp('classify with svm');

+        disp('SVM');

+        svmopts    = getSvmArgs(model,1);

+        preprocessedData = evalin('base','preprocessedData');

+        calculateMultiSubjectDecodePerformance(preprocessedData.header,preprocessedData.subjectdata,svmopts);

+        

     case 'X-SVM'

+        disp('not implemented')

     case 'SOM'

+        disp('not implemented')

     case 'X-SOM'

+        disp('not implemented')

 end

@@ -1,4 +1,4 @@

-function runCoordTable(args)

+function subjectData = runCoordTable(args)

 global SVMCROSSVAL_SUBJECTSTRUCT_NAME;

@@ -40,5 +40,6 @@ global SVMCROSSVAL_SUBJECTSTRUCT_NAME;

        disp(sprintf('done %g // %g',s,nSubjects));

     end

-    assignin('base',SVMCROSSVAL_SUBJECTSTRUCT_NAME,subjectStruct);

+    subjectData = subjectStruct;

+%     assignin('base',SVMCROSSVAL_SUBJECTSTRUCT_NAME,subjectStruct);

 end

@@ -36,6 +36,7 @@ DEFAULT.wd  = fullfile('d:','Analyze','Choice','24pilot');

     model.txtBaseDir = createLabel(frame,[0 0.97 1 0.03],model.baseDir);

     set(model.txtBaseDir,'BackgroundColor','w');

+    set(model.txtBaseDir,'ForegroundColor','b');

     pFirstStep   = uipanel(frame,'Title','Preprocessing','Position',[0 0.25 1 0.720]);

     set(pFirstStep,'BackgroundColor','w');

@@ -126,28 +121,29 @@ pSOM = uipanel(parent,'Units','normalized','Position',[0.5 0.0 0.5 1]);

         set(model.txtSOMnfold,'Enable','off');

     createLabel(pSOM,[0.5 0.50 0.5 0.25 ],'-Fold CrossVal');

+% buttons

     btnRunSVM = uicontrol(pSVM,'String','run SVM Crossvalidation',...

         'Units','normalized',...

         'Position',[0 0.25 1 0.25]);

-    set(btnRunSVM,'Callback',{@cbRunSVM,model}); % set here, because of model.

-    set(btnRunSVM,'Enable','off');

+    set(btnRunSVM,'Callback',{@cbRunDecode,model,'SVM'}); % set here, because of model.

+    set(btnRunSVM,'Enable','on');

     btnRunXSVM = uicontrol(pSVM,'String','run SVM X-Subject validation',...

         'Units','normalized',...

         'Position',[0 0.0 1 0.25]);

-    set(btnRunXSVM,'Callback',{@cbRunXSVM,model}); % set here, because of model.

+    set(btnRunXSVM,'Callback',{@cbRunDecode,model,'XSVM'}); % set here, because of model.

     set(btnRunXSVM,'Enable','off');

     btnRunSOM = uicontrol(pSOM,'String','run SOM Crossvalidation',...

         'Units','normalized',...

     'Position',[0.0 0.25 1 0.25]);

-    set(btnRunSOM,'Callback',{@cbRunSOM,model}); % set here, because of model.

+    set(btnRunSOM,'Callback',{@cbRunDecode,model,'SOM'}); % set here, because of model.

     set(btnRunSOM,'Enable','off');

     btnRunXSOM = uicontrol(pSOM,'String','run SOM X-Subject validation',...

         'Units','normalized',...

         'Position',[0.0 0.0 1 0.25]);

-    set(btnRunXSOM,'Callback',{@cbRunXSOM,model}); % set here, because of model.

+    set(btnRunXSOM,'Callback',{@cbRunDecode,model,'XSOM'}); % set here, because of model.

     set(btnRunXSOM,'Enable','off');

 end

@@ -322,7 +318,11 @@ function model = createFirstStepPanel(model,parent,DEFAULT)

 end

 function cbRunPreprocessing(src,evnt,model,task)

-main(model,task);

+main(model,'pre',task);

+end

+

+function cbRunDecode(src,evnt,model,task)

+main(model,'decode',task);

 end

 function label = createLabel(parent,  pos, labelText)