SVMCrossVal.git

@@ -1,4 +1,29 @@

-function main(action,parameterModel)

+function main(model,task)

+

+% parse the GUI and pass parameters as structure

+disp('RUN');

+timeLine = getTimeLineParams(model);

+subjects = getSubjectCellList(model);

+classDef = parseClassDef(model);

+% images

+% normalization

+

+

+

+switch task

+    case 'COORD'

+        disp('COORD');

+        coordinates= 'parse me'

+        runCoordTable()

+    case 'ROI'

+        disp('ROI');

+        runROIImageMaskMode(subjects,timeLine)

+    case 'FBS'

+        disp('FBS')

+end

+

+return

+

 timeline = getTimeLineParams(parameterModel);

 switch action

     case 'COORD-LOOKUP-TABLE'

@@ -1,51 +1,28 @@

-function runCoordTable(timeline,varargin)

-        paramModel = varargin{1};

+function ppsth = runCoordTable(baseDir,subjects,timeline,coordinates,volumeFileList,classDef)

+%         paramModel = varargin{1};

+    disp('run coord table')

-global SVMCROSSVAL_CROSSVAL_METHOD_DEF;

-global SVMCROSSVAL_VOXEL_SELECTION_MODE_DEF;

+    disp('does not work yet.')

+    return

-

-        %PROJECT_BASE_PATH = 'D:\Analyze\Stimolos';

-        PROJECT_BASE_PATH = paramModel.baseDir;

+        PROJECT_BASE_PATH = baseDir;

         PROJECT_RESULT_PATH = 'results\SPM.mat';

-        % timeline params (claculate and plot)

         timelineParams = timeline;

-%         timelineParams.frameShiftStart = getDouble(paramModel.txtFrameShiftStart);  % -20;

-%         timelineParams.frameShiftEnd   = getDouble(paramModel.txtFrameShiftEnd); %15;

-%         timelineParams.decodeDuration  = getDouble(paramModel.txtFrameShiftDur);

-%         timelineParams.psthStart       = getDouble(paramModel.txtPSTHStart); % -25;

-%         timelineParams.psthEnd         = getDouble(paramModel.txtPSTHEnd); % 20;

-%         timelineParams.baselineStart   = getDouble(paramModel.txtBaselineStart); % -22;

-%         timelineParams.baselineEnd     = getDouble(paramModel.txtBaselineEnd); % -20;       

-%        

         % common params

         calculateParams  = struct;

-%         calculateParams.SVMCROSSVAL_CROSSVAL_METHOD_DEF = SVMCROSSVAL_CROSSVAL_METHOD_DEF;

-        calculateParams.CROSSVAL_METHOD      = SVMCROSSVAL_CROSSVAL_METHOD_DEF.svmcrossval;

-        calculateParams.VOXEL_SELECTION_MODE = SVMCROSSVAL_VOXEL_SELECTION_MODE_DEF.roiImage;

         calculateParams.PROJECT_BASE_PATH    = PROJECT_BASE_PATH;

         calculateParams.PROJECT_RESULT_PATH  = PROJECT_RESULT_PATH;

         calculateParams.RANDOMIZE       = 0;

-        

-%         calculateParams.smoothed        = getChkValue(paramModel.chkSmoothed);

-

-%         calculateParams.svmargs         = get(paramModel.txtSVMopts,'String');

         calculateParams.sessionList     = 1:3;

-        classStruct = parseClassDef(paramModel);

-        

-        

-%         calculateParams.labelMap        = LabelMap(classStruct.labelCells , classStruct.conditionCells, 'auto'); % LabelMap({'<','>','<+<','>+>','<+>','>+<'},{-2,-1,1,2,3,4}); 0 is autolabel

-%         calculateParams.classList       = getClasses(calculateParams.labelMap);

         calculateParams.eventList       = classStruct.eventMatrix; %[9,11,13; 10,12,14];

-%         calculateParams.eventList       = getPSTEventMatrix(calculateParams.labelMap);

-        subjectSelection = {'JZ006'}; %getSubjectIDString(paramModel);

+        subjectSelection = subjects;

         calculateParams.subjectSelection = subjectSelection;

         decode = claculateMultiSubjectDecodePerformance(timelineParams,calculateParams,paramModel);

@@ -61,7 +61,7 @@ DEFAULT.wd  = fullfile('d:','Analyze','Choice','24pilot');

     uimenu(savemenu,'Label','Save','Callback',{@mcb_save,model});

     uimenu(savemenu,'Label','Load','Callback',{@mcb_load,model});

-    cdmenu = uimenu(frame,'Label','change Study','Callback',{@mcb_cd,model});

+    uimenu(frame,'Label','change Study','Callback',{@mcb_cd,model},'Enable','off');

     set(frame,'Visible','on');

@@ -85,7 +85,7 @@ classDefString = getClassDefString(model);

 coordDefString = getCoordDefString(model);

 [file path] = uiputfile('*.mat','Save current Params ...',model.baseDir);

-save( fullfile(path,file),'baseDir','timeLine','subjects','classDefString','coordDefString') ;

+save( fullfile(path,file),'baseDir','timeLine','classDefString','coordDefString') ;

 end

 function model = mcb_load(src,evnt,model)

@@ -328,41 +327,8 @@ function model = createFirstStepPanel(model,parent,DEFAULT)

 end

 function cbRunPreprocessing(src,evnt,model,task)

-

-% parse the GUI and pass parameters as structure

-disp('RUN');

-timeLine = getTimeLineParams(model);

-subjects = getSubjectCellList(model);

-classDef = parseClassDef(model);

-% images

-% normalization

-

-switch task

-    case 'COORD'

-        disp('COORD');

-        coordinates= 'parse me'

-    case 'ROI'

-        disp('ROI');

-        runROIImageMaskMode(subjects,timeLine)

-    case 'FBS'

-        disp('FBS')

+main(model,task)

 end

-end

-

-

-% function cbRunCoordTable(src,evnt,model)

-%     display('RUN Coord-Table Mode');

-%     main('COORD-LOOKUP-TABLE',model);

-% end

-% function cbRunROIImage(src,evnt,model)

-%     display('RUN Image-Mask Mode');

-%     main('ROI-IMAGE-MASK', model);

-% end

-% function cbRunFBS(src,evnt,model)

-%     display('RUN Full Brain Searchlight Mode');

-%     display('not implemented.');

-% end

-

 function label = createLabel(parent,  pos, labelText)

     label = uicontrol(parent,'Style','text','Units','normalized','String',labelText,'Position',pos);