Changeset 459 for trunk/src/series/sub_background.m

Timestamp:

Jun 18, 2012, 9:23:41 AM (12 years ago)

Author:

sommeria

Message:

sub_background and time series set to the new standards

File:

• trunk/src/series/sub_background.m (modified) (7 diffs)

trunk/src/series/sub_background.m

@@ -54 +54 @@
 
     
-function GUI_config=sub_background (Param)
+function ParamOut=sub_background (Param)
 
 %% set the input elements needed on the GUI series when the action is selected in the menu ActionName
 if ~exist('Param','var') % case with no input parameter 
-    GUI_config={'NbViewMax';1;...% max nbre of input file series (default='' , no limitation)
+    ParamOut={'NbViewMax';1;...% max nbre of input file series (default='' , no limitation)
         'AllowInputSort';'off';...% allow alphabetic sorting of the list of input files (options 'off'/'on', 'off' by default)
         'WholeIndexRange';'on';...% prescribes the file index ranges from min to max (options 'off'/'on', 'off' by default)
@@ -75 +75 @@
 %% select different modes,  RUN, parameter input, BATCH
 % BATCH  case: read the xml file for batch case
+ParamOut=Param; %default output
 if ischar(Param)
     if strcmp(Param,'input?')
-        checkrun=1;% will inly search input parameters (preparation of BATCH mode)
+        checkrun=1;% will search input parameters (preparation of BATCH mode)
     else
         Param=xml2struct(Param);
@@ -206 +207 @@
         return
     end
-    GUI_config.CheckVolume=strcmp(answer{1},'Yes');
-    GUI_config.SlidingSequenceSize=nbaver_ima;
-    GUI_config.BrightnessRankThreshold=str2num(answer{3});
+    ParamOut.Specific.CheckVolume=strcmp(answer{1},'Yes');
+    ParamOut.Specific.SlidingSequenceSize=nbaver_ima;
+    ParamOut.Specific.BrightnessRankThreshold=str2num(answer{3});
     
     % apply the image rescaling function 'level' (avoid the blinking effects of bright particles)
     answer=msgbox_uvmat('INPUT_Y-N','apply image rescaling function levels.m after sub_background');
-    GUI_config.CheckLevelTransform=strcmp(answer,'Yes');
-    if checkrun==2
+    ParamOut.Specific.CheckLevelTransform=strcmp(answer,'Yes');
+    if checkrun==1
          return 
     end
     %%%%%%%%%%%%%%%%%%%%%%  STOP HERE FOR PAMETER INPUT MODE  %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
 else
-    GUI_config=Param.Specific;
-    if isequal(GUI_config.CheckVolume,1)
+    if isequal(Param.Specific.CheckVolume,1)
         step=1;
     else
         step=nbfield_j;%case of bursts: the sliding background is shifted by the length of one burst
     end
-    nbaver_ima=GUI_config.SlidingSequenceSize;%number of images for the sliding background
+    nbaver_ima=Param.Specific.SlidingSequenceSize;%number of images for the sliding background
     nbaver=ceil(nbaver_ima/step);%number of bursts for the sliding background
     if isequal(floor(nbaver/2),nbaver)
@@ -237 +237 @@
 
 % calculate absolute brightness rank
-rank=floor(GUI_config.BrightnessRankThreshold*nbaver_ima);
+rank=floor(ParamOut.Specific.BrightnessRankThreshold*nbaver_ima);
 if rank==0
     rank=1;%rank selected in the sorted image series
@@ -341 +341 @@
         
         %write result file
-        if GUI_config.CheckLevelTransform
+        if ParamOut.Specific.CheckLevelTransform
             C=levels(Acor);
             imwrite(C,newname,'BitDepth',8); % save the new image
@@ -390 +390 @@
                     newname=fullfile_uvmat(RootPath{1},Param.OutputSubDir,RootFile{1},FileExtOut,NomTypeOut,i1_series{1}(ifile),[],j1);
                     %write result file
-                    if GUI_config.CheckLevelTransform
+                    if ParamOut.Specific.CheckLevelTransform
                         C=levels(Acor);
                         imwrite(C,newname,'BitDepth',8); % save the new image
@@ -425 +425 @@
         
         %write result file
-        if GUI_config.CheckLevelTransform
+        if ParamOut.Specific.CheckLevelTransform
             C=levels(Acor);
             imwrite(C,newname,'BitDepth',8); % save the new image