can skip alignment with start set to 1

wiggins-lab · Jul 1, 2016 · 4a311d0 · 4a311d0
1 parent 43cacd7
commit 4a311d0
Showing 1 changed file with 5 additions and 1 deletion.
diff --git a/batch/BatchSuperSeggerOpti.m b/batch/BatchSuperSeggerOpti.m
@@ -107,10 +107,14 @@ function BatchSuperSeggerOpti(dirname_,skip,clean_flag,res,startEnd,showWarnings
     end
 end
 
+if startEnd(1) >1 
+    CONST.align.ALIGN_FLAG = 0;
+end
+
 % align frames
 if exist( dirname_, 'dir' )
 
-    if startEnd(1) >1 || exist( [dirname_,filesep,'raw_im'] ,'dir') && ...
+    if exist( [dirname_,filesep,'raw_im'] ,'dir') && ...
             (numel(dir ([dirname_,filesep,'raw_im',filesep,'*.tif'])) || ...
             exist([dirname_,filesep,'raw_im',filesep,'cropbox.mat'],'file'))
         disp('BatchSuperSeggerOpti : images already aligned');