Replace mmlib.py to allow PosXX format

ImageJ/utils/mmlib.py

@@ -223,7 +223,7 @@ def generate_file_list(metadata, roi=1, tile=True, pos=False, stack_order=None):
     if v[0] == '1':
         pre_folder = 'Pos0'
     else:
-        pre_folder = 'Default'
+        pre_folder = 'Default' # Is redefined
         
     # Get the combination of all conditions of acquisitions
     all_conditions, ordered_keys = groups_dimensions(metadata, roi, stack_order)
@@ -243,6 +243,10 @@ def generate_file_list(metadata, roi=1, tile=True, pos=False, stack_order=None):
             else:
                 min_pos_index = 0
                 
+            if pos:
+                # Define the pre_folder
+                pre_folder = 'Pos{i}'.format(i=group[ordered_keys.index('position')])
+                         
             base_fmt = fmtMM2.format(filter=group[ordered_keys.index('channels')],
                                      pos=group[ordered_keys.index('position')]+min_pos_index,
                                      time=group[ordered_keys.index('time')],
@@ -253,8 +257,6 @@ def generate_file_list(metadata, roi=1, tile=True, pos=False, stack_order=None):
                                      z=group[ordered_keys.index('z')])
 
 
-        if pos:
-            print('TODO!!!')
 
         image_files += [os.path.join(pre_folder,base_fmt)]