.

Functions_output.py

@@ -245,12 +245,6 @@ def print_current_var(variation,feat_start,list_segfeat_azu,feat,i):
         line=f'{variation.feature_id}\t{variation.feature_type}\t{variation.chr}\t{variation.start_new}\t{variation.stop_new}\t{variation.size_new}\t{variation.inversion}\t{variation.size_diff}\tdeletion\t{variation.ref}\t-\t{len(variation.ref)}\t{pos_old}\t{pos_new}\n'
         write_line(line,output_variations,False)
     elif variation.type=='substitution':
-
-        # detect inversions : look for segments common if we dont consider the orientation ? 
-        # in nb : look for segment_i[1:] in azu. if not found, continue. if nb finished, no inv.
-        # if found ! : look for the next one. if not found, just print the inversion of 1 segment. 
-        # what about inversions with indel/subs inside ?? 
-
         [pos_old,pos_new]=get_old_new_pos_substitution(feat_start,variation,list_segfeat_azu,feat)
         if len(variation.ref) == len(variation.alt): # if the substituion is between two segment of the same size, print it
             size_subs=len(variation.ref)