CloneSet326

Bio/Sequencing/Ace.py

Bio/Sequencing/Ace.py

        while True: 
             if not line.startswith("AF "): 
                  break 
             record.af.append(af(line)) 
             try :
                 
                 line = handle.next( ) 
             except StopIteration: 
                  raise ValueError("Unexpected end of AF block") 
             

        while True: 
             if not line.startswith("BS "): 
                  break 
             record.bs.append(bs(line)) 
             try :
                 
                 line = handle.next( ) 
             except StopIteration: 
                  raise ValueError("Failed to find end of BS block") 

          # now read all the read data
          # it starts with a 'RD', and then a mandatory QA
          # then follows an optional DS
          # CT,RT,WA,WR may or may not be there in unlimited quantity. They might refer to the actual read or contig,
          # or, if encountered at the end of file, to any previous read or contig. the sort() method deals
          # with that later.
             

while True:
  if not line.startswith( [[#variable7d145a20]]):
  
    break 
  record. [[#variable7d1459a0]].append( [[#variable7d1459a0]](line)) 
  try :
  
    line = handle.next( ) 
  except StopIteration:
  
    raise ValueError( [[#variable7d145920]]) 
    # now read all the read data
    # it starts with a 'RD', and then a mandatory QA
    # then follows an optional DS
    # CT,RT,WA,WR may or may not be there in unlimited quantity. They might refer to the actual read or contig,
    # or, if encountered at the end of file, to any previous read or contig. the sort() method deals
    # with that later.
  
 

"AF " 

"BS " 

af 

bs 

"Unexpected end of AF block" 

"Failed to find end of BS block"