[BioPython] import Standalone problems

[Peter]

Rohini Damle wrote:
> Hi,
> I am trying to use biopyton's xml parser to parse my blast result.
> Because of NCBI's changed XML output, the current biopython's parser
> fails.
> 
> So I got an advice to run older version of blast locally and get the
> xml out put in older version and then use current XML parser.
> but I am getting an error
> 
> SAXParseException: <unknown>:553:0: junk after document element
> 
> what might be the reson?
> 

Not off hand.  We would usually ask to see the problem XML file...

Do you get the same problem if you run Blast by hand, saving the output 
to a file, and then trying to parse the XML file with BioPython?

Also, which version of standalone blast are you using?

Peter