[BioPython] import Standalone problems
Peter
biopython at maubp.freeserve.co.uk
Thu Jul 13 21:33:45 UTC 2006
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
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