[BioPython] help with NCBIWWW parser

Edoardo Saccenti saccenti at cerm.unifi.it
Wed Sep 13 17:22:46 UTC 2006


Hi Folks!

I'm trying to parse the output of blast search done using the NCBIWWW
qblast.

To parse the reusults I use:

    import cStringIO
    blast_out = cStringIO.StringIO(blast_result)
    b_parser = NCBIWWW.BlastParser()
    b_record = b_parser.parse(blast_out)

as shown in the Biopython cookbook but my program fails and I get the
following warning from my editor (eric)

"The program being debugged contains an unspecified syntax error."

so I do not know how and what to look for.

I suppose NCBI changed something in the html file format.

Any idea??

ciao
edoardo




More information about the Biopython mailing list