[Biopython-dev] [Bug 2529] New: NCBI BLAST XML parser does not support the online blast version 2.2.18+

[bugzilla-daemon at portal.open-bio.org]

http://bugzilla.open-bio.org/show_bug.cgi?id=2529

           Summary: NCBI BLAST XML parser does not support the online blast
                    version 2.2.18+
           Product: Biopython
           Version: 1.45
          Platform: PC
        OS/Version: Linux
            Status: NEW
          Severity: normal
          Priority: P1
         Component: Other
        AssignedTo: biopython-dev at biopython.org
        ReportedBy: lordnapi at gmail.com
         QAContact: lordnapi at gmail.com


Hello,
I have performed a blast search of PDB database. I am having a problem while
parsing the blast result on both Windows and Linux machines. The following four
lines of code provides me the same error.  Thanks. Ahmet

>>> from Bio.Blast import NCBIWWW
>>> from Bio.Blast import NCBIXML
>>> results_handle = NCBIWWW.qblast( 'blastp', 'pdb', 'ASFPVEILPFLYLGCAKDSTNLDVLEEFGIKYILNVTPNLPNLFENAGEFKYKQIPISDHWSQNLSQ')
>>> blast_record = NCBIXML.parse( results_handle ).next()


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