[Biopython-dev] [Bug 2502] New: PSIBlastParser fails with blastpgp 2.2.18 though works with blastpgp 2.2.15

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

http://bugzilla.open-bio.org/show_bug.cgi?id=2502

           Summary: PSIBlastParser fails with blastpgp 2.2.18 though works
                    with blastpgp 2.2.15
           Product: Biopython
           Version: 1.45
          Platform: PC
        OS/Version: Linux
            Status: NEW
          Severity: normal
          Priority: P2
         Component: Main Distribution
        AssignedTo: biopython-dev at biopython.org
        ReportedBy: ibdeno at gmail.com


When parsing a PSI-Blast result from blastpgp version 2.2.18 I get this error:

Traceback (most recent call last):
  File "./lpbl.py", line 23, in <module>
    b_record = b_parser.parse(blast_out)
  File "/home/mortiz/Progs//lib/python/Bio/Blast/NCBIStandalone.py", line 760,
in parse
    self._scanner.feed(handle, self._consumer)
  File "/home/mortiz/Progs//lib/python/Bio/Blast/NCBIStandalone.py", line 98,
in feed
    self._scan_header(uhandle, consumer)
  File "/home/mortiz/Progs//lib/python/Bio/Blast/NCBIStandalone.py", line 208,
in _scan_header
    raise ValueError("Invalid header?")
ValueError: Invalid header?

The same script and same input just works with blastpgp 2.2.15

I will attach script and input file later.


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