[Biopython-dev] [Bug 2654] New: Bio.Blast.NCBIStandalone does not support the output file argument

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

http://bugzilla.open-bio.org/show_bug.cgi?id=2654

           Summary: Bio.Blast.NCBIStandalone does not support the output
                    file argument
           Product: Biopython
           Version: Not Applicable
          Platform: PC
        OS/Version: All
            Status: NEW
          Severity: enhancement
          Priority: P2
         Component: Main Distribution
        AssignedTo: biopython-dev at biopython.org
        ReportedBy: biopython-bugzilla at maubp.freeserve.co.uk


The NCBI blastall tool defaults to writing its output to standard out, but can
be told to write to a file instead:

  -o  BLAST report Output File [File Out]  Optional

Currently Bio.Blast.NCBIStandalone.blastall() does not support this optional
argument - meaning the user wants to save the output they must do this manually
from the standard out handle.

This also applies to rpsblast and blastpgp as well.


-- 
Configure bugmail: http://bugzilla.open-bio.org/userprefs.cgi?tab=email
------- You are receiving this mail because: -------
You are the assignee for the bug, or are watching the assignee.