[Biopython-dev] [Bug 2480] Local BLAST fails: Spaces in Windows file-path values

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http://bugzilla.open-bio.org/show_bug.cgi?id=2480





------- Comment #36 from biopython-bugzilla at maubp.freeserve.co.uk  2008-10-10 17:12 EST -------
Note that os.popen3 is deprecated in python 2.6 which gives another reason for
moving to subprocess.

After testing on Linux as well, I have updated Bio/Blast/NCBIStandalone.py in
CVS revision 1.82, based on changes discussed here.

See:
http://cvs.biopython.org/cgi-bin/viewcvs/viewcvs.cgi/biopython/Bio/Blast/NCBIStandalone.py?cvsroot=biopython

We now use subprocess where present (i.e. python 2.4+) and fall back to
os.popen3 (for python 2.3).  This fixes Bug 2528, and should fix this as well
(Bug 2480) - assuming we leave things as they are for spaces in the database
argument.


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