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

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

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





------- Comment #32 from drpatnaik at yahoo.com  2008-10-02 01:16 EST -------
(Foolow-up to comment #31)

Some more working BLAST command (multiple databases) examples, on Windows XP:

1. No need to use the backslash as a directory-separator:

    "C:/Documents and Settings/patnaik/My Documents/blast/bin/blastall.exe" -p
blastn -d "\"C:/Documents and Settings/patnaik/My Documents/blast/data/db 1\"
\"C:/Documents and Settings/patnaik/My Documents/blast/data/db 2\"" -i
"C:/Documents and Settings/patnaik/My Documents/blast/data/My 30a.seq" -m 7

2. Multiple databases, with no spaces in the database pointers:

    "C:/Documents and Settings/patnaik/My Documents/blast/bin/blastall.exe" -p
blastn -d "C:\DOCUME~1\patnaik\MYDOCU~1\blast\data\DB1~1
C:\DOCUME~1\patnaik\MYDOCU~1\blast\data\DB2~1
C:\DOCUME~1\patnaik\MYDOCU~1\blast\data\db3" -i "C:/Documents and
Settings/patnaik/My Documents/blast/data/My 30a.seq" -m 7

3. Multiple databases, with database pointers with and without spaces:

    "C:/Documents and Settings/patnaik/My Documents/blast/bin/blastall.exe" -p
blastn -d "\"C:/Documents and Settings/patnaik/My Documents/blast/data/db 1\"
\"C:/Documents and Settings/patnaik/My Documents/blast/data/db 2\"
C:\DOCUME~1\patnaik\MYDOCU~1\blast\data\db3" -i "C:/Documents and
Settings/patnaik/My Documents/blast/data/My 30a.seq" -m 7


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