[Bioperl-l] newbie tries StandAloneBlast and receives "cant open BLOSUM62"

[Chris Fields]

Torsten's right.  This is what I have for BLASTDIR:

C:\Documents and Settings\Administrator>echo %BLASTDIR%
C:\Research\blast

Christopher Fields
Postdoctoral Researcher - Switzer Lab
Dept. of Biochemistry
University of Illinois Urbana-Champaign 


> -----Original Message-----
> From: bioperl-l-bounces at lists.open-bio.org [mailto:bioperl-l-
> bounces at lists.open-bio.org] On Behalf Of Torsten Seemann
> Sent: Thursday, March 02, 2006 4:51 AM
> To: bioperl-l at lists.open-bio.org
> Cc: Harald
> Subject: Re: [Bioperl-l] newbie tries StandAloneBlast and receives "cant
> open BLOSUM62"
> 
> Harald,
> 
> > I am a Bioinformatics Newbie and want to use BioPerl for doing BLASTs on
> > a local protein-sequence file. Unfortunately something went wrong, which
> > gives me the error message: "...Unable to open BLOSUM62...".
> 
> > ==============C:/WINNT/ncbi.ini========================
> > [NCBI]
> > Data="D:/BLAST/BLAST-2.2.13/data"
> > ===================================================
> 
> > [NULL_Caption] WARNING:  [000.000]  test_query: Unable to open BLOSUM62
> > [NULL_Caption] WARNING:  [000.000]  test_query: BlastScoreBlkMatFill
> > returned no
> > n-zero status
> > [NULL_Caption] WARNING:  [000.000]  test_query: SetUpBlastSearch failed.
> > 0
> 
> > Does anyone has a clue, what is going wrong? Since my ncbi.ini - file
> > points to the directory, where blosum62 is found, I can not understand
> > this error-message.
> 
> It really looks like it can't find BLOSUM62, which indicates that the
> ncbi.ini file is not being read, or has the wrong syntax.
> 
> Those "/" forward slashes look potentially problematic on a Windows
> platform - perhaps try using "\" backslashes. ie.
> 
> 	[NCBI]
> 	Data="D:\BLAST\BLAST-2.2.13\data"
> 
> Just an idea,
> 
> --Torsten Seemann
> --Victorian Bioinformatics Consortium, Australia.
> 
> 
> 
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