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

Torsten Seemann torsten.seemann at infotech.monash.edu.au
Thu Mar 2 05:50:44 EST 2006


> 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.


Just an idea,

--Torsten Seemann
--Victorian Bioinformatics Consortium, Australia.

More information about the Bioperl-l mailing list