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

[Torsten Seemann]

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.