[ssml] error from BLASTCLUST

[Manoj Tyagi]

Hello,

Thanks for the reply to my BLAST query. 

This time I have another query about BLASTCLUST which I am trying to use to 
clsuter my dataset. In the documentation it says by default it uses BLOSUM62 
with gap penalities etc. 
Now I want to use default options so I just simply give my dataset as input 
file & give output file names. 

Problem is it throws warning & error saying 
"[NULL_Caption] WARNING: SetUpBlastSearch failed.
[NULL_Caption] ERROR: BLASTSetUpSearch: Unable to calculate Karlin-Altschul para
ms, check query sequence"

it means it didn't find lamda & K values in precomputed tables so giving 
warning & errors. normally it should be there anyway I can provide that values, 
the question is HOW? in BLASTCLUST there is no option for providing these 
values. 

Could you help me out, what to do in this case. & why it is giving error? 

regards,
Manoj
Quoting Kevin Karplus <karplus at soe.ucsc.edu>:

> The matrix is not the whole set of parameterization for BLAST.
> There are also the gap costs and the lambda and K values used for
> computing E-values.
> 
> Changing the matrix without correcting the other parameters leads to
> uninterpretable results.
> 
> Kevin Karplus 	karplus at soe.ucsc.edu	http://www.soe.ucsc.edu/~karplus
> Senior member, IEEE	Board of Directors, ISCB (starting Jan 2005)
> Professor of Biomolecular Engineering, University of California, Santa Cruz
> Undergraduate and Graduate Director, Bioinformatics
> Affiliations for identification only.
> 


**********************************************************************
 Manoj TYAGI 
 Laboratoire de Biochimie et Génétique Moléculaire
 Université de La Réunion
 BP 7151, 15 avenue René Cassin
 97715 Saint Denis Messag Cedex 09
 La Réunion
 FRANCE
 Tel : +262 262 938641
 Fax : +262 262 938237
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