[Bioperl-l] blastall call --- cannot find index files for databases

[Leonardo Marino-Ramirez]

The information can be found in

http://genome.nhgri.nih.gov/blastall/blast_install/

or

ftp://ncbi.nlm.nih.gov/blast/executables/README.bls

Leonardo

On Fri, 3 May 2002, Liu Haifeng wrote:

> Hi,
>
> I just met another problem.  I have used "formatdb -o T ..." to construct one protein database "mydbname" whose defline is like "gnl|sth|sthelse".  It is ok if I directly perform blastall query in my linux console window.  Howvever, if I perform a perl script which uses Bio::Tools::Run::StandAloneBLast to call blastall, then the program always crashes and shows "WARNING: Could not find index files for database  mydbname ...".   I have set $BLASTDATADIR in my .bashrc file.
>
> Could anyone help me to solve the problem?
>
> Regards
> Haifeng
>
> ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
> Haifeng Liu
> Ph.D., Member of Technical Staff
>
> IFL/DS
> DSO National Laboratories
> 20 Science Park Drive
> Singapore 118230
>
> Email: lhaifeng@dso.org.sg
> Tel: (65) 67728220
> ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>

-- 

___ _/ _______________________________________________________________
   _/
  _/    _/      _/_/_/    Leonardo Marino-Ramirez   lmarino@tamu.edu
 _/    _/_/  _/_/    _/  Biochemistry Department, Texas A&M University
_/_/_/_/  _/  _/_/_/    2128 TAMU, College Station, TX 77843-2128, USA
     _/      _/     _/ Voice: (979) 862-4055   Fax: (979) 845-9274
___ _/      _/     _/ ________________________________________________