Go Back   SEQanswers > Bioinformatics > Bioinformatics

Similar Threads
Thread Thread Starter Forum Replies Last Post
velvet running error jjjscuedu Bioinformatics 1 06-05-2012 08:48 AM
error running BWA honey Bioinformatics 0 06-01-2012 09:44 PM
annovar running error gary Bioinformatics 2 12-15-2011 07:25 AM
tophat Error running running 'prep_reads' victoryhe Bioinformatics 2 10-17-2011 05:53 AM
TopHat running error pfranchini Bioinformatics 2 08-10-2009 07:46 AM

Thread Tools
Old 06-12-2012, 10:45 AM   #1
Location: New Jersey

Join Date: Aug 2010
Posts: 29
Default Error running blastdbaliastool

SOLVED: The makedb tool was not creating index files. I directly downloaded the database from NCBI and it is working.

I am running command line blastplus, and need to blast against bacteria. I have downloaded databases nr and nt, but need to create a subset for faster searching. I have followed the method in
where I have downloaded a list of accession numbers for bacteria, and am trying to create a subset database based on this. I have tried the command

blastdb_aliastool -gilist bacteria.gilist.txt -db nr -out nr_bacter -title nr_bacteria
but I get an error
"BLAST Database error: GI list specified but no ISAM file found for GI."

Any idea what this is?
Thanks so much

Last edited by nupurgupta; 06-14-2012 at 10:37 AM.
nupurgupta is offline   Reply With Quote


Thread Tools

Posting Rules
You may not post new threads
You may not post replies
You may not post attachments
You may not edit your posts

BB code is On
Smilies are On
[IMG] code is On
HTML code is Off

All times are GMT -8. The time now is 11:56 AM.

Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2021, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO