Question: remote blast requires installation of taxdb database
gravatar for hfan22
3.3 years ago by
hfan2240 wrote:

I was trying to do some remote blast. Here is my command:

blastn -query myquery.fasta -db nt -out myblast.out -remote -num_alignments 10 -outfmt "6 qacc saccver pident sscinames length mismatch gapopen evalue bitscore"

I wanted to get the scientific name instead of taxid so I requested sscinames in my output format. I am almost certain that this worked for me a few months ago (according to my work log). Today it stopped working, returning N/A for the sscinames column with warning,

Warning: [blastn] Taxonomy name lookup from taxid requires installation of taxdb database with

for each query.

I would assume installing taxdb on my local computer wouldn't help.

I am using blast 2.6.0+

Any help is appreciated.

blast • 3.3k views
ADD COMMENTlink modified 20 months ago by Varshney20 • written 3.3 years ago by hfan2240

Have you emailed NCBI blast support if you are sure this has worked in the past? Perhaps there may just be some temporary glitch. They are generally responsive.

ADD REPLYlink written 3.3 years ago by GenoMax95k

I have the same problem. Did you find a solution?

ADD REPLYlink modified 3.2 years ago • written 3.2 years ago by tschauer0

I also have this problem Is there any update?

ADD REPLYlink written 21 months ago by marongiu.luigi520

Did you download, uncompress and try putting it in the same folder as other blast indexes?

ADD REPLYlink modified 21 months ago • written 21 months ago by GenoMax95k

yes I did and also updated to blast 2.9 (I had 2.7). From NCBI they answered that the taxdb is required by 'sscinames' so I skipped that. I solved by grepping the taxonomy ID from the taxdb file. Less elegant but it works...

ADD REPLYlink written 20 months ago by marongiu.luigi520


I had the same issue when I was using the remote option, I found the solution from here: getting sscinames in viral blastx query and it worked for me...

Hope this will help you.


ADD REPLYlink written 20 months ago by Varshney20

Did you have any luck with this?


ADD REPLYlink written 16 months ago by mrmrwinter30
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 2032 users visited in the last hour