Question: nr database "No alias or index file found for protein database"
0
gravatar for semans
5 weeks ago by
semans0
semans0 wrote:

I am trying to create an nr database, from the nr files provided by NCBI, on a server to run some blast searches. Once I try to run the blast search, the following error is returned

blastp -query ngruberi_TTL1.fasta -db /home/sh17a/nr
BLAST Database error: No alias or index file found for protein database [/home/sh17a/nr] in search path [/home/sh17a::]

The nr directory contains the files from decompressing nr.112.tar.gz from ftp://ftp.ncbi.nlm.nih.gov/blast/db/, which yields the following:

nr.112.phd nr.112.phr nr.112.pnd nr.112.pog nr.112.ppi nr.112.psi taxdb.btd nr.112.phi nr.112.pin nr.112.pni nr.112.ppd nr.112.psd nr.112.psq nr.pal taxdb.bti

However, referencing the directory that contains all of these files as the database for the blast search does not seem to work and spits out the error above.

Is there any way to fix this? Or, is there any other way of making the nr database so that I can reference it as a single root file?

Thanks

blast command line • 91 views
ADD COMMENTlink written 5 weeks ago by semans0
0
gravatar for genomax
5 weeks ago by
genomax67k
United States
genomax67k wrote:

What version of blast+ application are you using?

Note: You need to download the entire set of nr* files (all 112 of them). These are pre-formatted index files, so you don't need to do anything else (to make them usable) except un-compress.

ADD COMMENTlink modified 5 weeks ago • written 5 weeks ago by genomax67k
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 797 users visited in the last hour