Question: Error with database alias when running blastp
gravatar for thjnant
5.0 years ago by
thjnant90 wrote:

I have made a blast protein database with this command:

./makeblastdb -in input.fsa -out prot.db -dbtype prot -hash_index

It has generated 8 files as follows:  prot.db.phi  prot.db.phr  prot.db.pog  prot.db.psd  prot.db.psi  prot.db.psq

I have put everything in one folder called prot.db and now want to run the blastp with this command:

blastp -db  prot.db/ -query pep.fa -out results.out

But it gives me the following error which I don't understand how to solve:
BLAST Database error: No alias or index file found for protein database [prot.db/] in search path

I have been looking around to find a solution but I don't understand how I should proceed. Any help would be appreciated.


blast • 1.6k views
ADD COMMENTlink modified 5.0 years ago by Pierre Lindenbaum123k • written 5.0 years ago by thjnant90

The error indicates the file stated in your -db is not a database file or it cannot find it. Therefore, make sure it was made into a BLASTable database by running makeblastdb -in filename -dbtype databasetype -out outputfile


ADD REPLYlink modified 5.0 years ago • written 5.0 years ago by smlail.umuc0
gravatar for Pierre Lindenbaum
5.0 years ago by
France/Nantes/Institut du Thorax - INSERM UMR1087
Pierre Lindenbaum123k wrote:

use `prot.db` , not `prot.db/`

ADD COMMENTlink written 5.0 years ago by Pierre Lindenbaum123k

Unfortunately, I still get the same error.

ADD REPLYlink written 5.0 years ago by thjnant90
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