BLAST: Cobmine nr/nt database with a fasta file

Question

[annaA]

Hello,

I want to combien the nr/nt database with a fasta file that I have and run BLAST in the command file. until now I have used makeblastdb for my fasta file which resulted the following files

pathseq_db.00.nhr  pathseq_db.01.nhr  pathseq_db.02.nhr  pathseq_db.nal  pathseq_db.not
pathseq_db.00.nin  pathseq_db.01.nin  pathseq_db.02.nin  pathseq_db.ndb  pathseq_db.ntf
pathseq_db.00.nsq  pathseq_db.01.nsq  pathseq_db.02.nsq  pathseq_db.njs  pathseq_db.nto

Then I used the blastdb_aliastool which result an .nal file only. I used this nal file in the -db argument but it doesn't work

Could help me how to do it correctly?

Best, A

Answer 1

[GenoMax]

Did you try to use the .nal extension in your command? Just try the basename.

[annaA]

Oh thanks now it seems to work !