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Old 10-19-2016, 06:30 AM   #1
rvgill
Junior Member
 
Location: Allentown

Join Date: Oct 2016
Posts: 6
Exclamation NCBI-Blast Database Error. I NEED to create .nal file

Hello,

So I am making my own databases from fasta files using Blast version ncbi-blast-2.5.0+.dmg and getting an error that is linking back to by database creation by not having a .nal file created.
I am entering in:
makeblastdb -in test2.fasta -out MV1SDB_a/MV1SDB_a -parse_seqids -dbtype nucl

And getting the following files outputs:
MV1SDB_a.nhr
MV1SDB_a.nin
MV1SDB_a.nog
MV1SDB_a.nsd
MV1SDB_a.nsi
MV1SDB_a.nsq

I am not opening them after creating. But when then trying to run my query sequence against my database that was created, I get this:

blastn -query HPV2-C2_E1.fasta -db MV1SDB_a/ -out testblastout.txt
BLAST Database error: No alias or index file found for nucleotide database [MV1SDB/] in search path [/Users/richardkliman/Research/HPV/Regina/SRS_Mid_Vagina/SRS014466::]

I have been searching for weeks on how to fix this .nal probelm but have had no luck. I did use the old version of ncbi-blast-2.25.... and thought that it may have had a error in it but updating my blast version did not fix my problem.

So how to I create a .nal file to run my query sequence against on my Mac computer (with 4 terabytes of storage) on my UNIX terminal.
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