Basic question but how can I search the NCBI Nucleotide database using BLAST CLI
I'm trying to run a BLAST through the blastn cli. I thought that providing nt as the -db parameter would let me search the NCBI Nucleotide database with blast, but when I run this command:
blastn -query contigs.fa -db nt
I get this error:
BLAST Database error: Database memory map file error
Does anyone know what is going wrong and how to fix this?
1 answer
-remote is missing Is is possible to use blastn to search on remote database from terminal?
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Pierre Lindenbaum
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