I just downloaded the blast command line applications and I would like to make a database of a MGEs nucleutides that i downloaded from ACLAME database site in fasta file. It is labeled as mydb.fasta and I have put the file into a bin folder of blast in the path C:\Program Files\NCBI\blast-2.12.0+\bin
Ive been typing this into the command line:
cd C:\Program Files\NCBI\blast-2.12.0+\bin to enter in directory
makeblastdb -in mydb.fasta -dbtype nucl -out DB
Building a new DB, current time: 09/23/2021 13:48:15 New DB name: C:\Program Files\NCBI\blast-2.12.0+\bin\DB New DB title: mydb.fasta Sequence type: Nucleotide Keep MBits: T Maximum file size: 1000000000B BLAST options error: File mydb.fasta does not exist
every time i got this error file does not exist. It is probably a simple problem to solve, but I cannot seem to get past it.
Is
mydb.fasta
in the same directory, i.e.,C:\Program Files\NCBI\blast-2.12.0+\bin
?If not, you will need to provide the complete path to that file in
makeblastdb
.yes. its in same folder but still same error.
That's strange. Would you be able to provide the output (or a screenshot) of the following commands?
Also, it is a better approach to call the command directly rather than copying your input files into the program installation directory. For example:
This would work anywhere in the filesystem. For convenience, you can also the
bin
directory to yourPATH
.