I've been trying to get fasta33t00 to recognize a library/db in BLAST2.0
format (created by NCBI's formatdb, part of the standalone BLAST package).
I'd like to point it at the library file on the command line.
fasta33 query.fasta /path/to/blastdb
where the actual library files are blastdb.nsq, .nin, and .nhr.
The solution is to put the library type in the library file name argument
fasta33 query.fasta "/path/to/blastdb 12"