I'm trying to install the CDD database locally using rpsblast. However, I've run into several problems. I can't seem to find formatrpsdb after compiling BLAST 2.2.24 from source. Has it been replaced with something else?
Since I couldn't get this to work, I tried using the preformatted CDD databases. However, rpsblast can't seem to open this database and get this error:
RPSBLAST 2.2.25+
Database: CDD.v2.29
39,844 sequences; 10,209,221 total letters
BLAST engine error: Cannot memory map RPS-BLAST database file: db/cdd/Cdd.rps
The other database, like SMART works, but the Cdd one does not.