Problem Running Psi-Tblastn...

Question

[Nicojo]

I have a problem running psi-tblastn with BLAST 2.2.25+. Basically, I'm trying to run the following command:

tblastx -in_pssm infile.pssm -db genes.db -num_descriptions 100000 -num_threads 8 > psiblastout.txt

But I get the following error message:

Error: (106.18) NCBI C++ Exception:
Error: (CArgException::eInvalidArg) Unknown argument: "in_pssm"
Error: (CArgException::eInvalidArg) Application's initialization failed

Unfortunately, Google is not my friend on this one... Any suggestions?

Answer 1

[Andrzej Zielezinski]

Only two BLAST programs, tblastn and psiblast handle pssm profiles:

tblastn -in_pssm infile.pssm -db genes.db -num_descriptions 100000 -num_threads 8 > psiblastout.txt

[Nicojo]

Argh, I should have seen that typo! Thanks :)