Problem Running Psi-Tblastn...

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?

error

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updated 13.9 years ago by Andrzej Zielezinski

• written 13.9 years ago by Nicojo •

1 answer

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

• 0 views • link

written 13.9 years ago by Andrzej Zielezinski

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

• 0 views • link

written 13.9 years ago by Nicojo •

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