This is a test version of Biostars. For the public version, visit https://www.biostars.org.
BLAST Command Not Found Under Parent Directory

I'm trying to run blast commands under the parent directory yet im being told "command not found" What should I do?

rna-seq sequence
• 4,899 views • link
written by yashsharma1112000 • yashsharma1112000

Did you follow blast+ command line guide? What OS are you trying to use blast under? Did you install blast yourself or you are using it on a shared compute system?

Command not found errors are generally cured by adding the directory containing the executables to your $PATH variable: See the answer here.

• 0 views • link
written by GenoMax GenoMax

Ive been exporting PATH multiple times now and have been using the BLAST program for a while now, yet, all of a sudden, I'm now unable to perform any blast commands. I'm using macOS catalina 10.15. I installed it on a personal-work comupter.

Image of error: https://imgur.com/a/XqQBGbq

• 0 views • link
written by yashsharma1112000 • yashsharma1112000

Couple of things. blast is not a valid program. Please try blastn or blastp etc. You should also check output of echo $PATH to see contents of that variable and ensure that the directory you are looking at is included in that. If not reexport by export PATH=$PATH:/path_to/dir_w_blast. While this will work proper to do that is described in second answer in this thread (since you are using zsh).

• 0 views • link
written by GenoMax GenoMax

0 answers

No answers yet.

Log in to answer this question.

More posts like this