problem in blast

Question

[majeedaasim]

I use a pipeline for annotation which uses ncbi blast. I have installed blast and its path is usr/bin/ncbi-blast The pipeline has a config file where ineed to enter the path of the blast. I searched the path of blast by typing which command and paste the same in the config file. But when I run the software, it says blast doesnt exist.

I know this is the problem with the path.

I acknowledge and appreciate for any help. Thanks

[GenoMax]

pipeline has a config file where i need to enter the path of the blast

If the pipeline variable is BLAST_PATH then you would set it to BLAST_PATH=/usr/bin/ncbi-blast in the config file. Otherwise you could generally add it to your account $PATH (see @Sej's answer below) but it may not work depending on what your pipeline needs.

Answer 1

[Sej Modha]

It sounds like you have not added blast executables in your PATH, please add following line in your .bashrc or .bash_profile file in your home directory.

PATH=$PATH:/usr/bin/ncbi-blast/