Hi there!
I installed samtools according to the instructions from here: https://gatk.broadinstitute.org/hc/en-us/articles/360041320571--How-to-Install-all-software-packages-required-to-follow-the-GATK-Best-Practices
I downloaded the samtools tar file version 1.11. Unpacked it with:
tar xvjk samtools-1.11.tar.bz2
Went to the samtools directory with
cd
And then
make
Added it to my path with:
export = PATH="$path/to/folder/:$PATH"
Opened a new shell, and ran
samtools
and I get the error:
samtools command not found
Does anyone know what I am doing wrong here? Thanks.
That
export
command was local to the shell you had open. If you open another shell then you have toexport
in that shell or add this permanently to your.bashrc
or relevant shell file.BTW command should be