Adding a program to bash path

[Mr_Keystrokes]

Hi,

I installed a program called BWA and another called SAMTOOLS.
If I echo $PATH I can see it in the path.
If I run: which bwa - I see it in /usr/local/bin/
However, it is not present in /home/bin/ - which as I understand is equal to $HOME

Do i need to add it to the .bash_profile file tool?

[TrevorH]

There's no such thing as /home/bin (unless you have a user called 'bin').

What is the actual problem?

[Mr_Keystrokes]

Yeah I meant /home/random_user/bin

The problem is that when I run a program called seqsero it returns:

sh: bwa: command not found
sh: bwa: command not found
sh: samtools: command not found
sh: samtools: command not found
sh: bwa: command not found
sh: bwa: command not found
sh: samtools: command not found
sh: samtools: command not found

So I assume that bwa and samtools are not in the bash path, or am I wrong?

[TrevorH]

Are you running this from a terminal session or from e.g. crontab?

Yes, that looks like you don't have the directory containing those executables in your PATH. Perhaps something is resetting it for you.