Hi,

./ specifies the directory you are in at that moment. Since bwa is not installed in your home directory, it is not callable fro there in this way. If you are in the diretory where it is installed, ./ specifies this directory and it works.

You either have to call it specifying the full path (man /path/to/bwa.1) or an relative path (man ../to/bwa) or create a link with which you can call bwa without any bath just by typing "bwa".

Best

Daniel Becker Thank you for the answer. Sure I will try your suggestions.

Thanks everyone for the answers. one of my lab member faced the same problem and she told me the solution. Since I am from life science background, I am not sure what exactly the commands meant, but when I executed the commands provided by her, the problem was solved. I will try to find what these commands meant (posted below). If anyone knows about the same, please comment.

Command:

chmod u+x bwa

In a new terminal window:

cd /usr/local/bin

sudo ln -s #here bwa is the executable file in the bwa installed directory.

This will ask for your system password. Once you enter the process is done.

Now, bwa is executable from any directories in that system, not only from bwa directory which was the situation earlier.

Cheers!

Hi

if u can install bwa via Anconda , so you do not have to specify the directory

https://anaconda.org/bioconda/bwa

best regards