I have cloned the galaxy-dist repo to a cluster I have access to. On that cluster we have login nodes that users share when logging in, and then we have nodes we reserve through slurm. Our system also uses a module system to load different bioinformatics software / different versions.
My goal is to start galaxy on the login node when I do analysis and have it submit the steps in the workflow to the slurm system. Now, after a fresh clone of the repo, I wanted to test running a simple samtools command to see if galaxy is working. However even if i have loaded samtools before I start galaxy, I dont find it in the web ui, and I really don't find anything except some basic text manipulation.
I tried install from toolshed a samtools package but still no cigar.
How can I make galaxy aware of my local bioinformatics tools that I load from our module system?