Introducting the Shell

A quick introduction to the workshop along with many things Linux / Shell / Computational

Getting started with command line:

Let's begin by making sure everyone has a working terminal instance.

Use Open OnDemand:

https://login2.isaac.utk.edu/pun/sys/dashboard

Setting up your directory for this course

It's jumping ahead a bit to some later commands, but don't worry, we'll be going over all of these commands in depth soon! For now, we'll change to a directory of our choice for this workshop. If you're not sure where to store things, your $HOME directory is a fine place for now.

You can get to your home directory by typing any of the following:

cd
cd ~
cd $HOME

...then download and unzip the dataset we'll be using for this workshop:

mkdir command_line_practice
cd command_line_practice
wget https://swcarpentry.github.io/shell-novice/data/shell-lesson-data.zip
unzip shell-lesson-data.zip
git clone https://github.com/ryandkuster/EPP_575_RNA_25.git

Nifty way to view directory structure:

cp /lustre/isaac24/proj/UTK0386/src/scripts/tree.sh ~
cd
bash ~/tree.sh command_line_practice/ 3