Get Set Up - statonlab/EPP_575_RNASeq_Workshop Wiki
Edit your OIT account
If you haven't already...
Navigate to https://setuplinux.utk.edu/, login. You may have to logout and log back in to get it to work. Make sure to click "Create Account" to ensure this works.
Get a shell on your laptop
- If you have an Apple
- You have a built in terminal called Terminal
- If you have Windows 10
- You have a built in terminal called Powershell
- Some other version of windows or Powershell not working?
- Try mobaxterm
Time to try it out! At the command line prompt:
Wow, you are connected to a supercomputer miles away! (Well, like 1/2 mile away)
Do you see a prompt? I hope so! (What is a prompt anyway?)
Our first command! "Print working directory" is equivalent to "where am I?". It is abbreviated as "pwd"
What's in this folder?
What is the name of this computer?
We're going to explore these a lot more soon.
Get SWC files
Now we need to get the data for our lesson. We're going to use two new commands:
- wget = web get, i.e. download a file over the internet using its web address
- unzip = unzip a zipped file
Check to make sure it is there:
And lets decompress it:
Access Spack system.
Within your home directory, update your
.bash_profile to add the following:
# .bash_profile # Get the aliases and functions if [ -f ~/.bashrc ]; then . ~/.bashrc fi # User specific environment and startup programs export SPACK_ROOT=/pickett_shared/spack PATH=$PATH:$HOME/bin:$SPACK_ROOT/bin . $SPACK_ROOT/share/spack/setup-env.sh exec newgrp statonutia