UNIX Shell Half Day Workshop

Who: Titus Brown (instructor)

When: October 6th, 2016

Times: 9:15am-12:15pm

Where: 1043 Valley Hall, UC Davis campus

Cost: there is no fee.

Contact the instructor with any questions.

This workshop is open to everyone, including graduate students, postdocs, staff, faculty, and community members. We have extra space for UC Davis VetMed affiliates; contact the lead instructor if you are an SVM affiliate.

> YouTube videos available <

(Apologies for the bad sound...)

Part 1

Part 2

Description

This half day workshop will provide an introduction to the bash shell. The shell is a very powerful tool for using scientific software and working with large data sets. It is primarily used to manage files and run programs, and it allows for automation of repetitive tasks.

Topics overview

  • Introduction to the UNIX shell
  • Navigating the filesystem
  • Managing and manipulating files
  • Scripts

Schedule

  • 9am-10:30a: Introduction, navigation, file manipulation
  • 10:30a: Coffee break
  • 10:45a-12:15p: Scripts

Installation instructions

The Bash Shell

Windows:

  1. Download the Git for Windows installer here.
  2. Follow install instructions.
    • Click “next”
    • Click “next”
    • Click “next”
    • Click “next”
    • Click “next”
    • Select “Use Git from the Windows Command Prompt” and click on “next”. If you forget to do this, re-run the installer and select the correct option.
    • Click “next”, keep “Checkout Windows-style, commit Unix-style line endings” selected.
    • Select “Use Windows’ default console window” and click on “next”
    • Click on “next”
    • Click on “finish”

Mac OS X:

The default shell in Mac OS X is bash, so you can access the Terminal from /Applications/Utilities (go to your Applications folder, then go to the Utilities window. You should see “Terminal” there)


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