Day 2: Editing Scripts

• Introduction to system PATH
  • Lecture on system PATH and environment variables + demos (~10 mins, slides)
• Scripting in the bash shell
  • Lecture on bash scripting (~10 mins, slides, videos for Windows [5:37 mins] or Mac [6:20 mins])
  • Do exercise: create experiment file structure

Session 2: More on bash; editing scripts with vim

• More on bash: additional helpful commands, loops, and conditional statements.
  • Slides for bash scripting, part 2.
  • Bash cheat sheet. This is a resource for the exercises.
• Vim: a powerful text editor that can be used on remote computers.
  • Slides for vim.
  • Vim cheat sheet.
  • Optional: Watch video 1 [11:06]: “Introduction to Vim”
  • Optional: Watch video 2 [7:06]: “Navigating files in Vim”
  • Optional: Watch video 3 [10:34]: “Editing files in Vim”

Session 3: Guest Speaker

We have invited Jorge Ortero-Milan, PhD, to speak with our group.