Day 1 Lesson: The Unix Shell
zenalapp opened this issue · comments
File path: _episodes/02-unix-shell.md
Goals for end of session:
- Be able to navigate the shell
- Have a project directory structure
- Understand the usefulness of the shell
Topics covered:
- Pwd, cd, ls, mkdir
- Man, less, nano
- Maybe: cp, mv, rm
- Text vs. binary file -- can use csv pdf as examples
Other requirements:
- Total time: 1hr15min
- Bite-sized practice exercises throughout
- Glossary of terms/vocab at end of lesson
- Use files from R plotting lesson (#1)
NOTE:
- Useful resource: Zena's shell notes https://gist.github.com/zenalapp/78118b3ff5b5427bfe4c9bb0dd1af52a
- Be sure to call it "the unix shell", not bash. The concepts are the same whether using bash, zsh, or other common shell languages. Users with the latest macOS version have zsh by default instead of bash.
link to paper talking about structure of computational biology projects: https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1000424
The default shell thingy for the SWC template is Bash - not sure it's worth figuring out how to change it. Only mentioning because we discussed not explaining bash specifically.
The default shell thingy for the SWC template is Bash - not sure it's worth figuring out how to change it. Only mentioning because we discussed not explaining bash specifically.
My plan is to edit the template to rename it as "Shell" instead of "Bash". If you keep using .language-bash for now I'll do a search-and-replace-all for that later after I fix it.
Also thinking about not teaching rm because we don't want them to accidentally delete their day 1 morning stuff. A little worried about them somehow messing it up anyways....let me know if anyone has thoughts. We could, e.g., have them copy/zip it using the GUI first so they have it just in case something goes terribly wrong?