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Research Computing Starter Pack

Setup

Reproducibility Principles and Practices

Overview

1. Principles of Reproducibility
2. Primary Practices
3. Secondary Practices
4. Case-by-case Practices

Appendix: References

Introduction to the Command Line

Overview

1. Interacting with Computers
2. Command Line Basics
3. Navigating File Systems
4. Editing Files

Appendix: References

Installing Software with Pixi

Overview

1. Environment Managers
2. Pixi Basics

Unit A: Configuring the Shell
Unit B: UC Davis HPC Modules
Unit C: Python Packages
Unit D: Tasks

Introduction to Version Control

Overview

1. Version Control Systems
2. Git Basics
3. Remote Repositories
4. The Git Workflow

Git for Teams

Overview

1. Branches & Merges
2. Working with GitHub
3. Making Git Comfortable

Repository
Open issue

.md

Appendix: References

Appendix: References#

“What Is Unix, and Why Does It Matter?”
DataLab Install Guide
Shell, Wikipedia entry
Teleprinter, Wikipedia entry
README, Write Me! Digital Project Organization and Documentation
Unix Cheat Sheet
Vim Wiki
Vim Cheat Sheet

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4. Editing Files

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Installing Software with Pixi

By Nick Ulle, Carl Stahmer, Tyler Shoemaker, and Wesley Brooks