Eric Earl
Eric Earl is a Neuroinformaticist acting as a Data Scientist at the NIMH Data Science and Sharing Team (full-time) and continues to support research in the DCAN Labs jointly between OHSU and UMN (in a small capacity).
Free GitHub Built-in Repository Tools
a brief guide
Presented by: Eric Earl, Data Scientist
live follow along: slides.com/ericearl/gh-repo/live
or browse yourself: slides.com/ericearl/gh-repo
repository: github.com/ericearl/fancy_github
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(look in the bottom right corner)
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Slide Number
Take-aways
by the end of this, you should be able to say you can...
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Make and assign Issues
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Track issues with Milestones
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Make a Projects Kanban board
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Create multiple Wiki pages
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Start a Discussions post
Prerequisite knowledge
What is a GitHub repository?
If you are not sure, read the below statement from GitHub:
"A repository contains all of your project's files
and each file's revision history."
like a post-it
one well-defined idea with small scope
At A Minimum
A Title and a Comment
If You Can
- Assign Assignees
- Add Labels
- Associate to a Project
- Associate to a Milestone
like a storyboard
a set of ideas with some end (semantic versioning)
like a to do list
a set of lists to keep track of ideas
like chapters, not just a synopsis
a set of documents to explain
like a forum
a place for repository-specific communication
Take-aways (revisited)
can you now...
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Make and assign Issues?
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Track issues with Milestones?
-
Make a Projects Kanban board?
-
Create multiple Wiki pages?
-
Start a Discussions post?
My personal favorites
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Good enough practices in scientific computing
Wilson, et al, PLOS Computation Biology, 2017.
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Atlassian Git Tutorials - It's not just Atlassian Git education.
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GitHub Features - "Built for developers", but really everybody...
Old Slides Beyond This Point
Git is version control
a way to preserve the history of changes
Edit & Save
one person or many people collaboratively
Reproducible Git
anyone can make exact copies at exact versions
Scenario 1: Merging changes
I have processing pipeline code that is missing a new option.
Kathy has already developed and tested that code out.
We can work together to merge Kathy's changes into my version.
Scenario 2: Restoring old stuff
Anders changed some analysis code to add a feature.
His new change breaks Oscar's old analysis.
Oscar can restore the old version and avoid the new changes.
DEMO: GitHub in action
- Use Search to find the ABCD-STUDY GitHub organization
- Open the abcd-dicom2bids repository
- Browse the src folder
- Go back to the top of the repo and Clone or download
A Brief Guide to *some* GitHub Repository Tools
By Eric Earl
A Brief Guide to *some* GitHub Repository Tools
A presentation for the NIH Coders' Forum November 2021 on some free utilities automatically built-in to GitHub repositories. This presentation focuses on the Issues, Milestones, Projects, Wiki, and Discussions features and is meant for all audiences.
