R & GitHub sitting in a tree… mine-cetinkaya-rundel cetinkaya.mine@gmail.com @minebocek mine çetinkaya-rundel university of edinburgh & rstudio bit.ly/r-git-tree

bit.ly/r-git-tree context

bit.ly/r-git-tree students with little
 to no background
 in computing, data
 science, or statistics (but with enthusiasm to learn!) Intro to Data Science students ready to tackle real life data science problems using modern computational tools

bit.ly/r-git-tree fundamentals of data & data viz, confounding variables, Simpson’s paradox tidy data, data frames vs. summary tables, recoding & transforming, web scraping & iteration building & selecting models, visualizing interactions, prediction & validation, inference via simulation data science ethics, interactive viz & reporting, text analysis, Bayesian inference modern computing reproducibility collaboration communication

bit.ly/r-git-tree Intro to Data Science Duke Duke UoE yr 1 18 open to all target: yrs 1&2 100 yr 1 plan: open to all 100, plan: >>100

bit.ly/r-git-tree infrastructure " instructor # student

bit.ly/r-git-tree language integrated development environment literate programming version control collaboration, publishing, course management # student

bit.ly/r-git-tree one organization per class one repo per assignment per student / team weekly labs [team] bi-weekly homework assignments [individual] two take-home exams [individual] two-phase project [team]

bit.ly/r-git-tree " instructor + ghclass R package of tools for managing GitHub class organization accounts

bit.ly/r-git-tree ghclass > Functions are prefixed with either org, repo, team, github, or local_repo to indicate what they operate on. > Functions are vectorized over their parameters, to allow related operations to be grouped. > Functions the unix design philosophy when possible, work towards simple & composable functions. > Functions are verbose to communicate what’s happening, but they can be quieted down. > Actions are non-destructive and/or backed by Git, the handful of dangerous operations throw warnings.

bit.ly/r-git-tree the whole game

bit.ly/r-git-tree 00. create course roster " instructor #> # A tibble: 6 x 4 #> uid email ghname team #> #> 1 za17 anya@school.edu ghclass-anya team-01 #> 2 kb34 bruno@school.edu ghclass-bruno team-01 #> 3 ac13 celine@school.edu ghclass-celine team-01 #> 4 bd88 diego@school.edu ghclass-diego team-02 #> 5 se01 elijah@school.edu ghclass-elijah team-02 #> 6 df00 francis@school.edu ghclass-francis team-02

bit.ly/r-git-tree 01. create assignment " instructor

bit.ly/r-git-tree 02. create repo with starter docs " instructor

bit.ly/r-git-tree 02. create repo with starter docs " instructor

bit.ly/r-git-tree 03. create student repos org_create_assignment(org = "ghclass-demo", repo = paste0("hw-03-ncbikecrash-", roster$ghname), user = roster$ghname, source_repo = “ghclass-demo/hw-03-ncbikecrash") #> ✔ Created repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-anya'. #> ✔ Created repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-bruno'. #> ✔ Created repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-celine'. #> ✔ Created repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-diego'. #> ✔ Created repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-elijah'. #> ✔ Created repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-francis'. #> ✔ Added user 'ghclass-anya' to repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-anya'. #> ✔ Added user 'ghclass-bruno' to repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-bruno'. #> ✔ Added user 'ghclass-celine' to repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-celine'. #> ✔ Added user 'ghclass-diego' to repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-diego'. #> ✔ Added user 'ghclass-elijah' to repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-elijah'. #> ✔ Added user 'ghclass-francis' to repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-francis'. #> ✔ Cloned 'ghclass-demo/hw-03-ncbikecrash'. #> ✔ Pushed (mirror) 'hw-03-ncbikecrash' to repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-anya'. #> ✔ Pushed (mirror) 'hw-03-ncbikecrash' to repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-bruno'. #> ✔ Pushed (mirror) 'hw-03-ncbikecrash' to repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-celine'. #> ✔ Pushed (mirror) 'hw-03-ncbikecrash' to repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-diego'. #> ✔ Pushed (mirror) 'hw-03-ncbikecrash' to repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-elijah'. #> ✔ Pushed (mirror) 'hw-03-ncbikecrash' to repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-francis'. #> ✔ Removed local copy of 'ghclass-demo/hw-03-ncbikecrash' " instructor

bit.ly/r-git-tree 03. create student repos " instructor

bit.ly/r-git-tree 04. modify student repos repo_add_file(repo = org_repos("ghclass-demo", "hw-03-"), file = "files/nc-county-map.png") #> ✔ Added file 'nc-county-map.png' to repo 'ghclass-demo/hw-03-ncbikecrash'. #> ✔ Added file 'nc-county-map.png' to repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-anya'. #> ✔ Added file 'nc-county-map.png' to repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-bruno'. #> ✔ Added file 'nc-county-map.png' to repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-celine'. #> ✔ Added file 'nc-county-map.png' to repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-diego'. #> ✔ Added file 'nc-county-map.png' to repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-elijah'. #> ✔ Added file 'nc-county-map.png' to repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-francis'. " instructor

bit.ly/r-git-tree 04. modify student repos repo_add_file(repo = org_repos("ghclass-demo", "hw-03-"), file = "files/hw-03-ncbikecrash.Rmd", message = "Fix date", overwrite = TRUE) #> ✔ Added file 'hw-03-ncbikecrash.Rmd' to repo 'ghclass-demo/hw-03-ncbikecrash'. #> ✔ Added file 'hw-03-ncbikecrash.Rmd' to repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-anya'. #> ✔ Added file 'hw-03-ncbikecrash.Rmd' to repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-bruno'. #> ✔ Added file 'hw-03-ncbikecrash.Rmd' to repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-celine'. #> ✔ Added file 'hw-03-ncbikecrash.Rmd' to repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-diego'. #> ✔ Added file 'hw-03-ncbikecrash.Rmd' to repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-elijah'. #> ✔ Added file 'hw-03-ncbikecrash.Rmd' to repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-francis'. " instructor

bit.ly/r-git-tree 05. work on assignment # student

bit.ly/r-git-tree notebook style editor viewer

bit.ly/r-git-tree git

bit.ly/r-git-tree diff viewer

bit.ly/r-git-tree commit

bit.ly/r-git-tree push

bit.ly/r-git-tree 06. give feedback & grade " instructor

bit.ly/r-git-tree 06. give feedback & grade " instructor

bit.ly/r-git-tree tooling

bit.ly/r-git-tree github_test_token() #> ✔ Your GitHub token is functioning correctly. sitrep github_test_token("bad token") #> ✖ Your GitHub token failed to authenticate. #> [Error: GitHub API error (401): 401 Unauthorized]

bit.ly/r-git-tree #> ✔ Created repo 'ghclass-demo/hw-05-collegemajor-team-01'. #> ✔ Created repo 'ghclass-demo/hw-05-collegemajor-team-02'. #> ✔ Added 'ghclass-anya' to team 'team-01'. #> ✔ Added 'ghclass-bruno' to team 'team-01'. #> ✔ Added 'ghclass-celine' to team 'team-01'. #> ✔ Added 'ghclass-diego' to team 'team-02'. #> ✔ Added 'ghclass-elijah' to team 'team-02'. #> ✔ Added 'ghclass-francis' to team 'team-02'. #> ✔ Added team 'team-01' to repo 'ghclass-demo/hw-05-collegemajor-team-01'. #> ✔ Added team 'team-02' to repo 'ghclass-demo/hw-05-collegemajor-team-02'. #> ✔ Cloned 'ghclass-demo/hw-05-collegemajor'. #> ✔ Pushed (mirror) 'hw-05-collegemajor' to repo 'ghclass-demo/hw-05-collegemajor-team-01'. #> ✔ Pushed (mirror) 'hw-05-collegemajor' to repo 'ghclass-demo/hw-05-collegemajor-team-01'. #> ✔ Pushed (mirror) 'hw-05-collegemajor' to repo 'ghclass-demo/hw-05-collegemajor-team-01'. #> ✔ Pushed (mirror) 'hw-05-collegemajor' to repo 'ghclass-demo/hw-05-collegemajor-team-02'. #> ✔ Pushed (mirror) 'hw-05-collegemajor' to repo 'ghclass-demo/hw-05-collegemajor-team-02'. #> ✔ Pushed (mirror) 'hw-05-collegemajor' to repo 'ghclass-demo/hw-05-collegemajor-team-02'. #> ✔ Removed local copy of 'ghclass-demo/hw-05-collegemajor' org_create_assignment(org = "ghclass-demo", repo = paste0("hw-05-collegemajor-", roster$team), user = roster$ghname, team = roster$team, source_repo = "ghclass-demo/hw-05-collegemajor") teams

bit.ly/r-git-tree teams

bit.ly/r-git-tree teams

bit.ly/r-git-tree repo_style(repo = "ghclass-demo/hw-03-ncbikecrash-ghclass-anya", files = "*.Rmd", draft = TRUE) #> ✔ Created branch 'styler' from 'ghclass-demo/hw-03-ncbikecrash-ghclass-anya'. #> ✔ Cloned 'ghclass-demo/hw-03-ncbikecrash-ghclass-anya@styler'. #> ✔ Created pull request for 'ghclass-demo/hw-03-ncbikecrash-ghclass-anya (master #<= styler)'. styler

bit.ly/r-git-tree styler

bit.ly/r-git-tree styler

bit.ly/r-git-tree repo_delete(repo = org_repos(org = "ghclass-demo", filter = "hw-03-ncbikecrash-")) #> This command will delete the following repositories permanently: 'ghclass-demo/ hw-03-ncbikecrash-ghclass-anya', 'ghclass-demo/hw-03-ncbikecrash-ghclass-bruno', 'ghclass-demo/hw-03-ncbikecrash-ghclass-celine', 'ghclass-demo/hw-03-ncbikecrash- ghclass-diego', 'ghclass-demo/hw-03-ncbikecrash-ghclass-elijah', 'ghclass-demo/hw-03- ncbikecrash-ghclass-francis'. 1: Not now 2: Absolutely 3: No Selection: clean up #> ✔ Deleted repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-anya'. #> ✔ Deleted repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-bruno'. #> ✔ Deleted repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-celine'. #> ✔ Deleted repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-diego'. #> ✔ Deleted repo 'ghclass-demo/hw-03-ncbikecrash-ghclass-elijah'. #> ✔ Deleted repo ‘ghclass-demo/hw-03-ncbikecrash-ghclass-francis'. 2

bit.ly/r-git-tree under development

bit.ly/r-git-tree auto- mation " ❌ ❓ ❓

bit.ly/r-git-tree peer review

bit.ly/r-git-tree peer review

bit.ly/r-git-tree peer review

bit.ly/r-git-tree acknowledgements Colin Rundel University of Edinburgh @rundel Therese Anders University of Southern California @thereseanders

R & GitHub sitting in a tree… mine-cetinkaya-rundel cetinkaya.mine@gmail.com @minebocek mine çetinkaya-rundel university of edinburgh & rstudio bit.ly/r-git-tree rundel.github.io/ghclass