Last updated: 2018-04-27
workflowr checks: (Click a bullet for more information) ✖ R Markdown file: uncommitted changes
The R Markdown file has unstaged changes. To know which version of the R Markdown file created these results, you’ll want to first commit it to the Git repo. If you’re still working on the analysis, you can ignore this warning. When you’re finished, you can run wflow_publish to commit the R Markdown file and build the HTML.
✔ Repository version: 7c28fe4
wflow_publish or wflow_git_commit). workflowr only checks the R Markdown file, but you know if there are other scripts or data files that it depends on. Below is the status of the Git repository when the results were generated:
Ignored files:
Ignored: .DS_Store
Ignored: .RData
Ignored: .Rhistory
Ignored: .Rproj.user/
Ignored: R/.DS_Store
Ignored: docs/figure/
Ignored: example/.DS_Store
Ignored: inputs/
Ignored: outputs/
Untracked files:
Untracked: LICENSES/
Unstaged changes:
Modified: .gitignore
Modified: R/Data Create.R
Modified: analysis/setup.Rmd
Note that any generated files, e.g. HTML, png, CSS, etc., are not included in this status report because it is ok for generated content to have uncommitted changes.
This workshop assumes you have the R, RStudio and Git and Bash Shell software installed on your computer and a personal GitHub account.
R can be downloaded here.
RStudio is an environment for developing using R.
It can be downloaded here. You will need the Desktop version (> 1.0) for your computer.
Bash is a commonly-used shell that gives you the power to do simple tasks more quickly.
cmd and press [Enter])
setx HOME “%USERPROFILE%”
SUCCESS: Specified value was saved.
exit then pressing [Enter]
This will provide you with both Git and Bash in the Git Bash program.
The default shell in all versions of Mac OS X is Bash, so no need to install anything. You access Bash from the Terminal (found in /Applications/Utilities). See the Git installation video tutorial for an example on how to open the Terminal.
The default shell is usually Bash, but if your machine is set up differently you can run it by opening a terminal and typing bash. There is no need to install anything.
Required for the Version Control part of the the course
Git is a version control system that lets you track who made changes to what when and has options for easily updating a shared or public version of your code on github.com. You will need a supported web browser (current versions of Chrome, Firefox or Safari, or Internet Explorer version 9 or above).
You will also need an account at github.com.
Basic GitHub accounts are free. We encourage you to create a GitHub account if you don’t have one already. Please consider what personal information you’d like to reveal. For example, you may want to review these instructions for keeping your email address private provided at GitHub.
Git should be installed on your computer as part of your Bash install (described above).
For OS X 10.9 and higher, install Git for Mac by downloading and running the most recent “mavericks” installer from this list. After installing Git, there will not be anything in your /Applications folder, as Git is a command line program. For older versions of OS X (10.5-10.8) use the most recent available installer labelled “snow-leopard” available here.
If Git is not already available on your machine you can try to install it via your distro’s package manager. For Debian/Ubuntu run sudo apt-get install git and for Fedora run sudo yum install git.
This reproducible R Markdown analysis was created with workflowr 1.0.1