• Install Git by downloading and installing the latest version. 

• Keep default settings and tick the box for daily for Git Windows updates

• Keep default settings but select Use Git from Windows Command Prompt

• use default options e.g. Use the OpenSSL Library , Checkout Windows-style; Use MinTTY, enable file system caching, enable Git Credential Manager
• Create a GitHub account for Windows.
• generate a new ssh key 

• add the key to your github profile

Install R Studio

• Install the DataSHIELD training environment including installation of R Studio. 

Configuring R Studio

R Version

• Ensure you are using the latest version of R by going to the menu Tools > Global options > General and browse to ensure you are using the latest version of R.

Sync with Git

Once Git is installed you need to activate it in R Studio:

• Go to menu Tools > Global Options 
• Click the Git/SVN tab from the left hand side.
• Click Enable version control interface for RStudio projects
• If necessary:
  • enter the path for your Git.exe file (the location where Git was installed)
  • add the filepath to the key you created (typically located at C:\Users\USERNAME\.ssh\id_rsa)

Setting up default R libraries

• Check where R libraries are installed

.libPaths()
[1] "C:/Users/USERNAME/Documents/R/win-library/RVERSION"
[2] "C:/Program Files/R/R-VERSION/library"

• Set R to use local libraries only

.libPaths("C:/Users/USERNAME/Documents/R/win-library/RVERSION")

• You can check you have access to all the DataSHIELD libraries by clicking the Rstudio lower right quadrant tab packages and you should be able to see DataSHIELD packages there e.g. dsBaseClient.

Installing developer dependancies

• Install the dsBetaTest packages

#R
install.packages("dsBetaTestClient", repos='http://cran.obiba.org', type='source')
library(dsBetaTestClient)

• Download the latest version of Rtools from CRAN

• Install RTools.exe at default recommended location (at the root of your C drive): C:/Rtools/

• Use default settings until you get to the select additional tasks. Make sure add rtools to system path is ticked. 

• Ensure the following filepath is added to the top

C:\Rtools\bin;

• check the following lines are somewhere, or add them at the bottom. 

C:\Program Files\Git\cmd;
C:\Program Files\R\R-3.5.1\bin

• REMOVE any lines containing the following if they occur:  mingw_32 or mingw_64 in it 

• Verify that Rtools can be used in R by restarting R Studio and opening it again. 
• Run a check to ensure that C:\\Rtools\\bin  appears in PATH (there will be other stuff here too). 

#R
Sys.getenv('PATH')

> Sys.getenv('PATH')
[1] "C:\\Program Files\\R\\R-3.5.1\\bin\\x64;C:\\Rtools\\bin;C:\\WINDOWS\\system32;C:\\WINDOWS;C:\\WINDOWS\\System32\\Wbem;C:\\WINDOWS\\System32\\WindowsPowerShell\\v1.0\\;C:\\WINDOWS\\System32\\OpenSSH\\;C:\\Program Files\\GLEAMviz-6.7\\libs;C:\\Program Files\\Git\\cmd;C:\\Program Files\\R\\R-3.5.1\\bin;C:\\Users\\Dimitris Avraam\\AppData\\Local\\Microsoft\\WindowsApps;"

• Install the pkgbuild R package if you do not already have it and check it believes Rtools is installed

#R
install.packages("pkgbuild")
pkgbuild::has_build_tools(debug = TRUE)

• If this returns FALSE, go to C:\Rtools and use the uninstaller unins000.exe to uninstall Rtools and reinstall following the instructions carefully. 
• Verify that your toolchain works by executing the code below in R:
• Install the package devtools and roxygen by running the below command in R or Rstudio.

install.packages("devtools", dependencies = TRUE)
install.packages("roxygen2", dependencies = TRUE)