KASP assay design

How to clone a public GitHub repository with VS Code and push it to a private GitHub repository.

• Make sure Git is installed
• Open VS Code and use the source control icon on the far left to clone a git repository to a local folder
  

Open a terminal in VS Code (View>terminal)

PS C:\Users\github> cd sarek
PS C:\Users\github\sarek> git remote remove origin
PS C:\Users\github\sarek> git remote add origin https://github.com/ink-blot/sarek.git
PS C:\Users\github\sarek> git branch
* master
PS C:\Users\github\sarek> git push -u origin master

If it doesn't promptly start pushing, an authorisation screen should (eventually) appear (it may take a few minutes).

The token method is preferred:

• Go to your GitHub account settings: GitHub Token Settings.
• Click Generate new token (classic).
• Select the scopes you need (e.g., repo for private repositories).
• Generate the token and copy it (you won’t be able to see it again later).
• In the GitHub sign-in window, switch to the Token tab.
• Paste the generated token into the input field and confirm.

Optional steps if you want to fetch updates from the original nf-core/sarek repository in the future, add it as an upstream remote:

PS C:\Users\github\sarek> git remote add upstream https://github.com/nf-core/sarek.git
PS C:\Users\github\sarek> git fetch upstream
PS C:\Users\github\sarek> git merge upstream/main