canot remove .git/refs directory not empty code example

Example 1: remove folders from remote git

git rm -r --cached FolderName
git commit -m "Removed folder from repository"
git push origin master

Example 2: remove folders from remote git

git rm -r one-of-the-directories // This deletes from filesystem
git commit . -m "Remove duplicated directory"
git push origin <your-git-branch> (typically 'master', but not always)