'''Answer''': we should file a bug on this and get This happens because the script + error message fixed. Ask on irc default setting for tips on how to do this, or we can do on Tuesday. In the meantime, make sure you are cloning your repo from git, and it shouldn't do this. '''Answer 2''': you probably need to tell msys git (on Windows) is to preserve unix checkout files with CRLF line endings. You should To fix this, you need to reinstall msys git and when you do, choose option 2 here http://help.github.com/images/bootcamp/bootcamp_1_win_install_7.jpg. Once you've reinstalled msys git, you need to checkout the repository with the correct LF line endings with the following commands: git ls-files -z | xargs -0 rm git checkout .