title: EGit Compare shows all lines as changed
body: <p>Just installed Eclipse 4.3 (Kepler) which comes with EGit (which I updated to EGit 3.2.201312181205-r), and <a href="http://msysgit.github.io/" rel="noreferrer">Git for Windows</a>.  I cloned a repository in the Git for Windows Bash shell under an existing Eclipse workspace, and then in Eclipse imported it as a project.  However, if I right click a file that I haven't changed and select Compare With > HEAD Revision, it shows all lines as different.</p>
  
  <p>In the Git for Windows bash shell, git diff on the file shows nothing. Running <code>od -c</code> on the file in Git bash shows it has Windows-style line endings.</p>
  
  <p>When I go into Eclipse preferences for Compare/Patch and say to ignore whitespace, it shows no differences.  But I'd like to understand why that is necessary.</p>
  
  <p>What is really being compared here?</p>