Update the index in SendUpstream before tree check....

git_cl/git_cl.py

 #!/usr/bin/python
 # git-cl -- a git-command for integrating reviews on Rietveld
 # Copyright (C) 2008 Evan Martin <martine@danga.com>
 
 import errno
 import logging
 import optparse
 import os
 import re
 import subprocess
@@ skipping 841 matching lines @@
                          "even without uploading for review")
   (options, args) = parser.parse_args(args)
   cl = Changelist()
 
   if not args or cmd == 'push':
     # Default to merging against our best guess of the upstream branch.
     args = [cl.GetUpstreamBranch()]
 
   base_branch = args[0]
 
+  # Make sure index is up-to-date before running diff-index.
+  RunGit(['update-index', '--refresh', '-q'], error_ok=True)
   if RunGit(['diff-index', 'HEAD']):
     print 'Cannot %s with a dirty tree.  You must commit locally first.' % cmd
     return 1
 
   # This rev-list syntax means "show all commits not in my branch that
   # are in base_branch".
   upstream_commits = RunGit(['rev-list', '^' + cl.GetBranchRef(),
                              base_branch]).splitlines()
   if upstream_commits:
     print ('Base branch "%s" has %d commits '
@@ skipping 373 matching lines @@
             ('AppEngine is misbehaving and returned HTTP %d, again. Keep faith '
              'and retry or visit go/isgaeup.\n%s') % (e.code, str(e)))
 
   # Not a known command. Default to help.
   GenUsage(parser, 'help')
   return CMDhelp(parser, argv)
 
 
 if __name__ == '__main__':
   sys.exit(main(sys.argv[1:]))