third_party/polymer/v1_0/PRESUBMIT.py probably just needs to be updated.

~/dev/c/work3/src % git cl upload
Using 50% similarity for rename/copy detection. Override with --similarity.
Running presubmit upload checks ...
Done processing /usr/local/google/home/michaelpg/dev/c/work3/src/chrome/browser/ui/webui/settings/md_settings_ui.cc
Traceback (most recent call last):
  File "/usr/local/google/home/michaelpg/tools/depot_tools/git_cl.py", line 5403, in <module>
    sys.exit(main(sys.argv[1:]))
  File "/usr/local/google/home/michaelpg/tools/depot_tools/git_cl.py", line 5385, in main
    return dispatcher.execute(OptionParser(), argv)
  File "/usr/local/google/home/michaelpg/tools/depot_tools/subcommand.py", line 252, in execute
    return command(parser, args[1:])
  File "/usr/local/google/home/michaelpg/tools/depot_tools/git_cl.py", line 4210, in CMDupload
    return cl.CMDUpload(options, args, orig_args)
  File "/usr/local/google/home/michaelpg/tools/depot_tools/git_cl.py", line 1592, in CMDUpload
    change=change)
  File "/usr/local/google/home/michaelpg/tools/depot_tools/git_cl.py", line 1536, in RunHook
    gerrit_obj=self._codereview_impl.GetGerritObjForPresubmit())
  File "/usr/local/google/home/michaelpg/tools/depot_tools/presubmit_support.py", line 1247, in DoPresubmitChecks
    results += executer.ExecPresubmitScript(presubmit_script, filename)
  File "/usr/local/google/home/michaelpg/tools/depot_tools/presubmit_support.py", line 1157, in ExecPresubmitScript
    result = eval(function_name + '(*__args)', context)
  File "<string>", line 1, in <module>
  File "<string>", line 53, in CheckChangeOnUpload
  File "<string>", line 20, in _CheckBowerDependencies
TypeError: AffectedFiles() got an unexpected keyword argument 'include_dirs'