[Sync] Set HasCustomGroupsToChange() to true for ApplyUpdatesCommand

Follow-up to 113090 to see which ModelChangingSyncerCommand triggers
a perf regression.

BUG=97832
TEST=
[email protected]

Review URL: http://codereview.chromium.org/8818019

git-svn-id: svn://svn.chromium.org/chrome/trunk/src@113238 0039d316-1c4b-4281-b951-d872f2087c98
1 file changed