Sad to see them go down like that today. However tallying up that there were 2 deflected goals, 1 goal line clearance against them, and complete caveman behavior from some of the Madrid players I'd really classify this as an isolated incident (even though they did play poorly). Atletico haven't looked gung-ho in the CDR this year and I don't think this was a case of "performed at their best but weren't good enough".
Focus on the league, build up form for the CL, and get that inspired aura back for the next big games.