Why was KL Rahul-led India penalised in the South Africa ODI?

Under Article 2.22 of the ICC Code of Conduct for Players and Player Support Personnel — which deals with minimum over-rate offences — players are fined five per cent of their match fee for every over their team fails to bowl within the stipulated time.

Why was KL Rahul-led India penalised in the South Africa ODI?
Under Article 2.22 of the ICC Code of Conduct for Players and Player Support Personnel — which deals with minimum over-rate offences — players are fined five per cent of their match fee for every over their team fails to bowl within the stipulated time.