Under Administration > Interfaces > Payroll there are the wage types "Short-time work (hours)" and "Short-time work (days)". Your payroll accounting must provide you with the appropriate wage type numbers.
If the payroll software cannot import the wage types (e.g. AGENDA), it is best to give the payroll accounting a user access with the right "Evaluation". In this way, your payroll accounting department can obtain the required data on short-time work from the evaluations.