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TMS320F28379D: ePWM Pulses Disappears

Part Number: TMS320F28379D

I am using MATLAB to create SPWM pulses on ePWM1 and ePWM2. Below is the figure of the model.

The code is flashed correctly and device outputs the PWMs as expected as shown in figure below. 

However, if I keep the code running, the pulses start to disappear and I am left with only PWM pulses at the edges as shown in the figure below.

Can anyone please help me understand what's happening and how do I prevent it?