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Run from flash without debugger/jtag problem

Other Parts Discussed in Thread: CONTROLSUITE

Hi,

I've been developing an algorithm in the CLA of a F28035 and everything works when running in release, in flash with a XDS100V3 plugged in to monitor variables in real-time. 

I now wanted to run some tests over time to confirm everything was working. I just unplugged the computer, the xds100v3 and put the power on. Leds indicating internal states, PWM outputs and Tripzones all worked fine. The only thing is that the algorithm just diverged and it finally tripzoned... Then, I took the guide explaining everything needed to work from Flash and pretty much had everything. I initialized all variables to make sure it wasn't something related to that. I removed all the warnings from my project. I confirmed the CLA ISR period. A big percentage of the systems seem to be working fine but something is wrong... 

If anybody has an idea as to what could cause that, it would be greatly appreciated.

Thanks!