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You shouldn't need to use sudo to run any of the tools, but you do need to set them to be executable using chmod. For example, from the command line while in the directory containing the hardware simulator:
chmod u+x ./HardwareSimulator.sh
Afterwards, still in the tools directory, you can simply:
./HardwareSimulator.sh
or, if you want to have it run in the background so you don't need to open a new terminal window:
./HardwareSimulator.sh &
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