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It is not uncommon that these EDA programs consists of multiple unrelated processes, with a plethora of different windows. And these processes sometimes communicate heavily with each other. For instance the waveform viewer is automatically updated by the result browser. Or you can pick a signal in the schematic from the result browser. Or multiple layout editors showing the same cursor in multiple windows showing the same layout. Or an error browser highlighting errors in the layout viewer.
I have a suspicion that these kind of connected windows might rely on some X11 mechanisms. But I could be wrong.
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