The problem of phase traces plotting in red occurs if the smoothing chosen on the Alignment tool dialog differs from the smoothing of the measurements. I have fixed it for the next build.
It shouldn't make any difference. I'm trying to work out how it is possible for the phase traces to be red instead of the measurement colour. They always plot as the measurement colour for me.
It's the same code on all platforms. The phase trace colour comes from the measurement colour, so that's pretty strange. What build is running on the Linux machine?
Here's the relevant part of the help:
The division operations have an optional maximum gain parameter parameter which limits the boost which occurs when the divisor becomes very small (or zero), such as where the divisor has notches in its response, and so produces a more stable and manageable...
If you select the Max gain checkbox the result will be the same (before V5.40 there was no max gain checkbox). I'll look into why that changes the result.
That is controlled by the Colour scheme settings, button is in the graph controls, which are displayed by clicking the "Controls" button at the top right of the graph.
I suspect you have inadvertently set the burst duration to be longer than the burst period, so the duty cycle is more than 100 %, triggering an error. I'll add a check for that in the next V5.40 beta build.
You could skip it, sure, the main purpose is to make sure there's no monitoring feeding the input back to the output. That result looks like an unconnected input, though, so either the patch cable isn't in the right place or the output from REW isn't getting to the selected output channel.
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