Not really a software question

How do you swap pins?
“that was it - the RA2 adapter cable for the Ortur has the middle to pins swapped with respect to that of the Ortur rotary extension - swapped them and things are working properly now!”

this means the wiring in the cable has the center 2 pins swapped

You need to undo the pins on the connector and swap them

How do I undo them? Do you just pull on the wire?

Slightly different cable jst but principle applies

or

Cool. That is simple enough. Thanks Gil.

Suggestion:

Take pictures before
In case you have to go back you have a visual reference on cable order

Very good idea!

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