Now it begins to make a little more sense. You are driving a real servo-motor
amplifier, and not an h-bridge type of motor, as I had thought might be the
case. Your system does take an analog input.
I probably shouldn't even be commenting here, as I'm not a graduate control
engineer, and you have a real systems engineering situation here. Maybe
someone else will comment [who knows better what they're talking about !!!].
You have to know what sort of dynamic response you want from the servo-motor,
and then choose an input signal that is in line with that. You need to choose the
gains and solve the equation shown in sections 1 and 2 of your pdf file, and
determine the Bode Plot response characteristics for the motor system. Then
you need to produce the correct input response using the Arduino.
Do you know how fast the servo-motor is supposed to sweep? Do you know
the step-response and frequency characteristics of the system under different
loading conditions?
With your R,C values, the time-constant of the low-pass filter = 2.2 msec. I
would guess that, IF your motor response time is roughly 100X slower than that,
then the Arduino analog.write might do the job. The problem is, as mentioned,
there is a good deal of ripple on the smoothed analog signal out of the filter,
and when fed into a servo-control system, that might produce a lot of jitter.
Also, you might not be able to change the analog.write output fast enough to
produce the system resposne that you need.
I would imagine a better solution would be to get a true D/A [digital to analog]
converter and connect that to the Arduino pins, rather than trying to use the
analog.write function.
Aside from that, to me, this is the sort of problem one solves by knowing all
the parameters, having the hardware in front of you, experimentally testing the
servo-motor, measuring its dynamic response, hooking a driver up and testing
it some more until it's working how you want it to.
IOW, this is a non-trivial problem, except maybe for a graduate control
engineer. That's about all I can say [probably should not have even opened
my mouth, ???]. Good luck.