XMC4500 Incremental Encoder

Hello,

I am using DAVE 3 and POSQE001 App, in order to get the signals from an incremental encoder that ouputs the signals A, B, Index, to a XMC4500 Relax Lite.
I am new to this and I believe I'm making a mistake in the configurations for this App.
I was following this image:

http://postimg.org/image/ltpq5zj97/

and made the following configurations:

Signal connection: http://postimg.org/image/vcjc5cpx7/
Manual Pin Assignment: http://postimg.org/image/e6y294ke3/
Manual Resource Assignment: http://postimg.org/image/tqo16zbcr/

I think that these configurations are at least partially correct, because I believe that I can correctly determine the direction of the rotation. I don't think I am getting correct values out of the position and velocity, mainly because I don't think I did the capture trigger from the velocity timer to the velocity counter correctly.

Does anyone have any idea how to correct this?

Thank you.