Hi @Dbhangale ,
For the pins configured inside the S32 Configuration Tools (Pins Tool) to be visible inside the DIO Simulink block provided by MBDT, the Dio channels corresponding to those pins must also be configured inside the Dio component. The following article (sections 2.2 and 2.3), available on our NXP Community, provides a step by step tutorial of how pins must be configured inside a .mex file and how they can be used inside a Simulink model.
Related to the second item, these messages are not related to an error, and they are coming from eclipse (platform over which S32 Configuration Tools is developed) and they should not impact the workflow MBDT proposes for configuring the target using S32 Configuration Tools. You should be able to open the configuration and modify it as required for your application particularities.
Please let us know in case you encounter any issues while using MBDT.
Thank you,
Irina