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TMS320F28P650DK: Difficulty in flashing through MCAN

Part Number: TMS320F28P650DK
Other Parts Discussed in Thread: C2000WARE, TMDSHSECDOCK, TCAN1462EVM

Tool/software:

Hello Experts, 

Introduction:

I am using TMS320F28P650DK9 control card. I am trying to flash the led_blinky code from MCAN. To complete the circuit, we are using PCAN-USB Pro FD, TCAN1462 as transceiver and the Control card. I am also using the can_flash_programmer provided with C2000ware to flash it using the command line. 

Issue:

The console gives proper output about the hex files being loaded. I can see the kernel loaded and application loaded output in the console. But the LEDs in the control card still do not respond. I believe there is some error in the connections that we have made. As per the kernel code, we are using GPIO 4 as Tx and GPIO 5 as Rx (MCAN_BOOT_ALT3_SENDTEST). I followed the steps as instructed in the CAN Flash Programming documentation, but still there is no change. 

Confusion:

I am a bit confused if I should use GPIO (4,5) or GPIO (30,31) as mentioned in the schematics for pins being CAN_A_RX and CAN_A_TX.

Exact help that I need from the forum:

Someone please guide me through the circuit connections of Transceiver (Vio, STB, PU/PD for STB, etc) and pin selection in control card connected to TMDSHSECDOCK.