CCS/TMS320F28069M: F28069: SCIA UART reception issue (interrupt based)

/*****************************************************************************
 *   Copyright (C) 2020 : AOT, Leduc.
 *
 *   All Right Reserved.
 *****************************************************************************
 *
 *   FILENAME   : ZptintF.c/h
 *   PURPOSE    : Send ASCII based message into USB (CDC) or UART stream
 *   AUTHOR     : Richard Payne
 *   REVISION   :
 *   History    : 3A: Upgrade code to match ESM project including session Log L2(....). \
 *              : 3A: Updated Welcome Message. Along with advanced Augment support as from ESM.
 *   NOTE       :
 *   Setup      : Make use of USB (CDC) or UART0 port
 *              :
 *              :
 ******************************************************************************/
#include "Universal_Macro.h"
//-------------------------------------MotorWare/C2000Ware Lib.
#include "hal.h"
#include "user.h"
#include "hal_obj.h"
//#include "sw/drivers/sci/src/32b/f28x/f2806x/sci.h"
//-------------------------------------Local Project Lib.
#include "RVP_Main.h"
#include "UART_zPrintf.h"
#include "Detokeniser.h"
#include "UART_Command.h"
#include "UART_SCI.h"
#include "SCI.h"

//====================================================
//====================================================HAL_setupSCI
// Purpose  :
// Input    :
// Output   :
// Note     :
// Status   :
//====================================================
void HAL_setupSCI(HAL_Handle handle)
{
      HAL_Obj *obj = (HAL_Obj *) handle;
      // Initialize all SCI registers based on your requirement. This is only example.

      // SCI stop bit, parity, loopback, char bits, idle/address mode
      SCI_setNumStopBits(obj->sciAHandle, SCI_NumStopBits_One);
      //SCI_setParity(obj->sciAHandle, SCI_Parity_Odd);
      SCI_disableParity(obj->sciAHandle);
      SCI_disableLoopBack(obj->sciAHandle);
      SCI_setMode(obj->sciAHandle, SCI_Mode_IdleLine);
      SCI_setCharLength(obj->sciAHandle, SCI_CharLength_8_Bits);

      // TX enable, RX enable, RX ERR INT enable, SLEEP, TXWAKE (SCICTL1 = 0x03)
      SCI_disableRxErrorInt(obj->sciAHandle);
      SCI_disable(obj->sciAHandle);
      SCI_disableTxWake(obj->sciAHandle);
      SCI_disableSleep(obj->sciAHandle);
      SCI_enableTx(obj->sciAHandle);
      SCI_enableRx(obj->sciAHandle);
      SCI_enableTxFifo(obj->sciAHandle);
      SCI_enableTxFifoEnh(obj->sciAHandle);

      // TXINT enable, RXINT enable, TXEMPTY, TXRDY (SCICTL2 = 0x03)
      //SCI_enableRxInt(obj->sciAHandle);
      SCI_enableRxFifoInt(obj->sciAHandle);
      SCI_setRxFifoIntLevel(obj->sciAHandle, SCI_FifoLevel_1_Word);
      SCI_disableTxInt(obj->sciAHandle);

      // SCIH-SCIL BAUD - SCI_BAUD = (LSPCLK/(SCI_BRR*8)) - 1
      SCI_setBaudRate(obj->sciAHandle, SCI_BaudRateRVP_115_2_kBaud);           //SCI_BaudRate_19_2_kBaud

      // Reset SCI
      SCI_enable(obj->sciAHandle);

      // enable SCI interrupt
      PIE_enableInt(obj->pieHandle, PIE_GroupNumber_9, PIE_InterruptSource_SCIARX);

      // enable CPU interrupt
      CPU_enableInt(obj->cpuHandle, CPU_IntNumber_9);
}


//====================================================
//====================================================HAL_setupSCI
// Purpose  :
// Input    :
// Output   :
// Note     :
// Status   :
//====================================================
void SCI_write_char(SCI_Handle sciHandle,char a)
{
    SCI_Obj *sci = (SCI_Obj *)sciHandle;

    while(SCI_getTxFifoStatus(sci) == SCI_FifoStatus_4_Words) { }
    SCI_write(sci, a);
}

//====================================================
//====================================================HAL_setupSCI
// Purpose  :
// Input    :
// Output   :
// Note     :
// Status   :
//====================================================
void SCI_write_str(SCI_Handle sciHandle, char* str)
{
    while(*str != 0)
    {
        SCI_write_char(sciHandle, *str++);
    }
}

//====================================================
//====================================================SCI Receive Data ISR
// Purpose  :
// Input    :
// Output   :
// Note     :
// Status   :
//====================================================
interrupt void SCI_RX_ISR(void)
{
    SCI_Obj *sci = (SCI_Obj *)halHandle->sciAHandle;
    bool status;
    status = (bool) ((sci->SCIRXST & SCI_SCIRXST_RXRDY_BITS) >> 6);
    //if(SCI_rxDataReady(halHandle->sciAHandle)==1)
    if (status == true)
    {
        rxCommand[rxCommandPtr] = SCI_read(halHandle->sciAHandle);
        rxCommandPtr++;
        if (rxCommand[rxCommandPtr]=='\n')
        {
            ifEOFDetected=true;
        }
      //SCI_write_char(halHandle->sciAHandle, rev_data);
    }
    SCI_clearRxFifoOvf(halHandle->sciAHandle);
    SCI_clearRxFifoInt(halHandle->sciAHandle);
    PIE_clearInt(halHandle->pieHandle,PIE_GroupNumber_9);      // Acknowledge interrupt from PIE group 9
}

//====================================================
//====================================================SCI Receive Data ISR
// Purpose  :
// Input    :
// Output   :
// Note     :
// Status   :
//====================================================
void PIE_enableSciInt(PIE_Handle pieHandle,const SCI_IntNumber_e sciType)
{
  PIE_Obj *pie = (PIE_Obj *)pieHandle;
  uint16_t index = 8;         // index is counted from 0, so INT9 has index 8
  uint16_t setValue = (1 << sciType);


  // set the value
  pie->PIEIER_PIEIFR[index].IER |= setValue;

  return;
} // end of PIE_enableSciInt() function
//%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%Command