Issue 2 move folders and use deep path include file names to prevent collisions (#4)

* moving folders and files and adjust server demo build

* Fix Makefile for apps/server on Linux

* fix unit test source file folders

* fix datetime convert UTC functions. Add Code::Blocks project for datetime testing

* added some ignore extensions

* disable parallel make option

* fix build for abort, dcc, and epics apps

* fix build for dcc, epics, error, and getevent apps.

* Fixed building of all apps

* fix the ipv4 to ipv6 router app build

* Change indent style from Google to Webkit

* make pretty to re-format style

* removed common Makefile since we already had one and two was too many

* remove scripts from root folder that are no longer maintained or used

* remove mercurial EOL and ignore files for git repo

* remove .vscodeconfig files from repo

* tweak clang-format style

* clang-format src and apps with tweaked style

* added clang-tidy to fix readability if braces in src

* result of make tidy for src and apps

* fix clang-tidy mangling

* Added code::blocks project for BACnet server simulation

* added code::blocks linux project for WhoIs app

* update text files for EOL

* fix EOL in some files

* fixed make win32 apps for older gcc

* Removed Borland C++ Makefile in apps. Unable to maintain support for Borland C++ compiler.

* created codeblocks project for apps/epics for Windows

* fixing ports/xplained to work with new data structure.

* fix ports/xplained example for Atmel Studio compile

* fix ports/stm32f10x example for gcc Makefile compile

* fix ports/stm32f10x example for IAR EWARM compile

* fix ports/xplained timer callback

* fix ports/bdk_atxx_mspt build with subdirs

* fix ports/bdk_atxx_mspt build with subdirs

* updated git ignore for IAR build artifacts

* updated gitignore for non-tracked files and folders

* fixed bdk-atxx4-mstp port for Rowley Crossworks project file

* fixed bdk-atxx4-mstp port for GCC AVR Makefile

* fixed atmega168 port for IAR AVR and GCC AVR Makefile

* fixed at91sam7s port for IAR ARM and GCC ARM Makefile

* removed unmaintainable DOS, RTOS32, and atmega8 ports.  Updated rx62n (untested).

* changed arm7 to uip port

ports/xplained/rs485.c

@@ -33,10 +33,10 @@
 #include "usart.h"
 #include "ioport.h"
 #include "sysclk.h"
-#include "fifo.h"
-#include "timer.h"
+#include "bacnet/basic/sys/fifo.h"
+#include "bacnet/basic/sys/mstimer.h"
 #include "led.h"
-#include "mstpdef.h"
+#include "bacnet/datalink/mstpdef.h"
 /* me! */
 #include "rs485.h"
 
@@ -69,7 +69,7 @@ static FIFO_BUFFER Transmit_Queue;
 /* baud rate of the UART interface */
 static uint32_t Baud_Rate;
 /* timer for measuring line silence */
-static struct etimer Silence_Timer;
+static struct mstimer Silence_Timer;
 /* flag to track RTS status */
 static volatile bool RTS_Status;
 
@@ -78,7 +78,7 @@ static volatile bool RTS_Status;
  */
 void rs485_silence_reset(void)
 {
-    timer_elapsed_start(&Silence_Timer);
+    mstimer_set(&Silence_Timer, 0);
 }
 
 /**
@@ -90,7 +90,7 @@ void rs485_silence_reset(void)
  */
 bool rs485_silence_elapsed(uint32_t interval)
 {
-    return timer_elapsed_milliseconds(&Silence_Timer, interval);
+    return (mstimer_remaining(&Silence_Timer) > interval);
 }
 
 /**
@@ -154,7 +154,7 @@ static uint16_t rs485_turnaround_time(void)
  */
 bool rs485_turnaround_elapsed(void)
 {
-    return timer_elapsed_milliseconds(&Silence_Timer, rs485_turnaround_time());
+    return (mstimer_remaining(&Silence_Timer) > rs485_turnaround_time());
 }
 
 /**
@@ -222,7 +222,7 @@ bool rs485_bytes_send(uint8_t * buffer,
         status = FIFO_Add(&Transmit_Queue, buffer, nbytes);
         if (start_required && status) {
             rs485_rts_enable(true);
-            timer_elapsed_start(&Silence_Timer);
+            rs485_silence_reset();
             ch = FIFO_Get(&Transmit_Queue);
             usart_clear_tx_complete(&RS485_USART);
             usart_set_tx_interrupt_level(&RS485_USART, USART_INT_LVL_LO);
@@ -322,12 +322,12 @@ void rs485_init(void)
     FIFO_Init(&Transmit_Queue, &Transmit_Queue_Data[0],
         (unsigned) sizeof(Transmit_Queue_Data));
     /* initialize the silence timer */
-    timer_elapsed_start(&Silence_Timer);
+    rs485_silence_reset();
     /* configure the TX pin */
     ioport_configure_pin(RS485_TXD,
         IOPORT_DIR_OUTPUT | IOPORT_INIT_HIGH);
     /* configure the RX pin */
-    ioport_configure_pin(RS485_RXD, 
+    ioport_configure_pin(RS485_RXD,
 		IOPORT_DIR_INPUT);
     /* configure the RTS pins */
     ioport_configure_pin(RS485_RE,