Upgrade Doxygen configuration files for Doxygen 1.8.1, fix broken stylesheet and footer HTML, add explicit spacing into documentation code fragments to prevent Doxygen from removing empty lines in the output.

LUFA/Platform/UC3/ClockManagement.h

@@ -50,16 +50,16 @@
  *  Usage Example:
  *  \code
  *		#include <LUFA/Platform/UC3/ClockManagement.h>
- *
+ *      
  *		void main(void)
  *		{
  *			// Start the master external oscillator which will be used as the main clock reference
  *			AVR32CLK_StartExternalOscillator(0, EXOSC_MODE_8MHZ_OR_MORE, EXOSC_START_0CLK);
- *
+ *          
  *			// Start the PLL for the CPU clock, switch CPU to it
  *			AVR32CLK_StartPLL(0, CLOCK_SRC_OSC0, 12000000, F_CPU);
  *			AVR32CLK_SetCPUClockSource(CLOCK_SRC_PLL0, F_CPU);
- *
+ *          
  *			// Start the PLL for the USB Generic Clock module
  *			AVR32CLK_StartPLL(1, CLOCK_SRC_OSC0, 12000000, 48000000);
  *		}

LUFA/Platform/UC3/InterruptManagement.h

@@ -51,12 +51,12 @@
  *  Usage Example:
  *  \code
  *		#include <LUFA/Platform/UC3/InterruptManagement.h>
- *
+ *      
  *		ISR(USB_Group_IRQ_Handler)
  *		{
  *			// USB group handler code here
  *		}
- *
+ *      
  *		void main(void)
  *		{
  *			INTC_Init();