Added new RESET_TOGGLES_LIBUSB_COMPAT compile time option to the AVRISP-MKII clone programmer project (thanks to Robert Spitzenpfeil).

Additional fixes to the MIDI host driver due to not unfreezing/re-freezing pipes correctly (thanks to Michael Brown).

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.

Minor documentation adjustments to the demos, projects and bootloaders to ensure correct formatting of application device support.

Update project Doxygen and makefiles so that the resulting project documentation hides the unused version value, and uses the same HTML CSS stylesheet as the library core.

AppConfigHeaders: Make sure that in applications using an AppConfig.h configuration file, all application headers include the configuration file.

AppConfigHeaders: Move out the last of the demo/app configurations into new AppConfig.h header files.

Clean up and speed up build tests by turning off expensive and slow size optimizations, and generation of assembly listings (*.lst) for each compiled source file.

AppConfigHeaders: Switch class driver Device mode demos to use LUFAConfig.h configuration header files.

AppConfigHeaders: Switch low level Device mode demos to use LUFAConfig.h configuration header files.

AppConfigHeaders: Switch class driver Host mode demos to use LUFAConfig.h configuration header files.

AppConfigHeaders: Switch DualRole and low level Host mode demos to use LUFAConfig.h configuration header files.

AppConfigHeaders: Remove outdated incomplete BluetoothHost demo - updated Bluetooth stack code is in the ExplorerBot project (http://www.fourwalledcubicle.com/ExplorerBot.php).

Fixed compile error with the unreleased ATMEGA32U6 device.

AppConfigHeaders: Update several additional user projects to use configuration header files, rather than makefile defines. Remove compile time warnings for projects lacking device serial support, remove incomplete StandaloneProgrammer project.

AppConfigHeaders: Update several additional user projects to use configuration header files, rather than makefile defines.

AppConfigHeaders: Update several user projects to use configuration header files, rather than makefile defines.

AppConfigHeaders: Update bootloaders to use configuration header files, rather than makefile defines.

Fix broken documentation in the CDC and DFU class bootloaders due to Doxygen's confusion over the ATTR_NO_INIT attribute macro.

Add branch for the conversion of demos to use standard C header files for configuration, rather than makefile defined macros.

Speed up build tests by only building each test to the ELF output stage (when all files are compiled and linked), rather than to the full HEX output stage as the resulting binary is not actually required.