updated doxyfile

mainPage added to doxygen + @addgroup , @defgroup commands

peripheral initialization outline aded

updated pdf and .gitignore only update pdf if necessary

documentation subfiles added to gitignore

doxygen setup + library folder fix

removed unused peripheral headers + main formatted using autoformatter shift+ctrl+f - autoformat

project file set to compile and link library files

language setttings xml for atollic studio setup

dma set in cubeMX