Update .gitignore

Same .gitignore as in integration. Now ignores .doxyfile
Updated gitignore
Merge branch 'release1'
FreeRTOS without any errors; not tested yet
Added threads; check description

vApplicationMallocFailedHook() will only be called if
configUSE_MALLOC_FAILED_HOOK is set to 1 in FreeRTOSConfig.h.  It is a
hook
function that will get called if a call to pvPortMalloc() fails.
pvPortMalloc() is called internally by the kernel whenever a task,
queue,
timer or semaphore is created.  It is also called by various parts of
the
demo application.

GETTING THIS ERROR
Added debugging using uart for rtos
Removed uneccessary files from rtos
Added twi header and source files. Added register mapping in the header file.
First draft of header file!

Created headerfile tc.h with initial struct of register mappings and doxygen comments.
Added draft of most basic functions!

Added definitions of basic functions like start/stop and
enable/disable clocks for each channel. Also for reading
counter values.
Added glitch filter functions and tests
Finished first API draft of TWI
Added testing functions in main for RTOS
Changed RTOS Config (CPU_HZ)
Fixed mergeconflicts in main.c (from updated hw_setup)
...Finalized the header file?

Added more structure to the header file for tc.h. Added more
doxygen comments and worked on the structs. Needs reviewing
from the architect!
Merge branch 'pio-glitch-debounce-local' into pio-glitch-debounce
Added more defines and settings!

Started with setting structs for the heavy loaded registers.
Added more defines used with these. Not complete yet, still more
to implement.
manual freertos test, cleanup for integration...

-Created a manual FreeRTOS test
-Cleaned main.c for integration
-Fixed some warnings
-Fixed compile errors
cleaned main.h