Update .gitignore

Same .gitignore as in integration. Now ignores .doxyfile
Updated gitignore
Made some doxygen documentation for the functions.
More documentation is in place but I don't know where to put it.
Perhaps in wiki?
Merge branch 'softDelay_saeed' of
https://github.com/theolind/mahm3lib.git into softDelay_saeed

Conflicts:
	.gitignore

.gitignore is corrupted. Must fix
Merge remote-tracking branch 'origin/integration' into softDelay_saeed

Conflicts:
	.gitignore
	src/delay_soft.h