r762: cleanup for the new release; unfinished

It will take to make the documentation ready.
updated maual page
r764: changed -c in "-x pacbio" to 500
r765: fixed a declaration error

Reported by Andreas Tile from Debian
r766: removed useless code
updated README
changed the heading format
fixed wrong FAQ links
r770: fixed a compiling warning
Merge branch 'master' into mem

Conflicts:
	bwt_lite.c