Docs: fixed hyphens in CHANGES.txt

md5: python2.5 fix

Docs: manual update (release date and citations order)

Fixed tiny issue with not-executable ./configure (Gnuplot compilation…

… via pip install in some environments)

Switch to major.minor.patch versioning

Do not run BWA if --fast is specified

glossary: fixed than -> to (second try)

Docs: info about --prefix replaced with info about ./install.sh

Removing aux bedtools files (not needed in our repo)

Removing aux bedtools files (not needed in our repo)