Merge github_GBSX/master

Conflicts:
	README.md

GBSX v1.2

Code Clean-up
Deleted demultiplex parameter -m

Update GBSX digest script (input file location error fixed)

Updated GBSX demultiplexer for Single Read demultiplexer, issue with Enzymes with variable site. (This problem did not occure in Paired-End demultiplexing)

Update adaptor ligase finding algorithm

Removed unneeded, confusing parameters -cc and -al
Removed unused code

Dual Barcode demultiplexing and simulation (in paired end only) update

Release of GBSX v1.1

GBSX v1.0