Merge pull request #69 from apawlik/2013-05-krakow

Updated README and added version control
Merge pull request #75 from apawlik/2013-05-krakow

Revised setup instructions-added cygwin for Win
Merge pull request #76 from apawlik/2013-05-krakow

Fixed typos in the Setup instructions
Update Setup.md

Removed extra square bracket from Cygwin link.
Created director for Make material