Fixed a number of broken Markdown references
Fixes to markdown to be compatible with the latest Jekyll stack

See https://help.github.com/articles/using-jekyll-with-pages#troubleshooting
Gemfile to use with Bundler.

See https://help.github.com/articles/using-jekyll-with-pages#troubleshooting
Merge pull request #212 from pelegri/gh-pages

Remove all Jekyll/Markdown warnings, and work with latest Jekyll stack