CLC-2905 Updates Rails to 3.2.16, along with many other gems

https://jira.media.berkeley.edu/jira/browse/CLC-2905

Rails 3.2.16 plus many other gems updated via bundle update. 

nokogiri would sometimes bring in non-Java versions of some of its dependencies on a bundle update. To solve this we pass :platforms => :jruby to its gem ref. 

zip-zip solves an incompatibility in RubyZip versions that caused a "no such file to load: zip/zip" error on running tests. 

My Bamboo testext is green with this change.