Remove chef_handler (will replace with git submodule).
Add submodule for https://github.com/opscode-cookbooks/chef_handler.git
Remove windows cookbook (to be replaced with submodule)
Add windows submodule from https://github.com/opscode-cookbooks/windows.git
Remove ark cookbook (to be replaced with submodule).
Add ark submodule from https://github.com/bryanwb/chef-ark
Remove java cookbook (to be replaced with submodule).
Add java submodule from https://github.com/opscode-cookbooks/java
Remove elasticsearch cookbook (to be replaced with submodule).
Add elasticsearch submodule from https://github.com/elasticsearch/cookbook-elasticsearch