Those references are to the .d.ts file but Chutzpah needs to know where the actual implementation .js files are. You can do this using
/// <chutzpah_reference path="path/to/angular.js" >
/// <chutzpah_reference path="path/to/angular-ui.js" >
/// <chutzpah_reference path="path/to/angular-mock.js" >