gistfile1.txt

define(function () {
    return requirejs.config({
        paths: {
            'text': './text',
            'modernizr': './modernizr-2.6.2',
            'jquery': './jquery-1.11.0',
            'jquery-ui': './jquery-ui-1.10.3',
            'jquery-unobtrusive': "./jquery.unobtrusive-ajax",
            'jquery-val': "./jquery.validate",
            'knockout': './knockout-3.0.0.debug',
            'lodash': './lodash',
            'bootstrap': './bootstrap',
            'bootbox': './bootbox',
            'gridmvc': './gridmvc',
            'common': './common',
            'regular': './app/js',
            'coffee': './app/cs',
            'ko-mapping': 'knockout.mapping-latest.debug',
            'resolveRelink':'lodash.resolveRelink',
            'main': './app/js/main',
            'modal': './app/js/modalViewModel',
            'reportSummaryClass': './app/js/Patients/reportSummaryClass',
            'shortcut':'./shortcut'
        },
        map: {
            '*': {
                'jquery': 'jquery-private',
                'modernizr': 'modernizr-private'
            },
            'modernizr-private': { 'modernizr': 'modernizr' },
            'jquery-private': { 'jquery': 'jquery' },
            'bootstrap': { 'jquery': 'jquery' }

        },
        shim: {
            'jquery': { exports: "jQuery" },
            'bootstrap': { deps: ['jquery'] },
            'modernizr': { exports: 'Modernizr' },
            'knockout': { deps: ['jquery'] },
            'jquery-ui': ['jquery'],
            'jquery-unobtrusive': ['jquery'],
            'gridmvc': ['jquery', 'jquery-unobtrusive'],
            'bootbox': ['jquery'],
            'ko-mapping': ['knockout']
        }
    });
});

gistfile2.txt

define('modernizr-private', ['modernizr'], function(md) { return md; });
define('jquery-private', ['jquery'], function (jq) {
    return jq.noConflict(true);
});
define('main', function (_) {
    return function (refpath, scriptspath) {
        var viewInit = function () {
            var args = arguments;
            requirejs.config({
                baseUrl: scriptspath
            });
            requirejs([refpath], function () {
                viewInit.startup.apply(this, args);
            });
        };
        viewInit.startup = function () {
            var args = arguments;
            requirejs(['lodash', 'modernizr','customBindings','resolveRelink','text.export','knockout-repeat','bootstrap'], function(_) {
                var stringify = JSON.stringify;
                var opt = {clone:false};
                JSON.stringify= function(obj){
                    return stringify(_.resolve(obj));
                };
                var parse = JSON.parse;
                JSON.parse= function(str){
                    return _.relink(parse(str,opt));
                };
                requirejs.apply(this, args);
            });
        };
        return viewInit;
    };
});

gistfile3.txt

<script src="/Scripts/require.js" data-main="/Scripts/app/js/main.js"></script>
    <script>
        define('viewInit', ['main'], function (setup) {
            return setup('/Scripts/ref.js', '/Scripts');
        });

        var requireOrig = require;
        require = function () {
            var args = arguments;
            return requireOrig(['viewInit'], function (init) {
                init.apply(this, args);
                setTimeout(function () { require = requireOrig; }, 10);
            });
        };

        define('viewData', ['lodash'], function (_) {
            var model = _({});

            // Activates knockout.js
            return model.relink({ clone: false }).value();
        });
    </script>