moving files around after repository merger

1 files changed, 0 insertions, 873 deletions

diff --git a/src/model/graph.js b/src/model/graph.js
deleted file mode 100644
index b3c8e33f..00000000
--- a/src/model/graph.js
+++ /dev/null
@@ -1,873 +0,0 @@
-"use strict"
-
-define(['Bacon', 'consts', 'util', 'model/core', 'model/util', 'model/diff', 'rz_api_backend', 'rz_api_mesh', 'history', 'rz_bus', 'rz_config'],
-function (Bacon, consts, util, model_core, model_util, model_diff, rz_api_backend, rz_api_mesh, history, rz_bus, rz_config) {
-
-var debug = false;
-
-function Graph() {
-
-    var nodes = [],
-        id_to_node_map = {},
-        links = [],
-        diffBus = new Bacon.Bus();
-
-    this.diffBus = diffBus;
-
-    /**
-     * add node if no previous node is present whose id equals that of the node being added
-     *
-     * @return node if node was actually added
-     */
-    this.addNode = function(spec) {
-        var node = this.__addNode(spec);
-        if (node) {
-            return node;
-        }
-    }
-
-    /**
-     * Inner implementation
-     *
-     * @param notify whether or not a presenter notification will be sent, default = true
-     */
-    function __addNode(spec, notify, peer_notify) {
-        var existing_node,
-            node;
-
-        notify = undefined === notify ? true : notify;
-        peer_notify = undefined === peer_notify ? true : peer_notify;
-
-        if (undefined == spec.id) {
-            existing_node = findNodeByName(spec.name)
-            if (existing_node){
-                return existing_node;
-            } else {
-                node = model_core.create_node__set_random_id(spec);
-                if (debug) {
-                    if ('bubble' != node.type){
-                        console.log('__addNode: stamping node id: ' + node.id + ', name: \'' + node.name + '\' (bubble)');
-                    }else {
-                        console.log('__addNode: stamping node id: ' + node.id + ', name: \'' + node.name + '\'');
-                    }
-                }
-            }
-        } else {
-            node = model_core.create_node_from_spec(spec);
-        }
-
-        existing_node = find_node__by_id(node.id);
-        if (existing_node) {
-            console.log('__addNode: id collision: existing-node.id: \'' + existing_node.id + '\', ' + 'new-node.id: \'' + node.id + '\'');
-            return existing_node;
-        }
-
-        util.assert(undefined != node.id, '__addNode: node id missing');
-        nodes.push(node);
-        id_to_node_map[node.id] = node;
-        console.log('__addNode: node added: id: ' + node.id);
-
-        if (rz_config.backend_enabled && peer_notify){
-            var topo_diff = model_diff.new_topo_diff({
-                node_set_add : [node].map(model_util.adapt_format_write_node),
-            });
-            var on_success = function(){
-                // FIXME: handle possible outcomes:
-                // - id merge: node already exists -> update id
-                // - link-merge: node already exists -> merge links, recurse?
-            };
-            var on_error = function(){
-                // TODO: add problem emblem to node
-            };
-            rz_api_backend.commit_diff__topo(topo_diff, on_success, on_error);
-        }
-
-        if (notify) {
-            diffBus.push({nodes: {add: [node]}});
-        }
-
-        return node;
-    }
-    this.__addNode = __addNode;
-
-    this._remove_node_set = function(ns, peer_notify) {
-
-        peer_notify = undefined === peer_notify ? true : peer_notify;
-
-        var cascade_link_rm_set = []; // track cascading link removals
-        for (var j = 0; j < ns.length; j++) {
-            var n = ns[j];
-            var i = 0;
-            while (i < links.length) {
-                var link = links[i];
-                if ((link['__src'].equals(n)) || (link['__dst'].equals(n))) { // compare by id
-                    links.splice(i, 1);
-                    cascade_link_rm_set.push(link);
-                }
-                else {
-                    i++;
-                }
-            }
-            var index = findNodeIndex(n.id, n.state);
-            if (index !== undefined) {
-                nodes.splice(index, 1);
-
-                util.assert(undefined != n.id, '_remove_node_set: node id missing');
-                delete id_to_node_map[n.id];
-            }
-        }
-
-        cascade_link_rm_set.forEach(function(n){
-            console.log('_remove_node_set: removed node: id: ' + n.id);
-        });
-
-        if (rz_config.backend_enabled && peer_notify){
-            var topo_diff = model_diff.new_topo_diff({
-                node_set_rm : ns.map(function(n){ return n.id; }),
-                link_set_rm : cascade_link_rm_set.map(function(l){ return l.id; }),
-            });
-            var on_success = function(){
-                // FIXME: handle possible outcomes:
-                // - rm cascade of connected links
-            };
-            var on_error = function(){
-                // TODO: add problem emblem to node
-            };
-            rz_api_backend.commit_diff__topo(topo_diff, on_success, on_error);
-        }
-
-        if (ns.length > 0) {
-            diffBus.push({nodes: {removed: ns.map(function(n) { return n.id; })}});
-        }
-    }
-
-    this.removeNode = function(id) {
-        var n = find_node__by_id(id);
-        this._remove_node_set([n]);
-    }
-
-    this.removeNodes = function(n_filer) {
-        var ns = find_node_set_by_filer(n_filer);
-        this._remove_node_set(ns);
-    }
-
-    /**
-     *
-     * getConnectedNodesAndLinks
-     *
-     * @id
-     * @state - defines the starting node (must have id and state)
-     * @d - depth defining connected component. If -1 returns the entire connected component. (can be the whole graph)
-     *
-     * NOTE: chainlinks are treated specially, they don't count for distance. So all their decendants will be added.
-     *
-     * NOTE: temp state nodes (n.state === 'temp') are ignored.
-     *
-     * @return - {
-     *  'node': [node]
-     *  'link': [link]
-     *  }
-     *
-     * TODO: rewrite using efficient data structure. Right now iterates over everything
-     * TODO: implement for d !== 1
-     *
-     */
-    this.getConnectedNodesAndLinks = function(chosen_nodes, d) {
-        var ret = {'nodes':[], 'links':[]};
-
-        function addNode(node) {
-            if (chosen_nodes.filter(function (n) { return n.id == node.id; }).length == 1) {
-                return;
-            }
-            ret.nodes.push(node);
-        }
-        function same(n1, n2) {
-            // XXX: using name comparison because one of the nodes might be stale
-            return compareNames(n1.name, n2.name);
-        }
-
-        if (chosen_nodes === undefined) {
-            console.log('getConnectedNodesAndLinks: bug: called with undefined node');
-            return;
-        }
-        if (d !== 1) {
-            console.log('getConnectedNodesAndLinks: bug: not implemented for d == ' + d);
-        }
-        d = d || 1;
-
-        if (chosen_nodes.length === undefined) {
-            console.log('getConnectedNodesAndLinks: expected array');
-        }
-
-        links.forEach(function(link) {
-            chosen_nodes.forEach(function (n) {
-                var adjacentnode;
-                if (same(link.__src, n)) {
-                    adjacentnode = find_node__by_id(link.__dst.id);
-                    if (adjacentnode.state !== "temp") {
-                        addNode({type: 'exit', node: adjacentnode});
-                    }
-                    ret.links.push({type: 'exit', link: link});
-                    if (link.__dst.type === "chainlink") {
-                        links.forEach(function(link2) {
-                            if (link.__dst.id === link2.__dst.id &&
-                                link2.__dst.type === "chainlink" &&
-                                link2.__dst.state !== "temp") {
-                                adjacentnode = find_node__by_id(link2.__src.id);
-                                if (adjacentnode.state !== "temp") {
-                                    addNode({type: 'enter', node: adjacentnode});
-                                }
-                                ret.links.push({type: 'enter', link: link2});
-                            }
-                        });
-                    }
-                }
-                if (same(link.__dst, n)) {
-                    adjacentnode = find_node__by_id(link.__src.id);
-                    if (adjacentnode.state !== "temp") {
-                        addNode({type: 'enter', node: adjacentnode});
-                    }
-                    ret.links.push({type: 'enter', link: link});
-                }
-            });
-        });
-        return ret;
-    }
-
-    /* compareSubset:
-     *  state: one of the optional states that defines a subgraph
-     *  new_nodes: array of objects with name
-     *  new_links: array of length two arrays [source_name, target_name]
-     *  returns: true if current and new graph are homomorphic up to
-     *  a single node id change. false otherwise
-     */
-    this.compareSubset = function(state, new_nodes, new_links) {
-        // Note: the nodes include a state=='temp', type=='bubble' node
-        // but it's ok since it exists both in new_nodes and in state_nodes
-        var state_nodes = findNodes(null, state).filter(function (nd) {
-            return nd.type !== 'bubble';
-        });
-        var state_links = findLinks(state).map(function(link) {
-            return [link.__src.name, link.__dst.name];
-        }).sort();
-        var k;
-        var state_source, state_target, new_source, new_target;
-        var changed_nodes;
-        var verbose = false; // XXX should be global.
-        var set_old_name, set_new_name;
-
-        new_nodes.map(function (f) {
-            if (!f.name) {
-                console.log('missing name on node. node follows');
-                console.log(f);
-            }
-        });
-        new_nodes.sort();
-        new_links.sort();
-        if (new_nodes.length != state_nodes.length || new_links.length != state_links.length) {
-            if (verbose) {
-                console.log('not same size: new/old ' + new_nodes.length + ' / ' + state_nodes.length + '; ' +
-                            new_links.length + ' / ' + state_links.length);
-            }
-            return {graph_same: false};
-        }
-        changed_nodes = util.set_diff(util.set_from_array(state_nodes.map(function(d) { return d.name; })),
-                                 util.set_from_array(new_nodes.map(function (f) { return f.name; })));
-        // we allow any number of changed nodes as long as we it is 1 or 2 :)
-        if (changed_nodes.a_b.length > 2) {
-            if (verbose) {
-                console.log('changed too many nodes');
-                console.log(changed_nodes);
-            }
-            return {graph_same: false};
-        }
-        set_old_name = util.set_from_array(changed_nodes.a_b);
-        set_new_name = util.set_from_array(changed_nodes.b_a);
-        for (k = 0 ; k < state_links.length ; ++k) {
-            state_source = state_links[k][0];
-            state_target = state_links[k][1];
-            new_source = new_links[k][0];
-            new_target = new_links[k][1];
-            if ((state_source !== new_source &&
-                 !(state_source in set_old_name && new_source in set_new_name))
-                ||
-               (state_target !== new_target &&
-                 !(state_target in set_old_name && new_target in set_new_name))) {
-                if (verbose) {
-                    console.log('not same link: ' +
-                                state_source + '->' + state_target + ' != ' +
-                                new_source + '->' + new_target);
-                    console.log('state_source === new_source: ' + String(state_source === new_source));
-                    console.log('state_target === new_target: ' + String(state_target === new_target));
-                    console.log(set_old_name);
-                    console.log(set_new_name);
-                }
-                return {graph_same: false};
-            }
-        }
-        return {graph_same: true, old_name: changed_nodes.a_b, new_name: changed_nodes.b_a};
-    }
-
-    this.addLinkByName = function(src_name, dst_name, name, state, drop_conjugator_links) {
-
-        var src = findNodeByName(src_name),
-            dst = findNodeByName(dst_name),
-            src_id = src ? src.id : null,
-            dst_id = dst ? dst.id : null;
-
-        if (src_id === null || dst_id === null) {
-            console.log('error: link of missing nodes: ' + src_name + ' (' + src_id + ') -> '
-                        + dst_name + ' (' + dst_id + ')');
-            return;
-        }
-
-        var link = model_core.create_link__set_random_id(src, dst, { name: name,
-                                                                     state: state });
-        this.addLink(link);
-    }
-
-    function addLink(link, peer_notify) {
-
-        util.assert(link instanceof model_core.Link);
-
-        peer_notify = undefined === peer_notify ? true : peer_notify;
-
-        var existing_link = findLink(link.__src.id, link.__dst.id, link.name);
-
-        if (undefined == existing_link) {
-
-            links.push(link);
-
-            if (rz_config.backend_enabled && peer_notify){
-                var topo_diff = model_diff.new_topo_diff({
-                    link_set_add : [link].map(model_util.adapt_format_write_link),
-                });
-                var on_success = function(){
-                    // FIXME: handle possible outcomes:
-                    // - id merge: link already exists -> update id
-                    // - attr-merge: link already exists -> merge attrs
-                };
-                var on_error = function(){
-                    // TODO: add problem emblem to node
-                };
-                rz_api_backend.commit_diff__topo(topo_diff, on_success, on_error);
-            }
-
-            diffBus.push({links: {add: [link]}});
-        } else {
-            existing_link.name = link.name;
-            existing_link.state = link.state;
-        }
-    }
-    this.addLink = addLink;
-
-    this.editLink = function(src_id, dst_id, newname, newstate) {
-        var link = findLink(src_id, dst_id, newname);
-
-        if (link === undefined) {
-            return;
-        }
-        link.name = newname;
-        if (newstate !== undefined) {
-            link.state = newstate;
-        }
-        rz_bus.names.push([newname]);
-    }
-
-    this.editLinkTarget = function(src_id, dst_id, new_dst_id) {
-        var link = findLink(src_id, dst_id, null);
-        if (link !== undefined) {
-            link.__dst = find_node__by_id(new_dst_id);
-
-        } else {
-
-        }
-    }
-
-    this.update_node = function(node, new_node_spec, on_success, on_error) {
-        util.assert(node instanceof model_core.Node);
-
-        if (rz_config.backend_enabled){
-
-            if (node.name != new_node_spec.name){
-                /*
-                 * handle name update collision: suggest removal first
-                 */
-                var n_eq_name = findNodeByName(new_node_spec.name);
-                if (undefined != n_eq_name) {
-                    // delete colliding node on rename
-                    console.warn('update_node: name collision blocked due to node rename');
-                    undefined != on_error && on_error();
-                    return;
-                }
-
-                node['name'] = new_node_spec['name']; // [!] may still fail due to server NAK
-            }
-
-            var attr_diff = model_diff.new_attr_diff();
-            for (var key in new_node_spec){
-                attr_diff.add_node_attr_write(node.id, key, new_node_spec[key]);
-            }
-
-            var on_ajax_success = function(id_to_node_map){
-                var node_id = node.id; // original node id
-                if (id_to_node_map[node_id].id != node_id){
-                    // TODO: handle incoming ID update
-                    util.assert(false, 'update_node: id attr change');
-                }
-
-                var ret_node = id_to_node_map[node_id];
-                for (var key in ret_node){
-                    if ('name' == key || 'id' == key){
-                        continue;
-                    }
-                    node[key] = ret_node[key];
-                }
-
-                // TODO: handle NAK: add problem emblem to node
-                on_success();
-            };
-
-            var on_ajax_error = function(){
-            };
-
-            rz_api_backend.commit_diff__attr(attr_diff, on_ajax_success, on_ajax_error);
-        }
-    }
-
-    this.editNameByName = function(old_name, new_name) {
-        var node = findNodeByName(old_name);
-
-        if (node === undefined) {
-            console.log('editNameByName: error: cannot find node with name ' + old_name);
-            return;
-        }
-        return this.editName(node.id, new_name); // TODO: introduce Node class (yes Amir, I'm now down with that).
-    }
-
-    this.editName = function(id, new_name) {
-        var n_eq_name = findNodeByName(new_name);
-        var n_eq_id = find_node__by_id(id);
-        var acceptReplace=true;
-
-        if (n_eq_id === undefined) {
-            return;
-        }
-        if (n_eq_id.name == new_name) {
-            return;
-        }
-        if (n_eq_name !== undefined && n_eq_id.state !== 'temp' && !compareNames(n_eq_id.name, new_name)) {
-            acceptReplace = confirm('"' + n_eq_name.name + '" will replace "' + n_eq_id.name + '", are you sure?');
-            if (acceptReplace){
-                for (var i = 0; i < links.length; i++) {
-                    if (links[i].__src === n_eq_id) {
-                        links[i].__src = n_eq_name;
-                    }
-                    if (links[i].__dst === n_eq_id) {
-                        links[i].__dst = n_eq_name;
-                    }
-                }
-                this.removeNode(n_eq_id.id);
-            }
-        } else {
-            n_eq_id.name = new_name;
-        }
-    }
-
-    this.editDates = function(id, state, start, end) {
-        var n = find_node__by_id(id);
-        if (state != n.state){
-            return;
-        }
-        if ((n !== undefined)) {
-            n.start = start;
-            n.end = end;
-        }
-    }
-
-    /**
-     * editType:
-     *
-     * @return true if type changed
-     */
-    this.editType = function(id, state, newtype) {
-        return this._editProperty(id, state, 'type', newtype);
-    }
-
-    this.editURL = function(id, state, url) {
-        return this._editProperty(id, state, 'url', url);
-    }
-
-    this._editProperty = function(id, state, prop, value) {
-        var n = find_node__by_id(id);
-        if (state != n.state){
-            return false;
-        }
-
-        if ((n === undefined)) {
-            return false;
-        }
-        n[prop] = value;
-        return true;
-    }
-
-    this.editStatus = function(id, state, status) {
-        return this._editProperty(id, state, 'status', status);
-    }
-
-    this.editState = function(id, state, newstate) {
-        return this._editProperty(id, state, 'state', newstate);
-    }
-
-    this.findCoordinates = function(id) {
-        var n = find_node__by_id(id);
-        if ((index !== undefined)) {
-            $('.typeselection').css('top', n.y - 90);
-            $('.typeselection').css('left', n.x - 230);
-        }
-    }
-
-    this.removeLink = function(link) {
-        var i;
-
-        for (i = 0 ; i < links.length; ++i) {
-            if (link.id !== undefined) {
-                if (link.id === links[i].id) {
-                    links.splice(i, 1);
-                    return;
-                }
-            } else {
-                if (link.__src.id === links[i].__src.id && link.__dst.id === links[i].__dst.id) {
-                    links.splice(i, 1);
-                    return;
-                }
-            }
-        }
-        console.log('bug: attempt to remove non existant link');
-    }
-
-    this.removeLinks = function(state) {
-        var id = null;
-        var ls = findLinks(state);
-        for (var j = 0; j < ls.length; j++) {
-            var l = ls[j];
-            var i = 0;
-            while (i < links.length) {
-                if (links[i] === l) links.splice(i, 1);
-                else i++;
-            }
-        }
-    }
-
-    var findLink = function(src_id, dst_id, name) {
-        for (var i = 0; i < links.length; i++) {
-            if (links[i].__src.id === src_id && links[i].__dst.id === dst_id) {
-                return links[i];
-            }
-        }
-    }
-
-    var findLinks = function(state) {
-        var foundLinks = [];
-        for (var i = 0; i < links.length; i++) {
-            if (links[i].state == state) {
-                foundLinks.push(links[i]);
-            }
-        }
-        return foundLinks;
-    }
-
-    var compareNames = function(name1, name2) {
-        return name1.toLowerCase() === name2.toLowerCase();
-    };
-
-    var hasNodeByName = function(name, state) {
-        return nodes.filter(function (n) {
-            return compareNames(n.name, name) && n.state === state;
-        }).length > 0;
-    }
-    this.hasNodeByName = hasNodeByName;
-
-    var hasNodeByNameAndNotState = function(name, state) {
-        return nodes.filter(function(n) {
-            return compareNames(n.name, name) && n.state !== state;
-        }).length > 0;
-    }
-    this.hasNodeByNameAndNotState = hasNodeByNameAndNotState;
-
-    var hasNode = function(id, state) {
-        var i;
-
-        for (i = 0 ; i < nodes.length; ++i) {
-            if (nodes[i].id === id && nodes[i].state === state) {
-                return true;
-            }
-        }
-        return false;
-    }
-    this.hasNode = hasNode;
-
-    /**
-     * return node whose id matches the given id or undefined if no node was found
-     */
-    var find_node__by_id = function(id) {
-        return id_to_node_map[id];
-    }
-
-    /**
-     * @param filer: must return true in order for node to be included in the returned set
-     */
-    var find_node_set_by_filer = function(filter) {
-        var ret = [];
-        nodes.map(function(n){
-           if (true == filter(n)){
-               ret.push(n);
-           }
-        });
-        return ret;
-    }
-
-    var findNodeByName = function(name) {
-        for (var i = 0 ; i < nodes.length ; ++i) {
-            if (compareNames(nodes[i].name, name)) {
-                return nodes[i];
-            }
-        }
-    }
-
-    var findNodes = function(id, state) {
-        // id=id.toLowerCase();
-        var foundNodes = [];
-        for (var i = 0; i < nodes.length; i++) {
-            if ((id && nodes[i].id === id) || (state && nodes[i].state === state))
-                foundNodes.push(nodes[i]);
-        }
-        return foundNodes;
-    }
-
-    var findNodeIndex = function(id, state) {
-        for (var i = 0; i < nodes.length; i++) {
-            if ((id && nodes[i].id === id) || (state && nodes[i].state === state))
-                return i;
-        };
-    }
-
-    function clear() {
-        nodes.length = 0;
-        links.length = 0;
-    }
-    this.clear = clear;
-
-    function empty() {
-        return nodes.length == 0 && links.length == 0;
-    }
-    this.empty = empty;
-
-    // @ajax-trans
-    this.commit_diff_set = function (diff_set) {
-
-        function on_success(data){
-            console.log('commit_diff_set:on_success: TODO impl');
-        }
-
-        rz_api_mesh.broadcast_possible_next_diff_block(diff_set);
-    }
-
-    /**
-     * perform initial DB load from backend
-     *
-     * @param on_success: should be used by MVP presentors to trigger UI update
-     */
-    // @ajax-trans
-    function load_from_backend(on_success) {
-
-        function on_success__ajax(data){
-            var n_set = []; // added node set
-            var l_set = []; // added link set
-            var len;
-
-            data['node_set'].map(function(n_spec) {
-                n_spec = model_util.adapt_format_read_node(n_spec);
-
-                util.assert(undefined != n_spec.id, 'load_from_backend: n_spec missing id');
-
-                var n = __addNode(n_spec, false, false);
-                n_set.push(n);
-            });
-
-            data['link_set'].map(function(l_spec){
-                var l_ptr = model_util.adapt_format_read_link_ptr(l_spec);
-
-                util.assert(undefined != l_ptr.id, 'load_from_backend: l_ptr missing id');
-
-                // resolve link ptr
-                var src = find_node__by_id(l_ptr.__src_id),
-                    dst = find_node__by_id(l_ptr.__dst_id);
-
-                // cleanup & reuse as link_spec
-                delete l_ptr.__src_id;
-                delete l_ptr.__dst_id;
-                var link_spec = l_ptr;
-                var link = model_core.create_link_from_spec(src, dst, link_spec);
-                var l = addLink(link, false);
-                l_set.push(l);
-            });
-
-            undefined != on_success && on_success()
-        }
-
-        rz_api_backend.clone(0, on_success__ajax);
-    }
-    this.load_from_backend = load_from_backend;
-
-    this.load_from_json = function(json) {
-        var data = JSON.parse(json),
-            added_names,
-            that = this;
-
-        clear();
-        if (data == null) {
-            console.log('load callback: no data to load');
-            return;
-        }
-        added_names = data.nodes.map(function(node) {
-            return that.__addNode({id:node.id, name:node.name ? node.name : node.id,
-                                 type:node.type,state:"perm",
-                                 start:new Date(node.start),
-                                 end:new Date(node.end),
-                                 status:node.status,
-                                 url:node.url,
-                                 x: node.x,
-                                 y: node.y,
-                                }, false, false).name;
-        });
-        data.links.forEach(function(link) {
-            that.addLink(link.__src, link.__dst, link.name, "perm");
-        });
-        this.clear_history();
-        rz_bus.names.push(added_names);
-    }
-
-    this.save_to_json = function() {
-        var d = {"nodes":[], "links":[]};
-        for(var i = 0 ; i < nodes.length ; i++){
-          var node = nodes[i];
-          d['nodes'].push({
-            "id": node.id,
-            "name": node.name,
-            "type":node.type,
-            "state":"perm",
-            "start":node.start,
-            "end":node.end,
-            "status": node.status,
-            "url": node.url,
-            "x": node.x,
-            "y": node.y,
-          });
-        }
-        for(var j=0 ; j < links.length ; j++){
-          var link = links[j];
-          d['links'].push({
-            "__src":link.__src.id,
-            "__dst":link.__dst.id,
-            "name":link.name
-          });
-        }
-        return JSON.stringify(d);
-    }
-
-    this.set_user = function(user) {
-        var elem = $('svg g.zoom')[0];
-        this.user = user;
-        this.history = new history.History(this.user, this, elem);
-    }
-
-    function clear_history() {
-        if (this.history !== undefined) {
-            this.history.clear();
-        }
-    }
-
-    this.clear_history = clear_history;
-
-    var get_nodes = function() {
-        return nodes;
-    };
-    this.nodes = get_nodes;
-
-    var get_links = function() { return links; };
-    this.links = get_links;
-
-    function setRegularState() {
-        var x, node, link, s;
-
-        for (x in nodes) {
-            node = nodes[x];
-            s = node.state;
-            if (s === 'chosen' || s === 'enter' || s === 'exit') {
-                node.state = 'perm';
-            }
-        }
-        for (x in links) {
-            link = links[x];
-            s = link.state;
-            if (s === 'chosen' || s === 'enter' || s === 'exit') {
-                link.state = 'perm';
-            }
-        }
-    }
-    this.setRegularState = setRegularState;
-
-    this.findByVisitors = function(node_visitor, link_visitor) {
-        var n_length = nodes.length,
-            l_length = links.length,
-            selected = [],
-            i,
-            node,
-            link,
-            state;
-
-        if (!node_visitor) {
-            return;
-        }
-
-        for (i = 0 ; i < n_length; ++i) {
-            node = nodes[i];
-            if (node.state == 'temp') {
-                continue;
-            }
-            if (node_visitor(node)) {
-                selected.push(node);
-            }
-        }
-        return selected;
-    }
-
-    function markRelated(names) {
-        removeRelated();
-        nodes.forEach(function (node) {
-            names.forEach(function (name) {
-                if (compareNames(node.name, name) && node.state != 'temp') {
-                    node.state = 'related';
-                }
-            });
-        });
-    }
-    this.markRelated = markRelated;
-
-    function removeRelated() {
-        nodes.forEach(function (node) {
-            if (node.state == 'related') {
-                node.state = 'perm';
-            }
-        });
-    }
-    this.removeRelated = removeRelated;
-
-}
-
-return {
-    Graph: Graph,
-};
-
-});