commit/galaxy-central: guerler: Updated UI elements and styles, added zoomable charts - galaxy-commits

31 May 2014

1 new commit in galaxy-central:
https://bitbucket.org/galaxy/galaxy-central/commits/18db7291e890/
Changeset:   18db7291e890
User:        guerler
Date:        2014-05-31 03:42:28
Summary:     Updated UI elements and styles, added zoomable charts
Affected #:  159 files
diff -r a223d4188a2489c71d86f6ba0e6698573f384d7d -r 18db7291e89062110a3c81df9293a68935779c47 config/plugins/visualizations/charts/static/app.css

--- a/config/plugins/visualizations/charts/static/app.css
+++ b/config/plugins/visualizations/charts/static/app.css
@@ -1,3 +1,30 @@
+.ui-label {
+	font-weight: bold;
+}
+.ui-message {
+    padding: 2px 2px 2px 10px;
+}
+
+.ui-icon {
+    font-size: 1.2em;
+}
+
+.ui-button-icon {
+    margin-right: 5px;
+}
+
+.ui-button-icon .button {
+    margin-right: 5px;
+    margin-left: 5px;
+}
+
+.ui-button-icon .title {
+    position: relative;
+    font-size: 0.8em;
+    font-weight: normal;
+    top: -1px;
+}
+
 .charts-grid .item {
    padding: 5px;
    margin: 5px;
diff -r a223d4188a2489c71d86f6ba0e6698573f384d7d -r 18db7291e89062110a3c81df9293a68935779c47 config/plugins/visualizations/charts/static/app.js
--- a/config/plugins/visualizations/charts/static/app.js
+++ b/config/plugins/visualizations/charts/static/app.js
@@ -86,6 +86,22 @@
         }
     },
+    // get root path
+    chartPath: function(chart_type) {
+        // create path from id
+        var path = chart_type.split(/_(.+)/);
+        
+        // check path
+        if (path.length >= 2) {
+            // return path
+            return path[0] + '/' + path[1];
+        } else {
+            // log status
+            console.debug('FAILED App:chartPath() - Invalid format: ' + chart_type);
+        }
+        return undefined;
+    },
+
     // execute command
     execute: function(options) {
     },
diff -r a223d4188a2489c71d86f6ba0e6698573f384d7d -r 18db7291e89062110a3c81df9293a68935779c47 config/plugins/visualizations/charts/static/build-app.js
--- a/config/plugins/visualizations/charts/static/build-app.js
+++ b/config/plugins/visualizations/charts/static/build-app.js
@@ -3,4 +3,4 @@
 //     (c) 2009-2013 Jeremy Ashkenas, DocumentCloud Inc.
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a=o.columns[u].index,f=this._block_id(e,a);if(this.cache[f]||a==="auto")continue;!r[a]&&a!==undefined&&(r[a]=i,n.push(a),i++)}}if(n.length==0){this._fill_from_cache(e),t(e);return}var l={dataset_id:e.id,start:e.start,end:e.end,columns:n},c=this;this._fetch(l,function(r){for(var i in r){var s=n[i],o=c._block_id(e,s);c.cache[o]=r[i]}c._fill_from_cache(e),t(e)})},_fill_from_cache:function(e){console.debug("Datasets::_fill_from_cache() - Filling request from cache.");var t=e.start,n=0;for(var r in e.groups){var i=e.groups[r];for(var s in i.columns){var o=i.columns[s],u=this._block_id(e,o.index),a=this.cache[u];a&&(n=Math.max(n,a.length))}}n==0&&console.debug("FAILED - Datasets::_fill_from_cache() - Invalid range.");for(var r in e.groups){var i=e.groups[r];i.values=[];for(var f=0;f<n;f++)i.values[f]={x:parseInt(f)+t}}for(var r in e.groups){var i=e.groups[r];for(var s in i.columns){var o=i.columns[s];if(o.index=="auto")for(var f=0;f<n;f++){var l=i.values[f];l[s]=parseInt(f)+t}else{var u=this._block_id(e,o.index),a=this.cache[u];for(var f=0;f<n;f++){var l=i.values[f],c=a[f];isNaN(c)&&!o.is_label&&(c=0),l[s]=c}}}}},_fetch:function(t,n){var r=t.start?t.start:0,i=Math.abs(t.end-t.start),s=this.app.config.get("query_limit");if(!i||i>s)i=s;var o=0;t.columns&&(o=t.columns.length,console.debug("Datasets::_fetch() - Fetching "+o+" column(s)")),o==0&&console.debug("Datasets::_fetch() - No columns requested");var u="";for(var a in t.columns)u+=t.columns[a]+",";u=u.substring(0,u.length-1);var f=this;e.request("GET",config.root+"api/datasets/"+t.dataset_id,{data_type:"raw_data",provider:"dataset-column",limit:i,offset:r,indeces:u},function(e){var t=new Array(o);for(var r=0;r<o;r++)t[r]=[];for(var r in e.data){var i=e.data[r];for(var s in i){var u=i[s];u!==undefined&&u!=2147483647&&t[s].push(u)}}console.debug("Datasets::_fetch() - Fetching complete."),n(t)})}})}),define("plugin/models/group",[],function(){return Backbone.Model.extend({defaults:{key:"Data label",date:""},reset:function(){this.clear({silent:!0}).set(this.defaults),this.trigger("reset",this)}})}),define("plugin/models/groups",["plugin/models/group"],function(e){return Backbone.Collection.extend({model:e})}),define("plugin/library/deferred",["utils/utils"],function(e){return Backbone.Model.extend({queue:[],process:{},counter:0,initialize:function(){this.on("refresh",function(){if(this.counter==0)for(var e in this.queue){var t=this.queue[e];this.queue.splice(e,1),t()}})},execute:function(e){this.queue.push(e),this.trigger("refresh")},register:function(){var t=e.uuid();return this.process[t]=!0,this.counter++,console.debug("Deferred:register() - Registering "+t),t},done:function(e){this.process[e]&&(delete this.process[e],this.counter--,console.debug("Deferred:done() - Unregistering "+e),this.trigger("refresh"))},ready:function(){return this.counter==0}})});var Visualization=Backbone.Model.extend({defaults:{config:{}},urlRoot:function(){var e="/api/visualizations";return window.galaxy_config&&galaxy_config.root?galaxy_config.root+e:e},initialize:function(e){_.isObject(e.config)&&_.isObject(this.defaults.config)&&_.defaults(e.config,this.defaults.config),this._setUpListeners()},_setUpListeners:function(){},set:function(e,t){if(e==="config"){var n=this.get("config");_.isObject(n)&&(t=_.extend(_.clone(n),t))}return Backbone.Model.prototype.set.call(this,e,t),this},toString:function(){var e=this.get("id")||"";return this.get("title")&&(e+=":"+this.get("title")),"Visualization("+e+")"}}),VisualizationCollection=Backbone.Collection.extend({model:Visualization,url:function(){return galaxy_config.root+"api/visualizations"},initialize:function(e,t){t=t||{}},set:function(e,t){var n=this;e=_.map(e,function(e){var t=n.get(e.id);if(!t)return e;var r=t.toJSON();return _.extend(r,e),r}),Backbone.Collection.prototype.set.call(this,e,t)},toString:function(){return["VisualizationCollection(",[this.historyId,this.length].join(),")"].join("")}});define("mvc/visualization/visualization-model",function(){}),define("plugin/models/chart",["plugin/models/groups","plugin/library/deferred","mvc/visualization/visualization-model"],function(e,t){return Backbone.Model.extend({defaults:{id:null,title:"",type:"",date:null,state:"",state_info:"",modified:!1,dataset_id:"",dataset_id_job:""},initialize:function(n){this.groups=new e,this.settings=new Backbone.Model,this.deferred=new t},reset:function(){this.clear({silent:!0}).set(this.defaults),this.groups.reset(),this.settings.clear(),this.trigger("reset",this)},copy:function(e){var t=this;t.clear({silent:!0}).set(this.defaults),t.set(e.attributes),t.settings=e.settings.clone(),t.groups.reset(),e.groups.each(function(e){t.groups.add(e.clone())}),t.trigger("change",t)},state:function(e,t){this.set("state",e),this.set("state_info",t),this.trigger("set:state"),console.debug("Chart:state() - "+t+" ("+e+")")}})}),define("plugin/library/storage",["utils/utils","plugin/models/chart","plugin/models/group"],function(e,t,n){return Backbone.Model.extend({vis:null,initialize:function(e){this.app=e,this.chart=this.app.chart,this.options=this.app.options,this.id=this.options.id,this.vis=new Visualization({type:"charts",config:{dataset_id:this.options.config.dataset_id,chart_dict:{}}}),this.id&&(this.vis.id=this.id);var t=this.options.config.chart_dict;t&&(this.vis.get("config").chart_dict=t)},save:function(){var e=this.app.chart;this.vis.get("config").chart_dict={};var t=e.get("title");t!=""&&this.vis.set("title",t);var n={attributes:e.attributes,settings:e.settings.attributes,groups:[]};e.groups.each(function(e){n.groups.push(e.attributes)}),this.vis.get("config").chart_dict=n;var r=this;this.vis.save().fail(function(e,t,n){console.error(e,t,n)}).then(function(e){e&&e.id&&(r.id=e.id)})},load:function(){var e=this.vis.get("config").chart_dict;if(!e.attributes)return!1;this.chart.set(e.attributes),this.chart.state("ok","Loading saved visualization..."),this.chart.settings.set(e.settings);for(var t in e.groups)this.chart.groups.add(new n(e.groups[t]));return this.chart.set("modified",!1),!0}})}),define("plugin/library/screenshot",["libs/underscore"],function(e){function t(e,t,i){var s=new XMLSerializer,o="",u=this,a=0,f=0;return e.find("svg").each(function(){var e=$(this);n(e),a=parseInt(e.css("height")),f=parseInt(e.css("width")),e.attr({version:"1.1",xmlns:"http://www.w3.org/2000/svg%22,width:f,height:a%7D),o+=s.serializeToString(th... n(e){for(var t in document.styleSheets){var n=document.styleSheets[t],r=n.cssRules;if(r)for(var i=0,s=r.length;i<s;i++)try{e.find(r[i].selectorText).each(function(e,t){t.style.cssText+=r[i].style.cssText})}catch(o){}}}function r(e,t,n){var r=e.find("#viewport-form");r.length===0&&(r=$("<form>",{id:"viewport-form",method:"post",action:t,display:"none"}),e.append(r)),r.empty();for(name in n){var i=$("<input/>",{type:"hidden",name:name,value:n[name]});r.append(i)}try{r.submit()}catch(s){console.log(s)}}return{create:t}}),define("plugin/views/viewport",["mvc/ui/ui-portlet","plugin/library/ui","plugin/library/screenshot","utils/utils"],function(e,t,n,r){return Backbone.View.extend({container_list:[],canvas_list:[],initialize:function(e,t){this.app=e,this.chart=this.app.chart,this.options=r.merge(t,this.optionsDefault),this.setElement($(this._template())),this._fullscreen(this.$el,80),this._createContainer("div");var n=this;this.chart.on("redraw",function(){n._draw(n.chart)}),this.chart.on("set:state",function(){var e=n.$el.find("#info"),t=n.$el.find("container"),r=e.find("#icon");r.removeClass(),e.show(),e.find("#text").html(n.chart.get("state_info")),t.hide();var i=n.chart.get("state");switch(i){case"ok":e.hide(),t.show();break;case"failed":r.addClass("icon fa fa-warning");break;default:r.addClass("icon fa fa-spinner fa-spin")}})},show:function(){this.$el.show()},hide:function(){this.$el.hide()},_fullscreen:function(e,t){e.css("height",$(window).height()-t),$(window).resize(function(){e.css("height",$(window).height()-t)})},_createContainer:function(e,t){t=t||1;for(var n in this.container_list)this.container_list[n].remove();this.container_list=[],this.canvas_list=[];for(var n=0;n<t;n++){var r=$(this._templateContainer(e,parseInt(100/t)));this.$el.append(r),this.container_list[n]=r,e=="svg"?this.canvas_list[n]=d3.select(r.find("#canvas")[0]):this.canvas_list[n]=r.find("#canvas")}},_draw:function(e){var t=this,n=e.deferred.register(),r=e.get("type");this.chart_settings=this.app.types.get(r);var i=this.chart_settings.use_panels,s=1;i&&(s=e.groups.length),this._createContainer(this.chart_settings.tag,s),e.state("wait","Please wait...");if(!this.chart_settings.execute||this.chart_settings.execute&&e.get("modified"))this.app.jobs.cleanup(e),e.set("modified",!1);var t=this;require(["plugin/charts/"+r+"/wrapper"],function(r){var i=new r(t.app,{canvas:t.canvas_list});t.chart_settings.execute?t.app.jobs.request(e,t._defaultSettingsString(e),t._defaultRequestString(e),function(){i.draw(n,e,t._defaultRequestDictionary(e))},function(){e.deferred.done(n)}):i.draw(n,e,t._defaultRequestDictionary(e))})},_defaultRequestString:function(e){var t="",n=0,r=this;return e.groups.each(function(e){n++;for(var i in r.chart_settings.columns)t+=i+"_"+n+":"+(parseInt(e.get(i))+1)+", "}),t.substring(0,t.length-2)},_defaultSettingsString:function(e){var t="";for(key in e.settings.attributes)t+=key+":"+e.settings.get(key)+", ";return t.substring(0,t.length-2)},_defaultRequestDictionary:function(e){var t={groups:[]};this.chart_settings.execute?t.id=e.get("dataset_id_job"):t.id=e.get("dataset_id");var n=0,r=this;return e.groups.each(function(e){var i={};for(var s in r.chart_settings.columns){var o=r.chart_settings.columns[s];i[s]={index:e.get(s),is_label:o.is_label}}t.groups.push({key:++n+":"+e.get("key"),columns:i})}),t},_template:function(){return'<div class="charts-viewport"><div id="info" class="info"><span id="icon" class="icon" /><span id="text" class="text" /></div></div>'},_templateContainer:function(e,t){return'<div class="charts-viewport-container" style="width:'+t+'%;">'+'<div id="menu"/>'+"<"+e+' id="canvas" class="charts-viewport-canvas">'+"</div>"}})}),define("plugin/views/viewer",["utils/utils","plugin/library/ui","mvc/ui/ui-portlet","plugin/models/group","plugin/views/viewport","plugin/library/screenshot"],function(e,t,n,r,i,s){return Backbone.View.extend({initialize:function(e,r){this.app=e,this.chart=this.app.chart,this.viewport_view=new i(e);var o=this;this.portlet=new n.View({icon:"fa-bar-chart-o",title:"Viewport",operations:{edit_button:new t.ButtonIcon({icon:"fa-edit",tooltip:"Customize this chart",title:"Editor",onclick:function(){o._wait(o.chart,function(){o.app.go("editor")})}}),picture_button:new t.ButtonIcon({icon:"fa-camera",tooltip:"Download PDF-file ("+o.app.config.get("screenshot_url")+")",title:"Screenshot",onclick:function(){o._wait(o.chart,function(){s.create(o.viewport_view.$el,o.app.config.get("screenshot_url"),o.chart.get("title"))})}})}}),this.portlet.append(this.viewport_view.$el),this.setElement(this.portlet.$el);var o=this;this.chart.on("change:title",function(){o._refreshTitle()})},show:function(){this.$el.show(),$(window).trigger("resize")},hide:function(){this.$el.hide()},_refreshTitle:function(){var e=this.chart.get("title");this.portlet.title(e)},_wait:function(e,t){if(e.deferred.ready())t();else{var n=this;this.app.modal.show({title:"Please wait!",body:"Your chart is currently being processed. Please wait and try again.",buttons:{Close:function(){n.app.modal.hide()},Retry:function(){n.app.modal.hide(),setTimeout(function(){n._wait(e,t)},n.app.config.get("query_timeout"))}}})}}})}),define("mvc/ui/ui-tabs",["utils/utils"],function(e){var t=Backbone.View.extend({optionsDefault:{title_new:"",operations:null,onnew:null},initialize:function(t){this.visible=!1,this.$nav=null,this.$content=null,this.first_tab=null,this.options=e.merge(t,this.optionsDefault);var n=$(this._template(this.options));this.$nav=n.find(".tab-navigation"),this.$content=n.find(".tab-content"),this.setElement(n),this.list={};var r=this;this.options.operations&&$.each(this.options.operations,function(e,t){t.$el.prop("id",e),r.$nav.find(".operations").append(t.$el)});if(this.options.onnew){var i=$(this._template_tab_new(this.options));this.$nav.append(i),i.tooltip({title:"Add a new tab",placement:"bottom",container:r.$el}),i.on("click",function(e){i.tooltip("hide"),r.options.onnew()})}},add:function(e){var t=this,n=e.id,r=$(this._template_tab(e)),i=$(this._template_tab_content(e));this.list[n]=e.ondel?!0:!1,this.options.onnew?this.$nav.find("#new-tab").before(r):this.$nav.append(r),i.append(e.$el),this.$content.append(i),_.size(this.list)==1&&(r.addClass("active"),i.addClass("active"),this.first_tab=n);if(e.ondel){var s=r.find("#delete");s.tooltip({title:"Delete this tab",placement:"bottom",container:t.$el}),s.on("click",function(){return s.tooltip("destroy"),t.$el.find(".tooltip").remove(),e.ondel(),!1})}r.on("click",function(r){r.preventDefault(),e.onclick?e.onclick():t.show(n)})},del:function(e){this.$el.find("#tab-"+e).remove(),this.$el.find("#tab-content-"+e).remove(),this.first_tab==e&&(this.first_tab=null),this.first_tab!=null&&this.show(this.first_tab)},delRemovable:function(){for(var e in this.list)this.list[e]&&this.del(e)},show:function(e){this.$el.fadeIn("fast"),this.visible=!0,e&&(this.$el.find(".active").removeClass("active"),this.$el.find("#tab-"+e).addClass("active"),this.$el.find("#tab-content-"+e).addClass("active"))},hide:function(){this.$el.fadeOut("fast"),this.visible=!1},hideOperation:function(e){this.$nav.find("#"+e).hide()},showOperation:function(e){this.$nav.find("#"+e).show()},setOperation:function(e,t){var n=this.$nav.find("#"+e);n.off("click"),n.on("click",t)},title:function(e,t){var n=this.$el.find("#tab-title-text-"+e);return t&&n.html(t),n.html()},_template:function(e){return'<div class="ui-tabs tabbable tabs-left"><ul id="tab-navigation" class="tab-navigation nav nav-tabs"><div class="operations" style="float: right; margin-bottom: 4px;"></div></ul><div id="tab-content" class="tab-content"/></div>'},_template_tab_new:function(e){return'<li id="new-tab"><a href="javascript:void(0);"><i class="ui-tabs-add fa fa-plus-circle"/>'+e.title_new+"</a>"+"</li>"},_template_tab:function(e){var t='<li id="tab-'+e.id+'">'+'<a id="tab-title-link-'+e.id+'" title="" href="#tab-content-'+e.id+'" data-original-title="">'+'<span id="tab-title-text-'+e.id+'">'+e.title+"</span>";return e.ondel&&(t+='<i id="delete" class="ui-tabs-delete fa fa-minus-circle"/>'),t+="</a></li>",t},_template_tab_content:function(e){return'<div id="tab-content-'+e.id+'" class="tab-pane"/>'}});return{View:t}}),define("plugin/library/ui-table",["utils/utils"],function(e){var t=Backbone.View.extend({row:null,row_count:0,optionsDefault:{content:"No content available.",onchange:null,ondblclick:null,onconfirm:null,cls:"grid"},events:{click:"_onclick",dblclick:"_ondblclick"},initialize:function(t){this.options=e.merge(t,this.optionsDefault);var n=$(this._template(t));this.$thead=n.find("thead"),this.$tbody=n.find("tbody"),this.$tmessage=n.find("tmessage"),this.setElement(n),this.row=$("<tr></tr>")},addHeader:function(e){var t=$("<th></th>");t.append(e),this.row.append(t)},appendHeader:function(){this.$thead.append(this.row),this.row=$("<tr></tr>")},add:function(e,t,n){var r=$("<td></td>");t&&r.css("width",t),n&&r.css("text-align",n),r.append(e),this.row.append(r)},append:function(e){this._commit(e)},prepend:function(e){this._commit(e,!0)},get:function(e){return this.$el.find("#"+e)},del:function(e){var t=this.$tbody.find("#"+e);t.length>0&&(t.remove(),this.row_count--,this._refresh())},delAll:function(){this.$tbody.html(""),this.row_count=0,this._refresh()},value:function(e){this.before=this.$tbody.find(".current").attr("id"),e!==undefined&&(this.$tbody.find("tr").removeClass("current"),e&&this.$tbody.find("#"+e).addClass("current"));var t=this.$tbody.find(".current").attr("id");return t===undefined?null:(t!=this.before&&this.options.onchange&&this.options.onchange(e),t)},size:function(){return this.$tbody.find("tr").length},_commit:function(e,t){this.del(e),this.row.attr("id",e),t?this.$tbody.prepend(this.row):this.$tbody.append(this.row),this.row=$("<tr></tr>"),this.row_count++,this._refresh()},_onclick:function(e){var t=this.value(),n=$(e.target).closest("tr").attr("id");n!=""&&n&&t!=n&&(this.options.onconfirm?this.options.onconfirm(n):this.value(n))},_ondblclick:function(e){var t=this.value();t&&this.options.ondblclick&&this.options.ondblclick(t)},_refresh:function(){this.row_count==0?this.$tmessage.show():this.$tmessage.hide()},_template:function(e){return'<div><table class="'+e.cls+'">'+"<thead></thead>"+'<tbody style="cursor: pointer;"></tbody>'+"</table>"+"<tmessage>"+e.content+"</tmessage>"+"<div>"}});return{View:t}}),define("plugin/views/group",["plugin/library/ui-table","plugin/library/ui","utils/utils"],function(e,t,n){return Backbone.View.extend({initialize:function(r,i){this.app=r;var s=this;this.chart=this.app.chart,this.group=i.group,this.group_key=new t.Input({placeholder:"Data label",onchange:function(e){s.group.set("key",e)}}),this.table=new e.View({content:"No data column."});var o=$("<div/>");o.append(n.wrap((new t.Label({title:"Provide a label:"})).$el)),o.append(n.wrap(this.group_key.$el)),o.append(n.wrap((new t.Label({title:"Select columns:"})).$el)),o.append(n.wrap(this.table.$el)),this.setElement(o);var s=this;this.chart.on("change:dataset_id",function(){s._refreshTable()}),this.chart.on("change:type",function(){s._refreshTable()}),this.group.on("change:key",function(){s._refreshGroupKey()}),this.group.on("change",function(){s._refreshGroup()}),this._refreshTable(),this._refreshGroupKey(),this._refreshGroup()},_refreshTable:function(){var e=this.chart.get("dataset_id"),n=this.chart.get("type");if(!e||!n)return;var r=this,i=this.app.types.get(n);this.table.delAll();var s={};for(var o in i.columns){var u=i.columns[o];if(!u){console.debug("Group::_refreshTable() - Skipping column definition.");continue}var a=new t.Select.View({id:"select_"+o,wait:!0});this.table.add(u.title,"25%"),this.table.add(a.$el),this.table.append(o),s[o]=a}this.chart.state("wait","Loading metadata...");var f=this.chart.deferred.register();this.app.datasets.request({id:e},function(e){for(var t in s)r._addRow(t,e,s[t],i.columns[t]);r.chart.state("ok","Metadata initialized..."),r.chart.deferred.done(f)})},_addRow:function(e,t,n,r){var i=r.is_label,s=r.is_auto,o=[];s&&o.push({label:"Column: Row Number",value:"auto"});var u=t.metadata_column_types;for(var a in u)(!i&&(u[a]=="int"||u[a]=="float")||i)&&o.push({label:"Column: "+(parseInt(a)+1)+" ["+u[a]+"]",value:a});n.update(o),n.show();if(!n.exists(this.group.get(e))){var f=n.first();console.debug('Group()::_addRow() - Switching model value from "'+this.group.get(e)+'" to "'+f+'".'),this.group.set(e,f)}n.value(this.group.get(e));var l=this;n.setOnChange(function(t){l.group.set(e,t),l.chart.set("modified",!0)})},_refreshGroup:function(){this.group.set("date",n.time())},_refreshGroupKey:function(){var e=this.group.get("key");e===undefined&&(e=""),this.group_key.value(e)}})}),define("plugin/library/ui-table-form",["plugin/library/ui-table","plugin/library/ui","utils/utils"],function(e,t,n){var r=Backbone.View.extend({optionsDefault:{title:"",content:"",mode:""},list:[],initialize:function(r){this.table_title=new t.Label({title:r.title}),this.table=new e.View({content:r.content});var i=$("<div/>");i.append(n.wrap(this.table_title.$el)),i.append(n.wrap(this.table.$el)),this.setElement(i)},title:function(e){this.table_title.title(e)},update:function(e,t){this.table.delAll(),this.list=[];for(var n in e)this._add(n,e[n],t);for(var n in this.list)this.list[n].trigger("change")},_add:function(e,n,r){var i=this,s=null,o=n.type;switch(o){case"text":s=new t.Input({id:"field_"+e,placeholder:n.placeholder,value:r.get(e),onchange:function(t){r.set(e,t)}});break;case"select":s=new t.Select.View({id:"field_"+e,data:n.data,value:r.get(e),onchange:function(t){r.set(e,t);var s=_.findWhere(n.data,{value:t});if(s){for(var o in s.show){var u=s.show[o];i.table.get(u).show()}for(var o in s.hide){var u=s.hide[o];i.table.get(u).hide()}}}});break;case"separator":s=$("<div/>");break;default:console.log("ui-table-form:_add","Unknown setting type ("+n.type+")");return}if(o!="separator"){r.get(e)||r.set(e,n.init),s.value(r.get(e)),this.list[e]=s;var u=$("<div/>");u.append(s.$el),u.append('<div class="toolParamHelp"  style="font-size: 0.9em;">'+n.info+"</div>"),this.table.add('<span style="white-space: nowrap;">'+n.title+"</span>","25%"),this.table.add(u)}else this.table.add('<h6 style="white-space: nowrap;">'+n.title+":<h6/>"),this.table.add($("<div/>"));this.table.append(e)}});return{View:r}}),define("plugin/views/settings",["plugin/library/ui","plugin/library/ui-table-form","utils/utils"],function(e,t,n){return Backbone.View.extend({initialize:function(e,n){this.app=e;var r=this;this.chart=this.app.chart,this.form=new t.View({title:"Chart options:",content:"This chart type does not provide any options."}),this.setElement(this.form.$el);var r=this;this.chart.on("change",function(){r._refreshTable()})},_refreshTable:function(){var e=this.chart.get("type");if(!e)return;var t=this.app.types.get(e);this.form.title(t.category+" - "+t.title+":"),this.form.update(t.settings,this.chart.settings)}})}),define("plugin/views/types",["utils/utils","plugin/library/ui"],function(e,t){return Backbone.View.extend({optionsDefault:{onchange:null,ondblclick:null},events:{click:"_onclick",dblclick:"_ondblclick"},initialize:function(t,n){this.app=t,this.options=e.merge(n,this.optionsDefault);var r=$('<div class="charts-grid"/>');this.setElement(r);var i={},s=t.types.attributes;for(var o in s){var u=s[o],a=u.category;i[a]||(i[a]={}),i[a][o]=u}for(var a in i){var r=$('<div style="clear: both;"/>');r.append(e.wrap(this._template_header({title:a})));for(var o in i[a]){var u=i[a][o];r.append(e.wrap(this._template_item({id:o,title:u.title,url:config.app_root+"charts/"+o+"/logo.png"})))}this.$el.append(e.wrap(r))}},value:function(e){var t=this.$el.find(".current").attr("id");e!==undefined&&(this.$el.find(".current").removeClass("current"),this.$el.find("#"+e).addClass("current"));var n=this.$el.find(".current").attr("id");return n===undefined?null:(n!=t&&this.options.onchange&&this.options.onchange(e),n)},_onclick:function(e){var t=this.value(),n=$(e.target).closest(".item").attr("id");n!=""&&n&&t!=n&&this.value(n)},_ondblclick:function(e){var t=this.value();t&&this.options.ondblclick&&this.options.ondblclick(t)},_template_header:function(e){return'<div class="header">&bull; 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Backbone.Model.extend({defaults:{query_limit:5e3,query_timeout:500,screenshot_url:"http://export.highcharts.com/%22%7D%7D)%7D),define(%22plugin/charts/nvd3/con... axis",type:"separator"},x_axis_label:{title:"Axis label",info:"Provide a label for the axis.",type:"text",init:"X-axis",placeholder:"Axis label"},x_axis_type:{title:"Axis value type",info:"Select the value type of the axis.",type:"select",init:"auto",data:[{label:"-- Do not show values --",value:"hide",hide:["x_axis_tick"]},{label:"Auto",value:"auto",hide:["x_axis_tick"]},{label:"Float",value:"f",show:["x_axis_tick"]},{label:"Exponent",value:"e",show:["x_axis_tick"]},{label:"Integer",value:"d",hide:["x_axis_tick"]},{label:"Percentage",value:"p",show:["x_axis_tick"]},{label:"Rounded",value:"r",show:["x_axis_tick"]},{label:"SI-prefix",value:"s",show:["x_axis_tick"]}]},x_axis_tick:{title:"Axis tick format",info:"Select the tick format for the 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legend?",type:"select",init:"false",data:[{label:"Yes",value:"true"},{label:"No",value:"false"}]},donut_ratio:{title:"Donut ratio",info:"Determine how large the donut hole will be.",type:"select",init:"0.5",data:[{label:"50%",value:"0.5"},{label:"25%",value:"0.25"},{label:"10%",value:"0.10"},{label:"0%",value:"0"}]},label_separator:{type:"separator",title:"Label settings"},label_type:{title:"Donut label",info:"What would you like to show for each slice?",type:"select",init:"percent",data:[{label:"-- Nothing --",value:"hide",hide:"label_outside"},{label:"Label column",value:"key",show:"label_outside"},{label:"Value column",value:"value",show:"label_outside"},{label:"Percentage",value:"percent",show:"label_outside"}]},label_outside:{title:"Show outside",info:"Would you like to show labels outside the donut?",type:"select",init:"false",data:[{label:"Yes",value:"true"},{label:"No",value:"false"}]}}}}),define("plugin/charts/nvd3_scatter/config",["plugin/charts/nvd3/config"],function(e){return $.extend(!0,{},e,{title:"Scatter plot",category:"Others",columns:{x:{title:"Values for x-axis"},y:{title:"Values for y-axis"}}})}),define("plugin/charts/nvd3_stackedarea/config",["plugin/charts/nvd3/config"],function(e){return $.extend(!0,{},e,{title:"Regular",category:"Area charts",columns:{y:{title:"Values for y-axis"}}})}),define("plugin/charts/nvd3_stackedarea_full/config",["plugin/charts/nvd3/config"],function(e){return $.extend(!0,{},e,{title:"Expanded",category:"Area charts",columns:{y:{title:"Values for y-axis"}}})}),define("plugin/charts/nvd3_stackedarea_stream/config",["plugin/charts/nvd3/config"],function(e){return $.extend(!0,{},e,{title:"Stream",category:"Area charts",columns:{y:{title:"Values for 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Backbone.Model.extend({defaults:{nvd3_bar:e,nvd3_bar_stacked:t,nvd3_bar_horizontal:n,nvd3_bar_horizontal_stacked:r,nvd3_stackedarea:l,nvd3_stackedarea_full:c,nvd3_stackedarea_stream:h,nvd3_line:o,nvd3_line_focus:u,nvd3_scatter:f,nvd3_pie:a,nvd3_histogram:i,nvd3_histogram_discrete:s,highcharts_boxplot:p,heatmap:d}})}),define("plugin/app",["mvc/ui/ui-modal","mvc/ui/ui-portlet","plugin/library/ui","utils/utils","plugin/library/jobs","plugin/library/datasets","plugin/library/storage","plugin/views/viewer","plugin/views/editor","plugin/models/config","plugin/models/chart","plugin/charts/types"],function(e,t,n,r,i,s,o,u,a,f,l,c){return Backbone.View.extend({initialize:function(t){this.options=t,Galaxy&&Galaxy.modal?this.modal=Galaxy.modal:this.modal=new e.View,this.config=new f,this.types=new c,this.chart=new l,this.jobs=new i(this),this.datasets=new s(this),this.storage=new o(this),this.viewer_view=new u(this),this.editor_view=new a(this),this.$el.append(this.viewer_view.$el),this.$el.append(this.editor_view.$el);if(!this.storage.load())this.go("editor");else{this.go("viewer");var n=this;this.chart.deferred.execute(function(){n.chart.trigger("redraw")})}},go:function(e){$(".tooltip").hide();switch(e){case"editor":this.editor_view.show(),this.viewer_view.hide();break;case"viewer":this.editor_view.hide(),this.viewer_view.show()}},execute:function(e){},onunload:function(){},log:function(e,t){console.log(e+" "+t)}})});
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available",visible:!0,wait:!1},selected:null,initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.selected=this.options.value,this.setElement(this._template(this.options)),this.$select=this.$el.find("#select"),this.$icon=this.$el.find("#icon");var n=this;this.$select.on("change",function(){n.value(n.$select.val())}),this.on("change",function(){n.options.onchange&&n.options.onchange(n.value())}),this._refresh(),this.options.visible||this.hide(),this.options.wait?this.wait():this.show()},value:function(e){var t=this.selected;e!==undefined&&(this.selected=e,this.$select.val(e));var n=this.selected;return n&&n!=t&&this.options.onchange&&this.options.onchange(n),n},first:function(){var e=this.$select.find("option");return e.length>0?e.val():undefined},text:function(){return this.$select.find("option:selected").text()},show:function(){this.$icon.removeClass(),this.$icon.addClass("fa fa-caret-down"),this.$select.show(),this.$el.show()},hide:function(){this.$el.hide()},wait:function(){this.$icon.removeClass(),this.$icon.addClass("fa fa-spinner fa-spin"),this.$select.hide()},disabled:function(){return this.$select.is(":disabled")},enable:function(){this.$select.prop("disabled",!1)},disable:function(){this.$select.prop("disabled",!0)},add:function(e){this.$select.append(this._templateOption(e)),this._refresh()},del:function(e){this.$select.find("option[value="+e+"]").remove(),this.$select.trigger("change"),this._refresh()},update:function(e){this.$select.find("option").remove();for(var t in e)this.$select.append(this._templateOption(e[t]));this._refresh()},setOnChange:function(e){this.options.onchange=e},exists:function(e){return this.$select.find("option[value="+e+"]").length>0},_refresh:function(){this.$select.find("option[value=null]").remove();var e=this.$select.find("option").length;e==0?(this.disable(),this.$select.append(this._templateOption({value:"null",label:this.options.empty}))):this.enable(),this.selected&&this.$select.val(this.selected)},_templateOption:function(e){return'<option value="'+e.value+'">'+e.label+"</option>"},_template:function(e){var t='<div id="'+e.id+'" class="ui-select">'+'<div class="button">'+'<i id="icon"/>'+"</div>"+'<select id="select" class="select '+e.cls+" "+e.id+'">';for(key in e.data){var n=e.data[key],r="";if(n.value==e.value||n.value=="")r="selected";t+='<option value="'+n.value+'" '+r+">"+n.label+"</option>"}return t+="</select></div>",t}});return{View:t}}),define("plugin/library/ui",["utils/utils","plugin/library/ui-select","mvc/ui/ui-modal"],function(e,t,n){var r=Backbone.View.extend({optionsDefault:{url:"",cls:""},initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.setElement(this._template(this.options))},_template:function(e){return'<img class="ui-image '+e.cls+'" src="'+e.url+'"/>'}}),i=Backbone.View.extend({optionsDefault:{title:"",cls:""},initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.setElement(this._template(this.options))},title:function(e){this.$el.html(e)},_template:function(e){return'<label class="ui-label '+e.cls+'">'+e.title+"</label>"},value:function(){return options.title}}),s=Backbone.View.extend({optionsDefault:{id:null,title:"","float":"right",cls:"btn btn-default",icon:""},initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.setElement(this._template(this.options)),$(this.el).on("click",t.onclick),$(this.el).tooltip({title:t.tooltip,placement:"bottom"})},_template:function(e){var t='<button id="'+e.id+'" type="submit" style="float: '+e.float+';" type="button" class="ui-button '+e.cls+'">';return e.icon&&(t+='<i class="icon fa '+e.icon+'"></i>&nbsp;'),t+=e.title+"</button>",t}}),o=Backbone.View.extend({optionsDefault:{"float":"right",icon:"",tooltip:"",placement:"bottom",title:"",cls:""},initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.setElement(this._template(this.options)),$(this.el).tooltip({title:t.tooltip,placement:"bottom"})},_template:function(e){return'<div><span class="fa '+e.icon+'" class="ui-icon"/>&nbsp;'+e.title+"</div>"}}),u=Backbone.View.extend({optionsDefault:{title:"",id:null,"float":"right",cls:"icon-btn",icon:"",tooltip:""},initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.setElement(this._template(this.options)),$(this.el).on("click",t.onclick),$(this.el).tooltip({title:t.tooltip,placement:"bottom"})},_template:function(e){var t="";e.title&&(t="width: auto;");var n='<div id="'+e.id+'" style="float: '+e.float+"; "+t+'" class="ui-button-icon '+e.cls+'">';return e.title?n+='<div class="button"><i class="icon fa '+e.icon+'"/>&nbsp;'+'<span class="title">'+e.title+"</span>"+"</div>":n+='<i class="icon fa '+e.icon+'"/>',n+="</div>",n}}),a=Backbone.View.extend({optionsDefault:{title:"",cls:""},initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.setElement(this._template(this.options)),$(this.el).on("click",t.onclick)},_template:function(e){return'<div><a href="javascript:void(0)" class="ui-anchor '+e.cls+'">'+e.title+"</a></div>"}}),f=Backbone.View.extend({optionsDefault:{message:"",status:"info",persistent:!1},initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.setElement("<div></div>")},update:function(t){this.options=e.merge(t,this.optionsDefault);if(t.message!=""){this.$el.html(this._template(this.options)),this.$el.find(".alert").append(t.message),this.$el.fadeIn();if(!t.persistent){var n=this;window.setTimeout(function(){n.$el.is(":visible")?n.$el.fadeOut():n.$el.hide()},3e3)}}else this.$el.fadeOut()},_template:function(e){return'<div class="ui-message alert alert-'+e.status+'"/>'}}),l=Backbone.View.extend({optionsDefault:{onclick:null,searchword:""},initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.setElement(this._template(this.options));var n=this;this.options.onclick&&this.$el.on("submit",function(e){var t=n.$el.find("#search");n.options.onclick(t.val())})},_template:function(e){return'<div class="ui-search"><form onsubmit="return false;"><input id="search" class="form-control input-sm" type="text" name="search" placeholder="Search..." value="'+e.searchword+'">'+'<button type="submit" class="btn search-btn">'+'<i class="fa fa-search"></i>'+"</button>"+"</form>"+"</div>"}}),c=Backbone.View.extend({optionsDefault:{id:"",title:"",target:"",href:"",onunload:null,onclick:null,visible:!0,icon:null,tag:""},$menu:null,initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.setElement($(this._template(this.options)));var n=$(this.el).find(".root"),r=this;n.on("click",function(e){e.preventDefault(),r.options.onclick&&r.options.onclick()}),this.options.visible||this.hide()},show:function(){$(this.el).show()},hide:function(){$(this.el).hide()},addMenu:function(t){var n={title:"",target:"",href:"",onclick:null,divider:!1,icon:null,cls:"button-menu btn-group"};n=e.merge(t,n),this.$menu||($(this.el).append(this._templateMenu()),this.$menu=$(this.el).find(".menu"));var r=$(this._templateMenuItem(n));r.on("click",function(e){e.preventDefault(),n.onclick&&n.onclick()}),this.$menu.append(r),n.divider&&this.$menu.append($(this._templateDivider()))},_templateMenuItem:function(e){var t='<li><a href="'+e.href+'" target="'+e.target+'">';return e.icon&&(t+='<i class="fa '+e.icon+'"></i>'),t+=" "+e.title+"</a>"+"</li>",t},_templateMenu:function(){return'<ul class="menu dropdown-menu pull-right" role="menu"></ul>'},_templateDivider:function(){return'<li class="divider"></li>'},_template:function(e){var t='<div id="'+e.id+'" class="ui-button-menu '+e.cls+'">'+'<button type="button" class="root btn btn-default dropdown-toggle" data-toggle="dropdown">';return e.icon&&(t+='<i class="fa '+e.icon+'"></i>'),"</button></div>",t}}),h=Backbone.View.extend({optionsDefault:{value:"",type:"text",placeholder:"",disabled:!1,visible:!0,cls:"form-control"},initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.setElement(this._template(this.options)),this.options.disabled&&this.$el.prop("disabled",!0),this.options.visible||this.$el.hide();var n=this;this.$el.on("input",function(){n.options.onchange&&n.options.onchange(n.$el.val())})},value:function(e){return e!==undefined&&this.$el.val(e),this.$el.val()},_template:function(e){return'<input id="'+e.id+'" type="'+e.type+'" value="'+e.value+'" placeholder="'+e.placeholder+'" class="ui-input '+e.cls+'">'}}),p=Backbone.View.extend({optionsDefault:{value:"",type:"text",placeholder:"",disabled:!1,visible:!0,cls:""},initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.setElement(this._template(this.options)),this.options.disabled&&this.$el.prop("disabled",!0),this.options.visible||this.$el.hide();var n=this;this.$el.on("input",function(){n.options.onchange&&n.options.onchange(n.$el.val())})},value:function(e){return e!==undefined&&this.$el.val(e),this.$el.val()},_template:function(e){return'<textarea id="'+e.id+'" class="ui-textarea '+e.cls+'" rows="5"></textarea>'}});return{Label:i,Button:s,Icon:o,ButtonIcon:u,Input:h,Anchor:a,Message:f,Searchbox:l,Select:t,ButtonMenu:c,Modal:n,Textarea:p,Image:r}}),define("plugin/library/jobs",["utils/utils"],function(e){return Backbone.Model.extend({initialize:function(t,n){this.app=t,this.options=e.merge(n,this.optionsDefault)},request:function(e,t,n,r,i){var s=this;e.state("wait","Requesting job results...");var o=e.get("dataset_id_job");o!=""?s._wait(e,r,i):s._submit(e,t,n,r,i)},cleanup:function(t){var n=this,r=t.get("dataset_id_job");r!=""&&(e.request("PUT",config.root+"api/histories/none/contents/"+r,{deleted:!0},function(){n._refreshHdas()}),t.set("dataset_id_job",""))},_submit:function(t,n,r,i,s){var o=this,u=t.id,a=t.get("type"),f=this.app.types.get(a);data={tool_id:"charts",inputs:{input:{id:t.get("dataset_id"),src:"hda"},module:f.execute,columns:r,settings:n}},t.state("wait","Sending job request..."),e.request("POST",config.root+"api/tools",data,function(e){if(!e.outputs||e.outputs.length==0)t.state("failed","Job submission failed. No response."),s&&s();else{o._refreshHdas();var n=e.outputs[0];t.state("wait","Your job has been queued. You may close the browser window. The job will run in the background."),t.set("dataset_id_job",n.id),this.app.storage.save(),o._wait(t,i,s)}},function(e){var n="";e&&e.message&&e.message.data&&e.message.data.input&&(n=e.message.data.input+"."),t.state("failed","This visualization requires the 'charts' tool. Please make sure it is installed. "+n),s&&s()})},_wait:function(t,n,r){var i=this;e.request("GET",config.root+"api/datasets/"+t.get("dataset_id_job"),{},function(e){var s=!1;switch(e.state){case"ok":t.state("wait","Job completed successfully..."),n&&n(e),s=!0;break;case"error":t.state("failed","Job has failed. Please check the history for details."),r&&r(e),s=!0;break;case"running":t.state("wait","Your job is running. You may close the browser window. The job will continue in the background.")}s||setTimeout(function(){i._wait(t,n,r)},i.app.config.get("query_timeout"))})},_refreshHdas:function(){Galaxy&&Galaxy.currHistoryPanel&&Galaxy.currHistoryPanel.refreshContents()}})}),define("plugin/library/datasets",["utils/utils"],function(e){return Backbone.Collection.extend({list:{},cache:{},initialize:function(t,n){this.app=t,this.options=e.merge(n,this.optionsDefault)},request:function(e,t,n){var r=this;e.groups?this._get_dataset(e.id,function(){r._get(e,t)}):this._get_dataset(e.id,t,n)},_get_dataset:function(t,n,r){var i=this.list[t];if(i){n(i);return}var s=this;e.request("GET",config.root+"api/datasets/"+t,{},function(e){switch(e.state){case"error":r&&r(e);break;default:s.list[t]=e,n(e)}})},_block_id:function(e,t){return e.id+"_"+e.start+"_"+e.end+"_"+t},_get:function(e,t){e.start||(e.start=0),e.end||(e.end=this.app.config.get("query_limit"));var n=[],r={},i=0;for(var s in e.groups){var o=e.groups[s];for(var u in o.columns){var a=o.columns[u].index,f=this._block_id(e,a);if(this.cache[f]||a==="auto")continue;!r[a]&&a!==undefined&&(r[a]=i,n.push(a),i++)}}if(n.length==0){this._fill_from_cache(e),t(e);return}var l={dataset_id:e.id,start:e.start,end:e.end,columns:n},c=this;this._fetch(l,function(r){for(var i in r){var s=n[i],o=c._block_id(e,s);c.cache[o]=r[i]}c._fill_from_cache(e),t(e)})},_fill_from_cache:function(e){console.debug("Datasets::_fill_from_cache() - Filling request from cache.");var t=e.start,n=0;for(var r in e.groups){var i=e.groups[r];for(var s in i.columns){var o=i.columns[s],u=this._block_id(e,o.index),a=this.cache[u];a&&(n=Math.max(n,a.length))}}n==0&&console.debug("FAILED - Datasets::_fill_from_cache() - Invalid range.");for(var r in e.groups){var i=e.groups[r];i.values=[];for(var f=0;f<n;f++)i.values[f]={x:parseInt(f)+t}}for(var r in e.groups){var i=e.groups[r];for(var s in i.columns){var o=i.columns[s];if(o.index=="auto")for(var f=0;f<n;f++){var l=i.values[f];l[s]=parseInt(f)+t}else{var u=this._block_id(e,o.index),a=this.cache[u];for(var f=0;f<n;f++){var l=i.values[f],c=a[f];isNaN(c)&&!o.is_label&&(c=0),l[s]=c}}}}},_fetch:function(t,n){var r=t.start?t.start:0,i=Math.abs(t.end-t.start),s=this.app.config.get("query_limit");if(!i||i>s)i=s;var o=0;t.columns&&(o=t.columns.length,console.debug("Datasets::_fetch() - Fetching "+o+" column(s)")),o==0&&console.debug("Datasets::_fetch() - No columns requested");var u="";for(var a in t.columns)u+=t.columns[a]+",";u=u.substring(0,u.length-1);var f=this;e.request("GET",config.root+"api/datasets/"+t.dataset_id,{data_type:"raw_data",provider:"dataset-column",limit:i,offset:r,indeces:u},function(e){var t=new Array(o);for(var r=0;r<o;r++)t[r]=[];for(var r in e.data){var i=e.data[r];for(var s in i){var u=i[s];u!==undefined&&u!=2147483647&&t[s].push(u)}}console.debug("Datasets::_fetch() - Fetching complete."),n(t)})}})}),define("plugin/models/group",[],function(){return Backbone.Model.extend({defaults:{key:"Data label",date:""},reset:function(){this.clear({silent:!0}).set(this.defaults),this.trigger("reset",this)}})}),define("plugin/models/groups",["plugin/models/group"],function(e){return Backbone.Collection.extend({model:e})}),define("plugin/library/deferred",["utils/utils"],function(e){return Backbone.Model.extend({queue:[],process:{},counter:0,initialize:function(){this.on("refresh",function(){for(var e in this.queue)if(this.counter==0){var t=this.queue[e];this.queue.splice(e,1),t()}})},execute:function(e){this.queue.push(e),this.trigger("refresh")},register:function(){var t=e.uuid();return this.process[t]=!0,this.counter++,console.debug("Deferred:register() - Registering "+t),t},done:function(e){this.process[e]&&(delete this.process[e],this.counter--,console.debug("Deferred:done() - Unregistering "+e),this.trigger("refresh"))},ready:function(){return this.counter==0}})});var Visualization=Backbone.Model.extend({defaults:{config:{}},urlRoot:function(){var e="/api/visualizations";return window.galaxy_config&&galaxy_config.root?galaxy_config.root+e:e},initialize:function(e){_.isObject(e.config)&&_.isObject(this.defaults.config)&&_.defaults(e.config,this.defaults.config),this._setUpListeners()},_setUpListeners:function(){},set:function(e,t){if(e==="config"){var n=this.get("config");_.isObject(n)&&(t=_.extend(_.clone(n),t))}return Backbone.Model.prototype.set.call(this,e,t),this},toString:function(){var e=this.get("id")||"";return this.get("title")&&(e+=":"+this.get("title")),"Visualization("+e+")"}}),VisualizationCollection=Backbone.Collection.extend({model:Visualization,url:function(){return galaxy_config.root+"api/visualizations"},initialize:function(e,t){t=t||{}},set:function(e,t){var n=this;e=_.map(e,function(e){var t=n.get(e.id);if(!t)return e;var r=t.toJSON();return _.extend(r,e),r}),Backbone.Collection.prototype.set.call(this,e,t)},toString:function(){return["VisualizationCollection(",[this.historyId,this.length].join(),")"].join("")}});define("mvc/visualization/visualization-model",function(){}),define("plugin/models/chart",["plugin/models/groups","plugin/library/deferred","mvc/visualization/visualization-model"],function(e,t){return Backbone.Model.extend({defaults:{id:null,title:"",type:"",date:null,state:"",state_info:"",modified:!1,dataset_id:"",dataset_id_job:""},initialize:function(n){this.groups=new e,this.settings=new Backbone.Model,this.deferred=new t},reset:function(){this.clear({silent:!0}).set(this.defaults),this.groups.reset(),this.settings.clear(),this.trigger("reset",this)},copy:function(e){var t=this;t.clear({silent:!0}).set(this.defaults),t.set(e.attributes),t.settings=e.settings.clone(),t.groups.reset(),e.groups.each(function(e){t.groups.add(e.clone())}),t.trigger("change",t)},state:function(e,t){this.set("state",e),this.set("state_info",t),this.trigger("set:state"),console.debug("Chart:state() - "+t+" ("+e+")")}})}),define("plugin/library/storage",["utils/utils","plugin/models/chart","plugin/models/group"],function(e,t,n){return Backbone.Model.extend({vis:null,initialize:function(e){this.app=e,this.chart=this.app.chart,this.options=this.app.options,this.id=this.options.id,this.vis=new Visualization({type:"charts",config:{dataset_id:this.options.config.dataset_id,chart_dict:{}}}),this.id&&(this.vis.id=this.id);var t=this.options.config.chart_dict;t&&(this.vis.get("config").chart_dict=t)},save:function(){var e=this.app.chart;this.vis.get("config").chart_dict={};var t=e.get("title");t!=""&&this.vis.set("title",t);var n={attributes:e.attributes,settings:e.settings.attributes,groups:[]};e.groups.each(function(e){n.groups.push(e.attributes)}),this.vis.get("config").chart_dict=n;var r=this;this.vis.save().fail(function(e,t,n){console.error(e,t,n)}).then(function(e){e&&e.id&&(r.id=e.id)})},load:function(){var e=this.vis.get("config").chart_dict;if(!e.attributes)return!1;var t=e.attributes.type;if(!t)return console.debug("Storage::load() - Chart type not provided. Invalid format."),!1;var r=this.app.types.get(t);if(!r)return console.debug("Storage::load() - Chart type not supported. Please re-configure the chart. Resetting chart."),!1;console.debug("Storage::load() - Loading chart type "+t+"."),this.chart.set(e.attributes),this.chart.state("ok","Loading saved visualization..."),this.chart.settings.set(e.settings);for(var i in e.groups)this.chart.groups.add(new n(e.groups[i]));return this.chart.set("modified",!1),!0}})}),define("plugin/library/screenshot",["libs/underscore"],function(e){function t(e,t,i){var s=new XMLSerializer,o="",u=this,a=0,f=0;return e.find("svg").each(function(){var e=$(this);n(e),a=parseInt(e.css("height")),f=parseInt(e.css("width")),e.attr({version:"1.1",xmlns:"http://www.w3.org/2000/svg%22,width:f,height:a%7D),o+=s.serializeToString(th... n(e){for(var t in document.styleSheets){var n=document.styleSheets[t],r=n.cssRules;if(r)for(var i=0,s=r.length;i<s;i++)try{e.find(r[i].selectorText).each(function(e,t){t.style.cssText+=r[i].style.cssText})}catch(o){}}}function r(e,t,n){var r=e.find("#viewport-form");r.length===0&&(r=$("<form>",{id:"viewport-form",method:"post",action:t,display:"none"}),e.append(r)),r.empty();for(name in n){var i=$("<input/>",{type:"hidden",name:name,value:n[name]});r.append(i)}try{r.submit()}catch(s){console.log(s)}}return{create:t}}),define("plugin/views/viewport",["mvc/ui/ui-portlet","plugin/library/ui","plugin/library/screenshot","utils/utils"],function(e,t,n,r){return Backbone.View.extend({container_list:[],canvas_list:[],initialize:function(e,t){this.app=e,this.chart=this.app.chart,this.options=r.merge(t,this.optionsDefault),this.setElement($(this._template())),this._fullscreen(this.$el,100),this._createContainer("div");var n=this;this.chart.on("redraw",function(){n._draw(n.chart)}),this.chart.on("set:state",function(){var e=n.$el.find("#info"),t=n.$el.find("container"),r=e.find("#icon");r.removeClass(),e.show(),e.find("#text").html(n.chart.get("state_info")),t.hide();var i=n.chart.get("state");switch(i){case"ok":e.hide(),t.show();break;case"failed":r.addClass("icon fa fa-warning");break;default:r.addClass("icon fa fa-spinner fa-spin")}})},show:function(){this.$el.show()},hide:function(){this.$el.hide()},_fullscreen:function(e,t){e.css("height",$(window).height()-t),$(window).resize(function(){e.css("height",$(window).height()-t)})},_createContainer:function(e,t){t=t||1;for(var n in this.container_list)this.container_list[n].remove();this.container_list=[],this.canvas_list=[];for(var n=0;n<t;n++){var r=$(this._templateContainer(e,parseInt(100/t)));this.$el.append(r),this.container_list[n]=r,e=="svg"?this.canvas_list[n]=d3.select(r.find("#canvas")[0]):this.canvas_list[n]=r.find("#canvas")}},_draw:function(e){var t=this,n=e.deferred.register(),r=e.get("type");this.chart_settings=this.app.types.get(r);var i=this.chart_settings.use_panels,s=1;i&&(s=e.groups.length),this._createContainer(this.chart_settings.tag,s),e.state("wait","Please wait...");if(!this.chart_settings.execute||this.chart_settings.execute&&e.get("modified"))this.app.jobs.cleanup(e),e.set("modified",!1);var t=this;require(["plugin/charts/"+this.app.chartPath(r)+"/wrapper"],function(r){var i=new r(t.app,{canvas:t.canvas_list});t.chart_settings.execute?t.app.jobs.request(e,t._defaultSettingsString(e),t._defaultRequestString(e),function(){i.draw(n,e,t._defaultRequestDictionary(e))},function(){e.deferred.done(n)}):i.draw(n,e,t._defaultRequestDictionary(e))})},_defaultRequestString:function(e){var t="",n=0,r=this;return e.groups.each(function(e){n++;for(var i in r.chart_settings.columns)t+=i+"_"+n+":"+(parseInt(e.get(i))+1)+", "}),t.substring(0,t.length-2)},_defaultSettingsString:function(e){var t="";for(key in e.settings.attributes)t+=key+":"+e.settings.get(key)+", ";return t.substring(0,t.length-2)},_defaultRequestDictionary:function(e){var t={groups:[]};this.chart_settings.execute?t.id=e.get("dataset_id_job"):t.id=e.get("dataset_id");var n=0,r=this;return e.groups.each(function(e){var i={};for(var s in r.chart_settings.columns){var o=r.chart_settings.columns[s];i[s]={index:e.get(s),is_label:o.is_label}}t.groups.push({key:++n+":"+e.get("key"),columns:i})}),t},_template:function(){return'<div class="charts-viewport"><div id="info" class="info"><span id="icon" class="icon" /><span id="text" class="text" /></div></div>'},_templateContainer:function(e,t){return'<div class="charts-viewport-container" style="width:'+t+'%;">'+'<div id="menu"/>'+"<"+e+' id="canvas" class="charts-viewport-canvas">'+"</div>"}})}),define("plugin/views/viewer",["utils/utils","plugin/library/ui","mvc/ui/ui-portlet","plugin/models/group","plugin/views/viewport","plugin/library/screenshot"],function(e,t,n,r,i,s){return Backbone.View.extend({initialize:function(e,r){this.app=e,this.chart=this.app.chart,this.viewport_view=new i(e);var o=this;this.portlet=new n.View({icon:"fa-bar-chart-o",title:"Viewport",scrollable:!1,operations:{edit_button:new t.ButtonIcon({icon:"fa-edit",tooltip:"Customize this chart",title:"Editor",onclick:function(){o._wait(o.chart,function(){o.app.go("editor")})}}),picture_button:new t.ButtonIcon({icon:"fa-camera",tooltip:"Download PDF-file ("+o.app.config.get("screenshot_url")+")",title:"Screenshot",onclick:function(){o._wait(o.chart,function(){s.create(o.viewport_view.$el,o.app.config.get("screenshot_url"),o.chart.get("title"))})}})}}),this.portlet.append(this.viewport_view.$el),this.setElement(this.portlet.$el);var o=this;this.chart.on("change:title",function(){o._refreshTitle()})},show:function(){this.$el.show(),$(window).trigger("resize")},hide:function(){this.$el.hide()},_refreshTitle:function(){var e=this.chart.get("title");this.portlet.title(e)},_wait:function(e,t){if(e.deferred.ready())t();else{var n=this;this.app.modal.show({title:"Please wait!",body:"Your chart is currently being processed. Please wait and try again.",buttons:{Close:function(){n.app.modal.hide()},Retry:function(){n.app.modal.hide(),setTimeout(function(){n._wait(e,t)},n.app.config.get("query_timeout"))}}})}}})}),define("mvc/ui/ui-tabs",["utils/utils"],function(e){var t=Backbone.View.extend({optionsDefault:{title_new:"",operations:null,onnew:null},initialize:function(t){this.visible=!1,this.$nav=null,this.$content=null,this.first_tab=null,this.options=e.merge(t,this.optionsDefault);var n=$(this._template(this.options));this.$nav=n.find(".tab-navigation"),this.$content=n.find(".tab-content"),this.setElement(n),this.list={};var r=this;this.options.operations&&$.each(this.options.operations,function(e,t){t.$el.prop("id",e),r.$nav.find(".operations").append(t.$el)});if(this.options.onnew){var i=$(this._template_tab_new(this.options));this.$nav.append(i),i.tooltip({title:"Add a new tab",placement:"bottom",container:r.$el}),i.on("click",function(e){i.tooltip("hide"),r.options.onnew()})}},add:function(e){var t=this,n=e.id,r=$(this._template_tab(e)),i=$(this._template_tab_content(e));this.list[n]=e.ondel?!0:!1,this.options.onnew?this.$nav.find("#new-tab").before(r):this.$nav.append(r),i.append(e.$el),this.$content.append(i),_.size(this.list)==1&&(r.addClass("active"),i.addClass("active"),this.first_tab=n);if(e.ondel){var s=r.find("#delete");s.tooltip({title:"Delete this tab",placement:"bottom",container:t.$el}),s.on("click",function(){return s.tooltip("destroy"),t.$el.find(".tooltip").remove(),e.ondel(),!1})}r.on("click",function(r){r.preventDefault(),e.onclick?e.onclick():t.show(n)})},del:function(e){this.$el.find("#tab-"+e).remove(),this.$el.find("#tab-content-"+e).remove(),this.first_tab==e&&(this.first_tab=null),this.first_tab!=null&&this.show(this.first_tab)},delRemovable:function(){for(var e in this.list)this.list[e]&&this.del(e)},show:function(e){this.$el.fadeIn("fast"),this.visible=!0,e&&(this.$el.find(".active").removeClass("active"),this.$el.find("#tab-"+e).addClass("active"),this.$el.find("#tab-content-"+e).addClass("active"))},hide:function(){this.$el.fadeOut("fast"),this.visible=!1},hideOperation:function(e){this.$nav.find("#"+e).hide()},showOperation:function(e){this.$nav.find("#"+e).show()},setOperation:function(e,t){var n=this.$nav.find("#"+e);n.off("click"),n.on("click",t)},title:function(e,t){var n=this.$el.find("#tab-title-text-"+e);return t&&n.html(t),n.html()},_template:function(e){return'<div class="ui-tabs tabbable tabs-left"><ul id="tab-navigation" class="tab-navigation nav nav-tabs"><div class="operations" style="float: right; margin-bottom: 4px;"></div></ul><div id="tab-content" class="tab-content"/></div>'},_template_tab_new:function(e){return'<li id="new-tab"><a href="javascript:void(0);"><i class="ui-tabs-add fa fa-plus-circle"/>'+e.title_new+"</a>"+"</li>"},_template_tab:function(e){var t='<li id="tab-'+e.id+'">'+'<a id="tab-title-link-'+e.id+'" title="" href="#tab-content-'+e.id+'" data-original-title="">'+'<span id="tab-title-text-'+e.id+'">'+e.title+"</span>";return e.ondel&&(t+='<i id="delete" class="ui-tabs-delete fa fa-minus-circle"/>'),t+="</a></li>",t},_template_tab_content:function(e){return'<div id="tab-content-'+e.id+'" class="tab-pane"/>'}});return{View:t}}),define("plugin/library/ui-table",["utils/utils"],function(e){var t=Backbone.View.extend({row:null,row_count:0,optionsDefault:{content:"No content available.",onchange:null,ondblclick:null,onconfirm:null,cls:"grid"},events:{click:"_onclick",dblclick:"_ondblclick"},initialize:function(t){this.options=e.merge(t,this.optionsDefault);var n=$(this._template(t));this.$thead=n.find("thead"),this.$tbody=n.find("tbody"),this.$tmessage=n.find("tmessage"),this.setElement(n),this.row=$("<tr></tr>")},addHeader:function(e){var t=$("<th></th>");t.append(e),this.row.append(t)},appendHeader:function(){this.$thead.append(this.row),this.row=$("<tr></tr>")},add:function(e,t,n){var r=$("<td></td>");t&&r.css("width",t),n&&r.css("text-align",n),r.append(e),this.row.append(r)},append:function(e){this._commit(e)},prepend:function(e){this._commit(e,!0)},get:function(e){return this.$el.find("#"+e)},del:function(e){var t=this.$tbody.find("#"+e);t.length>0&&(t.remove(),this.row_count--,this._refresh())},delAll:function(){this.$tbody.html(""),this.row_count=0,this._refresh()},value:function(e){this.before=this.$tbody.find(".current").attr("id"),e!==undefined&&(this.$tbody.find("tr").removeClass("current"),e&&this.$tbody.find("#"+e).addClass("current"));var t=this.$tbody.find(".current").attr("id");return t===undefined?null:(t!=this.before&&this.options.onchange&&this.options.onchange(e),t)},size:function(){return this.$tbody.find("tr").length},_commit:function(e,t){this.del(e),this.row.attr("id",e),t?this.$tbody.prepend(this.row):this.$tbody.append(this.row),this.row=$("<tr></tr>"),this.row_count++,this._refresh()},_onclick:function(e){var t=this.value(),n=$(e.target).closest("tr").attr("id");n!=""&&n&&t!=n&&(this.options.onconfirm?this.options.onconfirm(n):this.value(n))},_ondblclick:function(e){var t=this.value();t&&this.options.ondblclick&&this.options.ondblclick(t)},_refresh:function(){this.row_count==0?this.$tmessage.show():this.$tmessage.hide()},_template:function(e){return'<div><table class="'+e.cls+'">'+"<thead></thead>"+'<tbody style="cursor: pointer;"></tbody>'+"</table>"+"<tmessage>"+e.content+"</tmessage>"+"<div>"}});return{View:t}}),define("plugin/views/group",["plugin/library/ui-table","plugin/library/ui","utils/utils"],function(e,t,n){return Backbone.View.extend({initialize:function(r,i){this.app=r;var s=this;this.chart=this.app.chart,this.group=i.group,this.group_key=new t.Input({placeholder:"Data label",onchange:function(e){s.group.set("key",e)}}),this.table=new e.View({content:"No data column."});var o=$("<div/>");o.append(n.wrap((new t.Label({title:"Provide a label:"})).$el)),o.append(n.wrap(this.group_key.$el)),o.append(n.wrap((new t.Label({title:"Select columns:"})).$el)),o.append(n.wrap(this.table.$el)),this.setElement(o);var s=this;this.chart.on("change:dataset_id",function(){s._refreshTable()}),this.chart.on("change:type",function(){s._refreshTable()}),this.group.on("change:key",function(){s._refreshGroupKey()}),this.group.on("change",function(){s._refreshGroup()}),this._refreshTable(),this._refreshGroupKey(),this._refreshGroup()},_refreshTable:function(){var e=this.chart.get("dataset_id"),n=this.chart.get("type");if(!e||!n)return;var r=this,i=this.app.types.get(n);this.table.delAll();var s={};for(var o in i.columns){var u=i.columns[o];if(!u){console.debug("Group::_refreshTable() - Skipping column definition.");continue}var a=new t.Select.View({id:"select_"+o,wait:!0});this.table.add(u.title,"25%"),this.table.add(a.$el),this.table.append(o),s[o]=a}this.chart.state("wait","Loading metadata...");var f=this.chart.deferred.register();this.app.datasets.request({id:e},function(e){for(var t in s)r._addRow(t,e,s,i.columns[t]);r.chart.state("ok","Metadata initialized..."),r.chart.deferred.done(f)})},_addRow:function(e,t,n,r){var i=this,s=r.is_label,o=r.is_auto,u=r.is_numeric,a=r.is_unique,f=[],l=n[e];o&&f.push({label:"Column: Row Number",value:"auto"});var c=t.metadata_column_types;for(var h in c){var p=!1;c[h]=="int"||c[h]=="float"?p=u:p=s,p&&f.push({label:"Column: "+(parseInt(h)+1)+" ["+c[h]+"]",value:h})}l.update(f);if(!l.exists(this.group.get(e))){var d=l.first();console.debug('Group()::_addRow() - Switching model value from "'+this.group.get(e)+'" to "'+d+'".'),this.group.set(e,d)}l.value(this.group.get(e)),l.setOnChange(function(t){i.group.set(e,t),i.chart.set("modified",!0)}),l.show()},_refreshGroup:function(){this.group.set("date",n.time())},_refreshGroupKey:function(){var e=this.group.get("key");e===undefined&&(e=""),this.group_key.value(e)}})}),define("plugin/library/ui-table-form",["plugin/library/ui-table","plugin/library/ui","utils/utils"],function(e,t,n){var r=Backbone.View.extend({optionsDefault:{title:"",content:"",mode:""},list:[],initialize:function(r){this.table_title=new t.Label({title:r.title}),this.table=new e.View({content:r.content});var i=$("<div/>");i.append(n.wrap(this.table_title.$el)),i.append(n.wrap(this.table.$el)),this.setElement(i)},title:function(e){this.table_title.title(e)},update:function(e,t){this.table.delAll(),this.list=[];for(var n in e)this._add(n,e[n],t);for(var n in this.list)this.list[n].trigger("change")},_add:function(e,n,r){var i=this,s=null,o=n.type;switch(o){case"text":s=new t.Input({id:"field_"+e,placeholder:n.placeholder,value:r.get(e),onchange:function(t){r.set(e,t)}});break;case"select":s=new t.Select.View({id:"field_"+e,data:n.data,value:r.get(e),onchange:function(t){r.set(e,t);var s=_.findWhere(n.data,{value:t});if(s){for(var o in s.show){var u=s.show[o];i.table.get(u).show()}for(var o in s.hide){var u=s.hide[o];i.table.get(u).hide()}}}});break;case"separator":s=$("<div/>");break;default:console.log("ui-table-form:_add","Unknown setting type ("+n.type+")");return}if(o!="separator"){r.get(e)||r.set(e,n.init),s.value(r.get(e)),this.list[e]=s;var u=$("<div/>");u.append(s.$el),u.append('<div class="toolParamHelp"  style="font-size: 0.9em;">'+n.info+"</div>"),this.table.add('<span style="white-space: nowrap;">'+n.title+"</span>","25%"),this.table.add(u)}else this.table.add('<h6 style="white-space: nowrap;">'+n.title+":<h6/>"),this.table.add($("<div/>"));this.table.append(e)}});return{View:r}}),define("plugin/views/settings",["plugin/library/ui","plugin/library/ui-table-form","utils/utils"],function(e,t,n){return Backbone.View.extend({initialize:function(e,n){this.app=e;var r=this;this.chart=this.app.chart,this.form=new t.View({title:"Chart options:",content:"This chart type does not provide any options."}),this.setElement(this.form.$el);var r=this;this.chart.on("change",function(){r._refresh()})},_refresh:function(){var e=this.chart.get("type");if(!e)return;var t=this.app.types.get(e);this.form.title(t.category+" - "+t.title+":"),this.form.update(t.settings,this.chart.settings)}})}),define("plugin/views/types",["utils/utils","plugin/library/ui"],function(e,t){return Backbone.View.extend({optionsDefault:{onchange:null,ondblclick:null},events:{click:"_onclick",dblclick:"_ondblclick"},initialize:function(t,n){var r=this;this.app=t,this.options=e.merge(n,this.optionsDefault);var i=$('<div class="charts-grid"/>');this.setElement(i);var s={},o=t.types.attributes;for(var u in o){var a=o[u],f=a.category;s[f]||(s[f]={}),s[f][u]=a}for(var f in s){var i=$('<div style="clear: both;"/>');i.append(e.wrap(this._template_header({title:f})));for(var u in s[f]){var a=s[f][u];i.append(e.wrap(this._template_item({id:u,title:a.title,url:config.app_root+"charts/"+r.app.chartPath(u)+"/logo.png"})))}this.$el.append(e.wrap(i))}},value:function(e){var t=this.$el.find(".current").attr("id");e!==undefined&&(this.$el.find(".current").removeClass("current"),this.$el.find("#"+e).addClass("current"));var n=this.$el.find(".current").attr("id");return n===undefined?null:(n!=t&&this.options.onchange&&this.options.onchange(e),n)},_onclick:function(e){var t=this.value(),n=$(e.target).closest(".item").attr("id");n!=""&&n&&t!=n&&this.value(n)},_ondblclick:function(e){var t=this.value();t&&this.options.ondblclick&&this.options.ondblclick(t)},_template_header:function(e){return'<div class="header">&bull; '+e.title+"<div>"},_template_item:function(e){return'<div id="'+e.id+'" class="item">'+'<img class="image" src="'+e.url+'">'+'<div class="title">'+e.title+"</div>"+"<div>"}})}),define("plugin/views/editor",["mvc/ui/ui-tabs","plugin/library/ui","mvc/ui/ui-portlet","utils/utils","plugin/models/chart","plugin/models/group","plugin/views/group","plugin/views/settings","plugin/views/types"],function(e,t,n,r,i,s,o,u,a){return Backbone.View.extend({optionsDefault:{header:!0,content:"No content available."},initialize:function(i,s){var o=this;this.app=i,this.chart=this.app.chart,this.options=r.merge(s,this.optionsDefault),this.portlet=new n.View({icon:"fa-bar-chart-o",title:"Editor",operations:{save:new t.ButtonIcon({icon:"fa-save",tooltip:"Draw Chart",title:"Draw",onclick:function(){o.app.go("viewer"),o._saveChart()}}),back:new t.ButtonIcon({icon:"fa-caret-left",tooltip:"Return to Viewer",title:"Return",onclick:function(){o.app.go("viewer"),o.app.storage.load()}})}}),this.types=new a(i,{onchange:function(e){o.chart.settings.clear(),o.chart.set({type:e}),o.chart.set("modified",!0)},ondblclick:function(e){o.app.go("viewer"),o._saveChart()}}),this.tabs=new e.View({title_new:"Add Data",onnew:function(){var e=o._addGroupModel();o.tabs.show(e.id)}}),this.title=new t.Input({placeholder:"Chart title",onchange:function(){o.chart.set("title",o.title.value())}});var f=$("<div/>");f.append(r.wrap((new t.Label({title:"Provide a chart title:"})).$el)),f.append(r.wrap(this.title.$el)),f.append(r.wrap((new t.Label({title:"Select a chart type:"})).$el)),f.append(r.wrap(this.types.$el)),this.tabs.add({id:"main",title:"Start",$el:f}),this.settings=new u(this.app),this.tabs.add({id:"settings",title:"Configuration",$el:this.settings.$el}),this.portlet.append(this.tabs.$el),this.setElement(this.portlet.$el),this.tabs.hideOperation("back");var o=this;this.chart.on("change:title",function(e){o._refreshTitle()}),this.chart.on("change:type",function(e){o.types.value(e.get("type"))}),this.chart.on("reset",function(e){o._resetChart()}),this.app.chart.on("redraw",function(e){o.portlet.showOperation("back")}),this.app.chart.groups.on("add",function(e){o._addGroup(e)}),this.app.chart.groups.on("remove",function(e){o._removeGroup(e)}),this.app.chart.groups.on("reset",function(e){o._removeAllGroups()}),this.app.chart.groups.on("change:key",function(e){o._refreshGroupKey()}),this._resetChart()},show:function(){this.$el.show()},hide:function(){this.$el.hide()},_refreshTitle:function(){var e=this.chart.get("title");this.portlet.title(e),this.title.value(e)},_refreshGroupKey:function(){var e=this,t=0;this.chart.groups.each(function(n){var r=n.get("key","");r==""&&(r="Chart data"),e.tabs.title(n.id,++t+": "+r)})},_addGroupModel:function(){var e=new s({id:r.uuid()});return this.chart.groups.add(e),e},_addGroup:function(e){var t=this,n=new o(this.app,{group:e});this.tabs.add({id:e.id,$el:n.$el,ondel:function(){t.chart.groups.remove(e.id)}}),this._refreshGroupKey()},_removeGroup:function(e){this.tabs.del(e.id),this._refreshGroupKey(),this.chart.set("modified",!0)},_removeAllGroups:function(e){this.tabs.delRemovable()},_resetChart:function(){this.chart.set("id",r.uuid()),this.chart.set("type","nvd3_bar"),this.chart.set("dataset_id",this.app.options.config.dataset_id),this.chart.set("title","New Chart"),this.portlet.hideOperation("back")},_saveChart:function(){this.chart.set({type:this.types.value(),title:this.title.value(),date:r.time()}),this.chart.groups.length==0&&this._addGroupModel();var e=this;this.chart.deferred.execute(function(){e.app.storage.save(),e.chart.trigger("redraw")})}})}),define("plugin/models/config",[],function(){return Backbone.Model.extend({defaults:{query_limit:1e3,query_timeout:100,screenshot_url:"http://export.highcharts.com/%22%7D%7D)%7D),define(%22plugin/charts/nvd3/com... axis",type:"separator"},x_axis_label:{title:"Axis label",info:"Provide a label for the axis.",type:"text",init:"X-axis",placeholder:"Axis label"},x_axis_type:{title:"Axis value type",info:"Select the value type of the axis.",type:"select",init:"auto",data:[{label:"-- Do not show values --",value:"hide",hide:["x_axis_tick"]},{label:"Auto",value:"auto",hide:["x_axis_tick"]},{label:"Float",value:"f",show:["x_axis_tick"]},{label:"Exponent",value:"e",show:["x_axis_tick"]},{label:"Integer",value:"d",hide:["x_axis_tick"]},{label:"Percentage",value:"p",show:["x_axis_tick"]},{label:"Rounded",value:"r",show:["x_axis_tick"]},{label:"SI-prefix",value:"s",show:["x_axis_tick"]}]},x_axis_tick:{title:"Axis tick format",info:"Select the tick format for the axis.",type:"select",init:".1",data:[{label:"0.00001",value:".5"},{label:"0.0001",value:".4"},{label:"0.001",value:".3"},{label:"0.01",value:".2"},{label:"0.1",value:".1"},{label:"1",value:"1"}]},separator_tick:{title:"Y axis",type:"separator"},y_axis_label:{title:"Axis label",info:"Provide a label for the axis.",type:"text",init:"Y-axis",placeholder:"Axis label"},y_axis_type:{title:"Axis value type",info:"Select the value type of the axis.",type:"select",init:"auto",data:[{label:"-- Do not show values --",value:"hide",hide:["y_axis_tick"]},{label:"Auto",value:"auto",hide:["y_axis_tick"]},{label:"Float",value:"f",show:["y_axis_tick"]},{label:"Exponent",value:"e",show:["y_axis_tick"]},{label:"Integer",value:"d",hide:["y_axis_tick"]},{label:"Percentage",value:"p",show:["y_axis_tick"]},{label:"Rounded",value:"r",show:["y_axis_tick"]},{label:"SI-prefix",value:"s",show:["y_axis_tick"]}]},y_axis_tick:{title:"Axis tick format",info:"Select the tick format for the axis.",type:"select",init:".1",data:[{label:"0.00001",value:".5"},{label:"0.0001",value:".4"},{label:"0.001",value:".3"},{label:"0.01",value:".2"},{label:"0.1",value:".1"},{label:"1",value:"1"}]},separator_legend:{title:"Others",type:"separator"},show_legend:{title:"Show legend",info:"Would you like to add a legend?",type:"select",init:"true",data:[{label:"Yes",value:"true"},{label:"No",value:"false"}]}}}}),define("plugin/charts/nvd3/bar/config",["plugin/charts/nvd3/common/config"],function(e){return $.extend(!0,{},e,{title:"Regular",category:"Bar diagrams",columns:{x:{title:"Values for x-axis",is_label:!0,is_auto:!0},y:{title:"Values for y-axis",is_numeric:!0}}})}),define("plugin/charts/nvd3/bar_stacked/config",["plugin/charts/nvd3/common/config"],function(e){return $.extend(!0,{},e,{title:"Stacked",category:"Bar diagrams",columns:{y:{title:"Values for y-axis",is_numeric:!0}}})}),define("plugin/charts/nvd3/bar_horizontal/config",["plugin/charts/nvd3/common/config"],function(e){return $.extend(!0,{},e,{title:"Horizontal",category:"Bar diagrams",columns:{x:{title:"Values for x-axis",is_label:!0,is_auto:!0},y:{title:"Values for y-axis",is_numeric:!0}},settings:{x_axis_type:{init:"hide"}}})}),define("plugin/charts/nvd3/bar_horizontal_stacked/config",["plugin/charts/nvd3/common/config"],function(e){return $.extend(!0,{},e,{title:"Stacked horizontal",category:"Bar diagrams",settings:{x_axis_type:{init:"hide"}},columns:{y:{title:"Values for y-axis",is_numeric:!0}}})}),define("plugin/charts/nvd3/line_focus/config",["plugin/charts/nvd3/common/config"],function(e){return $.extend(!0,{},e,{title:"Line with focus",category:"Others",columns:{y:{title:"Values for y-axis",is_numeric:!0}}})}),define("plugin/charts/nvd3/pie/config",[],function(){return $.extend(!0,{},{title:"Pie chart",category:"Area charts",tag:"svg",use_panels:!0,columns:{label:{title:"Labels",is_label:!0,is_auto:!0},y:{title:"Values",is_numeric:!0}},settings:{show_legend:{title:"Show legend",info:"Would you like 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donut?",type:"select",init:"false",data:[{label:"Yes",value:"true"},{label:"No",value:"false"}]}}})}),define("plugin/charts/nvd3/stackedarea_full/config",["plugin/charts/nvd3/common/config"],function(e){return $.extend(!0,{},e,{title:"Expanded",category:"Area charts",columns:{y:{title:"Values for y-axis",is_numeric:!0}}})}),define("plugin/charts/nvd3/stackedarea_stream/config",["plugin/charts/nvd3/common/config"],function(e){return $.extend(!0,{},e,{title:"Stream",category:"Area charts",columns:{y:{title:"Values for y-axis",is_numeric:!0}}})}),define("plugin/charts/nvd3/histogram/config",["plugin/charts/nvd3/common/config"],function(e){return $.extend(!0,{},e,{title:"Histogram",category:"Data processing (requires 'charts' tool from Toolshed)",execute:"histogram",columns:{y:{title:"Observations",is_numeric:!0}},settings:{x_axis_label:{init:"Breaks"},y_axis_label:{init:"Density"},y_axis_type:{init:"f"},y_axis_tick:{init:".2"}}})}),define("plugin/charts/nvd3/histogram_discrete/config",["plugin/charts/nvd3/common/config"],function(e){return $.extend(!0,{},e,{title:"Histogram (discrete)",category:"Data processing (requires 'charts' tool from Toolshed)",execute:"histogramdiscrete",columns:{x:{title:"Observations",is_label:!0}},settings:{x_axis_label:{init:"Breaks"},y_axis_label:{init:"Density"},y_axis_type:{init:"f"},y_axis_tick:{init:".2"}}})}),define("plugin/charts/nvd3/line/config",["plugin/charts/nvd3/common/config"],function(e){return $.extend(!0,{},e,{title:"Line chart",category:"Others",columns:{y:{title:"Values for y-axis",is_numeric:!0}}})}),define("plugin/charts/nvd3/scatter/config",["plugin/charts/nvd3/common/config"],function(e){return $.extend(!0,{},e,{title:"Scatter plot",category:"Others",columns:{x:{title:"Values for x-axis",is_numeric:!0},y:{title:"Values for y-axis",is_numeric:!0}}})}),define("plugin/charts/nvd3/stackedarea/config",["plugin/charts/nvd3/common/config"],function(e){return $.extend(!0,{},e,{title:"Regular",category:"Area charts",columns:{y:{title:"Values for y-axis",is_numeric:!0}}})}),define("plugin/charts/highcharts/common/config",[],function(){return{title:"",category:"",library:"highcharts",tag:"div",settings:{separator_label:{title:"X axis",type:"separator"},x_axis_label:{title:"Axis label",info:"Provide a label for the axis.",type:"text",init:"X-axis",placeholder:"Axis label"},x_axis_type:{title:"Axis value type",info:"Select the value type of the axis.",type:"select",init:"auto",data:[{label:"-- Do not show values --",value:"hide",hide:["x_axis_tick"]},{label:"Auto",value:"auto",hide:["x_axis_tick"]},{label:"Float",value:"f",show:["x_axis_tick"]},{label:"Exponent",value:"e",show:["x_axis_tick"]},{label:"Integer",value:"d",hide:["x_axis_tick"]},{label:"Percentage",value:"p",show:["x_axis_tick"]},{label:"Rounded",value:"r",show:["x_axis_tick"]},{label:"SI-prefix",value:"s",show:["x_axis_tick"]}]},x_axis_tick:{title:"Axis tick format",info:"Select the tick format for the axis.",type:"select",init:".1",data:[{label:"0.00001",value:".5"},{label:"0.0001",value:".4"},{label:"0.001",value:".3"},{label:"0.01",value:".2"},{label:"0.1",value:".1"},{label:"1",value:"1"}]},separator_tick:{title:"Y axis",type:"separator"},y_axis_label:{title:"Axis label",info:"Provide a label for the axis.",type:"text",init:"Y-axis",placeholder:"Axis label"},y_axis_type:{title:"Axis value type",info:"Select the value type of the axis.",type:"select",init:"auto",data:[{label:"-- Do not show values --",value:"hide",hide:["y_axis_tick"]},{label:"Auto",value:"auto",hide:["y_axis_tick"]},{label:"Float",value:"f",show:["y_axis_tick"]},{label:"Exponent",value:"e",show:["y_axis_tick"]},{label:"Integer",value:"d",hide:["y_axis_tick"]},{label:"Percentage",value:"p",show:["y_axis_tick"]},{label:"Rounded",value:"r",show:["y_axis_tick"]},{label:"SI-prefix",value:"s",show:["y_axis_tick"]}]},y_axis_tick:{title:"Axis tick format",info:"Select the tick format for the axis.",type:"select",init:".1",data:[{label:"0.00001",value:".5"},{label:"0.0001",value:".4"},{label:"0.001",value:".3"},{label:"0.01",value:".2"},{label:"0.1",value:".1"},{label:"1",value:"1"}]},separator_legend:{title:"Others",type:"separator"},legend_enabled:{title:"Show legend",info:"Would you like to add a legend?",type:"select",init:"true",data:[{label:"Yes",value:"true"},{label:"No",value:"false"}]}}}}),define("plugin/charts/highcharts/bar/config",["plugin/charts/highcharts/common/config"],function(e){return $.extend(!0,{},e,{title:"Regular",category:"Bar diagrams",columns:{x:{title:"Values for x-axis",is_label:!0,is_auto:!0,is_unique:!0},y:{title:"Values for y-axis",is_numeric:!0}}})}),define("plugin/charts/highcharts/bar_stacked/config",["plugin/charts/highcharts/common/config"],function(e){return $.extend(!0,{},e,{title:"Stacked",category:"Bar diagrams",columns:{x:{title:"Values for x-axis",is_label:!0,is_auto:!0},y:{title:"Values for y-axis",is_numeric:!0}}})}),define("plugin/charts/highcharts/bar_horizontal/config",["plugin/charts/highcharts/common/config"],function(e){return $.extend(!0,{},e,{title:"Horizontal",category:"Bar diagrams",columns:{x:{title:"Values for x-axis",is_label:!0,is_auto:!0},y:{title:"Values for y-axis",is_numeric:!0}},settings:{x_axis_type:{init:"hide"}}})}),define("plugin/charts/highcharts/bar_horizontal_stacked/config",["plugin/charts/highcharts/common/config"],function(e){return $.extend(!0,{},e,{title:"Stacked horizontal",category:"Bar diagrams",settings:{x_axis_type:{init:"hide"}},columns:{x:{title:"Values for x-axis",is_label:!0,is_auto:!0},y:{title:"Values for y-axis",is_numeric:!0}}})}),define("plugin/charts/highcharts/histogram/config",["plugin/charts/highcharts/common/config"],function(e){return $.extend(!0,{},e,{title:"Histogram",category:"Data processing (requires 'charts' tool from Toolshed)",execute:"histogram",columns:{y:{title:"Observations",is_numeric:!0}},settings:{x_axis_label:{init:"Breaks"},y_axis_label:{init:"Density"},y_axis_type:{init:"f"},y_axis_tick:{init:".2"}}})}),define("plugin/charts/highcharts/histogram_discrete/config",["plugin/charts/highcharts/common/config"],function(e){return $.extend(!0,{},e,{title:"Histogram (Discrete)",category:"Data processing (requires 'charts' tool from Toolshed)",execute:"histogramdiscrete",columns:{y:{title:"Observations",is_label:!0}},settings:{x_axis_label:{init:"Breaks"},y_axis_label:{init:"Density"},y_axis_type:{init:"f"},y_axis_tick:{init:".2"}}})}),define("plugin/charts/highcharts/line/config",["plugin/charts/highcharts/common/config"],function(e){return $.extend(!0,{},e,{title:"Line",category:"Others",columns:{x:{title:"Values for x-axis",is_label:!0,is_auto:!0,is_numeric:!1},y:{title:"Values for y-axis",is_numeric:!0}}})}),define("plugin/charts/highcharts/pie/config",["plugin/charts/highcharts/common/config"],function(e){return $.extend(!0,{},e,{title:"Pie chart",category:"Area charts",use_panels:!0,columns:{label:{title:"Labels",is_label:!0,is_auto:!0},y:{title:"Values",is_numeric:!0}},settings:{show_legend:{title:"Show legend",info:"Would you like to add a legend?",type:"select",init:"false",data:[{label:"Yes",value:"true"},{label:"No",value:"false"}]},donut_ratio:{title:"Donut ratio",info:"Determine how large the donut hole will be.",type:"select",init:"0.5",data:[{label:"50%",value:"0.5"},{label:"25%",value:"0.25"},{label:"10%",value:"0.10"},{label:"0%",value:"0"}]},label_separator:{type:"separator",title:"Label settings"},label_type:{title:"Donut label",info:"What would you like to show for each slice?",type:"select",init:"percent",data:[{label:"-- Nothing --",value:"hide",hide:"label_outside"},{label:"Label column",value:"key",show:"label_outside"},{label:"Value column",value:"value",show:"label_outside"},{label:"Percentage",value:"percent",show:"label_outside"}]},label_outside:{title:"Show outside",info:"Would you like to show labels outside the donut?",type:"select",init:"false",data:[{label:"Yes",value:"true"},{label:"No",value:"false"}]}}})}),define("plugin/charts/highcharts/scatter/config",["plugin/charts/highcharts/common/config"],function(e){return $.extend(!0,{},e,{title:"Scatter plot",category:"Others",columns:{x:{title:"Values for x-axis",is_numeric:!0},y:{title:"Values for y-axis",is_numeric:!0}}})}),define("plugin/charts/highcharts/stackedarea/config",["plugin/charts/highcharts/common/config"],function(e){return $.extend(!0,{},e,{title:"Regular",category:"Area charts",columns:{x:{title:"Values for x-axis",is_label:!0,is_auto:!0,is_numeric:!1},y:{title:"Values for y-axis",is_numeric:!0}}})}),define("plugin/charts/highcharts/boxplot/config",[],function(){return $.extend(!0,{},{title:"Box plot",category:"Data processing (requires 'charts' tool from Toolshed)",library:"highcharts.js",tag:"div",execute:"boxplot",columns:{y:{title:"Observations",is_numeric:!0}},settings:{separator_label:{title:"X axis",type:"separator"},x_axis_label:{title:"Axis label",info:"Provide a label for the axis.",type:"text",init:"X-axis",placeholder:"Axis label"},separator_tick:{title:"Y axis",type:"separator"},y_axis_label:{title:"Axis label",info:"Provide a label for the axis.",type:"text",init:"Y-axis",placeholder:"Axis label"}}})}),define("plugin/charts/highcharts/heatmap/config",["plugin/charts/highcharts/common/config"],function(e){return $.extend(!0,{},e,{title:"Heatmap",category:"Data processing (requires 'charts' tool from Toolshed)",execute:"heatmap",use_panels:!0,columns:{row_label:{title:"Row labels",is_label:!0},col_label:{title:"Column labels",is_label:!0},value:{title:"Observations",is_numeric:!0}}})}),define("plugin/charts/types",["plugin/charts/nvd3/bar/config","plugin/charts/nvd3/bar_stacked/config","plugin/charts/nvd3/bar_horizontal/config","plugin/charts/nvd3/bar_horizontal_stacked/config","plugin/charts/nvd3/line_focus/config","plugin/charts/nvd3/pie/config","plugin/charts/nvd3/stackedarea_full/config","plugin/charts/nvd3/stackedarea_stream/config","plugin/charts/nvd3/histogram/config","plugin/charts/nvd3/histogram_discrete/config","plugin/charts/nvd3/line/config","plugin/charts/nvd3/scatter/config","plugin/charts/nvd3/stackedarea/config","plugin/charts/highcharts/bar/config","plugin/charts/highcharts/bar_stacked/config","plugin/charts/highcharts/bar_horizontal/config","plugin/charts/highcharts/bar_horizontal_stacked/config","plugin/charts/highcharts/histogram/config","plugin/charts/highcharts/histogram_discrete/config","plugin/charts/highcharts/line/config","plugin/charts/highcharts/pie/config","plugin/charts/highcharts/scatter/config","plugin/charts/highcharts/stackedarea/config","plugin/charts/highcharts/boxplot/config","plugin/charts/highcharts/heatmap/config"],function(e,t,n,r,i,s,o,u,a,f,l,c,h,p,d,v,m,g,y,b,w,E,S,x,T){return Backbone.Model.extend({defaults:{nvd3_bar:e,nvd3_bar_stacked:t,nvd3_bar_horizontal:n,nvd3_bar_horizontal_stacked:r,nvd3_line_focus:i,nvd3_stackedarea_full:o,nvd3_stackedarea_stream:u,nvd3_pie:s,nvd3_stackedarea:h,nvd3_line:l,nvd3_scatter:c,nvd3_histogram:a,nvd3_histogram_discrete:f,highcharts_boxplot:x}})}),define("plugin/app",["mvc/ui/ui-modal","mvc/ui/ui-portlet","plugin/library/ui","utils/utils","plugin/library/jobs","plugin/library/datasets","plugin/library/storage","plugin/views/viewer","plugin/views/editor","plugin/models/config","plugin/models/chart","plugin/charts/types"],function(e,t,n,r,i,s,o,u,a,f,l,c){return Backbone.View.extend({initialize:function(t){this.options=t,Galaxy&&Galaxy.modal?this.modal=Galaxy.modal:this.modal=new e.View,this.config=new f,this.types=new c,this.chart=new l,this.jobs=new i(this),this.datasets=new s(this),this.storage=new o(this),this.viewer_view=new u(this),this.editor_view=new a(this),this.$el.append(this.viewer_view.$el),this.$el.append(this.editor_view.$el);if(!this.storage.load())this.go("editor");else{this.go("viewer");var n=this;this.chart.deferred.execute(function(){n.chart.trigger("redraw")})}},go:function(e){$(".tooltip").hide();switch(e){case"editor":this.editor_view.show(),this.viewer_view.hide();break;case"viewer":this.editor_view.hide(),this.viewer_view.show()}},chartPath:function(e){var t=e.split(/_(.+)/);return t.length>=2?t[0]+"/"+t[1]:(console.debug("FAILED App:chartPath() - Invalid format: "+e),undefined)},execute:function(e){},onunload:function(){},log:function(e,t){console.log(e+" "+t)}})});
\ No newline at end of file
diff -r a223d4188a2489c71d86f6ba0e6698573f384d7d -r 18db7291e89062110a3c81df9293a68935779c47 config/plugins/visualizations/charts/static/charts/heatmap/config.js
--- a/config/plugins/visualizations/charts/static/charts/heatmap/config.js
+++ /dev/null
@@ -1,195 +0,0 @@
-define([], function() {
-
-return {
-    title       : 'Heatmap',
-    category    : 'Data processing (requires 'charts' tool from Toolshed)',
-    library     : '',
-    tag         : 'div',
-    use_panels  : true,
-    execute     : 'heatmap',
-    
-    // columns
-    columns : {
-        row_label : {
-            title       : 'Row labels',
-            is_label    : true
-        },
-        col_label : {
-            title       : 'Column labels',
-            is_label    : true
-        },
-        value : {
-            title       : 'Observations'
-        },
-    },
-    
-    // settings
-    settings: {
-        /*limit : {
-            title       : 'Limit',
-            info        : 'Which to ranked clusters would you like to visualize',
-            type        : 'select',
-            init        : '20',
-            data        : [
-                {
-                    label   : '20',
-                    value   : '20'
-                },
-                {
-                    label   : '30',
-                    value   : '30'
-                },
-                {
-                    label   : '40',
-                    value   : '40'
-                },
-                {
-                    label   : '50',
-                    value   : '50'
-                },
-                {
-                    label   : '60',
-                    value   : '60'
-                },
-                {
-                    label   : '70',
-                    value   : '70'
-                },
-                {
-                    label   : '80',
-                    value   : '80'
-                },
-                {
-                    label   : '90',
-                    value   : '90'
-                },
-                {
-                    label   : '100',
-                    value   : '100'
-                }
-            ]
-        },*/
-        color_set : {
-            title       : 'Color scheme',
-            info        : 'Select a color scheme for your heatmap',
-            type        : 'select',
-            init        : 'ocean',
-            data        : [
-                {
-                    label   : 'Cold-to-Hot',
-                    value   : 'hot'
-                },
-                {
-                    label   : 'Cool',
-                    value   : 'cool'
-                },
-                {
-                    label   : 'Copper',
-                    value   : 'copper'
-                },
-                {
-                    label   : 'Gebco',
-                    value   : 'gebco'
-                },
-                {
-                    label   : 'Globe',
-                    value   : 'globe'
-                },
-                {
-                    label   : 'Gray scale',
-                    value   : 'gray'
-                },
-                {
-                    label   : 'Haxby',
-                    value   : 'haxby'
-                },
-                {
-                    label   : 'Jet',
-                    value   : 'jet'
-                },
-                {
-                    label   : 'No-Green',
-                    value   : 'no_green'
-                },
-                {
-                    label   : 'Ocean',
-                    value   : 'ocean'
-                },
-                {
-                    label   : 'Polar',
-                    value   : 'polar'
-                },
-                {
-                    label   : 'Rainbow',
-                    value   : 'rainbow'
-                },
-                {
-                    label   : 'Red-to-Green',
-                    value   : 'redgreen'
-                },
-                {
-                    label   : 'Red-to-green (saturated)',
-                    value   : 'red2green'
-                },
-                {
-                    label   : 'Relief',
-                    value   : 'relief'
-                },
-                {
-                    label   : 'Seismograph',
-                    value   : 'seis'
-                },
-                {
-                    label   : 'Sealand',
-                    value   : 'sealand'
-                },
-                {
-                    label   : 'Split',
-                    value   : 'split'
-                },
-                {
-                    label   : 'Topo',
-                    value   : 'topo'
-                },
-                {
-                    label   : 'Wysiwyg',
-                    value   : 'wysiwyg'
-                }
-            ]
-        },
-       
-        sorting : {
-            title       : 'Sorting',
-            info        : 'How should the columns be clustered?',
-            type        : 'select',
-            init        : 'hclust',
-            data        : [
-                {
-                    label   : 'Read from dataset',
-                    value   : 'hclust'
-                },
-                {
-                    label   : 'Sort column and row labels',
-                    value   : 'byboth'
-                },
-                {
-                    label   : 'Sort column labels',
-                    value   : 'bycolumns'
-                },
-                {
-                    label   : 'Sort by rows',
-                    value   : 'byrow'
-                }
-            ]
-        }
-    },
-    
-    // menu definition
-    menu : function() {
-        return {
-            color_set : this.settings.color_set
-        }
-    }
-};
-
-});
\ No newline at end of file
diff -r a223d4188a2489c71d86f6ba0e6698573f384d7d -r 18db7291e89062110a3c81df9293a68935779c47 config/plugins/visualizations/charts/static/charts/heatmap/heatmap-parameters.js
--- a/config/plugins/visualizations/charts/static/charts/heatmap/heatmap-parameters.js
+++ /dev/null
@@ -1,52 +0,0 @@
-// dependencies
-define(['utils/utils', 'plugin/charts/heatmap/heatmap-plugin'], function(Utils, HeatmapPlugin) {
-
-// color palettes
-var colorSets = {
-    seis:       ['#AA0000', '#D00000', '#F70000', '#FF1D00', '#FF4400', '#FF6A00', '#FF9000', '#FFB700', '#FFDD00', '#FFFF00', '#FFFF00', '#FFFF00', '#BDFF0C', '#73FF1A', '#3FFA36', '#16F45A', '#00D08B', '#0087CD', '#0048FA', '#0024E3'],
-    
-    sealand:    ['#8C66FF', '#6A66FF', '#6684FF', '#66A7FF', '#66CAFF', '#66ECFF', '#66FFF0', '#66FFCE', '#66FFAB', '#66FF88', '#66FF66', '#88FF66', '#ABFF66', '#CEFF66', '#FFEEA6', '#FFD3A6', '#FFB8A6', '#FFAAB0', '#FFB5CB', '#FFC0E1'],
-    
-    redgreen:   ['#005824', '#1A693B', '#347B53', '#4F8D6B', '#699F83', '#83B09B', '#9EC2B3', '#B8D4CB', '#D2E6E3', '#EDF8FB', '#FFFFFF', '#F1EEF6', '#E6D3E1','#DBB9CD', '#D19EB9', '#C684A4', '#BB6990', '#B14F7C', '#A63467', '#9B1A53', '#91003F'],
-    
-    ocean:      ['#000000', '#000209', '#000413', '#00061E', '#000728', '#000932', '#002650', '#00426E', '#005E8C', '#007AAA', '#0096C8', '#22A9C2', '#45BCBB', '#67CFB5', '#8AE2AE', '#ACF6A8', '#BCF8B9', '#CBF9CA', '#DBFBDC', '#EBFDED'],
-    
-    cool:       ['#00FFFF', '#0DF2FF', '#19E6FF', '#26D9FF', '#33CCFF', '#3FBFFF', '#4CB3FF', '#59A6FF', '#6699FF', '#738CFF', '#7F7FFF', '#8C73FF', '#9966FF', '#A659FF', '#B24DFF', '#BF3FFF', '#CC33FF', '#D926FF', '#E619FF', '#F20DFF'],
-    
-    copper:     ['#000000', '#100906', '#1F130D', '#301E13', '#40281A', '#50321F', '#603C26', '#70462D', '#805033', '#905A3A', '#A06440', '#B06E46', '#C0784D', '#D08253', '#E08C5A', '#F09660', '#FFA066', '#FFAA6D', '#FFB473', '#FFBE7A'],
-    
-    gebco:      ['#00F0FF', '#00F0FF', '#00F0FF', '#23FFFF', '#23FFFF', '#23FFFF', '#5AFFFF', '#5AFFFF', '#5AFFFF', '#8CFFE6', '#8CFFE6', '#8CFFE6', '#A5FFD7', '#A5FFD7', '#A5FFD7', '#C3FFD7', '#C3FFD7', '#C3FFD7', '#D2FFD7', '#E6FFF0'],
-    
-    globe:      ['#9900FF', '#9900FF', '#7722FF', '#5544FF', '#3366FF', '#1188FF', '#1BA4FF', '#51BAFF', '#86D0FF', '#BCE6FF', '#336600', '#F3CA89', '#D9A627', '#A49019', '#9F7B0D', '#996600', '#B27676', '#C2B0B0', '#E5E5E5', '#FFFFFF'],
-    
-    gray:       ['#000000', '#0D0D0D', '#191919', '#262626', '#333333', '#3F3F3F', '#4C4C4C', '#595959', '#666666', '#737373', '#7F7F7F', '#8C8C8C', '#999999', '#A6A6A6', '#B2B2B2', '#BFBFBF', '#CCCCCC', '#D9D9D9', '#E6E6E6', '#F2F2F2'],
-    
-    haxby:      ['#090079', '#280096', '#0009C8', '#0019D4', '#1A66F0', '#19AFFF', '#32BEFF', '#61E1F0', '#6AECE1', '#8AECAE', '#CDFFA2', '#DFF68D', '#F8D768', '#FFBD57', '#F4754B', '#FF5A5A', '#FF7C7C', '#F6B3AE', '#FFC4C4', '#FFECEC'],
-    
-    hot:        ['#000000', '#220000', '#440000', '#660000', '#880000', '#AA0000', '#CC0000', '#EE0000', '#FF1100', '#FF3300', '#FF5500', '#FF7700', '#FF9900', '#FFBB00', '#FFDD00', '#FFFF00', '#FFFF33', '#FFFF66', '#FFFF99', '#FFFFCC'],
-    
-    jet:        ['#00007F', '#0000B2', '#0000E5', '#0019FF', '#004DFF', '#007FFF', '#00B2FF', '#00E5FF', '#FFFFF2', '#FFFFD9', '#FFFFBF', '#FFFFA5', '#FFFF8C', '#FFE500', '#FFB300', '#FF7F00', '#FF4C00', '#FF1900', '#E50000', '#B20000'],
-    
-    no_green:   ['#1F60FF', '#1F60FF', '#1F9FFF', '#1FBFFF', '#00CFFF', '#2AFFFF', '#2AFFFF', '#55FFFF', '#7FFFFF', '#AAFFFF', '#FFFF54', '#FFFF54', '#FFF000', '#FFBF00', '#FFA800', '#FF8A00', '#FF8A00', '#FF7000', '#FF4D00', '#FF0000'],
-
-    polar:      ['#0000FF', '#1919FF', '#3333FF', '#4C4CFF', '#6666FF', '#7F7FFF', '#9999FF', '#B2B2FF', '#CCCCFF', '#E6E6FF', '#FFFFFF', '#FFE5E5', '#FFCCCC', '#FFB2B2', '#FF9999', '#FF7F7F', '#FF6666', '#FF4C4C', '#FF3333', '#FF1A1A'],
-
-    rainbow:    ['#FF00FF', '#BF00FF', '#7F00FF', '#3F00FF', '#0000FF', '#003FFF', '#007FFF', '#00BFFF', '#00FFFF', '#00FFBF', '#00FF7F', '#00FF3F', '#00FF00', '#3FFF00', '#7FFF00', '#BFFF00', '#FFFF00', '#FFBF00', '#FF7F00', '#FF3F00'],
-    
-    red2green:  ['#FF0000', '#FF1919', '#FF3333', '#FF4C4C', '#FF6666', '#FF7F7F', '#FF9999', '#FFB2B2', '#FFCCCC', '#FFE6E6', '#FFFFFF', '#E5FFE5', '#CCFFCC', '#B2FFB2', '#99FF99', '#7FFF7F',  '#66FF66', '#4CFF4C', '#33FF33', '#1AFF1A'],
-
-    relief:     ['#000000', '#000413', '#000728', '#002650', '#005E8C', '#0096C8', '#45BCBB', '#8AE2AE', '#BCF8B9', '#DBFBDC', '#467832', '#887438', '#B19D48', '#DBC758', '#FAE769', '#FAEB7E', '#FCED93', '#FCF1A7', '#FCF6C1', '#FDFAE0'],
-    
-    split:      ['#7F7FFF', '#6666E6', '#4D4DCC', '#3333B3', '#1A1A99', '#00007F', '#000066', '#00004D', '#000033', '#00001A', '#000000', '#1A0000', '#330000', '#4D0000', '#660000', '#7F0000', '#991A1A', '#B33333', '#CC4D4D', '#E66666'],
-    
-    topo:       ['#C977D9', '#A18AE6', '#8AA2E6', '#8BD1E7', '#8AF3CF', '#85F38E', '#BDF385', '#EDE485', '#F0B086', '#DE9F8B', '#74A3B3', '#99CC70', '#DCD68E', '#EDDFAD', '#F7E8CA', '#FFF9F3', '#FFF9F6', '#FFFBF9', '#FFFCFA', '#FFFEFD'],
-    
-    wysiwyg:    ['#3F003F', '#3F003F', '#3F00BF', '#003FFF', '#00A0FF', '#3FBFFF', '#3FBFFF', '#40E0FF', '#3FFFBF', '#3FFF3F', '#7FFF3F', '#BFFF3F', '#BFFF3F', '#FFE040', '#FFE040', '#FF6040', '#FF1F40', '#FF60C0', '#FFA0FF', '#FFA0FF']
-}
-
-// return
-return {
-    colorSets: colorSets
-}
-
-});
\ No newline at end of file
diff -r a223d4188a2489c71d86f6ba0e6698573f384d7d -r 18db7291e89062110a3c81df9293a68935779c47 config/plugins/visualizations/charts/static/charts/heatmap/heatmap-plugin.js
--- a/config/plugins/visualizations/charts/static/charts/heatmap/heatmap-plugin.js
+++ /dev/null
@@ -1,740 +0,0 @@
-// dependencies
-define(['utils/utils'],
-function(Utils) {
-
-// widget
-return Backbone.View.extend(
-{
-    // number of columns and rows
-    colNumber: 0,
-    rowNumber: 0,
-    
-    // indices
-    rowIndex: [],
-    colIndex: [],
-    
-    // labels
-    rowLabel: [],
-    colLabel: [],
-    
-    // cell size
-    cellSize: 0,
-    
-    // font size
-    fontSize: 0,
-    
-    // color buckets
-    nColors: 0,
-
-    // margins as cells
-    margin  : {
-        top         : 5,
-        right       : 5,
-        bottom      : 5,
-        left        : 5
-    },
-
-    // default settings
-    optionsDefault: {
-        title   : '',
-        pace    : 1000,
-    },
-
-    // initialize
-    initialize: function(options) {
-        // link this
-        var self = this;
-        
-        // load options
-        this.options = Utils.merge(options, this.optionsDefault)
-        
-        // check requirements
-        if (!this.options.data || !this.options.div || !this.options.colors) {
-            console.debug('FAILED - HeatMapPlugin::initialize() - Parameters (container and/or data and/or colors) missing.');
-            return;
-        }
-        
-        // link data
-        this.data = this.options.data;
-        
-        // set element
-        this.setElement(this.options.div);
-        
-        //
-        // data indexing
-        //
-        
-        // labels (in alphabetical order)
-        this.rowLabel = [];
-        this.colLabel = [];
-        
-        // index (order from original dataset)
-        this.rowIndex = [];
-        this.colIndex = [];
-        
-        // unique keys (key indices are unique per label and indicate the labels rank in the alphabetical sorting)
-        this.colRank = {};
-        this.rowRank = {};
-        
-        //
-        // identify and parse labels
-        //
-        for (var i in this.data) {
-            var cell = this.data[i];
-            
-            // add label to index list
-            var col_label = cell.col_label;
-            if (this.colRank[col_label] === undefined) {
-                this.colRank[col_label] = true;
-                this.colLabel.push(col_label);
-                this.colIndex.push(col_label);
-            }
-            var row_label = cell.row_label;
-            if (this.rowRank[row_label] === undefined) {
-                this.rowRank[row_label] = true;
-                this.rowLabel.push(row_label);
-                this.rowIndex.push(row_label);
-            }
-        }
-        
-        //
-        // sort labels and update rank dictionary
-        //
-        
-        // set sizes
-        this.rowNumber = this.rowLabel.length
-        this.colNumber = this.colLabel.length
-        
-        // sort labels alphabetical
-        this.rowLabel.sort();
-        this.colLabel.sort();
-        
-        // generate sorted key list for rows
-        for (var i in this.rowLabel) {
-            var row_label = this.rowLabel[i];
-            var row = parseInt(i);
-            this.rowRank[row_label] = row;
-        }
-        
-        // generate sorted key list for columns
-        for (var i in this.colLabel) {
-            var col_label = this.colLabel[i];
-            var col = parseInt(i);
-            this.colRank[col_label] = col;
-        }
-        
-        //
-        // parse indexing from rank dictionary to cells
-        //
-        
-        // min/max
-        this.max = undefined;
-        this.min = undefined
-        
-        // add indices to data
-        for (var i in this.data) {
-            // get cell data
-            var cell = this.data[i];
-            
-            // add rank
-            cell.col = this.colRank[cell.col_label];
-            cell.row = this.rowRank[cell.row_label];
-            
-            // identify max/min values
-            if (this.min == undefined || this.min > cell.value) {
-                this.min = cell.value;
-            }
-            if (this.max == undefined || this.max < cell.value) {
-                this.max = cell.value;
-            }
-        }
-        
-        //
-        // translate original create cluster from order in original data
-        //
-        
-        // generate sorted key list for columns
-        for (var i in this.colIndex) {
-            this.colIndex[i] = this.colRank[this.colIndex[i]];
-        }
-        // generate sorted key list for columns
-        for (var i in this.rowIndex) {
-            this.rowIndex[i] = this.rowRank[this.rowIndex[i]];
-        }
-        
-        // middle
-        this.mid = (this.max + this.min) / 2;
-        
-        //
-        // set colors
-        //
-        
-        // identify buckets
-        this.nColors = this.options.colors.length;
-        
-        // color scale
-        this.colorScale = d3.scale.quantile()
-            .domain([this.min, this.mid, this.max])
-            .range(this.options.colors);
-        
-        //
-        // add ui elements
-        //
-        // create tooltip
-        this.$tooltip = $(this._templateTooltip());
-        this.$el.append(this.$tooltip);
-        
-        //
-        // finally draw the heatmap
-        //
-        this._build();
-        
-        // catch window resize event
-        $(window).resize(function () {
-            self._build();
-        });
-    },
-    
-    _build: function() {
-        // link this
-        var self = this;
-        
-        // container (full draw area)
-        this.widthContainer  = this.$el.width();
-        this.heightContainer = this.$el.height();
-        
-        // get grid dimensions
-        this.width  = this.widthContainer;
-        this.height = this.heightContainer;
-        
-        // calculate cell size
-        this.cellSize = Math.min(((this.height) / (this.rowNumber + this.margin.top + this.margin.bottom)),
-                                 (this.width / (this.colNumber + this.margin.left + this.margin.right)));
-        
-        // set font size
-        this.fontSize = Math.min(this.cellSize, 16);
-        
-        // set width/height for plugin
-        this.width  = this.cellSize * this.colNumber;
-        this.height = this.cellSize * this.rowNumber;
-        
-        // get dimensions
-        var margin              = this.options.margin;
-        var width               = this.width;
-        var height              = this.height;
-        
-        // reset svg
-        if (this.svg !== undefined) {
-            this.$el.find('svg').remove();
-        }
-        
-        // add main group and translate
-        this.svg = d3.select(this.$el[0]).append('svg')
-            .append('g')
-            .attr('transform', 'translate(' + (this.widthContainer - width) / 2 + ',' +
-                                              (this.heightContainer - height) / 2 + ')');
-                            
-        // reset sorting
-        this.rowSortOrder   = false;
-        this.colSortOrder   = false;
-        
-        // build
-        this.d3RowLabels = this._buildRowLabels();
-        this.d3ColLabels = this._buildColLabels();
-        this.d3HeatMap = this._buildHeatMap();
-        this.d3Legend = this._buildLegend();
-        this.d3Title = this._buildTitle();
-    },
-        
-    // build title
-    _buildTitle: function() {
-        // link this
-        var self = this;
-        
-        // gather data
-        var height      = this.height;
-        var width       = this.width;
-        var cellSize    = this.cellSize;
-        var fontSize    = this.fontSize;
-        var title       = this.options.title;
-        
-        // add title
-        return this.svg.append('g')
-            .append('text')
-            .attr('x', width / 2)
-            .attr('y', height + 3 * cellSize + fontSize + 3)
-            .attr('text-anchor', 'middle')
-            .text(title);
-    },
-    
-    // build legend
-    _buildLegend: function() {
-        // link this
-        var self = this;
-        
-        // gather data
-        var cellSize        = this.cellSize;
-        var fontSize        = this.fontSize;
-        var height          = this.height;
-        var legendCellWidth = this.width / this.nColors;
-        
-        // create range labels
-        var dataRange = [];
-        for(var i = 0; i < this.nColors; i++) {
-            dataRange.push('');
-        }
-        
-        // prepare indices
-        dataRangeFormat = d3.format('.3f');
-        var dataRangeMin = 0;
-        var dataRangeMid = '';
-        var dataRangeMax = dataRange.length - 1;
-        
-        // add labels
-        dataRange[dataRangeMin] = dataRangeFormat(this.min);
-        dataRange[dataRangeMid] = this.mid;
-        dataRange[dataRangeMax] = dataRangeFormat(this.max);
-        
-        // create legend
-        var legend = this.svg.selectAll('.legend')
-            .data(dataRange)
-            .enter().append('g')
-            .attr('class', 'legend');
-
-        // add boxes
-        legend.append('rect')
-            .attr('x', function(d, i) {
-                return legendCellWidth * i;
-            })
-            .attr('y', height + cellSize)
-            .attr('width', legendCellWidth)
-            .attr('height', cellSize)
-            .style('fill', function(d, i) {
-                return self.options.colors[i];
-            });
-
-        // add text
-        legend.append('text')
-            .attr('class', 'mono')
-            .text(function(d) {
-                return d;
-            })
-            .attr('width', legendCellWidth)
-            .attr('x', function(d, i) {
-                return legendCellWidth * i;
-            })
-            .attr('y', height + cellSize - 3)
-            .style('font-size', fontSize + 'px');
-            
-        // return
-        return legend;
-    },
-    
-    // build column labels
-    _buildColLabels: function() {
-        // link this
-        var self = this;
-        
-        // gather data
-        var cellSize = this.cellSize;
-        var fontSize = this.fontSize;
-        var colIndex = this.colIndex;
-        var colLabel = this.colLabel;
-        
-        // column labels
-        var colLabels = this.svg.append('g')
-            .selectAll('.colLabelg')
-            .data(colLabel)
-            .enter()
-            .append('text')
-            .text(function (d) {
-                return d;
-            })
-            .attr('x', 0)
-            .attr('y', function (d, i) {
-                return colIndex.indexOf(i) * cellSize;
-            })
-            .style('font-size', fontSize + 'px')
-            .style('text-anchor', 'left')
-            .attr('transform', 'translate(' + cellSize / 2 + ', -17) rotate (-90)')
-            .attr('class',  function (d, i) {
-                return 'colLabel mono c' + i;
-            })
-            .on('mouseover', function(d) {
-                d3.select(this).classed('text-hover',true);
-            })
-            .on('mouseout' , function(d) {
-                d3.select(this).classed('text-hover',false);
-            })
-            .on('click', function(d, i) {
-                self.colSortOrder=!self.colSortOrder;
-                self._sortByLabel('c', 'row', self.rowNumber, i, self.colSortOrder);
-                d3.select('#order').property('selectedIndex', 4).node().focus();
-            });
-            
-        // return
-        return colLabels;
-    },
-    
-    // build row labels
-    _buildRowLabels: function() {
-        // link this
-        var self = this;
-        
-        // gather data
-        var cellSize = this.cellSize;
-        var fontSize = this.fontSize;
-        var rowIndex = this.rowIndex;
-        var rowLabel = this.rowLabel;
-        
-        // draw labels
-        var rowLabels = this.svg.append('g')
-            .selectAll('.rowLabelg')
-            .data(rowLabel)
-            .enter()
-            .append('text')
-            .text(function (d) {
-                return d;
-            })
-            .attr('x', 0)
-            .attr('y', function (d, i) {
-                return rowIndex.indexOf(i) * cellSize;
-            })
-            .style('font-size',  fontSize + 'px')
-            .style('text-anchor', 'end')
-            .attr('transform', 'translate(-10,' + cellSize / 1.5 + ')')
-            .attr('class', function (d, i) {
-                return 'rowLabel mono r' + i;
-            } )
-            .on('mouseover', function(d) {
-                d3.select(this).classed('text-hover',true);
-            })
-            .on('mouseout' , function(d) {
-                d3.select(this).classed('text-hover',false);
-            })
-            .on('click', function(d, i) {
-                self.rowSortOrder=!self.rowSortOrder;
-                self._sortByLabel('r', 'col', self.colNumber, i, self.rowSortOrder);
-                d3.select('#order').property('selectedIndex', 4).node().focus();
-            });
-            
-        // return
-        return rowLabels;
-    },
-    
-    // build heat map
-    _buildHeatMap: function() {
-        // link this
-        var self = this;
-        
-        // gather data
-        var cellSize = this.cellSize;
-        var rowIndex = this.rowIndex;
-        var rowLabel = this.rowLabel;
-        var colIndex = this.colIndex;
-        var colLabel = this.colLabel;
-        
-        // heat map
-        var heatmap = this.svg.append('g').attr('class','g3')
-            .selectAll('.cellg')
-            .data(self.data, function(d) {
-                return d.row + ':' + d.col;
-            })
-            .enter()
-            .append('rect')
-            .attr('x', function(d) {
-                return colIndex.indexOf(d.col) * cellSize;
-            })
-            .attr('y', function(d) {
-                return rowIndex.indexOf(d.row) * cellSize;
-            })
-            .attr('class', function(d){
-                return 'cell cell-border cr' + d.row + ' cc' + d.col;
-            })
-            .attr('width', cellSize)
-            .attr('height', cellSize)
-            .style('fill', function(d) {
-                return self.colorScale(d.value);
-            })
-            .on('mouseover', function(d){
-                // highlight text
-                d3.select(this).classed('cell-hover',true);
-                d3.selectAll('.rowLabel').classed('text-highlight',function(r,ri){ return ri==(d.row);});
-                d3.selectAll('.colLabel').classed('text-highlight',function(c,ci){ return ci==(d.col);});
-                
-                // update the tooltip position and value
-                d3.select('#heatmap-tooltip')
-                    .style('left', (d3.event.pageX+10) + 'px')
-                    .style('top', (d3.event.pageY-10) + 'px')
-                    .select('#value')
-                    .text('Label: ' + rowLabel[d.row] + ' | ' + colLabel[d.col] + ', Value: ' + d.value);
-                // show the tooltip
-                d3.select('#heatmap-tooltip').classed('hidden', false);
-            })
-            .on('mouseout', function(){
-                d3.select(this).classed('cell-hover',false);
-                d3.selectAll('.rowLabel').classed('text-highlight',false);
-                d3.selectAll('.colLabel').classed('text-highlight',false);
-                d3.select('#heatmap-tooltip').classed('hidden', true);
-            });
-            
-        // return
-        return heatmap;
-    },
-    
-    // change ordering of cells
-    _sortByLabel: function(rORc, rowORcol, n, index, sortOrder) {
-        // get cell size
-        var cellSize = this.cellSize;
-        
-        // define transition / prepare element
-        var t = this.svg.transition().duration(this.options.pace);
-        
-        // create cells
-        var cells=[];
-        for (var i = 0; i < n; i++) {
-            cells[i] = {
-                value: this.min - 1
-            }
-            cells[i][rowORcol] = i;
-        }
-        
-        // collect cells
-        t.selectAll('.c' + rORc + index).filter(function(ce) {
-            cells[ce[rowORcol]].value = ce.value;
-        });
-        
-        // sort cells
-        cells.sort(function(a, b) {
-            if (sortOrder) {
-                return b.value - a.value;
-            } else {
-                return a.value - b.value;
-            }
-        });
-        
-        // get sorted key list
-        var sorted = [];
-        for (var i in cells) {
-            sorted.push(cells[i][rowORcol]);
-        }
-        
-        // rows or columns
-        if(rORc == 'r') {
-            // sort cells
-            t.selectAll('.cell')
-                .attr('x', function(d) {
-                    return sorted.indexOf(d.col) * cellSize;
-                });
-                
-            // sort labels
-            t.selectAll('.colLabel')
-                .attr('y', function (d, i) {
-                    return sorted.indexOf(i) * cellSize;
-                });
-        } else {
-            // sort cells
-            t.selectAll('.cell')
-                .attr('y', function(d) {
-                    return sorted.indexOf(d.row) * cellSize;
-                });
-                
-            // sort labels
-            t.selectAll('.rowLabel')
-                .attr('y', function (d, i) {
-                    return sorted.indexOf(i) * cellSize;
-                });
-        }
-    },
-
-    // sort function
-    _sortByOrder: function (value) {
-        // link this
-        var self = this;
-        
-        // gather data
-        var cellSize = this.cellSize;
-        var rowIndex = this.rowIndex;
-        var rowLabel = this.rowLabel;
-        var colIndex = this.colIndex;
-        var colLabel = this.colLabel;
-        
-        // set duration / select element
-        var t = this.svg.transition().duration(this.options.pace);
-        if(value=='hclust'){
-            t.selectAll('.cell')
-                .attr('x', function(d) {
-                    return colIndex.indexOf(d.col) * cellSize;
-                })
-                .attr('y', function(d) {
-                    return rowIndex.indexOf(d.row) * cellSize;
-                });
-
-            t.selectAll('.rowLabel')
-                .attr('y', function(d, i) {
-                    return rowIndex.indexOf(i) * cellSize;
-                });
-
-            t.selectAll('.colLabel')
-                .attr('y', function(d, i) {
-                    return colIndex.indexOf(i) * cellSize;
-                });
-
-        } else if (value=='byboth') {
-            t.selectAll('.cell')
-                .attr('x', function(d) {
-                    return d.col * cellSize;
-                })
-                .attr('y', function(d) {
-                    return d.row * cellSize;
-                });
-
-            t.selectAll('.rowLabel')
-                .attr('y', function (d, i) {
-                    return i * cellSize;
-                });
-
-            t.selectAll('.colLabel')
-                .attr('y', function (d, i) {
-                    return i * cellSize;
-                });
-        } else if (value=='byrow') {
-            t.selectAll('.cell')
-                .attr('y', function(d) {
-                    return d.row * cellSize;
-                });
-
-            t.selectAll('.rowLabel')
-                .attr('y', function (d, i) {
-                    return i * cellSize;
-                });
-        } else if (value=='bycol'){
-            t.selectAll('.cell')
-                .attr('x', function(d) {
-                    return d.col * cellSize;
-                });
-            t.selectAll('.colLabel')
-                .attr('y', function (d, i) {
-                    return i * cellSize;
-                });
-        }
-    },
-    
-    // selection of cells
-    _addSelectionTool: function() {
-        //
-        // selection
-        //
-        var sa=d3.select('.g3')
-        .on('mousedown', function() {
-            if( !d3.event.altKey) {
-                d3.selectAll('.cell-selected').classed('cell-selected', false);
-                d3.selectAll('.rowLabel').classed('text-selected', false);
-                d3.selectAll('.colLabel').classed('text-selected', false);
-            }
-            var p = d3.mouse(this);
-            sa.append('rect')
-            .attr({
-                rx      : 0,
-                ry      : 0,
-                class   : 'selection',
-                x       : p[0],
-                y       : p[1],
-                width   : 1,
-                height  : 1
-            })
-        })
-        .on('mousemove', function() {
-            var s = sa.select('rect.selection');
-      
-            if(!s.empty()) {
-                var p = d3.mouse(this),
-                d = {
-                    x       : parseInt(s.attr('x'), 10),
-                    y       : parseInt(s.attr('y'), 10),
-                    width   : parseInt(s.attr('width'), 10),
-                    height  : parseInt(s.attr('height'), 10)
-                },
-                move = {
-                    x : p[0] - d.x,
-                    y : p[1] - d.y
-                };
-      
-                if(move.x < 1 || (move.x*2<d.width)) {
-                    d.x = p[0];
-                    d.width -= move.x;
-                } else {
-                    d.width = move.x;       
-                }
-
-                if(move.y < 1 || (move.y*2<d.height)) {
-                    d.y = p[1];
-                    d.height -= move.y;
-                } else {
-                    d.height = move.y;       
-                }
-                s.attr(d);
-      
-                // deselect all temporary selected state objects
-                d3.selectAll('.cell-selection.cell-selected').classed('cell-selected', false);
-                d3.selectAll('.text-selection.text-selected').classed('text-selected',false);
-                d3.selectAll('.cell').filter(function(cell_d, i) {
-                    if(!d3.select(this).classed('cell-selected') &&
-                        // inner circle inside selection frame
-                        (this.x.baseVal.value)+cellSize >= d.x && (this.x.baseVal.value)<=d.x+d.width &&
-                        (this.y.baseVal.value)+cellSize >= d.y && (this.y.baseVal.value)<=d.y+d.height)
-                        {
-                            d3.select(this)
-                                .classed('cell-selection', true)
-                                .classed('cell-selected', true);
-
-                            d3.select('.r' + cell_d.row)
-                                .classed('text-selection',true)
-                                .classed('text-selected',true);
-
-                            d3.select('.c' + cell_d.col)
-                                .classed('text-selection',true)
-                                .classed('text-selected',true);
-                        }
-                });
-            }
-        })
-        .on('mouseup', function() {
-            // remove selection frame
-            sa.selectAll('rect.selection').remove();
-
-            // remove temporary selection marker class
-            d3.selectAll('.cell-selection').classed('cell-selection', false);
-            d3.selectAll('.text-selection').classed('text-selection', false);
-        })
-        .on('mouseout', function() {
-            if(d3.event.relatedTarget.tagName=='html') {
-                // remove selection frame
-                sa.selectAll('rect.selection').remove();
-            
-                // remove temporary selection marker class
-                d3.selectAll('.cell-selection').classed('cell-selection', false);
-                d3.selectAll('.rowLabel').classed('text-selected',false);
-                d3.selectAll('.colLabel').classed('text-selected',false);
-            }
-        });
-    },
-
-    // template
-    _templateSelect: function() {
-        return  '<select id="order">' +
-                    '<option value="hclust">Cluster</option>' +
-                    '<option value="byboth">Sort by row and column</option>' +
-                    '<option value="byrow">Sort by row label</option>' +
-                    '<option value="bycol">Sort by column label</option>' +
-                '</select>';
-    },
-    
-    // template
-    _templateTooltip: function() {
-        return  '<div id="heatmap-tooltip" class="hidden">' +
-                    '<p><span id="value"></p>'
-                '</div>';
-    }
-});
-});
\ No newline at end of file
diff -r a223d4188a2489c71d86f6ba0e6698573f384d7d -r 18db7291e89062110a3c81df9293a68935779c47 config/plugins/visualizations/charts/static/charts/heatmap/logo.png
Binary file config/plugins/visualizations/charts/static/charts/heatmap/logo.png has changed
diff -r a223d4188a2489c71d86f6ba0e6698573f384d7d -r 18db7291e89062110a3c81df9293a68935779c47 config/plugins/visualizations/charts/static/charts/heatmap/wrapper.js
--- a/config/plugins/visualizations/charts/static/charts/heatmap/wrapper.js
+++ /dev/null
@@ -1,86 +0,0 @@
-// dependencies
-define(['utils/utils', 'plugin/charts/heatmap/heatmap-plugin', 'plugin/charts/heatmap/heatmap-parameters'],
-function(Utils, HeatmapPlugin, HeatmapParameters) {
-
-// widget
-return Backbone.View.extend(
-{
-    // initialize
-    initialize: function(app, options) {
-        this.app        = app;
-        this.options    = options;
-    },
-            
-    // render
-    draw : function(process_id, chart, request_dictionary)
-    {
-        // link this
-        var self = this;
-        
-        // loop through data groups
-        var index = 0;
-        for (var group_index in request_dictionary.groups) {
-        
-            // configure request
-            var tmp_dict = {
-                id      : request_dictionary.id,
-                groups  : [{
-                    key     : request_dictionary.groups[group_index].key,
-                    columns : {
-                        row_label: {
-                            index       : index++,
-                            is_label    : true
-                        },
-                        col_label: {
-                            index       : index++,
-                            is_label    : true
-                        },
-                        value: {
-                            index       : index++
-                        }
-                    }
-                }]
-            };
-            
-            // target div
-            var group_div = self.options.canvas[group_index];
-            
-            // draw group
-            this._draw_group(group_index, group_div, chart, tmp_dict, function(group_index) {
-                if (group_index == request_dictionary.groups.length - 1) {
-                    // set chart state
-                    chart.state('ok', 'Heat map drawn.');
-            
-                    // unregister process
-                    chart.deferred.done(process_id);
-                }
-            });
-        }
-    },
-    
-    // draw group
-    _draw_group: function(group_index, div, chart, request_dictionary, callback) {
-        // link this
-        var self = this;
-        
-        // request data
-        this.app.datasets.request(request_dictionary, function() {
-            
-            // get group
-            var group = request_dictionary.groups[0];
-            
-            // draw plot
-            var heatmap = new HeatmapPlugin({
-                'title'     : group.key,
-                'colors'    : HeatmapParameters.colorSets[chart.settings.get('color_set')],
-                'data'      : group.values,
-                'div'       : div
-            });
-            
-            // callback on completion
-            callback (group_index);
-        });
-    }
-});
-
-});
\ No newline at end of file
diff -r a223d4188a2489c71d86f6ba0e6698573f384d7d -r 18db7291e89062110a3c81df9293a68935779c47 config/plugins/visualizations/charts/static/charts/highcharts/bar/config.js
--- /dev/null
+++ b/config/plugins/visualizations/charts/static/charts/highcharts/bar/config.js
@@ -0,0 +1,20 @@
+define(['plugin/charts/highcharts/common/config'], function(config) {
+
+return $.extend(true, {}, config, {
+    title       : 'Regular',
+    category    : 'Bar diagrams',
+    columns     : {
+        x : {
+            title       : 'Values for x-axis',
+            is_label    : true,
+            is_auto     : true,
+            is_unique   : true
+        },
+        y : {
+            title       : 'Values for y-axis',
+            is_numeric  : true
+        }
+    }
+});
+
+});
\ No newline at end of file
diff -r a223d4188a2489c71d86f6ba0e6698573f384d7d -r 18db7291e89062110a3c81df9293a68935779c47 config/plugins/visualizations/charts/static/charts/highcharts/bar/logo.png
Binary file config/plugins/visualizations/charts/static/charts/highcharts/bar/logo.png has changed
diff -r a223d4188a2489c71d86f6ba0e6698573f384d7d -r 18db7291e89062110a3c81df9293a68935779c47 config/plugins/visualizations/charts/static/charts/highcharts/bar/wrapper.js
--- /dev/null
+++ b/config/plugins/visualizations/charts/static/charts/highcharts/bar/wrapper.js
@@ -0,0 +1,21 @@
+// dependencies
+define(['plugin/charts/highcharts/common/wrapper'], function(Highcharts) {
+
+// widget
+return Backbone.View.extend(
+{
+    // initialize
+    initialize: function(app, options) {
+        this.app        = app;
+        this.options    = options;
+    },
+            
+    // render
+    draw : function(process_id, chart, request_dictionary) {
+        // draw chart
+        var hc = new Highcharts(this.app, this.options);
+        hc.draw(process_id, 'column', chart, request_dictionary);
+    }
+});
+
+});
\ No newline at end of file
diff -r a223d4188a2489c71d86f6ba0e6698573f384d7d -r 18db7291e89062110a3c81df9293a68935779c47 config/plugins/visualizations/charts/static/charts/highcharts/bar_horizontal/config.js
--- /dev/null
+++ b/config/plugins/visualizations/charts/static/charts/highcharts/bar_horizontal/config.js
@@ -0,0 +1,24 @@
+define(['plugin/charts/highcharts/common/config'], function(config) {
+
+return $.extend(true, {}, config, {
+    title       : 'Horizontal',
+    category    : 'Bar diagrams',
+    columns     : {
+        x : {
+            title       : 'Values for x-axis',
+            is_label    : true,
+            is_auto     : true
+        },
+        y : {
+            title       : 'Values for y-axis',
+            is_numeric  : true
+        }
+    },
+    settings    : {
+        x_axis_type : {
+            init        : 'hide'
+        }
+    }
+});
+
+});
\ No newline at end of file
diff -r a223d4188a2489c71d86f6ba0e6698573f384d7d -r 18db7291e89062110a3c81df9293a68935779c47 config/plugins/visualizations/charts/static/charts/highcharts/bar_horizontal/logo.png
Binary file config/plugins/visualizations/charts/static/charts/highcharts/bar_horizontal/logo.png has changed
diff -r a223d4188a2489c71d86f6ba0e6698573f384d7d -r 18db7291e89062110a3c81df9293a68935779c47 config/plugins/visualizations/charts/static/charts/highcharts/bar_horizontal/wrapper.js
--- /dev/null
+++ b/config/plugins/visualizations/charts/static/charts/highcharts/bar_horizontal/wrapper.js
@@ -0,0 +1,25 @@
+// dependencies
+define(['plugin/charts/highcharts/common/wrapper'], function(Highcharts) {
+
+// widget
+return Backbone.View.extend(
+{
+    // initialize
+    initialize: function(app, options) {
+        this.app        = app;
+        this.options    = options;
+    },
+            
+    // render
+    draw : function(process_id, chart, request_dictionary)
+    {
+        // settings
+        chart.settings.set('x_axis_categories', [])
+        
+        // draw chart
+        var hc = new Highcharts(this.app, this.options);
+        hc.draw(process_id, 'bar', chart, request_dictionary);
+    }
+});
+
+});
\ No newline at end of file
diff -r a223d4188a2489c71d86f6ba0e6698573f384d7d -r 18db7291e89062110a3c81df9293a68935779c47 config/plugins/visualizations/charts/static/charts/highcharts/bar_horizontal_stacked/config.js
--- /dev/null
+++ b/config/plugins/visualizations/charts/static/charts/highcharts/bar_horizontal_stacked/config.js
@@ -0,0 +1,24 @@
+define(['plugin/charts/highcharts/common/config'], function(config) {
+
+return $.extend(true, {}, config, {
+    title       : 'Stacked horizontal',
+    category    : 'Bar diagrams',
+    settings    : {
+        x_axis_type : {
+            init : 'hide'
+        }
+    },
+    columns     : {
+        x : {
+            title       : 'Values for x-axis',
+            is_label    : true,
+            is_auto     : true
+        },
+        y : {
+            title       : 'Values for y-axis',
+            is_numeric  : true
+        }
+    }
+});
+
+});
\ No newline at end of file
diff -r a223d4188a2489c71d86f6ba0e6698573f384d7d -r 18db7291e89062110a3c81df9293a68935779c47 config/plugins/visualizations/charts/static/charts/highcharts/bar_horizontal_stacked/logo.png
Binary file config/plugins/visualizations/charts/static/charts/highcharts/bar_horizontal_stacked/logo.png has changed
diff -r a223d4188a2489c71d86f6ba0e6698573f384d7d -r 18db7291e89062110a3c81df9293a68935779c47 config/plugins/visualizations/charts/static/charts/highcharts/bar_horizontal_stacked/wrapper.js
--- /dev/null
+++ b/config/plugins/visualizations/charts/static/charts/highcharts/bar_horizontal_stacked/wrapper.js
@@ -0,0 +1,26 @@
+// dependencies
+define(['plugin/charts/highcharts/common/wrapper'], function(Highcharts) {
+
+// widget
+return Backbone.View.extend(
+{
+    // initialize
+    initialize: function(app, options) {
+        this.app        = app;
+        this.options    = options;
+    },
+            
+    // render
+    draw : function(process_id, chart, request_dictionary)
+    {
+        // finalize configuration
+        chart.settings.set('plotoptions_series_stacking', 'normal');
+        chart.settings.set('x_axis_categories', [])
+        
+        // draw chart
+        var hc = new Highcharts(this.app, this.options);
+        hc.draw(process_id, 'bar', chart, request_dictionary);
+    }
+});
+
+});
\ No newline at end of file
diff -r a223d4188a2489c71d86f6ba0e6698573f384d7d -r 18db7291e89062110a3c81df9293a68935779c47 config/plugins/visualizations/charts/static/charts/highcharts/bar_stacked/config.js
--- /dev/null
+++ b/config/plugins/visualizations/charts/static/charts/highcharts/bar_stacked/config.js
@@ -0,0 +1,19 @@
+define(['plugin/charts/highcharts/common/config'], function(config) {
+
+return $.extend(true, {}, config, {
+    title       : 'Stacked',
+    category    : 'Bar diagrams',
+    columns     : {
+        x : {
+            title       : 'Values for x-axis',
+            is_label    : true,
+            is_auto     : true
+        },
+        y : {
+            title       : 'Values for y-axis',
+            is_numeric  : true
+        }
+    }
+});
+
+});
\ No newline at end of file
diff -r a223d4188a2489c71d86f6ba0e6698573f384d7d -r 18db7291e89062110a3c81df9293a68935779c47 config/plugins/visualizations/charts/static/charts/highcharts/bar_stacked/logo.png
Binary file config/plugins/visualizations/charts/static/charts/highcharts/bar_stacked/logo.png has changed
diff -r a223d4188a2489c71d86f6ba0e6698573f384d7d -r 18db7291e89062110a3c81df9293a68935779c47 config/plugins/visualizations/charts/static/charts/highcharts/bar_stacked/wrapper.js
--- /dev/null
+++ b/config/plugins/visualizations/charts/static/charts/highcharts/bar_stacked/wrapper.js
@@ -0,0 +1,26 @@
+// dependencies
+define(['plugin/charts/highcharts/common/wrapper'], function(Highcharts) {
+
+// widget
+return Backbone.View.extend(
+{
+    // initialize
+    initialize: function(app, options) {
+        this.app        = app;
+        this.options    = options;
+    },
+            
+    // render
+    draw : function(process_id, chart, request_dictionary)
+    {
+        // finalize configuration
+        chart.settings.set('plotoptions_series_stacking', 'normal');
+        chart.settings.set('x_axis_categories', [])
+        
+        // draw chart
+        var hc = new Highcharts(this.app, this.options);
+        hc.draw(process_id, 'column', chart, request_dictionary);
+    }
+});
+
+});
\ No newline at end of file
diff -r a223d4188a2489c71d86f6ba0e6698573f384d7d -r 18db7291e89062110a3c81df9293a68935779c47 config/plugins/visualizations/charts/static/charts/highcharts/boxplot/config.js
--- /dev/null
+++ b/config/plugins/visualizations/charts/static/charts/highcharts/boxplot/config.js
@@ -0,0 +1,41 @@
+define([], function() {
+
+return $.extend(true, {}, {
+    title       : 'Box plot',
+    category    : 'Data processing (requires 'charts' tool from Toolshed)',
+    library     : 'highcharts.js',
+    tag         : 'div',
+    execute     : 'boxplot',
+    columns     : {
+        y : {
+            title       : 'Observations',
+            is_numeric  : true
+        }
+    },
+    settings    : {
+        separator_label  : {
+            title       : 'X axis',
+            type        : 'separator'
+        },
+        x_axis_label : {
+            title       : 'Axis label',
+            info        : 'Provide a label for the axis.',
+            type        : 'text',
+            init        : 'X-axis',
+            placeholder : 'Axis label'
+        },
+        separator_tick  : {
+            title       : 'Y axis',
+            type        : 'separator'
+        },
+        y_axis_label : {
+            title       : 'Axis label',
+            info        : 'Provide a label for the axis.',
+            type        : 'text',
+            init        : 'Y-axis',
+            placeholder : 'Axis label'
+        }
+    }
+});
+
+});
\ No newline at end of file
diff -r a223d4188a2489c71d86f6ba0e6698573f384d7d -r 18db7291e89062110a3c81df9293a68935779c47 config/plugins/visualizations/charts/static/charts/highcharts/boxplot/logo.png
Binary file config/plugins/visualizations/charts/static/charts/highcharts/boxplot/logo.png has changed
diff -r a223d4188a2489c71d86f6ba0e6698573f384d7d -r 18db7291e89062110a3c81df9293a68935779c47 config/plugins/visualizations/charts/static/charts/highcharts/boxplot/wrapper.js
--- /dev/null
+++ b/config/plugins/visualizations/charts/static/charts/highcharts/boxplot/wrapper.js
@@ -0,0 +1,81 @@
+// dependencies
+define(['plugin/charts/highcharts/common/highcharts-config'], function(configmaker) {
+
+// widget
+return Backbone.View.extend(
+{
+    // initialize
+    initialize: function(app, options) {
+        this.app        = app;
+        this.options    = options;
+    },
+            
+    // render
+    draw : function(process_id, chart, request_dictionary)
+    {
+        // configure request
+        var index = 0;
+        for (var i in request_dictionary.groups) {
+            var group = request_dictionary.groups[i];
+            group.columns = null;
+            group.columns = {
+                x: {
+                    index: index++
+                }
+            }
+        }
+        
+        // hide legend
+        chart.settings.set('legend_enabled', 'false')
+        
+        // create configuration
+        this.hc_config = configmaker(chart.settings);
+        
+        // request data
+        var self = this;
+        this.app.datasets.request(request_dictionary, function() {
+            
+            // reset data/categories
+            var data = [];
+            var categories = [];
+            
+            // loop through data groups
+            for (var key in request_dictionary.groups) {
+                // get group
+                var group = request_dictionary.groups[key];
+                
+                // add category
+                categories.push(group.key);
+                
+                // format chart data
+                var point = [];
+                for (var key in group.values) {
+                    point.push(group.values[key].x);
+                }
+                
+                // add to data
+                data.push (point);
+            }
+            
+            // categories
+            self.hc_config.xAxis.categories = categories;
+                
+            // update data
+            self.hc_config.series.push({
+                type    : 'boxplot',
+                data    : data
+            });
+        
+            // draw plot
+            self.options.canvas[0].highcharts(self.hc_config);
+            
+            // set chart state
+            chart.state('ok', 'Box plot drawn.');
+                
+            // unregister process
+            chart.deferred.done(process_id);
+        });
+    }
+});
+
+});
\ No newline at end of file
diff -r a223d4188a2489c71d86f6ba0e6698573f384d7d -r 18db7291e89062110a3c81df9293a68935779c47 config/plugins/visualizations/charts/static/charts/highcharts/common/config.js
--- /dev/null
+++ b/config/plugins/visualizations/charts/static/charts/highcharts/common/config.js
@@ -0,0 +1,216 @@
+define([], function() {
+
+return {
+    title       : '',
+    category    : '',
+    library     : 'highcharts',
+    tag         : 'div',
+    settings    : {
+        separator_label  : {
+            title       : 'X axis',
+            type        : 'separator'
+        },
+        x_axis_label : {
+            title       : 'Axis label',
+            info        : 'Provide a label for the axis.',
+            type        : 'text',
+            init        : 'X-axis',
+            placeholder : 'Axis label'
+        },
+        x_axis_type : {
+            title       : 'Axis value type',
+            info        : 'Select the value type of the axis.',
+            type        : 'select',
+            init        : 'auto',
+            data        : [
+                {
+                    label   : '-- Do not show values --',
+                    value   : 'hide',
+                    hide    : ['x_axis_tick']
+                },
+                {
+                    label   : 'Auto',
+                    value   : 'auto',
+                    hide    : ['x_axis_tick']
+                },
+                {
+                    label   : 'Float',
+                    value   : 'f',
+                    show    : ['x_axis_tick']
+                },
+                {
+                    label   : 'Exponent',
+                    value   : 'e',
+                    show    : ['x_axis_tick']
+                },
+                {
+                    label   : 'Integer',
+                    value   : 'd',
+                    hide    : ['x_axis_tick']
+                },
+                {
+                    label   : 'Percentage',
+                    value   : 'p',
+                    show    : ['x_axis_tick']
+                },
+                {
+                    label   : 'Rounded',
+                    value   : 'r',
+                    show    : ['x_axis_tick']
+                },
+                {
+                    label   : 'SI-prefix',
+                    value   : 's',
+                    show    : ['x_axis_tick']
+                }
+            ]
+        },
+        x_axis_tick : {
+            title       : 'Axis tick format',
+            info        : 'Select the tick format for the axis.',
+            type        : 'select',
+            init        : '.1',
+            data        : [
+                {
+                    label   : '0.00001',
+                    value   : '.5'
+                },
+                {
+                    label   : '0.0001',
+                    value   : '.4'
+                },
+                {
+                    label   : '0.001',
+                    value   : '.3'
+                },
+                {
+                    label   : '0.01',
+                    value   : '.2'
+                },
+                {
+                    label   : '0.1',
+                    value   : '.1'
+                },
+                {
+                    label   : '1',
+                    value   : '1'
+                }
+            ]
+
+        },
+        separator_tick  : {
+            title       : 'Y axis',
+            type        : 'separator'
+        },
+        y_axis_label : {
+            title       : 'Axis label',
+            info        : 'Provide a label for the axis.',
+            type        : 'text',
+            init        : 'Y-axis',
+            placeholder : 'Axis label'
+        },
+        y_axis_type : {
+            title       : 'Axis value type',
+            info        : 'Select the value type of the axis.',
+            type        : 'select',
+            init        : 'auto',
+            data        : [
+                {
+                    label   : '-- Do not show values --',
+                    value   : 'hide',
+                    hide    : ['y_axis_tick']
+                },
+                {
+                    label   : 'Auto',
+                    value   : 'auto',
+                    hide    : ['y_axis_tick']
+                },
+                {
+                    label   : 'Float',
+                    value   : 'f',
+                    show    : ['y_axis_tick']
+                },
+                {
+                    label   : 'Exponent',
+                    value   : 'e',
+                    show    : ['y_axis_tick']
+                },
+                {
+                    label   : 'Integer',
+                    value   : 'd',
+                    hide    : ['y_axis_tick']
+                },
+                {
+                    label   : 'Percentage',
+                    value   : 'p',
+                    show    : ['y_axis_tick']
+                },
+                {
+                    label   : 'Rounded',
+                    value   : 'r',
+                    show    : ['y_axis_tick']
+                },
+                {
+                    label   : 'SI-prefix',
+                    value   : 's',
+                    show    : ['y_axis_tick']
+                }
+            ]
+        },
+        y_axis_tick : {
+            title       : 'Axis tick format',
+            info        : 'Select the tick format for the axis.',
+            type        : 'select',
+            init        : '.1',
+            data        : [
+                {
+                    label   : '0.00001',
+                    value   : '.5'
+                },
+                {
+                    label   : '0.0001',
+                    value   : '.4'
+                },
+                {
+                    label   : '0.001',
+                    value   : '.3'
+                },
+                {
+                    label   : '0.01',
+                    value   : '.2'
+                },
+                {
+                    label   : '0.1',
+                    value   : '.1'
+                },
+                {
+                    label   : '1',
+                    value   : '1'
+                }
+            ]
+
+        },
+        separator_legend : {
+            title       : 'Others',
+            type        : 'separator'
+        },
+        legend_enabled : {
+            title       : 'Show legend',
+            info        : 'Would you like to add a legend?',
+            type        : 'select',
+            init        : 'true',
+            data        : [
+                {
+                    label   : 'Yes',
+                    value   : 'true'
+                },
+                {
+                    label   : 'No',
+                    value   : 'false'
+                }
+            ]
+        }
+    }
+};
+
+});
\ No newline at end of file
diff -r a223d4188a2489c71d86f6ba0e6698573f384d7d -r 18db7291e89062110a3c81df9293a68935779c47 config/plugins/visualizations/charts/static/charts/highcharts/common/highcharts-config.js
--- /dev/null
+++ b/config/plugins/visualizations/charts/static/charts/highcharts/common/highcharts-config.js
@@ -0,0 +1,114 @@
+// dependencies
+define([], function() {
+
+// widget
+return function(settings) {
+    // highcharts configuration
+    return {
+        chart: {
+	        type                        : '',
+            zoomType                    : 'xy'
+	    },
+	    
+	    title: {
+	        text                        : ''
+	    },
+	    
+	    legend: {
+	        enabled                     : settings.get('legend_enabled') == undefined || settings.get('legend_enabled') == 'true'
+	    },
+        
+        credits: {
+            enabled                     : false
+        },
+        
+        xAxis: {
+            categories                  : settings.get('x_axis_categories'),
+            title: {
+                text                    : settings.get('x_axis_label')
+            },
+            stackLabels: {
+                    enabled: false,
+                    style: {
+                        fontWeight      : 'bold',
+                        color           : (Highcharts.theme && Highcharts.theme.textColor) || 'gray'
+                    }
+                },
+            tickPixelInterval           : 100
+        },
+        
+        yAxis: {
+            title: {
+                text                    : settings.get('y_axis_label')
+            }
+        },
+    
+        plotOptions: {
+            series: {
+                animation               : false,
+                stacking                : settings.get('plotoptions_series_stacking')
+            },
+            column: {
+                stacking                : settings.get('plotoptions_column_stacking')
+            },
+            area: {
+                stacking                : settings.get('plotoptions_area_stacking'),
+                lineColor               : '#ffffff',
+                lineWidth               : 1,
+                marker: {
+                    lineWidth           : 1,
+                    lineColor           : '#ffffff'
+                }
+            },
+            pie: {
+                allowPointSelect        : true,
+                cursor                  : 'pointer',
+                dataLabels: {
+                    enabled             : false,
+                    distance            : -1
+                }
+            }
+        },
+       
+        series: []
+	}/*,
+    
+    // highcharts stacking
+    hc_stacklabels: {
+        enabled: true,
+        style: {
+            fontWeight: 'bold',
+            color: (Highcharts.theme && Highcharts.theme.textColor) || 'gray'
+        }
+    },
+
+    // initialize
+    initialize: function(settings) {
+        // stacking
+        if (settings.get('x_stacked')) {
+            this.hc_config.xAxis.stackLabels = this.hc_stacklabels;
+            this.hc_config.plotOptions.column = {
+                stacking    : 'normal',
+                dataLabels  : {
+                    enabled : true,
+                    color: (Highcharts.theme && Highcharts.theme.dataLabelsColor) || 'white',
+                    style: {
+                        textShadow: '0 0 3px black, 0 0 3px black'
+                    }
+                }
+            }
+        }
+        
+        // stacking
+        if (settings.get('y_stacked')) {
+            this.hc_config.yAxis.stackLabels = this.hc_stacklabels;
+            this.hc_config.plotOptions.column = {
+                stacking    : 'normal'
+            }
+        }
+        
+        console.log(this.hc_config);
+    }*/
+};
+
+});
\ No newline at end of file
diff -r a223d4188a2489c71d86f6ba0e6698573f384d7d -r 18db7291e89062110a3c81df9293a68935779c47 config/plugins/visualizations/charts/static/charts/highcharts/common/wrapper.js
--- /dev/null
+++ b/config/plugins/visualizations/charts/static/charts/highcharts/common/wrapper.js
@@ -0,0 +1,97 @@
+// dependencies
+define(['utils/utils', 'plugin/charts/highcharts/common/highcharts-config'], function(Utils, configmaker) {
+
+// widget
+return Backbone.View.extend(
+{
+    // highcharts series
+    hc_series: {
+        name                : '',
+        data                : [],
+        tooltip: {
+            headerFormat    : '<em>{point.key}</em><br/>'
+        }
+    },
+
+    // initialize
+    initialize: function(app, options) {
+        this.app        = app;
+        this.options    = options;
+    },
+    
+    // render
+    draw : function(process_id, hc_type, chart, request_dictionary, callback)
+    {
+        // create configuration
+        this.hc_config = configmaker(chart.settings);
+        
+        // request data
+        var self = this;
+        this.app.datasets.request(request_dictionary, function() {
+            if (self.options.canvas.length == 1) {
+                // groups
+                self._drawGroups(hc_type, chart, request_dictionary.groups, self.options.canvas[0]);
+
+                // set chart state
+                chart.state('ok', 'Chart drawn.');
+            } else {
+                // loop through data groups
+                for (var group_index in request_dictionary.groups) {
+                    // get group
+                    var group = request_dictionary.groups[group_index];
+                
+                    // draw group
+                    self._drawGroups(hc_type, chart, [group], self.options.canvas[group_index]);
+                }
+                
+                // set chart state
+                chart.state('ok', 'Multi-panel chart drawn.');
+            }
+            
+            // unregister process
+            chart.deferred.done(process_id);
+        });
+    },
+    
+    // draw all data into a single canvas
+    _drawGroups: function(hc_type, chart, groups, canvas) {
+        // reset
+        this.hc_config.series = [];
+        
+        // loop through data groups
+        for (var key in groups) {
+            // get group
+            var group = groups[key];
+            
+            // reset data
+            var data = [];
+        
+            // format chart data
+            for (var value_index in group.values) {
+                // parse data
+                var point = [];
+                for (var column_index in group.values[value_index]) {
+                    point.push(group.values[value_index][column_index]);
+                }
+                
+                // add to data
+                data.push (point);
+            }
+            
+            // highcharts series
+            var hc_series = {
+                name        : group.key,
+                type        : hc_type,
+                data        : data
+            };
+            
+            // append series
+            this.hc_config.series.push(hc_series);
+        }
+        
+        // draw plot
+        canvas.highcharts(this.hc_config);
+    }
+});
+
+});
\ No newline at end of file
This diff is so big that we needed to truncate the remainder.
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