/* * ux.ManagedIFrame for ExtJS Library 3.1+ * Copyright(c) 2008-2009 Active Group, Inc. * licensing@theactivegroup.com * http://licensing.theactivegroup.com */ Ext.namespace("Ext.ux.plugin");Ext.onReady(function(){var a=Ext.util.CSS;if(a){a.getRule(".x-hide-nosize")||a.createStyleSheet(".x-hide-nosize{height:0px!important;width:0px!important;border:none!important;zoom:1;}.x-hide-nosize * {height:0px!important;width:0px!important;border:none!important;zoom:1;}");a.refreshCache()}});(function(){var h=Ext.Element,b=Ext.lib.Anim,a=h.prototype;var g="visibility",e="display",c="hidden",i="none";var f={};f.El={setDisplayed:function(k){var j=this;j.visibilityCls?(j[k!==false?"removeClass":"addClass"](j.visibilityCls)):a.setDisplayed.call(j,k);return j},isDisplayed:function(){return !(this.hasClass(this.visibilityCls)||this.isStyle(e,i))},fixDisplay:function(){var j=this;a.fixDisplay.call(j);j.visibilityCls&&j.removeClass(j.visibilityCls)},isVisible:function(k){var l=this.visible||(!this.isStyle(g,c)&&(this.visibilityCls?!this.hasClass(this.visibilityCls):!this.isStyle(e,i)));if(k!==true||!l){return l}var n=this.dom.parentNode,j=/^body/i;while(n&&!j.test(n.tagName)){if(!Ext.fly(n,"_isVisible").isVisible()){return false}n=n.parentNode}return true},isStyle:a.isStyle||function(j,k){return this.getStyle(j)==k}};Ext.override(h.Flyweight,f.El);Ext.ux.plugin.VisibilityMode=function(k){Ext.apply(this,k||{});var j=Ext.util.CSS;if(j&&!Ext.isIE&&this.fixMaximizedWindow!==false&&!Ext.ux.plugin.VisibilityMode.MaxWinFixed){j.updateRule(".x-window-maximized-ct","overflow","");Ext.ux.plugin.VisibilityMode.MaxWinFixed=true}};Ext.extend(Ext.ux.plugin.VisibilityMode,Object,{bubble:true,fixMaximizedWindow:true,elements:null,visibilityCls:"x-hide-nosize",hideMode:"nosize",ptype:"uxvismode",init:function(p){var k=this.hideMode||p.hideMode,n=this,j=Ext.Container.prototype.bubble,l=function(){var r=[this.collapseEl,this.actionMode].concat(n.elements||[]);Ext.each(r,function(s){n.extend(this[s]||s)},this);var q={visFixed:true,animCollapse:false,animFloat:false,hideMode:k,defaults:this.defaults||{}};q.defaults.hideMode=k;Ext.apply(this,q);Ext.apply(this.initialConfig||{},q)};p.on("render",function(){if(n.bubble!==false&&this.ownerCt){j.call(this.ownerCt,function(){this.visFixed||this.on("afterlayout",l,this,{single:true})})}l.call(this)},p,{single:true})},extend:function(j,k){j&&Ext.each([].concat(j),function(l){if(l&&l.dom){if("visibilityCls" in l){return}Ext.apply(l,f.El);l.visibilityCls=k||this.visibilityCls}},this);return this}});Ext.preg&&Ext.preg("uxvismode",Ext.ux.plugin.VisibilityMode);Ext.provide&&Ext.provide("uxvismode")})();(function(){var z=Ext.Element,ag,T=Ext.lib.Dom,t=Ext.lib.Anim,C=Ext.EventManager,p=Ext.lib.Event,ac=document,P=function(){},G=Object.prototype,i=G.toString,V="[object 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MIF.Updater(this))},getHistory:function(){var h=null;try{h=this.getWindow().history}catch(eh){}return h},get:function(el){var doc=this.getFrameDocument();return doc?Ext.get(el,doc):doc=null},fly:function(el,named){var doc=this.getFrameDocument();return doc?Ext.fly(el,named,doc):null},getDom:function(el){var d;if(!el||!(d=this.getFrameDocument())){return(d=null)}return Ext.getDom(el,d)},select:function(selector,unique){var d;return(d=this.getFrameDocument())?Ext.Element.select(selector,unique,d):d=null},query:function(selector){var d;return(d=this.getFrameDocument())?Ext.DomQuery.select(selector,d):null},removeNode:Ext.removeNode,_renderHook:function(){this._windowContext=null;this.CSS=this.CSS?this.CSS.destroy():null;this._hooked=false;try{if(this.writeScript('(function(){(window.hostMIF = parent.document.getElementById("'+this.id+'").ownerCt)._windowContext='+(Ext.isIE?"window":'{eval:function(s){return new Function("return ("+s+")")();}}')+";})()")){var 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w,obv=this._observable,D;if(!this.isReset&&this.focusOnLoad&&(w=this.getWindow())){w.focus()}obv.fireEvent("_docready",this);(D=this.getDoc())&&(D.isReady=true);if(!this.domFired&&(this._hooked=this._renderHook())){this.domFired=true;this.isReset||obv.fireEvent.call(obv,"domready",this)}this.domReady=true;this.hideMask()},_onDocLoaded:function(eventName){var obv=this._observable,w;this.domReady||this._onDocReady("domready");obv.fireEvent("_docload",this);this.isReset||obv.fireEvent("documentloaded",this);this.hideMask(true);this._frameAction=this.isReset=false},checkDOM:function(win){if(Ext.isGecko){return}var 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",b,"
","
"].join("")}var msgCt;biogps.showmsg=function(e,c){if(!msgCt){msgCt=Ext.DomHelper.insertFirst(document.body,{id:"msg-div"},true)}msgCt.alignTo(document,"t-t");var b=String.format.apply(String,Array.prototype.slice.call(arguments,1));var a=Ext.DomHelper.append(msgCt,{html:createBox(e,b)},true);a.slideIn("t").pause(1).ghost("t",{remove:true})};biogps.require_user_logged_in=function(){if(biogps.usrMgr.is_anonymoususer){Ext.MessageBox.alert("Alert","This function is only available for registered users.");return false}else{return true}};biogps.whydisabled=function(b,c){if(b.el){var a=b.el.mask("Why disabled?","whydisabled_msg");biogps.msk=a;var e=Ext.DomQuery.selectNode('div[class="ext-el-mask-msg whydisabled_msg"]',b.el.dom);e=e||b.el;new Ext.ToolTip({target:e,html:c,title:"Why disabled?",dismissDelay:15000,autoHide:true,closable:true,draggable:true})}};biogps.clearListeners=function(c,a){if(c.events){var b=c.events[a.toLowerCase()];if(typeof b=="object"){b.clearListeners()}}};biogps.setCookies=function(){var a=new Ext.state.CookieProvider();a.set("test","cookietest");if(!a.readCookies().test){alert("Warning: many features will not work as expected unless you enable cookies. Please enable cookies on your browser and refresh the page again.")}a.clear("test");Ext.state.Manager.setProvider(a)};biogps.initHistory=function(){Ext.History.init();Ext.History.on("change",biogps.dispatcher_by_hash)};biogps.init=function(){biogps.setCookies();coreDispatcher.bindHotKey();biogps.initHistory();Ext.QuickTips.init();if(coreDispatcher.delayedAction){_gaq.push(["_trackEvent","coreDispatcher.delayedExecute","delayedCallback"]);coreDispatcher.delayedAction()}};biogps.mainUI_init=function(){biogps.initInfobar();biogps.usrMgr.init()};biogps.mainUI_postinit=function(){biogps.initLogo()};biogps.getlastsearch=function(){var a=new Ext.data.JsonStore({url:"/service/getlastsearch/",fields:[{name:"symbol"},{name:"id"}],autoLoad:true});a.on("load",function(){var b=a.reader.jsonData;if(isArray(b)&&b.length>0){biogps.genelist_panel.loadGeneList({geneList:a.reader.jsonData})}},this)};_reuse_exist_tab=function(a){var b=Ext.get("welcome");if(b&&b.isVisible()){b.hide()}if(biogps.centerTab.getActiveTab().id==a){return true}var c=biogps.centerTab.getItem(a);if(c&&!c.disabled){biogps.centerTab.suspendEvents();biogps.centerTab.setActiveTab(a);biogps.centerTab.resumeEvents();return true}return false};biogps.dispatcher_by_hash=function(g){var f=Ext.urlDecode(g);if(f){var e=f["goto"];if(e){e=e.toLowerCase()}switch(e){default:var b=Ext.get("welcome");if(b&&!b.isVisible()){b.show()}biogps.setTitle(e);break;case"about":if(!_reuse_exist_tab("infotab_about")){biogps.showInfoPage("about")}biogps.setTitle(e);break;case"terms":if(!_reuse_exist_tab("infotab_terms")){biogps.showInfoPage("terms")}biogps.setTitle(e);break;case"help":if(!_reuse_exist_tab("infotab_help")){biogps.showInfoPage("help")}biogps.setTitle(e);break;case"faq":if(!_reuse_exist_tab("infotab_faq")){biogps.showInfoPage("faq")}biogps.setTitle(e);break;case"downloads":if(!_reuse_exist_tab("infotab_downloads")){biogps.showInfoPage("downloads")}biogps.setTitle(e);break;case"iphone":if(!_reuse_exist_tab("infotab_iphone")){biogps.showInfoPage("iphone")}biogps.setTitle(e);break;case"search":var a;var h;if(f.qtype=="keyword"){a="keyword"}else{if(f.qtype=="interval"){a="interval";var j=biogps.GENOMEASSEMBLY[f.genome]||"mouse"}else{a="symbolanno"}}h=f.query;if(h){if(biogps.searchform){if(a=="interval"){biogps.searchform.items.get(0).setActiveTab("searchbyinterval");biogps.searchform.form.setValues({genomeinternal_string:h,genomeassembly:j})}else{h=h.replace(/[\+,|]+/g,"\n");biogps.searchform.items.get(0).setActiveTab("searchbyanno");biogps.searchform.form.setValues({query:h,qtype:a})}biogps.doSearch()}}else{_reuse_exist_tab("search_panel")}biogps.setTitle(e);break;case"searchresult":_reuse_exist_tab("result_panel");biogps.setTitle(e);break;case"genereport":var c=f.id;var i=[];if(c){if(isString(c)){i=c.replace(/[\+|]+/g,",").split(",")}else{if(isArray(c)){i=c}}}if(i.length>0){if(!_reuse_exist_tab("report_panel")||(i.join(",")!=biogps.GeneReportMgr.getGeneidList().join(","))){biogps.renderGeneReport2(i,true)}}else{_reuse_exist_tab("report_panel")}biogps.setTitle(e,i);break;case"pluginlibrary":if(!_reuse_exist_tab("pluginbrowse_panel")){biogps.renderPluginBrowsePanel(false,f);biogps.setTitle(e)}else{biogps.currentLibrary.dispatcher_by_params(f)}break;case"mystuff":if(!_reuse_exist_tab("mystuff_panel")){biogps.renderMyStuffPanel()}biogps.setTitle(e);break}}else{Ext.History.add("goto=welcome")}};biogps.dispatcher=function(){var a=window.location.hash;if(a.length>0&&a.substring(0,1)=="#"){a=a.substring(1);biogps.dispatcher_by_hash(a)}else{Ext.History.add("goto=search")}};biogps.initMsgTicker=function(){var a=Ext.get("center_panel");if(a){var b=Ext.get("msg-ct");b.anchorTo(a.first(),"tr",[-300,0],false,false);var e=0;var h=Ext.get("msg"),c=Ext.get("msg-inner"),g=null;c.addClassOnOver("msg-over");h.on("click",function(){if(g.action){g.action()}else{if(g.url){window.open(g.url)}}});function i(){c.update(g.text);h.slideIn("b")}function f(j){if(isArray(biogps.ticker_msgs)&&biogps.ticker_msgs.length>0){if(!c.hasClass("msg-over")){g=biogps.ticker_msgs[j];if(h.isVisible()){h.slideOut("b",{callback:i})}else{i()}}}}setInterval(function(){e=biogps.ticker_msgs[e+1]?e+1:0;f(e)},5000);f(0)}};biogps.setupUpdator=function(){var a={run:function(){biogps.callRemoteService({url:"/tickermsgs/",fn:function(c){var e=[{text:"Welcome to BioGPS site."}];if(c.reader.jsonData.cnt_user_all){e.push({text:String.format("There are currently {0} registered users.",c.reader.jsonData.cnt_user_all)})}if(c.reader.jsonData.cnt_newuser_lastweek&&c.reader.jsonData.cnt_newuser_lastweek>0){e.push({text:String.format("{0} new users registered in the last week.",c.reader.jsonData.cnt_newuser_lastweek)})}if(c.reader.jsonData.cnt_user_lastweek){e.push({text:String.format("There are {0} users visited BioGPS last week.",c.reader.jsonData.cnt_user_lastweek)})}if(c.reader.jsonData.cnt_plugins){e.push({text:String.format("There are {0} registered plugins in the plugin library.",c.reader.jsonData.cnt_plugins)})}if(c.reader.jsonData.cnt_layouts){e.push({text:String.format("BioGPS users have created {0} custom user layouts.",c.reader.jsonData.cnt_layouts)})}biogps.ticker_msgs=e},ignorefailure:true})},interval:300*1000};var b=new Ext.util.TaskRunner();b.start(a)};biogps.initLogo=function(){var a=Ext.get("biogps-logo");if(a){function c(){if(!biogps.logopanel){var f=a.getLeft();var e=a.getBottom();var g=9;biogps.logopanel=new Ext.Panel({id:"logopanel",layout:"fit",floating:true,renderTo:Ext.getBody(),shadow:false,x:f,y:e,width:172,height:83,html:String.format('logo',Math.ceil(Math.random()*100%g)),listeners:{render:function(h){h.el.fadeIn({duration:0.5})}}})}}function b(){if(biogps.logopanel){biogps.logopanel.el.fadeOut({duration:0.5,callback:function(){if(biogps.logopanel&&biogps.logopanel.destroy){biogps.logopanel.destroy()}biogps.logopanel=null}})}}a.hover(c,b,this)}};biogps.GENOMEASSEMBLY={hg18:"human",mm9:"mouse",rn4:"rat",dm3:"drosophila"};biogps.TAXONOMY_LIST=new Ext.data.SimpleStore({fields:["name","taxid"],data:[["human",9606],["mouse",10090],["rat",10116],["drosophila",7227]]});biogps.PLUGINKEYWORDS_common=[{key:"{{EntrezGene}}",text:"Entrez GeneID"},{key:"{{Symbol}}",text:"Symbol"},{key:"{{EnsemblGene}}",text:"Ensembl GeneID"},{key:"{{Unigene}}",text:"UniGene ID"},{key:"{{Uniprot}}",text:"Uniprot ID"},{key:"{{Refseq_mRNA}}",text:"RefSeq Transcript"},{key:"{{Refseq_protein}}",text:"RefSeq Protein"},{key:"{{PDB}}",text:"PDB ID"}];biogps.PLUGINKEYWORDS_other=[{key:"{{FLYBASE}}",text:"FLYBASE",allowedSpecies:["drosophila"]},{key:"{{assembly}}",text:"Genome Assembly"},{key:"{{genomelocation}}",text:"Genomic Location"},{key:"{{chr}}",text:"Chromosome"},{key:"{{gstart}}",text:"Genomic Start Position"},{key:"{{gend}}",text:"Genomic End Position"},{key:"{{Aliases}}",text:"Aliases"},{key:"{{HGNC}}",text:"HGNC",allowedSpecies:["human"]},{key:"{{HPRD}}",text:"HPRD",allowedSpecies:["human"]},{key:"{{MGI}}",text:"MGI",allowedSpecies:["mouse"]},{key:"{{MIM}}",text:"OMIM",allowedSpecies:["human"]},{key:"{{RATMAP}}",text:"RATMAP",allowedSpecies:["rat"]},{key:"{{RGD}}",text:"RGD",allowedSpecies:["rat"]},{key:"{{TAIR}}",text:"TAIR",allowedSpecies:["arabidopsis"]},{key:"{{WormBase}}",text:"WormBase",allowedSpecies:["c. elegans"]},{key:"{{ZFIN}}",text:"ZFIN",allowedSpecies:["zebrafish"]}];Ext.override(Ext.form.CheckboxGroup,{getRawValue:function(){var a=[];this.eachItem(function(b){if(b.checked){a.push(b.getRawValue())}});return a}});biogps.get_sessionid=function(){var c=document.cookie;var e="sessionid=";var b=c.indexOf(e);if(b==-1){return""}else{var f=b+e.length;var a=c.substring(b).indexOf(";");if(a==-1){return c.substring(f)}else{return c.substring(f,b+a)}}};function deepObjCopy(a){var b=new Object();if(typeof(a)=="object"){if(typeof(a.length)!="undefined"){var b=new Array()}for(var c in a){if(typeof(a[c])=="object"){b[c]=deepObjCopy(a[c])}else{if(typeof(a[c])=="string"){b[c]=a[c]}else{if(typeof(a[c])=="number"){b[c]=a[c]}else{if(typeof(a[c])=="boolean"){((a[c]==true)?b[c]=true:b[c]=false)}}}}}}return b}if(!Ext.isArray&&isArray){Ext.isArray=isArray}function isArray(){if(typeof arguments[0]=="object"){var a=arguments[0].constructor.toString().match(/array/i);return(a!=null)}return false}function isString(){if(typeof arguments[0]=="string"){return true}if(typeof arguments[0]=="object"){var a=arguments[0].constructor.toString().match(/string/i);return(a!=null)}return false}biogps.utils.toggleScrollbar=function(a,b){if(b){a.setStyle("overflow","hidden")}else{a.setStyle("overflow","auto")}};biogps.utils.loadGeneList=function(a){if(Ext.isArray(a)&&a.length>0&&biogps.genelist_panel){biogps.genelist_panel.loadFromGeneIDList(a)}};biogps.renderPluginBrowsePanel=function(a,e){var c=Ext.getCmp("center_panel");var i="pluginbrowse_panel";var b=c.getItem(i);var g=false;if(!b){b=c.add({title:"Plugin Library",id:i,closable:true,layout:"fit",autoScroll:true});var f=function(){if(Ext.get("pluginbrowse_panel")){biogps.renderPluginBrowsePanel(a=true)}};biogps.usrMgr.linkWithAuthentication(f);b.on("destroy",function(){biogps.usrMgr.unlinkWithAuthentication(f);biogps.currentPluginRenderer=null;delete biogps.currentPluginRenderer;var k;for(var j=0;j',e.icon):e.title;if(e.url){var f=a.createChild({tag:"a",id:"infobar_"+e.id,style:"padding-right:20px",href:e.url,target:"_blank",html:b})}else{var f=a.createChild({tag:"a",id:"infobar_"+e.id,style:"padding-right:20px",href:"#goto="+e.id,html:b});f.on("click",function(h,g){h.stopEvent();var i=biogps.staticpage_data.get(g.id.substring("infobar_".length));Ext.History.add("goto="+i.id);_gaq.push(["_trackPageview","/#"+i.id]);_gaq.push(["_trackEvent","BioGPS",i.id])},this)}}var f=a.createChild({tag:"a",style:"padding-right:20px",href:"javascript:void(null);",html:"Email updates"});f.on("click",function(g,h){biogps.subscribeGoogleGroups(g,Ext.get(h))},this)};biogps.subscribeGoogleGroups=function(a,e){if(biogps.subscribepanel){biogps.subscribepanel.destroy();return}biogps.subscribepanel=new Ext.ToolTip({target:e,bodyStyle:"background-color:white; padding: 3px 3px 5px 5px;",html:'Google Groups

biogps-announce: (low-volume list for news and announcements)

    Email:
',mouseOffset:[0,25],showDelay:10000000000,trackMouse:false,autoHide:false,closable:true,draggable:true});biogps.subscribepanel.on("destroy",function(){biogps.subscribepanel=null});biogps.subscribepanel.on("hide",function(){biogps.subscribepanel.destroy()});if(a.getXY){biogps.subscribepanel.targetXY=a.getXY()}else{biogps.subscribepanel.targetXY=[a.pageX,a.pageY]}var c=e.getX();var b=e.getY()-120;biogps.subscribepanel.showAt([c,b])};biogps.UserManager=function(a){Ext.apply(this,a);biogps.UserManager.superclass.constructor.call(this);this.userName=null;this.firstName=null;this.lastName=null;this.name=null;this.can_share=false;this.is_gnf_user=false;this.is_nvs_user=false;this.profile={};this.is_anonymoususer=true;this.authUrl="/auth/login/";this.loginbarEl="login-bar";this.loginEl="login";this.logoutEl="logout";this.logoutUrl="/authx/logout/";this.getuserdataUrl="/authx/getuserdata";this.saveprofileUrl="/authx/saveprofile";this.loginwin=null;this.addEvents({authenticateduser:true});this.addEvents({anonymoususer:true});this.addEvents({login:true});this.addEvents({logout:true})};Ext.extend(biogps.UserManager,Ext.util.Observable,{init:function(){this.on("authenticateduser",function(){biogps.dispatcher()});this.on("anonymoususer",function(){this.setAnonymousUser();biogps.dispatcher()});this.loadSavedUserData()},setAnonymousUser:function(){this.userName=null;this.firstName=null;this.lastName=null;this.name=null;this.can_share=false;this.is_gnf_user=false;this.is_nvs_user=false;this.profile={};this.profile.defaultlayout=biogps.LayoutMgr.defaultlayout_for_anonymoususer;biogps.LayoutMgr.loadAllLayout({layout_id:biogps.alt_defaultlayout});this.is_anonymoususer=true;this.fireEvent("logout")},doLogin:function(){Ext.getCmp("loginform").getForm().submit({url:this.authUrl,method:"POST",success:function(a,b){afterLogin(b.result.data)},failure:function(a,b){Ext.MessageBox.hide();Ext.MessageBox.show({title:"Error",msg:"Network Error! Try again.",buttons:Ext.Msg.OK,icon:Ext.MessageBox.ERROR});Ext.getBody().dom.innerHTML=b.response.responseText}})},loginSuccess:function(b){this.is_anonymoususer=false;this.userName=b.username;this.firstName=b.firstname;this.lastName=b.lastname;this.name=b.name;this.can_share=b.can_share||false;this.is_gnf_user=b.is_gnf_user||false;this.is_nvs_user=b.is_nvs_user||false;if(isString(b.profile)){this.profile=Ext.util.JSON.decode(b.profile)}else{this.profile=b.profile}biogps.LayoutMgr.loadAllLayout({layout_id:biogps.alt_defaultlayout});var a=String.format('
Hello {0} / Logout
',this.firstName||this.userName);Ext.get(this.loginbarEl).update(a,false,function(){var c=Ext.get("login_div_username");if(c){var e=100;while(c.getTextWidth()>110&&e>70){e=e-1;c.setStyle({"font-size":e.toString()+"%"})}}});this.fireEvent("login")},loginFail:function(){Ext.MessageBox.show({title:"Error",msg:"Login failed! Please try again.",buttons:Ext.Msg.OK,icon:Ext.MessageBox.ERROR,fn:function(){var a=Ext.getCmp("loginform").form;a.reset();a.items.get(0).focus()}})},updateUserInfo:function(){},saveUserProfile:function(a){if(a==null){a={}}a.showmsg=(a.showmsg==null)?true:a.showmsg;a.msg=(a.msg==null)?"Your profile was just saved!":a.msg;biogps.callRemoteService({url:this.saveprofileUrl,params:{userprofile:Ext.util.JSON.encode(this.profile)},fn:function(b){var c=b.reader.jsonData;if(c.success){if(a.showmsg){biogps.showmsg("",a.msg)}if(a.callback){a.callback.call(a.scope||this)}}else{biogps.showmsg("","Your profile failed to save!")}},method:"POST",scope:this})},addSharedLayout:function(a){if(!this.profile.sharedlayouts.include(a)){this.profile.sharedlayouts.push(a);this.saveUserProfile({msg:'Your "shared layouts" list was updated!',callback:function(){biogps.LayoutMgr.loadAllLayout({noEventFired:true})},scope:this})}},removeSharedLayout:function(a){if(this.profile.sharedlayouts.include(a)){this.profile.sharedlayouts.remove(a);this.saveUserProfile({msg:'Your "shared layouts" list was updated!',callback:function(){biogps.LayoutMgr.loadAllLayout({noEventFired:true})},scope:this})}},logout:function(){var a=new Ext.data.JsonStore({url:this.logoutUrl,fields:[],autoLoad:true});a.on("load",function(b){this.setAnonymousUser();this.setLoginLink();this.setWelcomeLogout();this.fireEvent("logout")},this);a.on("loadexception",biogps.ajaxfailure2,this)},loadSavedUserData:function(){var b=Ext.get(this.loginbarEl);var a=b.createChild({tag:"div",cls:"loading-indicator",html:"Checking user..."});var c=new Ext.data.JsonStore({url:this.getuserdataUrl,fields:[],autoLoad:true});c.on("load",function(f){a.remove();var e=f.reader.jsonData;if(e.username){this.is_anonymoususer=false;this.loginSuccess(e);this.fireEvent("authenticateduser")}else{this.setLoginLink();this.is_anonymoususer=true;this.fireEvent("anonymoususer")}},this);c.on("loadexception",biogps.ajaxfailure,this)},setLoginLink:function(){this.setLoginLink_newpage()},setLoginLink_newpage:function(){Ext.get(this.loginbarEl).update('')},gotoLoginPage:function(){var a="/auth/login?next="+encodeURIComponent(window.location.href);window.location=a},setLoginLink_inpage:function(){Ext.get(this.loginbarEl).update('Login here or Sign up')},setWelcomeLogout:function(){Ext.get("welcome-loggedin").update('

Logged Out

Your session has ended.

Login again

')},maskForAnonymous:function(a){var e=a.targetEl;var c=a.msg;var b=a.msg2;var f=""+c+"";f+="
Either login or create a free account.
";if(b){f+="
"+b}e.mask(f,"maskBox")},showLoginWin:function(b){var a=b||Ext.get(this.loginEl);if(!this.loginwin){this.loginwin=new biogps.LoginWin()}this.loginwin.show(a)},linkWithAuthentication:function(b,a){this.on("login",b,a);this.on("logout",b,a)},unlinkWithAuthentication:function(b,a){this.un("login",b,a);this.un("logout",b,a)}});biogps.usrMgr=new biogps.UserManager();biogps.LoginWin=function(a){Ext.apply(this,a);this.loginform=new Ext.FormPanel({id:"loginform",labelWidth:75,autoHeight:true,bodyStyle:"padding:5px 5px 5px 5px",width:320,border:false,plain:true,items:[{xtype:"fieldset",title:"BioGPS user account",autoHeight:true,items:[{xtype:"textfield",fieldLabel:"Username",id:"loginfield_username",name:"username",width:210,allowBlank:true},{xtype:"textfield",fieldLabel:"Password",id:"loginfield_password",name:"password",width:210,inputType:"password",allowBlank:false},{xtype:"checkbox",boxLabel:"Remember me on this computer.",name:"remember",border:false,labelSeparator:""}]}],buttons:[{text:"Login",id:"login_button",handler:function(){this.doLogin()},scope:this},{text:"Close",handler:function(){this.hide()},scope:this}]});biogps.LoginWin.superclass.constructor.call(this,{title:"User login",layout:"fit",width:360,height:200,autoHeight:true,plain:true,modal:true,stateful:false,closeAction:"hide",listeners:{show:{buffer:10,fn:function(c){this.loginform.form.items.get(0).focus();var b=new Ext.KeyMap(c.items.get(0).getEl(),{key:13,stopEvent:true,fn:function(){this.doLogin()},scope:c})}}},items:[this.loginform]})};Ext.extend(biogps.LoginWin,Ext.Window,{doLogin:function(){if(!this.loginform.form.isValid()){Ext.MessageBox.show({title:"Error",msg:"Wrong input! Correct and try again.",buttons:Ext.Msg.OK,icon:Ext.MessageBox.ERROR})}else{this.body.mask("Authenticating...");this.loginform.form.submit({url:biogps.usrMgr.authUrl,method:"POST",success:function(a,c){this.body.unmask();var b=c.result.data;if(b.name!="Bad Login"){this.hide();biogps.usrMgr.loginSuccess(b)}else{biogps.usrMgr.loginFail()}},failure:function(a,b){this.body.unmask();biogps.formfailure(b,"Network Error! Try again.",function(){a.reset()})},scope:this})}}});biogps.Gene=function(a){this.id="";Ext.apply(this,a);biogps.Gene.superclass.constructor.call(this);this.addEvents({beforeload:true});this.addEvents({load:true});this.fireEvent("beforeload")};Ext.extend(biogps.Gene,Ext.util.Observable,{load:function(a){biogps.callRemoteService({url:"/boc/getgeneidentifiers/?format=json&geneid="+(a||this.id),fn:function(b){Ext.apply(this,b.reader.jsonData);this.fireEvent("load",this)},scope:this})},getEntryGene:function(c){var g=null;if(isArray(c)){g=c}else{if(isString(c)){g=[c]}else{if(this.EntrySpecies){g=[this.EntrySpecies]}else{g=this.SpeciesList}}}var e=null;if(g&&this.EntryGeneID){for(var b=0;b0){var c=this.getCurrrentSpecies(j,true);if(c){this.current_species=c;var a=j[c][0];e=this.url;if(a){for(var b=0;b1&&a==true&&this.useroptions&&this.useroptions.speciesOnly&&b.indexOf(this.useroptions.speciesOnly)!=-1){b=[this.useroptions.speciesOnly]}return b},isSpeciesAllowed:function(a){return(this.getAllowedSpecies().indexOf(a)!=-1)},getAvailableSpecies:function(g,a){var b=this.getAllowedSpecies(a);var e=[];var f=g.SpeciesList;if(f){for(var c=0;c0){if(e.EntrySpecies&&b.indexOf(e.EntrySpecies)!=-1){c=e.EntrySpecies}else{c=b[0]}}}return c},getAllowedSpeciesOnKeyword:function(){var e=null;var b=this.getKeywords();if(b&&Ext.isArray(b)){var c,g;var f=new Ext.util.MixedCollection(false,function(h){return h.key.substring(2,h.key.length-2)});f.addAll(biogps.PLUGINKEYWORDS_common.concat(biogps.PLUGINKEYWORDS_other));for(var a=0;a=0){a="biogpsusers"}else{if(this.permission.R.indexOf("Novartis Users")>=0){a="novartisusers"}else{if(this.permission.R.indexOf("GNF Users")>=0){a="gnfusers"}}}}else{if(this.permission.F){a="friendusers"}}}else{a="myself"}return a},render_preview:function(c,b){if(!b){if(this.type=="iframe"){var a=this.geturl(c);if(a){window.open(a,"","scrollbars=yes,menubar=no,height=600,width=800,resizable=yes,toolbar=no,location=no,status=no")}}}else{}},preview:function(a){if(biogps.sample_gene){this.render_preview(biogps.sample_gene,a)}else{biogps.sample_gene=new biogps.Gene({id:1017});biogps.sample_gene.on("load",function(b){this.render_preview(b,a)},this);biogps.sample_gene.load()}},show:function(a){},showFlagAsInappropriateForm:function(a){if(this.id){if(!this.flagformwin){this.flagformwin=new Ext.Window({title:"Flag plugin",layout:"fit",width:380,labelWidth:150,constrain:true,constrainHeader:true,renderTo:a,autoHeight:true,stateful:false,plain:true,ownerCmp:this,listeners:{show:{buffer:0,fn:function(c){c.center();setTimeout(function(){c.items.get(0).items.get(0).focus()},10);var b=new Ext.KeyMap(c.getEl(),[{key:13,stopEvent:true,fn:function(){this.ownerCmp.flagAsInappropriate()},scope:c}])}}},items:[new Ext.FormPanel({id:"newlayoutform",labelWidth:120,autoHeight:true,bodyStyle:"padding:5px 5px 5px 5px",border:false,items:[{xtype:"label",html:"Note: If you believe that the content displayed in this plugin are inappropriate or irrelevant, please enter a brief description below. Flagged plugins will be reviewed by a moderator.

"},{xtype:"radiogroup",fieldLabel:"Reason:",labelSeparator:"",hidden:false,disabled:false,columns:1,vertical:true,items:[{inputValue:"broken",name:"reason",boxLabel:"Broken plugin",checked:true},{inputValue:"inappropriate",boxLabel:"Inappropriate or offensive content",name:"reason",checked:false}]},{fieldLabel:"Your comments (optional)",xtype:"textarea",anchor:"90%",name:"comment",value:"",allowBlank:true},{xtype:"label",hidden:true,style:"color:red"}],buttons:[{text:"Flag now",handler:this.flagAsInappropriate,scope:this},{text:"Cancel",handler:function(){this.flagformwin.destroy()},scope:this}]})]})}this.flagformwin.on("destroy",function(){this.flagformwin=null},this);this.flagformwin.show();biogps.flagformwin=this.flagformwin}},flagAsInappropriate:function(){if(this.id&&this.flagformwin){var b=this.flagformwin.items.get(0);var a=this.flagformwin.items.get(0).items.get(3);if(b&&a){a.show();a.setText("Submitting...");b.form.submit({url:String.format("/plugin/{0}/flag/",this.id),method:"POST",timeout:60,success:function(c,e){if(e.result&&e.result.success){if(e.result.msg){a.setText(e.result.msg)}else{a.setText("Success.")}b.buttons[0].disable();b.buttons[1].setText("Done!")}},failure:function(c,e){biogps.formfailure(e,"Submitting flag failed!")}})}}},join:function(a){this.store=a}});biogps.Layout=function(a){this.id="";this.layout_name="";this.author="";this.description="";this.created="";this.lastmodified="";this.layout_data=[];Ext.apply(this,a);biogps.Layout.superclass.constructor.call(this);this.addEvents({beforeload:true,load:true,loadfailed:true,saved:true,savefailed:true,"delete":true,deletefailed:true,pluginadded:true,pluginaddfailed:true});this.layout_modified=false};Ext.extend(biogps.Layout,Ext.util.Observable,{load:function(b,a){b=b||this.id;a=a?1:0;if(b){this.fireEvent("beforeload");biogps.callRemoteService({url:String.format("/layout/{0}/?loadplugin={1}",b,a),fn:function(c){if(c.reader.jsonData.totalCount!=1){this.fireEvent("loadfailed",b)}else{var e=c.reader.jsonData.items[0].fields;e.id=c.reader.jsonData.items[0].pk;if(isString(e.layout_data)){e.layout_data=Ext.util.JSON.decode(e.layout_data)}Ext.apply(this,e);this.fireEvent("load",this)}},scope:this})}},isMyLayout:function(){return !this.isSharedLayout()},isSharedLayout:function(){return(this.is_shared==true)},isDefault:function(){return(this.layout_id==biogps.usrMgr.profile.defaultlayout)},save:function(){var b={layout_id:this.id,layout_name:this.layout_name,description:this.description,layout_data:Ext.util.JSON.encode(this.layout_data)};var a=new Ext.data.JsonStore({url:"/layout/update/",baseParams:b,method:"POST",fields:[],autoLoad:true});a.on("load",function(){var c=a.reader.jsonData;if(c.success){this.fireEvent("saved",c)}else{this.fireEvent("savefailed",c)}},this);a.on("loadexception",biogps.ajaxfailure,this)},saveas:function(b){var c={layout_name:b||this.layout_name,description:this.description,layout_data:Ext.util.JSON.encode(this.layout_data)};var a=new Ext.data.JsonStore({url:"/layout/add/",baseParams:c,method:"POST",fields:[],autoLoad:true});a.on("load",function(){var e=a.reader.jsonData;if(e.success){this.fireEvent("saved",e)}else{this.fireEvent("savefailed",e)}},this);a.on("loadexception",biogps.ajaxfailure,this)},"delete":function(){var a=new Ext.data.JsonStore({url:"/layout/delete/",baseParams:{layout_id:this.id},method:"POST",fields:[],autoLoad:true});a.on("load",function(b){var c=b.reader.jsonData;if(c.success){this.fireEvent("deleted",this)}else{this.fireEvent("deletefailed",c)}},this);a.on("loadexception",biogps.ajaxfailure,this)},addPlugin:function(a){if(isArray(this.layout_data)){this.layout_data.push({id:a.id})}this.on("saved",function(){this.fireEvent("pluginadded")},this);this.on("savefailed",function(){this.fireEvent("pluginaddfailed")},this);this.save()},quickAddPlugin:function(a){var c=Math.round(Math.random()*225),b=Math.round(Math.random()*400),e={id:a.id,author:a.author,author_url:a.author_url,title:a.title,url:a.url,type:a.type,options:a.options,description:a.description,lastmodified:a.lastmodified,top:c,left:b,width:350*2,height:250};if(isArray(this.layout_data)){this.layout_data.push(e)}this.layout_modified=true;biogps.GeneReportMgr.updateAll()},quickAddPlugin_byID:function(b){var a=new biogps.Plugin({id:b});a.on("load",function(c){this.quickAddPlugin(c)},this);a.on("loadfailed",function(c){biogps.error(String.format('Failed to load plugin by id "{0}".',c))},this);a.load()}});biogps.LayoutMgr=function(a){this.currentLayout=null;this.availableLayouts=null;this.currentLayoutLoaded=false;this.availableLayoutsLoaded=false;this.layoutloading=false;this.layoutchanged=false;this.defaultlayout_for_anonymoususer=83;this.addEvents({currentlayoutloaded:true});this.addEvents({currentlayoutloadingfailed:true});this.addEvents({availablelayoutupdated:true});this.addEvents({layoutloaded:true})};Ext.extend(biogps.LayoutMgr,Ext.util.Observable,{loadLayout:function(b){var a=new biogps.Layout({id:b});a.on("load",function(){this.currentLayout=a;this.currentLayoutLoaded=true;this.fireEvent("currentlayoutloaded")},this);a.on("loadfailed",function(c){this.currentLayoutLoaded=true;this.fireEvent("currentlayoutloaded")},this);this.currentLayoutLoaded=false;a.load(b,true)},loadAvailableLayout:function(){var a=new Ext.data.Store({proxy:new Ext.data.HttpProxy({url:"/layoutlist/all/?userselected=1",method:"GET"}),autoload:true,reader:new Ext.data.JsonReader({id:"pk",root:"items",fields:[{name:"layout_name",mapping:"fields.layout_name",type:"string"},{name:"layout_data",mapping:"fields.layout_data"},{name:"author",mapping:"fields.author",type:"string"},{name:"author_url",mapping:"fields.author_url",type:"string"},{name:"description",mapping:"fields.description",type:"string"},{name:"is_shared",mapping:"fields.is_shared",type:"boolean"},{name:"lastmodified",mapping:"fields.lastmodified",type:"date",dateFormat:"Y-m-d H:i:s"},{name:"created",mapping:"fields.created",type:"date",dateFormat:"Y-m-d H:i:s"}]})});a.setDefaultSort("layout_name","desc");a.on("load",function(b){var f=[];var e;for(var c=0;cback to the Library."})},this)}Ext.getCmp(r).show();var l="btn-"+r;Ext.getCmp(l).addClass("activeBreadcrumb");this.currentItem=r;this.hash_history();this.setSize();this.ownerCt.doLayout(true);this.libDone();return true},libLoading:function(){this.mask.show()},libDone:function(){this.mask.hide()},hash_history:function(){var a="goto=pluginlibrary&t="+this.currentItem;if((this.currentItem=="library-plugin"||this.currentItem=="library-edit")&&this.plugin){a=a+"&p="+this.plugin.id}else{if(this.currentItem=="library-browse"){var b={sort:biogps.pluginStore.lastOptions.params.mysort,start:biogps.pluginStore.lastOptions.params.start,limit:biogps.pluginStore.lastOptions.params.limit,scope:biogps.pluginStore.lastOptions.params.scope,dir:biogps.pluginStore.lastOptions.params.dir};if(biogps.pluginStore.lastOptions.params.search){b.search=biogps.pluginStore.lastOptions.params.search}else{if(biogps.pluginStore.lastOptions.params.tags){b.tags=biogps.pluginStore.lastOptions.params.tags}}a=a+"&"+Ext.urlEncode(b)}}Ext.History.suspendEvents();biogps.centerTab.suspendEvents();Ext.History.add(a,true);biogps.setTitle("pluginlibrary");setTimeout("Ext.History.resumeEvents()",60);biogps.centerTab.resumeEvents()},dispatcher_by_params:function(b){if(b.t){if(b.t=="library-plugin"||b.t=="library-edit"){if(b.p){if(!(this.plugin&&b.p==this.plugin.id)){this.renderPluginById(b.p,"history")}else{this.setActiveItem(b.t,"history")}}}else{if(b.t=="library-browse"){var a={params:{mysort:b.sort,start:parseInt(b.start),limit:parseInt(b.limit),scope:b.scope,dir:b.dir}};if(b.search){a.params.search=b.search}else{if(b.tags){a.params.tags=b.tags}}biogps.pluginStore.load(a);this.setActiveItem(b.t,"history")}else{this.setActiveItem(b.t,"history")}}}else{this.setActiveItem("library-home","history")}},setBrowseTitle:function(b){var a=b+"   »";Ext.getCmp("btn-library-browse").setText(a);Ext.getCmp("library-browse").setTitle(b)},setPluginTitle:function(b){var a=b;Ext.getCmp("btn-library-plugin").setText(a)},setPluginEditTitle:function(b){var a="»   Edit "+b;Ext.getCmp("btn-library-edit").setText(a)},queryPlugins:function(a){if(a){a.cancelBubble=true}var e=Ext.getCmp("library-search").getForm().getValues();var f=e.query.trim();var c=null;if(f&&f!="Search the Plugin Library"){c="all";var b={params:{search:f,scope:c}};biogps.pluginStore.load(b);this.setActiveItem("library-browse","library-home");_gaq.push(["_trackPageview","/pluginlibrary/search/?query="+f])}return false},browsePluginsBy:function(b,c){if(b){var a={params:{mysort:b}};biogps.pluginStore.load(a);this.setActiveItem("library-browse",c);_gaq.push(["_trackPageview","/pluginlibrary/browse/"])}},browsePluginsByTag:function(a,c){if(a){var b={params:{tags:a}};biogps.pluginStore.load(b);this.setActiveItem("library-browse",c);_gaq.push(["_trackPageview","/pluginlibrary/search/?tag="+query])}},sortPluginList:function(c,b){if(c&&b){var a=biogps.pluginStore.lastOptions;a.params.mysort=c;a.params.dir=b;biogps.pluginStore.load(a)}},renderPluginById:function(i,h){var g,c,b,e,a,f;a=f=false;if(i){c=function(){a=true;e.call(this)};b=function(j){f=true;biogps.loadSampleGene({species:(j.options&&j.options.allowedSpecies&&Ext.isArray(j.options.allowedSpecies))?j.options.allowedSpecies[0]:null,callback:c,scope:this})};postPluginLoadFail=function(j){this.libDone();Ext.MessageBox.show({title:"Plugin Not Found",msg:"Oops! This plugin may not exist or you may not have permission to use it.",buttons:Ext.Msg.OK,icon:Ext.MessageBox.ERROR})};e=function(){if(a&&f){this.plugin=g;markup=this.markupPluginTemplate(g,"large");Ext.getCmp("library-plugin").el.update(markup);if(!biogps.usrMgr.is_anonymoususer){var l=new Ext.Button({text:"  Add to my Layout  ",handler:this.showAddToLayoutMenu,applyTo:"plugin-add-to-layout",scale:"medium",cls:"add-to-layout-btn",scope:this});var j=Ext.get("flag-button");j.on("click",function(){g.showFlagAsInappropriateForm(this.el)},this);j.show();if(!g.is_shared){var p=new Ext.Button({text:"Edit this plugin",handler:this.showPluginEditForm.createDelegate(this,[g]),applyTo:"plugin-add-to-layout",scope:this})}}else{note=Ext.get("plugin-add-to-layout");note.insertHtml("beforeEnd","Login to use this plugin in a layout.");note.addClass("login-note")}if(g.type=="div"){var k=g.getPreviewUrl(),n=false;k=k+"&container=library-plugin-preview";if(k.startsWith("http://")){n=k.startsWith("http://plugins.gnf.org/");k="/utils/proxy?url="+k.replace("&","%26");if(this.plugin.options.securityAware){k+="&secure=1"}}else{n=true}Ext.get("library-plugin-preview").load({url:k,scripts:n})}this.setPluginTitle(g.title);this.setActiveItem("library-plugin",h);_gaq.push(["_trackPageview","/pluginlibrary/plugin/"+g.id])}};this.libLoading();g=new biogps.Plugin({id:i});g.on("load",b,this);g.on("loadfailed",postPluginLoadFail,this);g.load()}},markupPluginTemplate:function(h,e){if(h&&e){var c=h.getAllowedSpecies().join(", ");var g="";if(h.tags){var b=new Array();h.tags.split(" ").each(function(i){b.push(""+i+"")});g=b.join(" | ")}else{g="none"}var f={url:this.markHighlight(h.url),previewUrl:h.getPreviewUrl(),id:h.id,title:this.markHighlight(h.title),description:this.markHighlight(h.description),author:this.markHighlight(h.author),author_url:h.author_url,rolepermission:this.plugin.formatPermission(),lastmodified:h.lastmodified,created:h.created,tags:g,allowedspecies:c,usage:h.usage_percent,mobile_url:false,certified_owner:false};if(h.options){if(h.options.mobile_url){f.mobile_url=h.options.mobile_url}if(h.options.certified_owner){f.certified_owner=h.options.certified_owner}}var a=biogps.pluginTpls[e].apply(f);return a}},markHighlight:function(c){var e=["red","blue","green","aqua","purple","fuchsia","black","gray","lime","maroon","navy","olive","silver","teal"];if(this.highlight){var a;for(var b=0;b$1')}}return c},showPluginEditForm:function(c){if(!c){return false}var b=new biogps.PluginEditPanel({id:"pluginmodify_"+c.id.toString(),modifyonly:true});var a=Ext.getCmp("library-edit");a.items.each(function(e){a.remove(e)});a.add(b);b.on("afterlayout",b.fillPluginForm.createDelegate(b,[c]));a.doLayout();this.setPluginEditTitle(c.title);this.setActiveItem("library-edit","library-plugin");_gaq.push(["_trackPageview","/pluginlibrary/edit/"+c.id])},showAddToLayoutMenu:function(c,a){a.stopEvent();this.layoutmenu=null;if(!this.layoutmenu){this.layoutmenu=new Ext.menu.Menu({items:[{text:"New layout",layout:null,plugindata:this.plugin,group:"selectedlayout",handler:this.onAddToNewLayout,scope:this},"-"]});for(var b=0;bTemplate Syntax Explained

You need to supply the URL to the website you want to add as a plugin, including one (or more) keywords. When you then use your plugin in a layout, the appropriate identifier for your gene of interest will be substituted in.


For example, to make a simple Google search plugin, you would type in the URL below, then click the "Add Keyword" button and select whichever identifier you want.
http://www.google.com/search?q=


Once you have picked an identifier, the URL template will then look like this:
http://www.google.com/search?q={{Symbol}}


When the plugin is then used in a layout to look at a gene, BioGPS will automatically insert the correct value. For example, if you used the UniGene ID keyword and the user is looking at CDK2, the actual URL that will load would be this:
http://www.google.com/search?q=Hs.19192


If you want to test your URL template before saving, just hit the "Preview" button at the bottom of this page.

'}}]},{xtype:"fieldset",cls:"roundBox",autoHeight:true,defaults:{anchor:"90%"},defaultType:"textfield",items:[{fieldLabel:"Description",xtype:"textarea",id:this.id+"_field_description",name:"description",autoHeight:false,height:75,value:"",grow:false,allowBlank:true},{fieldLabel:"Tags (categories)",id:this.id+"_field_tags",name:"tags",allowBlank:true},{xtype:"box",autoEl:{tag:"div",cls:"details",html:'Enter words to help categorize your plugin. Separate them with a single space.
Example: "exon structure gene" will make your plugin show up in each of those three categories.'}},{xtype:"checkboxgroup",name:"allowedspeciesGroup",fieldLabel:"Species allowed:",labelSeparator:"",listeners:{change:function(b){this.hideSpeciesMsgTip()},scope:this},columns:biogps.AVAILABLE_SPECIES.walk(function(b){return 80}),items:biogps.AVAILABLE_SPECIES.walk(function(b){return{name:"allowedspecies",inputValue:b,boxLabel:b.capitalize(),checked:true}})},{xtype:"radiogroup",name:"rolepermission",fieldLabel:"Visible to:",allowBlank:false,labelSeparator:"",hidden:false,disabled:false,columns:biogps.usrMgr.is_gnf_user?[100,120,70,125,100]:[100,100,10,10,100],height:30,listeners:{render:function(b){if(!biogps.usrMgr.can_share&&!biogps.usrMgr.is_anonymoususer){biogps.whydisabled(b,'You need to provide us your full name and affiliation information before you can share your plugin with others. Click here to edit your account information.')}}},items:[{inputValue:"biogpsusers",name:"rolepermission",boxLabel:"Everyone",checked:biogps.usrMgr.can_share},{inputValue:"friendusers",name:"rolepermission",boxLabel:"Only Friends"},{inputValue:"gnfusers",hidden:!biogps.usrMgr.is_gnf_user,disabled:!biogps.usrMgr.is_gnf_user,hideParent:true,name:"rolepermission",boxLabel:"GNF"},{inputValue:"novartisusers",hidden:!biogps.usrMgr.is_gnf_user,disabled:!biogps.usrMgr.is_gnf_user,hideParent:true,name:"rolepermission",boxLabel:"Novartis & GNF"},{inputValue:"myself",boxLabel:"Only Me",name:"rolepermission",checked:!biogps.usrMgr.can_share}]}]}],buttons:[{text:this.modifyonly?"Save Edits":"Save New",handler:this.doSavePlugin,style:"font-weight: bold",scope:this},{text:"Cancel",handler:this.cancelEdit,hidden:!this.modifyonly,scope:this},{text:"Preview",handler:this.previewPlugin,scope:this},{text:"Clear",handler:this.doClearForm,hidden:this.modifyonly,scope:this},{text:"Delete",hidden:!this.modifyonly,handler:this.deletePlugin,scope:this}]});this.on("afterlayout",function(){this.addScreencastLink()},this)};Ext.extend(biogps.PluginEditPanel,Ext.FormPanel,{addURLHelp:function(b){if(!this.urlhelp){var e=b.container;var a=e.createChild({tag:"div",cls:"keyword-btn"});this.keywordmenu=new Ext.menu.Menu({cls:"no-icon-menu"});this.keywordmenu.add('Available keywords:');for(var c=0;c "Allowed species" has been changed based on the keyword used in URL template.');return true}}this.hideSpeciesMsgTip();return false},showSpeciesMsgTip:function(a){var c=this.form.findField("allowedspeciesGroup");var b=c.items.get(c.items.length-1).getEl().parent();if(!this.species_msgtip){this.species_msgtip=new Ext.ToolTip({anchor:"left",anchorOffset:0,renderTo:c.getEl(),html:a,maxWidth:230,anchorToTarget:true,dismissDelay:0,autoHide:false});this.species_msgtip.showAt(this.species_msgtip.el.getAlignToXY(b,"l-tr",[20,-5]))}else{if(this.species_msgtip.hidden){this.species_msgtip.show()}this.species_msgtip.body.update(a);this.species_msgtip.doAutoWidth()}},hideSpeciesMsgTip:function(){if(this.species_msgtip){this.species_msgtip.hide();delete this.species_msgtip}},cancelEdit:function(b,a){if(this.modifyonly&&this.form.isDirty()){Ext.MessageBox.confirm("Confirm","Cancel modification? Unsaved changes will be discarded.",function(c){if(c=="yes"){biogps.currentLibrary.setActiveItem("library-plugin","library-edit");_gaq.push(["_trackPageview","/pluginlibrary/edit/cancel/"])}},this)}else{biogps.currentLibrary.setActiveItem("library-plugin","library-edit")}},previewPlugin:function(){var a=new biogps.Plugin(this.form.getValues());if(a.allowedspecies){if(isArray(a.allowedspecies)){a.options.allowedSpecies=a.allowedspecies}else{a.options.allowedSpecies=[a.allowedspecies]}}biogps.loadSampleGene({species:a.options.allowedSpecies.length>0?a.options.allowedSpecies[0]:null,callback:function(){if(!a.geturl(biogps.sample_gene)){Ext.MessageBox.show({title:"Error",msg:"Can not interpret the URL template. Please make sure the substitutable keyword is correct.",buttons:Ext.Msg.OK,icon:Ext.MessageBox.ERROR})}else{a.render_preview(biogps.sample_gene,Ext.get("pluginboxcontainer"))}},scope:this})},doSavePlugin:function(){if(this.modifyonly){Ext.MessageBox.confirm("Confirm",String.format('Update plugin "{0}"?',this.form.getValues().title),function(a){if(a=="yes"){this.submitPluginForm()}},this)}else{this.submitPluginForm()}},handleDupPluginAtSave:function(e){if(e&&e.length>0){var c,b;var a="


";e.each(function(f){a+=''+f.text+"
"});a+="

";if(e.length==1){c="Duplicated plugin found";b="We detected that there is an existing plugin with exactly the same URL template as you provided. You can click the link below to view this existing plugin: "+a+'


Click "Yes" to save it anyway, or "No" to cancel the saving.

'}else{c="Duplicated plugins found";b="We detected that there are "+e.length.toString()+" existing plugins with exactly the same URL template as you provided. You can click the links below to view the existing plugins: "+a+'


Click "Yes" to save it anyway, or "No" to cancel the saving.

'}Ext.Msg.confirm(c,b,function(f){if(f=="yes"){this.submitPluginForm({allowdup:true})}},this)}},submitPluginForm:function(a){var e=this.form;if(!e.isValid()){Ext.MessageBox.show({title:"Error",msg:"Wrong input! Correct and try again.",buttons:Ext.Msg.OK,icon:Ext.MessageBox.ERROR});e.reset()}else{if(this.modifyonly&&!this.current_pluginid){Ext.MessageBox.show({title:"Error",msg:"Missing plugin id for updating this plugin! Reload this plugin and try again.",buttons:Ext.Msg.OK,icon:Ext.MessageBox.ERROR})}else{var f=new biogps.Plugin(e.getValues());var c=f.validateUrl();if(c==true){this.toggleSpeciesBasedOnKeyword(f.url);e.getEl().mask(this.modifyonly?"Save your modification...":"Submit your new plugin...");var b={};if(this.modifyonly){Ext.apply(b,{plugin_id:this.current_pluginid})}if(a&&a.allowdup){Ext.apply(b,{allowdup:"1"})}e.submit({url:this.modifyonly?"/plugin/update/":"/plugin/add/",method:"POST",params:b,success:function(i,j){i.getEl().unmask();i.getEl().mask(this.modifyonly?"Your plugin was updated!":"Your plugin was saved!");_gaq.push(["_trackPageview","/pluginlibrary/edit/save/"]);setTimeout(function(){i.getEl().unmask()},1000);if(!this.modifyonly&&!this.current_pluginid){this.current_pluginid=j.result.plugin_id;i.reset()}var h=this.modifyonly?"library-edit":"library-add";biogps.currentLibrary.renderPluginById(this.current_pluginid,h)},failure:function(h,i){h.getEl().unmask();if(i.result.dup_plugins){this.handleDupPluginAtSave(i.result.dup_plugins)}else{biogps.formfailure(i,this.modifyonly?'"updatePlugin" service failed!':'"addPlugin" service failed!')}},scope:this})}else{var g="Invalid URL template. ";if(Ext.isString(c)){g+=c}else{g+="Please make sure the substitutable keyword is correct."}Ext.MessageBox.show({title:"Error",msg:g,buttons:Ext.Msg.OK,icon:Ext.MessageBox.ERROR})}}}},doClearForm:function(){if(this.modifyonly){Ext.MessageBox.confirm("Confirm",String.format('Clear all values for plugin "{0}"?',this.form.getValues().title),function(a){if(a=="yes"){this.form.reset()}},this)}else{this.form.reset()}},setSpeciesGroup:function(c){var b=this.form.findField("allowedspeciesGroup");var a=[];b.eachItem(function(e){a.push(c.indexOf(e.inputValue)!=-1)});b.setValue(a)},fillPluginForm:function(c){var b=this.form;b.setValues({url:c.url,title:c.title,description:c.description,tags:c.tags,rolepermission:c.formatPermission()});var a=c.getAllowedSpecies();this.setSpeciesGroup(a);this.current_pluginid=c.id},deletePlugin:function(){if(!this.modifyonly){return false}var c=this.current_pluginid;var b=this.form.getValues().title;biogps.callRemoteService({url:"/plugin/"+c+"/usage/",scope:this,fn:function(f){var e=f.reader.jsonData;var g=String.format('Are you SURE you want to delete the "{0}" plugin?
This action CANNOT be undone!',b);if(e[0]>0||e[1]>0){g+=String.format("

Usage info: this plugin is currently used in [{0}] of your own layouts and [{1}] of others'.",e[0],e[1])}else{g+="

Usage info: this plugin is currently not used in any layout."}Ext.MessageBox.confirm("Confirm",g,function(h){if(h=="yes"){a(this)}},this)}});function a(f){var e=new Ext.data.JsonStore({url:"/plugin/delete/",baseParams:{plugin_id:c},method:"POST",fields:[],autoLoad:true});f.body.mask(String.format('Delete plugin "{0}"...',b));e.on("load",function(g){var h=g.reader.jsonData;if(h.success){f.body.unmask();f.body.mask("You plugin was deleted!");_gaq.push(["_trackPageview","/pluginlibrary/edit/delete/"]);setTimeout(function(){f.body.unmask();biogps.currentLibrary.setActiveItem("library-home","delete")},1500)}else{f.body.unmask();Ext.MessageBox.show({title:"Error",msg:h.error?h.error:"",buttons:Ext.Msg.OK,icon:Ext.MessageBox.ERROR})}},f);e.on("loadexception",biogps.ajaxfailure,f)}}});function initLibrary(f){var e=Ext.getCmp("pluginbrowse_panel");biogps.pluginStore=new biogps.pluginJsonStore({url:"/plugin/",method:"GET",root:"items",totalProperty:"totalCount",id:"pk",fields:[],listeners:{beforeload:{scope:this,fn:function(l,j){biogps.currentLibrary.body.mask("Loading...");biogps.currentLibrary.setBrowseTitle("Loading");if(!j.params.start){j.params.start=0}if(!j.params.limit){j.params.limit=50}if(!j.params.scope){j.params.scope="all"}if(!j.params.dir){j.params.dir="DESC"}if(!j.params.mysort){if(biogps.currentLibrary.sortCombo&&biogps.currentLibrary.sortCombo.getValue()){j.params.mysort=biogps.currentLibrary.sortCombo.getValue();var k=biogps.currentLibrary.sortCombo.store.query("sortby",j.params.mysort);j.params.dir=k.items[0].data.direction}else{j.params.mysort="popularity"}}}},load:{scope:this,fn:function(k){biogps.currentLibrary.body.unmask();if(k.getTotalCount()===1){var j=k.getAt(0);biogps.currentLibrary.renderPluginById(j.id,"library-home")}else{var n=k.lastOptions.params;var l="";if(n.tags){l="plugins tagged with '"+n.tags+"'"}else{if(n.search){l="results for '"+n.search+"'"}else{l="Plugins"}}if(n.mysort=="created"){l="Newest "+l}else{if(n.mysort=="lastmodified"){l="Recently Updated "+l}else{if(n.mysort=="popularity"){l="Most Popular "+l}else{if(n.mysort=="title"){l="Alphabetical "+l}else{if(n.mysort=="author"){l="By Author "+l}}}}}biogps.currentLibrary.setBrowseTitle(l);Ext.getCmp("library-browse-sort").setValue(n.mysort);biogps.currentLibrary.hash_history()}}}}});biogps.pluginTpls=new Array();var i=new Ext.XTemplate('','','{title}
','{[shortUrl(values.url)]}',"",{isGNF:function(j){return(j.R[0]==="GNF Users")?"gnfusers":""}});biogps.pluginTpls.small=i.compile();var c=new Ext.XTemplate('','",'Registered by {author}','{title}
','','Layout Popularity: {values.usage_percent.layouts:round(0)}',"",'

{description}

','

{[colorShortUrl(values.url)]}

',"",{isGNF:function(j){return(j.R[0]==="GNF Users")?"gnfusers":""}});biogps.pluginTpls.medium=c.compile();var h=new Ext.XTemplate('
','
','
','',"
","

Preview of CDK2 gene data

","
",'','',"","

{title}

",'','

Maintained by {author}, Certified Owner

',"",'','

Registered by {author}

',"",'','

Layout Popularity:'," {values.usage.layouts:round(0)}

","",'

Tags (keywords): '," {tags}

",'

Species: '," {allowedspecies}

",'

{[colorShortUrl(values.url)]}

','','

Mobile: {[colorShortUrl(values.mobile_url)]}

',"",'
','
','
',"
",'
',"

Long Description

",'

{description}

','

Updated {lastmodified}
Created {created}

','
',"
",'
','","
");biogps.pluginTpls.large=h.compile();var b=new biogps.PluginLibrary({id:"pluginlibrary_card",layout:"anchor",autoScroll:true,bodyStyle:"padding:5px",border:false,defaults:{border:false},tbar:[{id:"btn-library-home",text:"Library   »",cls:"activeBreadcrumb",handler:navHandler.createDelegate(this,["home"])},{id:"btn-library-browse",text:"Browse »",handler:navHandler.createDelegate(this,["browse"]),hidden:true},{id:"btn-library-plugin",text:"Plugin",handler:navHandler.createDelegate(this,["plugin"]),hidden:true},{id:"btn-library-edit",text:"Edit Plugin",handler:navHandler.createDelegate(this,["edit"]),hidden:true},"->",{id:"btn-library-add",text:"Add a Plugin",handler:navHandler.createDelegate(this,["add"])}],items:[{id:"library-header",contentEl:"pluginheader"},{id:"library-search",xtype:"form",baseCls:"x-window",cls:"x-window-plain x-window-dlg",frame:true,title:" ",onSubmit:Ext.emptyFn,keys:{key:13,stopEvent:true,fn:function(){biogps.currentLibrary.queryPlugins()}},items:[{xtype:"panel",layout:"column",border:false,items:[{xtype:"textfield",name:"query",cls:"search_field",id:"plugin_query",emptyText:"Search the Plugin Library",columnWidth:1},{xtype:"panel",border:false,width:75,items:[{xtype:"button",type:"submit",text:"SEARCH",cls:"right",handler:function(){biogps.currentLibrary.queryPlugins()}}]}]},{id:"library-search-advanced",xtype:"panel",title:"Advanced",collapsed:true,collapsible:true,titleCollapse:true,hideCollapseTool:true,baseCls:"form-group",items:[{xtype:"checkbox",id:"scope_my",boxLabel:"My Plugins",checked:true},{xtype:"checkbox",id:"scope_shared",boxLabel:"Shared Plugins",checked:true}]}]},{id:"library-add",hidden:true,height:650,items:new biogps.PluginEditPanel({id:"pluginadd",pluginbox:this,modifyonly:false})},{id:"library-home",contentEl:"pluginhome"},{id:"library-browse",title:"Browse",hidden:true,items:new Ext.DataView({tpl:biogps.pluginTpls.medium,store:biogps.pluginStore,itemSelector:"div.plugindetails"})},{id:"library-plugin",contentEl:"pluginpage",hidden:true},{id:"library-edit",hidden:true,items:[{html:""}]}],bbar:new Ext.PagingToolbar({id:"library-browse-nav",store:biogps.pluginStore,autoHeight:true,pageSize:50,displayInfo:true,displayMsg:"Plugins {0} - {1} of {2}",emptyMsg:"No plugins to display",hidden:true})});e.add(b);e.doLayout();biogps.centerTab.body.unmask();var g=new Ext.data.ArrayStore({fields:["sortby","direction","sortbyName"],data:[["popularity","DESC","Most Popular"],["created","DESC","Newest first"],["lastmodified","DESC","Recently Updated"],["title","ASC","Plugin Name"],["author","ASC","Author"]]});var a=new Ext.form.ComboBox({id:"library-browse-sort",store:g,valueField:"sortby",displayField:"sortbyName",mode:"local",editable:false,triggerAction:"all",width:125,listWidth:125,listeners:{select:function(l,k,j){biogps.currentLibrary.sortPluginList(k.data.sortby,k.data.direction)}}});Ext.getCmp("library-browse-nav").add(a);biogps.currentLibrary.sortCombo=a;Ext.getCmp("library-search-advanced").hide();if(f){biogps.currentLibrary.dispatcher_by_params(f)}else{biogps.currentLibrary.hash_history();biogps.currentLibrary.mask.hide();_gaq.push(["_trackPageview","/pluginlibrary/"])}}var navHandler=function(b){var a="library-"+b;biogps.currentLibrary.setActiveItem(a,"breadcrumb")};var shortUrl=function(a){var b=a.replace(/.*\:\/\//,"").replace(/\/.*/,"");if(b==""){b="biogps.gnf.org"}return b};var colorShortUrl=function(a){var c=a.split("://");if(c.length==1){c[1]="biogps.gnf.org"+c[0];c[0]="http"}var b=c[1].split("/");b[0]=b[0]+"";return c[0]+'://'+b.join("/")};function disableEnterKey(b){var a;if(window.event){a=window.event.keyCode}else{a=b.which}if(a==13){return false}else{return true}}biogps.PluginQuickAdd=function(a){this.grp=null;Ext.apply(this,a);this.pluginStore=new biogps.pluginJsonStore({url:"/plugin/",method:"GET",root:"items",totalProperty:"totalCount",id:"pk",fields:[],listeners:{beforeload:{scope:this,fn:function(c,b){if(!b.params.scope){b.params.scope="all"}if(!b.params.dir){b.params.dir="DESC"}if(!b.params.mysort){b.params.mysort="popularity"}}}}});this.pluginTpl=new Ext.XTemplate('','
','{title}
','','Layout Popularity: {values.usage_percent.layouts:round(0)}',"",'Details','

{[shortUrl(values.url)]}

',"
");biogps.PluginQuickAdd.superclass.constructor.call(this,{emptyText:"Add a Plugin",loadingText:"Searching...",store:this.pluginStore,tpl:this.pluginTpl,pageSize:5,minChars:0,lazyInit:false,displayField:"title",queryParam:"search",listAlign:"tr-br?",listWidth:250,width:100,onSelect:function(b){this.collapse();this.grp.grlayout.quickAddPlugin(b)}})};Ext.extend(biogps.PluginQuickAdd,Ext.form.ComboBox,{});biogps.renderMyStuffPanel=function(a){var c=Ext.getCmp("center_panel");var g="mystuff_panel";var b=c.getItem(g);var f=false;if(!b){b=c.add({title:"My Stuff",id:g,closable:true,layout:"fit",autoScroll:true});var e=function(){if(Ext.get(g)){biogps.renderMyStuffPanel(a=true)}};biogps.usrMgr.linkWithAuthentication(e);b.on("destroy",function(){biogps.usrMgr.unlinkWithAuthentication(e)});f=true}c.setActiveTab(b);if(f||a){b.load({url:"/mystuff/",scripts:true,nocache:true,callback:function(j,k,h,i){if(k){if(onPanelLoad){onPanelLoad()}}else{biogps.ajaxfailure(null,h)}}})}};biogps.renderSearchForm=function(f){var c=Ext.get(f);c.createChild({tag:"h2",html:"Search genes by:"});var a=new Ext.data.SimpleStore({fields:["unit","factor"],data:[["bp",1],["Kb",1000],["Mb",1000000]]});biogps.searchform=new Ext.FormPanel({id:"searchform",border:false,width:475,labelWidth:120,style:"padding:15px 0 5px 15px",items:[{xtype:"tabpanel",id:"searchformtab",activeTab:0,plain:true,border:true,deferredRender:false,defaults:{autoHeight:true,bodyStyle:"padding:10px",border:Ext.isIE6?true:false},listeners:{tabchange:{fn:b,scope:this},render:function(h){var g=new Ext.KeyMap(h.getEl(),{key:13,ctrl:true,stopEvent:true,fn:function(){biogps.doSearch()},scope:this})}},items:[{title:"Annotation",layout:"form",id:"searchbyanno",defaultType:"textfield",items:[{xtype:"radio",boxLabel:"Symbol Or Accession",checked:true,name:"qtype",inputValue:"symbolanno",fieldLabel:"Type"},{xtype:"radio",boxLabel:"Keyword",name:"qtype",inputValue:"keyword",labelSeparator:""},{xtype:"textarea",height:187,width:300,fieldLabel:"Query",name:"query",style:"overflow:auto",id:"query",value:""},{xtype:"label",html:"Try some sample queries? Click these links:

"}]},{title:"Genome Interval",layout:"form",id:"searchbyinterval",items:[{xtype:"textfield",layout:"form",fieldLabel:"Enter a string",id:"genomeinternal_string",name:"genomeinternal_string",listeners:{render:function(g){if(g.container){g.container.createChild({tag:"p",html:"example: chrX:151,073,054-151,383,976"})}}},width:300,regex:new RegExp("^s*(chr.+)s*:s*([0-9,]+)s*-s*([0-9,]+)s*$","i"),regexText:'Invalid format! Should be something like "chrX:151,073,054-151,383,976" (case-insensitive).'},{html:'

',border:false,labelSeparator:""},{xtype:"textfield",fieldLabel:"     chr",name:"genomeinterval_chr",width:50,maxLength:10},{xtype:"textfield",fieldLabel:"     start",name:"genomeinterval_start",width:100,regex:new RegExp("^[,0-9]+$"),regexText:"Invalid format! Should be number only."},{xtype:"textfield",fieldLabel:"     end",name:"genomeinterval_end",width:100,regex:new RegExp("^[,0-9]+$"),regexText:"Invalid format! Should be number only."},{xtype:"combo",fieldLabel:"     unit",labelAlign:"left",store:a,width:50,displayField:"unit",name:"genomeinterval_unit",value:"Mb",typeAhead:false,mode:"local",triggerAction:"all",editable:false,forceSelection:true,selectOnFocus:true},{xtype:"radio",boxLabel:"Human (hg19)",id:"genome1",name:"genomeassembly",inputValue:"human",fieldLabel:"Genome Assembly"},{xtype:"radio",boxLabel:"Mouse (mm9)",checked:true,id:"genome2",name:"genomeassembly",inputValue:"mouse",labelSeparator:""},{xtype:"radio",boxLabel:"Rat (rn4)",id:"genome3",name:"genomeassembly",inputValue:"rat",labelSeparator:""},{xtype:"radio",boxLabel:"Drosophila (dm3)",id:"genome4",name:"genomeassembly",inputValue:"drosophila",labelSeparator:""}]}]}],buttons:[{text:"Search",type:"submit",handler:function(){biogps.doSearch()}},{text:"Reset",type:"reset",handler:function(){biogps.searchform.getForm().reset()}}]});biogps.searchform.getForm().on("beforeaction",function(){_gaq.push(["_trackPageview","/search"]);_gaq.push(["_trackEvent","BioGPS","Search"])});var e=new Ext.Panel({layout:"column",height:"100%",border:false,renderTo:c,items:[biogps.searchform,{id:"col_info",plain:true,border:false,bodyStyle:"padding:35px 0 25px 35px"}]});function b(h,g){if(g.title=="Genome Interval"){if(!g.hintenabled_2){Ext.QuickTips.register({target:Ext.get("genomeinternal_string"),text:'example "chrX:151,073,054-151,383,976"',title:"Hint"});Ext.QuickTips.enable();g.hintenabled_2=true}Ext.getCmp("genomeinternal_string").focus()}else{if(!g.hintenabled_1){Ext.QuickTips.register({target:Ext.get("query"),text:'For Symbol or accession searches, query terms can be separated by a space or a newline.
For Keyword searches, query terms on a single line are interpreted as a phrase.
Wildcards: "?" substitutes for a single character, "*" substitutes for any number of characters.',title:"Hint"});Ext.QuickTips.enable();g.hintenabled_1=true}if(!coreDispatcher.showWelcome){Ext.getCmp("query").focus()}}}};biogps.doSearch=function(a){if(biogps.resultpage&&biogps.resultpage.genelistrendered){biogps.resultpage.genelistrendered=false}var c=biogps.searchform;var f;if(a){c.form.setValues(a);f=a.target;if(a.searchby){c.items.get(0).setActiveTab(a.searchby)}}var b=c.items.get(0).getActiveTab().id;setFocus=function(){if(f){var g=Ext.get(f);if(g){g.focus()}}else{if(b=="searchbyanno"){Ext.getCmp("query").focus()}else{Ext.getCmp("genomeinternal_string").focus()}}};if(!c.getForm().isValid()){Ext.MessageBox.show({title:"Error",msg:"Wrong input! Correct and try again.",buttons:Ext.Msg.OK,fn:setFocus,icon:Ext.MessageBox.ERROR})}else{if(b=="searchbyanno"){var e=c.getForm().getValues().query.trim();if(e==""){c.getForm().setValues({query:""});return}else{if(e.length>biogps.MAX_QUERY_LENGTH){Ext.MessageBox.show({title:"Error",msg:String.format("Your query is too large (>{0}k characters). Modify your query and try again.",biogps.MAX_QUERY_LENGTH/1000),buttons:Ext.Msg.OK,fn:setFocus,icon:Ext.MessageBox.ERROR});return}}}c.getForm().submit({url:"/boc/",waitMsg:"Searching database...",method:"POST",timeout:120,params:{searchby:b},success:function(g,h){Ext.MessageBox.hide();if(h.result.data.geneList&&h.result.data.geneList.length==0){Ext.MessageBox.show({title:"Not found",msg:"Your query does not return any record. Try again.",buttons:Ext.Msg.OK,fn:setFocus,icon:Ext.MessageBox.WARNING})}else{biogps.genelist_panel.loadGeneList(h.result.data);biogps.renderSearchResult("resultpanel","center_panel",h.result.data)}},failure:function(g,h){biogps.formfailure(h,"Searching database failed!")}})}};biogps.setSampleQuery=function(a){if(biogps.searchform){biogps.searchform.form.setValues(a)}};biogps.renderTipBox=function(a){if(isArray(biogps.tip_array)&&biogps.tip_array.length>0){var b=Ext.fly(a).createChild({tag:"div",id:"tipbox_container",style:"padding:35px 5px 25px 5px;"});if(!Ext.state.Manager.get("hideTipBox")){var c=new biogps.TipBox({id:"tipbox"});c.render(b)}else{biogps.makeShowTipBoxLink(b)}}};biogps.makeShowTipBoxLink=function(a){var b=a.createChild({tag:"div",style:"padding:4px 0px 0px 5px"});b.update(' Tip of the Day: ');var c=b.createChild({tag:"a",href:"#",style:"font: 8pt Tahoma;",html:"[show]"});c.on("click",function(h,g){h.stopEvent();Ext.state.Manager.clear("hideTipBox");var i=new biogps.TipBox({id:"tipbox"});var f=Ext.fly("tipbox_container");f.dom.innerHtml="";while(f.first()){f.first().remove()}i.render(f)},this)};biogps.TipBox=function(a){this.id="";Ext.apply(this,a);biogps.TipBox.superclass.constructor.call(this,{width:300,bodyStyle:"padding:5px 5px 5px 15px",html:"",tbar:new Ext.Toolbar({style:"background:#ffffff;",items:[" ",''," ","Tip of the Day:","->",{text:"prev",handler:this.prevTip,scope:this}," ","|"," ",{text:"next",handler:this.nextTip,scope:this}," ",{text:"close",handler:this.closeBox,scope:this}]})});this.current_idx=Math.floor(Math.random()*1000%biogps.tip_array.length);this.on("render",function(){this.el.fadeIn({duration:1});this.showTip()},this)};Ext.extend(biogps.TipBox,Ext.Panel,{showTip:function(){this.body.update(String.format("{0}",biogps.tip_array[this.current_idx]))},nextTip:function(){this.current_idx=this.current_idx+1;if(this.current_idx>biogps.tip_array.length-1){this.current_idx=0}this.showTip()},prevTip:function(){this.current_idx=this.current_idx-1;if(this.current_idx<0){this.current_idx=biogps.tip_array.length-1}this.showTip()},closeBox:function(){if(this.el){this.el.fadeOut({duration:1,callback:function(){this.destroy();Ext.fly("tipbox_container").dom.innerHtml="";biogps.makeShowTipBoxLink(Ext.fly("tipbox_container"));Ext.state.Manager.set("hideTipBox",true)},scope:this})}}});biogps.renderFeedBox=function(b){var a=Ext.fly(b).createChild({tag:"div",style:"padding:5px 0px 0px 5px"});a.setSize(305,"auto");var c=new Ext.Panel();c.on("render",function(e){e.load({url:"/utils/feedbox/",scripts:true})});c.render(a)};NodeMouseEventPlugin=Ext.extend(Object,{init:function(a){if(!a.rendered){a.on("render",function(){this.init(a)},this);return}this.tree=a;a.body.on("mouseover",this.onTreeMouseover,this,{delegate:"li.x-tree-node"})},onTreeMouseover:function(c,b,g){var a=Ext.fly(b).down("div.x-tree-node-el");if(a){var f=a.getAttribute("tree-node-id","ext");if(f){this.tree.fireEvent("mouseover",this.tree.getNodeById(f),c)}}}});biogps.ListPanelBase=function(a){this.ibar=[];var b={border:false,split:true,width:225,minSize:175,maxSize:400,rootVisible:false,lines:true,baseAtrchecked:true,collapseFirst:false,plugins:new NodeMouseEventPlugin()};Ext.apply(this,b);Ext.apply(this,a);biogps.ListPanelBase.superclass.constructor.call(this);this.on("mouseover",function(e,c){if(e.isLeaf()){this.toggleNodeInlineToolBar(e)}c.stopEvent();return false},this);this.getSelectionModel().on("beforeselect",function(e,c){return c.isLeaf()},this);this.on("checkchange",function(e,c){if(!e.isLeaf()&&e.parentNode==this.root&&e.childNodes.length>0){e.childNodes.each(function(f){f.ui.toggleCheck(c)})}},this)};Ext.extend(biogps.ListPanelBase,Ext.tree.TreePanel,{afterRender:function(){biogps.ListPanelBase.superclass.afterRender.call(this);this.el.on("contextmenu",function(a){a.preventDefault()})},toggleNodeInlineToolBar:function(b){if(b){var c=b.ui.getAnchor();var a=Ext.get(c.parentNode);c=Ext.get(c);var e=(a.last().id==b.id+"_ibar")?a.last():null;if(!e){e=a.createChild({tag:"div",id:b.id+"_ibar",cls:"node-inline-toolbar"});this.ibar.each(function(f){var g=e.createChild({tag:"button",cls:"node-inline-btn "+f.iconCls});g.on("click",function(h){f.fn.call(f.scope,b)},this,{stopPropagation:true,stopEvent:true,preventDefault:true})},this)}}},removeNode:function(b,c){var a;if(b.id){a=b}else{a=this.getNodeById(b)}if(a){a.unselect();if(!c){Ext.fly(a.ui.elNode).ghost("l",{callback:function(){this.remove()},scope:a,duration:0.4})}else{a.remove()}}}});biogps.GeneListPanel=function(){biogps.GeneListPanel.superclass.constructor.call(this,{id:"genelist-tree",region:"center",lines:false,root:new Ext.tree.TreeNode("GeneList Viewer"),tbar:[{iconCls:"icon-showreport",text:"View",handler:function(){this.showGeneReport()},tooltip:"View Gene Report",scope:this},{iconCls:"icon-undo",text:"Undo",handler:this.loadLastGeneList,tooltip:"Load last gene list",scope:this},{text:"Save",iconCls:"icon-save",id:"genelist_save_btn",handler:this.saveGeneSet,tooltip:"Save selected genes",disabled:true,scope:this}],ibar:[{iconCls:"icon-remove-small",fn:function(a){this.removeNode(a)},scope:this}]});this.createRoot();this.on({beforeremove:function(){this.last_geneList=this.getCurrentGeneList()},remove:function(){this.updateRoot()},scope:this});this.addEvents({geneclicked:true});this.on("click",function(b,a){if(b.isLeaf()){this.fireEvent("geneclicked",b.attributes)}},this);biogps.usrMgr.linkWithAuthentication(this.init,this)};Ext.extend(biogps.GeneListPanel,biogps.ListPanelBase,{init:function(){if(biogps.usrMgr.is_anonymoususer){this.getTopToolbar().items.get("genelist_save_btn").disable()}else{this.getTopToolbar().items.get("genelist_save_btn").enable()}},createRoot:function(){this.genelist_node=this.root.appendChild(new Ext.tree.TreeNode({text:"All Genes",cls:"node-root-el",checked:false,expanded:true}))},getCurrentGeneList:function(){var c=[];var a=this.genelist_node.childNodes;if(a.length>0){for(var b=0;b"+a.name,id:a.id});var c=new Ext.tree.TreeNode(a);this.genelist_node.appendChild(c);if(!b){if(!f){Ext.fly(c.ui.elNode).slideIn("l",{callback:c.select,scope:c,duration:0.4})}else{c.select()}}return c},mergeGeneList:function(e,c){var b=e.concat(c).sort(function(g,f){return g.symbol>f.symbol});for(var a=1;aa){biogps.warning(String.format("At most {0} genes can be loaded at left-side panel. {1} extra genes are excluded.",a,e.length-a))}this.removeAll();for(var b=0;b0){this.loadGeneList({geneList:this.last_geneList})}},loadFromGeneIDList:function(b){var a=new Ext.LoadMask(this.ownerCt.getEl(),{msg:"Loading gene list..."});a.show();biogps.callRemoteService({url:"/service/getgenelist/",params:{genelist:b.join(",")},method:"POST",timeout:90000,fn:function(e){var c=e.reader.jsonData;this.loadGeneList(c);a.hide();a.destroy()},scope:this})},getSelectedGenes:function(){var a=[];this.genelist_node.eachChild(function(b){if(b.ui.checkbox.checked){a.push(b.id)}});return a},showGeneReport:function(b){if(b&&b.id){var a=[b.id]}else{var a=this.getSelectedGenes()}_gaq.push(["_trackEvent","BioGPS","GR_by_view_btn",a.length+""]);if(a.length==0){biogps.error("You did not select any gene. Please select and try again.")}else{if(a.length>10){biogps.error("You can only render at most 10 gene reports at one time. Please select fewer genes and try again.")}else{biogps.renderGeneReport2(a)}}},saveGeneSet:function(){var a=this.getSelectedGenes();biogps.GeneSetMgr.saveGeneSet(a,this.tbar)}});biogps.GeneSetMgr=function(a){this.id="";Ext.apply(this,a);biogps.GeneSetMgr.superclass.constructor.call(this);this.addEvents({genesetsaved:true});this.on("genesetsaved",function(){biogps.geneset_panel.load()})};Ext.extend(biogps.GeneSetMgr,Ext.util.Observable,{doGenesetSave:function(b){if(!(biogps.genesetsavewin&&biogps.genesetsavewin.el.parent())){return}var c,g;var h="POST";switch(b.mode){case"new":var a=b.geneList;c="/geneset/";g={data:Ext.util.JSON.encode(a)};break;case"union":var e=b.genesetid;c="/geneset/union/";g={genesetid:e};break;case"intersection":var e=b.genesetid;c="/geneset/intersection/";g={genesetid:e};break;case"update":var f=b.geneset;c="/geneset/"+f.genesetid+"/";h="PUT";break;default:return}if(!(Ext.getCmp("genesetsaveform_name").isValid())){biogps.error("Missing or wrong input gene list name! Correct and try again.");Ext.getCmp("genesetsaveform").form.reset()}else{biogps.genesetsavewin.body.mask("Saving gene list...");Ext.getCmp("genesetsaveform").getForm().submit({url:c,params:g,method:h,scope:this,success:function(j,k){if(k.result.success){var i=Ext.getCmp("genesetsaveform_name").getValue();biogps.genesetsavewin.body.unmask();biogps.genesetsavewin.body.mask(String.format('Gene list "{0}" saved!',i));setTimeout(function(){biogps.genesetsavewin.body.unmask();biogps.genesetsavewin.close()},1000);this.fireEvent("genesetsaved")}else{biogps.genesetsavewin.body.unmask();biogps.formfailure(k,errmsg="Saving Gene list failed! Try again.",onclose=function(){if(biogps.genesetsavewin){biogps.genesetsavewin.items.get(0).form.reset()}biogps.genesetsavewin.items.get(0).items.get(0).focus()})}},failure:function(i,j){biogps.genesetsavewin.body.unmask();biogps.formfailure(j,errmsg="Saving Gene list failed! Try again.",onclose=function(){Ext.getCmp("genesetsaveform").form.reset();Ext.getCmp("genesetsaveform").items.get(0).focus()})}})}},showSaveWin:function(c){var i=c.targetEl;var f=function(){this.doGenesetSave(c)};var j,h,g;if(c.mode=="new"){var a=c.geneList;if(a.length==0){biogps.error("You did not select any gene to save. Please try again.");return}else{if(a.length>1000){biogps.error("You can save at most 1000 genes in one gene list. Please select less genes and try again.");return}}j=String.format("Save selected Genes ({0})",a.length)}else{if(c.mode=="union"||c.mode=="intersection"){var b=c.genesetid;if(!isArray(b)||b.length<2){biogps.error("Select at least two gene lists for operation.");return}else{if(b.length>100){biogps.error("At most 100 gene lists can be operated at once.");return}}j=String.format("Take {0} of selected gene lists ({1})",c.mode,b.length);h=String.format("{0}_Gene_List_{1}",Ext.util.Format.capitalize(c.mode),Ext.util.Format.date(new Date(),"mdY"));g=String.format("This gene list is created by taking {0} from ({1})",c.mode,b.join(", "))}else{if(c.mode=="update"){var e=c.geneset;j="Update geneset";h=e.name;g=e.description}else{return}}}biogps.genesetsavewin=new Ext.Window({title:j,layout:"fit",width:380,labelWidth:200,modal:true,autoHeight:true,stateful:false,plain:true,grp:this,listeners:{show:{buffer:10,fn:function(l){var k=new Ext.KeyMap(l.getEl(),[{key:13,stopEvent:true,fn:f,scope:this.grp},{key:27,stopEvent:true,fn:function(){biogps.genesetsavewin.close()}}]);l.items.get(0).items.get(0).focus()}},destroy:function(){delete biogps.genesetsavewin}},items:new Ext.FormPanel({id:"genesetsaveform",labelWidth:120,autoHeight:true,bodyStyle:"padding:5px",border:false,items:[{xtype:"textfield",anchor:"90%",fieldLabel:"Name your Gene list",id:"genesetsaveform_name",name:"name",value:h,allowBlank:false},{fieldLabel:"Description",xtype:"textarea",anchor:"90%",id:"genesetsaveform_description",name:"description",value:g,height:100,allowBlank:true}],buttons:[{text:"Save",handler:f,scope:this},{text:"Cancel",handler:function(){biogps.genesetsavewin.close()}}]})});biogps.genesetsavewin.show(i)},saveGeneSet:function(a,b){this.showSaveWin({mode:"new",targetEl:b,geneList:a})},unionGeneSet:function(a,b){this.showSaveWin({mode:"union",targetEl:b,genesetid:a})},intersectionGeneSet:function(a,b){biogps.callRemoteService({url:"/geneset/intersection/",params:{genesetid:a,validate:"1"},method:"POST",fn:function(c){if(c.reader.jsonData.success){this.showSaveWin({mode:"intersection",targetEl:b,genesetid:a})}else{biogps.error(c.reader.jsonData.error?c.reader.jsonData.error:"Failed to perform intersection on selected gene sets.")}},scope:this})},editGeneSet:function(a,b){this.showSaveWin({mode:"update",targetEl:b,geneset:a})},deleteGeneSet:function(b,e,a){var c=String.format('Are you SURE you want to delete the "{0}" gene list?
This action CANNOT be undone!',b.name);Ext.MessageBox.confirm("Confirm",c,function(f){if(f=="yes"){biogps.callRemoteService({url:"/geneset/"+b.genesetid+"/",method:"DELETE",fn:e,scope:a})}},this)},loadGenes:function(b,c,a){biogps.callRemoteService({url:"/geneset/"+b.genesetid+"/?geneinfo=1",method:"GET",fn:c,scope:a})},loadGeneSets:function(a,f,g,e,c){var b;if(f=="intersection"){b="/geneset/intersection/"}else{if(f=="union"){b="/geneset/union/"}else{biogps.error("Unknown mode parameter: "+f);return}}biogps.callRemoteService({url:b,params:{genesetid:a,geneinfo:1},method:"POST",fn:g,failure:c,scope:this})}});biogps.GeneSetMgr=new biogps.GeneSetMgr();Ext.override(Ext.tree.MultiSelectionModel,{onNodeClick:function(a,b){this.select(a,b,true)},select:function(a,c,b){if(this.isSelected(a)){this.lastSelNode=a;this.unselect(a);return a}this.selNodes.push(a);this.selMap[a.id]=a;this.lastSelNode=a;a.ui.onSelectedChange(true);this.fireEvent("selectionchange",this,this.selNodes);return a}});biogps.GeneSetPanel=function(){biogps.GeneSetPanel.superclass.constructor.call(this,{id:"geneset-tree",region:"south",title:"Saved Gene Lists",lines:true,height:300,selModel:new Ext.tree.MultiSelectionModel(),simpleSelect:true,root:new Ext.tree.TreeNode("GeneSet Viewer"),tbar:[new Ext.Toolbar.SplitButton({text:"Load",handler:this.union,scope:this,tooltip:"Load genes from selected gene list",iconCls:"icon-load",menu:{items:[{text:"Union",handler:this.union,scope:this,iconCls:"icon-intersection"},{text:"Intersection",handler:this.intersection,scope:this,iconCls:"icon-intersection"},"-","Options:",{text:"Append genes",id:"cbx_genelist_appending",checked:false,listeners:{render:{fn:function(a){this.cbx_genelist_appending=a},scope:this}},handler:function(b,a){b.setChecked(!b.checked);return false},scope:this}]}})],ibar:[{iconCls:"icon-edit-small",fn:this.edit,scope:this},{iconCls:"icon-remove-small",fn:this.remove,scope:this}]});this.createRoot();biogps.usrMgr.linkWithAuthentication(this.init,this);this.on({remove:function(){this.updateRoot()},click:function(b,a){if(b.isLeaf()){b.ui.checkbox.checked=!b.ui.checkbox.checked}},checkchange:function(b,a){if(b.parentNode==this.root&&b.childNodes.length>0){b.childNodes.each(function(c){c.ui.toggleCheck(a)})}else{if(b.isLeaf()){if(a){this.selModel.select(b);b.ui.highlight()}else{this.selModel.unselect(b)}}}},scope:this});this.on("dblclick",function(b,a){this.loadOneGeneset(b);b.ui.toggleCheck(true)},this)};Ext.extend(biogps.GeneSetPanel,biogps.ListPanelBase,{init:function(){if(biogps.usrMgr.is_anonymoususer){this.removeAll();this.mylist.appendChild(new Ext.tree.TreeNode({text:"Available after logging in.",disabled:true}));this.getTopToolbar().disable();this.mylist.disable()}else{this.load()}},isGenesetNode:function(a){return a&&a.attributes.genesetid},createRoot:function(){this.mylist=this.root.appendChild(new Ext.tree.TreeNode({text:"All Gene Lists",cls:"node-root-el",checked:false,expanded:true}))},getSelectedGeneSets:function(a){var b=[];this.mylist.eachChild(function(c){if(c.ui.checkbox.checked){if(a){b.push(c)}else{b.push(c.attributes.genesetid)}}});return b},onlyOneSelected:function(){var a=this.getSelectedGeneSets(returnnodes=true);if(a.length==0){biogps.error("Please select a gene list first.")}else{if(a.length>1){biogps.error("Please select only one gene list to continue.")}else{return a[0]}}},removeAll:function(){this.suspendEvents();this.root.removeChild(this.mylist);this.resumeEvents();this.createRoot()},updateRoot:function(){this.root.firstChild.setText(String.format("All ({0})",this.mylist.childNodes.length))},addNode:function(a,b,f){var e=this.getNodeById(a.id);if(e){if(!b){e.select();e.ui.highlight()}return}Ext.apply(a,{iconCls:"icon-geneset",checked:false,leaf:true,qtip:a.description,id:"geneset_"+a.genesetid,text:a.name+" ("+a.size+")"});var c=new Ext.tree.TreeNode(a);this.mylist.appendChild(c);if(!b){if(!f){Ext.fly(c.ui.elNode).slideIn("l",{callback:c.select,scope:c,duration:0.4})}else{c.select()}}return c},load:function(b){biogps.callRemoteService({url:"/getmygenesets/",fn:a,scope:this});function a(e){var c=e.reader.jsonData;this.removeAll();for(var f=0;f1){Ext.History.add("goto=searchresult");e.setActiveTab("result_panel")}b.dom.innerHTML="";biogps.resultpage=new biogps.GeneResultPage(a);biogps.resultpage.render(b.dom)};biogps.GeneResultPage=function(b){this.totalCount;this.resultPerPage;this.currentPage;this.geneList;Ext.apply(this,b);var a=this.totalCount>1?"s":"";this.start=this.resultPerPage*(this.currentPage-1)+1;this.end=Math.min(this.totalCount,this.start+this.resultPerPage-1);this.totalPage=Math.ceil(this.totalCount/this.resultPerPage);biogps.GeneResultPage.superclass.constructor.call(this,{border:false});this.on("render",this.renderGeneList2,this)};Ext.extend(biogps.GeneResultPage,Ext.Panel,{renderGeneList:function(){var c,e;if(this.rendered){c='';c+='';for(var b=0;b',e.id,b+1,e.symbol,e.id,e.name)}else{c+=String.format('',e.id,b+1,e.symbol,e.id,e.name)}}c+="
no.symbolidname
{1}{2}{3}{4}
{1}{2}{3}{4}
";var a=this.geneList;this.body.update(c,false,function(){biogps.Messenger.fireEvent("genelistrendered");biogps.resultpage.genelistrendered=true;if(a.length==1){biogps.renderGeneReport2(a[0].id)}else{if(Ext.isIE){Ext.History.add("goto=searchresult")}}},this)}},renderGeneList2:function(){var h=[9606,10090,10116,7227,6239,7955,3702];var g={"9606":"Hs","10090":"Mm","10116":"Rn","7227":"Dm","6239":"Ce","7955":"Dr","3702":"At"};var c={"9606":"human","10090":"mouse","10116":"rat","7227":"drosophila","6239":"c. elegans","7955":"zebrafish","3702":"arabidopsis"};var b={human:"H. sapiens (human)",mouse:"M. musculus (mouse)",rat:"R. norvegicus (rat)",drosophila:"D. melanogaster (fruitfly)","c. elegans":"C. elegans (roundworm)",zebrafish:"D. rerio (zebrafish)",arabidopsis:"A. thaliana (thale cress)"};var e=new Ext.XTemplate('

We improved this page! Show me.

','

Your query ','','("{query:ellipsis(50)}") ',"","returns {totalCount} record{this.plural}:

",'','','','',"","
no.querysymbolidnamehomologene 
{#}{key}{symbol}{id}{name}{[this.fmtHomologene(values)]}
",'
','','

Found no matches for {[values.notfound.length]} query term{[values.notfound.length>1?"s":""]}:
','(Try wildcard query or keyword query?)
','','

{.}
',"","

","",{compiled:true,disableFormats:false,useInlineQuery:(this.qtype=="keyword"||this.qtype=="interval"),plural:this.totalCount>1?"s":"",fmtHomologene:function(t){var n=t.homologene;var p="";if(n){for(var r=0;r{3}',(s[1]==t.id)?" current_species":"",s[1],b[c[l]],g[l]);u=true}}if(!u){p+=String.format('{1}',b[c[l]],g[l])}}p+=String.format('  ({1})',n.id,n.id)}else{var k=t.taxid.toString();for(var r=0;r{2}',t.id,b[c[l]],g[l])}else{p+=String.format('{0}',g[l])}}}return p}});if(this.rendered){var f=e.apply(this);var a=this.geneList;this.body.update(f,false,function(){var i=Ext.get("generesult_table");sorttable.makeSortable(i.dom);new Ext.ToolTip({title:new_feature_title,target:"new_feature_header",anchor:"left",html:new_feature_html,width:400,dismissDelay:0,hideDelay:5000,autoHide:true,closable:true});biogps.Messenger.fireEvent("genelistrendered");biogps.resultpage.genelistrendered=true;if(a.length==1){biogps.renderGeneReport2(a[0].id)}else{if(Ext.isIE){Ext.History.add("goto=searchresult")}}},this)}}});var new_feature_title='New features';var new_feature_html='
  • The order of the genes matches the original order of your query terms.
  • Matched query term or terms are listed in the "QUERY" column.
  • Each column in the results table is sortable.
  • The new "HOMOLOGENE" column shows all available species for each gene orthology group and provides quick access to view the species-specific gene reports.
  • Unmatched query terms, if any, will be shown below the results table.

More details in our blog post.';biogps.portletGroup=Ext.WindowGroup();biogps.portletGroup.zseed=1000;biogps.Portlet=function(a){this.id;this.plugin;this.gene;this.renderTo;var b={manager:biogps.portletGroup,xtype:"biogpsportlet",maximizable:true,collapsible:false,constrainHeader:true,shadow:Ext.isIE,animCollapse:false,autoScroll:true,bodyCssClass:"portlet-body",hideCollapseTool:true,hideMode:"display",renderTo:this.container,defaultSrc:"/assets/img/s.gif",tools:[{id:"gear",handler:function(c,e){this.showOptionMenu(e)},scope:this,qtip:"More options"}]};Ext.apply(this,a,b);this.x=this.x||0;this.y=this.y||0;this.width=this.width||(350*2);this.height=this.height||250;biogps.Portlet.superclass.constructor.call(this);this.flag_bypasspluginsync=false;this.addEvents({contentload:true});this.addEvents({speciesswitch:true});this.on({contentload:function(){this.onContentLoad()},documentloaded:function(){this.fireEvent("contentload")},resize:function(){if(!this.flag_bypasspluginsync){this.syncSize()}this.fixHeaderText();this.toFront()},move:function(){if(!this.flag_bypasspluginsync){this.syncLocation()}},maximize:function(){biogps.utils.toggleScrollbar(biogps.centerTab.get("report_panel").body,true)},restore:function(){biogps.utils.toggleScrollbar(biogps.centerTab.get("report_panel").body,false)},show:function(){this.renderSpeciesSelector();this.syncLocation();this.syncSize();if(Ext.isIE){var c=new Ext.util.DelayedTask(function(){this.loadContent()},this);c.delay(0)}else{this.loadContent()}},scope:this})};Ext.extend(biogps.Portlet,Ext.ux.ManagedIFrame.Window,{maximize:function(){if(!this.maximized){this.expand(false);this.restoreSize=this.getSize();this.restorePos=this.getPosition(true);if(this.maximizable){this.tools.maximize.hide();this.tools.restore.show()}this.maximized=true;this.el.disableShadow();if(this.dd){this.dd.lock()}if(this.collapsible){this.tools.toggle.hide()}var b=biogps.centerTab.get("report_panel");var f=this.container.getBox();var c=b.body.getBox();var e=f.width;var g=Math.max(c.y,f.y);var a=c.y+c.height-g;this.flag_bypasspluginsync=true;this.setPagePosition(f.x,g);this.setSize(e,a);this.flag_bypasspluginsync=false;if(this.plugin){if(!this.plugin.useroptions){this.plugin.useroptions={}}this.plugin.useroptions.maximized=true}this.fireEvent("maximize",this)}return this},restore:function(){this.flag_bypasspluginsync=true;this.constructor.superclass.restore.call(this);this.flag_bypasspluginsync=false;if(this.plugin&&this.plugin.useroptions){delete this.plugin.useroptions.maximized;if(biogps.isEmptyObject(this.plugin.useroptions)){this.plugin.useroptions=null}}},close:function(b){if(b&&b.bypass_confirmation){if(b.suspend_events){this.suspendEvents()}this.constructor.superclass.close.call(this);if(b.suspend_events){this.resumeEvents()}}else{var a=Ext.MessageBox.confirm("Remove Plugin?",String.format('Are you sure that you want to remove
this plugin "{0}" from your layout?

Remember to click "options-->Save" to make it PERMANENT.',this.title),function(c){if(c=="yes"){if(b&&b.suspend_events){this.suspendEvents()}this.constructor.superclass.close.call(this);if(b&&b.suspend_events){this.resumeEvents()}}},this)}},focus:Ext.emptyFn,fixHeaderText:function(){var b=this.header.down("span.x-window-header-text");var a=b.getTextWidth();var e=this.species_button?this.species_button.el:this.tools.gear;var c=e.getX()-2-b.getX()-5;if(a>c){b.setStyle({display:"block",overflow:"hidden"});b.setWidth(c);Ext.QuickTips.register({target:b,text:this.title,dismissDelay:0})}else{b.setStyle({display:"inline",overflow:"visible"});b.setWidth(a);Ext.QuickTips.unregister(b)}},showError:function(a){this.items.clear();this.body.update(a)},_loadContent:function(){switch(this.plugin.type){case"div":var a=this.body.getUpdater();a.on({beforeupdate:this.showLoading,update:function(){this.fireEvent("contentload")},options:{single:true},scope:this});this.items.clear();if(this.html){a.update(this.html)}else{if(this.url){var b,c;b=this.url+"&container="+this.body.id;if(b.startsWith("http://")){c=b.startsWith("http://plugins.gnf.org/")||b.startsWith("http://plugins-dev.gnf.org/");if(this.plugin.options.securityAware){b+="&host="+location.host}b="/utils/proxy?url="+b.replace(/&/g,"%26");if(this.plugin.options.securityAware){b+="&secure=1"}}else{c=true}a.update({url:b,scripts:c})}else{a.update("HTML content is not available!")}}break;case"iframe":this.setSrc(this.url);break}},loadContent:function(){if(this.plugin.url){this.showLoading();this.url=this.plugin.geturl(this.gene);this.updateCurrentSpecies();if(this.url){if(this.plugin.type=="iframe"&&this.plugin.options.securityAware&&!this.plugin.is_secure_cookie_set()){this.plugin.on("secure_cookie_set",function(){this._loadContent()},this,{single:true});this.plugin.set_secure_cookie()}else{this._loadContent()}}else{var a=this.gene.getEntryGene();var b=String.format("This plugin is not available for this gene: {0}({1}, {2})",a.Symbol,this.gene.EntrySpecies,this.gene.EntryGeneID);this.showError(b);this.fireEvent("contentload")}}else{var b="This plugin {0}(id: {1}) is not loaded correctly. Either you have deleted it already or you don't have the privilege to access it.

If this is your own layout, you might want to remove it from this layout by closing this plugin window.

";this.showError(String.format(b,this.plugin.title?'"'+this.plugin.title+'"':"",this.plugin.id))}if(this.plugin.title){this.setTitle(this.plugin.title);this.fixHeaderText()}},showLoading:function(){this.setIconClass("icon-loading")},onContentLoad:function(){this.setIconClass("icon-home")},refresh:function(){this.loadContent()},syncSize:function(){if(this.plugin&&!this.maximized&&!this.collapsed){Ext.apply(this.plugin,this.getSize())}},syncLocation:function(){if(this.plugin&&!this.maximized&&!this.collapsed){var a=this.getPosition(local=true);Ext.apply(this.plugin,{left:a[0],top:a[1]})}},update:function(a){if(a.width!=null&&a.height!=null){this.setSize(parseInt(a.width),parseInt(a.height))}if(a.top!=null&&a.left!=null){var e=this.container.getAnchorXY();var c=e[0]+parseInt(a.left);var b=e[1]+parseInt(a.top);this.getPositionEl().moveTo(c,b,a.animate);if(!a.animate){this.fireEvent("move",this,c,b)}}if(a.minimized&&!this.collapsed){this.collapse()}if(a.maximized&&!this.maximized){this.maximize()}},getLayoutData:function(){var a=this.plugin.getPositioning();var b={id:this.plugin.id,left:a.left,top:a.top,height:a.height,width:a.width};if(this.plugin.useroptions){b.useroptions=this.plugin.useroptions}if(this.plugin&&this.plugin.runtimeoptions&&this.plugin.runtimeoptions.currentSpecies){if(!b.useroptions){b.useroptions={}}b.useroptions.currentSpecies=this.plugin.runtimeoptions.currentSpecies}return b},toggleFrame:function(){},showOptionMenu:function(c){if(!c.menu){var b=function(f){f.tip=new Ext.ToolTip({target:f.getEl().getAttribute("id"),delegate:".x-menu-item",trackMouse:true,renderTo:document.body,text:"text",listeners:{beforeshow:function e(h){var g=f.ownerCt.findById(h.triggerElement.id);if(!g.initialConfig.qtip){return false}h.body.dom.innerHTML=g.initialConfig.qtip}}})};var a=new Ext.menu.Menu();a.add({text:"Open in browser",qtip:"Open this plugin in a new browser window",iconCls:"icon-pagego",handler:function(){window.open(this.url)},scope:this,listeners:{afterrender:b}});a.add({text:"Plugin details",qtip:"Show plugin details",iconCls:"icon-info",handler:function(){this.showInfo(c)},scope:this,listeners:{afterrender:b}});a.add({text:"Refresh",iconCls:"icon-refresh",qtip:"Refresh this plugin",handler:function(e,f){this.refresh()},scope:this,listeners:{afterrender:b}});a.add({text:"Flag plugin",qtip:"Flag as broken or inappropriate",iconCls:"icon-flag",handler:function(){this.flagit()},scope:this,listeners:{afterrender:b}});c.menu=a}c.menu.show(c)},showInfo:function(a){var b=new Ext.Template('','','','','','','','','',"
Plugin details:
Title:{title}
ID:{id}
URL:
{realurl}
URL tpl:
Type:{type}
Registered by:{author}
Description:{description}
").compile();if(this.infopanel){this.infopanel.destroy();this.infopanel=null;return}a=a||this.tools.help;this.infopanel=new Ext.Panel({id:this.id+"_infopanel",layout:"fit",floating:true,renderTo:this.el,width:250,html:b.apply(Ext.apply({realurl:this.url?'[open in a new window]':"NA"},this.plugin)),frame:true,buttonAlign:"center",buttons:[{text:"OK",handler:function(){this.infopanel.destroy();this.infopanel=null},scope:this}]});this.infopanel.on("show",function(){this.infopanel.el.alignTo(a,"tr-br",[0,7])},this);this.infopanel.show()},sameAs:function(a){return((this.plugin.id==a.id))},flagit:function(){if(this.plugin){this.plugin.showFlagAsInappropriateForm(this.el)}},isOverlapWith:function(c,e){var b=this.getBox(local=true);var a=c.getBox(local=true);if(e){console.log(b.x+b.width,a.x,b.x+b.width>a.x,a.x+a.width,b.x,a.x+a.width>b.x,b.y+b.height,a.y,b.y+b.height>a.y,a.y+a.height,b.y,a.y+a.height>b.y)}if(((b.x+b.width>a.x&&a.x+a.width>b.x)&&(b.y+b.height>a.y&&a.y+a.height>b.y))){return true}else{return false}},getPositionNextTo:function(c,f){var e=this.getBox(local=true);var g=c.getBox(local=true);var b=g.x+g.width+5;var a=g.y;if(b+e.width>f){b=0;a=g.y+g.height+5}return{x:b,y:a}},renderSpeciesSelector:function(){var g,b,e;if(this.plugin){g=this.plugin.getAvailableSpecies(this.gene,applyuseroptions=true);if(g.length>0){b=new Ext.menu.Menu();var f=this;var c=Math.round(Math.random()*100,0).toString();var a={human:"H. sapiens (human)",mouse:"M. musculus (mouse)",rat:"R. norvegicus (rat)",drosophila:"D. melanogaster (fruitfly)","c. elegans":"C. elegans (roundworm)",zebrafish:"D. rerio (zebrafish)",arabidopsis:"A. thaliana (thale cress)"};biogps.AVAILABLE_SPECIES.each(function(h){b.add({text:a[h],value:h,checked:false,disabled:g.indexOf(h)==-1,group:c+"_selectedspecies",handler:f.onSpeciesSwitch,scope:f})});e=new Ext.Button({text:"",menu:b,cls:"x-tool-species"});e.on("click",function(h){h.showMenu()});e.on("mouseover",function(i){var h=Ext.fly(Ext.DomQuery.selectNode("span.x-tool-species-label",i.getEl().dom));if(h){h.addClass("x-tool-species-label-over")}},this);e.on("mouseout",function(i){var h=Ext.fly(Ext.DomQuery.selectNode("span.x-tool-species-label",i.getEl().dom));if(h){h.removeClass("x-tool-species-label-over")}},this);e.render(this.header);this.species_menu=b;this.species_button=e}}},onSpeciesSwitch:function(b,a){if(!b.checked){var c=b.value;if(this.plugin){this.plugin.runtimeoptions=this.plugin.runtimeoptions||{};this.plugin.runtimeoptions.currentSpecies=c;this.loadContent();this.fireEvent("speciesswitch",this)}}},updateCurrentSpecies:function(){if(this.species_button&&this.species_menu){var c=this.plugin.current_species;var a={human:'Species: Hs ',mouse:'Species: Mm',rat:'Species: Rn',drosophila:'Species: Dm',"c. elegans":'Species: Ce',zebrafish:'Species: Dr',arabidopsis:'Species: At'};this.species_button.setText(a[c]);for(var b=0;b1){var b=[];this.each(function(e){var c=e.gene.getEntryGene();if(c){b.push(c.Symbol)}});a=b.join(" , ")}}return(a)},getReport:function(a){return this.get(a)},collapseQuickLists:function(){this.each(function(a){a.grp_tbar.quickPluginBox.collapse()})},updateAll:function(){this.each(function(a){a.updatePage(true)})},refreshAll:function(){if(biogps.centerTab.activeTab.id!="report_panel"){biogps.centerTab.setActiveTab("report_panel")}this.each(function(a){a.grp_tbar.createLayoutMenu();a.renderPage()})},refreshLayout:function(a){this.each(function(b){if(b){if(b.grlayout.layout_id==a.layout_id){if(biogps.centerTab.activeTab.id=="report_panel"){b.refresh(updateonly=true)}else{b.need_refresh=true}}}})},refreshMarked:function(){this.each(function(a){if(a&&a.need_refresh){a.refresh(updateonly=true);a.need_refresh=false;delete a.need_refresh}})},removeAll:function(){biogps.portletGroup.each(function(a){a.close({bypass_confirmation:true,suspend_events:true})});this.each(function(a){a.destroy()});this.clear();this.populateGeneListPanel=false},markLayoutChanged:function(){this.each(function(a){if(a.grp_tbar){a.grp_tbar.layoutmenu_need_sync=true}})},bindLayoutMgr:function(){biogps.clearListeners(biogps.LayoutMgr,"layoutloaded");biogps.LayoutMgr.on("layoutloaded",function(){biogps.GeneReportMgr.refreshAll()})},render:function(h,g){if(biogps.LayoutMgr.layoutloading){var e=new Ext.util.DelayedTask();e.delay(100,function(){this.render(h,g)},this)}else{this.removeAll();this.rendered=false;if(biogps.genelist_panel.genelist_node&&biogps.genelist_panel.genelist_node.childNodes.length==0){this.populateGeneListPanel=true}Ext.fly(g).dom.innerHTML="";for(var b=0;b",this.notification,this.layout_icon,"current layout:"," ",this.layoutbutton,"|"," ",{text:"options",menu:this.optionmenu},this.quickPluginBox]});this.layoutmenu_need_sync=false};Ext.extend(biogps.GeneReportToolbar,Ext.Toolbar,{initLayoutMenu:function(){this.layoutmenu=new Ext.menu.Menu();this.layoutmenu.on("beforeshow",function(){if(this.layoutmenu_need_sync){this.createLayoutMenu();this.layoutmenu_need_sync=false}},this);if(this.grp&&this.grp.grlayout&&this.grp.grlayout.layout_name){var a=this.grp.grlayout.layout_name}else{var a="click to select"}this.layoutbutton=new Ext.Toolbar.Button({text:String.format("{0}",a),menu:this.layoutmenu});this.createLayoutMenu()},initOptionMenu:function(){this.optionmenu=new Ext.menu.Menu({items:[{text:"Tile windows",handler:function(){this.grp.tilePluginWindows("area")},scope:this},{text:"Tile windows (compact)",handler:function(){this.grp.tilePluginWindows_compact()},scope:this},{text:"Open all in browser",handler:function(){this.grp.openAllInBrowser()},scope:this},{text:"Refresh/Revert",handler:function(){this.grp.refresh()},scope:this},{text:"Save",id:"lmenu_save",handler:function(){this.grp.saveCurrentLayout()},scope:this},{text:"Save as new...",id:"lmenu_saveas",handler:function(){this.grp.saveAsNewLayout()},scope:this}]});this.optionmenu.on("beforeshow",function(){if(biogps.usrMgr.is_anonymoususer){this.optionmenu.items.get("lmenu_saveas").disable()}else{this.optionmenu.items.get("lmenu_saveas").enable()}if(biogps.usrMgr.is_anonymoususer||(this.grp&&this.grp.grlayout.isSharedLayout())){this.optionmenu.items.get("lmenu_save").disable()}else{this.optionmenu.items.get("lmenu_save").enable()}},this)},createLayoutMenu:function(){if(!this.layoutmenu){return}this.layoutmenu.removeAll();this.layoutmenu.add('My layouts:');var a=[];var c=0;var e;for(var b=0;b0){this.layoutmenu.add('Shared layouts:');for(var b=0;b{0}",a))},setGeneTitle:function(a){if(a.length>60){a=a.substring(0,55)+"..."}if(this.geneTitle.rendered){this.geneTitle.setText(a)}else{this.geneTitle.on("render",function(){this.setGeneTitle(a)},this,{single:true})}},notify:function(a){if(a.startsWith("Error")){a=''+a+""}if(this.notification.rendered){this.notification.setText(a)}else{this.notification.on("render",function(){this.notify(a)},this,{single:true})}},setLayoutIcon:function(a,b){if(this.layout_icon.rendered){this.layout_icon.el.addClass(a);Ext.QuickTips.register({target:this.layout_icon.el,text:b,dismissDelay:0})}else{this.layout_icon.on("render",function(){this.setLayoutIcon(a,b)},this,{single:true})}},removeLayoutIcon:function(a){if(this.layout_icon.rendered){this.layout_icon.setText("");this.layout_icon.el.removeClass(a);Ext.QuickTips.unregister(this.layout_icon.el)}},onLayoutSwitch:function(b,a){if(a){this.grp.switchLayout(b.value)}}});biogps.GeneReportPage=function(a){this.title="";this.gene=null;this.geneid=null;this.grlayout=biogps.LayoutMgr.currentLayout;this.showframe=true;Ext.apply(this,a);this.id="grp_"+this.geneid,this.globalPortletIndex=0;this.addEvents({load:true});this.portlets=new Array();this.reportRendered=false;this.layout_modified_icon="icon-layout-alert";this.flag_donotsynclayout=false;this.flag_bypassclosecallback=false;this.gene=new biogps.Gene({id:this.geneid});this.grp_tbar=new biogps.GeneReportToolbar({grp:this,id:this.id+"_tbar"});biogps.GeneReportPage.superclass.constructor.call(this,{border:true,cls:"gene-report-page",autoWidth:true,height:100,deferredRender:true,autoScroll:this.showframe,autoEl:true,tbar:this.grp_tbar});this.on("render",this.renderPage,this);this.store=new Ext.data.JsonStore({url:"/boc/getgeneidentifiers/?geneid="+this.geneid+"&format=json",fields:[],autoLoad:true});this.store.on("beforeload",this.showLoading,this);this.store.on("load",function(b){this.gene=Ext.apply(this.gene,b.reader.jsonData);this.addTabs();if(biogps.GeneReportMgr.populateGeneListPanel){var e=this.gene.getEntryGene();if(e){var c={};c.id=e.EntrezGene||e.EnsemblGene;if(c.id){c.name=e.Description||"";c.symbol=e.Symbol||"";biogps.genelist_panel.addGene({id:c.id,symbol:c.symbol,name:c.name,text:c.symbol},true,true)}}}},this);this.store.on("loadexception",biogps.ajaxfailure,this)};Ext.extend(biogps.GeneReportPage,Ext.Panel,{showLoading:function(){this.add({title:"Please wait...",id:"tmp_loading",height:100});this.loadmask=new Ext.LoadMask(this.getEl(),{msg:"Loading..."});this.loadmask.show()},removeLoading:function(){if(this.loadmask){this.loadmask.hide();this.loadmask.disable();this.remove("tmp_loading",true)}},addTabs:function(){if(this.gene){if(biogps.LayoutMgr.layoutloading){var b=new Ext.util.DelayedTask();b.delay(100,function(){this.addTabs()},this)}else{this.removeLoading();var e=this.gene.getEntryGene();var c=e.Symbol;var a=e.Description||"no description";if(a.length>100){a=a.substring(0,96)+"..."}var f=String.format("{0} ({1})",(c||this.geneid),a);this.setTitle(f);this.grp_tbar.setGeneTitle(f);this.doLayout()}}},checkLayout:function(){if(!this.grlayout){this.grp_tbar.notify("Error: This layout is not available! Please select another one using the layout menu on the right side.");return false}else{if(!this.grlayout.layout_data||this.grlayout.layout_data.length==0){this.grp_tbar.notify("Error: This layout does not contain any plugin. Please select another one using the layout menu on the right side.");return false}}return true},setInitialCanvasHeight:function(){var c;var e=0;for(var b=0;b
"{0}"',(f.error||"[None]")))}this.body.unmask()},this);b.save()},saveAsNewLayout:function(a){if(!this.grlayout||biogps.require_user_logged_in()==false){return}var c=this.getLayoutData();biogps.layoutsavewin=new Ext.Window({title:"Save current layout",layout:"fit",width:320,labelWidth:200,modal:true,autoHeight:true,stateful:false,plain:true,grp:this,listeners:{show:{buffer:10,fn:function(f){f.items.get(0).items.get(0).focus();var e=new Ext.KeyMap(f.getEl(),[{key:13,stopEvent:true,fn:b,scope:this.grp},{key:27,stopEvent:true,fn:function(){biogps.layoutsavewin.close();delete biogps.layoutsavewin}}])}}},items:new Ext.FormPanel({id:"layoutsaveform",labelWidth:120,autoHeight:true,bodyStyle:"padding:5px 5px 5px 5px",border:false,items:[{xtype:"textfield",anchor:"90%",fieldLabel:"Name your layout",id:"layoutsaveform_name",name:"layout_name",allowBlank:false}],buttons:[{text:"Save",handler:b,scope:this},{text:"Cancel",handler:function(){biogps.layoutsavewin.close();delete biogps.layoutsavewin}}]})});biogps.layoutsavewin.show(this.grp_tbar.optionmenu.el);biogps.layoutsavewin.focus();function b(){if(!(Ext.getCmp("layoutsaveform_name").isValid())){Ext.MessageBox.show({title:"Error",msg:"Missing or wrong input layout name! Correct and try again.",buttons:Ext.Msg.OK,icon:Ext.MessageBox.ERROR});Ext.getCmp("layoutsaveform").form.reset()}else{biogps.layoutsavewin.body.mask("Saving layout...");Ext.getCmp("layoutsaveform").getForm().submit({url:"/layout/add/",params:{layout_data:Ext.util.JSON.encode(c),description:this.grlayout.description},method:"POST",scope:this,success:function(f,g){if(g.result.success){var e=Ext.getCmp("layoutsaveform_name").getValue();biogps.layoutsavewin.body.unmask();biogps.layoutsavewin.body.mask(String.format('Layout "{0}" saved!',e));this.grp_tbar.updateLayoutMenu();var h=g.result.layout_id;this.switchLayout(h);setTimeout(function(){biogps.layoutsavewin.body.unmask();biogps.layoutsavewin.close()},1000)}else{biogps.layoutsavewin.body.unmask();biogps.formfailure(g,"Saving Layout failed! Try again.",function(){if(biogps.layoutsavewin){biogps.layoutsavewin.items.get(0).form.reset()}biogps.layoutsavewin.items.get(0).items.get(0).focus()})}},failure:function(e,f){biogps.layoutsavewin.body.unmask();biogps.formfailure(f,"Saving Layout failed! Try again.",function(){Ext.getCmp("layoutsaveform").form.reset();Ext.getCmp("layoutsaveform").items.get(0).focus()})}})}}},onLayoutSwitch:function(b,a){if(a){this.switchLayout(b.value)}},switchLayout:function(a){biogps.LayoutMgr.on("currentlayoutloaded",function(){biogps.clearListeners(biogps.LayoutMgr,"currentlayoutloaded");this.grlayout=biogps.LayoutMgr.currentLayout;this.updatePage()},this);biogps.LayoutMgr.loadLayout(a);biogps.usrMgr.profile.defaultlayout=a;if(!biogps.usrMgr.is_anonymoususer){biogps.usrMgr.saveUserProfile()}},placeFirstTimePlugin:function(){var l=this.body.getHeight();var h=0;for(var g=0;g0){var b=new Ext.util.DelayedTask(function(){this.saveCurrentLayout({quiet:true})},this);b.delay(2000)}},tilePluginWindows_compact:function(a){var c=350;var f=250;for(var e=0;e=3){Ext.MessageBox.confirm("Confirmation",String.format('You are about to open {0} plugins in separate browser windows or tabs. Click "Yes" to continue.',this.portlets.length),function(e){if(e=="yes"){this.openAllInBrowser(true)}},this)}else{for(var a=0;a0){Ext.History.add("goto=genereport&id="+c.join(","))}biogps.GeneReportMgr.refreshMarked();break;case"infotab_help":Ext.History.add("goto=help");break;case"infotab_faq":Ext.History.add("goto=faq");break;case"infotab_downloads":Ext.History.add("goto=downloads");break;case"infotab_about":Ext.History.add("goto=about");break;case"infotab_terms":Ext.History.add("goto=terms");break;case"pluginbrowse_panel":if(biogps.currentLibrary){biogps.currentLibrary.hash_history()}else{Ext.History.add("goto=pluginlibrary")}break;case"mystuff_panel":Ext.History.add("goto=mystuff");break;case"infotab_iphone":Ext.History.add("goto=iphone");break}},this);biogps.renderSearchForm("searchpanel");biogps.renderFeedBox(Ext.getCmp("col_info").body);biogps.renderTipBox(Ext.getCmp("col_info").body);biogps.mainUI_postinit()};Ext.onReady(function(){if(Ext.get("history-form")){if(window.coreDispatcher&&!coreDispatcher.showWelcome){Ext.get("welcome").hide()}biogps.init();biogps.renderMainUI()}});var stIsIE= /*@cc_on!@*/ false;sorttable={init:function(){if(arguments.callee.done){return}arguments.callee.done=true;if(_timer){clearInterval(_timer)}if(!document.createElement||!document.getElementsByTagName){return}sorttable.DATE_RE=/^(\d\d?)[\/\.-](\d\d?)[\/\.-]((\d\d)?\d\d)$/;forEach(document.getElementsByTagName("table"),function(a){if(a.className.search(/\bsortable\b/)!=-1){sorttable.makeSortable(a)}})},makeSortable:function(b){if(b.getElementsByTagName("thead").length==0){the=document.createElement("thead");the.appendChild(b.rows[0]);b.insertBefore(the,b.firstChild)}if(b.tHead==null){b.tHead=b.getElementsByTagName("thead")[0]}if(b.tHead.rows.length!=1){return}sortbottomrows=[];for(var a=0;a5':" ▴";this.appendChild(sortrevind);return}if(this.className.search(/\bsorttable_sorted_reverse\b/)!=-1){sorttable.reverse(this.sorttable_tbody);this.className=this.className.replace("sorttable_sorted_reverse","sorttable_sorted");this.removeChild(document.getElementById("sorttable_sortrevind"));sortfwdind=document.createElement("span");sortfwdind.id="sorttable_sortfwdind";sortfwdind.innerHTML=stIsIE?' 6':" ▾";this.appendChild(sortfwdind);return}theadrow=this.parentNode;forEach(theadrow.childNodes,function(e){if(e.nodeType==1){e.className=e.className.replace("sorttable_sorted_reverse","");e.className=e.className.replace("sorttable_sorted","")}});sortfwdind=document.getElementById("sorttable_sortfwdind");if(sortfwdind){sortfwdind.parentNode.removeChild(sortfwdind)}sortrevind=document.getElementById("sorttable_sortrevind");if(sortrevind){sortrevind.parentNode.removeChild(sortrevind)}this.className+=" sorttable_sorted";sortfwdind=document.createElement("span");sortfwdind.id="sorttable_sortfwdind";sortfwdind.innerHTML=stIsIE?' 6':" ▾";this.appendChild(sortfwdind);row_array=[];col=this.sorttable_columnindex;rows=this.sorttable_tbody.rows;for(var c=0;c12){return sorttable.sort_ddmm}else{if(second>12){return sorttable.sort_mmdd}else{sortfn=sorttable.sort_ddmm}}}}}return sortfn},getInnerText:function(b){hasInputs=(typeof b.getElementsByTagName=="function")&&b.getElementsByTagName("input").length;if(b.getAttribute("sorttable_customkey")!=null){return b.getAttribute("sorttable_customkey")}else{if(typeof b.textContent!="undefined"&&!hasInputs){return b.textContent.replace(/^\s+|\s+$/g,"")}else{if(typeof b.innerText!="undefined"&&!hasInputs){return b.innerText.replace(/^\s+|\s+$/g,"")}else{if(typeof b.text!="undefined"&&!hasInputs){return b.text.replace(/^\s+|\s+$/g,"")}else{switch(b.nodeType){case 3:if(b.nodeName.toLowerCase()=="input"){return b.value.replace(/^\s+|\s+$/g,"")}case 4:return b.nodeValue.replace(/^\s+|\s+$/g,"");break;case 1:case 11:var c="";for(var a=0;a=0;b--){a.appendChild(newrows[b])}delete newrows},sort_numeric:function(e,c){aa=parseFloat(e[0].replace(/[^0-9.-]/g,""));if(isNaN(aa)){aa=0}bb=parseFloat(c[0].replace(/[^0-9.-]/g,""));if(isNaN(bb)){bb=0}return aa-bb},sort_alpha:function(e,c){if(e[0]==c[0]){return 0}if(e[0]0){var g=h[c];h[c]=h[c+1];h[c+1]=g;j=true}}e--;if(!j){break}for(var c=e;c>a;--c){if(f(h[c],h[c-1])<0){var g=h[c];h[c]=h[c-1];h[c-1]=g;j=true}}a++}}};if(document.addEventListener){document.addEventListener("DOMContentLoaded",sorttable.init,false); /*@cc_on @*/ /*@if (@_win32) document.write("