Removed everything from 'web' directory except genofiles and renamed the directory to 'genotype_files'

1 files changed, 0 insertions, 319 deletions

diff --git a/web/javascript/dhtml.js b/web/javascript/dhtml.js
deleted file mode 100755
index 52676ac8..00000000
--- a/web/javascript/dhtml.js
+++ /dev/null
@@ -1,319 +0,0 @@
-/**
- * These are REALLY simple serialisation tools meant for simple Hash-like
-objects in the for key=val
- */
-var PrefUtils = {
-  deserialize:function(inStr){
-    return eval('('+inStr+')');
-  },
-  serialize:function(inObj){
-    var buf = '{';
-    var cma = '';
-    var quote = "'";
-    for (i in inObj){
-      if (typeof i == 'string'){
-        buf += cma + quote + i + quote + " : " 
-          + quote +inObj[i]+ quote;
-          cma = ',';
-      }
-    }
-    buf += '}';
-    return buf;
-  },
-  testCookie:function(){
-    setCookie('cookieTest', 'cookieTest', 1);
-    var cookieTest = getCookie('cookieTest');
-    delCookie('cookieTest');
-    if (cookieTest) return true;
-    else return false;
-  },
-  form2Cookie:function(thisForm, cookieName){
-    if (!this.testCookie()){
-      alert("You need to enable Cookie in your browser!");
-    }
-    else{
-      var pref = getCookie(cookieName);
-      var options = this.deserialize(pref);
-      if(!options){
-  	  options = new Array();
-      }/**/
-      for( var x = 0; thisForm.elements[x]; x++ ) {
-  	  if( thisForm.elements[x].type ) {
-  	    var oE = thisForm.elements[x]; 
-  	    var oT = oE.type.toLowerCase();
-  	    if( oT == 'text' || oT == 'textarea' || oT == 'select-one' ) {
-  	      options[oE.name] = oE.value;
-  	    }
-        }
-      }
-      setCookie(cookieName, this.serialize(options), 10);
-      alert("Your preference has been saved.");
-    }	
-  }
-};
-
-function updateInner(Id, str){
-  document.getElementById(Id).innerHTML = str;
-}
-
-
-function popWindow(myId){
-	if (!document.getElementById || !myId) return false;
-	else{
-		var div = document.getElementById(myId);
-		if (!div){
-			div = document.createElement("div");
-			div.id = myId;
-			div.style.position = "absolute";
-			div.style.top = "50%";
-			div.style.left = "50%";
-			div.style.width = "400px";
-			div.style.height = "250px";
-			div.style.margin = "-125px 0 0 -200px";
-			div.style.border = "4px double #3366cc";
-			div.style.padding = "0px";
-			div.style.opacity = "0.99";
-			div.style.backgroundColor = "#FFFFFF";
-			div.style.fontSize = "60px";
-			div.style.lineHeight = "60px";
-			div.style.textAlign = "right";
-			document.body.appendChild(div);
-		}
-		else{
-			//alert("Layer already exists;")
-		}
-		xmlhttpPost('/webqtl/AJAX_pref.py', 'tab=assembly&divId='+myId, myId);
-		div.style.visibility = 'visible';
-	}
-}
-
-/*New added by NL*/
-/*
-Used by PartialCorrTraitPage.py, CorrelationPage.py, 
-*/
-function xmlhttpPost(strURL, div, querystring) {
-	
-    var xmlHttpReq = false;
-    var self = this;
-    var lay  = document.getElementById('warningLayer');
-    if (lay != null) {lay.style.visibility = "visible";}
-    // Mozilla/Safari
-    if (window.XMLHttpRequest) {
-        self.xmlHttpReq = new XMLHttpRequest();
-    }
-    // IE
-    else if (window.ActiveXObject) {
-        self.xmlHttpReq = new ActiveXObject("Microsoft.XMLHTTP");
-    }
-    self.xmlHttpReq.open('POST', strURL, true);
-    self.xmlHttpReq.setRequestHeader('Content-Type', 'application/x-www-form-urlencoded');
-    self.xmlHttpReq.onreadystatechange = function() {
-        if (self.xmlHttpReq.readyState == 4) {
-                responseText = self.xmlHttpReq.responseText;
-            updatepage(div, responseText);
-            if (lay != null) lay.style.visibility = "hidden";
-        }
-    }
-    self.xmlHttpReq.send(querystring);
-}
-
-function updatepage(Id, str){
-        document.getElementById(Id).innerHTML = str;
-}
-/*
-Used by CorrelationPage.py,
-elements: name,customizer, trait, filename, strainIds and vals are required by getquerystring function
-*/
-function getquerystring(thisform) {
-    var db = thisform.customizer.value;
-    var dbname = thisform.databaseFull.value;
-    var form = thisform.name;
-    var trait = thisform.identification.value;
-    var file = thisform.filename.value;
-    var ids = thisform.strainIds.value;
-    var vals = thisform.vals.value;
-    qstr = 'cmd=addCorr&db=' + escape(db) + '&dbname=' + escape(dbname) + '&form=' + escape(form) + '&trait=' + escape(trait) + '&file=' + escape(file)+ '&ids=' + escape(ids) + '&vals=' + escape(vals);  
-        // NOTE: no '?' before querystring
-    return qstr;
-}
-
-/*
-* Used by snpBrowserPage.py and AJAX_snpbrowser.py, 
-*/
-function xmlhttpPostSNP(strURL) {
-    var xmlHttpReq = false;
-    var self = this;
-    // Mozilla/Safari
-    if (window.XMLHttpRequest) {
-        self.xmlHttpReq = new XMLHttpRequest();
-    }
-    // IE
-    else if (window.ActiveXObject) {
-        self.xmlHttpReq = new ActiveXObject("Microsoft.XMLHTTP");
-    }
-    self.xmlHttpReq.open('POST', strURL, true);
-    self.xmlHttpReq.setRequestHeader('Content-Type', 'application/x-www-form-urlencoded');
-    self.xmlHttpReq.onreadystatechange = function() {
-        if (self.xmlHttpReq.readyState == 4) {
-        	responseTextArray = self.xmlHttpReq.responseText.split("__split__");
-            updatepage('menu_group', responseTextArray[0]);
-            updatepage('menu_s1', responseTextArray[1]);
-            updatepage('menu_s2', responseTextArray[2]);
-            updatepage('menu_s3', responseTextArray[3]);
-        }
-    }    
-    self.xmlHttpReq.send(getquerystringSNP());  
-}
-/*
-* used by snpBrowserPage.py, html elements:newSNPPadding, group, s1 and s2 are required
-*/
-function getquerystringSNP() {
-    var form = document.newSNPPadding;
-    var group = form.group.value;
-    var s1 = form.s1.value;
-    var s2 = form.s2.value;
-    qstr = 'group=' + escape(group) + '&s1=' + escape(s1) + '&s2=' + escape(s2);  
-    	// NOTE: no '?' before querystring
-    return qstr;
-}
-
-
-/*
-Used by CorrelationPage.py, element's Id named 'warningLayer' is required
-*/
-function pageOffset() {
-    lay  = document.getElementById('warningLayer');
-    lay.style.top = document.body.scrollTop + 300; //document.body.clientWidth/2;
-    lay.style.left = (windowWidth() -250)/2;
-    setTimeout('pageOffset()',100);
-}
-
-/*
-* Used by CorrelationPage.py, 
-*/
-function windowWidth(){
-   if (document.getElementById){
-
-       if (window.innerWidth)
-         return window.innerWidth;
-       if (document.documentElement&&document.documentElement.clientWidth)
-         return document.documentElement.clientWidth;
-       if (document.body.clientWidth)
-         return document.body.clientWidth;
-   }
-}
-
-/*
-* Used by PartialCorrInputPage.py, 
-*/
-function setAllAsTarget(thisForm, inputRadioNames){
-    var radioArray = new Array();
-    radioArray = inputRadioNames.split(',');
-
-        for (var i = 0; i < radioArray.length; i++){
-	    radioElement = thisForm[radioArray[i]];
-		
-        for (var j = 0; j < radioElement.length; j++){
-            radioElement[j].checked = false;
-            value = radioElement[j].value;
-            if (value == "target"){
-                    radioElement[j].checked = true;
-                }
-        }
-	}
-}
-
-/*
-* Used by PartialCorrInputPage.py, 
-*/
-function setAllAsIgnore(thisForm, inputRadioNames){
-    var radioArray = new Array();
-    radioArray = inputRadioNames.split(',');
-
-        for (var i = 0; i < radioArray.length; i++){
-	    radioElement = thisForm[radioArray[i]];
-		
-	    for (var j = 0; j < radioElement.length; j++){
-		    radioElement[j].checked = false;
-		    value = radioElement[j].value;
-	        if (value == "ignored"){
-                    radioElement[j].checked = true;
-                }
-	    }
-	}
-}
-
-/*
-* moved from beta2.js 
-*/
-function checkUncheck(value, permCheck, bootCheck) {
-		 if(value=="physic") {
-			  permCheck.checked=true
-			  bootCheck.checked=false
-	 } else {
-		  permCheck.checked=true
-			  bootCheck.checked=true
-		 }
-}
-
-/*
-updated by NL: 06-07-2010
-add new item at the top
-*/
-function addToList(text, value, list) {
-	for (var j = list.length-1; j >=0; j--){
-		list.options[j+1]= new Option(list.options[j].text,list.options[j].value);
-	}
-	list.options[0] = new Option(text, value)
-}
-
-function removeFromList(index, list) {
-	list.options[index] = null
-	list.options[index].selected = true
-	if (list.length == 1) {
-		list.options[0].selected = true
-	}
-}
-
-function swapOptions(index1, index2, list) {
-	 text1 = list.options[index1].text
-	 value1 = list.options[index1].value
-	 text2 = list.options[index2].text
-	 value2 = list.options[index2].value
-	 list.options[index1] = new Option(text2, value2)
-	 list.options[index2] = new Option(text1, value1)
-	 list.options[index2].selected = true
-}
-
-function selectAllElements(list) {
-	 for(i=0; i<list.length; i++) {
-		  list.options[i].selected = true
-	 }
-}
-
-function deleteAllElements(list) {
-	 list.length=0
-}
-
-function formInNewWindow(thisform) {
-	 var d = new Date()
-	 winName = "Intvl"+d.getDate()+""+d.getMonth()+""+d.getHours()+""+d.getMinutes()+""+d.getSeconds();
-	 win = window.open("", winName, "toolbar=yes,location=yes,directories=yes,status=yes,menubar=yes,scrollbars=yes,copyhistory=yes,resizable=yes");
-	 thisform.target = winName;
-	 thisform.submit();
-}
-
-/*
-* moved from whats_new.html 
-*/
-function colapse(id)
-{
-    if( document.getElementById(id).style.display =='none')
-    {
-        document.getElementById(id).style.display ='';
-    }
-    else if( document.getElementById(id).style.display =='')
-    {
-        document.getElementById(id).style.display ='none';
-    }
-}