--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/Blast output page example trimmed_files/blast.js	Tue May 06 17:36:10 2014 +0200
@@ -0,0 +1,308 @@
+
+function printfire()
+{
+    // Firefox
+    if (document.createEvent && window.dispatchEvent) {
+        printfire.args = arguments;
+        var ev = document.createEvent("Events");
+        ev.initEvent("printfire", false, true);
+        window.dispatchEvent(ev);
+    }
+}
+//This functions handle setting defaults for protein or nulcleotide suite  search page when
+//one of blast program radio buttons is clicked - not used now
+function AdjustMoreOptionsStyle()
+{
+	var optsEl = document.getElementById("moreopts");	
+	if(optsEl && optsEl.style.height != "0px") {
+		optsEl.style.height = optsEl.scrollHeight + "px";			
+	}
+}
+
+//Strip (taxid:XXX) from organism list selection
+//sgRunFunc="AdjustOrganism();" 
+function AdjustOrganism()
+{
+	var words = $("qorganism").value.split(" (taxid");
+	$("qorganism").value = words[0];		
+}
+
+
+/* JS Common to all BLAST pages */
+
+
+function setResultsTarget()
+{
+	//var newWin = $("newwin");	
+	var newWin = this;	
+	var searchFrm = $(newWin.getAttribute("form"));				
+	if(newWin && newWin.checked == true) {
+		if(newWin.getAttribute("winType") == "random") {		    
+			searchFrm.target = "Blast_Results_for_" + Math.floor(Math.pow(10,10) *Math.random());
+		}
+		else {
+			searchFrm.target = $("resPageTarget").value;		
+		}
+	}	
+	else {		
+		searchFrm.target = "";
+	}
+}
+
+function diffFromDefault(elem)
+{
+    var currentVal = "";
+    var ret = 0;
+
+    if (!(elem)) return;
+    var defVal = elem.getAttribute("defVal"); //Default value    
+    var elShowDiff = utils.getParent(elem);
+    if(!elem.type) {//div element for example
+        //Check if parent elem has "hide" class
+        if(utils.hasClass(utils.getParent(elem), "hide")) {
+            currentVal = "hide";
+        }
+        else {
+            currentVal = "show";
+        }   
+        elShowDiff = elem;
+    }
+    else if(elem.type == "select-one") {
+        if(elem[elem.selectedIndex].value) currentVal = elem[elem.selectedIndex].value;
+        //If Default value is not specified - the first one in the selection list is the default          
+        if (!defVal && elem[0].value) defVal = elem[0].value;  
+    }
+    else if(elem.type == "select-multiple") {
+	    currentVal = "";//for now
+    }
+    else if(elem.type == "checkbox") {
+        //alert("defVal1=" + elem.id + " " + defVal);
+        //var defVal = elem.defVal; //Default value
+        //alert("defVal2=" + defVal);
+        if(elem.checked == true) currentVal = "checked"
+        else  currentVal = "unchecked";        
+    }
+    else {
+        currentVal = elem.value;
+    }
+    
+    
+    var numdiff = parseInt($("NUM_DIFFS").value,10);    
+    var optsNumDiff = parseInt($("NUM_OPTS_DIFFS").value,10);    
+    if(defVal != currentVal) {        
+        if(!utils.hasClass(elShowDiff, "nondef")) {        
+            utils.addClass(elShowDiff, "nondef");            
+            numdiff++;            
+            if(utils.hasClass(elem,"opts")) optsNumDiff++;        
+        }     
+        ret = 1;        
+    }
+    else {        
+        if(utils.hasClass(elShowDiff, "nondef")) {
+            utils.removeClass(elShowDiff, "nondef");        
+            //alert("noDiff-" + elem.id);
+            if(numdiff != 0) numdiff--;       
+            if(utils.hasClass(elem,"opts")) optsNumDiff--; 
+        }         
+        ret=0;
+    }
+    $("NUM_DIFFS").value = numdiff;       
+    $("NUM_OPTS_DIFFS").value = optsNumDiff;       
+    if(numdiff > 0) {    
+        $("diffMes").style.display = "inline";          
+    }
+    else {
+        $("diffMes").style.display = "none";           
+    }      
+    //alert(elem.id + " " + $("NUM_DIFFS").value);
+    return ret;    
+}
+
+function setDefalValue(elem)
+{
+    var currentVal;    
+    var defVal = elem.getAttribute("defVal"); //Default value    
+    if(elem.type == "select-one") {
+        //If Default value is not specified - the first one in the selection list is the default          
+        if(!defVal) defVal = elem[0].value;  
+        for(j=0; j < elem.options.length; j++) {
+		    if(elem.options[j].value == defVal) {
+		        elem.options[j].selected = true;
+		        break;
+		    }
+        }       
+    }
+    else if(elem.type == "checkbox" || elem.type == "radio") {        
+        if(!defVal) defVal = "checked";
+        if(defVal == "checked") elem.checked = true        
+        else elem.checked = false;
+    }
+    else {
+        if(!defVal) defVal = "";
+        elem.value = defVal;
+    }
+    
+    var elShowDiff = utils.getParent(elem);    
+    if(utils.hasClass(elShowDiff, "nondef")) {
+        utils.removeClass(elShowDiff, "nondef");        
+    }            
+    //alert(elem.id + " " + $("NUM_DIFFS").value);    
+}
+
+function newResultsWinInit() {
+    jQuery("[class='newwin']").each(function(index) {
+        utils.addEvent(this, "click", setResultsTarget, false);
+    });
+}
+
+function resetOrganismSuggest(orgEntryElem) 
+{
+    //suggestHint is in the hidden field used for SRA
+    var defaultMessage = ($("suggestHint")) ? $("suggestHint").value : "Enter organism name or id--completions will be suggested";
+    var suggestHint = $("qorganism").getAttribute("suggestHint");
+    if(suggestHint) defaultMessage = suggestHint;
+    if(orgEntryElem.value == "") {
+        orgEntryElem.value = defaultMessage;
+    }
+    if(orgEntryElem.value == defaultMessage) {            
+        utils.addClass(orgEntryElem,"orgHint");
+    }
+}  
+
+function setupOrganismSuggest(orgEntryElem)
+{
+    resetOrganismSuggest(orgEntryElem); 
+    utils.addEvent(orgEntryElem, "focus", function() {
+        clearOrgSuggest(orgEntryElem);        
+     }, false);     
+}
+
+function clearOrgSuggest(orgEntryElem)
+{
+    if(utils.hasClass(orgEntryElem,"orgHint")) {
+        orgEntryElem.value="";            
+        utils.removeClass(orgEntryElem,"orgHint");
+    }
+}    
+
+function InitCustomButton(bn)
+{
+  utils.addEvent(bn, "mouseover", function() {this.src = this.getAttribute("mouseovImg");}, false);
+  utils.addEvent(bn, "mouseout", function() {this.src = this.getAttribute("mouseoutImg");}, false);
+  utils.addEvent(bn, "mousedown", function() {this.src = this.getAttribute("mousedownImg");}, false);
+  utils.addEvent(bn, "mouseup", function() {this.src = this.getAttribute("mouseupImg");}, false);    
+}
+
+function showHideElem(id,hide)
+{
+  if($(id)) {
+    if(hide) {
+	    if(!utils.hasClass($(id),"hidden")) utils.addClass($(id), "hidden");	    
+	}
+	else {
+	    if(utils.hasClass($(id),"hidden")) utils.removeClass($(id), "hidden");	    
+	}	
+  }
+}
+
+function resetOrganismControls(orgEntryElem) {
+    resetOrganismSuggest(orgEntryElem);
+    if ($("orgExcl")) $("orgExcl").checked = false;
+    utils.replaceInHtml("", $("orgs"));
+    if ($("frOrgs")) utils.replaceInHtml("", $("frOrgs"));
+    if ($("numOrg")) $("numOrg").value = 1;
+}
+
+function AddOrgRow(e,orgName,exclName) {
+    e = e || window.event;
+    utils.preventDefault(e);
+    var checkedExclude = new Array();
+    var orgDict = jQuery($($("qorganism"))).ncbiautocomplete("option","dictionary");
+    orgDict = (!orgDict || orgDict == "") ? "taxids_sg" : orgDict;
+    var len = $("qorganism").getAttribute("size");
+    
+    var newOrgFieldID = "qorganism" + $("numOrg").value;
+    var newOrgField = " <div><input name=\"" + orgName + $("numOrg").value + "\" size=\"" + len + "\" id=\"" + newOrgFieldID +
+                       "\" type=\"text\" data-jigconfig=\"dictionary:'" + orgDict + "'\" autocomplete=\"off\" class=\"jig-ncbiautocomplete multiOrg\" />";
+    if (exclName != "") {
+        newOrgField += "<span class=\"orgExcl\">" +
+                       "<input type=\"checkbox\" name=\"" + exclName + $("numOrg").value + "\" class=\"oExcl cb\" id=\"orgExcl" + $("numOrg").value + "\" />" +
+                       "<label for=\"orgExcl" + $("numOrg").value + "\" class=\"right oExclRl\">Exclude</label></span>";
+    }
+    newOrgField += "</div>";
+    if (navigator.userAgent.match(/ie/i)) {
+        for (i = 1; i < $("numOrg").value; i++) {
+            if ($("orgExcl" + i)) checkedExclude[i] = $("orgExcl" + i).checked;
+        }
+    }
+    if (!navigator.userAgent.match(/firefox/i)) {    
+        jQuery($($(orgs))).append(newOrgField,true);
+    }
+    else {
+        utils.insertInHtml(newOrgField, $("orgs"));
+    }
+
+    if (navigator.userAgent.match(/ie/i)) {
+        for (i = 1; i < $("numOrg").value; i++) {
+            if ($("orgExcl" + i)) $("orgExcl" + i).checked = checkedExclude[i];
+        }
+    }
+    setupOrganismSuggest($(newOrgFieldID));
+    jQuery($($(newOrgFieldID))).ncbiautocomplete();
+    $("numOrg").value++;    
+}
+
+function adjustOrgVal(orgEntryElem) 
+{
+    //if (utils.hasClass($("searchForm").EQ_MENU, "orgHint")) $("searchForm").EQ_MENU.value = "";
+    clearOrgSuggest(orgEntryElem);
+    if ($("numOrg")) {
+        for (i = 1; i < $("numOrg").value; i++) {
+            if ($("qorganism" + i)) {
+                clearOrgSuggest($("qorganism" + i));
+            }
+        }
+    }
+}
+
+function getUrlCompForEntryField(elem) {
+    var url = "";
+    if (elem && elem.value != "") {
+        url = "&" + elem.name + "=" + escape(elem.value);
+    }
+    return url;
+}
+
+
+function getUrlCompForCheckedField(elem) {
+    var url = "";
+    if (elem && elem.checked) {
+        url = "&" + elem.name + "=" + elem.value;
+    }
+    return url;
+
+}
+
+function getUrlCompForOptionsField(elem) {
+    var url = "";
+    if (elem) {
+        url = "&" + elem.name + "=" + elem[elem.selectedIndex].value;
+    }
+    return url;
+}
+
+function getUrlCompForMultiOptionsField(elem) {
+    var url = "";
+    if (elem) {
+        for (i = 0; i < elem.options.length; i++) {
+            if (elem.options[i].selected) {
+                url += "&" + elem.name + "=" + elem.options[i].value;
+            }
+        }
+    }
+    return url;
+}
+
+  
+utils.addEvent(window, 'load', newResultsWinInit, false);
+