view Blast output page example trimmed_files/blast.js @ 20:53cd304c5f26

Add index for multiple results; fix layout of query ruler for edge case The query ruler did not layout nicely if the last segment was too short to contain the text. For very short last segments the text is now displayed after the ruler.

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);