Mercurial > repos > jankanis > blast2html
view Blast output page example trimmed_files/format.js @ 26:eee23a36c582
add a warning if galaxy strips the html header/stylesheet
author | Jan Kanis <jan.code@jankanis.nl> |
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date | Thu, 15 May 2014 12:44:44 +0200 |
parents | ffe82516a83c |
children |
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function UpdateDisplayTypes(displayTypes) { dispMenu = displayTypes.options; for(i=0; i < dispMenu.length; i++) { //if(!utils.hasClass(displayTypes,"psiBlast") && !utils.hasClass(displayTypes,"phiBlast") || if($("stepNumber").value == "" || $("stepNumber").value < 2) { if(dispMenu[i].value.indexOf("PSSM") != -1) { dispMenu[i--] = null; //break; } } } } function GetIndexByValue(selectElem,val) { var idx = 0; var opts = selectElem.options; for(i=0; i < opts.length; i++) { if(opts[i].value == val) { idx = i; break; } } return idx; } function resetAdvView(show) { var advView = $("advView"); if(show) { if(utils.hasClass(advView, "hidden")) { utils.removeClass(advView, "hidden"); } } else { utils.addClass(advView, "hidden"); } } function ShowOrHide(hide,elem) { if(hide) { if(!utils.hasClass(elem, "hidden")) { utils.addClass(elem, "hidden"); } } else { if(utils.hasClass(elem, "hidden")) { utils.removeClass(elem, "hidden"); } } } function UpdateFormatTypes(form) { var selectedObjType = form.FORMAT_OBJECT[form.FORMAT_OBJECT.selectedIndex].value; var hideAdvView = false; bioseqFormatHide = true; pssmFormatHide = true; pssmScFormatHide = true; formatTypeHide = true; if (selectedObjType == "Alignment") { formatObjectSelectedIndex = 0; //HTML formatTypeHide = false; hideAdvView = true; } if (selectedObjType == "PSSM") { formatObjectSelectedIndex = GetIndexByValue(form.FORMAT_TYPE,"Text"); pssmFormatHide = false; } if (selectedObjType == "PSSM_Scoremat") { formatObjectSelectedIndex = GetIndexByValue(form.FORMAT_TYPE,"ASN.1"); pssmScFormatHide = false; } else if (selectedObjType == "Bioseq") { formatObjectSelectedIndex = GetIndexByValue(form.FORMAT_TYPE,"ASN.1"); bioseqFormatHide = false; } form.FORMAT_TYPE.selectedIndex = formatObjectSelectedIndex; ShowOrHide(formatTypeHide,form.FORMAT_TYPE); if ($("bioseqFormat")) { ShowOrHide(bioseqFormatHide,$("bioseqFormat")); $("bioseqFormat").readOnly=true; } if ($("pssmFormat")) { ShowOrHide(pssmFormatHide,$("pssmFormat")); $("pssmFormat").readOnly=true; } if ($("pssmScFormat")) { ShowOrHide(pssmScFormatHide,$("pssmScFormat")); $("pssmScFormat").readOnly=true; } resetAdvView(hideAdvView); } function ResetForm() { //var defValNodes = cssQuery(".reset"); defValNodes = $("FormatForm").elements; for(i=0; i < defValNodes.length; i++) { if(utils.hasClass(defValNodes[i],"reset")) setDefalValue(defValNodes[i]); } if ($("FormatForm").FORMAT_OBJECT.type == "select-one") { UpdateFormatTypes($("FormatForm")); UpdateDisplayTypes($("FormatForm").FORMAT_OBJECT); } if($("FormatForm").RUN_PSIBLAST.checked) setDefalValue($("FormatForm").I_THRESH) else $("FormatForm").I_THRESH.value=""; //resetOrganismSuggest($("FormatForm").FORMAT_ORGANISM); resetOrganismControls($("FormatForm").FORMAT_ORGANISM); //TO DO: add threshold } function LimitByHitlistSize(list) { var listBreak = false; var optSel = false; for(i=0; i < list.options.length; i++) { var optVal = parseInt(list.options[i].value ,10); var hitListSize = parseInt($("maxNumSeq").value ,10); if(list.options[i].selected) optSel = true; if(optVal >= hitListSize) { if(!optSel) {list.options[i].selected = true;} list.options.length = i + 1; break; } } } function AddFormatOrgField(e) { AddOrgRow(e, "FORMAT_ORGANISM", "FORMAT_ORG_EXCLUDE"); } function initSubmit() { } function adjustFormatOptions() { var alignView = $("FormatForm").ALIGNMENT_VIEW; var formatType = $("FormatForm").FORMAT_TYPE; var queryAnch = formatType[formatType.selectedIndex].value == "HTML" && (alignView[alignView.selectedIndex].value != "Pairwise" && alignView[alignView.selectedIndex].value != "PairwiseWithIdentities"); var dynFormatQA = !$("FormatForm").OLD_VIEW.checked && queryAnch; dynFormatPW = !$("FormatForm").OLD_VIEW.checked && formatType[formatType.selectedIndex].value == "HTML" && (alignView[alignView.selectedIndex].value == "Pairwise" || alignView[alignView.selectedIndex].value == "PairwiseWithIdentities"); UpdateDescriptions(dynFormatPW); if (dynFormatPW) { jQuery("#frmAln").addClass("hidden"); if (!utils.hasClass($("shl"), "hidden")) jQuery("#shl").addClass("hidden"); //hide SHOW_LINKOUT jQuery("#gts").addClass("hidden"); //hide GET_SEQUENCE jQuery("#scf").removeClass("hidden");//show CDS_FEAT $("FormatForm").SHOW_LINKOUT.checked = true; } else { if(dynFormatQA) $("FRM_ALIGNMENTS").selectedIndex = $("FRM_DESCRIPTIONS").selectedIndex; jQuery("#frmAln").removeClass("hidden"); if (dynFormatQA) { if (!utils.hasClass($("shl"), "hidden")) jQuery("#shl").addClass("hidden"); //hide SHOW_LINKOUT } else { jQuery("#shl").removeClass("hidden"); } if (queryAnch) { jQuery("#scf").addClass("hidden"); //hide CDS_FEAT } else {//pairwise old_view=false jQuery("#scf").removeClass("hidden"); //hide CDS_FEAT } jQuery("#gts").removeClass("hidden"); //GET_SEQUENCE } if ($("blastSpec").value == "VecScreen") { adjustVecscreen(dynFormatPW); } } function adjustVecscreen(dynFormatPW) { var dfltDescrInd = 0; //0 var dfltDynDescrInd = 5; //1000 var dfltAlnInd = 6; //1000 if (dynFormatPW) { utils.addClass($("lr"), "hidden"); $("FRM_DESCRIPTIONS").selectedIndex = dfltDynDescrInd; } else { utils.removeClass($("lr"), "hidden"); $("FRM_DESCRIPTIONS").selectedIndex = dfltDescrInd; } $("FRM_ALIGNMENTS").selectedIndex = dfltAlnInd; } function UpdateDescriptions(removeZero) { if (removeZero) { dispMenu = $("FormatForm").DESCRIPTIONS; dispMenu.remove(0); } else { dispMenu = $("FormatForm").DESCRIPTIONS; if (dispMenu.options[0].value != "0") { if (navigator.userAgent.match(/ie/i)) { dispMenu.add(new Option("0", "0"), 0); } else { dispMenu.add(new Option("0", "0"), dispMenu[0]); } } } } function InitDynFormatOptions() { if ($("OLD_VIEW")) { utils.addEvent($("FormatForm").OLD_VIEW, "click", adjustFormatOptions, false); utils.addEvent($("FormatForm").ALIGNMENT_VIEW,"change", adjustFormatOptions, false); utils.addEvent($("FormatForm").FORMAT_TYPE, "change", adjustFormatOptions, false); adjustFormatOptions(); } } function InitFormatPage() { if ($("FormatForm").FORMAT_OBJECT.type == "select-one") { UpdateDisplayTypes($("FormatForm").FORMAT_OBJECT); UpdateFormatTypes($("FormatForm")); list = $("FormatForm").FORMAT_OBJECT; utils.addEvent(list, "change", function() { UpdateFormatTypes($("FormatForm")); }, false); } utils.addEvent($("resetAll"), "click", ResetForm, false); if($("maxNumSeq") != null) { if($("maxNumSeq").value != "") { LimitByHitlistSize($("FormatForm").DESCRIPTIONS); LimitByHitlistSize($("FormatForm").ALIGNMENTS); LimitByHitlistSize($("FormatForm").NUM_OVERVIEW); } } setupOrganismSuggest($("FormatForm").FORMAT_ORGANISM); utils.addEvent($("FormatForm"), "submit", function() { adjustOrgVal($("FormatForm").FORMAT_ORGANISM);}, false); if ($("addOrg")) utils.addEvent($("addOrg"), "click", AddFormatOrgField, false); InitDynFormatOptions(); /* add this code if decide image for View Report var imgButtons = jQuery("[class='viewReport']"); for (var i = 0; i < imgButtons.length; i++) { var l = imgButtons[i]; utils.addEvent(l, "click", function() {$("FormatForm").submit();}, false); utils.addEvent(l, "mouseover", function() {l.src = l.getAttribute("mouseovImg");}, false); utils.addEvent(l, "mouseout", function() {l.src = l.getAttribute("mouseoutImg");}, false); utils.addEvent(l, "mousedown", function() {l.src = l.getAttribute("mousedownImg");}, false); utils.addEvent(l, "mouseup", function() {l.src = l.getAttribute("mouseupImg");}, false); } */ } utils.addEvent(window, 'load', InitFormatPage, false);