70ef68d210fa4b76c16f7b8e8142a8180f75052a
tdreszer
Fri Jun 17 20:14:06 2011 -0700
Big checkin of jquery 1.5.1, jquery-ui 1.8 and ui-dropdownchecklist 1.3. Needs more testing and CSS work. DDCL is working on FF, Chrome and IE. Both Chrome and IE support required tiny changes to the DDCL wigit code. DDCL may still have problems with IE. Other jquery wigits have been tested at a cursory level and work fine. Ajax calls may need an extrat dataType: html param. Dialog (popup) needs CSS tuning.
diff --git src/hg/js/hgTracks.js src/hg/js/hgTracks.js
index 8b48cdd..f3043d8 100644
--- src/hg/js/hgTracks.js
+++ src/hg/js/hgTracks.js
@@ -1,2699 +1,2715 @@
// Javascript for use in hgTracks CGI
var debug = false;
var originalPosition;
var originalSize;
var originalCursor;
var originalMouseOffset = {x:0, y:0};
var clickClipHeight;
var revCmplDisp;
var insideX;
var startDragZoom = null;
var newWinWidth;
var imageV2 = false;
var imgBoxPortal = false;
var blockUseMap = false;
var mapItems;
var trackImg; // jQuery element for the track image
var trackImgTbl; // jQuery element used for image table under imageV2
var imgAreaSelect; // jQuery element used for imgAreaSelect
var originalImgTitle;
var autoHideSetting = true; // Current state of imgAreaSelect autoHide setting
var selectedMenuItem; // currently choosen context menu item (via context menu).
var browser; // browser ("msie", "safari" etc.)
var mapIsUpdateable = true;
var currentMapItem;
var floatingMenuItem;
var visibilityStrsOrder = new Array("hide", "dense", "full", "pack", "squish"); // map browser numeric visibility codes to strings
var supportZoomCodon = false;
-var newJQuery = false; // temporary #define for use while testing jQuery 1.5/jQuery UI 1.8 in dev trees
function initVars(img)
{
// There are various entry points, so we call initVars in several places to make sure this variables get updated.
if(!originalPosition) {
// remember initial position and size so we can restore it if user cancels
originalPosition = getOriginalPosition();
originalSize = $('#size').text();
originalCursor = jQuery('body').css('cursor');
}
}
function selectStart(img, selection)
{
initVars();
var now = new Date();
startDragZoom = now.getTime();
blockUseMap = true;
// vvvvvvv Should be obsolete since maps items are ignored when startDragZoom is set
// if(imageV2 == false) {
// jQuery.each(jQuery.browser, function(i, val) {
// if(i=="msie" && val) {
// // Very hacky way to solve following probem specif to IE:
// // If the user ends selection with the mouse in a map box item, the map item
// // is choosen instead of the selection; to fix this, we remove map box items
// // during the mouse selection process.
// mapHtml = $('#map').html();
// $('#map').empty();
// }
// });
// }
// ^^^^^^^^ Should be obsolete since maps items are ignored when startDragZoom is set
}
function setPositionByCoordinates(chrom, start, end)
{
var newPosition = chrom + ":" + commify(start) + "-" + commify(end);
setPosition(newPosition, commify(end - start + 1));
return newPosition;
}
function getPositionElement()
{
// Return position box object
var tags = document.getElementsByName("position");
// There are multiple tags with name == "position" (the visible position text input
// and a hidden with id='positionHidden'); we return value of visible element.
for (var i = 0; i < tags.length; i++) {
var ele = tags[i];
if(ele.id != "positionHidden") {
return ele;
}
}
return null;
}
function getPosition()
{
// Return current value of position box
var ele = getPositionElement();
if(ele != null) {
return ele.value;
}
return null;
}
function getOriginalPosition()
{
return originalPosition || getPosition();
}
function setPosition(position, size)
{
// Set value of position and size (in hiddens and input elements).
// We assume size has already been commified.
// Either position or size may be null.
if(position) {
// There are multiple tags with name == "position" (one in TrackHeaderForm and another in TrackForm).
var tags = document.getElementsByName("position");
for (var i = 0; i < tags.length; i++) {
var ele = tags[i];
ele.value = position;
}
}
if(size) {
$('#size').text(size);
}
}
function checkPosition(img, selection)
{
// return true if user's selection is still w/n the img (including some slop).
var imgWidth = jQuery(img).width();
var imgHeight = jQuery(img).height();
var imgOfs = jQuery(img).offset();
var slop = 10;
// We ignore clicks in the gray tab and track title column (we really should suppress all drag activity there,
// but I don't know how to do that with imgAreaSelect).
var leftX = revCmplDisp ? imgOfs.left - slop : imgOfs.left + insideX - slop;
var rightX = revCmplDisp ? imgOfs.left + imgWidth - insideX + slop : imgOfs.left + imgWidth + slop;
return (selection.event.pageX >= leftX) && (selection.event.pageX < rightX)
&& (selection.event.pageY >= (imgOfs.top - slop)) && (selection.event.pageY < (imgOfs.top + imgHeight + slop));
}
function pixelsToBases(img, selStart, selEnd, winStart, winEnd)
// Convert image coordinates to chromosome coordinates
{
var insideX = parseInt(document.getElementById("hgt.insideX").value);
var imgWidth = jQuery(img).width() - insideX;
var width = winEnd - winStart;
var mult = width / imgWidth; // mult is bp/pixel multiplier
var startDelta; // startDelta is how many bp's to the right/left
if(revCmplDisp) {
var x1 = Math.min(imgWidth, selStart);
startDelta = Math.floor(mult * (imgWidth - x1));
} else {
var x1 = Math.max(insideX, selStart);
startDelta = Math.floor(mult * (x1 - insideX));
}
var endDelta;
if(revCmplDisp) {
endDelta = startDelta;
var x2 = Math.min(imgWidth, selEnd);
startDelta = Math.floor(mult * (imgWidth - x2));
} else {
var x2 = Math.max(insideX, selEnd);
endDelta = Math.floor(mult * (x2 - insideX));
}
var newStart = winStart + startDelta;
var newEnd = winStart + 1 + endDelta;
if(newEnd > winEnd) {
newEnd = winEnd;
}
return {chromStart : newStart, chromEnd : newEnd};
}
function selectionPixelsToBases(img, selection)
// Convert selection x1/x2 coordinates to chromStart/chromEnd.
{
var winStart = parseInt(document.getElementById("hgt.winStart").value);
var winEnd = parseInt(document.getElementById("hgt.winEnd").value);
return pixelsToBases(img, selection.x1, selection.x2, winStart, winEnd);
}
function updatePosition(img, selection, singleClick)
{
var chromName = document.getElementById("hgt.chromName").value;
var winStart = parseInt(document.getElementById("hgt.winStart").value);
var winEnd = parseInt(document.getElementById("hgt.winEnd").value);
var pos = pixelsToBases(img, selection.x1, selection.x2, winStart, winEnd);
if(typeof imgBoxPortalStart != "undefined" && imgBoxPortalStart) {
winStart = imgBoxPortalStart;
winEnd = imgBoxPortalEnd;
}
// singleClick is true when the mouse hasn't moved (or has only moved a small amount).
if(singleClick) {
var center = (pos.chromStart + pos.chromEnd)/2;
pos.chromStart = Math.floor(center - newWinWidth/2);
pos.chromEnd = pos.chromStart + newWinWidth;
}
setPositionByCoordinates(chromName, pos.chromStart+1, pos.chromEnd);
return true;
}
function selectChange(img, selection)
{
initVars();
if(selection.x1 != selection.x2) { // TODO: Larry could you examine this?
if(checkPosition(img, selection)) {
updatePosition(img, selection, false);
jQuery('body').css('cursor', originalCursor);
} else {
jQuery('body').css('cursor', 'not-allowed');
}
}
return true;
}
function selectEnd(img, selection)
{
var now = new Date();
var doIt = false;
if(originalCursor != null)
jQuery('body').css('cursor', originalCursor);
// ignore releases outside of the image rectangle (allowing a 10 pixel slop)
if(autoHideSetting && checkPosition(img, selection)) {
// ignore single clicks that aren't in the top of the image (this happens b/c the clickClipHeight test in selectStart
// doesn't occur when the user single clicks).
doIt = startDragZoom != null || selection.y1 <= clickClipHeight;
}
if(doIt) {
// startDragZoom is null if mouse has never been moved
if(updatePosition(img, selection, (selection.x2 == selection.x1) || startDragZoom == null || (now.getTime() - startDragZoom) < 100)) {
jQuery('body').css('cursor', 'wait');
document.TrackHeaderForm.submit();
}
} else {
setPosition(originalPosition, originalSize);
originalPosition = originalSize = null;
// if(mapHtml) {
// $('#map').append(mapHtml);
// }
}
// mapHtml = null;
startDragZoom = null;
setTimeout('blockUseMap=false;',50); // Necessary incase the selectEnd was over a map item. select takes precedence.
return true;
}
$(window).load(function () {
jQuery.each(jQuery.browser, function(i, val) {
if(val) {
browser = i;
}
});
// jQuery load function with stuff to support drag selection in track img
if(browser == "safari" && navigator.userAgent.indexOf("Chrome") != -1) {
// Handle the fact that (as of 1.3.1), jQuery.browser reports "safari" when the browser is in fact Chrome.
browser = "chrome";
}
// Safari has the following bug: if we update the hgTracks map dynamically, the browser ignores the changes (even
// though if you look in the DOM the changes are there); so we have to do a full form submission when the
// user changes visibility settings or track configuration.
//
// Chrome used to have this problem too, but this problem seems to have gone away as of
// Chrome 5.0.335.1 (or possibly earlier).
mapIsUpdateable = browser != "safari";
loadImgAreaSelect(true);
if($('#hgTrackUiDialog'))
$('#hgTrackUiDialog').hide();
// Don't load contextMenu if jquery.contextmenu.js hasn't been loaded
if(trackImg && jQuery.fn.contextMenu) {
$('#hgTrackUiDialog').hide();
if(imageV2) {
$("map[name!=ideoMap]").each( function(t) { parseMap($(this,false));});
} else {
// XXXX still under debate whether we have to remove the map
parseMap($('#map'),true);
$('#map').empty();
}
originalImgTitle = trackImg.attr("title");
if(imageV2) {
loadContextMenu(trackImgTbl);
//$(".trDraggable,.nodrop").each( function(t) { loadContextMenu($(this)); });
// FIXME: why isn't rightClick for sideLabel working??? Probably because there is no link!
} else {
loadContextMenu(trackImg);
trackImg.mousemove(
function (e) {
mapEvent(e);
}
);
trackImg.mousedown(
function (e) {
mapMouseDown(e);
}
);
}
}
});
function loadImgAreaSelect(firstTime)
{
var rulerEle = document.getElementById("hgt.rulerClickHeight");
var dragSelectionEle = document.getElementById("hgt.dragSelection");
// disable if ruler is not visible.
if((dragSelectionEle != null) && (dragSelectionEle.value == '1') && (rulerEle != null)) {
var imgHeight = 0;
trackImg = $('#img_data_ruler');
if(trackImg == undefined || trackImg.length == 0) { // Revert to old imageV1
trackImg = $('#trackMap');
imgHeight = jQuery(trackImg).height();
} else {
imageV2 = true;
trackImgTbl = $('#imgTbl');
imgHeight = trackImg.height();
// XXXX Tim, I think we should get height from trackImgTbl, b/c it automatically adjusts as we add/delete items.
imgHeight = trackImgTbl.height();
}
clickClipHeight = parseInt(rulerEle.value);
newWinWidth = parseInt(document.getElementById("hgt.newWinWidth").value);
revCmplDisp = parseInt(document.getElementById("hgt.revCmplDisp").value) == 0 ? false : true;
insideX = parseInt(document.getElementById("hgt.insideX").value);
imgAreaSelect = jQuery((trackImgTbl || trackImg).imgAreaSelect({ selectionColor: 'blue', outerColor: '',
minHeight: imgHeight, maxHeight: imgHeight,
onSelectStart: selectStart, onSelectChange: selectChange, onSelectEnd: selectEnd,
autoHide: autoHideSetting, movable: false,
clickClipHeight: clickClipHeight}));
}
}
function makeItemsEnd(img, selection)
{
var image = $(img);
var imageId = image.attr('id');
var trackName = imageId.substring('img_data_'.length);
var chrom = document.getElementById("hgt.chromName").value;
var pos = selectionPixelsToBases(image, selection);
var command = document.getElementById('hgt_doJsCommand');
command.value = "makeItems " + trackName + " " + chrom + " " + pos.chromStart + " " + pos.chromEnd;
document.TrackHeaderForm.submit();
return true;
}
function setUpMakeItemsDrag(trackName)
{
// Set up so that they can drag out to define a new item on a makeItems track.
var img = $("#img_data_" + trackName);
if(img != undefined && img.length != 0) {
var trackImgTbl = $('#imgTbl');
var imgHeight = trackImgTbl.height();
jQuery(img.imgAreaSelect( { selectionColor: 'green', outerColor: '',
minHeight: imgHeight, maxHeight: imgHeight, onSelectEnd: makeItemsEnd,
autoHide: true, movable: false}));
}
}
function toggleTrackGroupVisibility(button, prefix)
{
// toggle visibility of a track group; prefix is the prefix of all the id's of tr's in the
// relevant group. This code also modifies the corresponding hidden fields and the gif of the +/- img tag.
if(arguments.length > 2)
return setTableRowVisibility(button, prefix, "hgtgroup", "group", false, arguments[2]);
else
return setTableRowVisibility(button, prefix, "hgtgroup", "group", false);
}
function setAllTrackGroupVisibility(newState)
{
// Set visibility of all track groups to newState (true means expanded).
// This code also modifies the corresponding hidden fields and the gif's of the +/- img tag.
$("img[id$='_button']").each( function (i) {
if(this.src.indexOf("/remove") > 0 || this.src.indexOf("/add") > 0)
toggleTrackGroupVisibility(this,this.id.substring(0,this.id.length - 7),newState); // clip '_button' suffix
});
return false;
}
/////////////////////////////////////////////////////
// Chrom Drag/Zoom/Expand code
jQuery.fn.chromDrag = function(){
this.each(function(){
// Plan:
// mouseDown: determine where in map: convert to img location: pxDown
// mouseMove: flag drag
// mouseUp: if no drag, then create href centered on bpDown loc with current span
// if drag, then create href from bpDown to bpUp
// if ctrlKey then expand selection to containing cytoBand(s)
var img = { top: -1, scrolledTop: -1, height: -1, left: -1, scrolledLeft: -1, width: -1 }; // Image dimensions all in pix
var chr = { name: "", reverse: false, beg: -1, end: -1, size: -1, top: -1, bottom: -1, left: -1, right: -1, width: -1 }; // chrom Dimenaions beg,end,size in bases, rest in pix
var pxDown = 0; // pix X location of mouseDown
var chrImg = $(this);
var mouseIsDown = false;
var mouseHasMoved = false;
var hilite = jQuery('
');
initialize();
function initialize(){
findDimensions();
if(chr.top == -1)
warn("chromIdeo(): failed to register "+this.id);
else {
hiliteSetup();
$('area.cytoBand').mousedown( function(e)
{ // mousedown on chrom portion of image only (map items)
updateImgOffsets();
pxDown = e.clientX - img.scrolledLeft;
var pxY = e.clientY - img.scrolledTop;
if(mouseIsDown == false
&& isWithin(chr.left,pxDown,chr.right) && isWithin(chr.top,pxY,chr.bottom)) {
mouseIsDown = true;
mouseHasMoved = false;
$(document).bind('mousemove',chromMove);
$(document).bind( 'mouseup', chromUp);
hiliteShow(pxDown,pxDown);
return false;
}
});
}
}
function chromMove(e)
{ // If mouse was down, determine if dragged, then show hilite
if ( mouseIsDown ) {
var pxX = e.clientX - img.scrolledLeft;
var relativeX = (pxX - pxDown);
if(mouseHasMoved || (mouseHasMoved == false && Math.abs(relativeX) > 2)) {
mouseHasMoved = true;
if(isWithin(chr.left,pxX,chr.right))
hiliteShow(pxDown,pxX);
else if(pxX < chr.left)
hiliteShow(pxDown,chr.left);
else
hiliteShow(pxDown,chr.right);
}
}
}
function chromUp(e)
{ // If mouse was down, handle final selection
$(document).unbind('mousemove',chromMove);
$(document).unbind('mouseup',chromUp);
chromMove(e); // Just in case
if(mouseIsDown) {
updateImgOffsets();
var bands;
var pxUp = e.clientX - img.scrolledLeft;
var pxY = e.clientY - img.scrolledTop;
//warn("chromIdeo("+chr.name+") selected range (pix):"+pxDown+"-"+pxUp+" chrom range (pix):"+chr.left+"-"+chr.right+" chrom range (bp):"+chr.name+":"+chr.beg+"-"+chr.end);
if(isWithin(0,pxY,img.height)) { // within vertical range or else cancel
var selRange = { beg: -1, end: -1, width: -1 };
var dontAsk = true;
if(e.ctrlKey) {
bands = findCytoBand(pxDown,pxUp);
if(bands.end > -1) {
pxDown = bands.left;
pxUp = bands.right;
mouseHasMoved = true;
dontAsk = false;
selRange.beg = bands.beg;
selRange.end = bands.end;
hiliteShow(pxDown,pxUp);
}
}
else if(mouseHasMoved) {
if( isWithin(-20,pxUp,chr.left) ) // bounded by chrom dimensions: but must remain within image!
pxUp = chr.left;
if( isWithin(chr.right,pxUp,img.width + 20) )
pxUp = chr.right;
if( isWithin(chr.left,pxUp,chr.right+1) ) {
selRange.beg = convertToBases(pxDown);
selRange.end = convertToBases(pxUp);
if(Math.abs(selRange.end - selRange.beg) < 20)
mouseHasMoved = false; // Drag so small: treat as simple click
else
dontAsk = false;
}
//else warn("chromIdeo("+chr.name+") NOT WITHIN HORIZONTAL RANGE\n selected range (pix):"+pxDown+"-"+pxUp+" chrom range (pix):"+chr.left+"-"+chr.right);
}
if(mouseHasMoved == false) { // Not else because small drag turns this off
hiliteShow(pxUp,pxUp);
var curBeg = parseInt($("#hgt\\.winStart").val()); // Note the escaped '.'
var curEnd = parseInt($("#hgt\\.winEnd").val());
var curWidth = curEnd - curBeg;
selRange.beg = convertToBases(pxUp) - Math.round(curWidth/2); // Notice that beg is based upon up position
selRange.end = selRange.beg + curWidth;
}
if(selRange.end > -1) {
// prompt, then submit for new position
selRange = rangeNormalizeToChrom(selRange,chr);
if(mouseHasMoved == false) { // Update highlight by converting bp back to pix
pxDown = convertFromBases(selRange.beg)
pxUp = convertFromBases(selRange.end)
hiliteShow(pxDown,pxUp);
}
//if((selRange.end - selRange.beg) < 50000)
// dontAsk = true;
if(dontAsk || confirm("Jump to new position:\n\n"+chr.name+":"+commify(selRange.beg)+"-"+commify(selRange.end)+" size:"+commify(selRange.width)) ) {
setPositionByCoordinates(chr.name, selRange.beg, selRange.end)
$('area.cytoBand').mousedown( function(e) { return false; }); // Stop the presses :0)
document.TrackHeaderForm.submit();
return true; // Make sure the setTimeout below is not called.
}
}
}
//else warn("chromIdeo("+chr.name+") NOT WITHIN VERTICAL RANGE\n selected range (pix):"+pxDown+"-"+pxUp+" chrom range (pix):"+chr.left+"-"+chr.right+"\n cytoTop-Bottom:"+chr.top +"-"+chr.bottom);
hiliteCancel();
setTimeout('blockUseMap=false;',50);
}
mouseIsDown = false;
mouseHasMoved = false;
}
function isWithin(beg,here,end)
{ // Simple utility
return ( beg <= here && here < end );
}
function convertToBases(pxX)
{ // Simple utility to convert pix to bases
var offset = (pxX - chr.left)/chr.width;
if(chr.reverse)
offset = 1 - offset;
return Math.round(offset * chr.size);
}
function convertFromBases(bases)
{ // Simple utility to convert bases to pix
var offset = bases/chr.size;
if(chr.reverse)
offset = 1 - offset;
return Math.round(offset * chr.width) + chr.left;
}
function findDimensions()
{ // Called at init: determine the dimensions of chrom from 'cytoband' map items
var lastX = -1;
$('area.cytoBand').each(function(ix) {
var loc = this.coords.split(",");
if(loc.length == 4) {
var myLeft = parseInt(loc[0]);
var myRight = parseInt(loc[2]);
if( chr.top == -1) {
chr.left = myLeft;
chr.right = myRight;
chr.top = parseInt(loc[1]);
chr.bottom = parseInt(loc[3]);
} else {
if( chr.left > myLeft)
chr.left = myLeft;
if( chr.right < parseInt(loc[2]))
chr.right = parseInt(loc[2]);
}
var range = this.title.substr(this.title.lastIndexOf(':')+1)
var pos = range.split('-');
if(pos.length == 2) {
if( chr.name.length == 0) {
chr.beg = parseInt(pos[0]);
//chr.end = parseInt(pos[1]);
chr.name = this.title.substring(this.title.lastIndexOf(' ')+1,this.title.lastIndexOf(':'))
} else {
if( chr.beg > parseInt(pos[0]))
chr.beg = parseInt(pos[0]);
}
if( chr.end < parseInt(pos[1])) {
chr.end = parseInt(pos[1]);
if(lastX == -1)
lastX = myRight;
else if(lastX > myRight)
chr.reverse = true; // end is advancing, but X is not, so reverse
} else if(lastX != -1 && lastX < myRight)
chr.reverse = true; // end is not advancing, but X is, so reverse
}
$(this).css( 'cursor', 'text');
$(this).attr("href","");
}
});
chr.size = (chr.end - chr.beg );
chr.width = (chr.right - chr.left);
}
function findCytoBand(pxDown,pxUp)
{ // Called when mouseup and ctrl: Find the bounding cytoband dimensions, both in pix and bases
var cyto = { left: -1, right: -1, beg: -1, end: -1 };
$('area.cytoBand').each(function(ix) {
var loc = this.coords.split(",");
if(loc.length == 4) {
var myLeft = parseInt(loc[0]);
var myRight = parseInt(loc[2]);
if(cyto.left == -1 || cyto.left > myLeft) {
if( isWithin(myLeft,pxDown,myRight) || isWithin(myLeft,pxUp,myRight) ) {
cyto.left = myLeft;
var range = this.title.substr(this.title.lastIndexOf(':')+1)
var pos = range.split('-');
if(pos.length == 2) {
cyto.beg = (chr.reverse ? parseInt(pos[1]) : parseInt(pos[0]));
}
}
}
if(cyto.right == -1 || cyto.right < myRight) {
if( isWithin(myLeft,pxDown,myRight) || isWithin(myLeft,pxUp,myRight) ) {
cyto.right = myRight;
var range = this.title.substr(this.title.lastIndexOf(':')+1)
var pos = range.split('-');
if(pos.length == 2) {
cyto.end = (chr.reverse ? parseInt(pos[0]) : parseInt(pos[1]));
}
}
}
}
});
return cyto;
}
function rangeNormalizeToChrom(selection,chrom)
{ // Called before presenting or using base range: make sure chrom selection is within chrom range
if(selection.end < selection.beg) {
var tmp = selection.end;
selection.end = selection.beg;
selection.beg = tmp;
}
selection.width = (selection.end - selection.beg);
selection.beg += 1;
if( selection.beg < chrom.beg) {
selection.beg = chrom.beg;
selection.end = chrom.beg + selection.width;
}
if( selection.end > chrom.end) {
selection.end = chrom.end;
selection.beg = chrom.end - selection.width;
if( selection.beg < chrom.beg) { // spans whole chrom
selection.width = (selection.end - chrom.beg);
selection.beg = chrom.beg + 1;
}
}
return selection;
}
function hiliteShow(down,cur)
{ // Called on mousemove, mouseup: set drag hilite dimensions
var topY = img.top;
var high = img.height;
var begX = -1;
var wide = -1;
if(cur < down) {
begX = cur + img.left;
wide = (down - cur);
} else {
begX = down + img.left;
wide = (cur - down);
}
$(hilite).css({ left: begX + 'px', width: wide + 'px', top: topY + 'px', height: high + 'px', display:'' });
$(hilite).show();
}
function hiliteCancel(left,width,top,height)
{ // Called on mouseup: Make green drag hilite disappear when no longer wanted
$(hilite).hide();
$(hilite).css({ left: '0px', width: '0px', top: '0px', height: '0px' });
}
function hiliteSetup()
{ // Called on init: setup of drag region hilite (but don't show yet)
$(hilite).css({ backgroundColor: 'green', opacity: 0.4, borderStyle: 'solid', borderWidth: '1px', bordercolor: '#0000FF' });
$p = $(chrImg);
$(hilite).css({ display: 'none', position: 'absolute', overflow: 'hidden', zIndex: 1 });
jQuery($(chrImg).parents('body')).append($(hilite));
return hilite;
}
function updateImgOffsets()
{ // Called on mousedown: Gets the current offsets
var offs = $(chrImg).offset();
img.top = Math.round(offs.top );
img.left = Math.round(offs.left);
img.scrolledTop = img.top - $("body").scrollTop();
img.scrolledLeft = img.left - $("body").scrollLeft();
if($.browser.msie) {
img.height = $(chrImg).outerHeight();
img.width = $(chrImg).outerWidth();
} else {
img.height = $(chrImg).height();
img.width = $(chrImg).width();
}
return img;
}
});
}
/////////////////////////////////////////////////////
// Drag Reorder Code
function imgTblSetOrder(table)
{
// Sets the 'order' value for the image table after a drag reorder
var names = [];
var values = [];
$("tr.imgOrd").each(function (i) {
if ($(this).attr('abbr') != $(this).attr('rowIndex').toString()) {
$(this).attr('abbr',$(this).attr('rowIndex').toString());
var name = this.id.substring('tr_'.length) + '_imgOrd';
names.push(name);
values.push($(this).attr('abbr'));
}
});
if(names.length > 0) {
setCartVars(names,values);
}
}
function imgTblTrackShowCenterLabel(tr, show)
{ // Will show or hide centerlabel as requested
// adjust button, sideLabel height, sideLabelOffset and centerlabel display
if(!$(tr).hasClass('clOpt'))
return;
var center = $(tr).find(".sliceDiv.cntrLab");
if($(center) == undefined)
return;
seen = ($(center).css('display') != 'none');
if(show == seen)
return;
var centerHeight = $(center).height();
var btn = $(tr).find("p.btn");
var side = $(tr).find(".sliceDiv.sideLab");
if($(btn) != undefined && $(side) != undefined) {
var sideImg = $(side).find("img");
if($(sideImg) != undefined) {
var top = parseInt($(sideImg).css('top'));
if(show) {
$(btn).css('height',$(btn).height() + centerHeight);
$(side).css('height',$(side).height() + centerHeight);
top += centerHeight; // top is a negative number
$(sideImg).css( {'top': top.toString() + "px" });
$( center ).show();
} else if(!show) {
$(btn).css('height',$(btn).height() - centerHeight);
$(side).css('height',$(side).height() - centerHeight);
top -= centerHeight; // top is a negative number
$(sideImg).css( {'top': top.toString() + "px" });
$( center ).hide();
}
}
}
}
function imgTblContiguousRowSet(row)
{ // Returns the set of rows that are of the same class and contiguous
if(row == null)
return null;
var btn = $( row ).find("p.btn");
if( btn.length == 0)
return null;
var classList = $( btn ).attr("class").split(" ");
var matchClass = classList[0];
var table = $(row).parents('table#imgTbl')[0];
var rows = $(table).find('tr');
// Find start index
var startIndex = $(row).attr('rowIndex');
var endIndex = startIndex;
for(var ix=startIndex-1;ix>=0;ix--) {
btn = $( rows[ix] ).find("p.btn");
if( btn.length == 0)
break;
classList = $( btn ).attr("class").split(" ");
if (classList[0] != matchClass)
break;
startIndex = ix;
}
// Find end index
for(var ix=endIndex;ix 0) {
imgTblZipButtons($('#imgTbl'));
$(btns).mouseenter( imgTblButtonMouseOver );
$(btns).mouseleave( imgTblButtonMouseOut );
$(btns).show();
}
var handle = $("td.dragHandle");
if(handle.length > 0) {
$(handle).mouseenter( imgTblDragHandleMouseOver );
$(handle).mouseleave( imgTblDragHandleMouseOut );
}
}
function imgTblDragHandleMouseOver()
{
// Highlights a single row when mouse over a dragHandle column (sideLabel and buttons)
if(jQuery.tableDnD == undefined) {
//var handle = $("td.dragHandle");
//$(handle)
// .unbind('mouseenter')//, jQuery.tableDnD.mousemove);
// .unbind('mouseleave');//, jQuery.tableDnD.mouseup);
return;
}
if (jQuery.tableDnD.dragObject == null) {
$( this ).parents("tr.trDraggable").addClass("trDrag");
}
}
function imgTblDragHandleMouseOut()
{
// Ends row highlighting by mouse over
$( this ).parents("tr.trDraggable").removeClass("trDrag");
}
function imgTblButtonMouseOver()
{
// Highlights a composite set of buttons, regarless of whether tracks are adjacent
if(jQuery.tableDnD == undefined || jQuery.tableDnD.dragObject == null) {
var classList = $( this ).attr("class").split(" ");
var btns = $( "p." + classList[0] );
$( btns ).removeClass('btnGrey');
$( btns ).addClass('btnBlue');
if (jQuery.tableDnD != undefined) {
var rows = imgTblContiguousRowSet($(this).parents('tr.trDraggable')[0]);
if (rows)
$( rows ).addClass("trDrag");
}
}
}
function imgTblButtonMouseOut()
{
// Ends composite highlighting by mouse over
var classList = $( this ).attr("class").split(" ");
var btns = $( "p." + classList[0] );
$( btns ).removeClass('btnBlue');
$( btns ).addClass('btnGrey');
if (jQuery.tableDnD != undefined) {
var rows = imgTblContiguousRowSet($(this).parents('tr.trDraggable')[0]);
if (rows)
$( rows ).removeClass("trDrag");
}
}
/////////////////////////////////////////////////////
// Drag Scroll code
jQuery.fn.panImages = function(imgOffset,imgBoxLeftOffset){
// globals across all panImages
var leftLimit = imgBoxLeftOffset*-1;
var rightLimit = (imgBoxPortalWidth - imgBoxWidth + leftLimit);
var prevX = (imgOffset + imgBoxLeftOffset)*-1;
var portalWidth = 0;
panAdjustHeight(prevX);
this.each(function(){
var pic;
var pan;
if ( $(this).is("img") ) {
pan = $(this).parent("div");
pic = $(this);
}
else if ( $(this).is("div.scroller") ) {
pan = $(this);
pic = $(this).children("img#panImg"); // Get the real pic
}
if(pan == undefined || pic == undefined) {
throw "Not a div with a child image! 'panImages' can only be used with divs contain images.";
}
// globals across all panImages
portalWidth = $(pan).width();
// globals to one panImage
var newX = 0;
var mouseDownX = 0;
var mouseIsDown = false;
var beyondImage = false;
var atEdge = false;
initialize();
function initialize(){
pan.css( 'cursor', 'w-resize');
pan.mousedown(function(e){
if(mouseIsDown == false) {
mouseIsDown = true;
mouseDownX = e.clientX;
atEdge = (!beyondImage && (prevX >= leftLimit || prevX <= rightLimit));
$(document).bind('mousemove',panner);
$(document).bind( 'mouseup', panMouseUp); // Will exec only once
return false;
}
});
}
function panner(e) {
//if(!e) e = window.event;
if ( mouseIsDown ) {
var relativeX = (e.clientX - mouseDownX);
if(relativeX != 0) {
blockUseMap = true;
var decelerator = 1;
var wingSize = 1000; // 0 stops the scroll at the edges.
// Remeber that offsetX (prevX) is negative
newX = prevX + relativeX;
if ( newX >= leftLimit ) { // scrolled all the way to the left
if(atEdge) { // Do not drag straight off edge. Force second drag
beyondImage = true;
newX = leftLimit + (newX - leftLimit)/decelerator;// slower
if( newX >= leftLimit + wingSize) // Don't go too far over the edge!
newX = leftLimit + wingSize;
} else
newX = leftLimit;
} else if ( newX < rightLimit ) { // scrolled all the way to the right
if(atEdge) { // Do not drag straight off edge. Force second drag
beyondImage = true;
newX = rightLimit - (rightLimit - newX)/decelerator;// slower
if( newX < rightLimit - wingSize) // Don't go too far over the edge!
newX = rightLimit - wingSize;
} else
newX = rightLimit;
} else if(newX >= rightLimit && newX < leftLimit)
beyondImage = false; // could have scrolled back without mouse up
var nowPos = newX.toString() + "px";
$(".panImg").css( {'left': nowPos });
$('.tdData').css( {'backgroundPosition': nowPos } );
panUpdatePosition(newX,false);
}
}
}
function panMouseUp(e) { // Must be a separate function instead of pan.mouseup event.
//if(!e) e = window.event;
if(mouseIsDown) {
$(document).unbind('mousemove',panner);
$(document).unbind('mouseup',panMouseUp);
mouseIsDown = false;
// Talk to tim about this.
if(beyondImage) {
// FIXME:
// 1) When dragging beyondImage, side label is seen. Only solution may be 2 images!
// NOTE: tried clip:rect() but this only works with position:absolute!
// 2) Would be nice to support drag within AND beyond image:
// a) Within stops at border, and then second drag needed to go beyond
// b) Within needs support for next/prev arrows
// 3) AJAX does not work on full image. Larry's callback routine needs extension beyond songle track
//$.ajax({type: "GET", url: "../cgi-bin/hgTracks",
// data: "hgt.trackImgOnly=1&hgsid=" + getHgsid(), dataType: "html",
// trueSuccess: handleUpdateTrackMap, success: catchErrorOrDispatch,
// cmd: "wholeImage", cache: false });
document.TrackHeaderForm.submit();
return true; // Make sure the setTimeout below is not called.
}
if(prevX != newX) {
panAdjustHeight(newX);
prevX = newX;
}
setTimeout('blockUseMap=false;',50); // Necessary incase the selectEnd was over a map item. select takes precedence.
}
}
});
function panUpdatePosition(newOffsetX,bounded)
{
// Updates the 'position/search" display with change due to panning
var portalWidthBases = imgBoxPortalEnd - imgBoxPortalStart;
var portalScrolledX = (imgBoxPortalOffsetX+imgBoxLeftLabel) + newOffsetX;
var newPortalStart = imgBoxPortalStart - Math.round(portalScrolledX*imgBoxBasesPerPixel); // As offset goes down, bases seen goes up!
if( newPortalStart < imgBoxChromStart && bounded) // Stay within bounds
newPortalStart = imgBoxChromStart;
var newPortalEnd = newPortalStart + portalWidthBases;
if( newPortalEnd > imgBoxChromEnd && bounded) {
newPortalEnd = imgBoxChromEnd;
newPortalStart = newPortalEnd - portalWidthBases;
}
if(newPortalStart > 0) {
// XXXX ? imgBoxPortalStart = newPortalStart;
// XXXX ? imgBoxPortalEnd = newPortalEnd;
var newPos = document.getElementById("hgt.chromName").value + ":" + commify(newPortalStart) + "-" + commify(newPortalEnd);
setPosition(newPos, (newPortalEnd - newPortalStart + 1));
}
return true;
}
function mapTopAndBottom(mapName,left,right)
{
// Find the top and bottom px given left and right boundaries
var span = { top: -10, bottom: -10 };
var items = $("map[name='"+mapName+"']").children();
if($(items).length>0) {
$(items).each(function(t) {
var loc = this.coords.split(",");
var aleft = parseInt(loc[0]);
var aright = parseInt(loc[2]);
if(aleft < right && aright >= left) {
var atop = parseInt(loc[1]);
var abottom = parseInt(loc[3]);
if( span.top < 0 ) {
span.top = atop;
span.bottom = abottom;
} else if(span.top > atop) {
span.top = atop;
} else if(span.bottom < abottom) {
span.bottom = abottom;
}
}
});
}
return span;
}
function panAdjustHeight(newOffsetX) {
// Adjust the height of the track data images so that bed items scrolled off screen
// do not waste vertical real estate
var left = newOffsetX * -1;
var right = left + portalWidth;
$(".panImg").each(function(t) {
var mapid = "map_" + this.id.substring(4);
var hDiv = $(this).parent();
var top = parseInt($(this).css("top")) * -1;
var bottom = top + $(hDiv).height();
var span = mapTopAndBottom(mapid,left,right);
if(span.top > 0) {
var topdif = Math.abs(span.top - top);
var botdif = Math.abs(span.bottom - bottom);
if(topdif > 2 || botdif > 2) {
$(hDiv).height( span.bottom - span.top );
top = span.top * -1;
$(this).css( {'top': top.toString() + "px" });
// Need to adjust side label height as well!
var imgId = this.id.split("_");
var titlePx = 0;
var center = $("#img_center_"+imgId[2]);
if(center.length > 0) {
titlePx = $(center).parent().height();
top += titlePx;
}
var side = $("#img_side_"+imgId[2]);
if( side.length > 0) {
$(side).parent().height( span.bottom - span.top + titlePx);
$(side).css( {'top': top.toString() + "px" });
}
var btn = $("#p_btn_"+imgId[2]);
if( btn.length > 0) {
$(btn).height( span.bottom - span.top + titlePx);
} else {
btn = $("#img_btn_"+imgId[2]);
if( btn.length > 0) {
$(btn).parent().height( span.bottom - span.top + titlePx);
$(btn).css( {'top': top.toString() + "px" });
}
}
}
}
});
}
};
/////////////////////////////////////////////////////
function saveMouseOffset(ev)
{ // Save the mouse offset associated with this event
originalMouseOffset = {x: ev.clientX, y: ev.clientY};
}
function mouseHasMoved(ev)
{ // return true if mouse has moved a significant amount
var minPixels = 10;
var movedX = ev.clientX - originalMouseOffset.x;
var movedY = ev.clientY - originalMouseOffset.y;
if ( arguments.length == 2) {
var num = Number(arguments[1]);
if(isNaN(num)) {
if ( arguments[1].toLowerCase() == "x" )
return (movedX > minPixels || movedX < (minPixels * -1));
if ( arguments[1].toLowerCase() == "y" )
return (movedY > minPixels || movedY < (minPixels * -1));
}
else
minPixels = num;
}
return ( movedX > minPixels || movedX < (minPixels * -1)
|| movedY > minPixels || movedY < (minPixels * -1));
}
function blockTheMap(e)
{
blockUseMap=true;
}
function blockTheMapOnMouseMove(ev)
{
if (!blockUseMap && mouseHasMoved(ev)) {
blockUseMap=true;
}
}
// wait for jStore to prepare the storage engine (this token reload code is experimental and currently dead).
jQuery.jStore && jQuery.jStore.ready(function(engine) {
// alert(engine.jri);
// wait for the storage engine to be ready.
engine.ready(function(){
var engine = this;
var newToken = document.getElementById("hgt.token").value;
if(newToken) {
var oldToken = engine.get("token");
if(oldToken && oldToken == newToken) {
// user has hit the back button.
jQuery('body').css('cursor', 'wait');
window.location = "../cgi-bin/hgTracks?hgsid=" + getHgsid();
}
}
engine.set("token", newToken);
});
});
function mapClk(obj)
{
return postToSaveSettings(obj);
}
function postToSaveSettings(obj)
{
if(blockUseMap==true) {
return false;
}
if(obj == undefined || obj.href == undefined) // called directly with obj and from callback without obj
obj = this;
if( obj.href.match('#') || obj.target.length > 0) {
//alert("Matched # ["+obj.href+"] or has target:"+obj.target);
return true;
}
var thisForm=$(obj).parents('form');
if(thisForm == undefined || $(thisForm).length == 0)
thisForm=$("FORM");
if($(thisForm).length > 1 )
thisForm=$(thisForm)[0];
if(thisForm != undefined && $(thisForm).length == 1) {
//alert("posting form:"+$(thisForm).attr('name'));
return postTheForm($(thisForm).attr('name'),obj.href);
}
return true;
}
$(document).ready(function()
{
var db = getDb();
- if(document.getElementById("hgt.newJQuery") != null) {
- newJQuery = true;
- }
if(jQuery.fn.autocomplete && $('input#suggest') && db) {
if(newJQuery) {
$('input#suggest').autocomplete({
delay: 500,
minLength: 2,
source: ajaxGet(function () {return db;}, new Object, true),
select: function (event, ui) {
setPosition(ui.item.id, commify(getSizeFromCoordinates(ui.item.id)));
makeSureSuggestTrackIsVisible();
// jQuery('body').css('cursor', 'wait');
// document.TrackHeaderForm.submit();
}
});
} else {
$('input#suggest').autocomplete({
delay: 500,
minchars: 2,
ajax_get: ajaxGet(function () {return db;}, new Object, false),
callback: function (obj) {
setPosition(obj.id, commify(getSizeFromCoordinates(obj.id)));
makeSureSuggestTrackIsVisible();
// jQuery('body').css('cursor', 'wait');
// document.TrackHeaderForm.submit();
}
});
}
// I want to set focus to the suggest element, but unforunately that prevents PgUp/PgDn from
// working, which is a major annoyance.
// $('input#suggest').focus();
}
initVars();
if(jQuery.jStore) {
// Experimental (currently dead) code to handle "user hits back button" problem.
if(false) {
jQuery.extend(jQuery.jStore.defaults, {
project: 'hgTracks',
engine: 'flash',
flash: '/jStore.Flash.html'
});
}
jQuery.jStore.load();
}
// Convert map AREA gets to post the form, ensuring that cart variables are kept up to date (but turn this off for search form).
if($("FORM").length > 0 && $('#trackSearch').length == 0) {
var allLinks = $('a');
$( allLinks ).unbind('click');
$( allLinks ).click( postToSaveSettings );
}
if($('#pdfLink').length == 1) {
$('#pdfLink').click(function(i) {
var thisForm=$('#TrackForm');
if(thisForm != undefined && $(thisForm).length == 1) {
//alert("posting form:"+$(thisForm).attr('name'));
updateOrMakeNamedVariable($(thisForm),'hgt.psOutput','on');
return postTheForm($(thisForm).attr('name'),this.href);
}
return true;
});
}
if($('#imgTbl').length == 1) {
imageV2 = true;
initImgTblButtons();
// Make imgTbl allow draw reorder of imgTrack rows
var imgTable = $(".tableWithDragAndDrop");
if($(imgTable).length > 0) {
$(imgTable).tableDnD({
onDragClass: "trDrag",
dragHandle: "dragHandle",
scrollAmount: 40,
onDragStart: function(ev, table, row) {
saveMouseOffset(ev);
$(document).bind('mousemove',blockTheMapOnMouseMove);
// Can drag a contiguous set of rows if dragging blue button
table.tableDnDConfig.dragObjects = [ row ]; // defaults to just the one
var btn = $( row ).find('p.btnBlue'); // btnBlue means cursor over left button
if (btn.length == 1) {
table.tableDnDConfig.dragObjects = imgTblContiguousRowSet(row);
var compositeSet = imgTblCompositeSet(row);
if (compositeSet && compositeSet.length > 0)
$( compositeSet ).find('p.btn').addClass('blueButtons'); // blue persists
}
},
onDrop: function(table, row, dragStartIndex) {
var compositeSet = imgTblCompositeSet(row);
if (compositeSet && compositeSet.length > 0)
$( compositeSet ).find('p.btn').removeClass('blueButtons'); // blue persists
if($(row).attr('rowIndex') != dragStartIndex) {
// NOTE Even if dragging a contiguous set of rows,
// still only need to check the one under the cursor.
if(imgTblSetOrder) {
imgTblSetOrder(table);
}
imgTblZipButtons( table );
}
$(document).unbind('mousemove',blockTheMapOnMouseMove);
setTimeout('blockUseMap=false;',50); // Necessary incase the onDrop was over a map item. onDrop takes precedence.
}
});
}
if(imgBoxPortal) {
//warn("imgBox("+imgBoxChromStart+"-"+imgBoxChromEnd+","+imgBoxWidth+") bases/pix:"+imgBoxBasesPerPixel+"\nportal("+imgBoxPortalStart+"-"+imgBoxPortalEnd+","+imgBoxPortalWidth+") offset:"+imgBoxPortalOffsetX);
// Turn on drag scrolling.
$("div.scroller").panImages(imgBoxPortalOffsetX,imgBoxLeftLabel);
}
//$("#zoomSlider").slider({ min: -4, max: 3, step: 1 });//, handle: '.ui-slider-handle' });
// Temporary warning while new imageV2 code is being worked through
if($('#map').children("AREA").length > 0) {
warn('Using imageV2, but old map is not empty!');
}
// Retrieve tracks via AJAX that may take too long to draw initialliy (i.e. a remote bigWig)
var retrievables = $('#imgTbl').find("tr.mustRetrieve")
if($(retrievables).length > 0) {
$(retrievables).each( function (i) {
var trackName = $(this).attr('id').substring(3);
updateTrackImg(trackName,"","");
});
}
}
if($('img#chrom').length == 1) {
if($('area.cytoBand').length > 1) {
$('img#chrom').chromDrag();
}
}
if($("#tabs").length > 0) {
// Search page specific code
var val = $('#currentTab').val();
$("#tabs").tabs({
show: function(event, ui) {
$('#currentTab').val(ui.panel.id);
},
select: function(event, ui) { findTracksSwitchTabs(ui); }
});
$('#tabs').show();
$("#tabs").tabs('option', 'selected', '#' + val);
if(val =='simpleTab' && $('div#found').length < 1) {
$('input#simpleSearch').focus();
}
$("#tabs").css('font-family', jQuery('body').css('font-family'));
$("#tabs").css('font-size', jQuery('body').css('font-size'));
$('.submitOnEnter').keydown(searchKeydown);
findTracksNormalize();
updateMetaDataHelpLinks(0);
}
if(typeof(trackDbJson) != "undefined" && trackDbJson != null) {
for (var id in trackDbJson) {
var rec = trackDbJson[id];
if(rec.type == "remote") {
if($("#img_data_" + id).length > 0) {
// load the remote track renderer via jsonp
var script = document.createElement('script');
// XXXX add current image width
var pos = parsePosition(getPosition());
script.setAttribute('src', rec.url + "?track=" + id + "&jsonp=remoteTrackCallback&c=" + pos.chrom +
"&s=" + pos.start + "&e=" + pos.end);
document.getElementsByTagName('head')[0].appendChild(script);
}
}
}
}
});
function rulerModeToggle (ele)
{
autoHideSetting = !ele.checked;
var obj = imgAreaSelect.data('imgAreaSelect');
obj.setOptions({autoHide : autoHideSetting});
}
function makeMapItem(id)
{
// Create a dummy mapItem on the fly (for objects that don't have corresponding entry in the map).
if(typeof(trackDbJson) != "undefined" && trackDbJson != null) {
var title;
var rec = trackDbJson[id];
if(rec) {
title = rec.shortLabel;
} else {
title = id;
}
return {id: id, title: "configure " + title};
} else {
return null;
}
}
function mapItemMouseOver(obj)
{
// Record data for current map area item
currentMapItem = makeMapItem(obj.id);
if(currentMapItem != null) {
currentMapItem.href = obj.href;
currentMapItem.title = obj.title;
}
}
function mapItemMouseOut(obj)
{
currentMapItem = null;
}
function findMapItem(e)
{
// Find mapItem for given event; returns item object or null if none found.
if(currentMapItem) {
return currentMapItem;
}
// rightClick for non-map items that can be resolved to their parent tr and then trackName (e.g. items in gray bar)
if(e.target.tagName.toUpperCase() != "AREA") {
var tr = $( e.target ).parents('tr.imgOrd');
if( $(tr).length == 1 ) {
a = /tr_(.*)/.exec($(tr).attr('id')); // voodoo
if(a && a[1]) {
var id = a[1];
return makeMapItem(id);
}
}
}
// FIXME: do we really need to worry about non-imageV2 ?
// Yeah, I think the rest of this is (hopefully) dead code
var x,y;
if(imageV2) {
// It IS appropriate to use coordinates relative to the img WHEN we have a hit in the right-hand side, but NOT
// when we have a hit in the left hand elements (which do not have relative coordinates).
// XXXX still trying to figure this out.
var pos = $(e.target).position();
if(e.target.tagName == "IMG") {
// msie
// warn("img: x: " + x + ", y:" + y);
// warn("pageX: " + e.pageX + "; offsetLeft: " + pos.left);
x = e.pageX - pos.left;
y = e.pageY - pos.top;
// warn("x: " + x + "; y: " + y);
} else {
x = e.pageX - trackImg.attr("offsetLeft");
y = e.pageY - trackImg.attr("offsetTop");
}
// console.log(trackImg.attr("offsetLeft"), trackImg.attr("offsetTop"));
// console.log("findMapItem:", x, y);
// console.dir(mapItems);
} else {
x = e.pageX - e.target.offsetLeft;
y = e.pageY - e.target.offsetTop;
}
var retval = -1;
// console.log(e.target.tagName + "; " + e.target.id);
for(var i=0;i= 0) {
return mapItems[retval];
} else {
return null;
}
}
function mapEvent(e)
{
var o = findMapItem(e);
if(o) {
e.target.title = o.title;
} else {
// XXXX this doesn't work.
// $('#myMenu').html("