mirror of
https://github.com/galaxyproject/galaxy.git
synced 2026-09-24 16:30:27 +08:00
637 lines
24 KiB
JavaScript
637 lines
24 KiB
JavaScript
// IE doesn't implement Array.indexOf
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if (!Array.indexOf) {
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Array.prototype.indexOf = function(obj) {
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for (var i = 0, len = this.length; i < len; i++) {
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if (this[i] == obj) {
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return i;
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}
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}
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return -1;
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};
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}
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// Returns the number of keys (elements) in an array/dictionary.
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function obj_length(obj) {
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if (obj.length !== undefined) {
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return obj.length;
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}
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var count = 0;
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for (var element in obj) {
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count++;
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}
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return count;
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}
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$.fn.makeAbsolute = function(rebase) {
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return this.each(function() {
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var el = $(this);
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var pos = el.position();
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el.css({
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position: "absolute",
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marginLeft: 0, marginTop: 0,
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top: pos.top, left: pos.left,
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right: $(window).width() - ( pos.left + el.width() )
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});
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if (rebase) {
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el.remove().appendTo("body");
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}
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});
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};
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// Toggle popup menu options using regular expression on option names.
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function show_hide_popupmenu_options( menu, option_name_re, show ) {
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show = (show === undefined ? true : show );
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var re = new RegExp(option_name_re);
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$(menu).find("li").each( function() {
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if ( re.exec($(this).text()) ) {
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if (show) {
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$(this).show();
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} else {
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$(this).hide();
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}
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}
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});
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}
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function make_popupmenu( button_element, initial_options ) {
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/* Use the $.data feature to store options with the link element.
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This allows options to be changed at a later time
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*/
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button_element.data("menu_options", initial_options);
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button_element.bind("click.show_popup", function(e) {
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// Close existing visible menus
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$(".popmenu-wrapper").remove();
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// Need setTimeouts so clicks don't interfere with each other
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setTimeout( function() {
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// Dynamically generate the wrapper holding all the selectable options of the menu.
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var menu_element = $( "<ul id='" + button_element.attr('id') + "-menu'></ul>" );
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var options = button_element.data("menu_options");
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if (obj_length(options) <= 0) {
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$("<li>No Options.</li>").appendTo(menu_element);
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}
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$.each( options, function( k, v ) {
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if (v) {
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$("<li/>").html(k).click(v).appendTo(menu_element);
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} else {
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$("<li class='head'/>").html(k).appendTo(menu_element);
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}
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});
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var wrapper = $( "<div class='popmenu-wrapper' style='position: absolute;left: 0; top: -1000;'>" );
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wrapper.append( menu_element )
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.append( "<div class='overlay-border'>" )
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.appendTo( "body" );
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var x = e.pageX - wrapper.width() / 2 ;
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x = Math.min( x, $(document).scrollLeft() + $(window).width() - $(wrapper).width() - 20 );
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x = Math.max( x, $(document).scrollLeft() + 20 );
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wrapper.css( {
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top: e.pageY - 5,
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left: x
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} );
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}, 10);
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setTimeout( function() {
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// Bind click event to current window and all frames to remove any visible menus
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// Bind to document object instead of window object for IE compat
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var close_popup = function(el) {
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$(el).bind("click.close_popup", function() {
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$(".popmenu-wrapper").remove();
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el.unbind("click.close_popup");
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});
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};
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close_popup( $(window.document) ); // Current frame
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close_popup( $(window.top.document) ); // Parent frame
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for (var frame_id = window.top.frames.length; frame_id--;) { // Sibling frames
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var frame = $(window.top.frames[frame_id].document);
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close_popup(frame);
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}
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}, 50);
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return false;
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});
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}
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function make_popup_menus() {
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jQuery( "div[popupmenu]" ).each( function() {
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var options = {};
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var menu = $(this);
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menu.find( "a" ).each( function() {
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var link = $(this),
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link_dom = link.get(0);
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var confirmtext = link_dom.getAttribute( "confirm" ),
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href = link_dom.getAttribute( "href" ),
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target = link_dom.getAttribute( "target" );
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if (!href) {
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options[ link.text() ] = null;
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} else {
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options[ link.text() ] = function() {
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if ( !confirmtext || confirm( confirmtext ) ) {
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var f;
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if ( target == "_parent" ) {
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window.parent.location = href;
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} else if ( target == "_top" ) {
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window.top.location = href;
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} else if ( target == "demo" ) {
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// Http request target is a window named
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// demolocal on the local box
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if ( f == undefined || f.closed ) {
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f = window.open( href,target );
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f.creator = self;
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};
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} else {
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window.location = href;
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};
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};
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};
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};
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});
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var box = $( "#" + menu.attr( 'popupmenu' ) );
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// For menus with clickable link text, make clicking on the link go through instead
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// of activating the popup menu
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box.find("a").bind("click", function(e) {
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e.stopPropagation(); // Stop bubbling so clicking on the link goes through
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return true;
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});
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make_popupmenu(box, options);
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box.addClass("popup");
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menu.remove();
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});
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}
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// Alphanumeric/natural sort fn
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function naturalSort(a, b) {
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// setup temp-scope variables for comparison evauluation
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var re = /(-?[0-9\.]+)/g,
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x = a.toString().toLowerCase() || '',
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y = b.toString().toLowerCase() || '',
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nC = String.fromCharCode(0),
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xN = x.replace( re, nC + '$1' + nC ).split(nC),
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yN = y.replace( re, nC + '$1' + nC ).split(nC),
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xD = (new Date(x)).getTime(),
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yD = xD ? (new Date(y)).getTime() : null;
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// natural sorting of dates
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if ( yD ) {
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if ( xD < yD ) { return -1; }
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else if ( xD > yD ) { return 1; }
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}
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// natural sorting through split numeric strings and default strings
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var oFxNcL, oFyNcL;
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for ( var cLoc = 0, numS = Math.max(xN.length, yN.length); cLoc < numS; cLoc++ ) {
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oFxNcL = parseFloat(xN[cLoc]) || xN[cLoc];
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oFyNcL = parseFloat(yN[cLoc]) || yN[cLoc];
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if (oFxNcL < oFyNcL) { return -1; }
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else if (oFxNcL > oFyNcL) { return 1; }
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}
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return 0;
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}
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// Replace select box with a text input box + autocomplete.
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function replace_big_select_inputs(min_length, max_length) {
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// To do replace, jQuery's autocomplete plugin must be loaded.
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if (!jQuery().autocomplete) {
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return;
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}
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// Set default for min_length and max_length
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if (min_length === undefined) {
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min_length = 20;
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}
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if (max_length === undefined) {
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max_length = 3000;
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}
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$('select').each( function() {
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var select_elt = $(this);
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// Make sure that options is within range.
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var num_options = select_elt.find('option').length;
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if ( (num_options < min_length) || (num_options > max_length) ) {
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return;
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}
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// Skip multi-select because widget cannot handle multi-select.
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if (select_elt.attr('multiple') === true) {
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return;
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}
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if (select_elt.hasClass("no-autocomplete")) {
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return;
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}
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// Replace select with text + autocomplete.
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var start_value = select_elt.attr('value');
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// Set up text input + autocomplete element.
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var text_input_elt = $("<input type='text' class='text-and-autocomplete-select'></input>");
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text_input_elt.attr('size', 40);
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text_input_elt.attr('name', select_elt.attr('name'));
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text_input_elt.attr('id', select_elt.attr('id'));
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text_input_elt.click( function() {
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// Show all. Also provide note that load is happening since this can be slow.
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var cur_value = $(this).val();
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$(this).val('Loading...');
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$(this).showAllInCache();
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$(this).val(cur_value);
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$(this).select();
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});
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// Get options for select for autocomplete.
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var select_options = [];
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var select_mapping = {};
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select_elt.children('option').each( function() {
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// Get text, value for option.
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var text = $(this).text();
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var value = $(this).attr('value');
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// Set options and mapping. Mapping is (i) [from text to value] AND (ii) [from value to value]. This
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// enables a user to type the value directly rather than select the text that represents the value.
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select_options.push( text );
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select_mapping[ text ] = value;
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select_mapping[ value ] = value;
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// If this is the start value, set value of input element.
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if ( value == start_value ) {
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text_input_elt.attr('value', text);
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}
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});
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// Set initial text if it's empty.
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if ( start_value === '' || start_value === '?') {
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text_input_elt.attr('value', 'Click to Search or Select');
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}
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// Sort dbkey options list only.
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if (select_elt.attr('name') == 'dbkey') {
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select_options = select_options.sort(naturalSort);
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}
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// Do autocomplete.
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var autocomplete_options = { selectFirst: false, autoFill: false, mustMatch: false, matchContains: true, max: max_length, minChars : 0, hideForLessThanMinChars : false };
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text_input_elt.autocomplete(select_options, autocomplete_options);
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// Replace select with text input.
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select_elt.replaceWith(text_input_elt);
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// Set trigger to replace text with value when element's form is submitted. If text doesn't correspond to value, default to start value.
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var submit_hook = function() {
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// Try to convert text to value.
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var cur_value = text_input_elt.attr('value');
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var new_value = select_mapping[cur_value];
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if (new_value !== null && new_value !== undefined) {
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text_input_elt.attr('value', new_value);
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} else {
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// If there is a non-empty start value, use that; otherwise unknown.
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if (start_value !== "") {
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text_input_elt.attr('value', start_value);
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} else {
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// This is needed to make the DB key work.
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text_input_elt.attr('value', '?');
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}
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}
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};
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text_input_elt.parents('form').submit( function() { submit_hook(); } );
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// Add custom event so that other objects can execute name --> value conversion whenever they want.
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$(document).bind("convert_to_values", function() { submit_hook(); } );
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// If select is refresh on change, mirror this behavior.
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if (select_elt.attr('refresh_on_change') == 'true') {
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// Get refresh vals.
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var ref_on_change_vals = select_elt.attr('refresh_on_change_values'),
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last_selected_value = select_elt.attr("last_selected_value");
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if (ref_on_change_vals !== undefined) {
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ref_on_change_vals = ref_on_change_vals.split(',');
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}
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// Function that attempts to refresh based on the value in the text element.
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var try_refresh_fn = function() {
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// Get new value and see if it can be matched.
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var new_value = select_mapping[text_input_elt.attr('value')];
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if (last_selected_value !== new_value && new_value !== null && new_value !== undefined) {
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if (ref_on_change_vals !== undefined && $.inArray(new_value, ref_on_change_vals) === -1 && $.inArray(last_selected_value, ref_on_change_vals) === -1) {
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return;
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}
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text_input_elt.attr('value', new_value);
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$(window).trigger("refresh_on_change");
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text_input_elt.parents('form').submit();
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}
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};
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// Attempt refresh if (a) result event fired by autocomplete (indicating autocomplete occurred) or (b) on keyup (in which
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// case a user may have manually entered a value that needs to be refreshed).
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text_input_elt.bind("result", try_refresh_fn);
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text_input_elt.keyup( function(e) {
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if (e.keyCode === 13) { // Return key
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try_refresh_fn();
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}
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});
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// Disable return key so that it does not submit the form automatically. This is done because element should behave like a
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// select (enter = select), not text input (enter = submit form).
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text_input_elt.keydown( function(e) {
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if (e.keyCode === 13) { // Return key
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return false;
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}
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});
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}
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});
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}
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// Edit and save text asynchronously.
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function async_save_text(click_to_edit_elt, text_elt_id, save_url, text_parm_name, num_cols, use_textarea, num_rows, on_start, on_finish) {
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// Set defaults if necessary.
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if (num_cols === undefined) {
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num_cols = 30;
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}
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if (num_rows === undefined) {
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num_rows = 4;
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}
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// Set up input element.
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$("#" + click_to_edit_elt).live( "click", function() {
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// Check if this is already active
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if ( $("#renaming-active").length > 0) {
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return;
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}
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var text_elt = $("#" + text_elt_id),
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old_text = text_elt.text(),
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t;
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if (use_textarea) {
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t = $("<textarea></textarea>").attr({ rows: num_rows, cols: num_cols }).text( $.trim(old_text) );
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} else {
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t = $("<input type='text'></input>").attr({ value: $.trim(old_text), size: num_cols });
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}
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t.attr("id", "renaming-active");
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t.blur( function() {
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$(this).remove();
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text_elt.show();
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if (on_finish) {
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on_finish(t);
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}
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});
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t.keyup( function( e ) {
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if ( e.keyCode === 27 ) {
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// Escape key
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$(this).trigger( "blur" );
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} else if ( e.keyCode === 13 ) {
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// Enter key submits
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var ajax_data = {};
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ajax_data[text_parm_name] = $(this).val();
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$(this).trigger( "blur" );
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$.ajax({
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url: save_url,
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data: ajax_data,
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error: function() {
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alert( "Text editing for elt " + text_elt_id + " failed" );
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// TODO: call finish or no? For now, let's not because error occurred.
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},
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success: function(processed_text) {
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// Set new text and call finish method.
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if (processed_text !== "") {
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text_elt.text(processed_text);
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} else {
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text_elt.html("<em>None</em>");
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}
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if (on_finish) {
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on_finish(t);
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}
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}
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});
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}
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});
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if (on_start) {
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on_start(t);
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}
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// Replace text with input object and focus & select.
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text_elt.hide();
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t.insertAfter( text_elt );
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t.focus();
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t.select();
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return;
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});
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}
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function init_history_items(historywrapper, noinit, nochanges) {
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var action = function() {
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// Load saved state and show as necessary
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try {
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var stored = $.jStorage.get("history_expand_state");
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if (stored) {
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for (var id in stored) {
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$("#" + id + " div.historyItemBody" ).show();
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}
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}
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} catch(err) {
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// Something was wrong with values in storage, so clear storage
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$.jStorage.deleteKey("history_expand_state");
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}
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// If Mozilla, hide scrollbars in hidden items since they cause animation bugs
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if ( $.browser.mozilla ) {
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$( "div.historyItemBody" ).each( function() {
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if ( !$(this).is(":visible") ) { $(this).find( "pre.peek" ).css( "overflow", "hidden" ); }
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});
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}
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historywrapper.each( function() {
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var id = this.id,
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body = $(this).children( "div.historyItemBody" ),
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peek = body.find( "pre.peek" );
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$(this).find( ".historyItemTitleBar > .historyItemTitle" ).wrap( "<a href='javascript:void(0);'></a>" ).click( function() {
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var prefs;
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if ( body.is(":visible") ) {
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// Hiding stuff here
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if ( $.browser.mozilla ) { peek.css( "overflow", "hidden" ); }
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body.slideUp( "fast" );
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if (!nochanges) { // Ignore embedded item actions
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// Save setting
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prefs = $.jStorage.get("history_expand_state");
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if (prefs) {
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delete prefs[id];
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$.jStorage.set("history_expand_state", prefs);
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}
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}
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} else {
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// Showing stuff here
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body.slideDown( "fast", function() {
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if ( $.browser.mozilla ) { peek.css( "overflow", "auto" ); }
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});
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if (!nochanges) {
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// Save setting
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prefs = $.jStorage.get("history_expand_state");
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if (!prefs) { prefs = {}; }
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prefs[id] = true;
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$.jStorage.set("history_expand_state", prefs);
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}
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}
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return false;
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});
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});
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// Generate 'collapse all' link
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$("#top-links > a.toggle").click( function() {
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var prefs = $.jStorage.get("history_expand_state");
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if (!prefs) { prefs = {}; }
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$( "div.historyItemBody:visible" ).each( function() {
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if ( $.browser.mozilla ) {
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$(this).find( "pre.peek" ).css( "overflow", "hidden" );
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}
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$(this).slideUp( "fast" );
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if (prefs) {
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delete prefs[$(this).parent().attr("id")];
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}
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});
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$.jStorage.set("history_expand_state", prefs);
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}).show();
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};
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action();
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}
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function commatize( number ) {
|
|
number += ''; // Convert to string
|
|
var rgx = /(\d+)(\d{3})/;
|
|
while (rgx.test(number)) {
|
|
number = number.replace(rgx, '$1' + ',' + '$2');
|
|
}
|
|
return number;
|
|
}
|
|
|
|
// Reset tool search to start state.
|
|
function reset_tool_search( initValue ) {
|
|
// Function may be called in top frame or in tool_menu_frame;
|
|
// in either case, get the tool menu frame.
|
|
var tool_menu_frame = $("#galaxy_tools").contents();
|
|
if (tool_menu_frame.length === 0) {
|
|
tool_menu_frame = $(document);
|
|
}
|
|
|
|
// Remove classes that indicate searching is active.
|
|
$(this).removeClass("search_active");
|
|
tool_menu_frame.find(".toolTitle").removeClass("search_match");
|
|
|
|
// Reset visibility of tools and labels.
|
|
tool_menu_frame.find(".toolSectionBody").hide();
|
|
tool_menu_frame.find(".toolTitle").show();
|
|
tool_menu_frame.find(".toolPanelLabel").show();
|
|
tool_menu_frame.find(".toolSectionWrapper").each( function() {
|
|
if ($(this).attr('id') != 'recently_used_wrapper') {
|
|
// Default action.
|
|
$(this).show();
|
|
} else if ($(this).hasClass("user_pref_visible")) {
|
|
$(this).show();
|
|
}
|
|
});
|
|
tool_menu_frame.find("#search-no-results").hide();
|
|
|
|
// Reset search input.
|
|
tool_menu_frame.find("#search-spinner").hide();
|
|
if (initValue) {
|
|
var search_input = tool_menu_frame.find("#tool-search-query");
|
|
search_input.val("search tools");
|
|
search_input.css("font-style", "italic");
|
|
}
|
|
}
|
|
|
|
// Create GalaxyAsync object.
|
|
var GalaxyAsync = function(log_action) {
|
|
this.url_dict = {};
|
|
this.log_action = (log_action === undefined ? false : log_action);
|
|
};
|
|
|
|
GalaxyAsync.prototype.set_func_url = function( func_name, url ) {
|
|
this.url_dict[func_name] = url;
|
|
};
|
|
|
|
// Set user preference asynchronously.
|
|
GalaxyAsync.prototype.set_user_pref = function( pref_name, pref_value ) {
|
|
// Get URL.
|
|
var url = this.url_dict[arguments.callee];
|
|
if (url === undefined) { return false; }
|
|
$.ajax({
|
|
url: url,
|
|
data: { "pref_name" : pref_name, "pref_value" : pref_value },
|
|
error: function() { return false; },
|
|
success: function() { return true; }
|
|
});
|
|
};
|
|
|
|
// Log user action asynchronously.
|
|
GalaxyAsync.prototype.log_user_action = function( action, context, params ) {
|
|
if (!this.log_action) { return; }
|
|
|
|
// Get URL.
|
|
var url = this.url_dict[arguments.callee];
|
|
if (url === undefined) { return false; }
|
|
$.ajax({
|
|
url: url,
|
|
data: { "action" : action, "context" : context, "params" : params },
|
|
error: function() { return false; },
|
|
success: function() { return true; }
|
|
});
|
|
};
|
|
|
|
$(document).ready( function() {
|
|
$("select[refresh_on_change='true']").change( function() {
|
|
var select_field = $(this),
|
|
select_val = select_field.val(),
|
|
refresh = false,
|
|
ref_on_change_vals = select_field.attr("refresh_on_change_values");
|
|
if (ref_on_change_vals) {
|
|
ref_on_change_vals = ref_on_change_vals.split(',');
|
|
var last_selected_value = select_field.attr("last_selected_value");
|
|
if ($.inArray(select_val, ref_on_change_vals) === -1 && $.inArray(last_selected_value, ref_on_change_vals) === -1) {
|
|
return;
|
|
}
|
|
}
|
|
$(window).trigger("refresh_on_change");
|
|
$(document).trigger("convert_to_values"); // Convert autocomplete text to values
|
|
select_field.get(0).form.submit();
|
|
});
|
|
|
|
// Links with confirmation
|
|
$( "a[confirm]" ).click( function() {
|
|
return confirm( $(this).attr("confirm") );
|
|
});
|
|
// Tooltips
|
|
if ( $.fn.tipsy ) {
|
|
$(".tooltip").tipsy( { gravity: 's' } );
|
|
}
|
|
// Make popup menus.
|
|
make_popup_menus();
|
|
|
|
// Replace big selects.
|
|
replace_big_select_inputs(20, 1500);
|
|
|
|
// If galaxy_main frame does not exist and link targets galaxy_main,
|
|
// add use_panels=True and set target to self.
|
|
$("a").click( function() {
|
|
var anchor = $(this);
|
|
var galaxy_main_exists = (parent.frames && parent.frames.galaxy_main)
|
|
if ( ( anchor.attr( "target" ) == "galaxy_main" ) && ( !galaxy_main_exists ) ) {
|
|
var href = anchor.attr("href");
|
|
if (href.indexOf("?") == -1) {
|
|
href += "?";
|
|
}
|
|
else {
|
|
href += "&";
|
|
}
|
|
href += "use_panels=True";
|
|
anchor.attr("href", href);
|
|
anchor.attr("target", "_self");
|
|
}
|
|
return anchor;
|
|
});
|
|
});
|