--- /dev/null
+/**
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of
+ * the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
+ */
+
+
+$(document).ready(function() {
+ processAllAppletElements();
+});
+
+
+
+ var currentPage = "applets";
+
+ function processAllAppletElements() {
+ var apps = document.getElementsByTagName("applet");
+ for (var i = apps.length; --i >= 0;) {
+ processAppletElement(apps[i]);
+ }
+ }
+
+ var jvid = 0;
+
+ function testBtn(e) {
+ var element = e.target.appletElement;
+ var text = element.outerHTML;
+
+ //var
+ var Info = self.JalviewInfo || {
+ code: null,
+ main: "jalview.bin.Jalview",
+ core: "NONE",
+
+
+ width: 850,
+ height: 550,
+ readyFunction: null,
+ serverURL: 'https://chemapps.stolaf.edu/jmol/jsmol/php/jsmol.php',
+ j2sPath: 'swingjs/j2s',
+// console:'sysoutdiv',
+ allowjavascript: true
+}
+
+var id = "JVApplet" + jvid++;
+var args = text.replace(/[\n\t]/g, " ").split("<param ");
+Info.j2sAppletID = id;
+Info.jalview_SCREEN_WIDTH= 100, // desktop width -- 0 to hide
+Info.jalview_SCREEN_HEIGHT= 70, // desktop height -- 0 to hide
+Info.jalview_SCREEN_X= 10,
+Info.jalview_SCREEN_Y= 10,
+Info.jalview_EMBEDDED= true;
+
+
+for (var i in Info) {
+ var v = ("" + Info[i] || "null").replace(/\"/g,"'");
+ args.push("name=\"Info." + i + "\" value=\"" + v + "\"");
+}
+Info.args = args;
+SwingJS.getApplet(id, Info);
+ document.title = id;
+ e.target.style.visibility="hidden";
+
+ }
+
+ function processAppletElement(element) {
+ var code = element.getAttribute("code");
+ var parent = element.parentElement;
+ if (code == "jalview.bin.JalviewLite") {
+ var text = element.outerHTML;
+ console.log(text);
+ var btn = document.createElement("button");
+ btn.innerHTML = "Start Jalview";
+ var a = element.getAttribute("width");
+ btn.style.width = (a || 140) + "px";
+ a = element.getAttribute("height");
+ btn.style.height = (a || 25) + "px";
+ btn.appletElement = element;
+ parent.replaceChild(btn, element);
+ $(btn).click(testBtn)
+ } else {
+ parent.removeElement(element);
+ }
+ }
+
+
+ /**
+ * Generate an applet tag
+ *
+ * @param code
+ * @param name
+ * @param archive
+ * @param width
+ * @param height
+ * @param params
+ * @returns a DOM APPLET element
+ */
+ function createAppletTag(code, name, archive, width, height, params){
+ var app = document.createElement('applet');
+ app.code= code;
+ app.width = width;
+ app.height = height;
+ app.archive = archive;
+
+ var arrayLength = params.length;
+ for (var i = 0; i < arrayLength; i++) {
+ //console.log('name : '+ params[i][0] + ' code : '+ params[i][1]);
+ var param = document.createElement('param');
+ param.name = params[i][0];
+ param.value = params[i][1];
+ app.appendChild(param);
+ }
+ return app;
+ }
+
+ function readCookie(name) {
+ var nameEQ = name + "=";
+ var ca = document.cookie.split(';');
+ for(var i=0;i < ca.length;i++) {
+ var c = ca[i];
+ while (c.charAt(0)==' ') c = c.substring(1,c.length);
+ if (c.indexOf(nameEQ) == 0) return c.substring(nameEQ.length,c.length);
+ }
+ return null;
+ }
+
+ function setOrUpdateCookie(name, value, days) {
+ var expires;
+ if (days) {
+ var date = new Date();
+ date.setTime(date.getTime() + (days * 24 * 60 * 60 * 1000));
+ expires = "; expires=" + date.toGMTString();
+ }
+ else {
+ expires = "";
+ }
+ document.cookie = name + "=" + value + expires + "; path=/";
+ }
+
+ $(function(){
+ var url = window.location.href;
+ var end = url.length;
+ var start = url.lastIndexOf("#");
+ var newPage = url.substring(start + 1, end);
+ var page = ((start === -1) ? currentPage : newPage);
+ //alert("page:" + page);
+ if(page === "embeddedWJmol"){
+ // do nothing embeddedWJmol page already include
+
+ $('#header').load("includes/header_jv.html");
+ //$('#content').load(page + ".html");
+ $('#nav').load("includes/nav_jv.html");
+ $('#footer').load("includes/footer_jv.html");
+ $('#'+ currentPage).addClass('active-trail active');
+ }else{
+ $('#header').load("includes/header_jv.html");
+ $('#content').load(page + ".html");
+ $('#nav').load("includes/nav_jv.html");
+ $('#footer').load("includes/footer_jv.html");
+ $('#'+ currentPage).addClass('active-trail active');
+
+ var e = document.getElementById("view_decorated");
+ e.style.display = 'none';
+ }
+ });
+
+function doSubmit(target){
+ var currentPage = target+'.html';
+ //alert("page:" + target);
+ if(target == "embeddedWJmol"){
+ //loadJMolPage();
+ window.location.href = 'embeddedWJmol.html#' + target;
+ $('#content').load(currentPage);
+ }else{
+ window.location.href = 'index.html#' + target;
+ $('#content').load(currentPage);
+ }
+ updateLinks(target);
+}
+
+
+
+function updateLinks(target) {
+ var ul = document.getElementById("menu");
+ var items = ul.getElementsByTagName("li");
+ for (var i = 0; i < items.length; ++i) {
+ removeClass(items[i], "active-trail active");
+ }
+ $('#'+ target).addClass('active-trail active');
+}
+
+function hasClass(ele,cls) {
+ return !!ele.className.match(new RegExp('(\\s|^)'+cls+'(\\s|$)'));
+}
+
+function addClass(ele,cls) {
+ if (!hasClass(ele,cls)) ele.className += " "+cls;
+}
+
+function removeClass(ele,cls) {
+ if (hasClass(ele,cls)) {
+ var reg = new RegExp('(\\s|^)'+cls+'(\\s|$)');
+ ele.className=ele.className.replace(reg,' ');
+ }
+}
+
git://source.jalview.org / jalview.git / blobdiff