+++ /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