X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=site-resources%2Fjavascript%2Fjvcontroller.js;fp=site-resources%2Fjavascript%2Fjvcontroller.js;h=0000000000000000000000000000000000000000;hb=4f77328104498504339216829abf5ea87e2791ec;hp=8116e602e32014b33c8cc98f2f261855b23f54d1;hpb=2b8c0785318a3528e1876e8e2dd48b7d831eae69;p=jalview.git

diff --git a/site-resources/javascript/jvcontroller.js b/site-resources/javascript/jvcontroller.js
deleted file mode 100644
index 8116e60..0000000
--- a/site-resources/javascript/jvcontroller.js
+++ /dev/null
@@ -1,220 +0,0 @@
-/**
- * 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,' ');
-  }
-}
-