+ public static void showURL(String url, String target)\r
+ {\r
+ try\r
+ {\r
+ applet.getAppletContext().showDocument(new java.net.URL(url),\r
+ target);\r
+ }\r
+ catch (Exception ex)\r
+ {\r
+ ex.printStackTrace();\r
+ }\r
+ }\r
+\r
+\r
+ /**\r
+ * Starts a new LoadingThread for loading an alignment file\r
+ *\r
+ * @param file file name including full path to file\r
+ * @param protocol file or URL or paste\r
+ * @param format Fasta, Clustal, PFAM, MSF, PIR, BLC, Jalview\r
+ */\r
+ public void LoadFile(String file, String protocol, String format)\r
+ {\r