--- /dev/null
+import java.io.*;\r
+import java.util.*;\r
+\r
+public class help2Website\r
+{\r
+\r
+ public static void main(String [] args)\r
+ {\r
+ try{\r
+ Hashtable targets = new Hashtable();\r
+\r
+ File toc = new File("helpTOC.xml");\r
+ File jhm = new File("help.jhm");\r
+\r
+ BufferedReader in = new BufferedReader(new FileReader(jhm));\r
+\r
+ PrintWriter out = new PrintWriter(new FileWriter("helpTOC.html"));\r
+ out.println("<html><head></head><title>Jalview - Help </title></head>\n"\r
+ +"<body bgcolor=#F1F1F1>\n"\r
+ +"<p><center><strong>Contents</strong></center></p>\n"\r
+ +"<table border=0 width=100%><tr><td width=100% nowrap><font face=Arial size=2>\n");\r
+\r
+ String line;\r
+\r
+ StringTokenizer st;\r
+ StringBuffer indent = new StringBuffer();\r
+ String target, url, text;\r
+ while( (line = in.readLine()) != null)\r
+ {\r
+ if(line.indexOf("target")==-1)\r
+ continue;\r
+\r
+ st = new StringTokenizer(line, "\"");\r
+ st.nextToken(); //<mapID target="\r
+\r
+ target = st.nextToken();\r
+ st.nextToken(); //" url="\r
+\r
+ url = st.nextToken();\r
+ targets.put(target, url);\r
+ }\r
+\r
+ in = new BufferedReader(new FileReader(toc));\r
+ while( (line = in.readLine()) != null)\r
+ {\r
+ if(line.indexOf("</tocitem>")!=-1)\r
+ indent.setLength(indent.length()-18);\r
+\r
+ if(line.indexOf("<tocitem")==-1)\r
+ continue;\r
+\r
+ st = new StringTokenizer(line, "\"");\r
+ st.nextToken();\r
+\r
+ text = st.nextToken();\r
+ st.nextToken();\r
+\r
+ target = st.nextToken();\r
+\r
+ if(targets.get(target)!=null)\r
+ out.println("<br>"+indent+"<a href=\""\r
+ + targets.get(target)\r
+ +"\" target=bodyframe>"\r
+ +text\r
+ +"</a>");\r
+ else\r
+ out.println("<br>"+indent+text);\r
+\r
+\r
+ if(line.indexOf("/>")==-1)\r
+ indent.append(" ");\r
+\r
+ }\r
+\r
+\r
+ out.close();\r
+\r
+ }\r
+\r
+ catch(Exception ex)\r
+ {\r
+ ex.printStackTrace();\r
+\r
+ System.out.println("Usage: move to Help directory. help2Website will read"\r
+ +"\nhelpTOC.xml and help.jhm producing output helpTOC.html");\r
+ }\r
+ }\r
+\r
+\r
+}
\ No newline at end of file