From bbc3577d8579b3abef464ddbcce36075202831ec Mon Sep 17 00:00:00 2001
From: jprocter <jprocter@compbio.dundee.ac.uk>
Date: Wed, 3 Aug 2011 14:37:41 +0100
Subject: [PATCH] refactored resolvetocodebase code and reused for resource
 location as well as showURL completion (JAL-786, JAL-787
 and JAL-359)

---
 src/jalview/bin/JalviewLite.java |   50 ++++++++++++++++++++++----------------
 1 file changed, 29 insertions(+), 21 deletions(-)

diff --git a/src/jalview/bin/JalviewLite.java b/src/jalview/bin/JalviewLite.java
index 08229d6..24f3351 100644
--- a/src/jalview/bin/JalviewLite.java
+++ b/src/jalview/bin/JalviewLite.java
@@ -1865,7 +1865,7 @@ public class JalviewLite extends Applet implements StructureSelectionManagerProv
     {
       if (file.indexOf("://") == -1)
       {
-        String fl = applet.getDocumentBase() + file;
+        String fl = applet.resolveUrlForLocalOrAbsolute(file, getDocumentBase());
         try
         {
           if (new java.net.URL(fl).openStream() != null)
@@ -1881,20 +1881,17 @@ public class JalviewLite extends Applet implements StructureSelectionManagerProv
         {
         }
         ;
-        fl = applet.getCodeBase() + file;
+        fl = applet.resolveUrlForLocalOrAbsolute(file, getCodeBase());
         try
         {
           if (new java.net.URL(fl).openStream() != null)
           {
             if (debug)
             {
-              if (debug)
-              {
-                System.err.println("Prepended codebase for resource: '"
-                        + file + "'");
-              }
-              return fl;
+              System.err.println("Prepended codebase for resource: '"
+                      + file + "'");
             }
+            return fl;
           }
         } catch (Exception x)
         {
@@ -2282,6 +2279,27 @@ public class JalviewLite extends Applet implements StructureSelectionManagerProv
     showURL(helpUrl, "HELP");    
   }
   
+  /**
+   * form a complete URL given a path to a resource and a reference location on the same server
+   * @param url - an absolute path on the same server as localref or a document located relative to localref
+   * @param localref - a URL on the same server as url
+   * @return a complete URL for the resource located by url
+   */
+  private String resolveUrlForLocalOrAbsolute(String url, URL localref)
+  {
+    String codebase = localref.toString();
+    if (url.indexOf("/") == 0)
+    {
+      url = codebase.substring(0, codebase.length()
+              - localref.getFile().length())
+              + url;
+    }
+    else
+    {
+      url = localref + url;
+    }
+    return url;
+  }
 
   /**
    * open a URL in the browser - resolving it according to relative refs and coping with javascript: protocol if necessary.
@@ -2297,20 +2315,10 @@ public class JalviewLite extends Applet implements StructureSelectionManagerProv
         // TODO: verify (Bas Vroling bug) prepend codebase or server URL to
         // form valid URL
         // Should really use docbase, not codebase.
-        URL base = getDefaultParameter("resolvetocodebase", false) ? getDocumentBase() : getCodeBase();
-        String codebase = base.toString();
-        if (url.indexOf("/") == 0)
-        {
-          url = codebase.substring(0, codebase.length()
-                  - base.getFile().length())
-                  + url;
-        }
-        else
-        {
-          url = base + url;
-        }
+        URL prepend;
+        url = resolveUrlForLocalOrAbsolute(url, prepend=getDefaultParameter("resolvetocodebase", false) ? getDocumentBase() : getCodeBase());
         if (debug) {
-          System.err.println("Show url (prepended "+codebase+" - toggle resolvetocodebase if code/docbase resolution is wrong): " + url);
+          System.err.println("Show url (prepended "+prepend+" - toggle resolvetocodebase if code/docbase resolution is wrong): " + url);
         }
       }
       else
-- 
1.7.10.2