X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FPreferences.java;h=9267800568839bf3accede9c22abce0ad0f1a6de;hb=bfc02f81d9bd87c62b204d0768b16b3efdca684e;hp=b92f9da7cfc52446f8e163303fa856af255a508f;hpb=aaf78c2f304b237a9c800137126967ace9437c99;p=jalview.git

diff --git a/src/jalview/gui/Preferences.java b/src/jalview/gui/Preferences.java
index b92f9da..9267800 100755
--- a/src/jalview/gui/Preferences.java
+++ b/src/jalview/gui/Preferences.java
@@ -189,7 +189,7 @@ public class Preferences extends GPreferences
     startupCheckbox
             .setSelected(Cache.getDefault("SHOW_STARTUP_FILE", true));
     startupFileTextfield.setText(Cache.getDefault("STARTUP_FILE",
-            "http://www.jalview.org/examples/exampleFile_2_3.jar"));
+            Cache.getDefault("www.jalview.org","http://www.jalview.org")+"/examples/exampleFile_2_3.jar"));
 
     sortby.addItem("No sort");
     sortby.addItem("Id");
@@ -335,8 +335,8 @@ public class Preferences extends GPreferences
     Cache.applicationProperties.setProperty("SORT_ALIGNMENT", sortby
             .getSelectedItem().toString());
 
-    Cache.applicationProperties.setProperty("ANNOTATIONCOLOUR_MIN", minColour.getBackground().toString());
-    Cache.applicationProperties.setProperty("ANNOTATIONCOLOUR_MAX", maxColour.getBackground().toString());
+    Cache.setColourProperty("ANNOTATIONCOLOUR_MIN", minColour.getBackground());
+    Cache.setColourProperty("ANNOTATIONCOLOUR_MAX", maxColour.getBackground());
     
     if (epsRendering.getSelectedItem().equals("Prompt each time"))
     {
@@ -503,6 +503,7 @@ public class Preferences extends GPreferences
     try
     {
       wsPrefs.updateWsMenuConfig(true);
+      wsPrefs.refreshWs_actionPerformed(e);
       frame.setClosed(true);
     } catch (Exception ex)
     {