X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fbin%2FCache.java;h=eb503d5858440a6954f8a4db74b040549fceb438;hb=8b875ed4be8113683a34f4d4df36b3a6bb1c556e;hp=c88c92a519d600470e8867e77d90b2b61159432d;hpb=f24dacb1da56fccf05d684e2f4899facec2aecf7;p=jalview.git

diff --git a/src/jalview/bin/Cache.java b/src/jalview/bin/Cache.java
index c88c92a..eb503d5 100755
--- a/src/jalview/bin/Cache.java
+++ b/src/jalview/bin/Cache.java
@@ -72,7 +72,6 @@ public class Cache
         jalview.bin.Cache.log.setLevel(Level.toLevel(Cache.getDefault(
             "logs.Jalview.level",
             Level.INFO.toString())));
-
         ConsoleAppender ap = new ConsoleAppender(new SimpleLayout(),
                                                  "System.err");
         ap.setName("JalviewLogger");
@@ -80,6 +79,8 @@ public class Cache
         laxis.addAppender(ap);
         lcastor.addAppender(ap);
         jalview.bin.Cache.log.addAppender(ap);
+        // Tell the user that debug is enabled
+        jalview.bin.Cache.log.debug("Jalview Debugging Output Follows.");
       }
       catch (Exception ex)
       {
@@ -212,6 +213,7 @@ public class Cache
 
         //LOAD USERDEFINED COLOURS
         jalview.gui.UserDefinedColours.initUserColourSchemes( getProperty("USER_DEFINED_COLOURS"));
+        jalview.io.PIRFile.useModellerOutput = Cache.getDefault("PIR_MODELLER", false);
     }