X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fbin%2FConsole.java;h=7ac793db05e58471ab0a6a179247d8d76ea992a1;hb=91bb9b5c473c14f3381fbea3570b4dc1875b68f2;hp=30fd530ba04b91c2c33c61466629ed53e91d4aaf;hpb=b58f8f5b699a2cbf04f3d5cda87de31b81811e10;p=jalview.git

diff --git a/src/jalview/bin/Console.java b/src/jalview/bin/Console.java
index 30fd530..7ac793d 100644
--- a/src/jalview/bin/Console.java
+++ b/src/jalview/bin/Console.java
@@ -43,7 +43,7 @@ public class Console
     }
     else
     {
-      System.out.println(message);
+      outputMessage(message);
       t.printStackTrace();
     }
 
@@ -57,7 +57,7 @@ public class Console
     }
     else
     {
-      System.out.println(message);
+      outputMessage(message);
     }
 
   }
@@ -70,7 +70,7 @@ public class Console
     }
     else
     {
-      System.out.println(message);
+      outputMessage(message);
       t.printStackTrace();
     }
   }
@@ -83,7 +83,7 @@ public class Console
     }
     else
     {
-      System.out.println(message);
+      outputMessage(message);
     }
 
   }
@@ -96,7 +96,7 @@ public class Console
     }
     else
     {
-      System.out.println(message);
+      outputMessage(message);
       t.printStackTrace();
     }
 
@@ -110,7 +110,7 @@ public class Console
     }
     else
     {
-      System.out.println(message);
+      outputMessage(message);
     }
 
   }
@@ -123,7 +123,7 @@ public class Console
     }
     else
     {
-      System.out.println(message);
+      outputMessage(message);
     }
   }
 
@@ -135,7 +135,7 @@ public class Console
     }
     else
     {
-      System.out.println(message);
+      outputMessage(message);
       t.printStackTrace();
     }
 
@@ -306,6 +306,21 @@ public class Console
     }
   }
 
+  public static void outputMessage(String message)
+  {
+    // send message to stderr if output to stdout is expected
+    if (Jalview.getInstance() != null
+            && Jalview.getInstance().bootstrapArgs != null
+            && Jalview.getInstance().bootstrapArgs.outputToStdout())
+    {
+      System.err.println(message);
+    }
+    else
+    {
+      System.out.println(message);
+    }
+  }
+
   public final static String LOGGING_TEST_MESSAGE = "Logging to STDERR";
 
 }