JAL-629 Change all stdout and stderr output to use Console.outPrintln and Console...

[jalview.git] / src / jalview / schemes / UserColourScheme.java

diff --git a/src/jalview/schemes/UserColourScheme.java b/src/jalview/schemes/UserColourScheme.java
index d77f2f5..ec0f008 100755 (executable)
--- a/src/jalview/schemes/UserColourScheme.java
+++ b/src/jalview/schemes/UserColourScheme.java
@@ -20,6 +20,8 @@
  */
 package jalview.schemes;
 
+import java.util.Locale;
+
 import jalview.api.AlignViewportI;
 import jalview.datamodel.AnnotatedCollectionI;
 import jalview.util.ColorUtils;
@@ -106,7 +108,7 @@ public class UserColourScheme extends ResidueColourScheme
 
     if (col == null)
     {
-      System.out.println("Making colour from name: " + colour);
+      jalview.bin.Console.outPrintln("Making colour from name: " + colour);
       col = ColorUtils.createColourFromName(colour);
     }
 
@@ -215,7 +217,7 @@ public class UserColourScheme extends ResidueColourScheme
             continue;
           }
 
-          if (residue.equals(residue.toLowerCase()))
+          if (residue.equals(residue.toLowerCase(Locale.ROOT)))
           {
             if (lowerCaseColours == null)
             {
@@ -232,7 +234,7 @@ public class UserColourScheme extends ResidueColourScheme
       }
     } catch (Exception ex)
     {
-      System.out.println(
+      jalview.bin.Console.outPrintln(
               "Error parsing userDefinedColours:\n" + token + "\n" + ex);
     }
 
@@ -306,7 +308,7 @@ public class UserColourScheme extends ResidueColourScheme
         c = lowerCaseColours[index];
         if (c != null && !c.equals(Color.white))
         {
-          residue = residue.toLowerCase();
+          residue = residue.toLowerCase(Locale.ROOT);
           if (colours.get(c) == null)
           {
             colours.put(c, new ArrayList<String>());