X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=forester%2Fjava%2Fsrc%2Forg%2Fforester%2Farchaeopteryx%2FTreeColorSet.java;fp=forester%2Fjava%2Fsrc%2Forg%2Fforester%2Farchaeopteryx%2FTreeColorSet.java;h=b11494499b75373f39bd717e8decdf640041a6e7;hb=5ddbd83b67f268536509c2382425b1f2d69298af;hp=7e115777d077240682d89c0f63ca7ca9aa2c9c51;hpb=7ad61d2a9b5de4561d5e5184c6748c20edb417a2;p=jalview.git

diff --git a/forester/java/src/org/forester/archaeopteryx/TreeColorSet.java b/forester/java/src/org/forester/archaeopteryx/TreeColorSet.java
index 7e11577..b114944 100644
--- a/forester/java/src/org/forester/archaeopteryx/TreeColorSet.java
+++ b/forester/java/src/org/forester/archaeopteryx/TreeColorSet.java
@@ -103,9 +103,9 @@ public final class TreeColorSet {
             new Color( 0, 0, 0 ), // box_color
             new Color( 0, 0, 0 ), // collapesed_fill_color
             new Color( 255, 0, 0 ), // found_color
-            new Color( 0, 0, 0 ), // duplication_box_color
-            new Color( 200, 200, 200 ), // speciation_box_color
-            new Color( 0, 0, 0 ), // duplication_speciation_color
+            new Color( 255, 0, 0 ), // duplication_box_color
+            new Color( 0, 255, 0 ), // speciation_box_color
+            new Color( 255, 255, 0 ), // duplication_speciation_color
             new Color( 0, 0, 0 ), // domains_color
             new Color( 0, 0, 0 ), // binary_domain_combinations_color
             new Color( 0, 0, 0 ) // annotation
@@ -121,8 +121,8 @@ public final class TreeColorSet {
             new Color( 140, 140, 140 ), // collapesed_fill_color
             new Color( 255, 0, 0 ), // found_color
             new Color( 255, 0, 0 ), // duplication_box_color
-            new Color( 200, 200, 200 ), // speciation_box_color
-            new Color( 140, 140, 140 ), // duplication_speciation_color
+            new Color( 0, 255, 0 ), // speciation_box_color
+            new Color( 255, 255, 0 ), // duplication_speciation_color
             new Color( 180, 180, 180 ), // domains_color
             new Color( 180, 180, 180 ), // binary_domain_combinations_color
             new Color( 140, 140, 140 ) // annotation
@@ -137,9 +137,9 @@ public final class TreeColorSet {
             new Color( 0, 255, 0 ), // box_color
             new Color( 0, 255, 0 ), // collapesed_fill_color
             new Color( 255, 255, 255 ), // found_color
-            new Color( 255, 255, 255 ), // duplication_box_color
+            new Color( 255, 0, 0 ), // duplication_box_color
             new Color( 0, 255, 0 ), // speciation_box_color
-            new Color( 120, 120, 120 ), // duplication_speciation_color
+            new Color( 255, 255, 0 ), // duplication_speciation_color
             new Color( 0, 235, 0 ), // domains_color
             new Color( 0, 235, 0 ), // binary_domain_combinations_color
             new Color( 0, 235, 0 ) // annotation
@@ -205,9 +205,9 @@ public final class TreeColorSet {
             new Color( 255, 0, 0 ), // box_color
             new Color( 0, 0, 0 ), // collapesed_fill_color
             new Color( 0, 255, 0 ), // found_color
-            new Color( 255, 0, 255 ), // duplication_box_color
-            new Color( 255, 255, 255 ), // speciation_box_color
-            new Color( 100, 100, 100 ), // duplication_speciation_color
+            new Color( 255, 0, 0 ), // duplication_box_color
+            new Color( 0, 255, 0 ), // speciation_box_color
+            new Color( 255, 255, 0 ), // duplication_speciation_color
             new Color( 255, 255, 255 ), // domains_color
             new Color( 255, 255, 255 ), // binary_domain_combinations_color
             new Color( 255, 255, 255 ) // annotation