X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fschemes%2FFeatureColour.java;h=a40a6901decdb56137fadc5c84e4394065f733d0;hb=32c56f877253fa8917d4f4640ed65d6e63376dac;hp=70897de4ffd6c56db7f3f78ee29eaec0bf6d9ccc;hpb=b0cee3aaf7d8873910939f97b6acb217d518968d;p=jalview.git

diff --git a/src/jalview/schemes/FeatureColour.java b/src/jalview/schemes/FeatureColour.java
index 70897de..a40a690 100644
--- a/src/jalview/schemes/FeatureColour.java
+++ b/src/jalview/schemes/FeatureColour.java
@@ -125,8 +125,8 @@ public class FeatureColour implements FeatureColourI
       Color colour = ColorUtils.parseColourString(descriptor);
       if (colour == null)
       {
-        throw new IllegalArgumentException("Invalid colour descriptor: "
-                + descriptor);
+        throw new IllegalArgumentException(
+                "Invalid colour descriptor: " + descriptor);
       }
       return new FeatureColour(colour);
     }
@@ -213,9 +213,9 @@ public class FeatureColour implements FeatureColourI
     FeatureColour featureColour;
     try
     {
-      featureColour = new FeatureColour(
-              new UserColourScheme(mincol).findColour(),
-              new UserColourScheme(maxcol).findColour(), min, max);
+      Color minColour = ColorUtils.parseColourString(mincol);
+      Color maxColour = ColorUtils.parseColourString(maxcol);
+      featureColour = new FeatureColour(minColour, maxColour, min, max);
       featureColour.setColourByLabel(labelColour);
       featureColour.setAutoScaled(autoScaled);
       // add in any additional parameters
@@ -236,8 +236,8 @@ public class FeatureColour implements FeatureColourI
         {
           if (!ttype.toLowerCase().startsWith("no"))
           {
-            System.err.println("Ignoring unrecognised threshold type : "
-                    + ttype);
+            System.err.println(
+                    "Ignoring unrecognised threshold type : " + ttype);
           }
         }
       }
@@ -256,8 +256,8 @@ public class FeatureColour implements FeatureColourI
       }
       if (gcol.hasMoreTokens())
       {
-        System.err
-                .println("Ignoring additional tokens in parameters in graduated colour specification\n");
+        System.err.println(
+                "Ignoring additional tokens in parameters in graduated colour specification\n");
         while (gcol.hasMoreTokens())
         {
           System.err.println("|" + gcol.nextToken());
@@ -307,6 +307,14 @@ public class FeatureColour implements FeatureColourI
    */
   public FeatureColour(Color low, Color high, float min, float max)
   {
+    if (low == null)
+    {
+      low = Color.white;
+    }
+    if (high == null)
+    {
+      high = Color.black;
+    }
     graduatedColour = true;
     colour = null;
     minColour = low;
@@ -534,8 +542,7 @@ public class FeatureColour implements FeatureColourI
   {
     if (isColourByLabel())
     {
-      return ColorUtils
-              .createColourFromName(feature.getDescription());
+      return ColorUtils.createColourFromName(feature.getDescription());
     }
 
     if (!isGraduatedColour())