Formatting changes

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

diff --git a/src/jalview/schemes/ScoreColourScheme.java b/src/jalview/schemes/ScoreColourScheme.java
index 12f252d..b69e536 100755 (executable)
--- a/src/jalview/schemes/ScoreColourScheme.java
+++ b/src/jalview/schemes/ScoreColourScheme.java
@@ -21,12 +21,32 @@ package jalview.schemes;
 import java.awt.*;\r
 \r
 \r
-public class ScoreColourScheme extends ResidueColourScheme {\r
+/**\r
+ * DOCUMENT ME!\r
+ *\r
+ * @author $author$\r
+ * @version $Revision$\r
+ */\r
+public class ScoreColourScheme extends ResidueColourScheme\r
+{\r
+    /** DOCUMENT ME!! */\r
     public double min;\r
+\r
+    /** DOCUMENT ME!! */\r
     public double max;\r
+\r
+    /** DOCUMENT ME!! */\r
     public double[] scores;\r
 \r
-    public ScoreColourScheme(double[] scores, double min, double max) {\r
+    /**\r
+     * Creates a new ScoreColourScheme object.\r
+     *\r
+     * @param scores DOCUMENT ME!\r
+     * @param min DOCUMENT ME!\r
+     * @param max DOCUMENT ME!\r
+     */\r
+    public ScoreColourScheme(double[] scores, double min, double max)\r
+    {\r
         super();\r
 \r
         this.scores = scores;\r
@@ -34,9 +54,20 @@ public class ScoreColourScheme extends ResidueColourScheme {
         this.max = max;\r
     }\r
 \r
-    public Color findColour(String s, int j) {\r
-        if (threshold > 0) {\r
-            if (!aboveThreshold(s, j)) {\r
+    /**\r
+     * DOCUMENT ME!\r
+     *\r
+     * @param s DOCUMENT ME!\r
+     * @param j DOCUMENT ME!\r
+     *\r
+     * @return DOCUMENT ME!\r
+     */\r
+    public Color findColour(String s, int j)\r
+    {\r
+        if (threshold > 0)\r
+        {\r
+            if (!aboveThreshold(s, j))\r
+            {\r
                 return Color.white;\r
             }\r
         }\r
@@ -44,17 +75,20 @@ public class ScoreColourScheme extends ResidueColourScheme {
         float red = (float) (scores[((Integer) ResidueProperties.aaHash.get(s)).intValue()] -\r
             (float) min) / (float) (max - min);\r
 \r
-        if (red > 1.0f) {\r
+        if (red > 1.0f)\r
+        {\r
             red = 1.0f;\r
         }\r
 \r
-        if (red < 0.0f) {\r
+        if (red < 0.0f)\r
+        {\r
             red = 0.0f;\r
         }\r
 \r
         char c = s.charAt(0);\r
 \r
-        if (jalview.util.Comparison.isGap((c))) {\r
+        if (jalview.util.Comparison.isGap((c)))\r
+        {\r
             return Color.white;\r
         }\r
 \r
@@ -62,7 +96,15 @@ public class ScoreColourScheme extends ResidueColourScheme {
         return makeColour(red);\r
     }\r
 \r
-    public Color makeColour(float c) {\r
+    /**\r
+     * DOCUMENT ME!\r
+     *\r
+     * @param c DOCUMENT ME!\r
+     *\r
+     * @return DOCUMENT ME!\r
+     */\r
+    public Color makeColour(float c)\r
+    {\r
         return new Color(c, (float) 0.0, (float) 1.0 - c);\r
     }\r
 }\r