X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=test%2Fjalview%2Fschemes%2FFeatureColourTest.java;h=7a72c1510ad83ab88b49bc037c157e40dd3c385c;hb=f7a7a1b85e3ab978220c8ccc924f3356c2a0e523;hp=e13f5421c2749ed44d5ff3f21b6447a1d6f2649c;hpb=579d3d1bccf00ce126ab3574758c6558b1bc3367;p=jalview.git

diff --git a/test/jalview/schemes/FeatureColourTest.java b/test/jalview/schemes/FeatureColourTest.java
index e13f542..7a72c15 100644
--- a/test/jalview/schemes/FeatureColourTest.java
+++ b/test/jalview/schemes/FeatureColourTest.java
@@ -1,19 +1,51 @@
+/*
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
+ * 
+ * This file is part of Jalview.
+ * 
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License 
+ * as published by the Free Software Foundation, either version 3
+ * of the License, or (at your option) any later version.
+ *  
+ * Jalview is distributed in the hope that it will be useful, but 
+ * WITHOUT ANY WARRANTY; without even the implied warranty 
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR 
+ * PURPOSE.  See the GNU General Public License for more details.
+ * 
+ * You should have received a copy of the GNU General Public License
+ * along with Jalview.  If not, see <http://www.gnu.org/licenses/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
+ */
 package jalview.schemes;
 
 import static org.testng.AssertJUnit.assertEquals;
 import static org.testng.AssertJUnit.assertFalse;
+import static org.testng.AssertJUnit.assertNull;
 import static org.testng.AssertJUnit.assertTrue;
 import static org.testng.AssertJUnit.fail;
 
 import jalview.datamodel.SequenceFeature;
+import jalview.gui.JvOptionPane;
+import jalview.util.ColorUtils;
 import jalview.util.Format;
 
 import java.awt.Color;
 
+import org.testng.annotations.BeforeClass;
 import org.testng.annotations.Test;
 
 public class FeatureColourTest
 {
+
+  @BeforeClass(alwaysRun = true)
+  public void setUpJvOptionPane()
+  {
+    JvOptionPane.setInteractiveMode(false);
+    JvOptionPane.setMockResponse(JvOptionPane.CANCEL_OPTION);
+  }
+
   @Test(groups = { "Functional" })
   public void testCopyConstructor()
   {
@@ -53,60 +85,11 @@ public class FeatureColourTest
   }
 
   @Test(groups = { "Functional" })
-  public void testIsColored_simpleColour()
-  {
-    FeatureColour fc = new FeatureColour(Color.RED);
-    assertTrue(fc.isColored(new SequenceFeature()));
-  }
-
-  @Test(groups = { "Functional" })
-  public void testIsColored_colourByLabel()
-  {
-    FeatureColour fc = new FeatureColour();
-    fc.setColourByLabel(true);
-    assertTrue(fc.isColored(new SequenceFeature()));
-  }
-
-  @Test(groups = { "Functional" })
-  public void testIsColored_aboveThreshold()
-  {
-    // graduated colour range from score 20 to 100
-    FeatureColour fc = new FeatureColour(Color.WHITE, Color.BLACK, 20f,
-            100f);
-
-    // score 0 is adjusted to bottom of range
-    SequenceFeature sf = new SequenceFeature("type", "desc", 0, 20, 0f,
-            null);
-    assertTrue(fc.isColored(sf));
-    assertEquals(Color.WHITE, fc.getColor(sf));
-
-    // score 120 is adjusted to top of range
-    sf.setScore(120f);
-    assertEquals(Color.BLACK, fc.getColor(sf));
-
-    // value below threshold is still rendered
-    // setting threshold has no effect yet...
-    fc.setThreshold(60f);
-    sf.setScore(36f);
-    assertTrue(fc.isColored(sf));
-    assertEquals(new Color(204, 204, 204), fc.getColor(sf));
-
-    // now apply threshold:
-    fc.setAboveThreshold(true);
-    assertFalse(fc.isColored(sf));
-    // colour is still returned though ?!?
-    assertEquals(new Color(204, 204, 204), fc.getColor(sf));
-
-    sf.setScore(84); // above threshold now
-    assertTrue(fc.isColored(sf));
-    assertEquals(new Color(51, 51, 51), fc.getColor(sf));
-  }
-
-  @Test(groups = { "Functional" })
   public void testGetColor_simpleColour()
   {
     FeatureColour fc = new FeatureColour(Color.RED);
-    assertEquals(Color.RED, fc.getColor(new SequenceFeature()));
+    assertEquals(Color.RED,
+            fc.getColor(new SequenceFeature("Cath", "", 1, 2, 0f, null)));
   }
 
   @Test(groups = { "Functional" })
@@ -116,14 +99,15 @@ public class FeatureColourTest
     fc.setColourByLabel(true);
     SequenceFeature sf = new SequenceFeature("type", "desc", 0, 20, 1f,
             null);
-    Color expected = UserColourScheme.createColourFromName("desc");
+    Color expected = ColorUtils.createColourFromName("desc");
     assertEquals(expected, fc.getColor(sf));
   }
 
   @Test(groups = { "Functional" })
   public void testGetColor_Graduated()
   {
-    // graduated colour from score 0 to 100, gray(128, 128, 128) to red(255, 0, 0)
+    // graduated colour from score 0 to 100, gray(128, 128, 128) to red(255, 0,
+    // 0)
     FeatureColour fc = new FeatureColour(Color.GRAY, Color.RED, 0f, 100f);
     // feature score is 75 which is 3/4 of the way from GRAY to RED
     SequenceFeature sf = new SequenceFeature("type", "desc", 0, 20, 75f,
@@ -137,20 +121,35 @@ public class FeatureColourTest
   }
 
   @Test(groups = { "Functional" })
-  public void testGetColor_belowThreshold()
+  public void testGetColor_aboveBelowThreshold()
   {
     // gradient from [50, 150] from WHITE(255, 255, 255) to BLACK(0, 0, 0)
     FeatureColour fc = new FeatureColour(Color.WHITE, Color.BLACK, 50f,
             150f);
     SequenceFeature sf = new SequenceFeature("type", "desc", 0, 20, 70f,
             null);
+
+    /*
+     * feature with score of Float.NaN is always assigned minimum colour
+     */
+    SequenceFeature sf2 = new SequenceFeature("type", "desc", 0, 20,
+            Float.NaN, null);
+
     fc.setThreshold(100f); // ignore for now
-    assertTrue(fc.isColored(sf));
     assertEquals(new Color(204, 204, 204), fc.getColor(sf));
+    assertEquals(Color.white, fc.getColor(sf2));
 
     fc.setAboveThreshold(true); // feature lies below threshold
-    assertFalse(fc.isColored(sf));
-    assertEquals(new Color(204, 204, 204), fc.getColor(sf));
+    assertNull(fc.getColor(sf));
+    assertEquals(Color.white, fc.getColor(sf2));
+
+    fc.setBelowThreshold(true);
+    fc.setThreshold(70f);
+    assertNull(fc.getColor(sf)); // feature score == threshold - hidden
+    assertEquals(Color.white, fc.getColor(sf2));
+    fc.setThreshold(69f);
+    assertNull(fc.getColor(sf)); // feature score > threshold - hidden
+    assertEquals(Color.white, fc.getColor(sf2));
   }
 
   /**
@@ -166,7 +165,7 @@ public class FeatureColourTest
     String redHex = Format.getHexString(Color.RED);
     String hexColour = redHex;
     assertEquals("domain\t" + hexColour, fc.toJalviewFormat("domain"));
-    
+
     /*
      * colour by label (no threshold)
      */