Merge branch 'bug/JAL-3120restoreFeatureColour' into merge/JAL-3120

[jalview.git] / test / jalview / schemes / FeatureColourTest.java

diff --git a/test/jalview/schemes/FeatureColourTest.java b/test/jalview/schemes/FeatureColourTest.java
index 1a6a5f3..8f7ac7c 100644 (file)
--- a/test/jalview/schemes/FeatureColourTest.java
+++ b/test/jalview/schemes/FeatureColourTest.java
@@ -469,11 +469,60 @@ public class FeatureColourTest
     assertFalse(fc.hasThreshold());
     assertEquals(Color.RED, fc.getMinColour());
     assertEquals(Color.GREEN, fc.getMaxColour());
+    assertEquals(Color.RED, fc.getNoColour());
     assertEquals(10f, fc.getMin());
     assertEquals(20f, fc.getMax());
     assertTrue(fc.isAutoScaled());
 
     /*
+     * the same, with 'no value colour' specified as max
+     */
+    fc = FeatureColour
+            .parseJalviewFeatureColour("red|green|novaluemax|10.0|20.0");
+    assertEquals(Color.RED, fc.getMinColour());
+    assertEquals(Color.GREEN, fc.getMaxColour());
+    assertEquals(Color.GREEN, fc.getNoColour());
+    assertEquals(10f, fc.getMin());
+    assertEquals(20f, fc.getMax());
+
+    /*
+     * the same, with 'no value colour' specified as min
+     */
+    fc = FeatureColour
+            .parseJalviewFeatureColour("red|green|novalueMin|10.0|20.0");
+    assertEquals(Color.RED, fc.getMinColour());
+    assertEquals(Color.GREEN, fc.getMaxColour());
+    assertEquals(Color.RED, fc.getNoColour());
+    assertEquals(10f, fc.getMin());
+    assertEquals(20f, fc.getMax());
+
+    /*
+     * the same, with 'no value colour' specified as none
+     */
+    fc = FeatureColour
+            .parseJalviewFeatureColour("red|green|novaluenone|10.0|20.0");
+    assertEquals(Color.RED, fc.getMinColour());
+    assertEquals(Color.GREEN, fc.getMaxColour());
+    assertNull(fc.getNoColour());
+    assertEquals(10f, fc.getMin());
+    assertEquals(20f, fc.getMax());
+
+    /*
+     * the same, with invalid 'no value colour'
+     */
+    try
+    {
+      fc = FeatureColour
+              .parseJalviewFeatureColour("red|green|blue|10.0|20.0");
+      fail("expected exception");
+    } catch (IllegalArgumentException e)
+    {
+      assertEquals(
+              "Couldn't parse the minimum value for graduated colour ('blue')",
+              e.getMessage());
+    }
+
+    /*
      * graduated colour (explicitly by 'score') (no threshold)
      */
     fc = FeatureColour
@@ -610,4 +659,45 @@ public class FeatureColourTest
     Color expected = new Color(70, 120, 170);
     assertEquals(expected, fc.getColor(sf));
   }
+
+  @Test(groups = { "Functional" })
+  public void testIsOutwithThreshold()
+  {
+    FeatureColourI fc = new FeatureColour(Color.red);
+    SequenceFeature sf = new SequenceFeature("METAL", "desc", 10, 12, 1.2f, "grp");
+    assertFalse(fc.isOutwithThreshold(null));
+    assertFalse(fc.isOutwithThreshold(sf));
+
+    fc = new FeatureColour(null, Color.white, Color.black, Color.green, 0f,
+            10f);
+    assertFalse(fc.isOutwithThreshold(sf)); // no threshold
+
+    fc.setAboveThreshold(true);
+    fc.setThreshold(1f);
+    assertFalse(fc.isOutwithThreshold(sf)); // feature score 1.2 is above 1
+
+    fc.setThreshold(2f);
+    assertTrue(fc.isOutwithThreshold(sf)); // feature score 1.2 is not above 2
+
+    fc.setBelowThreshold(true);
+    assertFalse(fc.isOutwithThreshold(sf)); // feature score 1.2 is below 2
+
+    fc.setThreshold(1f);
+    assertTrue(fc.isOutwithThreshold(sf)); // feature score 1.2 is not below 1
+
+    /*
+     * with attribute value threshold
+     */
+    fc.setAttributeName("AC");
+    assertFalse(fc.isOutwithThreshold(sf)); // missing attribute AC is ignored
+
+    sf.setValue("AC", "-1");
+    assertFalse(fc.isOutwithThreshold(sf)); // value -1 is below 1
+
+    sf.setValue("AC", "1");
+    assertTrue(fc.isOutwithThreshold(sf)); // value 1 is not below 1
+
+    sf.setValue("AC", "junk");
+    assertFalse(fc.isOutwithThreshold(sf)); // bad value is ignored
+  }
 }