Merge branch 'develop' into JAL-1483_29dev

[jalview.git] / test / jalview / ext / rbvi / chimera / ChimeraCommandsTest.java

diff --git a/test/jalview/ext/rbvi/chimera/ChimeraCommandsTest.java b/test/jalview/ext/rbvi/chimera/ChimeraCommandsTest.java
new file mode 100644 (file)
index 0000000..7dfbba1
--- /dev/null
+++ b/test/jalview/ext/rbvi/chimera/ChimeraCommandsTest.java
@@ -0,0 +1,92 @@
+package jalview.ext.rbvi.chimera;
+
+import static org.junit.Assert.assertEquals;
+import static org.junit.Assert.assertTrue;
+
+import java.awt.Color;
+import java.util.Arrays;
+import java.util.LinkedHashMap;
+import java.util.List;
+import java.util.Map;
+
+import org.junit.Test;
+
+public class ChimeraCommandsTest
+{
+  @Test
+  public void testAddColourRange()
+  {
+    Map<Color, Map<Integer, Map<String, List<int[]>>>> map = new LinkedHashMap<Color, Map<Integer, Map<String, List<int[]>>>>();
+    ChimeraCommands.addColourRange(map, Color.pink, 1, 2, 4, "A");
+    ChimeraCommands.addColourRange(map, Color.pink, 1, 8, 8, "A");
+    ChimeraCommands.addColourRange(map, Color.pink, 1, 5, 7, "B");
+    ChimeraCommands.addColourRange(map, Color.red, 1, 3, 5, "A");
+    ChimeraCommands.addColourRange(map, Color.red, 0, 1, 4, "B");
+    ChimeraCommands.addColourRange(map, Color.orange, 0, 5, 9, "C");
+
+    // three colours mapped
+    assertEquals(3, map.keySet().size());
+
+    // Red has two models, Pink and Orange one each
+    assertEquals(2, map.get(Color.red).keySet().size());
+    assertEquals(1, map.get(Color.orange).keySet().size());
+    assertEquals(1, map.get(Color.pink).keySet().size());
+
+    // pink model 1 has two chains, red.0 / red.1 / orange.0 one each
+    assertEquals(2, map.get(Color.pink).get(1).keySet().size());
+    assertEquals(1, map.get(Color.red).get(0).keySet().size());
+    assertEquals(1, map.get(Color.red).get(1).keySet().size());
+    assertEquals(1, map.get(Color.orange).get(0).keySet().size());
+
+    // inspect positions
+    List<int[]> posList = map.get(Color.pink).get(1).get("A");
+    assertEquals(2, posList.size());
+    assertTrue(Arrays.equals(new int[]
+      { 2, 4 }, posList.get(0)));
+    assertTrue(Arrays.equals(new int[]
+      { 8, 8 }, posList.get(1)));
+
+    posList = map.get(Color.pink).get(1).get("B");
+    assertEquals(1, posList.size());
+    assertTrue(Arrays.equals(new int[]
+      { 5, 7 }, posList.get(0)));
+
+    posList = map.get(Color.red).get(0).get("B");
+    assertEquals(1, posList.size());
+    assertTrue(Arrays.equals(new int[]
+      { 1, 4 }, posList.get(0)));
+
+    posList = map.get(Color.red).get(1).get("A");
+    assertEquals(1, posList.size());
+    assertTrue(Arrays.equals(new int[]
+      { 3, 5 }, posList.get(0)));
+
+    posList = map.get(Color.orange).get(0).get("C");
+    assertEquals(1, posList.size());
+    assertTrue(Arrays.equals(new int[]
+      { 5, 9 }, posList.get(0)));
+  }
+
+  @Test
+  public void testBuildColourCommands()
+  {
+
+    Map<Color, Map<Integer, Map<String, List<int[]>>>> map = new LinkedHashMap<Color, Map<Integer, Map<String, List<int[]>>>>();
+    ChimeraCommands.addColourRange(map, Color.blue, 0, 2, 5, "A");
+    ChimeraCommands.addColourRange(map, Color.blue, 0, 7, 7, "B");
+    ChimeraCommands.addColourRange(map, Color.blue, 0, 9, 23, "A");
+    ChimeraCommands.addColourRange(map, Color.blue, 1, 1, 1, "A");
+    ChimeraCommands.addColourRange(map, Color.blue, 1, 4, 7, "B");
+    ChimeraCommands.addColourRange(map, Color.yellow, 1, 8, 8, "A");
+    ChimeraCommands.addColourRange(map, Color.yellow, 1, 3, 5, "A");
+    ChimeraCommands.addColourRange(map, Color.red, 0, 3, 5, "A");
+
+    // Colours should appear in the Chimera command in the order in which
+    // they were added; within colour, by model, by chain, and positions as
+    // added
+    String command = ChimeraCommands.buildColourCommands(map).get(0);
+    assertEquals(
+            "color #0000ff #0:2-5.A,9-23.A,7.B|#1:1.A,4-7.B; color #ffff00 #1:8.A,3-5.A; color #ff0000 #0:3-5.A",
+            command);
+  }
+}