JAL-3140 NCList now via IntervalStore library

[jalview.git] / test / jalview / datamodel / features / NCNodeTest.java

diff --git a/test/jalview/datamodel/features/NCNodeTest.java b/test/jalview/datamodel/features/NCNodeTest.java
deleted file mode 100644 (file)
index 4713084..0000000
--- a/test/jalview/datamodel/features/NCNodeTest.java
+++ /dev/null
@@ -1,136 +0,0 @@
-package jalview.datamodel.features;
-
-import static org.testng.Assert.assertEquals;
-import static org.testng.Assert.assertFalse;
-import static org.testng.Assert.assertTrue;
-
-import jalview.datamodel.Range;
-import jalview.datamodel.SequenceFeature;
-
-import java.util.ArrayList;
-import java.util.List;
-
-import junit.extensions.PA;
-
-import org.testng.annotations.Test;
-
-public class NCNodeTest
-{
-  @Test(groups = "Functional")
-  public void testAdd()
-  {
-    Range r1 = new Range(10, 20);
-    NCNode<Range> node = new NCNode<Range>(r1);
-    assertEquals(node.getBegin(), 10);
-    Range r2 = new Range(10, 15);
-    node.add(r2);
-
-    List<Range> contents = new ArrayList<Range>();
-    node.getEntries(contents);
-    assertEquals(contents.size(), 2);
-    assertTrue(contents.contains(r1));
-    assertTrue(contents.contains(r2));
-  }
-
-  @Test(
-    groups = "Functional",
-    expectedExceptions = { IllegalArgumentException.class })
-  public void testAdd_invalidRangeStart()
-  {
-    Range r1 = new Range(10, 20);
-    NCNode<Range> node = new NCNode<Range>(r1);
-    assertEquals(node.getBegin(), 10);
-    Range r2 = new Range(9, 15);
-    node.add(r2);
-  }
-
-  @Test(
-    groups = "Functional",
-    expectedExceptions = { IllegalArgumentException.class })
-  public void testAdd_invalidRangeEnd()
-  {
-    Range r1 = new Range(10, 20);
-    NCNode<Range> node = new NCNode<Range>(r1);
-    assertEquals(node.getBegin(), 10);
-    Range r2 = new Range(12, 21);
-    node.add(r2);
-  }
-
-  @Test(groups = "Functional")
-  public void testGetEntries()
-  {
-    Range r1 = new Range(10, 20);
-    NCNode<Range> node = new NCNode<Range>(r1);
-    List<Range> entries = new ArrayList<Range>();
-
-    node.getEntries(entries);
-    assertEquals(entries.size(), 1);
-    assertTrue(entries.contains(r1));
-
-    // clearing the returned list does not affect the NCNode
-    entries.clear();
-    node.getEntries(entries);
-    assertEquals(entries.size(), 1);
-    assertTrue(entries.contains(r1));
-
-    Range r2 = new Range(15, 18);
-    node.add(r2);
-    entries.clear();
-    node.getEntries(entries);
-    assertEquals(entries.size(), 2);
-    assertTrue(entries.contains(r1));
-    assertTrue(entries.contains(r2));
-  }
-
-  /**
-   * Tests for the contains method (uses entry.equals() test)
-   */
-  @Test(groups = "Functional")
-  public void testContains()
-  {
-    SequenceFeature sf1 = new SequenceFeature("type", "desc", 1, 10, 2f,
-            "group");
-    SequenceFeature sf2 = new SequenceFeature("type", "desc", 1, 10, 2f,
-            "group");
-    SequenceFeature sf3 = new SequenceFeature("type", "desc", 1, 10, 2f,
-            "anothergroup");
-    NCNode<SequenceFeature> node = new NCNode<SequenceFeature>(sf1);
-
-    assertFalse(node.contains(null));
-    assertTrue(node.contains(sf1));
-    assertTrue(node.contains(sf2)); // sf1.equals(sf2)
-    assertFalse(node.contains(sf3)); // !sf1.equals(sf3)
-  }
-
-  /**
-   * Test method that checks for valid structure. Valid means that all
-   * subregions (if any) lie within the root range, and that all subregions have
-   * valid structure.
-   */
-  @Test(groups = "Functional")
-  public void testIsValid()
-  {
-    Range r1 = new Range(10, 20);
-    Range r2 = new Range(14, 15);
-    Range r3 = new Range(16, 17);
-    NCNode<Range> node = new NCNode<Range>(r1);
-    node.add(r2);
-    node.add(r3);
-
-    /*
-     * node has root range [10-20] and contains an
-     * NCList of [14-15, 16-17]
-     */
-    assertTrue(node.isValid());
-    PA.setValue(r1, "start", 15);
-    assertFalse(node.isValid()); // r2 not within r1
-    PA.setValue(r1, "start", 10);
-    assertTrue(node.isValid());
-    PA.setValue(r1, "end", 16);
-    assertFalse(node.isValid()); // r3 not within r1
-    PA.setValue(r1, "end", 20);
-    assertTrue(node.isValid());
-    PA.setValue(r3, "start", 12);
-    assertFalse(node.isValid()); // r3 should precede r2
-  }
-}