JAL-4366 fixed wrinkles in reconstructing peptide alignment using 3di alignment....

[jalview.git] / test / jalview / datamodel / SearchResultsTest.java

diff --git a/test/jalview/datamodel/SearchResultsTest.java b/test/jalview/datamodel/SearchResultsTest.java
index b1bb43c..ee232c0 100644 (file)
--- a/test/jalview/datamodel/SearchResultsTest.java
+++ b/test/jalview/datamodel/SearchResultsTest.java
@@ -206,6 +206,31 @@ public class SearchResultsTest
     assertFalse(m.contains(null, 3, 3));
   }
 
+  @Test(groups = { "Functional" })
+  public void testMatchAdjacent()
+  {
+    SequenceI seq1 = new Sequence("", "abcdefghijklm");
+    SequenceI seq2 = new Sequence("", "abcdefghijklm");
+    SearchResultMatchI m = new SearchResults().new Match(seq1, 2, 5);
+
+    assertTrue(m.adjacent(seq1, 2, 5));
+    assertTrue(m.adjacent(seq1, 3, 5));
+    assertTrue(m.adjacent(seq1, 2, 4));
+    assertTrue(m.adjacent(seq1, 3, 3));
+
+    assertTrue(m.adjacent(seq1, 2, 6));
+    assertTrue(m.adjacent(seq1, 1, 5));
+    assertTrue(m.adjacent(seq1, 1, 8));
+    assertFalse(m.adjacent(seq1, 0, 0));
+    assertFalse(m.adjacent(seq1, 7, 8));
+    assertTrue(m.adjacent(seq1, 6, 8));
+    assertTrue(m.adjacent(seq1, 5, 8));
+    assertTrue(m.adjacent(seq1, 0, 1));
+
+    assertFalse(m.adjacent(seq2, 3, 3));
+    assertFalse(m.adjacent(null, 3, 3));
+  }
+
   /**
    * test markColumns for creating column selections
    */
@@ -308,6 +333,38 @@ public class SearchResultsTest
   }
 
   /**
+   * Test to verify appending creates a minimal set of results
+   */
+  @Test(groups = { "Functional" })
+  public void testAppendResult()
+  {
+    SequenceI seq1 = new Sequence("", "abcdefghijklm"),
+            seq2 = new Sequence("", "defdefdefdef");
+    SearchResultsI sr = new SearchResults();
+    sr.appendResult(seq1, 3, 5);
+    assertEquals(1, sr.getCount());
+    sr.appendResult(seq1, 3, 6);
+    assertEquals(1, sr.getCount());
+    sr.appendResult(seq1, 8, 8);
+    assertEquals(2, sr.getCount());
+    sr.appendResult(seq1, 7, 7);
+    assertEquals(1, sr.getCount());
+    sr.appendResult(seq2, 7, 7);
+    assertEquals(2, sr.getCount());
+    sr.appendResult(seq2, 2, 7);
+    assertTrue(sr.appendResult(seq2, 7, 49));
+    assertTrue(sr.appendResult(seq2, 0, 30));
+    assertEquals(2, sr.getCount());
+    int c = 0;
+    for (SearchResultMatchI sre : sr.getResults())
+    {
+      c++;
+    }
+    assertEquals(c, 2);
+
+  }
+
+  /**
    * Test for method that checks if search results matches a sequence region
    */
   @Test(groups = { "Functional" })