JAL-1264 remove broken applet build dependencies

[jalview.git] / test / jalview / analysis / AlignmentUtilsTests.java

diff --git a/test/jalview/analysis/AlignmentUtilsTests.java b/test/jalview/analysis/AlignmentUtilsTests.java
index bc6a137..71b1bcb 100644 (file)
--- a/test/jalview/analysis/AlignmentUtilsTests.java
+++ b/test/jalview/analysis/AlignmentUtilsTests.java
@@ -810,4 +810,63 @@ public class AlignmentUtilsTests
     assertFalse(ann5.visible);
     assertTrue(ann6.visible); // not sequence-related, not affected
   }
+
+  /**
+   * Tests for the method that checks if one sequence cross-references another
+   */
+  @Test
+  public void testHasCrossRef()
+  {
+    assertFalse(AlignmentUtils.hasCrossRef(null, null));
+    SequenceI seq1 = new Sequence("EMBL|A12345", "ABCDEF");
+    assertFalse(AlignmentUtils.hasCrossRef(seq1, null));
+    assertFalse(AlignmentUtils.hasCrossRef(null, seq1));
+    SequenceI seq2 = new Sequence("UNIPROT|V20192", "ABCDEF");
+    assertFalse(AlignmentUtils.hasCrossRef(seq1, seq2));
+  
+    // different ref
+    seq1.addDBRef(new DBRefEntry("UNIPROT", "1", "v20193"));
+    assertFalse(AlignmentUtils.hasCrossRef(seq1, seq2));
+  
+    // case-insensitive; version number is ignored
+    seq1.addDBRef(new DBRefEntry("UNIPROT", "1", "v20192"));
+    assertTrue(AlignmentUtils.hasCrossRef(seq1, seq2));
+  
+    // right case!
+    seq1.addDBRef(new DBRefEntry("UNIPROT", "1", "V20192"));
+    assertTrue(AlignmentUtils.hasCrossRef(seq1, seq2));
+    // test is one-way only
+    assertFalse(AlignmentUtils.hasCrossRef(seq2, seq1));
+  }
+
+  /**
+   * Tests for the method that checks if either sequence cross-references the
+   * other
+   */
+  @Test
+  public void testHaveCrossRef()
+  {
+    assertFalse(AlignmentUtils.hasCrossRef(null, null));
+    SequenceI seq1 = new Sequence("EMBL|A12345", "ABCDEF");
+    assertFalse(AlignmentUtils.haveCrossRef(seq1, null));
+    assertFalse(AlignmentUtils.haveCrossRef(null, seq1));
+    SequenceI seq2 = new Sequence("UNIPROT|V20192", "ABCDEF");
+    assertFalse(AlignmentUtils.haveCrossRef(seq1, seq2));
+  
+    seq1.addDBRef(new DBRefEntry("UNIPROT", "1", "V20192"));
+    assertTrue(AlignmentUtils.haveCrossRef(seq1, seq2));
+    // next is true for haveCrossRef, false for hasCrossRef
+    assertTrue(AlignmentUtils.haveCrossRef(seq2, seq1));
+  
+    // now the other way round
+    seq1.setDBRef(null);
+    seq2.addDBRef(new DBRefEntry("EMBL", "1", "A12345"));
+    assertTrue(AlignmentUtils.haveCrossRef(seq1, seq2));
+    assertTrue(AlignmentUtils.haveCrossRef(seq2, seq1));
+  
+    // now both ways
+    seq1.addDBRef(new DBRefEntry("UNIPROT", "1", "V20192"));
+    assertTrue(AlignmentUtils.haveCrossRef(seq1, seq2));
+    assertTrue(AlignmentUtils.haveCrossRef(seq2, seq1));
+  }
 }