test/jalview/analysis/SequenceIdMatcherTest.java

   1 package jalview.analysis;
   2
   3 import static org.testng.AssertJUnit.assertFalse;
   4 import static org.testng.AssertJUnit.assertTrue;
   5
   6 import jalview.analysis.SequenceIdMatcher.SeqIdName;
   7 import jalview.datamodel.SequenceI;
   8
   9 import org.testng.annotations.Test;
  10
  11 public class SequenceIdMatcherTest
  12 {
  13
  14   /**
  15    * Test the method that checks for one sequence id starting with the other,
  16    * followed by an 'allowed' separator character
  17    */
  18   @Test(groups = "Functional")
  19   public void test_seqIdNameEquals()
  20   {
  21     SequenceIdMatcher sequenceIdMatcher = new SequenceIdMatcher(
  22             new SequenceI[] {});
  23
  24     /*
  25      * target name = matcher name + word separator...
  26      */
  27     SeqIdName testee = sequenceIdMatcher.new SeqIdName("A12345");
  28     assertTrue(testee.equals("A12345"));
  29     assertTrue(testee.equals("A12345~"));
  30     assertTrue(testee.equals("A12345."));
  31     assertTrue(testee.equals("A12345 "));
  32     assertTrue(testee.equals("A12345|"));
  33     assertTrue(testee.equals("A12345#"));
  34     assertTrue(testee.equals("A12345\\"));
  35     assertTrue(testee.equals("A12345/"));
  36     assertTrue(testee.equals("A12345<"));
  37     assertTrue(testee.equals("A12345>"));
  38     assertTrue(testee.equals("A12345!"));
  39     assertTrue(testee.equals("A12345\""));
  40     assertTrue(testee.equals("A12345" + String.valueOf((char) 0x00A4)));
  41     assertTrue(testee.equals("A12345$a"));
  42     assertTrue(testee.equals("A12345%b"));
  43     assertTrue(testee.equals("A12345^cd"));
  44     assertTrue(testee.equals("A12345*efg"));
  45     assertTrue(testee.equals("A12345)^&!"));
  46     assertTrue(testee.equals("A12345}01&*"));
  47     assertTrue(testee.equals("A12345[A23456"));
  48     assertTrue(testee.equals("A12345@|Uniprot"));
  49     assertTrue(testee.equals("A12345'whatever you want here"));
  50     assertTrue(testee.equals("A12345,"));
  51     assertTrue(testee.equals("A12345?"));
  52     assertTrue(testee.equals("A12345_"));
  53     /*
  54      * case insensitive matching
  55      */
  56     assertTrue(testee.equals("a12345"));
  57
  58     /*
  59      * matcher name = target name + word separator...
  60      */
  61     testee = sequenceIdMatcher.new SeqIdName("A12345#");
  62     assertTrue(testee.equals("A12345"));
  63
  64     /*
  65      * case insensitive matching
  66      */
  67     assertTrue(testee.equals("a12345"));
  68
  69     /*
  70      * miscellaneous failing cases
  71      */
  72     testee = sequenceIdMatcher.new SeqIdName("A12345");
  73     assertFalse(testee.equals((Object) null));
  74     assertFalse(testee.equals(""));
  75     assertFalse(testee.equals("A12346|A12345"));
  76     /*
  77      * case insensitive matching
  78      */
  79     assertTrue(testee.equals("a12345"));
  80
  81     testee = sequenceIdMatcher.new SeqIdName("A12345?B23456");
  82     assertFalse(testee.equals("B23456"));
  83     assertFalse(testee.equals("A12345|"));
  84     assertFalse(testee.equals("A12345?"));
  85
  86     testee = sequenceIdMatcher.new SeqIdName("A12345<");
  87     assertFalse(testee.equals("A12345?"));
  88     assertTrue(testee.equals("A12345<")); // bug? inconsistent
  89     /*
  90      * case insensitive matching
  91      */
  92     assertTrue(testee.equals("a12345"));
  93   }
  94 }