Merge branch 'bug/JAL-2682parseId' into develop

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

diff --git a/test/jalview/datamodel/SequenceTest.java b/test/jalview/datamodel/SequenceTest.java
index 23e8cf7..c0cb09c 100644 (file)
--- a/test/jalview/datamodel/SequenceTest.java
+++ b/test/jalview/datamodel/SequenceTest.java
@@ -1704,4 +1704,103 @@ public class SequenceTest
     found = sq.findFeatures(10, 11);
     assertEquals(0, found.size());
   }
+
+  @Test(groups = { "Functional" })
+  public void testSetName()
+  {
+    SequenceI sq = new Sequence("test", "-ABC---DE-F--");
+    assertEquals("test", sq.getName());
+    assertEquals(1, sq.getStart());
+    assertEquals(6, sq.getEnd());
+
+    sq.setName("testing");
+    assertEquals("testing", sq.getName());
+
+    sq.setName("test/8-10");
+    assertEquals("test", sq.getName());
+    assertEquals(8, sq.getStart());
+    assertEquals(13, sq.getEnd()); // note end is recomputed
+
+    sq.setName("testing/7-99");
+    assertEquals("testing", sq.getName());
+    assertEquals(7, sq.getStart());
+    assertEquals(99, sq.getEnd()); // end may be beyond physical end
+
+    sq.setName("/2-3");
+    assertEquals("", sq.getName());
+    assertEquals(2, sq.getStart());
+    assertEquals(7, sq.getEnd());
+
+    sq.setName("test/"); // invalid
+    assertEquals("test/", sq.getName());
+    assertEquals(2, sq.getStart());
+    assertEquals(7, sq.getEnd());
+
+    sq.setName("test/6-13/7-99");
+    assertEquals("test/6-13", sq.getName());
+    assertEquals(7, sq.getStart());
+    assertEquals(99, sq.getEnd());
+
+    sq.setName("test/0-5"); // 0 is invalid - ignored
+    assertEquals("test/0-5", sq.getName());
+    assertEquals(7, sq.getStart());
+    assertEquals(99, sq.getEnd());
+
+    sq.setName("test/a-5"); // a is invalid - ignored
+    assertEquals("test/a-5", sq.getName());
+    assertEquals(7, sq.getStart());
+    assertEquals(99, sq.getEnd());
+
+    sq.setName("test/6-5"); // start > end is invalid - ignored
+    assertEquals("test/6-5", sq.getName());
+    assertEquals(7, sq.getStart());
+    assertEquals(99, sq.getEnd());
+
+    sq.setName("test/5"); // invalid - ignored
+    assertEquals("test/5", sq.getName());
+    assertEquals(7, sq.getStart());
+    assertEquals(99, sq.getEnd());
+
+    sq.setName("test/-5"); // invalid - ignored
+    assertEquals("test/-5", sq.getName());
+    assertEquals(7, sq.getStart());
+    assertEquals(99, sq.getEnd());
+
+    sq.setName("test/5-"); // invalid - ignored
+    assertEquals("test/5-", sq.getName());
+    assertEquals(7, sq.getStart());
+    assertEquals(99, sq.getEnd());
+
+    sq.setName("test/5-6-7"); // invalid - ignored
+    assertEquals("test/5-6-7", sq.getName());
+    assertEquals(7, sq.getStart());
+    assertEquals(99, sq.getEnd());
+
+    sq.setName(null); // invalid, gets converted to space
+    assertEquals("", sq.getName());
+    assertEquals(7, sq.getStart());
+    assertEquals(99, sq.getEnd());
+  }
+
+  @Test(groups = { "Functional" })
+  public void testCheckValidRange()
+  {
+    Sequence sq = new Sequence("test/7-12", "-ABC---DE-F--");
+    assertEquals(7, sq.getStart());
+    assertEquals(12, sq.getEnd());
+
+    /*
+     * checkValidRange ensures end is at least the last residue position
+     */
+    PA.setValue(sq, "end", 2);
+    sq.checkValidRange();
+    assertEquals(12, sq.getEnd());
+
+    /*
+     * end may be beyond the last residue position
+     */
+    PA.setValue(sq, "end", 22);
+    sq.checkValidRange();
+    assertEquals(22, sq.getEnd());
+  }
 }