package jalview.datamodel;
import static org.testng.AssertJUnit.assertEquals;
+import static org.testng.AssertJUnit.assertSame;
+import jalview.gui.JvOptionPane;
import jalview.util.MapList;
import java.util.Arrays;
+import org.testng.annotations.BeforeClass;
import org.testng.annotations.Test;
/**
*/
public class MappingTest
{
+
+ @BeforeClass(alwaysRun = true)
+ public void setUpJvOptionPane()
+ {
+ JvOptionPane.setInteractiveMode(false);
+ JvOptionPane.setMockResponse(JvOptionPane.CANCEL_OPTION);
+ }
+
/**
* trite test of the intersectVisContigs method for a simple DNA -> Protein
* exon map and a range of visContigs
@Test(groups = { "Functional" })
public void testIntersectVisContigs()
{
- MapList fk = new MapList(new int[] { 1, 6, 8, 13, 15, 23 }, new int[] {
- 1, 7 }, 3, 1);
+ MapList fk = new MapList(new int[] { 1, 6, 8, 13, 15, 23 },
+ new int[]
+ { 1, 7 }, 3, 1);
Mapping m = new Mapping(fk);
- Mapping m_1 = m.intersectVisContigs(new int[] { fk.getFromLowest(),
- fk.getFromHighest() });
+ Mapping m_1 = m
+ .intersectVisContigs(new int[]
+ { fk.getFromLowest(), fk.getFromHighest() });
Mapping m_2 = m.intersectVisContigs(new int[] { 1, 7, 11, 20 });
// assertions from output values 'as is', not checked for correctness
m = new Mapping(seq, fk);
assertEquals("[ [1, 6] [8, 13] ] 3:1 to [ [4, 7] ] Seq1", m.toString());
}
+
+ @Test(groups = { "Functional" })
+ public void testCopyConstructor()
+ {
+ MapList ml = new MapList(new int[] { 1, 6, 8, 13 }, new int[] { 4, 7 },
+ 3, 1);
+ SequenceI seq = new Sequence("seq1", "agtacg");
+ Mapping m = new Mapping(seq, ml);
+ m.setMappedFromId("abc");
+ Mapping copy = new Mapping(m);
+ assertEquals("abc", copy.getMappedFromId());
+ assertEquals(ml, copy.getMap());
+ assertSame(seq, copy.getTo());
+ }
}