import static org.testng.Assert.assertEquals;
import static org.testng.Assert.assertFalse;
import static org.testng.Assert.assertTrue;
import static org.testng.Assert.assertEquals;
import static org.testng.Assert.assertFalse;
import static org.testng.Assert.assertTrue;
assertEquals(rc.getGapCount(), 4);
assertEquals(rc.getCount(' '), 4);
assertEquals(rc.getCount('-'), 4);
assertEquals(rc.getCount('.'), 4);
assertFalse(rc.isUsingOtherData());
assertFalse(rc.isCountingInts());
assertEquals(rc.getGapCount(), 4);
assertEquals(rc.getCount(' '), 4);
assertEquals(rc.getCount('-'), 4);
assertEquals(rc.getCount('.'), 4);
assertFalse(rc.isUsingOtherData());
assertFalse(rc.isCountingInts());
-
- rc.set(ResidueCount.GAP_COUNT, Short.MAX_VALUE-2);
- assertEquals(rc.getGapCount(), Short.MAX_VALUE-2);
+
+ rc.set(ResidueCount.GAP_COUNT, Short.MAX_VALUE - 2);
+ assertEquals(rc.getGapCount(), Short.MAX_VALUE - 2);
assertFalse(rc.isCountingInts());
rc.addGap();
assertEquals(rc.getGapCount(), Short.MAX_VALUE);
rc.addGap();
assertTrue(rc.isCountingInts());
assertFalse(rc.isCountingInts());
rc.addGap();
assertEquals(rc.getGapCount(), Short.MAX_VALUE);
rc.addGap();
assertTrue(rc.isCountingInts());
ResidueCount rc = new ResidueCount(false);
// expected characters (upper or lower case):
String aas = "ACDEFGHIKLMNPQRSTVWXY";
ResidueCount rc = new ResidueCount(false);
// expected characters (upper or lower case):
String aas = "ACDEFGHIKLMNPQRSTVWXY";
for (int i = 0; i < aas.length(); i++)
{
rc.put(aas.charAt(i), i);
for (int i = 0; i < aas.length(); i++)
{
rc.put(aas.charAt(i), i);
for (int i = 0; i < nucs.length(); i++)
{
rc.put(nucs.charAt(i), i);
for (int i = 0; i < nucs.length(); i++)
{
rc.put(nucs.charAt(i), i);
rc.add('P');
assertEquals(rc.getResiduesForCount(Short.MAX_VALUE + 1), "P");
assertEquals(rc.getResiduesForCount(1), "C");
rc.add('P');
assertEquals(rc.getResiduesForCount(Short.MAX_VALUE + 1), "P");
assertEquals(rc.getResiduesForCount(1), "C");