@Test
public void testDeepCopyOptionsNullBaseUrl() {
Options options = new Options();
options.setBaseUrl(null);
sequence.setOptions(options);
Sequence copy = sequence.deepCopy();
assertNotNull(copy.getOptions());
assertNull(copy.getOptions().getBaseUrl());
}
@Test
public void testDeepCopy() {
Sequence copy = sequence.deepCopy();
assertNotSame(sequence, copy);
assertEquals(sequence.getLength(), copy.getLength());
assertEquals(sequence.getMarkups(), copy.getMarkups());
assertNotSame(sequence.getMarkups(), copy.getMarkups());
assertEquals(sequence.getMetadata(), copy.getMetadata());
assertNotSame(sequence.getMetadata(), copy.getMetadata());
assertEquals(sequence.getMotifs(), copy.getMotifs());
assertNotSame(sequence.getMotifs(), copy.getMotifs());
assertEquals(sequence.getOptions().getBaseUrl(), copy.getOptions().getBaseUrl());
assertNotSame(sequence.getOptions(), copy.getOptions());
assertEquals(sequence.getRegions(), copy.getRegions());
assertNotSame(sequence.getRegions(), copy.getRegions());
}
@Test
public void testDeepCopyNullRegions() {
sequence.setRegions(null);
Sequence copy = sequence.deepCopy();
assertNull(copy.getRegions());
}
@Test
public void testDeepCopyNullMetadata() {
sequence.setMetadata(null);
Sequence copy = sequence.deepCopy();
assertNull(copy.getMetadata());
}