@Test
public void FAM_getEntries() throws Exception {
assertEquals(1, famfd.getEntries(0, 1).size());
assertEquals(1, famfd.getEntries(1, 2).size());
assertEquals(2, famfd.getEntries(0, 2).size());
assertEquals(6, famfd.getEntries(0, 6).size());
assertEquals("1", famfd.getEntries(0, 1).get(0).getFamily());
assertEquals("2", famfd.getEntries(0, 2).get(1).getFamily());
assertEquals("5", famfd.getEntries(3, 5).get(1).getFamily());
assertEquals("6", famfd.getEntries(0, 6).get(5).getFamily());
assertEquals(1.0, famfd.getAllEntries().get(2).getPhenotype());
assertEquals(2.0, famfd.getAllEntries().get(3).getPhenotype());
}
@AfterClass
public void close() throws IOException {
bimfd.close();
famfd.close();
pedfd.close();
mapfd.close();
tpedfd.close();
}
@Test
public void FAM_writer() throws Exception {
File newFam = new File(testFam.getAbsolutePath().replace(testFam.getName(), "new.fam"));
FamFileWriter w = new FamFileWriter(newFam);
try {
w.writeAll(famfd.getAllEntries());
boolean filesAreEqual = DirectoryCompare.compareFileContent(testFam, newFam);
assertTrue(filesAreEqual);
} finally {
w.close();
}
}
@Test
public void FAM_construct() throws Exception {
assertEquals(6, famfd.getNrOfElements());
}
