*/
public class TestAlignSeq
{
+ private static final String NL = System.lineSeparator();
@BeforeClass(alwaysRun = true)
public void setUpJvOptionPane()
public void testPrintAlignment()
{
AlignSeq as = AlignSeq.doGlobalNWAlignment(s1, s3, AlignSeq.PEP);
+
+ // s1 = new Sequence("Seq1", "ASDFAQQQRRRSSS");
+ // s1.setStart(3);
+ // s1.setEnd(18);
+ // s3 = new Sequence("Seq3", "SDFAQQQSSS");
+ //
final StringBuilder baos = new StringBuilder();
PrintStream ps = new PrintStream(System.out)
{
@Override
public void println()
{
- baos.append("\n");
+ baos.append(NL);
}
};
as.printAlignment(ps);
- String expected = "Score = 320.0\nLength of alignment = 10\nSequence Seq1/4-13 (Sequence length = 14)\nSequence Seq3/1-10 (Sequence length = 10)\n\n"
- + "Seq1/4-13 SDFAQQQRRR\n"
- + " ||||||| \n"
- + "Seq3/1-10 SDFAQQQSSS\n\n" + "Percentage ID = 70.00\n\n";
- assertEquals(expected, baos.toString());
+ String expected = "Score = 320.0" + NL + "Length of alignment = 10" + NL
+ + "Sequence Seq1/4-13 (Sequence length = 14)" + NL
+ + "Sequence Seq3/1-10 (Sequence length = 10)" + NL + NL
+ + "Seq1/4-13 SDFAQQQRRR" + NL + " ||||||| " + NL
+ + "Seq3/1-10 SDFAQQQSSS" + NL + NL + "Percentage ID = 70.00"
+ + NL + NL;
+
+ String s = baos.toString();
+ System.out.println(s);
+
+ assertEquals(expected, s);
}
}