public void GetMate()
{
var finder = new AlignmentMateFinder();
var read1 = CreateAlignment(100, 500, "1");
var read1Mate = CreateAlignment(500, 100, "1");
var read2 = CreateAlignment(200, 400, "2");
var read2Mate = CreateAlignment(400, 200, "2");
var read3 = CreateAlignment(201, 600, "3");
var read3Mate = CreateAlignment(600, 201, "3");
var read4 = CreateAlignment(1000, 2000, "4");
var read4Mate = CreateAlignment(2000, 1000, "4");
var read5 = CreateAlignment(2500, 3501, "5");
var read5Mate = CreateAlignment(3501, 2500, "5");
Assert.Equal(finder.LastClearedPosition, null);
Assert.Equal(finder.NextMatePosition, null);
Assert.Equal(finder.GetMate(read1), null);
Assert.Equal(finder.LastClearedPosition, 99);
Assert.Equal(finder.NextMatePosition, 500);
Assert.Equal(finder.GetMate(read2), null);
Assert.Equal(finder.LastClearedPosition, 99);
Assert.Equal(finder.NextMatePosition, 400);
Assert.Equal(finder.GetMate(read3), null);
Assert.Equal(finder.LastClearedPosition, 99);
ReadTests.CompareReads(finder.GetMate(read2Mate), read2);
Assert.Equal(finder.LastClearedPosition, 99);
Assert.Equal(finder.NextMatePosition, 500);
ReadTests.CompareReads(finder.GetMate(read1Mate), read1);
Assert.Equal(finder.LastClearedPosition, 200);
Assert.Equal(finder.NextMatePosition, 600);
ReadTests.CompareReads(finder.GetMate(read3Mate), read3);
Assert.Equal(finder.LastClearedPosition, null);
Assert.Equal(finder.GetMate(read4), null);
Assert.Equal(finder.LastClearedPosition, 999);
ReadTests.CompareReads(finder.GetMate(read4Mate), read4);
Assert.Equal(finder.LastClearedPosition, null);
Assert.Equal(finder.GetMate(read5), null);
Assert.Equal(finder.LastClearedPosition, 2499);
Assert.Equal(finder.GetMate(read5Mate), null); // out of window gets tossed
Assert.Equal(finder.LastClearedPosition, null);
Assert.Equal(finder.NextMatePosition, null);
Assert.Equal(2, finder.ReadsUnpairable);
Assert.Throws<ArgumentException>(() => finder.GetMate(CreateAlignment(2500, 2500, null))); // null name
Assert.Throws<ArgumentException>(() => finder.GetMate(CreateAlignment(2500, 2500, ""))); // empty name
Assert.Throws<ArgumentException>(() => finder.GetMate(CreateAlignment(2500, -1, null))); // invalid mate position
}
private static void RunMemoryTests()
{
var reads = new ReadTests();
reads.TestSynchronousRead(ReadTestSize);
Console.WriteLine();
Console.WriteLine("------------------------");
Console.WriteLine();
reads.TestAsynchronousRead(ReadTestSize).Wait();
}