public void testNewSplitWorkload() throws IOException {
final MockSequencesReader r = new MockSequencesReader(SequenceType.DNA, 3);
r.setLengths(new int[] {10000000, 20000000, 30000000});
final String expected =
""
+ "[[(0:0), (0:3000000)]"
+ ", [(0:3000000), (0:6000000)]"
+ ", [(0:6000000), (0:9000000)]"
+ ", [(0:9000000), (1:2000000)]"
+ ", [(1:2000000), (1:5000000)]"
+ ", [(1:5000000), (1:8000000)]"
+ ", [(1:8000000), (1:11000000)]"
+ ", [(1:11000000), (1:14000000)]"
+ ", [(1:14000000), (1:17000000)]"
+ ", [(1:17000000), (1:20000000)]"
+ ", [(1:20000000), (2:3000000)]"
+ ", [(2:3000000), (2:6000000)]"
+ ", [(2:6000000), (2:9000000)]"
+ ", [(2:9000000), (2:12000000)]"
+ ", [(2:12000000), (2:15000000)]"
+ ", [(2:15000000), (2:18000000)]"
+ ", [(2:18000000), (2:21000000)]"
+ ", [(2:21000000), (2:24000000)]"
+ ", [(2:24000000), (2:27000000)]"
+ ", [(2:27000000), (2:30000000)]]";
final HashingRegion[] actual;
actual = HashingRegion.splitWorkload(r, Sex.EITHER, 0, 3, 20, 10000, 30);
checkRangeArray(actual);
assertEquals(expected, Arrays.toString(actual));
}
public void testNewSplitWorkloadSingle() throws IOException {
final MockSequencesReader r = new MockSequencesReader(SequenceType.DNA, 1);
r.setLengths(new int[] {10000});
final String expected = "[[(0:0), (0:10000)]" + "]";
final HashingRegion[] actual;
actual = HashingRegion.splitWorkload(r, Sex.EITHER, 0, 1, 20, 20000, 30);
assertEquals(expected, Arrays.toString(actual));
assertEquals(0, actual[0].getStartPaddedPosition());
assertEquals(10000, actual[0].getEndPaddedPosition());
}
public void testNewSplitWorkloadReference() throws IOException {
final Reader reader = new StringReader(REFERENCE_GENOME);
final MockSequencesReader r = new MockSequencesReader(SequenceType.DNA, 3);
final ReferenceGenome rg = new ReferenceGenome(r, reader, Sex.MALE);
r.setLengths(new int[] {10000000, 20000000, 30000000});
final String expected =
""
+ "[[(0:0), (0:1500000)]"
+ ", [(0:1500000), (0:3000000)]"
+ ", [(0:3000000), (0:4500000)]"
+ ", [(0:4500000), (0:6000000)]"
+ ", [(0:6000000), (0:7500000)]"
+ ", [(0:7500000), (0:9000000)]"
+ ", [(0:9000000), (1:500000)]"
+ ", [(1:500000), (1:2000000)]"
+ ", [(1:2000000), (1:3500000)]"
+ ", [(1:3500000), (1:5000000)]"
+ ", [(1:5000000), (1:6500000)]"
+ ", [(1:6500000), (1:8000000)]"
+ ", [(1:8000000), (1:9500000)]"
+ ", [(1:9500000), (1:11000000)]"
+ ", [(1:11000000), (1:12500000)]"
+ ", [(1:12500000), (1:14000000)]"
+ ", [(1:14000000), (1:15500000)]"
+ ", [(1:15500000), (1:17000000)]"
+ ", [(1:17000000), (1:18500000)]"
+ ", [(1:18500000), (1:20000000)]]";
final HashingRegion[] actual;
actual = HashingRegion.splitWorkload(r, rg, 0, 3, 20, 10000, 30);
assertEquals(0, actual[0].getStartPaddedPosition());
assertEquals(1500030, actual[0].getEndPaddedPosition());
assertEquals(16999970, actual[18].getStartPaddedPosition());
assertEquals(18500030, actual[18].getEndPaddedPosition());
checkRangeArray(actual);
assertEquals(expected, Arrays.toString(actual));
}
