def testRichCmp(self):
# be obsessive . . .
#
# ==
a = Interval("chr21", 100, 200)
b = Interval("chr21", 100, 200)
self.assertTrue(a == b)
self.assertFalse(a != b)
self.assertTrue(a <= b)
self.assertTrue(a >= b)
self.assertFalse(a < b)
self.assertFalse(a > b)
a = Interval("chr21", 100, 100)
b = Interval("chr21", 100, 100)
self.assertTrue(a == b)
self.assertFalse(a != b)
self.assertTrue(a <= b)
self.assertTrue(a >= b)
self.assertFalse(a < b)
self.assertFalse(a > b)
# != because of strand
a = Interval("chr21", 100, 200, strand="+")
b = Interval("chr21", 100, 200, strand="-")
self.assertFalse(a == b)
self.assertTrue(a != b)
self.assertFalse(a <= b)
self.assertFalse(a >= b)
self.assertFalse(a < b)
self.assertFalse(a > b)
# a >= b
a = Interval("chr21", 100, 300)
b = Interval("chr21", 100, 200)
self.assertFalse(a == b)
self.assertTrue(a != b)
self.assertFalse(a <= b)
self.assertTrue(a >= b)
self.assertFalse(a < b)
self.assertFalse(a > b)
# a <= b
a = Interval("chr21", 100, 300)
b = Interval("chr21", 300, 300)
self.assertFalse(a == b)
self.assertTrue(a != b)
self.assertTrue(a <= b)
self.assertFalse(a >= b)
self.assertFalse(a < b)
self.assertFalse(a > b)
# a <= b
a = Interval("chr21", 100, 300)
b = Interval("chr21", 250, 300)
self.assertFalse(a == b)
self.assertTrue(a != b)
self.assertTrue(a <= b)
self.assertFalse(a >= b)
self.assertFalse(a < b)
self.assertFalse(a > b)
# a < b
a = Interval("chr21", 100, 200)
b = Interval("chr21", 201, 300)
self.assertFalse(a == b)
self.assertTrue(a != b)
self.assertTrue(a <= b)
self.assertFalse(a >= b)
self.assertTrue(a < b)
self.assertFalse(a > b)
# a > b
a = Interval("chr21", 201, 300)
b = Interval("chr21", 100, 200)
self.assertFalse(a == b)
self.assertTrue(a != b)
self.assertFalse(a <= b)
self.assertTrue(a >= b)
self.assertFalse(a < b)
self.assertTrue(a > b)
# a != b
a = Interval("none", 1, 100)
b = Interval("chr21", 1, 100)
self.assertFalse(a == b)
self.assertTrue(a != b)
self.assertFalse(a <= b)
self.assertFalse(a >= b)
self.assertFalse(a < b)
self.assertFalse(a > b)
# nested should raise NotImplementedError
a = Interval("chr21", 100, 200)
b = Interval("chr21", 50, 300)
self.assertRaises(NotImplementedError, a.__eq__, b)
self.assertRaises(NotImplementedError, a.__ne__, b)
self.assertRaises(NotImplementedError, a.__le__, b)
self.assertRaises(NotImplementedError, a.__ge__, b)
self.assertRaises(NotImplementedError, a.__lt__, b)
self.assertRaises(NotImplementedError, a.__gt__, b)
def testOverlaps(self):
i = Interval("chr21", 9719768, 9739768)
hits = self.bed.all_hits(i)
self.assertEqual(len(hits), 8)
for hit in hits:
self.assertTrue(hit.start <= 9739768 and hit.end >= 9719768)
def setUp(self):
self.file = os.path.join(PATH, self.file)
start, end, strand = 1, 100, "+"
self.i = Interval("chr1", start, end, strand=strand)
self.start, self.end, self.strand = start, end, strand
def setUp(self):
self.file = os.path.join(PATH, self.file)
start, end, strand = 9719768, 9739768, "-"
self.i = Interval("chr21", start, end, strand=strand)
self.start, self.end, self.strand = start, end, strand