def testMotifEnumeration(self):
kmers = list(motifEnumeration(["ATTTGGC", "TGCCTTA", "CGGTATC", "GAAAATT"], 3, 1))
self.assertEqual(len(kmers), 4)
self.assertTrue("ATA" in kmers, " Should contain AAT")
self.assertTrue("ATT" in kmers, " Should contain ATT")
self.assertTrue("GTT" in kmers, " Should contain GTT")
self.assertTrue("TTT" in kmers, " Should contain TTT")
def testMotifEnumerationFromFile(self):
with open("data/motifEnumeration.txt") as fp:
vals = [int(x) for x in fp.readline().split()]
k = vals[0]
d = vals[1]
dna = fp.readlines()
kmers = list(motifEnumeration(dna, k, d))
print " ".join(kmers)
def testMotifEnumeration(self):
kmers = list(
motifEnumeration(['ATTTGGC', 'TGCCTTA', 'CGGTATC', 'GAAAATT'], 3,
1))
self.assertEqual(len(kmers), 4)
self.assertTrue('ATA' in kmers, ' Should contain AAT')
self.assertTrue('ATT' in kmers, ' Should contain ATT')
self.assertTrue('GTT' in kmers, ' Should contain GTT')
self.assertTrue('TTT' in kmers, ' Should contain TTT')
