class TrackingTestCase(unittest.TestCase):
def setUp(self):
reader = csv.reader(open("cuffcmp_test.tracking00", 'r'), delimiter="\t")
row = reader.next()
self.tracking = TrackingParser(row)
def test_CreateTrackingObj(self):
'''Test object parser'''
self.assertEqual("XLOC_000003", self.tracking.locusId)
self.assertEqual("LOC643837|uc001abr.1", self.tracking.referenceId)
self.assertEqual(32, len(self.tracking.samples))
def test_ParserSampleColumn1(self):
'''Test parsing of a sample column'''
result = self.tracking.parseSampleColumn(self.tracking.samples[0])
self.assertEqual("q1:CUFF.60", result["gene_id"])
self.assertEqual("CUFF.60.1", result["transcript_id"])
self.assertEqual("100", result["fmi"])
self.assertEqual("1.790260", result["fpkm"])
self.assertEqual("0.000000", result["conf_lo"])
self.assertEqual("4.466272", result["conf_hi"])
self.assertEqual("11.663309", result["cov"])
self.assertEqual("-", result["len"])
def test_SampleHits(self):
'''Test the generator function sampleHits()'''
expected = 1
result = 0
for hit in self.tracking.sampleHits():
result += 1
self.assertEqual(expected, result)
def test_NumberOfSampleHits(self):
'''Test the counting function numberOfSampleHits()'''
expected = 1
result = self.tracking.numberOfSampleHits()
self.assertEqual(expected, result)
def setUp(self):
reader = csv.reader(open("cuffcmp_test.tracking00", 'r'), delimiter="\t")
row = reader.next()
self.tracking = TrackingParser(row)