class TestRestrictionSite(object):
'''Test RestrictionSite class.'''
def __init__(self):
self.ecorv = RestrictionSite(DNA('GATATC'), (3, 3), name='EcoRV')
self.foki = RestrictionSite(DNA('GGATG'), (14, 18), name='FokI')
def test_cuts_outside(self):
'''Test cuts_outside method.'''
assert_false(self.ecorv.cuts_outside())
assert_true(self.foki.cuts_outside())
def test_len(self):
'''Test len function.'''
assert_equal(len(self.ecorv), 6)
assert_equal(len(self.foki), 5)
class TestRestrictionSite(object):
'''Test RestrictionSite class.'''
def __init__(self):
self.ecorv = RestrictionSite(DNA('GATATC'), (3, 3), name='EcoRV')
self.foki = RestrictionSite(DNA('GGATG'), (14, 18), name='FokI')
def test_cuts_outside(self):
'''Test cuts_outside method.'''
assert_false(self.ecorv.cuts_outside())
assert_true(self.foki.cuts_outside())
def test_len(self):
'''Test len function.'''
assert_equal(len(self.ecorv), 6)
assert_equal(len(self.foki), 5)
def test_psti_cut(self):
'''Test 3\' cutter.'''
psti = RestrictionSite(DNA('CTGCAG'), (5, 1), name='PstI')
assert_equal(
reaction.digest(DNA('ACTGCAGA'), psti),
[DNA('ACTGCA', bottom='----GT'),
DNA('----GA', bottom='TCTGCA')])
def test_ncoi_cut(self):
'''Test standard TypeII cutter.'''
ncoi = RestrictionSite(DNA('CCATGG'), (1, 5), name='NcoI')
assert_equal(reaction.digest(self.dna, ncoi), [
DNA('TGAC----', bottom='CATGGTCA'),
DNA('CATGGAAA', bottom='TTTC----')
])
assert_equal(reaction.digest(self.dna.circularize(), ncoi),
[DNA('CATGGAAATGAC----', bottom='CATGGTCATTTC----')])
def __init__(self):
self.ecorv = RestrictionSite(DNA('GATATC'), (3, 3), name='EcoRV')
self.foki = RestrictionSite(DNA('GGATG'), (14, 18), name='FokI')
def __init__(self):
self.ecorv = RestrictionSite(DNA('GATATC'), (3, 3), name='EcoRV')
self.foki = RestrictionSite(DNA('GGATG'), (14, 18), name='FokI')
def test_ecorv_cut(self):
'''Test blunt-end cutter.'''
ecorv = RestrictionSite(DNA('GATATC'), (3, 3), name='EcoRV')
assert_equal(reaction.digest(DNA('GATATC'), ecorv),
[DNA('GAT'), DNA('ATC')])
def test_not_found(self):
'''If site not found, should return input sequence in list.'''
ecorv = RestrictionSite(DNA('GATATC'), (3, 3), name='EcoRV')
assert_equal(self.dna, reaction.digest(self.dna, ecorv)[0])