def test_mfe_fail(self):
'''Tests mfe method.'''
m_rna = 'GCGGGAATTACACATGGCATGGACGAACTTTATAAATGA'
energies, bp_xs, bp_ys = utils.run('mfe', [m_rna], temp=37.0,
dangles='none')
self.assertEqual(energies, [0.0])
self.assertEqual(bp_xs, [[]])
self.assertEqual(bp_ys, [[]])
def test_subopt_fail(self):
'''Tests subopt method.'''
r_rna = 'CCC'
m_rna = 'CCC'
energies, bp_xs, bp_ys = utils.run('subopt', [m_rna, r_rna], temp=37.0,
dangles='all', energy_gap=3.0)
self.assertEqual(energies, [])
self.assertEqual(bp_xs, [])
self.assertEqual(bp_ys, [])
def test_subopt(self):
'''Tests subopt method.'''
r_rna = 'ACCTCCTTA'
m_rna = 'AACCTAATTGATAGCGGCCTAGGACCCCCATCAAC'
_, _, bp_ys = utils.run('subopt', [m_rna, r_rna], temp=37.0,
dangles='all', energy_gap=3.0)
nt_in_r_rna = False
for bp_y in bp_ys:
for nt_y in bp_y:
if nt_y > len(m_rna):
nt_in_r_rna = True
self.assertTrue(nt_in_r_rna)