def test_get_result_path(self):
"""Tests contrafold result path"""
c = Contrafold(InputHandler='_input_as_lines')
res = c(self.input)
self.assertEqualItems(res.keys(), ['StdOut', 'StdErr', 'ExitStatus'])
self.assertEqual(res['ExitStatus'], 0)
assert res['StdOut'] is not None
res.cleanUp()
def test_stdout_input_as_lines(self):
"""Test contrafold stdout input as lines"""
c = Contrafold(InputHandler='_input_as_lines')
exp= '%s\n' % '\n'.join([str(i).strip('\n') for i in contrafold_stdout])
res = c(self.input)
obs = res['StdOut'].read()
self.assertEqual(obs,exp)
res.cleanUp()
def test_stdout_input_as_string(self):
"""Test contrafold stdout input as string"""
c = Contrafold()
exp= '%s\n' % '\n'.join([str(i).strip('\n') for i in contrafold_stdout])
f = open('/tmp/single.fasta','w')
txt = '\n'.join([str(i).strip('\n') for i in self.input])
f.write(txt)
f.close()
res = c('/tmp/single.fasta')
obs = res['StdOut'].read()
self.assertEqual(obs,exp)
res.cleanUp()
remove('/tmp/single.fasta')