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')