def test_get_result_path(self):
"""Tests Consan result path"""
c = Consan(InputHandler='_input_as_lines')
input = self.input1
input.extend(self.input2)
res = c(input)
self.assertEqualItems(res.keys(), ['StdOut', 'StdErr', 'ExitStatus'])
self.assertEqual(res['ExitStatus'], 0)
res.cleanUp()
def test_stdout_input_as_lines(self):
"""Test Consan stdout input as lines"""
c = Consan(InputHandler='_input_as_lines')
input = self.input1
input.extend(self.input2)
res = c(input)
#Impossible to compare stdout since copmutation time is in the output
#which may differ between runs
self.assertEqual(res['ExitStatus'], 0)
assert res['StdOut'] is not None
res.cleanUp()
def test_input_as_string(self):
"""Test Consan stdout input as string"""
c = Consan()
f = open('/tmp/seq1.fasta', 'w')
txt = '\n'.join([str(i).strip('\n') for i in self.input1])
f.write(txt)
f.close()
s = open('/tmp/seq2.fasta', 'w')
txt = '\n'.join([str(i).strip('\n') for i in self.input2])
s.write(txt)
s.close()
res = c(['/tmp/seq1.fasta', '/tmp/seq2.fasta'])
#Impossible to compare stdout since copmutation time is in the output
#which may differ between runs
self.assertEqual(res['ExitStatus'], 0)
assert res['StdOut'] is not None
res.cleanUp()