def test_mgf(self):
source = 'test_data/test.mgf'
dest = 'dest_%s' % basename(source)
try:
(src, close) = _ready_source_file(source, dest, MGF)
name = 'moocow'
MGF.ToBinary(src, dest, name)
offset = MGF.GetOffsetFromSpectrum(dest, "test.2.2.2")
assert offset > 0
finally:
if not KEEP_OUTPUT:
remove(dest)
def _test_module(self, module, source):
dest = 'dest_%s' % basename(source)
try:
(src, close) = _ready_source_file(source, dest, module)
name = 'moocow'
module.ToBinary(src, dest, name)
spectrum_info = module.GetSpectrumFromScan(dest, 1)
ions = spectrum_info['ions']
self.assertAlmostEqual(112.0870743, ions[0][0], 4)
self.assertAlmostEqual(3164.949463, ions[0][1], 4)
self.assertEquals(len(ions), 239)
self.assertTrue(spectrum_info['intensity'])
self.assertAlmostEqual(367.201873, spectrum_info['pepmass'], 4)
#print spectrum_info
finally:
if not KEEP_OUTPUT:
remove(dest)
