def test_get_value(self):
pg = peakgroup.GuiPeakGroup(0.1, 100, 50, 60, None)
self.assertAlmostEqual(pg.get_value("m_score"), 0.1)
self.assertAlmostEqual(pg.get_value("Intensity"), 100)
self.assertAlmostEqual(pg.get_value("leftWidth"), 50)
self.assertAlmostEqual(pg.get_value("rightWidth"), 60)
self.assertRaises(Exception, pg.get_value, "dummy")
def test_exception(self):
peptide = MockPeptide()
pg = peakgroup.MinimalPeakGroup("f_1", 0.1, 100, False, -1, peptide)
self.assertRaises(Exception, pg.set_fdr_score, 4)
self.assertRaises(Exception, pg.set_normalized_retentiontime, 4)
self.assertRaises(Exception, pg.set_feature_id, 4)
self.assertRaises(Exception, pg.set_intensity, 4)
def test_get_value(self):
run = MockRun()
run.header_dict = {"dummy": 0, "d_score": 1}
pg = peakgroup.GeneralPeakGroup([8, 9.0], run, None)
pg.set_value("dummy", 42)
self.assertAlmostEqual(pg.get_value("dummy"), 42)
pg.set_value("dummy", None)
self.assertEqual(pg.get_value("dummy"), "NA")
self.assertAlmostEqual(pg.get_dscore(), 9.0)
def test_setClusterId(self):
peptide = MockPeptide()
pg = peakgroup.MinimalPeakGroup("f_1", 0.1, 100, False, -1, peptide)
pg.setClusterID(5)
self.assertEqual(pg.get_cluster_id(), 5)
def test_create_pg(self):
pg = peakgroup.MinimalPeakGroup("f_1", 0.1, 100, False, -1, None)
self.assertTrue(True)
def test_select(self):
pg = peakgroup.PeakGroupBase()
pg.select_this_peakgroup()
self.assertTrue(True)
def test_set_intensity(self):
pg = peakgroup.PeakGroupBase()
pg.set_intensity(0.1)
self.assertAlmostEqual(pg.get_intensity(), 0.1)
def test_set_feature_id(self):
pg = peakgroup.PeakGroupBase()
pg.set_feature_id("f_1")
self.assertEqual(pg.get_feature_id(), "f_1")
def test_set_normalized_retentiontime(self):
pg = peakgroup.PeakGroupBase()
pg.set_normalized_retentiontime(0.1)
self.assertAlmostEqual(pg.get_normalized_retentiontime(), 0.1)
def test_set_fdr_score(self):
pg = peakgroup.PeakGroupBase()
pg.set_fdr_score(0.1)
self.assertAlmostEqual(pg.get_fdr_score(), 0.1)
def test_create_pg(self):
pg = peakgroup.PeakGroupBase()
self.assertTrue(True)
def test_setClusterId(self):
pg = peakgroup.GeneralPeakGroup([], None, None)
pg.setClusterID(5)
self.assertEqual(pg.get_cluster_id(), 5)
def test_create_pg(self):
pg = peakgroup.GeneralPeakGroup([], None, None)
def test_create_pg(self):
pg = peakgroup.GuiPeakGroup(0.1, 100, 50, 60, None)
def test_dscore(self):
peptide = MockPeptide()
pg = peakgroup.MinimalPeakGroup("f_1", 0.1, 100, False, -1, peptide,
None, 42)
self.assertAlmostEqual(pg.get_dscore(), 42)