def setUp(self):
THIS_DIR = os.path.dirname(os.path.abspath(__file__))
table = Table({}, [], [])
self.emptyfeatures = table
table = Table({}, ['a', 'b', 'c'], [])
self.wrongtips = table
self.goodtable = os.path.join(THIS_DIR, 'data/features_formated.biom')
self.goodcsi = os.path.join(THIS_DIR, 'data/goodcsi')
self.goodthresh = 0.5
tablefp = collate_fingerprint(self.goodcsi)
treeout = make_hierarchy(tablefp, prob_threshold=self.goodthresh)
self.goodtree = treeout
def test_thresholdError(self):
with self.assertRaises(ValueError):
make_hierarchy(self.goodin, prob_threshold=self.bigthresh)
with self.assertRaises(ValueError):
make_hierarchy(self.goodin, prob_threshold=self.smallthresh)
def test_tipMatch(self):
treeout = make_hierarchy(self.goodin, prob_threshold=self.goodthresh)
tip_names = {node.name for node in treeout.tips()}
self.assertEqual(tip_names, set(self.goodin._observation_ids))
def test_emptyFingerprint(self):
with self.assertRaises(ValueError):
make_hierarchy(self.emptyin, prob_threshold=self.goodthresh)