def _do_test(self, content, expected):
e = [
deepcopy(i) for i in NewickEventFactory(tokenizer=NewickTokenizer(
stream=StringIO(content)))
]
# print(e)
self.assertEqual(e, expected)
def parse_newick(newick=None,
stream=None,
filepath=None,
_class=TreeWithPathsInEdges):
from peyotl.utility.tokenizer import NewickEventFactory, NewickTokenizer
nt = NewickTokenizer(stream=stream, newick=newick, filepath=filepath)
nef = NewickEventFactory(tokenizer=nt)
return _class(newick_events=nef)
def testOddQuotes(self):
content = "((h_ ,'p)h p,g()[],:_)hpg;"
tok = NewickTokenizer(StringIO(content))
content = "((h_ ,'p')h p,'g()[]',:_')hpg;"
tok = NewickTokenizer(StringIO(content))
self.assertRaises(Exception, tok.tokens)
def _do_test(self, content, expected):
self.assertEqual([i for i in NewickTokenizer(StringIO(content))],
expected)