[Biopython-dev] [Biopython - Bug #3401] (New) is_terminal bug in newick trees

[redmine at redmine.open-bio.org]

Issue #3401 has been reported by Aleksey Kladov.

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Bug #3401: is_terminal bug in newick trees
https://redmine.open-bio.org/issues/3401

Author: Aleksey Kladov
Status: New
Priority: Normal
Assignee: 
Category: 
Target version: 
URL: 


Consider this weird  Newick tree

    (((B,C),D))A;

Here 'A' is both a root node and a terminal node(since it has only one child: ((B,C),D);). However, is_terminal for 'A' is False:


<pre>
from Bio import Phylo
import cStringIO

bad_tree = '(((B,C),D))A'

t = Phylo.read(cStringIO.StringIO(bad_tree), 'newick')

for c in t.find_clades(terminal=True):
    print c,
</pre>

Gives @B C D@


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