def test_strict_consensus(self):
ref_trees = list(Phylo.parse('./TreeConstruction/strict_refs.tre', 'newick'))
# three trees
consensus_tree = Consensus.strict_consensus(self.trees)
# tree_file = StringIO()
# Phylo.write(consensus_tree, tree_file, 'newick')
self.assertTrue(Consensus._equal_topology(consensus_tree, ref_trees[0]))
# tree 1 and tree 2
consensus_tree = Consensus.strict_consensus(self.trees[:2])
# tree_file = StringIO()
# Phylo.write(consensus_tree, tree_file, 'newick')
self.assertTrue(Consensus._equal_topology(consensus_tree, ref_trees[1]))
# tree 1 and tree 3
consensus_tree = Consensus.strict_consensus(self.trees[::2])
# tree_file = StringIO()
# Phylo.write(consensus_tree, tree_file, 'newick')
self.assertTrue(Consensus._equal_topology(consensus_tree, ref_trees[2]))
def test_strict_consensus(self):
ref_trees = list(Phylo.parse('./TreeConstruction/strict_refs.tre', 'newick'))
# three trees
consensus_tree = Consensus.strict_consensus(self.trees)
#tree_file = StringIO()
#Phylo.write(consensus_tree, tree_file, 'newick')
self.assertTrue(Consensus._equal_topology(consensus_tree, ref_trees[0]))
# tree 1 and tree 2
consensus_tree = Consensus.strict_consensus(self.trees[:2])
#tree_file = StringIO()
#Phylo.write(consensus_tree, tree_file, 'newick')
self.assertTrue(Consensus._equal_topology(consensus_tree, ref_trees[1]))
# tree 1 and tree 3
consensus_tree = Consensus.strict_consensus(self.trees[::2])
#tree_file = StringIO()
#Phylo.write(consensus_tree, tree_file, 'newick')
self.assertTrue(Consensus._equal_topology(consensus_tree, ref_trees[2]))
