def test_upgma_cluster(self):
"""UPGMA_cluster clusters nodes based on info in a matrix with UPGMA"""
matrix = self.matrix
node_order = self.node_order
large_number = 9999999999
tree = UPGMA_cluster(matrix, node_order, large_number)
self.assertEqual(
str(tree),
"(((a:0.5,b:0.5):1.75,c:2.25):5.875,(d:1.0,e:1.0):7.125);")
def test_UPGMA_cluster_diag(self):
"""UPGMA_cluster works when the diagonal has intermediate values"""
# test that checking the diagonal works
matrix = self.matrix_five
node_order = self.node_order
large_number = 9999999999
tree = UPGMA_cluster(matrix, node_order, large_number)
self.assertEqual(
str(tree),
"(((a:0.5,b:0.5):1.75,c:2.25):5.875,(d:1.0,e:1.0):7.125);")