def main():
treefile1 = sys.argv[1]
treefile2 = sys.argv[2]
treelist = TreeList()
treelist.read(file=open(treefile1, 'rU'), schema="nexus")
treelist.read(file=open(treefile2, 'rU'), schema="nexus")
if treecompare.symmetric_difference(treelist.__getitem__(0),
treelist.__getitem__(1)) == 0:
print "trees are identical"
else:
print "trees are NOT identical"
def readTree(filename, quiet=False):
if not quiet:
print()
print("Reading in files...")
print()
temp = TreeList()
try:
temp.read(file=open(filename, 'r'), schema="newick", preserve_underscores=True)
except:
print("Error with file '{}': please only use files with newick tree format".format(f))
sys.exit()
return temp
def readTrees(filenames, namespace, quiet=False):
if not quiet:
print()
print("Reading in files...")
print()
sample_tree_list = []
for f in filenames:
# temp = TreeList(taxon_namespace=namespace)
temp = TreeList()
try:
temp.read(file=open(f, 'r'),
schema="newick",
preserve_underscores=True)
except:
print(
"Error with file '{}': please only use files with newick tree format"
.format(f))
sys.exit()
sample_tree_list.append(temp)
return sample_tree_list
#! /usr/bin/env python from dendropy import TreeList from sys import argv trees = TreeList() trees.read(path=argv[1],schema="newick") trees.write(path=argv[2],schema="nexus")
