def test_alternate_range(self):
assert parse_deltree('1:10') == \
[1, 2, 3, 4, 5, 6, 7, 8, 9, 10]
assert parse_deltree('1,3,4:6') == \
[1, 3, 4, 5, 6]
assert parse_deltree('1,3,4:6,8,9:10') == \
[1, 3, 4, 5, 6, 8, 9, 10]
def test_alternate_range(self):
assert parse_deltree('1:10') == \
[1, 2, 3, 4, 5, 6, 7, 8, 9, 10]
assert parse_deltree('1,3,4:6') == \
[1, 3, 4, 5, 6]
assert parse_deltree('1,3,4:6,8,9:10') == \
[1, 3, 4, 5, 6, 8, 9, 10]
def test_error(self):
with self.assertRaises(ValueError):
parse_deltree("1-x")
with self.assertRaises(ValueError):
parse_deltree("sausage")
with self.assertRaises(ValueError):
parse_deltree("first:last")
def test_error(self):
with self.assertRaises(ValueError):
parse_deltree("1-x")
with self.assertRaises(ValueError):
parse_deltree("sausage")
with self.assertRaises(ValueError):
parse_deltree("first:last")
def test_simple(self):
assert parse_deltree('1') == [1]
assert parse_deltree('1,2,3') == [1, 2, 3]
assert parse_deltree('1,3,5') == [1, 3, 5]
assert parse_deltree('1-10') == \
[1, 2, 3, 4, 5, 6, 7, 8, 9, 10]
assert parse_deltree('1,3,4-6') == \
[1, 3, 4, 5, 6]
assert parse_deltree('1,3,4-6,8,9-10') == \
[1, 3, 4, 5, 6, 8, 9, 10]
def test_simple(self):
assert parse_deltree('1') == [1]
assert parse_deltree('1,2,3') == [1, 2, 3]
assert parse_deltree('1,3,5') == [1, 3, 5]
assert parse_deltree('1-10') == \
[1, 2, 3, 4, 5, 6, 7, 8, 9, 10]
assert parse_deltree('1,3,4-6') == \
[1, 3, 4, 5, 6]
assert parse_deltree('1,3,4-6,8,9-10') == \
[1, 3, 4, 5, 6, 8, 9, 10]
newnexus = None
if options.number:
print_site_values(nexus)
exit()
if options.stats:
print_character_stats(nexus)
exit()
const, unique, zeros, remove = [], [], [], []
if options.constant:
const = find_constant_sites(nexus)
print("Constant Sites: %s" % ",".join([str(i) for i in const]))
if options.unique:
unique = find_unique_sites(nexus)
print("Unique Sites: %s" % ",".join([str(i) for i in unique]))
if options.zeros:
zeros = check_zeros(nexus)
print("Zero Sites: %s" % ",".join([str(i) for i in zeros]))
if options.remove:
remove = [int(i) for i in parse_deltree(options.remove)]
print("Remove: %s" % ",".join([str(i) for i in zeros]))
newnexus = new_nexus_without_sites(nexus, set(const + unique + zeros + remove))
# check for saving
if newnexus is not None and newnexusname is not None:
newnexus.write_to_file(newnexusname)
print("New nexus written to %s" % newnexusname)
