def test_allow_lowercase_2_mer():
seq = minimal(
dna(min_size=2,
uppercase_only=False,
allow_gaps=False,
allow_ambiguous=False),
lambda x: all(c not in ["A", "T", "C", "G"] for c in x),
)
assert seq == "aa"
def test_allow_ambiguous_smallest_example():
seq = minimal(
dna(min_size=1,
allow_ambiguous=True,
allow_gaps=False,
uppercase_only=True),
lambda x: all(c not in ["A", "T", "C", "G"] for c in x),
)
assert seq == "B"
@given(fasta())
def test_return_type(seq):
assert type(seq) == str
@given(fasta(wrap_length=5))
def test_wrap_length(seq):
assert all([
len(x.rstrip()) == 5 for x in seq.split("\n")[:-1]
if not x.startswith(">")
])
@given(fasta(allow_windows_line_endings=False))
def test_no_windows_line_endings(seq):
assert "\r" not in seq
@given(
fasta(
comment_source=dna(uppercase_only=True,
allow_ambiguous=False,
allow_gaps=False),
sequence_source=dna(uppercase_only=True,
allow_ambiguous=False,
allow_gaps=False),
))
def test_sources(seq):
assert set(seq).issubset({"\r", "\n", "A", "T", "G", "C", ">"})
def test_2_mer():
assert minimal(dna(min_size=2)) == "AA"
def test_smallest_non_empty_example():
assert minimal(dna(min_size=1)) == "A"
def test_smallest_example():
assert minimal(dna()) == ""
from hypothesis import given
from .minimal import minimal
from hypothesis_bio import dna
@given(dna())
def test_dna_type(seq):
assert type(seq) == str
def test_smallest_example():
assert minimal(dna()) == ""
def test_smallest_non_empty_example():
assert minimal(dna(min_size=1)) == "A"
def test_2_mer():
assert minimal(dna(min_size=2)) == "AA"
@given(dna(max_size=10))
def test_max_size(seq):
assert len(seq) <= 10
def test_allow_gaps_2_mer():
seq = minimal(
dna(min_size=2, allow_gaps=True, allow_ambiguous=False),
lambda x: all(c not in ["A", "U", "C", "G"] for c in x),
)
assert seq == "--"
