def test_prefix_with_indels_two_mismatches():
a = PrefixAdapter(
sequence="GCACATTT",
max_errors=0.3,
min_overlap=1,
read_wildcards=False,
adapter_wildcards=False,
indels=True,
)
result = a.match_to("GCACATCGGAA")
assert result.errors == 2
assert result.matches == 6
assert result.astart == 0
assert result.astop == 8
assert result.rstart == 0
assert result.rstop == 8
def test_prefix_match_with_n_wildcard_in_read():
adapter = PrefixAdapter("NNNACGT", indels=False)
match = adapter.match_to("TTTACGTAAAA")
assert match is not None and (0, 7) == (match.rstart, match.rstop)
match = adapter.match_to("NTTACGTAAAA")
assert match is not None and (0, 7) == (match.rstart, match.rstop)