def test_align_err_gap():
noise = "abcd"
signal = "xd"
it = find_gaps(signal, noise)
walk_asserts(it, noise, {
"ab": Kind.gap,
"c": Kind.error,
"d": Kind.signal,
})
def test_align_err():
noise = "abcd"
signal = "axcd"
it = find_gaps(signal, noise)
walk_asserts(it, noise, {
"a": Kind.signal,
"b": Kind.error,
"cd": Kind.signal,
})
def test_fix_a():
noise = "abcd"
signal = "abcx"
orig_it = find_gaps(signal, noise)
fixed_it = remove_transpositions(deepcopy(orig_it))
for i, _ in enumerate(signal[:-1]):
related_at(i, orig_it, fixed_it,
lambda o, f: o.data.signal == f.data.noise, "==")
related_at(i + 1, orig_it, fixed_it,
lambda o, f: o.data.signal != f.data.noise, "!=")
related_at(i + 1, orig_it, fixed_it,
lambda o, f: o.data.data == f.data.noise, "==")
def test_align():
noise = "abcdefghijklmnopqrstuvwxyz"
signal = "bcdefklmnopqvwxyz"
it = find_gaps(signal, noise)
walk_asserts(
it, noise, {
"a": Kind.gap,
"bcdef": Kind.signal,
"ghij": Kind.gap,
"klmnopq": Kind.signal,
"rstu": Kind.gap,
"vwxyz": Kind.signal
})
def test_align_ambig():
noise = "ab"
signal = "x"
it = find_gaps(signal, noise)
if it[0].pop().data.kind is Kind.gap:
walk_asserts(it, noise, {
"a": Kind.gap,
"b": Kind.error,
})
else:
walk_asserts(it, noise, {
"a": Kind.error,
"b": Kind.gap,
})
def test_nofix():
noise = "abcd"
signal = "abcd"
orig_it = find_gaps(signal, noise)
fixed_it = remove_transpositions(orig_it)
assert orig_it == fixed_it