def test_load_one_succeed(track_abundance):
e1 = sourmash.MinHash(n=1, ksize=20, track_abundance=track_abundance)
sig1 = SourmashSignature(e1)
x = save_signatures([sig1])
y = load_one_signature(x)
assert sig1 == y
def test_load_minified(track_abundance):
sigfile = utils.get_test_data('genome-s10+s11.sig')
sigs = load_signatures(sigfile)
minified = save_signatures(sigs)
with open(sigfile, 'r') as f:
orig_file = f.read()
assert len(minified) < len(orig_file)
assert '\n' not in minified
def test_roundtrip(track_abundance):
e = sourmash.MinHash(n=1, ksize=20, track_abundance=track_abundance)
e.add("AT" * 10)
sig = SourmashSignature(e)
s = save_signatures([sig])
siglist = list(load_signatures(s))
sig2 = siglist[0]
e2 = sig2.minhash
assert sig.similarity(sig2) == 1.0
assert sig2.similarity(sig) == 1.0
def test_load_compressed(track_abundance):
e1 = sourmash.MinHash(n=1, ksize=20, track_abundance=track_abundance)
sig1 = SourmashSignature(e1)
x = save_signatures([sig1], compression=5)
y = load_one_signature(x)
assert sig1 == y
sigfile = utils.get_test_data('genome-s10+s11.sig.gz')
sigs = load_signatures(sigfile)
def test_load_one_fail_multisig(track_abundance):
e1 = sourmash.MinHash(n=1, ksize=20, track_abundance=track_abundance)
sig1 = SourmashSignature(e1)
e2 = sourmash.MinHash(n=1, ksize=20, track_abundance=track_abundance)
sig2 = SourmashSignature(e2)
x = save_signatures([sig1, sig2])
with pytest.raises(ValueError):
y = load_one_signature(x)
def test_roundtrip(track_abundance):
e = sourmash.MinHash(n=1, ksize=20, track_abundance=track_abundance)
e.add("AT" * 10)
sig = SourmashSignature(e)
s = save_signatures([sig])
siglist = list(load_signatures(s))
sig2 = siglist[0]
e2 = sig2.minhash
assert sig.similarity(sig2) == 1.0
assert sig2.similarity(sig) == 1.0
def test_load_one_fail_multisig(track_abundance):
e1 = sourmash.MinHash(n=1, ksize=20, track_abundance=track_abundance)
sig1 = SourmashSignature(e1)
e2 = sourmash.MinHash(n=1, ksize=20, track_abundance=track_abundance)
sig2 = SourmashSignature(e2)
x = save_signatures([sig1, sig2])
with pytest.raises(ValueError):
y = load_one_signature(x)
def test_roundtrip_empty(track_abundance):
# edge case, but: empty minhash? :)
e = sourmash.MinHash(n=1, ksize=20, track_abundance=track_abundance)
sig = SourmashSignature(e)
s = save_signatures([sig])
siglist = list(load_signatures(s))
sig2 = siglist[0]
e2 = sig2.minhash
assert sig.similarity(sig2) == 0
assert sig2.similarity(sig) == 0
def test_roundtrip_empty(track_abundance):
# edge case, but: empty minhash? :)
e = sourmash.MinHash(n=1, ksize=20, track_abundance=track_abundance)
sig = SourmashSignature(e)
s = save_signatures([sig])
siglist = list(load_signatures(s))
sig2 = siglist[0]
e2 = sig2.minhash
assert sig.similarity(sig2) == 0
assert sig2.similarity(sig) == 0
def test_roundtrip_max_hash(track_abundance):
e = sourmash.MinHash(n=0, ksize=20, track_abundance=track_abundance,
max_hash=10)
e.add_hash(5)
sig = SourmashSignature(e)
s = save_signatures([sig])
siglist = list(load_signatures(s))
sig2 = siglist[0]
e2 = sig2.minhash
assert e.max_hash == e2.max_hash
assert sig.similarity(sig2) == 1.0
assert sig2.similarity(sig) == 1.0
def test_save_minified(track_abundance):
e1 = sourmash.MinHash(n=1, ksize=20, track_abundance=track_abundance)
sig1 = SourmashSignature(e1, name="foo")
e2 = sourmash.MinHash(n=1, ksize=25, track_abundance=track_abundance)
sig2 = SourmashSignature(e2, name="bar baz")
x = save_signatures([sig1, sig2])
assert '\n' not in x
assert len(x.split('\n')) == 1
y = list(load_signatures(x))
assert len(y) == 2
assert any(sig.name() == 'foo' for sig in y)
assert any(sig.name() == 'bar baz' for sig in y)
def test_save_minified(track_abundance):
e1 = sourmash.MinHash(n=1, ksize=20, track_abundance=track_abundance)
sig1 = SourmashSignature(e1, name="foo")
e2 = sourmash.MinHash(n=1, ksize=25, track_abundance=track_abundance)
sig2 = SourmashSignature(e2, name="bar baz")
x = save_signatures([sig1, sig2])
assert '\n' not in x
assert len(x.split('\n')) == 1
y = list(load_signatures(x))
assert len(y) == 2
assert any(sig.name() == 'foo' for sig in y)
assert any(sig.name() == 'bar baz' for sig in y)
def test_save_load_multisig(track_abundance):
e1 = sourmash.MinHash(n=1, ksize=20, track_abundance=track_abundance)
sig1 = SourmashSignature(e1)
e2 = sourmash.MinHash(n=1, ksize=25, track_abundance=track_abundance)
sig2 = SourmashSignature(e2)
x = save_signatures([sig1, sig2])
y = list(load_signatures(x))
print(x)
assert len(y) == 2
assert sig1 in y # order not guaranteed, note.
assert sig2 in y
assert sig1 != sig2
def test_save_load_multisig(track_abundance):
e1 = sourmash.MinHash(n=1, ksize=20, track_abundance=track_abundance)
sig1 = SourmashSignature(e1)
e2 = sourmash.MinHash(n=1, ksize=25, track_abundance=track_abundance)
sig2 = SourmashSignature(e2)
x = save_signatures([sig1, sig2])
y = list(load_signatures(x))
print(x)
assert len(y) == 2
assert sig1 in y # order not guaranteed, note.
assert sig2 in y
assert sig1 != sig2
def test_load_one_fail_nosig(track_abundance):
x = save_signatures([])
print((x, ))
with pytest.raises(ValueError):
y = load_one_signature(x)
def test_load_one_fail_nosig(track_abundance):
x = save_signatures([])
print((x,))
with pytest.raises(ValueError):
y = load_one_signature(x)
