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reefnet-demo / test_lib.py
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import lib
def test_taxonomiclookup_empty():
lookup = lib.TaxonomicTree()
assert lookup.size == 0
def test_taxonomiclookup_kingdom_size():
lookup = lib.TaxonomicTree()
lookup.add(("Animalia",))
assert lookup.size == 1
def test_taxonomiclookup_genus_size():
lookup = lib.TaxonomicTree()
lookup.add(
(
"Animalia",
"Chordata",
"Aves",
"Accipitriformes",
"Accipitridae",
"Halieaeetus",
)
)
assert lookup.size == 6
def test_taxonomictree_kingdom_children():
lookup = lib.TaxonomicTree()
lookup.add(
(
"Animalia",
"Chordata",
"Aves",
"Accipitriformes",
"Accipitridae",
"Halieaeetus",
)
)
expected = set([("Animalia", 0)])
actual = lookup.children()
assert actual == expected
def test_taxonomiclookup_children_of_animal_only_birds():
lookup = lib.TaxonomicTree()
lookup.add(
(
"Animalia",
"Chordata",
"Aves",
"Accipitriformes",
"Accipitridae",
"Halieaeetus",
"leucocephalus",
)
)
lookup.add(
(
"Animalia",
"Chordata",
"Aves",
"Strigiformes",
"Strigidae",
"Ninox",
"scutulata",
)
)
lookup.add(
(
"Animalia",
"Chordata",
"Aves",
"Strigiformes",
"Strigidae",
"Ninox",
"plesseni",
)
)
actual = lookup.children(("Animalia",))
expected = set([("Chordata", 1)])
assert actual == expected
def test_taxonomiclookup_children_of_animal():
lookup = lib.TaxonomicTree()
lookup.add(
(
"Animalia",
"Chordata",
"Aves",
"Accipitriformes",
"Accipitridae",
"Halieaeetus",
"leucocephalus",
)
)
lookup.add(
(
"Animalia",
"Chordata",
"Aves",
"Strigiformes",
"Strigidae",
"Ninox",
"scutulata",
)
)
lookup.add(
(
"Animalia",
"Chordata",
"Aves",
"Strigiformes",
"Strigidae",
"Ninox",
"plesseni",
)
)
lookup.add(
(
"Animalia",
"Chordata",
"Mammalia",
"Primates",
"Hominidae",
"Gorilla",
"gorilla",
)
)
lookup.add(
(
"Animalia",
"Arthropoda",
"Insecta",
"Hymenoptera",
"Apidae",
"Bombus",
"balteatus",
)
)
actual = lookup.children(("Animalia",))
expected = set([("Chordata", 1), ("Arthropoda", 17)])
assert actual == expected
def test_taxonomiclookup_children_of_chordata():
lookup = lib.TaxonomicTree()
lookup.add(
(
"Animalia",
"Chordata",
"Aves",
"Accipitriformes",
"Accipitridae",
"Halieaeetus",
"leucocephalus",
)
)
lookup.add(
(
"Animalia",
"Chordata",
"Aves",
"Strigiformes",
"Strigidae",
"Ninox",
"scutulata",
)
)
lookup.add(
(
"Animalia",
"Chordata",
"Aves",
"Strigiformes",
"Strigidae",
"Ninox",
"plesseni",
)
)
lookup.add(
(
"Animalia",
"Chordata",
"Mammalia",
"Primates",
"Hominidae",
"Gorilla",
"gorilla",
)
)
lookup.add(
(
"Animalia",
"Arthropoda",
"Insecta",
"Hymenoptera",
"Apidae",
"Bombus",
"balteatus",
)
)
actual = lookup.children(("Animalia", "Chordata"))
expected = set([("Aves", 2), ("Mammalia", 12)])
assert actual == expected
def test_taxonomiclookup_children_of_strigiformes():
lookup = lib.TaxonomicTree()
lookup.add(
(
"Animalia",
"Chordata",
"Aves",
"Accipitriformes",
"Accipitridae",
"Halieaeetus",
"leucocephalus",
)
)
lookup.add(
(
"Animalia",
"Chordata",
"Aves",
"Strigiformes",
"Strigidae",
"Ninox",
"scutulata",
)
)
lookup.add(
(
"Animalia",
"Chordata",
"Aves",
"Strigiformes",
"Strigidae",
"Ninox",
"plesseni",
)
)
lookup.add(
(
"Animalia",
"Chordata",
"Mammalia",
"Primates",
"Hominidae",
"Gorilla",
"gorilla",
)
)
lookup.add(
(
"Animalia",
"Arthropoda",
"Insecta",
"Hymenoptera",
"Apidae",
"Bombus",
"balteatus",
)
)
actual = lookup.children(("Animalia", "Chordata", "Aves", "Strigiformes"))
expected = set([("Strigidae", 8)])
assert actual == expected
def test_taxonomiclookup_children_of_ninox():
lookup = lib.TaxonomicTree()
lookup.add(
(
"Animalia",
"Chordata",
"Aves",
"Accipitriformes",
"Accipitridae",
"Halieaeetus",
"leucocephalus",
)
)
lookup.add(
(
"Animalia",
"Chordata",
"Aves",
"Strigiformes",
"Strigidae",
"Ninox",
"scutulata",
)
)
lookup.add(
(
"Animalia",
"Chordata",
"Aves",
"Strigiformes",
"Strigidae",
"Ninox",
"plesseni",
)
)
lookup.add(
(
"Animalia",
"Chordata",
"Mammalia",
"Primates",
"Hominidae",
"Gorilla",
"gorilla",
)
)
lookup.add(
(
"Animalia",
"Arthropoda",
"Insecta",
"Hymenoptera",
"Apidae",
"Bombus",
"balteatus",
)
)
actual = lookup.children(
("Animalia", "Chordata", "Aves", "Strigiformes", "Strigidae", "Ninox")
)
expected = set([("scutulata", 10), ("plesseni", 11)])
assert actual == expected
def test_taxonomiclookup_children_of_gorilla():
lookup = lib.TaxonomicTree()
lookup.add(
(
"Animalia",
"Chordata",
"Aves",
"Accipitriformes",
"Accipitridae",
"Halieaeetus",
"leucocephalus",
)
)
lookup.add(
(
"Animalia",
"Chordata",
"Aves",
"Strigiformes",
"Strigidae",
"Ninox",
"scutulata",
)
)
lookup.add(
(
"Animalia",
"Chordata",
"Aves",
"Strigiformes",
"Strigidae",
"Ninox",
"plesseni",
)
)
lookup.add(
(
"Animalia",
"Chordata",
"Mammalia",
"Primates",
"Hominidae",
"Gorilla",
"gorilla",
)
)
lookup.add(
(
"Animalia",
"Arthropoda",
"Insecta",
"Hymenoptera",
"Apidae",
"Bombus",
"balteatus",
)
)
actual = lookup.children(
(
"Animalia",
"Chordata",
"Mammalia",
"Primates",
"Hominidae",
"Gorilla",
"gorilla",
)
)
expected = set()
assert actual == expected
def test_taxonomictree_descendants_last():
lookup = lib.TaxonomicTree()
lookup.add(("A", "B", "C", "D", "E", "F", "G"))
actual = list(lookup.descendants(("A", "B", "C", "D", "E", "F", "G")))
expected = [
(("A", "B", "C", "D", "E", "F", "G"), 6),
]
assert actual == expected
def test_taxonomictree_descendants_entire_tree():
lookup = lib.TaxonomicTree()
lookup.add(("A", "B"))
actual = list(lookup.descendants())
expected = [
(("A",), 0),
(("A", "B"), 1),
]
assert actual == expected
def test_taxonomictree_descendants_entire_tree_with_prefix():
lookup = lib.TaxonomicTree()
lookup.add(("A", "B"))
actual = list(lookup.descendants(prefix=("A",)))
expected = [
(("A",), 0),
(("A", "B"), 1),
]
assert actual == expected
def test_taxonomictree_descendants_general():
lookup = lib.TaxonomicTree()
lookup.add(("A", "B", "C", "D", "E", "F", "G"))
actual = list(lookup.descendants(("A", "B", "C", "D")))
expected = [
(("A", "B", "C", "D"), 3),
(("A", "B", "C", "D", "E"), 4),
(("A", "B", "C", "D", "E", "F"), 5),
(("A", "B", "C", "D", "E", "F", "G"), 6),
]
assert actual == expected