def test_coordinate_corresponding_to_dendrite_tips_multiple_cut_dendrite_invalid(
self):
for dendrite_type in [BASAL_DENDRITE, APICAL_DENDRITE]:
test_morphology = morphology.Morphology([
test_node(id=1, type=SOMA, parent_node_id=-1),
test_node(
id=2, type=dendrite_type, x=0, y=0, z=0, parent_node_id=1),
test_node(
id=2, type=dendrite_type, x=0, y=0, z=0, parent_node_id=1)
],
strict_validation=False)
errors = mv.validate([
test_marker(x=1, y=0, z=0, name=CUT_DENDRITE),
test_marker(x=1, y=0, z=0, name=TYPE_30)
], test_morphology)
self.assertMarkerErrors(
errors,
"Coordinates for each dendrite (type 10) needs to correspond to "
"a tip of a dendrite type (type 3 or 4) in the related morphology",
[[{
'x': 1,
'y': 0,
'z': 0,
'name': CUT_DENDRITE
}]])
def test_coordinate_corresponding_to_axon_tips_type_20_valid(self):
test_morphology = morphology.Morphology([
test_node(id=1, type=SOMA, parent_node_id=-1),
test_node(id=2, type=AXON, x=0, y=0, z=0, parent_node_id=1)
],
strict_validation=False)
mv.validate([test_marker(x=0, y=0, z=0, name=AXON)], test_morphology)
def test_number_of_type_30_less_than_one(self):
test_morphology = morphology.Morphology(
[test_node(id=1, type=SOMA, parent_node_id=-1)],
strict_validation=False)
errors = mv.validate([test_marker(name=NO_RECONSTRUCTION)],
test_morphology)
self.assertMarkerErrors(errors, "Total number of type 30s is 0",
[[{}]])
def test_validate_expected_name_invalid(self):
errors = mv.validate_expected_name([test_marker(name=5)])
self.assertMarkerErrors(
errors, "Marker name needs to be one of these values:", [[{
'x': 0,
'y': 0,
'z': 0,
'name': 5
}]])
def test_number_of_type_30_more_than_one(self):
test_morphology = morphology.Morphology(
[test_node(id=1, type=SOMA, parent_node_id=-1)],
strict_validation=False)
errors = mv.validate(
[test_marker(name=TYPE_30),
test_marker(name=TYPE_30)], test_morphology)
self.assertMarkerErrors(errors, "Total number of type 30s is 2",
[[{
'x': 0,
'y': 0,
'z': 0,
'name': TYPE_30
}], [{
'x': 0,
'y': 0,
'z': 0,
'name': TYPE_30
}]])
def test_coordinate_corresponding_to_dendrite_tips_type_20_valid(self):
for dendrite_type in [BASAL_DENDRITE, APICAL_DENDRITE]:
test_morphology = morphology.Morphology([
test_node(id=1, type=SOMA, parent_node_id=-1),
test_node(
id=2, type=dendrite_type, x=0, y=0, z=0, parent_node_id=1)
],
strict_validation=False)
mv.validate([test_marker(x=1, y=0, z=0, name=AXON)],
test_morphology)
def test_number_of_no_reconstruction_more_than_one(self):
test_morphology = morphology.Morphology(
[test_node(id=1, type=SOMA, parent_node_id=-1)],
strict_validation=False)
errors = mv.validate([
test_marker(name=NO_RECONSTRUCTION),
test_marker(name=NO_RECONSTRUCTION)
], test_morphology)
self.assertMarkerErrors(
errors, "Total number of type 20s is more than one: 2",
[[{
'x': 0,
'y': 0,
'z': 0,
'name': NO_RECONSTRUCTION
}], [{
'x': 0,
'y': 0,
'z': 0,
'name': NO_RECONSTRUCTION
}]])
def test_coordinate_corresponding_to_axon_tips_no_reconstruction_invalid(
self):
test_morphology = morphology.Morphology([
test_node(id=1, type=SOMA, parent_node_id=-1),
test_node(id=2, type=AXON, x=0, y=0, z=0, parent_node_id=1)
],
strict_validation=False)
errors = mv.validate([
test_marker(x=1, y=0, z=0, name=NO_RECONSTRUCTION),
test_marker(x=1, y=0, z=0, name=TYPE_30)
], test_morphology)
self.assertMarkerErrors(
errors,
"Coordinates for each axon (type 20) needs to correspond to "
"a tip of an axon type (type 2) in the related morphology",
[[{
'x': 1,
'y': 0,
'z': 0,
'name': NO_RECONSTRUCTION
}]])
def test_number_of_no_reconstruction_zero(self):
test_morphology = morphology.Morphology(
[test_node(id=1, type=SOMA, parent_node_id=-1)],
strict_validation=False)
mv.validate([test_marker(name=CUT_DENDRITE)], test_morphology)
def test_number_of_no_reconstruction_one(self):
test_morphology = morphology.Morphology(
[test_node(id=1, type=SOMA, parent_node_id=-1)],
strict_validation=False)
mv.validate([test_marker(name=NO_RECONSTRUCTION)], test_morphology)
def test_number_of_type_30_one(self):
test_morphology = morphology.Morphology(
[test_node(id=1, type=SOMA, parent_node_id=-1)],
strict_validation=False)
mv.validate([test_marker(name=TYPE_30)], test_morphology)
def test_validate_expected_name_valid(self):
for marker_name in [CUT_DENDRITE, NO_RECONSTRUCTION, TYPE_30]:
errors = mv.validate_expected_name([test_marker(name=marker_name)])
self.assertEqual(len(errors), 0)