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Added a base class #36

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Jun 17, 2024
Merged

Added a base class #36

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7fad70c
Added a base class
kenichi-maeda Jun 17, 2024
3c9802e
remove json files
kenichi-maeda Jun 17, 2024
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80 changes: 16 additions & 64 deletions tests/test_abbottstjudeactivetip6142_6145.py
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Original file line number Diff line number Diff line change
@@ -1,79 +1,31 @@
import netgen
import ngsolve
import numpy as np
import pytest

from ossdbs.electrodes import AbbottStJudeActiveTip6142_6145

from .test_electrodes import TestElectrode

class TestAbbottStJudeActiveTip6142_6145:

class TestAbbottStJudeActiveTip6142_6145(TestElectrode):
@pytest.fixture
def AbbottStJudeActiveTip6142_6145_electrode(self):
def electrode(self):
return AbbottStJudeActiveTip6142_6145()

def test_rename_boundaries(self, AbbottStJudeActiveTip6142_6145_electrode):
@pytest.fixture
def electrode_name(self):
return "AbbottStJudeActiveTip6142_6145"

def test_rename_boundaries(self, electrode, electrode_name):
"""Test whether set_contact_names() works."""
electrode = AbbottStJudeActiveTip6142_6145_electrode
electrode.set_contact_names(
{
"Body": "RenamedBody",
"Contact_1": "RenamedContact_1",
"NonExistingPart": "NonExistingPart",
}
)
geometry = electrode.geometry
netgen_geometry = netgen.occ.OCCGeometry(geometry)
with ngsolve.TaskManager():
mesh = ngsolve.Mesh(netgen_geometry.GenerateMesh())
desired = {
"RenamedBody",
"RenamedContact_1",
"Contact_2",
"Contact_3",
"Contact_4",
}
assert desired == set(mesh.GetBoundaries())
self.check_rename_boundaries(electrode, electrode_name)

def test_contacts(self, AbbottStJudeActiveTip6142_6145_electrode):
def test_contacts(self, electrode, electrode_name):
"""Test the number and names of contacts."""
electrode = AbbottStJudeActiveTip6142_6145_electrode
geometry = electrode.geometry
netgen_geometry = netgen.occ.OCCGeometry(geometry)
with ngsolve.TaskManager():
mesh = ngsolve.Mesh(netgen_geometry.GenerateMesh())
desired = {"Body", "Contact_1", "Contact_2", "Contact_3", "Contact_4"}
assert desired == set(mesh.GetBoundaries())
self.check_contacts(electrode, electrode_name)

def test_electrode_volume(self, AbbottStJudeActiveTip6142_6145_electrode):
def test_electrode_volume(self, electrode, electrode_name):
"""Test volume of the entire electrode."""
electrode = AbbottStJudeActiveTip6142_6145_electrode

total_length = electrode._parameters.total_length
tip_length = electrode._parameters.tip_length
radius = electrode._parameters.lead_diameter * 0.5
height = total_length - tip_length

desired = (np.pi * radius**2 * height) + (4 / 3 * np.pi * radius**3 * 0.5)
actual = electrode.geometry.mass
tolerance = 1e-5
self.check_electrode_volume(electrode, electrode_name)

np.testing.assert_allclose(actual, desired, atol=tolerance)

def test_contacts_volume(self, AbbottStJudeActiveTip6142_6145_electrode):
def test_contacts_volume(self, electrode, electrode_name):
"""Test volume of all the contacts."""
electrode = AbbottStJudeActiveTip6142_6145_electrode

contact_length = electrode._parameters.contact_length
radius = electrode._parameters.lead_diameter * 0.5
n_contacts = electrode._n_contacts

C1_height = electrode._parameters.tip_length - radius
C1_volume = (4 / 3 * radius**3 * np.pi * 0.5) + (
C1_height * radius**2 * np.pi
)

desired = (contact_length * radius**2 * np.pi) * (n_contacts - 1) + C1_volume
actual = electrode._contacts().mass
tolerance = 1e-5

np.testing.assert_allclose(actual, desired, atol=tolerance)
self.check_contacts_volume(electrode, electrode_name)
80 changes: 16 additions & 64 deletions tests/test_abbottstjudeactivetip6146_6149.py
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -1,79 +1,31 @@
import netgen
import ngsolve
import numpy as np
import pytest

from ossdbs.electrodes import AbbottStJudeActiveTip6146_6149

from .test_electrodes import TestElectrode

class TestAbbottStJudeActiveTip6146_6149:

class TestAbbottStJudeActiveTip6146_6149(TestElectrode):
@pytest.fixture
def AbbottStJudeActiveTip6146_6149_electrode(self):
def electrode(self):
return AbbottStJudeActiveTip6146_6149()

def test_rename_boundaries(self, AbbottStJudeActiveTip6146_6149_electrode):
@pytest.fixture
def electrode_name(self):
return "AbbottStJudeActiveTip6146_6149"

def test_rename_boundaries(self, electrode, electrode_name):
"""Test whether set_contact_names() works."""
electrode = AbbottStJudeActiveTip6146_6149_electrode
electrode.set_contact_names(
{
"Body": "RenamedBody",
"Contact_1": "RenamedContact_1",
"NonExistingPart": "NonExistingPart",
}
)
geometry = electrode.geometry
netgen_geometry = netgen.occ.OCCGeometry(geometry)
with ngsolve.TaskManager():
mesh = ngsolve.Mesh(netgen_geometry.GenerateMesh())
desired = {
"RenamedBody",
"RenamedContact_1",
"Contact_2",
"Contact_3",
"Contact_4",
}
assert desired == set(mesh.GetBoundaries())
self.check_rename_boundaries(electrode, electrode_name)

def test_contacts(self, AbbottStJudeActiveTip6146_6149_electrode):
def test_contacts(self, electrode, electrode_name):
"""Test the number and names of contacts."""
electrode = AbbottStJudeActiveTip6146_6149_electrode
geometry = electrode.geometry
netgen_geometry = netgen.occ.OCCGeometry(geometry)
with ngsolve.TaskManager():
mesh = ngsolve.Mesh(netgen_geometry.GenerateMesh())
desired = {"Body", "Contact_1", "Contact_2", "Contact_3", "Contact_4"}
assert desired == set(mesh.GetBoundaries())
self.check_contacts(electrode, electrode_name)

def test_electrode_volume(self, AbbottStJudeActiveTip6146_6149_electrode):
def test_electrode_volume(self, electrode, electrode_name):
"""Test volume of the entire electrode."""
electrode = AbbottStJudeActiveTip6146_6149_electrode

total_length = electrode._parameters.total_length
tip_length = electrode._parameters.tip_length
radius = electrode._parameters.lead_diameter * 0.5
height = total_length - tip_length

desired = (np.pi * radius**2 * height) + (4 / 3 * np.pi * radius**3 * 0.5)
actual = electrode.geometry.mass
tolerance = 1e-5
self.check_electrode_volume(electrode, electrode_name)

np.testing.assert_allclose(actual, desired, atol=tolerance)

def test_contacts_volume(self, AbbottStJudeActiveTip6146_6149_electrode):
def test_contacts_volume(self, electrode, electrode_name):
"""Test volume of all the contacts."""
electrode = AbbottStJudeActiveTip6146_6149_electrode

contact_length = electrode._parameters.contact_length
radius = electrode._parameters.lead_diameter * 0.5
n_contacts = electrode._n_contacts

C1_height = electrode._parameters.tip_length - radius
C1_volume = (4 / 3 * radius**3 * np.pi * 0.5) + (
C1_height * radius**2 * np.pi
)

desired = (contact_length * radius**2 * np.pi) * (n_contacts - 1) + C1_volume
actual = electrode._contacts().mass
tolerance = 1e-5

np.testing.assert_allclose(actual, desired, atol=tolerance)
self.check_contacts_volume(electrode, electrode_name)
91 changes: 16 additions & 75 deletions tests/test_abbottstjudedirected6172.py
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Original file line number Diff line number Diff line change
@@ -1,90 +1,31 @@
import netgen
import ngsolve
import numpy as np
import pytest

from ossdbs.electrodes import AbbottStJudeDirected6172

from .test_electrodes import TestElectrode

class TestAbbottStJudeDirected6172:

class TestAbbottStJudeDirected6172(TestElectrode):
@pytest.fixture
def AbbottStJudeDirected6172_electrode(self):
def electrode(self):
return AbbottStJudeDirected6172()

def test_rename_boundaries(self, AbbottStJudeDirected6172_electrode):
@pytest.fixture
def electrode_name(self):
return "AbbottStJudeDirected6172"

def test_rename_boundaries(self, electrode, electrode_name):
"""Test whether set_contact_names() works."""
electrode = AbbottStJudeDirected6172_electrode
electrode.set_contact_names(
{
"Body": "RenamedBody",
"Contact_1": "RenamedContact_1",
"NonExistingPart": "NonExistingPart",
}
)
geometry = electrode.geometry
netgen_geometry = netgen.occ.OCCGeometry(geometry)
with ngsolve.TaskManager():
mesh = ngsolve.Mesh(netgen_geometry.GenerateMesh())
desired = {
"RenamedBody",
"RenamedContact_1",
"Contact_2",
"Contact_3",
"Contact_4",
"Contact_5",
"Contact_6",
"Contact_7",
"Contact_8",
}
assert desired == set(mesh.GetBoundaries())
self.check_rename_boundaries(electrode, electrode_name)

def test_contacts(self, AbbottStJudeDirected6172_electrode):
def test_contacts(self, electrode, electrode_name):
"""Test the number and names of contacts."""
electrode = AbbottStJudeDirected6172_electrode
geometry = electrode.geometry
netgen_geometry = netgen.occ.OCCGeometry(geometry)
with ngsolve.TaskManager():
mesh = ngsolve.Mesh(netgen_geometry.GenerateMesh())
desired = {
"Body",
"Contact_1",
"Contact_2",
"Contact_3",
"Contact_4",
"Contact_5",
"Contact_6",
"Contact_7",
"Contact_8",
}
assert desired == set(mesh.GetBoundaries())
self.check_contacts(electrode, electrode_name)

def test_electrode_volume(self, AbbottStJudeDirected6172_electrode):
def test_electrode_volume(self, electrode, electrode_name):
"""Test volume of the entire electrode."""
electrode = AbbottStJudeDirected6172_electrode

total_length = electrode._parameters.total_length
tip_length = electrode._parameters.tip_length
radius = electrode._parameters.lead_diameter * 0.5
height = total_length - tip_length

desired = (np.pi * radius**2 * height) + (4 / 3 * np.pi * radius**3 * 0.5)
actual = electrode.geometry.mass
tolerance = 1e-5
self.check_electrode_volume(electrode, electrode_name)

np.testing.assert_allclose(actual, desired, atol=tolerance)

def test_contacts_volume(self, AbbottStJudeDirected6172_electrode):
def test_contacts_volume(self, electrode, electrode_name):
"""Test volume of all the contacts."""
electrode = AbbottStJudeDirected6172_electrode

contact_length = electrode._parameters.contact_length
radius = electrode._parameters.lead_diameter * 0.5

desired = (np.pi * radius**2 * contact_length * 2) + (
np.pi * radius**2 * contact_length * 90 / 360
) * 6

actual = electrode._contacts().mass
tolerance = 1e-5

np.testing.assert_allclose(actual, desired, atol=tolerance)
self.check_contacts_volume(electrode, electrode_name)
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