def test_slice_viewmodel_displays_app_section_image():
model = AppModel(_injector=Mock(DependencyInjector))
view = SliceViewModel(_model=model)
for _ in range(6): # Run multiple iterations to check link
image = np.random.randint(1, 10, size=(4, 4))
model.section_image = image
npt.assert_almost_equal(view.section_image, image)
def test_slice_viewmodel_displays_app_clim2d_values():
model = AppModel(_injector=Mock(DependencyInjector))
view = SliceViewModel(_model=model)
for _ in range(6): # Run multiple iterations to check link
image = np.random.randint(1, 10, size=(4, 4))
model.section_image = image
model.clim_2d = (np.random.random() * 0.5,
np.random.random() * 0.5 + 0.5)
assert view.clim == model.clim_2d_values
def test_atlas_camera_center_and_scale_depend_on_the_atlas_shape_and_resolution(
):
app_model = AppModel(
_injector=DependencyInjector(),
coronal_atlas_image=np.random.randint(0, 100, (10, 10), np.uint16),
)
atlas_section_view = AtlasSectionViewModel(plane='coronal',
_model=app_model)
def test_volume_viewmodel_multiple_slices_visible(app_model: AppModel,
view_model: VolumeViewModel):
image1 = SectionViewData(image=np.random.randint(0, 100, size=(3, 3)),
transform=np.eye(4),
clim=(0, 2))
image2 = SectionViewData(image=np.random.randint(0, 100, size=(3, 3)),
transform=np.eye(4),
clim=(0, 2))
app_model.loaded_sections = [image1, image2]
assert view_model.sections == app_model.loaded_sections
def test_atlas_section_viewmodel_updates_atlas_section_image_to_match_cooresponding_coord(
plane):
app_model = AppModel(_injector=DependencyInjector(),
superior=2,
anterior=5,
right=10)
atlas_section_view = AtlasSectionViewModel(plane=plane, _model=app_model)
section_image = np.random.randint(0, 100, (10, 10), np.uint16)
setattr(app_model, f"{plane}_atlas_image", section_image)
npt.assert_almost_equal(atlas_section_view.atlas_section_image,
section_image)
def launch_gui(create_qapp: bool = True):
# Set special os environ if mac Big Sur is being used
# https://stackoverflow.com/questions/64818879/is-there-any-solution-regarding-to-pyqt-library-doesnt-work-in-mac-os-big-sur
if is_mac_big_sur():
os.environ['QT_MAC_WANTS_LAYER'] = '1'
# Initialize the State
injector = DependencyInjector(
_repo=InMemoryRepo(),
_remote_atlas_reader=BrainglobeRemoteAtlasReader(),
_local_atlas_reader=ImioLocalAtlasReader(),
_image_reader=ImageReader(),
)
# Wire up the GUI
if create_qapp:
app = QApplication([])
model = AppModel(_injector=injector)
coronal_section_view = AtlasSectionView(
_model=AtlasSectionViewModel(plane='coronal', _model=model))
axial_section_view = AtlasSectionView(
_model=AtlasSectionViewModel(plane='axial', _model=model))
sagittal_section_view = AtlasSectionView(
_model=AtlasSectionViewModel(plane='sagittal', _model=model))
slice_view = SliceView(_model=SliceViewModel(_model=model))
volume_view = VolumeView(_model=VolumeViewModel(_model=model))
sidebar_view = SidebarView(_model=SidebarViewModel(_model=model))
window = MainWindowView(
_model=MainWindowViewModel(_model=model),
coronal_widget=coronal_section_view.qt_widget,
axial_widget=axial_section_view.qt_widget,
sagittal_widget=sagittal_section_view.qt_widget,
volume_widget=volume_view.qt_widget,
slice_widget=slice_view.qt_widget,
side_controls=sidebar_view.qt_widget,
)
# Start the Event Loop!
if create_qapp:
app.exec_()
return window
def test_load_section_appends_new_section_and_updates_current_section_id():
DI = Mock(DependencyInjector)
load_section = Mock(LoadSectionCommand)
load_section.return_value = Ok(
LoadImageData(section_id=uuid4(),
section_image=numpy.empty([4, 4]),
resolution_um=200,
num_channels=1))
DI.build.return_value = load_section
model = AppModel(_injector=DI)
model.update_section = Mock()
model.load_section(filename='data.tiff')
assert len(model.loaded_sections) == 1
model.load_section(filename='data2.tiff')
assert len(model.loaded_sections) == 2
def app_model():
app_model = AppModel(_injector=Mock(DependencyInjector))
return app_model