def it_knows_tissue_areas_mask_slide_filters_composition(
RgbToGrayscale_,
OtsuThreshold_,
BinaryDilation_,
RemoveSmallHoles_,
RemoveSmallObjects_,
):
_enough_tissue_mask_filters_ = FiltersComposition(
Slide).tissue_mask_filters
RgbToGrayscale_.assert_called_once()
OtsuThreshold_.assert_called_once()
BinaryDilation_.assert_called_once()
RemoveSmallHoles_.assert_called_once()
RemoveSmallObjects_.assert_called_once()
assert _enough_tissue_mask_filters_.filters == [
RgbToGrayscale_(),
OtsuThreshold_(),
BinaryDilation_(),
RemoveSmallHoles_(),
RemoveSmallObjects_(),
]
assert type(_enough_tissue_mask_filters_) == Compose
def it_can_dispatch_subclass_according_class_type(request, _cls, subclass):
_init_ = initializer_mock(request, FiltersComposition)
filters_composition = FiltersComposition(_cls)
_init_.assert_called_once_with(_cls)
assert isinstance(filters_composition, subclass)
def it_raises_filtercompositionerror_if_class_is_none(request):
_init_ = initializer_mock(request, FiltersComposition)
cls_ = None
with pytest.raises(FilterCompositionError) as err:
FiltersComposition(cls_)
_init_.assert_not_called()
assert isinstance(err.value, FilterCompositionError)
assert str(err.value) == "cls_ parameter cannot be None"
def it_raises_filtercompositionerror_if_class_not_allowed(request):
_init_ = initializer_mock(request, FiltersComposition)
cls_ = Compose
with pytest.raises(FilterCompositionError) as err:
FiltersComposition(cls_)
_init_.assert_not_called()
assert isinstance(err.value, FilterCompositionError)
assert (str(err.value) ==
"Filters composition for the class Compose is not available")
def it_knows_tissue_areas_mask_tile_filters_composition(
RgbToGrayscale_, OtsuThreshold_, BinaryDilation_, BinaryFillHoles_):
_enough_tissue_mask_filters_ = FiltersComposition(Tile).tissue_mask_filters
RgbToGrayscale_.assert_called_once()
OtsuThreshold_.assert_called_once()
BinaryDilation_.assert_called_once()
BinaryFillHoles_.assert_called_once()
np.testing.assert_almost_equal(
BinaryFillHoles_.call_args_list[0][1]["structure"], np.ones((5, 5)))
assert _enough_tissue_mask_filters_.filters == [
RgbToGrayscale_(),
OtsuThreshold_(),
BinaryDilation_(),
BinaryFillHoles_(),
]
assert type(_enough_tissue_mask_filters_) == Compose