def test_scalar_coordinates():
"""Set up an ImageStack where only a single scalar physical coordinate is provided per axis.
Internally, this should be converted to a range where the two endpoints are identical to the
physical coordinate provided.
"""
stack = ImageStack.synthetic_stack(NUM_ROUND,
NUM_CH,
NUM_Z,
HEIGHT,
WIDTH,
tile_fetcher=tile_fetcher_factory(
OffsettedScalarTiles,
True,
))
assert stack.tiles_aligned is False
for selectors in stack._iter_axes({Axes.ROUND, Axes.CH, Axes.ZPLANE}):
expected_x = round_to_x(selectors[Axes.ROUND])[0]
expected_y = round_to_y(selectors[Axes.ROUND])[0]
expected_z = round_to_z(selectors[Axes.ROUND])[0]
verify_physical_coordinates(
stack,
selectors,
(expected_x, expected_x),
(expected_y, expected_y),
(expected_z, expected_z),
)
def test_aligned_coordinates():
"""Set up an ImageStack where all the tiles are aligned (have the same physical coordinate values).
Assert that the resulting Imagestack's tiles_aligned attribute is True
"""
stack = ImageStack.synthetic_stack(NUM_ROUND,
NUM_CH,
NUM_Z,
HEIGHT,
WIDTH,
tile_fetcher=tile_fetcher_factory(
AlignedTiles,
True,
))
assert stack.tiles_aligned is True
def test_coordinates():
"""Set up an ImageStack with tiles that are offset based on round. Verify that the coordinates
retrieved match.
"""
stack = ImageStack.synthetic_stack(NUM_ROUND,
NUM_CH,
NUM_Z,
HEIGHT,
WIDTH,
tile_fetcher=tile_fetcher_factory(
OffsettedTiles,
True,
))
assert stack.tiles_aligned is False
for selectors in stack._iter_axes({Axes.ROUND, Axes.CH, Axes.ZPLANE}):
verify_physical_coordinates(
stack,
selectors,
round_to_x(selectors[Axes.ROUND]),
round_to_y(selectors[Axes.ROUND]),
round_to_z(selectors[Axes.ROUND]),
)
