def test_2d_along_t(self):
data = numpy.random.randint(0, 255,
(20, 100, 200, 3)).astype(numpy.uint8)
expected_axistags = vigra.AxisTags([
vigra.AxisInfo("t", typeFlags=vigra.AxisType.Time),
vigra.AxisInfo("y", typeFlags=vigra.AxisType.Space),
vigra.AxisInfo("x", typeFlags=vigra.AxisType.Space),
vigra.AxisInfo("c", typeFlags=vigra.AxisType.Channels),
])
with tempdir() as d:
tiff_path = d + "/test-2d-{slice_index:02d}.tiff"
tiff_glob_path = d + "/test-2d-*.tiff"
for slice_index, t_slice in enumerate(data):
vigra.impex.writeImage(
vigra.taggedView(t_slice, "yxc"),
tiff_path.format(slice_index=slice_index),
dtype="NATIVE",
mode="w",
)
op = OpTiffSequenceReader(graph=Graph())
op.SequenceAxis.setValue("t")
op.GlobString.setValue(tiff_glob_path)
assert op.Output.ready()
assert op.Output.meta.axistags == expected_axistags
assert (op.Output[5:10, 50:100,
100:150].wait() == data[5:10, 50:100,
100:150]).all()
def _attemptOpenAsTiffStack(self, filePath):
if not ('*' in filePath or os.path.pathsep in filePath):
return ([], None)
try:
opReader = OpTiffSequenceReader(parent=self)
opReader.SequenceAxis.connect(self.SequenceAxis)
opReader.GlobString.setValue(filePath)
return ([opReader], opReader.Output)
except OpTiffSequenceReader.WrongFileTypeError as ex:
return ([], None)