def testWithCustomBackground(self):
graph = Graph()
# OpDummyData needs an input array to decide what shape/dtype/axes to make the output
a = numpy.ndarray(shape=(2, 100, 100, 100, 3), dtype=numpy.uint32)
v = a.view(vigra.VigraArray)
v.axistags = vigra.defaultAxistags('txyzc')
# OpDummyData provides a simple binary image with a bunch of thick diagonal planes.
opData = OpDummyData(graph=graph)
opData.Input.setValue(v)
assert opData.Output.ready()
assert opData.Output.meta.axistags is not None
# Each diagonal plane should get it's own label...
op = OpCachedLabelImage(graph=graph)
op.Input.connect(opData.Output)
op.BackgroundLabels.setValue(
[0, 1, 0]) # Use inverted background for the second channel
assert op.Output.ready()
data = opData.Output[:].wait()
labels = op.Output[:].wait()
channel = 0
#logger.debug( "data-c0:\n{}".format( str(data[0,:80:5,:80:5,0,channel])) )
#logger.debug( "labels-c0:\n{}".format( str(labels[0,:80:5,:80:5,0,channel])) )
channel = 1
#logger.debug( "data-c1:\n{}".format( str(data[0,:80:5,:80:5,0,channel])) )
#logger.debug( "labels-c1:\n{}".format( str(labels[0,:80:5,:80:5,0,channel])) )
assert labels[0, 0, 0, 0, 0] == 1
assert labels[
0, 0, 0, 0,
1] == 0, "Expected inverted background for the second channel"
def testBasic(self):
graph = Graph()
# OpDummyData needs an input array to decide what shape/dtype/axes to make the output
a = numpy.ndarray(shape=(2, 100, 100, 100, 3), dtype=numpy.uint32)
v = a.view(vigra.VigraArray)
v.axistags = vigra.defaultAxistags('txyzc')
# OpDummyData provides a simple binary image with a bunch of thick diagonal planes.
opData = OpDummyData(graph=graph)
opData.Input.setValue(v)
assert opData.Output.ready()
assert opData.Output.meta.axistags is not None
data = opData.Output[:].wait()
#logger.debug( "data:\n{}".format( str(data[0,:80:5,:80:5,0,0])) )
# Each diagonal plane should get it's own label...
op = OpCachedLabelImage(graph=graph)
op.Input.connect(opData.Output)
assert op.Output.ready()
labels = op.Output[:].wait()
def __init__(self, *args, **kwargs):
super(OpBlockwiseFilesetReader, self).__init__(*args, **kwargs)
self._blockwiseFileset = None
self._opDummyData = OpDummyData(parent=self)
def __init__(self, *args, **kwargs):
super(OpExportedImageProvider, self).__init__(*args, **kwargs)
self._opReader = None
self._opDummyData = OpDummyData(parent=self)
