def test_1_Read(self):
graph = Graph()
op = OpRESTfulBlockwiseFilesetReader(graph=graph)
op.DescriptionFilePath.setValue( self.descriptionFilePath )
logger.debug("test_1_Read(): Reading data")
slice1 = numpy.s_[ 0:21, 5:27, 10:33 ]
readData = op.Output[ slice1 ].wait()
assert readData.shape == (21, 22, 23)
op.cleanUp()
def test_1_Read(self):
graph = Graph()
op = OpRESTfulBlockwiseFilesetReader(graph=graph)
op.DescriptionFilePath.setValue(self.descriptionFilePath)
logger.debug("test_1_Read(): Reading data")
slice1 = numpy.s_[0:21, 5:27, 10:33]
readData = op.Output[slice1].wait()
assert readData.shape == (21, 22, 23)
op.cleanUp()
def _attemptOpenAsRESTfulBlockwiseFileset(self, filePath):
fileExtension = os.path.splitext(filePath)[1].lower()
fileExtension = fileExtension.lstrip(".") # Remove leading dot
if fileExtension in OpInputDataReader.blockwiseExts:
opReader = OpRESTfulBlockwiseFilesetReader(parent=self)
try:
# This will raise a SchemaError if this is the wrong type of json config.
opReader.DescriptionFilePath.setValue(filePath)
return (opReader, opReader.Output)
except JsonConfigSchema.SchemaError:
opReader.cleanUp()
return (None, None)
def test_2_ReadTranslated(self):
# Start by reading some data
graph = Graph()
op = OpRESTfulBlockwiseFilesetReader(graph=graph)
try:
op.DescriptionFilePath.setValue(self.descriptionFilePath)
logger.debug("test_2_Read(): Reading data")
slice1 = numpy.s_[20:30, 30:40, 20:30]
readData = op.Output[slice1].wait()
assert readData.shape == (10, 10, 10)
logger.debug("test_2_Read(): Creating translated description")
# Create a copy of the original description, but specify a translated (and smaller) view
desc = RESTfulBlockwiseFileset.readDescription(
self.descriptionFilePath)
desc.view_origin = [20, 30, 20]
offsetConfigPath = self.descriptionFilePath + "_offset"
RESTfulBlockwiseFileset.writeDescription(offsetConfigPath, desc)
# Read the same data as before using the translated view (offset our roi)
opTranslated = OpRESTfulBlockwiseFilesetReader(graph=graph)
try:
opTranslated.DescriptionFilePath.setValue(offsetConfigPath)
logger.debug("test_2_Read(): Reading translated data")
sliceTranslated = numpy.s_[0:10, 0:10, 0:10]
translatedReadData = op.Output[sliceTranslated].wait()
assert translatedReadData.shape == (10, 10, 10)
assert (translatedReadData == readData
).all(), "Data doesn't match!"
finally:
opTranslated.cleanUp()
finally:
op.cleanUp()
def _attemptOpenAsRESTfulBlockwiseFileset(self, filePath):
fileExtension = os.path.splitext(filePath)[1].lower()
fileExtension = fileExtension.lstrip('.') # Remove leading dot
if fileExtension in OpInputDataReader.blockwiseExts:
opReader = OpRESTfulBlockwiseFilesetReader(parent=self)
try:
# This will raise a SchemaError if this is the wrong type of json config.
opReader.DescriptionFilePath.setValue(filePath)
return ([opReader], opReader.Output)
except JsonConfigParser.SchemaError:
opReader.cleanUp()
except OpRESTfulBlockwiseFilesetReader.MissingDatasetError as e:
raise OpInputDataReader.DatasetReadError(*e.args)
return ([], None)
def test_2_ReadTranslated(self):
# Start by reading some data
graph = Graph()
op = OpRESTfulBlockwiseFilesetReader(graph=graph)
op.DescriptionFilePath.setValue( self.descriptionFilePath )
logger.debug("test_2_Read(): Reading data")
slice1 = numpy.s_[ 20:30, 30:40, 20:30 ]
readData = op.Output[ slice1 ].wait()
assert readData.shape == (10, 10, 10)
logger.debug("test_2_Read(): Creating translated description")
# Create a copy of the original description, but specify a translated (and smaller) view
desc = RESTfulBlockwiseFileset.readDescription(self.descriptionFilePath)
desc.view_origin = [20, 30, 20]
offsetConfigPath = self.descriptionFilePath + '_offset'
RESTfulBlockwiseFileset.writeDescription(offsetConfigPath, desc)
# Read the same data as before using the translated view (offset our roi)
opTranslated = OpRESTfulBlockwiseFilesetReader(graph=graph)
opTranslated.DescriptionFilePath.setValue( offsetConfigPath )
logger.debug("test_2_Read(): Reading translated data")
sliceTranslated = numpy.s_[ 0:10, 0:10, 0:10 ]
translatedReadData = op.Output[ sliceTranslated ].wait()
assert translatedReadData.shape == (10, 10, 10)
assert (translatedReadData == readData).all(), "Data doesn't match!"
op.cleanUp()
opTranslated.cleanUp()