def fileName2xml(self, filename):
"""Here we create the XML string to be passed to the EDNA plugin from the input filename
This can / should be modified by the final user
@param filename: full path of the input file
@type filename: python string representing the path
@rtype: XML string
@return: python string
"""
basename = list(os.path.splitext(os.path.basename(filename))[0])
basename.reverse()
number = ""
for i in basename:
if i.isdigit():
number = i + number
else: break
if self.hdfFile is None:
self.hdfFile = os.path.splitext(filename)[0][:-len(number)] + ".h5"
xsd = XSDataInputHDF5StackImages(index=[XSDataInteger(self.index)],
HDF5File=XSDataFile(XSDataString(self.hdfFile)),
internalHDF5Path=XSDataString("RawStack"),
inputImageFile=[XSDataImageExt(path=XSDataString(filename))]
)
# inputArray=[EDUtilsArray.arrayToXSData(fabio.open(filename).data)])
self.dict[self.index] = filename
self.index += 1
return xsd.marshal()
def doSuccessExecShiftImage(self, _edPlugin=None):
with self.semShift:
edPluginExecHDF5 = self.loadPlugin(self.__strControlledPluginHDF5)
self.DEBUG("EDPluginControlAlignStackv1_0.doSuccessExecShiftImage")
self.retrieveSuccessMessages(
_edPlugin,
"EDPluginControlAlignStackv1_0.doSuccessExecShiftImage")
xsdIdx = _edPlugin.dataInput.index
self.__class__.MaxOffset = _edPlugin.MAX_OFFSET_VALUE
self.hdf5_offset(
index=xsdIdx.value,
offset=[i.value for i in _edPlugin.dataInput.offset])
xsdata = XSDataInputHDF5StackImages(
chunkSegmentation=XSDataInteger(32),
forceDtype=XSDataString("float32"),
extraAttributes=self.hdf5ExtraAttributes,
internalHDF5Path=self.xsdHDF5Internal,
HDF5File=self.xsdHDF5File,
index=[xsdIdx],
inputImageFile=[_edPlugin.dataOutput.outputImage])
# inputArray=[_edPlugin.dataOutput.outputArray])
edPluginExecHDF5.setDataInput(xsdata)
edPluginExecHDF5.connectSUCCESS(self.doSuccessExecStackHDF5)
edPluginExecHDF5.connectFAILURE(self.doFailureExecStackHDF5)
self.queue.put(edPluginExecHDF5)
def testCheckParameters(self):
xsDataInput = XSDataInputHDF5StackImages(
HDF5File=XSDataFile(),
internalHDF5Path=XSDataString(),
inputImageFile=[XSDataImage()])
edPluginExecHDF5StackImages = self.createPlugin()
edPluginExecHDF5StackImages.setDataInput(xsDataInput)
edPluginExecHDF5StackImages.checkParameters()
