def onSegmentationNodeChanged(self):
Helper.Debug('onSegmentationNodeChanged()')
if self.__vNode == None:
Helper.Error(
'Should not be possible to select segmentation unless annotated volume is initialized!'
)
return
# get the current segmentation (label) node
sNode = self.__segmentationSelector.currentNode()
if sNode == None:
self.updateWidgets()
return
# if it's a new label, it should have/will be added to the report
# automatically
image = sNode.GetImageData()
if image == None:
Helper.initializeNewLabel(sNode, self.__vNode)
else:
# if it's an existing label, we need to check that the geometry matches
# the annotated label geometry, and if so, add it to the hierarchy
if Helper.GeometriesMatch(sNode, self.__vNode) == False:
Helper.ErrorPopup(
'The geometry of the segmentation label you attempted to select does not match the geometry of the volume being annotated! Please select a different label or create a new one.'
)
self.__segmentationSelector.setCurrentNode(None)
self.updateWidgets()
return
# assign the color LUT we use
dNode = sNode.GetDisplayNode()
dNode.SetAndObserveColorNodeID(self.__defaultColorNode.GetID())
sNode.SetAttribute('AssociatedNodeID', self.__vNode.GetID())
self.__logic.AddNodeToReport(sNode)
# assign the volume and the selected color to the editor parameter node
Helper.SetLabelVolume(sNode.GetID())
# TODO: disable adding new label node to the hierarchy if it was added
# outside the reporting module
self.__segmentationSelector.setCurrentNode(sNode)
self.__editorWidget.setMasterNode(self.__vNode)
self.__editorWidget.setMergeNode(sNode)
self.__editorParameterNode.Modified()
self.updateWidgets()
def onAnnotatedVolumeNodeChanged(self):
Helper.Debug("onAnnotatedVolumeNodeChanged()")
# get the current volume node
selectedVolume = self.__volumeSelector.currentNode()
# do the error checks
if selectedVolume == None or self.__rNode == None:
self.__volumeSelector.setCurrentNode(None)
return
uids = selectedVolume.GetAttribute('DICOM.instanceUIDs')
if uids == None:
Helper.ErrorPopup(
"Volume \"" + selectedVolume.GetName() +
"\" was not loaded from DICOM. Only volumes loaded from DICOM data can be annotated in the Reporting module."
)
self.__volumeSelector.setCurrentNode(None)
return
nSlices = selectedVolume.GetImageData().GetExtent()[-1] + 1
if nSlices != len(string.split(uids)):
Helper.ErrorPopup(
"Volume \"" + selectedVolume.GetName() +
"\" was loaded from multi-frame DICOM. Multi-frame DICOM is currently not supported by the Reporting module"
)
self.__volumeSelector.setCurrentNode(None)
return
# volume node is valid!
self.__vNode = selectedVolume
# update the report node
if self.__rNode != None:
self.__rNode.SetVolumeNodeID(self.__vNode.GetID())
self.__rNode.SetName('Report for Volume ' + self.__vNode.GetName())
Helper.SetBgFgVolumes(self.__vNode.GetID(), '')
Helper.RotateToVolumePlanes()
# go over all label nodes in the scene
# if there is a label that has the selected volume as associated node,
# initialize label selector to show that label
volumeNodes = slicer.mrmlScene.GetNodesByClass(
'vtkMRMLScalarVolumeNode')
volumeNodes.SetReferenceCount(volumeNodes.GetReferenceCount() - 1)
associatedLabelFound = False
for i in range(volumeNodes.GetNumberOfItems()):
vol = volumeNodes.GetItemAsObject(i)
associatedNodeID = vol.GetAttribute('AssociatedNodeID')
label = vol.GetAttribute('LabelMap')
if associatedNodeID == self.__vNode.GetID() and label == '1':
Helper.SetLabelVolume(vol.GetID())
associatedLabelFound = True
# if there is no associated label node, set the selector to none
if associatedLabelFound == False:
Helper.SetLabelVolume("")
orientation = Helper.GetScanOrderSliceName(self.__vNode)
message = "Slice viewers to be used for markup: "
for sliceViewer in orientation:
message = message + sliceViewer
if orientation.index(sliceViewer) < (len(orientation) - 1):
message = message + ", "
Helper.Debug(message)
self.__markupSliceText.text = message
# take the first one
self.__parameterNode.SetParameter('acquisitionSliceViewer',
orientation[0])
# print "Calling logic to set up hierarchy"
self.__logic.InitializeHierarchyForVolume(self.__vNode)
self.updateTreeView()
def onSegmentationNodeChanged(self):
Helper.Debug('onSegmentationNodeChanged()')
if self.__vNode == None:
Helper.Error('Should not be possible to select segmentation unless annotated volume is initialized!')
return
# get the current segmentation (label) node
sNode = self.segmentationSelector.currentNode()
if sNode == None:
self.updateWidgets()
return
# if it's a new label, it should have/will be added to the report
# automatically
image = sNode.GetImageData()
if image == None:
Helper.initializeNewLabel(sNode, self.__vNode)
else:
# if it's an existing label, we need to check that the geometry matches
# the annotated label geometry, and if so, add it to the hierarchy
volumesLogic = slicer.modules.volumes.logic()
geometryCheckString = volumesLogic.CheckForLabelVolumeValidity(self.__vNode, sNode)
if geometryCheckString != "":
newNodeAnswer = Helper.QuestionPopup('The geometry of the segmentation label you selected does not match the geometry of the volume being annotated!\nDo you want to create a new label to match the geometry, resampling data to fit?\n' + geometryCheckString)
if newNodeAnswer == True:
# create a new resampled label node from the input image
resampledSegmentationNode = volumesLogic.ResampleVolumeToReferenceVolume(sNode, self.__vNode)
# reselect it
self.segmentationSelector.setCurrentNode(resampledSegmentationNode)
# reset vars
sNode = self.segmentationSelector.currentNode()
Helper.InfoPopup('Created a new segmentation label named ' + sNode.GetName() + ' resampled from the input label map')
image = sNode.GetImageData()
else:
self.segmentationSelector.setCurrentNode(None)
self.updateWidgets()
return
# assign the color LUT we use
dNode = sNode.GetDisplayNode()
dNode.SetAndObserveColorNodeID(self.__defaultColorNode.GetID())
sNode.SetAttribute('AssociatedNodeID',self.__vNode.GetID())
self.__logic.AddNodeToReport(sNode)
# assign the volume and the selected color to the editor parameter node
Helper.SetLabelVolume(sNode.GetID())
# TODO: disable adding new label node to the hierarchy if it was added
# outside the reporting module
self.segmentationSelector.setCurrentNode(sNode)
self.__editorWidget.setMasterNode(self.__vNode)
self.__editorWidget.setMergeNode(sNode)
self.__editorParameterNode.Modified()
self.updateWidgets()
self.updateTreeView()
