How to get segmentationNode from segment name

Support
1

I was wondering how to get the segmentationNode from segment name.

With version 4.5.0, I was using the subject hierarchy function:
modelLogic = slicer.vtkSlicerSegmentationsModuleLogic()
segmentSH = slicer.util.getNode(segmentName)
segmentationNode=modelLogic.GetSegmentationNodeForSegmentSubjectHierarchyNode(segmentSH)

But with version 4.10.1, subject hierarchy doesn’t seem to exist anymore?

Thanks!

2

Subject hierarchy has been completely reimplemented since that version. This specific operation is not obvious in the new system, but here is how you can do it:

itemName = 'What you are looking for'
shn = slicer.vtkMRMLSubjectHierarchyNode.GetSubjectHierarchyNode(slicer.mrmlScene)
sc = shn.GetSceneItemID()
items = vtk.vtkIdList()
shn.GetItemChildren(sc, items, True)
for i in xrange(items.GetNumberOfIds()):
  name = shn.GetItemName(items.GetId(i))
  if name == itemName:
    foundItem = items.GetId(i)
    break
parentItem = shn.GetItemParent(foundItem)
parentNode = shn.GetItemDataNode(parentItem)
3

Thanks!

But it doesn’t seem to work for if there is more than one segmentation.

What I want to do is : from segments (DICOM RTstruct), with the slicerRT extension, I do bool. operation -intersection/expansion - of segments in new segmentation and I want to get the segmentation node for all the segments (original and newly created in new segmentation) based on their segment name.

For example:
‘structure1’ -> vtkMRMLSegmentationNode1
‘Expanded_5_5_5_structure1’ -> vtkMRMLSegmentationNode2

Hope it’s clear & possible !

4

The script works for any scene content as long as itemName is unique, or the first result is a segment.