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ENH: Improve fast marching preview setup #64

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679ff3f
ENH: Implement deactivate() for fast marching
ThomasKierski Sep 18, 2025
4764029
ENH: Improve fast marching preview setup
ThomasKierski Sep 22, 2025
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44 changes: 29 additions & 15 deletions SegmentEditorFastMarching/SegmentEditorFastMarchingLib/SegmentEditorEffect.py
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Original file line number Diff line number Diff line change
Expand Up @@ -2,6 +2,8 @@
import vtk, qt, ctk, slicer
import logging
from SegmentEditorEffects import *
import vtkSegmentationCorePython as vtkSegmentationCore


class SegmentEditorEffect(AbstractScriptedSegmentEditorEffect):
"""This effect uses FastMarching algorithm to partition the input volume"""
Expand All @@ -15,6 +17,7 @@ def __init__(self, scriptedEffect):
self.fm = None
self.totalNumberOfVoxels = 0
self.voxelVolume = 0
self.previewSegmentationNode = None

def clone(self):
# It should not be necessary to modify this method
Expand Down Expand Up @@ -127,7 +130,6 @@ def fastMarching(self,percentMax):
self.fm = None

# Get source volume image data
import vtkSegmentationCorePython as vtkSegmentationCore
sourceImageData = self.scriptedEffect.sourceVolumeImageData()
# Get segmentation
segmentationNode = self.scriptedEffect.parameterSetNode().GetSegmentationNode()
Expand Down Expand Up @@ -232,45 +234,57 @@ def fastMarching(self,percentMax):

logging.info('FastMarching march update completed')

def initializePreviewNode(self):
segmentationNode = self.scriptedEffect.parameterSetNode().GetSegmentationNode()
if self.previewSegmentationNode is None:
self.previewSegmentationNode = slicer.mrmlScene.AddNewNodeByClass("vtkMRMLSegmentationNode")
self.previewSegmentationNode.SetName("Segmentation preview")
self.previewSegmentationNode.CreateDefaultDisplayNodes()
self.previewSegmentationNode.GetDisplayNode().SetVisibility2DOutline(False)
self.previewSegmentationNode.GetDisplayNode().SetOpacity(0.6)
if segmentationNode.GetParentTransformNode():
self.previewSegmentationNode.SetAndObserveTransformNodeID(segmentationNode.GetParentTransformNode().GetID())
newSegment = vtkSegmentationCore.vtkSegment()
currentSegment = segmentationNode.GetSegmentation().GetSegment(self.selectedSegmentId)
newSegment.SetColor(currentSegment.GetColor())
self.previewSegmentationNode.GetSegmentation().AddSegment(newSegment, self.selectedSegmentId)

def updateLabel(self,value):
if self.previewSegmentationNode is None:
self.initializePreviewNode()

if not self.fm:
return

self.fm.show(value)
self.fm.Modified()
self.fm.Update()

import vtkSegmentationCorePython as vtkSegmentationCore
newSegmentLabelmap = vtkSegmentationCore.vtkOrientedImageData()
newSegmentLabelmap.ShallowCopy(self.fm.GetOutput())
newSegmentLabelmap.CopyDirections(self.originalSelectedSegmentLabelmap)

segmentationNode = self.scriptedEffect.parameterSetNode().GetSegmentationNode()
slicer.vtkSlicerSegmentationsModuleLogic.SetBinaryLabelmapToSegment(newSegmentLabelmap, segmentationNode, self.selectedSegmentId, slicer.vtkSlicerSegmentationsModuleLogic.MODE_REPLACE, newSegmentLabelmap.GetExtent())
slicer.vtkSlicerSegmentationsModuleLogic.SetBinaryLabelmapToSegment(newSegmentLabelmap, self.previewSegmentationNode, self.selectedSegmentId, slicer.vtkSlicerSegmentationsModuleLogic.MODE_REPLACE, newSegmentLabelmap.GetExtent())

def reset(self):

# If original segment is available then restore that
if self.originalSelectedSegmentLabelmap:
import vtkSegmentationCorePython as vtkSegmentationCore
segmentationNode = self.scriptedEffect.parameterSetNode().GetSegmentationNode()
slicer.vtkSlicerSegmentationsModuleLogic.SetBinaryLabelmapToSegment(self.originalSelectedSegmentLabelmap, segmentationNode, self.selectedSegmentId, slicer.vtkSlicerSegmentationsModuleLogic.MODE_REPLACE, self.originalSelectedSegmentLabelmap.GetExtent())

if self.previewSegmentationNode is not None:
slicer.mrmlScene.RemoveNode(self.previewSegmentationNode)
self.previewSegmentationNode = None
self.originalSelectedSegmentLabelmap = None
self.selectedSegmentId = None
self.fm = None

self.updateGUIFromMRML()

def deactivate(self):
self.reset()

def onCancel(self):
self.reset()

def onApply(self):
# Apply changes
import vtkSegmentationCorePython as vtkSegmentationCore
segmentationNode = self.scriptedEffect.parameterSetNode().GetSegmentationNode()
modifierLabelmap = vtkSegmentationCore.vtkOrientedImageData()
segmentationNode.GetBinaryLabelmapRepresentation(self.selectedSegmentId, modifierLabelmap)
self.previewSegmentationNode.GetBinaryLabelmapRepresentation(self.selectedSegmentId, modifierLabelmap)
self.scriptedEffect.modifySelectedSegmentByLabelmap(modifierLabelmap, slicer.qSlicerSegmentEditorAbstractEffect.ModificationModeSet)
self.originalSelectedSegmentLabelmap = None

Expand Down
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