Hi all, I have a segmentation node (vtkMRMLSegmentationNode) that contains several segments (in this case, they represent organs) and I would like to apply a different linear transform (computed locally to the same reference fixed volume) to each of these segments and then combine the transformed s…

After your set the parent transform you also need to harden it.

You can only apply transformation to an entire segmentation, so moving out each each segment to a separate segmentation node is the right way. If you apply a linear transform to a segmentation then hardening a transform does not need resampling. Hardening can be fully represented in change of segme…

Thanks for your answer! The problem is that the segments are not transformed when I use SetAndObserveTransformNodeID #create the output/merged transformed segmentation node that will contain all transformed segments outputTransformedSegmentationNode = slicer.vtkMRMLSegmentationNode() outputTransfo…

Thanks, works great! One last thing : I iterate through the segments of the input segmentation node and apply the strategy described above, and both the input segmentation node and the output segmentation node (both containing all segments) are transformed at last. how can I keep the input segmenta…

[image] Eloise: how can I keep the input segmentation node the same (and prevent the transformation of the segments it contains) ? Keep the original segmentation node as is (untransformed), and move back all transformed segments back to this segmentation node.

I made a deep copy of the segments before applying the transformation to their segmentation nodes, in order to put them back untransformed in the original merged segmentation node and it works. Thanks a lot for your answers.

Good Morning, I found this topic very helpful. I just have one question regarding segment selector widget of my python module. The code line to add the segment to the new segmentation node (organSegmentationNode.GetSegmentation().AddSegment(organSegment)) makes the selector widget to return to the…

[image] marianaslicer: The code line to add the segment to the new segmentation node ( organSegmentationNode.GetSegmentation().AddSegment(organSegment) ) makes the selector widget to return to the first segment of the segmentation. This is a bug, I’ve entered a bug report - qMRMLSegmentSelect…

Thank you for your response and for report the bug! I will follow your advice.

Hi Andras, I noticed that the bug was fixed, but I am having exactly the same problem. I tried to used the setCurrentNodeID and setCurrentSegmentID of the SegmentSelectorWidget in order to maintain the segmentID after add the segment to the new segmentationNode but without success. Any idea why th…

You need to use the latest Slicer Preview Release. I’ve tested it and it works well for me, selection in the widget is preserved when new segment is added.

Transform single segment in python module

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Transform single segment in python module

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