Segment Editor functions don't work past specific slice in DICOM series

[Otoco]

Hello all,

I’ve been spending the last few weeks segmenting skull bones using CT skull DICOMs for research purposes. I got a fantastic solution with the help of the users of this forum last time - my current problem is a little bit simpler.

On this specific DICOM series, when I use the segment editor the functions stop working after a specific image in the axial series. Threshold indicates that it wants to fill in the entire series but when I run the function, it is only partially filled. Manually painting the volume at any image in the unresponsive section doesn’t work either. I have no annotations currently active and never cropped the volume to begin with. Couldn’t find a thread with an equivalent problem after searching, so posting it here.

Screens:

Here you can see that the threshold I did stopped at a specific axial slice.

This is the preview when I am applying a threshold to my segment - you can clearly see the problematic sections are included and this is true for the entire series.

My attempt at painting above the problematic slice - didn’t change anything.

Volume information if this helps - it’s a solid volumetric scan but not anything out of the ordinary.

Any help would be appreciated! Thank you all so much.

[lassoan (Andras Lasso)]

You can only paint within the extent of the “binary labelmap representation”. You can specify a larger extent by selecting a different node (e.g., the volume that contains the complete skull) and use it as source geometry (see some more information here).

[pieper (Steve Pieper (Isomics, Inc.))]

You probably have the same issue as this thread:

Uneven slice thickness

Any Solution for this?? [image]

See this info: Documentation/Nightly/FAQ/DICOM - Slicer Wiki

[Otoco]

this was the one! the node somehow was switched to a smaller view, redefining the source geometry fixed it. Thank you so much!