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Maniphest T19652

Segmentation: Add-Tool contouring on specific data sets fails on rotated planes.
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Authored By
• engelhsa
Apr 6 2016, 2:49 PM
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Referenced Files
F1314: imagemask.png
Apr 13 2016, 2:55 PM
F1313: contour.png
Apr 13 2016, 2:54 PM
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• engelhsa
kislinsk

Description

Segmentation on rotated sliced does not work for specific datasets :

e.g.

3M3 Demodaten:
.../Organsegmentierung (Daniel M.)/WholeBody.pic.gz
.../Organsegmentierung (Daniel M.)/DataSet_Heart_Diastole.pic
.../Registrierung ( Daniel S. )/Organsegmentierung (Daniel M.)/DataSet_Heart_Systole.pic

Steps to reproduce:

  1. Load any of the mentioned figures
  2. Make a segmentation with the Add-Tool on a rotated slice

Result: Either no contour is shown on the respective slice or the contour is heavily misplaced.

I assume that actually all MR data sets in the folder are affected. Maybe the data sets have a strange geometry?

I tested older versions of mitk (2014.10) and it didn't work there as well, so it seems to be a very old bug.

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Event Timeline

• engelhsa added projects: MITK, Bugzilla.Apr 6 2016, 2:49 PM
• engelhsa added a subscriber: • engelhsa.Apr 13 2016, 2:54 PM

contour screenshot

contour.png (540×604 px, 24 KB)

• engelhsa added a comment.Apr 13 2016, 2:55 PM

image mask screenshot

imagemask.png (537×601 px, 23 KB)

• engelhsa added a comment.Apr 13 2016, 2:56 PM

Just for documentation:
Hongzhi Lan, hongzhi@standford.edu, reported a related issue on the MITK Mailing List on 6th April 2016:

I created a group planegeometries with different orientations (so, not evenly spaced) in a slicedgeometry3d, and used it to update the SliceNavigationController for one of the renderwindows in QmitkStdMultiWidget. Now I can get correct reslices for the image, but when I tried to use MITK segmentation tools on a reslice, the contour drawn was at right location, but when it was converted to binary image in 3D volume, the image mask shifted to a different location and had different sizes (see attachment). I was wondering what the reason could be. During the converting from contour to image mask, the display geometry was used. I guess the cause might be from display geometry. But since the image reslices were correct to me, it seemed the display geometry was ok.

+ See attached screenshots

kislinsk edited projects, added MITK (2016-11); removed MITK.Aug 1 2016, 10:49 PM
• goch triaged this task as Low priority.Aug 9 2016, 11:29 AM
kislinsk edited projects, added MITK; removed MITK (2016-11).Feb 6 2017, 11:23 AM
kislinsk mentioned this in T24071: Revisit 2-d image rendering.Jan 18 2018, 12:04 PM
kislinsk added a subtask: T24071: Revisit 2-d image rendering.Jan 18 2018, 1:47 PM
kislinsk closed this task as Wontfix.Oct 14 2021, 11:38 AM
kislinsk added a subscriber: kislinsk.

Hi there! 🙂

This task was auto-closed according to our Task Lifecycle Management.
Please follow this link for more information and don't forget that you are encouraged to reasonable re-open tasks to revive them. 🚑

Best wishes,
The MITK devs

kislinsk closed subtask T24071: Revisit 2-d image rendering as Wontfix.Sep 9 2022, 10:22 AM
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