[ITK-users] RT Structure Files Have Negative Indexes

[Jason.Dowling at csiro.au]

Hi Jared,

That's a bit strange.  If you are able, feel free to send me the DICOM-RT files privately to test (and also let me know which TPS these contours were exported from?).  If Slicer (or Plastimatch) extract the contours correctly could you also please let me know?

All the best,
Jason



From: Andras Lasso [mailto:lasso at queensu.ca]
Sent: Tuesday, 15 December 2015 2:59 AM
To: Becksfort, Jared <Jared.Becksfort at STJUDE.ORG>; insight-users at itk.org; Dowling, Jason (H&B, Herston - RBWH) <Jason.Dowling at csiro.au>
Subject: RE: RT Structure Files Have Negative Indexes

You might also use 3D Slicer with SlicerRT extension (www.slicerrt.org<http://www.slicerrt.org>) to import all kinds of RT data - including structure sets - and save them as binary label maps or surfaces that are easy to load using ITK.

Andras

From: Community [mailto:community-bounces at itk.org] On Behalf Of Becksfort, Jared
Sent: Monday, December 14, 2015 1:49 AM
To: insight-users at itk.org<mailto:insight-users at itk.org>; Jason.Dowling at csiro.au<mailto:Jason.Dowling at csiro.au>
Subject: [ITK] [ITK-users] RT Structure Files Have Negative Indexes


Hello,



I am trying to extract RT structure files into Niftii maps using the program found at http://www.insight-journal.org/browse/publication/887.



I have compiled it, and it runs successfully with the test data, yielding correct masks.  I then tried to run it on data given to me by a colleague.  The output shows there are some negative slice indexes such as:



Inserting region with 551 points into slice: -122


It also complains about contour points being outside the boundary, probably due to the negative indexes.



I am attaching the output.  I am not completely sure I can attach the RT file yet, as it is actual patient data.  I can find out and do so if that helps.  I don't know anything about RT structure files yet.  Does anyone have ideas of what I can tell my colleague who generated the files?



Thanks,

Jared

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