The binary labelmap is cropped after using the batchprocessing. about slicerrt HOT 5 CLOSED

Have you tried using a reference image?
See https://github.com/SlicerRt/SlicerRT/blob/master/BatchProcessing/_readme.txt#L9

from slicerrt.

Have you tried using a reference image?
See https://github.com/SlicerRt/SlicerRT/blob/master/BatchProcessing/_readme.txt#L9

I have already add flag -u into my script, but the .nii file at the end just have only 1 frame (the width and the height is 512x512). Can you have me to deal with that problem, sir?

from slicerrt.

@cpinter I see the volumn of refVolumn, and it has only 1 frame. I think that is the reason why when I activate flag -u, the final nii file have only 1 frame.
My input folder is contain all of DCM file and DCM RT file, is this the reason?

from slicerrt.

If you use a DICOM volume with one slice per volume, then you either need to make sure that all the slices are in the same folder as the RTSS file, or you need to specify the folder in which they are, see here.

from slicerrt.

@cpinter My folder contains of all dicom image (per slice) with the prefix MR and a dicom rt with the prefix RS. You can see in the picture. How can I format it? https://ibb.co/vdVZyNX

from slicerrt.