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loli avatar loli commented on May 23, 2024

This bug stems of using DICOM images as inputs. Both PyDidcom and the ITK Wrapper do not support adding an additional dimension to an header or creating a new header form a numpy ndarray.

I modified the script to include a warning of this in the description and to throw an error when using dicom images as input.

For now I suggest avoiding the -s parameter and instead set the voxel spacing manually afterwards using medpy_set_voxel_spacing.py.

Best,
loli

from medpy.

loli avatar loli commented on May 23, 2024

Another workaround
Convert your first image to NIfTI format

medpy_convert.py 01.dcm 01.nii.gz

then call the script again with just the first image switched

medpy_join_xd_to_xplus1d.py ~/combined.nii.gz 01.nii.gz 02.dcm 03.dcm 04.dcm 05.dcm 06.dcm 07.dcm 08.dcm 09.dcm 10.dcm -s0.2 -v

which will (magically :P) work.

from medpy.

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