Use ANTsRegistration Extension 's QuickSyN get error

Development
1

Hello,

I’m trying to register two volumes using the AntsRegistration plugin. I’ve had no issues when using the Rigid and Affine+Rigid modes in ANTs. However, I consistently encounter an error when attempting to use QuickSyN. The error message is as follows:
"
WARNING: In C:\D\P\S-0-build\ITK\Modules\Core\Common\include\itkImageBase.hxx, line 87

Image (000001CB03ED4C70): Negative spacing is not supported and may result in undefined behavior.

Proceeding to set spacing to [-inf, 0.0358951]

C:\D\P\S-0-build\ITK\Modules\ThirdParty\VNL\src\vxl\core\vnl/algo/vnl_svd.hxx: suspicious return value (2) from SVDC

C:\D\P\S-0-build\ITK\Modules\ThirdParty\VNL\src\vxl\core\vnl/algo/vnl_svd.hxx: M is 2x2

M = [ …

-inf 0

-nan(ind) 0.0358951193547 ]
"

I’ve spent a considerable amount of time trying to resolve this, including adjusting convergence parameters and shrink factor parameters, but I haven’t been able to get past it. I suspect I might be doing something incorrectly, but I’m completely stuck.

Could anyone please offer some assistance?

2

What are the spacing of your input images (both reference and moving)? The error is related to a nonsensical spacing. Also I am also seeing two dimensions? Are these 2D images you are trying to register?

3

thank you for your replying, the fixed image and the moving image 's spaces are 0.1852mm and 0.1774mm

the full command is
[VTK] E:/D/SR/Slicer-build/slicer.org/Extensions-33563/SlicerANTs/lib/Slicer-5.9/cli-modules/antsRegistrationCLI.exe --antsCommand --dimensionality 3 --use-histogram-matching 0 --winsorize-image-intensities [0.005,0.995] --float $useFloat --verbose 1 --interpolation Linear --output [$outputBase,$outputVolume] --write-composite-transform 1 --collapse-output-transforms 1 --transform Rigid[0.1] --metric MI[$inputVolume01,$inputVolume02,1,32,Regular,0.25] --convergence [1000x500x250x1,1e-6,10] --smoothing-sigmas 4x3x2x1vox --shrink-factors 12x8x4x2 --transform Affine[0.1] --metric MI[$inputVolume01,$inputVolume02,1,32,Regular,0.25] --convergence [1000x500x250x0,1e-6,10] --smoothing-sigmas 4x3x2x1vox --shrink-factors 12x8x4x2 --transform SyN[0.1,3,0] --metric MI[$inputVolume01,$inputVolume02,1,32,Regular,0.25] --convergence [100x100x70x50x0,1e-6,10] --smoothing-sigmas 5x3x2x1x0vox --shrink-factors 10x6x4x2x1 --inputVolume01 C:/Users/Administrator/AppData/Local/Temp/Slicer/BDDHG_vtkMRMLScalarVolumeNodeB.nrrd --inputVolume02 C:/Users/Administrator/AppData/Local/Temp/Slicer/BDDHG_vtkMRMLScalarVolumeNodeC.nrrd --outputVolume C:/Users/Administrator/AppData/Local/Temp/Slicer/BDDHG_vtkMRMLScalarVolumeNodeD.nrrd --outputCompositeTransform C:/Users/Administrator/AppData/Local/Temp/Slicer/BDDHG_vtkMRMLTransformNodeBComposite.h5 --useFloat

[VTK] Zero-valued spacing is not supported and may result in undefined behavior.

[VTK] Refusing to change spacing from [1, 1] to [0.0358338, 0]

[VTK]

[VTK]

[VTK] antsRegistrationCLI completed with errors

4

Given that these looks like 2D images, you will probably better of trying to run the registration directly from ANTs (e.g., ANTsPy), instead of Slicer. I don’t think if anybody tested antsRegistration implementation in Slicer with 2D data (since we all work with 3D).