[Whiiz]

Hello all,
i have a similar issue than other people but the fixes that work for them don’t work for me.
After entering the command:

“C:\Program Files\BrainSuite21a\bdp\bdp.exe” “C:\Users\nicad\Desktop\PHD\MRT_2022_04_12\Series-8\Nifti\DCM_2_NIfTI.bfc.nii.gz” –tensor –FRACT –nii “C:\Users\nicad\Desktop\PHD\MRT_2022_04_12\Series-8\Nifti\DWI.nii” -g “C:\Users\nicad\Desktop\PHD\MRT_2022_04_12\Series-8\Nifti\DWI.bvec” -b “C:\Users\nicad\Desktop\PHD\MRT_2022_04_12\Series-8\Nifti\DWI.bval” –generate-stats

I recieve the following prompt multiple times:

Warning: check this case.
> In register_volumes_affine>my_normalized_mutual_information (line 611)
In register_volumes_affine>error_affine_reg (line 501)
In register_volumes_affine>error_grad_affine_reg (line 470)
In register_volumes_affine>error_grad_affine_reg (line 483)
In register_volumes_affine>@(x)error_grad_affine_reg(x,scale,Imoving_small,Istatic_small,mask_moving_small,mask_static_small,reg_options) (line 409)
In gradient_descent_backtrack (line 63)
In register_volumes_affine (line 408)
In register_files_affine (line 451)
In EPI_correct_files_registration_INVERSION (line 109)
In coregister_diffusion_mprage_pipeline (line 219)
In BrainSuite_Diffusion_pipeline (line 26)
Warning: The KEYBOARD function cannot be used in compiled applications.
> In keyboard (line 4)
In register_volumes_affine>my_normalized_mutual_information (line 612)
In register_volumes_affine>error_affine_reg (line 501)
In register_volumes_affine>error_grad_affine_reg (line 470)
In register_volumes_affine>error_grad_affine_reg (line 483)
In register_volumes_affine>@(x)error_grad_affine_reg(x,scale,Imoving_small,Istatic_small,mask_moving_small,mask_static_small,reg_options) (line 409)
In gradient_descent_backtrack (line 63)
In register_volumes_affine (line 408)
In register_files_affine (line 451)
In EPI_correct_files_registration_INVERSION (line 109)
In coregister_diffusion_mprage_pipeline (line 219)
In BrainSuite_Diffusion_pipeline (line 26)

Saving output files…

Rigid registration done.

Setting up data for non-rigid registration based distortion correction…
Correcting intensity non-uniformity in b=0 image…Index exceeds the number of array elements (0).

Error in find_bounding_box (line 16)

Error in EPI_correct_files_registration_INVERSION>trim_msk_PED (line 513)

Error in EPI_correct_files_registration_INVERSION (line 271)

Error in coregister_diffusion_mprage_pipeline (line 219)

Error in BrainSuite_Diffusion_pipeline (line 26)

MATLAB:badsubscript

I tried including the dwi-mask and t1-mask to no avail. For other data the BDP works just fine.

All help welcome,
kind regards,

Adrien

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