[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

[peolsolutions]

The bad subscript error occurs in MATLAB when an array element is accessed with an invalid index. The most common causes are using indices that exceed the array size, referencing non-integer values, or working with empty arrays. The process of debugging involves checking array dimensions, verifying indices, and verifying size() or length().

[Author]

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