Synb0-disco error: Image Exception : #75

1

Hi Everyone,

I am trying to run Snyb0-disco and am encountering the following error, does anyone have any idea how to resolve this?

Skull stripping T1
bet /INPUTS/T1.nii.gz /tmp/tmp.2mt3dWD5dv/T1_mask.nii.gz -R
-------
epi_reg distorted b0 to T1

epi_reg --epi=/INPUTS/b0.nii.gz --t1=/INPUTS/T1.nii.gz --t1brain=/tmp/tmp.2mt3dWD5dv/T1_mask.nii.gz --out=/tmp/tmp.2mt3dWD5dv/epi_reg_d

Running FAST segmentation
FLIRT pre-alignment
Running BBR

Image Exception : #75 :: 3D only method called by higher-dimensional volume.
3D only method called by higher-dimensional volume.

Could not open matrix file /tmp/tmp.2mt3dWD5dv/epi_reg_d.mat

/extra/fsl/bin/epi_reg: line 399: 85972 Segmentation fault      $FSLDIR/bin/applywarp -i ${vepi} -r ${vrefhead} -o ${vout} --premat=${vout}.mat --interp=spline

Cheers

2

This is not related to MRtrix3 but I’d make sure /INPUTS/T1.nii.gz and /INPUTS/b0.nii.gz are 3D images. You can use mrconvert <in> -axes 0,1,2 -coord 3 0 <out> to extract the first volume.