DICOMs may save each slice or each volume separately. This is not a problem per se, it's just a format, but it suggests that something may have changed in the protocol, which begs the question if other things changed in the protocol. I'd start by checking the converted nifti (dmri/dwi.nii.gz) to see if it's different than the others in an obvious way, then checking the gradient table (dmri/bvecs) and b-value table (dmri/bvals) to see if each of them has as many lines as volumes in the nifti. ________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Zeng, Qi qi.zeng@icahn.mssm.edu Sent: Wednesday, May 13, 2020 7:36 PM To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] trac-all prep error
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Hi,
I have an error message when processing trac-all prep. attached the log file. error: "terminate called after throwing an instance of 'std::logic_error' what(): Mat::operator(): index out of bounds"
Recon-all was finished without error. However, my raw DTI DCM file is 120 compared to others with over 2000 slices. Would that be a problem?
Best, Qi
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Ph.D. candidate Icahn School of Medicine at Mount Sinai