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I want Susceptibility Weighted and T1 weighted MRI scans for neurological disorder. Any help how we can get the data. Please help us out.
On Sat, 17 Jul 2021, 3:29 pm AmirHussein Abdolalizadeh, < amirhussein.a@gmail.com> wrote:
External Email - Use CautionDear FreeSufer users/experts,
I am trying to do TRACULA (FS 7.1.1) on a subject with b = 0,1000 in 60 directions. The preprocessing steps of denoising, bias-field, eddy/motion correction were done using MRtrix (in .mif format) and their outputs are converted into .nii, .bvec, and .bval. I changed the dmrirc.example into the attached file to omit the associated preprocessing steps.
Running the trac-all -prep -c dmrirc.pilot results in an error right at the beginning:
reading info from /<a long path!>/AnalyzeDWI/pilot/dmri/dwi_orig_las.1.nii.gz... error: niiRead(): error opening file /<path>/AnalyzeDWI/pilot/dmri/dwi_orig_las.1.nii.gz
It is not present in the output folder.
Interestingly, this file is generated a few lines above and then renamed into dwi_orig_las and then into dwi.nii.gz: mv -f /<path>/AnalyzeDWI/pilot/dmri/dwi_orig_las.1.nii.gz /<path>/AnalyzeDWI/pilot/dmri/dwi_orig_las.nii.gz A few lines later: mv -f /<path>/AnalyzeDWI/pilot/dmri/dwi_orig_las.nii.gz /<path>/AnalyzeDWI/pilot/dmri/dwi.nii.gz Thus, my guess is due to this renames it cannot find it.
Any help is appreciated.
Bests, Amir
p.s. the MRtrix-preprocessed file is itself LAS: orientLAS /<path>/AnalyzeDWI/pilot/dmri/dwi_orig.1.nii.gz /<path>/AnalyzeDWI/pilot/dmri/dwi_orig_las.1.nii.gz INFO: input image orientation is LAS INFO: input image determinant is -8
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