Dear experts,
It’s my first time using mrtrix3 and when ı use the command dwifslpreproc sub-02_den.mif sub-02_den_preproc.mif -nocleanup -pe_dir AP -rpe_pair -se_epi b0_pair.mif -eddy_options " --slm=linear --data_is_shelled" at preprocess step it gives an error.
miray@LAPTOP-LM7VCMB5:/mnt/c/Users/Lenovo/Downloads/Yeni klasör/sub-CON02/ses-preop/dwi$ dwifslpreproc sub-02_den.mif sub-02_den_preproc.mif -nocleanup -pe_dir AP -rpe_pair -se_epi b0_pair.mif -eddy_options " --slm=linear --data_is_shelled"
dwifslpreproc:
dwifslpreproc: Note that this script makes use of commands / algorithms that have relevant articles for citation; INCLUDING FROM EXTERNAL SOFTWARE PACKAGES. Please consult the help page (-help option) for more information.
dwifslpreproc:
dwifslpreproc: [ERROR] Could not find necessary default config file for FSL topup command (expected location: /usr/local/fsl/etc/flirtsch/b02b0.cnf). ın the bash part ı have
-------- freesurfer-linux-ubuntu20_x86_64-7.4.1-20230614-7eb8460 --------
Setting up environment for FreeSurfer/FS-FAST (and FSL)
FREESURFER_HOME /usr/local/freesurfer/7.4.1
FSFAST_HOME /usr/local/freesurfer/7.4.1/fsfast
FSF_OUTPUT_FORMAT nii.gz
SUBJECTS_DIR /usr/local/freesurfer/7.4.1/subjects
MNI_DIR /usr/local/freesurfer/7.4.1/mni
FSL_DIR /usr/local/fsl but I could not solve the problem. Is there a way to fix this? thank you