Can you please help me run autoPtx_1_preproc properly?
I have my data in the same structure I did for bedpostX
My autoptx folder contains a folder for each subject and within each subject's folder are 4 items: data.nii.gz (DWI image) nodif_brain_mask.nii.gz bvecs bvals
When I run my script to run autoPtx I have the command
The preproc folder was created but nothing was run. Is there a problem with the names of my inputs? My subjects folders are named SB001 SB002 SB003 etc. and when I run the script I input SB001 (etc) for n. Is that correct?
Thank you for your help!