Hi, I’m having difficulty making BedpostX work on non-tutorial data per the tutorial located here: https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/RunningTracula <https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/RunningTracula>
The preprocessing has worked without errors, but now that I’m using BedpostX,
the output is producing:
subjectdir is {subject's directory}/dmri
Making bedpostx directory structure
Queuing preprocessing stages
Queuing parallel processing stage
0 slices processed
Queuing post processing stage
Obviously, it shouldn’t be going straight from 0 slices processed to the post
processing stage. I’m running the command directly (i.e. bedpostx {subject's
directory}/dmri ), and when the process is done ( it ends in 25 seconds) the
dmri folder has files that are in the format data_slice_00**.nii.gz and
nodif_brain_mask_slice_00**.nii.gz.
I’ve also tried running the command: trac-all -bedp -c
$TUTORIAL_DATA/diffusion_tutorial/dmrirc.tutorial on a cluster, which produces
the same output.
Has anyone else had this issue?
Thanks for any help,
Anna
smime.p7s
Description: S/MIME cryptographic signature
_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
