Nathan,
I've run into problems like these before when the fsaverage directory is read only. This may be behind your "permission denied" error. Perhaps try to deconstruct the annotation file into your subjects_dir and do the bbregister command on your label of interest from there - or just copy the annotation to your subjects_dir...
Cheers
On Mon, May 12, 2014 at 1:34 PM, Nathan Hutcheson nhutche@gmail.com wrote:
Hello,
I am trying to use bbrestier to take an .annot file of a particular structure and register it to MNI space. I want to be able to use one of the FreeSurfer parcellations of the ACC (lh.caudalanteriorcingulate.label) and do a fMRI BOLD extraction in FSL in MNI space. Below is the command I used and the error message I am getting. Please let me know if what I am doing makes any sense or if I am way off base.
Input
bbregister --s fsaverage --mov /u/home/n/nhutche/temp/labels/lh.caudalanteriorcingulate.label --t1 --init-fsl --reg register.dat
Output
mkdir: cannot create directory `./tmp.bbregister.6489': Permission denied
Log file is register.dat.log
register.dat.log: Permission denied.
Take care, Dr. Nathan Hutcheson Postdoctoral Researcher University of California Los Angeles Semel Institute 760 Westwood Plaza C8-202 Los Angeles, CA 90024 T: 770.841.1694 nathanhutcheson.com http://www.linkedin.com/pub/nathan-hutcheson/3a/7a8/a46
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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