Hi there,
I am trying to run reg-feat2anat and having a bit of an odd problem. It runs
but doesn't produce a anat2exf.register.dat. If I look at the
anat2exf.register.dat.fslregister.log file I see right at the beginning it fail
with:
/data/results/genDIS
mri_convert ERROR: could not determine file for
/data/freesurfer_recons/HierGENDIS/WaisgenDIS600/mri/ERROR:
/data/results/genDIS/WaisgenDIS600/gendistask_full_search.feat/reg/freesurfer/tmp/refvol.fslregister.nii
mri_convert ERROR: could not determine file for
/data/freesurfer_recons/HierGENDIS/WaisgenDIS600/mri/ERROR:
/data/results/genDIS/WaisgenDIS600/gendistask_full_search.feat/reg/freesurfer/tmp/refvol.fslregister.nii
mri_convert: extra arguments ("not" and following)
type mri_convert -u for usage
This is running on a SGE cluster using Ubuntu 12.04.1, FreeSurfer 5.3 and FSL
5.0.4 which made me think it is is similar to Sal's problem recently. So I
added "set fsvol = brainmask" and that seems to have fixed it. Is there a
different fix I can make to solve this?
Cheers,
-Morgan
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