Hi Freesurfer,
Sorry about reposting this email from earlier:
I can't seem to get the TRACULA in the dev version of FS6 to run.
mv -f
/Users/MacPro/Documents/NIMROD_DTI/SUBJECT/dmri/dwi_orig_flip.mghdti.bvecs
/Users/MacPro/Documents/NIMROD_DTI/SUBJECT/dmri/bvecs
mv: rename
/Users/MacPro/Documents/NIMROD_DTI/SUBJECT/dmri/dwi_orig_flip.mghdti.bvecs
to /Users/MacPro/Documents/NIMROD_DTI/SUBJECT/dmri/bvecs: No such file or
directory
The contents of that folder are: dwi_orig.mghdti.bvals dwi_orig.mghdti.bvecs
dwi_orig.nii.gz dwi_orig_flip.nii.gz xfms
The full error message is enclosed with this email.
Thanks!
Best Wishes,
Elijah
$Id: trac-preproc,v 1.51.2.1 2015/10/06 02:40:20 zkaufman Exp $
--
dhcp-10-240-197-124:NIMROD_DTI MacPro$ trac-all -prep -c tracula -no-isrunning
INFO: SUBJECTS_DIR is /Users/MacPro/Documents/NIMROD_DTI
INFO: Diffusion root is /Users/MacPro/Documents/NIMROD_DTI
Actual FREESURFER_HOME /Applications/freesurfer6beta
trac-preproc -c
/Users/MacPro/Documents/NIMROD_DTI/FS6_16084_MPRAGE_Neuro.nii/scripts/dmrirc.local
-log
/Users/MacPro/Documents/NIMROD_DTI/FS6_16084_MPRAGE_Neuro.nii/scripts/trac-all.log
-cmd
/Users/MacPro/Documents/NIMROD_DTI/FS6_16084_MPRAGE_Neuro.nii/scripts/trac-all.cmd
-no-isrunning
#-
/Applications/freesurfer6beta/bin/trac-preproc
#-
#@# Image corrections Fri Apr 15 17:44:30 BST 2016
mri_convert /Users/MacPro/Documents/NIMROD_DTI/16084.nii.gz
/Users/MacPro/Documents/NIMROD_DTI/FS6_16084_MPRAGE_Neuro.nii/dmri/dwi_orig.nii.gz
mri_convert /Users/MacPro/Documents/NIMROD_DTI/16084.nii.gz
/Users/MacPro/Documents/NIMROD_DTI/FS6_16084_MPRAGE_Neuro.nii/dmri/dwi_orig.nii.gz
$Id: mri_convert.c,v 1.221.2.2 2015/10/02 16:39:36 zkaufman Exp $
reading from /Users/MacPro/Documents/NIMROD_DTI/16084.nii.gz...
TR=11700.00, TE=0.00, TI=0.00, flip angle=0.00
i_ras = (-0.998406, -0.0447105, -0.0344521)
j_ras = (-0.0435914, 0.998518, -0.0325768)
k_ras = (-0.0358576, 0.0310231, 0.998875)
writing to
/Users/MacPro/Documents/NIMROD_DTI/FS6_16084_MPRAGE_Neuro.nii/dmri/dwi_orig.nii.gz...
cp 16084.bvec
/Users/MacPro/Documents/NIMROD_DTI/FS6_16084_MPRAGE_Neuro.nii/dmri/dwi_orig.mghdti.bvecs
cp 16084.bval
/Users/MacPro/Documents/NIMROD_DTI/FS6_16084_MPRAGE_Neuro.nii/dmri/dwi_orig.mghdti.bvals
mv -f
/Users/MacPro/Documents/NIMROD_DTI/FS6_16084_MPRAGE_Neuro.nii/dmri/bvecs.tmp
/Users/MacPro/Documents/NIMROD_DTI/FS6_16084_MPRAGE_Neuro.nii/dmri/dwi_orig.mghdti.bvecs
mv -f
/Users/MacPro/Documents/NIMROD_DTI/FS6_16084_MPRAGE_Neuro.nii/dmri/bvals.tmp
/Users/MacPro/Documents/NIMROD_DTI/FS6_16084_MPRAGE_Neuro.nii/dmri/dwi_orig.mghdti.bvals
flip4fsl
/Users/MacPro/Documents/NIMROD_DTI/FS6_16084_MPRAGE_Neuro.nii/dmri/dwi_orig.nii.gz
/Users/MacPro/Documents/NIMROD_DTI/FS6_16084_MPRAGE_Neuro.nii/dmri/dwi_orig_flip.nii.gz
INFO: input image orientation is LAS
INFO: input image determinant is -8
fslswapdim
/Users/MacPro/Documents/NIMROD_DTI/FS6_16084_MPRAGE_Neuro.nii/dmri/dwi_orig.nii.gz
x y z
/Users/MacPro/Documents/NIMROD_DTI/FS6_16084_MPRAGE_Neuro.nii/dmri/dwi_orig_flip.nii.gz
fslorient -forceradiological
/Users/MacPro/Documents/NIMROD_DTI/FS6_16084_MPRAGE_Neuro.nii/dmri/dwi_orig_flip.nii.gz
mv -f
/Users/MacPro/Documents/NIMROD_DTI/FS6_16084_MPRAGE_Neuro.nii/dmri/dwi_orig_flip.mghdti.bvecs
/Users/MacPro/Documents/NIMROD_DTI/FS6_16084_MPRAGE_Neuro.nii/dmri/bvecs
mv: rename
/Users/MacPro/Documents/NIMROD_DTI/FS6_16084_MPRAGE_Neuro.nii/dmri/dwi_orig_flip.mghdti.bvecs
to /Users/MacPro/Documents/NIMROD_DTI/FS6_16084_MPRAGE_Neuro.nii/dmri/bvecs:
No such file or directory
Darwin dhcp-10-240-197-124.cp.wireless.private.cam.ac.uk 14.0.0 Darwin Kernel
Version 14.0.0: Fri Sep 19 00:26:44 PDT 2014;
root:xnu-2782.1.97~2/RELEASE_X86_64 x86_64
trac-preproc exited with ERRORS at Fri Apr 15 17:45:37 BST 2016
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