helpdesks-MacBook-Pro-2:R01_DTI crc$ trac-all -prep -c dmrirc.example1
INFO: SUBJECTS_DIR is /Users/crc/Documents/myprojects/R01_DTI
INFO: Diffusion root is /Users/CRC/Documents/myprojects/R01_DTI/tracresults
Actual FREESURFER_HOME /Applications/freesurfer
trac-preproc -c /Users/CRC/Documents/myprojects/R01_DTI/tracresults/NAH001-1/scripts/dmrirc.local -log /Users/CRC/Documents/myprojects/R01_DTI/tracresults/NAH001-1/scripts/trac-all.log -cmd /Users/CRC/Documents/myprojects/R01_DTI/tracresults/NAH001-1/scripts/trac-all.cmd
#-------------------------------------
/Applications/freesurfer/bin/trac-preproc
#-------------------------------------
#@# Image corrections Fri Jul 21 09:28:12 EDT 2017
mri_convert --bvec-voxel /Users/CRC/Documents/myprojects/R01_DTI/NAH001-1/DTI/nifty.nii.gz /Users/CRC/Documents/myprojects/R01_DTI/tracresults/NAH001-1/dmri/dwi_orig.nii.gz
mri_convert.bin --bvec-voxel /Users/CRC/Documents/myprojects/R01_DTI/NAH001-1/DTI/nifty.nii.gz /Users/CRC/Documents/myprojects/R01_DTI/tracresults/NAH001-1/dmri/dwi_orig.nii.gz
$Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $
reading from /Users/CRC/Documents/myprojects/R01_DTI/NAH001-1/DTI/nifty.nii.gz...
TR=3222.00, TE=0.00, TI=0.00, flip angle=0.00
i_ras = (-0.997757, 0.0345085, 0.057362)
j_ras = (0.0453079, 0.978915, 0.19918)
k_ras = (0.0492791, -0.201332, 0.978283)
writing to /Users/CRC/Documents/myprojects/R01_DTI/tracresults/NAH001-1/dmri/dwi_orig.nii.gz...
cp /Users/CRC/Documents/myprojects/R01_DTI/NAH001-1/DTI/bvec /Users/CRC/Documents/myprojects/R01_DTI/tracresults/NAH001-1/dmri/dwi_orig.bvecs
cp /Users/CRC/Documents/myprojects/R01_DTI/NAH001-1/DTI/bval /Users/CRC/Documents/myprojects/R01_DTI/tracresults/NAH001-1/dmri/dwi_orig.bvals
mv -f /Users/CRC/Documents/myprojects/R01_DTI/tracresults/NAH001-1/dmri/bvecs.tmp /Users/CRC/Documents/myprojects/R01_DTI/tracresults/NAH001-1/dmri/dwi_orig.bvecs
mv -f /Users/CRC/Documents/myprojects/R01_DTI/tracresults/NAH001-1/dmri/bvals.tmp /Users/CRC/Documents/myprojects/R01_DTI/tracresults/NAH001-1/dmri/dwi_orig.bvals
orientLAS /Users/CRC/Documents/myprojects/R01_DTI/tracresults/NAH001-1/dmri/dwi_orig.nii.gz /Users/CRC/Documents/myprojects/R01_DTI/tracresults/NAH001-1/dmri/dwi_orig_las.nii.gz
dyld: lazy symbol binding failed: Symbol not found: ___emutls_get_address
Referenced from: /Applications/freesurfer/bin/../lib/gcc/lib/libgomp.1.dylib
Expected in: /usr/lib/libSystem.B.dylib
dyld: Symbol not found: ___emutls_get_address
Referenced from: /Applications/freesurfer/bin/../lib/gcc/lib/libgomp.1.dylib
Expected in: /usr/lib/libSystem.B.dylib
Trace/BPT trap
ERROR: input file must be in NIfTI format
Darwin helpdesks-MacBook-Pro-2.local 15.3.0 Darwin Kernel Version 15.3.0: Thu Dec 10 18:40:58 PST 2015; root:xnu-3248.30.4~1/RELEASE_X86_64 x86_64
trac-preproc exited with ERRORS at Fri Jul 21 09:29:59 EDT 2017
helpdesks-MacBook-Pro-2:R01_DTI crc$