recon-all -all - Freesurfer

15 Feb 2019


      External Email - Use Caution
Hello FreeSurfer Developers,
when i was run the recon-all -all, sometimes the terminal would show randomSeed 1234, and stop running the process
here is my
#@# Curvature Stats rh Fri Feb 15 17:31:38 GMT 2019
/Users/cengzhou/Desktop/volumetric_FS/subject1/subject/surf
\n mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/rh.curv.stats -F smoothwm subject rh curv sulc \n
Toggling save flag on curvature files                       [ ok ]
Outputting results using filestem   [ ../stats/rh.curv.stats ]
Toggling save flag on curvature files                       [ ok ]
Setting surface      [ subject/rh.smoothwm ]
Reading surface...                       [ ok ]
Setting texture                     [ curv ]
Reading texture...                       [ ok ]
Setting texture                     [ sulc ]
Reading texture...Gb_filter = 0
[ ok ]
Calculating Discrete Principal Curvatures...
Determining geometric order for vertex faces... [####################] [ ok ]
Determining KH curvatures... [####################] [ ok ]
Determining k1k2 curvatures... [####################] [ ok ]
deltaViolations                      [ 257 ]
Gb_filter = 0
WARN:    S lookup   min:                          -0.254695
WARN:    S explicit min:                          0.000000	vertex = 112
#--------------------------------------------
#@# Sphere lh Fri Feb 15 17:31:44 GMT 2019
/Users/cengzhou/Desktop/volumetric_FS/subject1/subject/scripts
\n mris_sphere -rusage /Users/cengzhou/Desktop/volumetric_FS/subject1/subject/touch/rusage.mris_sphere.lh.dat -seed 1234 ../surf/lh.inflated ../surf/lh.sphere \n
setting seed for random number genererator to 1234
$Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $
$Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
reading original vertex positions...
unfolding cortex into spherical form...
surface projected - minimizing metric distortion...
== Number of threads available to mris_sphere for OpenMP = 1 ==
scaling brain by 0.321...
MRISunfold() max_passes = 1 -------
tol=5.0e-01, sigma=0.0, host=cengz, nav=1024, nbrs=2, l_area=1.000, l_dist=1.000
using quadratic fit line minimization
complete_dist_mat 0
rms 0
smooth_averages 0
remove_neg 0
ico_order 0
which_surface 0
target_radius 0.000000
nfields 0
scale 1.000000
desired_rms_height -1.000000
momentum 0.900000
nbhd_size 7
max_nbrs 8
niterations 25
nsurfaces 0
SURFACES 3
flags 0 (0)
use curv 0
no sulc 0
no rigid align 0
mris->nsize 2
mris->hemisphere 0
randomSeed 1234>
i have attached the recon-all log
cheers
Zeng