cortical-surfaces-freesurfer/sub-07/mri/transforms/T2raw.dat.log

Logfile for bbregister
Thu Aug  8 23:42:01 CEST 2013

setenv SUBJECTS_DIR /home/data/exppsy/forrest_gump/openfmri.org/freesurfer
cd /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/scripts
/opt/freesurfer/5.3.0/bin/bbregister --s sub007 --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/orig/T2raw.mgz --lta /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/T2raw.lta --init-fsl --T2

$Id: bbregister,v 1.49.2.3 2013/03/25 18:04:53 greve Exp $
Linux snake4 2.6.32-5-amd64 #1 SMP Fri May 10 08:43:19 UTC 2013 x86_64 GNU/Linux
FREESURFER_HOME /opt/freesurfer/5.3.0
mri_convert /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/orig/T2raw.mgz /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/template.nii
mri_convert /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/orig/T2raw.mgz /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/template.nii 
$Id: mri_convert.c,v 1.179.2.7 2012/09/05 21:55:16 mreuter Exp $
reading from /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/orig/T2raw.mgz...
TR=0.00, TE=0.00, TI=0.00, flip angle=0.00
i_ras = (-0.998766, -0.0418513, -0.0267421)
j_ras = (-0.0444513, 0.99343, 0.105455)
k_ras = (-0.022153, -0.106514, 0.994064)
writing to /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/template.nii...
fslregister --s sub007 --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/template.nii --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/reg.init.dat --niters 1 --maxangle 90 --nobetmov --tmp /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/fslregister --dof 6 --fsvol brainmask.mgz

Log file is /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/reg.init.dat.fslregister.log

Thu Aug  8 23:42:05 CEST 2013
--s sub007 --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/template.nii --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/reg.init.dat --niters 1 --maxangle 90 --nobetmov --tmp /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/fslregister --dof 6 --fsvol brainmask.mgz
$Id: fslregister,v 1.34.2.2 2012/11/08 16:18:56 greve Exp $
snake4
Linux snake4 2.6.32-5-amd64 #1 SMP Fri May 10 08:43:19 UTC 2013 x86_64 GNU/Linux
nIters 1
--------------------------------------
/home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/scripts
mri_convert /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/brainmask.mgz /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/fslregister/refvol.fslregister.nii
mri_convert /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/brainmask.mgz /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/fslregister/refvol.fslregister.nii 
$Id: mri_convert.c,v 1.179.2.7 2012/09/05 21:55:16 mreuter Exp $
reading from /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/brainmask.mgz...
TR=0.00, TE=0.00, TI=0.00, flip angle=0.00
i_ras = (-1, 4.65661e-09, 3.72529e-09)
j_ras = (5.58794e-09, -1.49012e-08, -1)
k_ras = (-8.61473e-09, 1, 1.49012e-08)
writing to /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/fslregister/refvol.fslregister.nii...
--------------------------------------
/home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/scripts
mri_convert /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/template.nii /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/fslregister/movvol.fslregister.nii --frame 0
mri_convert /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/template.nii /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/fslregister/movvol.fslregister.nii --frame 0 
$Id: mri_convert.c,v 1.179.2.7 2012/09/05 21:55:16 mreuter Exp $
reading from /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/template.nii...
TR=0.00, TE=0.00, TI=0.00, flip angle=0.00
i_ras = (-0.998766, -0.0418513, -0.0267421)
j_ras = (-0.0444513, 0.99343, 0.105455)
k_ras = (-0.022153, -0.106514, 0.994064)
keeping frame 0
writing to /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/fslregister/movvol.fslregister.nii...
Mov determinant is -0.311076
/home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/scripts
tkregister2_cmdl --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/fslregister/movvol.fslregister.nii --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/fslregister/reg0.4731.dat --regheader --fslregout /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/reg.init.dat.fsl.mat0 --s sub007 --noedit
tkregister_tcl /opt/freesurfer/5.3.0/tktools/tkregister2.tcl
INFO: no target volume specified, assuming FreeSurfer orig volume.
target  volume orig
movable volume /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/fslregister/movvol.fslregister.nii
reg file       /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/fslregister/reg0.4731.dat
LoadVol        0
ZeroCRAS       0
$Id: tkregister2.c,v 1.121.2.1 2011/03/28 20:25:16 greve Exp $
Diagnostic Level -1
INFO: loading target /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/orig.mgz
Ttarg: --------------------
-1.000   0.000   0.000   128.000;
 0.000   0.000   1.000  -128.000;
 0.000  -1.000   0.000   128.000;
 0.000   0.000   0.000   1.000;
INFO: loading movable /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/fslregister/movvol.fslregister.nii
Tmov: --------------------
-0.700   0.000   0.000   95.889;
 0.000   0.000   0.667  -128.000;
 0.000  -0.667   0.000   128.000;
 0.000   0.000   0.000   1.000;
mkheaderreg = 1, float2int = 0
Computing reg from header (and possibly input matrix)
---- Input registration matrix (computed) --------
 0.999   0.042   0.027   0.000;
-0.022  -0.107   0.994   0.000;
 0.044  -0.993  -0.105  -0.000;
 0.000   0.000   0.000   1.000;
---------------------------------------
---- Input registration matrix --------
 0.999   0.042   0.027   0.000;
-0.022  -0.107   0.994   0.000;
 0.044  -0.993  -0.105  -0.000;
 0.000   0.000   0.000   1.000;
Determinant 1
subject = sub007
RegMat ---------------------------
 0.999   0.042   0.027   0.000;
-0.022  -0.107   0.994   0.000;
 0.044  -0.993  -0.105  -0.000;
 0.000   0.000   0.000   1.000;
FSLOUTPUTTYPE NIFTI 
tkreg2FSL: mov det = -0.311076, ref det = -1
Thu Aug  8 23:42:12 CEST 2013
/home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/scripts
flirt.fsl -ref /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/fslregister/refvol.fslregister.nii -in /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/fslregister/movvol.fslregister.nii -bins 256 -cost corratio -dof 6 -searchrx -90 90 -searchry -90 90 -searchrz -90 90 -verbose 0 -omat /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/fslregister/fslmat0.trans.mat -schedule /usr/share/fsl/5.0/etc/flirtsch/xyztrans.sch -init /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/reg.init.dat.fsl.mat0
Thu Aug  8 23:46:31 CEST 2013
/home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/scripts
flirt.fsl -ref /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/fslregister/refvol.fslregister.nii -in /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/fslregister/movvol.fslregister.nii -bins 256 -cost corratio -dof 6 -searchrx -90 90 -searchry -90 90 -searchrz -90 90 -verbose 0 -omat /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/reg.init.dat.fsl.mat -init /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/fslregister/fslmat0.trans.mat -schedule /opt/freesurfer/5.3.0/bin/flirt.newdefault.20080811.sch
tkregister2_cmdl --s sub007 --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/template.nii --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/reg.init.dat --fslreg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/reg.init.dat.fsl.mat --noedit
tkregister_tcl /opt/freesurfer/5.3.0/tktools/tkregister2.tcl
---- FSL registration matrix --------
 0.998   0.049   0.030   22.056;
 0.035  -0.095  -0.995   264.844;
-0.046   0.994  -0.097   16.715;
 0.000   0.000   0.000   1.000;
---------------------------------------
INFO: no target volume specified, assuming FreeSurfer orig volume.
target  volume orig
movable volume /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/template.nii
reg file       /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/reg.init.dat
LoadVol        0
ZeroCRAS       0
$Id: tkregister2.c,v 1.121.2.1 2011/03/28 20:25:16 greve Exp $
Diagnostic Level -1
INFO: loading target /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/orig.mgz
Ttarg: --------------------
-1.000   0.000   0.000   128.000;
 0.000   0.000   1.000  -128.000;
 0.000  -1.000   0.000   128.000;
 0.000   0.000   0.000   1.000;
INFO: loading movable /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/template.nii
Tmov: --------------------
-0.700   0.000   0.000   95.889;
 0.000   0.000   0.667  -128.000;
 0.000  -0.667   0.000   128.000;
 0.000   0.000   0.000   1.000;
mkheaderreg = 0, float2int = 0
FSLOUTPUTTYPE NIFTI 
fsl2TkReg: mov det = -0.311076, ref det = -1
---- Input registration matrix (computed) --------
 0.998   0.046   0.035   0.046;
-0.030  -0.097   0.995   0.583;
 0.049  -0.994  -0.095  -0.900;
 0.000   0.000   0.000   1.000;
---------------------------------------
---- Input registration matrix --------
 0.998   0.046   0.035   0.046;
-0.030  -0.097   0.995   0.583;
 0.049  -0.994  -0.095  -0.900;
 0.000   0.000   0.000   1.000;
Determinant 1
subject = sub007
RegMat ---------------------------
 0.998   0.046   0.035   0.046;
-0.030  -0.097   0.995   0.583;
 0.049  -0.994  -0.095  -0.900;
 0.000   0.000   0.000   1.000;
 
Started at Thu Aug 8 23:42:05 CEST 2013 
Ended   at Thu Aug  8 23:52:25 CEST 2013
 
fslregister Done
 
To check results, run:
tkregister2 --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/template.nii --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/reg.init.dat --surf orig
 
mri_segreg --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/template.nii --init-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/reg.init.dat --out-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/bbr.pass1.dat --subsamp-brute 100 --subsamp 100 --tol 1e-4 --tol1d 1e-3 --brute -4 4 4 --surf white --gm-proj-frac 0.5 --gm-gt-wm 0.5
$Id: mri_segreg.c,v 1.103.2.1 2011/10/07 19:14:42 greve Exp $
setenv SUBJECTS_DIR /home/data/exppsy/forrest_gump/openfmri.org/freesurfer
cd /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/scripts
mri_segreg --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/template.nii --init-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/reg.init.dat --out-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/bbr.pass1.dat --subsamp-brute 100 --subsamp 100 --tol 1e-4 --tol1d 1e-3 --brute -4 4 4 --surf white --gm-proj-frac 0.5 --gm-gt-wm 0.5 
sysname  Linux
hostname snake4
machine  x86_64
user     fkaule
movvol /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/template.nii
regfile /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/reg.init.dat
subject sub007
dof 6
outregfile /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/bbr.pass1.dat
UseMask 0
UseLH 1
UseRH 1
nsubsamp 100
PenaltySign  -1
PenaltySlope 0.500000
PenaltyCenter 0.000000
surfname white
GMProjFrac 0.500000
WMProjAbs 2.000000
lhcostfile (null)
rhcostfile (null)
interp  trilinear (1)
frame  0
TolPowell 0.000100
nMaxItersPowell 36
n1dmin  3
Profile   0
Gdiag_no  -1
AddNoise  0 (0)
SynthSeed 1376518834
TransRandMax 0.000000
RotRandMax 0.000000
Translations 0.000000 0.000000 0.000000
Rotations   0.000000 0.000000 0.000000
Input reg
 0.998   0.046   0.035   0.046;
-0.030  -0.097   0.995   0.583;
 0.049  -0.994  -0.095  -0.900;
 0.000   0.000   0.000   1.000;

Loading mov
Projecting LH Surfs
Loading lh.white surf
Loading lh.thickness for GM
GM Proj: 1 0.500000 2.000000
WM Proj: 0 0.500000 2.000000
Projecting RH Surfs
Loading rh.white surf
Loading rh.thickness
Projecting RH Surfs
Computing relative cost
 0  -25.0 -25.0 -25.0   0.991249
 1  -25.0 -25.0  25.0   0.991829
 2  -25.0  25.0 -25.0   0.986389
 3  -25.0  25.0  25.0   1.010019
 4   25.0 -25.0 -25.0   1.016478
 5   25.0 -25.0  25.0   1.018360
 6   25.0  25.0 -25.0   1.026574
 7   25.0  25.0  25.0   1.014561
REL:  8  0.193677    8.055460  1.006932 rel = 0.192343 
Initial costs ----------------
Number of surface hits 3043
WM  Intensity    55.5078 +/-   9.6160
Ctx Intensity    67.6400 +/-   9.7926
Pct Contrast     19.8581 +/-  15.4931
Cost   0.1937
RelCost   0.1923

------------------------------------
Brute force preopt -4 4 4, n = 729
     0  -4.0000  -4.0000  -4.0000  -4.0000  -4.0000  -4.0000      0.9721   0.9721  0.0
    15  -4.0000  -4.0000  -4.0000   0.0000   4.0000  -4.0000      0.8971   0.8971  0.0
    21  -4.0000  -4.0000  -4.0000   4.0000   0.0000  -4.0000      0.8774   0.8774  0.0
   102  -4.0000   0.0000  -4.0000   4.0000   0.0000  -4.0000      0.8240   0.8240  0.0
   120  -4.0000   0.0000   0.0000   0.0000   0.0000  -4.0000      0.7098   0.7098  0.0
   346   0.0000   0.0000  -4.0000   4.0000   0.0000   0.0000      0.6742   0.6742  0.0
   364   0.0000   0.0000   0.0000   0.0000   0.0000   0.0000      0.1937   0.1937  0.0
Brute Force --------------------------
Min cost was 0.193677
Number of iterations   729
Search time 2.256000 sec
Parameters at best (transmm, rotdeg)
  0.000   0.000   0.000  0.000  0.000  0.000 
--------------------------------------------

Starting Powell Minimization
Init Powel Params dof = 6
0 0
1 0
2 0
3 0
4 0
5 0
   7 -0.019  0.000  0.000  0.000  0.000  0.000   0.1934061585
   8 -0.104  0.000  0.000  0.000  0.000  0.000   0.1929380224
  12 -0.114  0.000  0.000  0.000  0.000  0.000   0.1929257262
  14 -0.111  0.000  0.000  0.000  0.000  0.000   0.1929253878
  16 -0.112  0.000  0.000  0.000  0.000  0.000   0.1929247277
  17 -0.113  0.000  0.000  0.000  0.000  0.000   0.1929246708
  24 -0.113 -0.093  0.000  0.000  0.000  0.000   0.1927190348
  25 -0.113 -0.055  0.000  0.000  0.000  0.000   0.1923274726
  26 -0.113 -0.051  0.000  0.000  0.000  0.000   0.1922827635
  27 -0.113 -0.032  0.000  0.000  0.000  0.000   0.1921745445
  30 -0.113 -0.033  0.000  0.000  0.000  0.000   0.1921719557
  33 -0.113 -0.033  1.000  0.000  0.000  0.000   0.1739615505
  37 -0.113 -0.033  0.618  0.000  0.000  0.000   0.1546181828
  38 -0.113 -0.033  0.570  0.000  0.000  0.000   0.1536184433
  40 -0.113 -0.033  0.553  0.000  0.000  0.000   0.1534524363
  41 -0.113 -0.033  0.534  0.000  0.000  0.000   0.1534009548
  42 -0.113 -0.033  0.536  0.000  0.000  0.000   0.1533939252
  44 -0.113 -0.033  0.538  0.000  0.000  0.000   0.1533923823
  52 -0.113 -0.033  0.538  0.174  0.000  0.000   0.1468022854
  53 -0.113 -0.033  0.538  0.176  0.000  0.000   0.1467637315
  55 -0.113 -0.033  0.538  0.198  0.000  0.000   0.1465500295
  56 -0.113 -0.033  0.538  0.199  0.000  0.000   0.1465495950
  57 -0.113 -0.033  0.538  0.200  0.000  0.000   0.1465482938
  60 -0.113 -0.033  0.538  0.203  0.000  0.000   0.1465402647
  70 -0.113 -0.033  0.538  0.203  0.024  0.000   0.1462816922
  80 -0.113 -0.033  0.538  0.203  0.024 -0.119   0.1454949850
  81 -0.113 -0.033  0.538  0.203  0.024 -0.097   0.1454077122
  82 -0.113 -0.033  0.538  0.203  0.024 -0.090   0.1453918823
  94 -0.107 -0.033  0.538  0.203  0.024 -0.090   0.1453520159
  95 -0.081 -0.033  0.538  0.203  0.024 -0.090   0.1452226094
  97 -0.058 -0.033  0.538  0.203  0.024 -0.090   0.1450797534
  98 -0.016 -0.033  0.538  0.203  0.024 -0.090   0.1448732974
 104 -0.017 -0.033  0.538  0.203  0.024 -0.090   0.1448730636
 112 -0.017  0.099  0.538  0.203  0.024 -0.090   0.1421495608
 114 -0.017  0.066  0.538  0.203  0.024 -0.090   0.1420170294
 116 -0.017  0.078  0.538  0.203  0.024 -0.090   0.1419504451
 118 -0.017  0.077  0.538  0.203  0.024 -0.090   0.1419496850
 120 -0.017  0.076  0.538  0.203  0.024 -0.090   0.1419482133
 128 -0.017  0.076  0.429  0.203  0.024 -0.090   0.1408250796
 129 -0.017  0.076  0.444  0.203  0.024 -0.090   0.1406757515
 130 -0.017  0.076  0.459  0.203  0.024 -0.090   0.1406291206
 133 -0.017  0.076  0.462  0.203  0.024 -0.090   0.1406277824
 134 -0.017  0.076  0.461  0.203  0.024 -0.090   0.1406275492
 141 -0.017  0.076  0.461  0.244  0.024 -0.090   0.1402854869
 142 -0.017  0.076  0.461  0.243  0.024 -0.090   0.1402772088
 143 -0.017  0.076  0.461  0.233  0.024 -0.090   0.1401954529
 145 -0.017  0.076  0.461  0.229  0.024 -0.090   0.1401783905
 146 -0.017  0.076  0.461  0.228  0.024 -0.090   0.1401776098
 155 -0.017  0.076  0.461  0.228 -0.008 -0.090   0.1400072837
 156 -0.017  0.076  0.461  0.228 -0.007 -0.090   0.1400067285
 157 -0.017  0.076  0.461  0.228 -0.006 -0.090   0.1400058131
 159 -0.017  0.076  0.461  0.228 -0.001 -0.090   0.1400034554
 161 -0.017  0.076  0.461  0.228 -0.003 -0.090   0.1400032237
 169 -0.017  0.076  0.461  0.228 -0.003 -0.040   0.1395222284
 170 -0.017  0.076  0.461  0.228 -0.003 -0.025   0.1394631486
 182 -0.042  0.076  0.461  0.228 -0.003 -0.025   0.1392295453
 183 -0.045  0.076  0.461  0.228 -0.003 -0.025   0.1392125962
 185 -0.051  0.076  0.461  0.228 -0.003 -0.025   0.1391954150
 186 -0.052  0.076  0.461  0.228 -0.003 -0.025   0.1391952674
 207 -0.052  0.076  0.437  0.228 -0.003 -0.025   0.1389939393
 208 -0.052  0.076  0.436  0.228 -0.003 -0.025   0.1389916174
 210 -0.052  0.076  0.434  0.228 -0.003 -0.025   0.1389900252
 219 -0.052  0.076  0.434  0.237 -0.003 -0.025   0.1389426087
 220 -0.052  0.076  0.434  0.240 -0.003 -0.025   0.1389309996
 222 -0.052  0.076  0.434  0.244 -0.003 -0.025   0.1389262283
 223 -0.052  0.076  0.434  0.243 -0.003 -0.025   0.1389260747
 235 -0.052  0.076  0.434  0.243 -0.007 -0.025   0.1389214808
 238 -0.052  0.076  0.434  0.243 -0.008 -0.025   0.1389211114
 245 -0.052  0.076  0.434  0.243 -0.008 -0.075   0.1387751442
 246 -0.052  0.076  0.434  0.243 -0.008 -0.063   0.1386801727
 247 -0.052  0.076  0.434  0.243 -0.008 -0.055   0.1386741770
 248 -0.052  0.076  0.434  0.243 -0.008 -0.058   0.1386707715
 251 -0.088  0.076  0.406  0.259 -0.013 -0.091   0.1383439096
 254 -0.145  0.076  0.362  0.284 -0.021 -0.145   0.1378308224
 259 -0.222  0.076  0.303  0.318 -0.032 -0.216   0.1376057260
 260 -0.201  0.076  0.319  0.308 -0.029 -0.197   0.1375520973
 277 -0.201  0.076  0.319  0.308 -0.029 -0.219   0.1374804300
 279 -0.201  0.076  0.319  0.308 -0.029 -0.234   0.1374613638
 280 -0.201  0.076  0.319  0.308 -0.029 -0.229   0.1374552182
 281 -0.201  0.076  0.319  0.308 -0.029 -0.230   0.1374542155
 291 -0.201  0.019  0.319  0.308 -0.029 -0.230   0.1362655158
 293 -0.201  0.026  0.319  0.308 -0.029 -0.230   0.1362157040
 295 -0.201  0.027  0.319  0.308 -0.029 -0.230   0.1362146064
 302 -0.201  0.027  0.288  0.308 -0.029 -0.230   0.1360537655
 304 -0.201  0.027  0.294  0.308 -0.029 -0.230   0.1360521244
 306 -0.201  0.027  0.292  0.308 -0.029 -0.230   0.1360508154
 315 -0.201  0.027  0.292  0.327 -0.029 -0.230   0.1359026204
 317 -0.201  0.027  0.292  0.326 -0.029 -0.230   0.1359003914
 328 -0.201  0.027  0.292  0.326  0.003 -0.230   0.1351833728
 330 -0.201  0.027  0.292  0.326  0.002 -0.230   0.1351805432
 332 -0.201  0.027  0.292  0.326  0.001 -0.230   0.1351789449
 335 -0.236  0.027  0.264  0.342 -0.004 -0.263   0.1351470756
 339 -0.223  0.027  0.275  0.336 -0.002 -0.250   0.1351446910
 344 -0.224  0.027  0.274  0.337 -0.002 -0.251   0.1351438076
 358 -0.224  0.027  0.274  0.337 -0.002 -0.245   0.1350866132
 359 -0.224  0.027  0.274  0.337 -0.002 -0.234   0.1350508134
 360 -0.224  0.027  0.274  0.337 -0.002 -0.235   0.1350502326
 370 -0.224  0.038  0.274  0.337 -0.002 -0.235   0.1350105739
 381 -0.224  0.038  0.267  0.337 -0.002 -0.235   0.1350010105
 383 -0.224  0.038  0.268  0.337 -0.002 -0.235   0.1349998244
 384 -0.224  0.038  0.269  0.337 -0.002 -0.235   0.1349988486
 396 -0.224  0.038  0.269  0.338 -0.002 -0.235   0.1349985664
 405 -0.224  0.038  0.269  0.338  0.016 -0.235   0.1348326439
 406 -0.224  0.038  0.269  0.338  0.015 -0.235   0.1348291783
 407 -0.224  0.038  0.269  0.338  0.013 -0.235   0.1348270992
 418 -0.222  0.038  0.271  0.337  0.013 -0.233   0.1348259642
 423 -0.222  0.038  0.271  0.337  0.013 -0.233   0.1348259627
 425 -0.222  0.038  0.271  0.337  0.013 -0.233   0.1348257670
 427 -0.220  0.049  0.268  0.337  0.029 -0.215   0.1347504837
 433 -0.221  0.045  0.269  0.337  0.023 -0.222   0.1347441598
 434 -0.221  0.047  0.269  0.337  0.026 -0.219   0.1347358587
 435 -0.221  0.047  0.269  0.337  0.026 -0.219   0.1347357220
 438 -0.221  0.047  0.269  0.337  0.026 -0.219   0.1347354803
 442 -0.221  0.047  0.269  0.337  0.026 -0.219   0.1347354483
 451 -0.221  0.047  0.269  0.337  0.026 -0.211   0.1347039705
 452 -0.221  0.047  0.269  0.337  0.026 -0.209   0.1347034921
 471 -0.221  0.047  0.254  0.337  0.026 -0.209   0.1346931341
 472 -0.221  0.047  0.260  0.337  0.026 -0.209   0.1346611662
 473 -0.221  0.047  0.261  0.337  0.026 -0.209   0.1346598212
 483 -0.221  0.047  0.261  0.335  0.026 -0.209   0.1346555090
 484 -0.221  0.047  0.261  0.334  0.026 -0.209   0.1346516761
 487 -0.221  0.047  0.261  0.333  0.026 -0.209   0.1346507496
 495 -0.220  0.047  0.262  0.333  0.026 -0.209   0.1346496957
 497 -0.219  0.047  0.262  0.332  0.026 -0.208   0.1346489549
 501 -0.219  0.047  0.262  0.332  0.026 -0.208   0.1346486518
 509 -0.220  0.044  0.263  0.332  0.022 -0.213   0.1346368280
 511 -0.220  0.044  0.263  0.332  0.022 -0.213   0.1346366468
 529 -0.220  0.044  0.263  0.332  0.022 -0.212   0.1346322885
 530 -0.220  0.044  0.263  0.332  0.022 -0.209   0.1346271251
 532 -0.220  0.044  0.263  0.332  0.022 -0.207   0.1346270570
 534 -0.220  0.044  0.263  0.332  0.022 -0.208   0.1346263451
 546 -0.220  0.045  0.263  0.332  0.022 -0.208   0.1346254968
 573 -0.221  0.045  0.262  0.333  0.022 -0.209   0.1346235626
 574 -0.222  0.045  0.261  0.333  0.022 -0.210   0.1346228639
 575 -0.222  0.045  0.261  0.333  0.022 -0.210   0.1346227487
 579 -0.222  0.045  0.261  0.333  0.022 -0.210   0.1346226163
 591 -0.222  0.044  0.261  0.333  0.021 -0.211   0.1346225497
 592 -0.222  0.044  0.261  0.333  0.021 -0.210   0.1346223234
 593 -0.222  0.045  0.261  0.333  0.021 -0.210   0.1346220382
 607 -0.222  0.045  0.261  0.333  0.021 -0.209   0.1346214237
 628 -0.222  0.045  0.264  0.333  0.021 -0.209   0.1346204271
 630 -0.222  0.045  0.263  0.333  0.021 -0.209   0.1346197724
 640 -0.222  0.045  0.263  0.332  0.021 -0.209   0.1346193403
 650 -0.224  0.045  0.262  0.332  0.021 -0.211   0.1346189424
 652 -0.223  0.045  0.262  0.332  0.021 -0.210   0.1346188666
 654 -0.223  0.045  0.263  0.332  0.021 -0.210   0.1346187808
 656 -0.223  0.045  0.263  0.332  0.021 -0.210   0.1346186327
 658 -0.223  0.045  0.263  0.332  0.021 -0.210   0.1346185472
 669 -0.223  0.044  0.263  0.332  0.021 -0.210   0.1346184823
 671 -0.223  0.044  0.263  0.332  0.021 -0.210   0.1346184437
Powell done niters = 7
Computing relative cost
 0  -25.0 -25.0 -25.0   0.978193
 1  -25.0 -25.0  25.0   1.003211
 2  -25.0  25.0 -25.0   0.997539
 3  -25.0  25.0  25.0   1.003521
 4   25.0 -25.0 -25.0   1.013809
 5   25.0 -25.0  25.0   1.028591
 6   25.0  25.0 -25.0   0.995395
 7   25.0  25.0  25.0   1.008285
REL:  8  0.134618    8.028544  1.003568 rel = 0.13414 
Number of iterations     7
Min cost was 0.134618
Number of FunctionCalls   675
TolPowell 0.000100
nMaxItersPowell 36
OptimizationTime 1.992000 sec
Parameters at optimum (transmm) -0.22291  0.04437  0.26269
Parameters at optimum (rotdeg)  0.33207  0.02092 -0.21016 
Final costs ----------------
Number of surface hits 3043
WM  Intensity    55.4287 +/-   9.2173
Ctx Intensity    67.2313 +/-   9.3579
Pct Contrast     19.4196 +/-  13.8146
Cost   0.1346
RelCost   0.1923
Reg at min cost was 
 0.998   0.046   0.038  -0.175;
-0.034  -0.091   0.995   0.633;
 0.049  -0.995  -0.089  -0.634;
 0.000   0.000   0.000   1.000;

Writing optimal reg to /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/bbr.pass1.dat, type = 14 
Original Reg 
 0.998   0.046   0.035   0.046;
-0.030  -0.097   0.995   0.583;
 0.049  -0.994  -0.095  -0.900;
 0.000   0.000   0.000   1.000;

Original Reg - Optimal Reg
 0.000   0.001  -0.004   0.221;
 0.004  -0.006  -0.000  -0.049;
 0.001   0.001  -0.006  -0.266;
 0.000   0.000   0.000   0.000;

Computing change in lh position
LH rmsDiffMean 0.592709
Computing change in rh position
Surface RMS Diff (mm) 0.591639 0.872507
mri_segreg done
mri_segreg --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/template.nii --init-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/bbr.pass1.dat --out-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/T2raw.dat --brute -0.1 0.1 0.1 --interp trilinear --wm-proj-abs 2 --tol 1e-8 --tol1d 1e-3 --c0 0 --mincost /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/T2raw.dat.mincost --dof 6 --nmax 36 --param /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/T2raw.dat.param --surf white --cur-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/reg.curopt.dat --gm-proj-frac 0.5 --nsub 1 --gm-gt-wm 0.5
$Id: mri_segreg.c,v 1.103.2.1 2011/10/07 19:14:42 greve Exp $
setenv SUBJECTS_DIR /home/data/exppsy/forrest_gump/openfmri.org/freesurfer
cd /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/scripts
mri_segreg --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/template.nii --init-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/bbr.pass1.dat --out-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/T2raw.dat --brute -0.1 0.1 0.1 --interp trilinear --wm-proj-abs 2 --tol 1e-8 --tol1d 1e-3 --c0 0 --mincost /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/T2raw.dat.mincost --dof 6 --nmax 36 --param /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/T2raw.dat.param --surf white --cur-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/reg.curopt.dat --gm-proj-frac 0.5 --nsub 1 --gm-gt-wm 0.5 
sysname  Linux
hostname snake4
machine  x86_64
user     fkaule
movvol /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/template.nii
regfile /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/tmp.bbregister.4692/bbr.pass1.dat
subject sub007
dof 6
outregfile /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/T2raw.dat
UseMask 0
UseLH 1
UseRH 1
nsubsamp 1
PenaltySign  -1
PenaltySlope 0.500000
PenaltyCenter 0.000000
surfname white
GMProjFrac 0.500000
WMProjAbs 2.000000
lhcostfile (null)
rhcostfile (null)
interp  trilinear (1)
frame  0
TolPowell 0.000000
nMaxItersPowell 36
n1dmin  3
Profile   0
Gdiag_no  -1
AddNoise  0 (0)
SynthSeed 1376598094
TransRandMax 0.000000
RotRandMax 0.000000
Translations 0.000000 0.000000 0.000000
Rotations   0.000000 0.000000 0.000000
Input reg
 0.998   0.046   0.038  -0.175;
-0.034  -0.091   0.995   0.633;
 0.049  -0.995  -0.089  -0.634;
 0.000   0.000   0.000   1.000;

Loading mov
Projecting LH Surfs
Loading lh.white surf
Loading lh.thickness for GM
GM Proj: 1 0.500000 2.000000
WM Proj: 0 0.500000 2.000000
Projecting RH Surfs
Loading rh.white surf
Loading rh.thickness
Projecting RH Surfs
Computing relative cost
 0  -25.0 -25.0 -25.0   1.003720
 1  -25.0 -25.0  25.0   1.014011
 2  -25.0  25.0 -25.0   1.011400
 3  -25.0  25.0  25.0   1.010058
 4   25.0 -25.0 -25.0   1.022451
 5   25.0 -25.0  25.0   1.032368
 6   25.0  25.0 -25.0   1.016719
 7   25.0  25.0  25.0   1.016638
REL:  8  0.146195    8.127364  1.015920 rel = 0.143904 
Initial costs ----------------
Number of surface hits 304307
WM  Intensity    55.4986 +/-   9.4676
Ctx Intensity    67.2995 +/-   9.4924
Pct Contrast     19.4061 +/-  14.3630
Cost   0.1462
RelCost   0.1439

------------------------------------
Brute force preopt -0.1 0.1 0.1, n = 729
     0  -0.1000  -0.1000  -0.1000  -0.1000  -0.1000  -0.1000      0.1466   0.1466  0.0
     9  -0.1000  -0.1000  -0.1000   0.0000  -0.1000  -0.1000      0.1430   0.1430  0.0
    12  -0.1000  -0.1000  -0.1000   0.0000   0.0000  -0.1000      0.1421   0.1421  0.0
    18  -0.1000  -0.1000  -0.1000   0.1000  -0.1000  -0.1000      0.1413   0.1413  0.0
    21  -0.1000  -0.1000  -0.1000   0.1000   0.0000  -0.1000      0.1381   0.1381  0.0
   102  -0.1000   0.0000  -0.1000   0.1000   0.0000  -0.1000      0.1364   0.1364  0.0
   120  -0.1000   0.0000   0.0000   0.0000   0.0000  -0.1000      0.1358   0.1358  0.0
   364   0.0000   0.0000   0.0000   0.0000   0.0000   0.0000      0.1346   0.1346  0.0
Brute Force --------------------------
Min cost was 0.134618
Number of iterations   729
Search time 2.143000 sec
Parameters at best (transmm, rotdeg)
  0.000   0.000   0.000  0.000  0.000  0.000 
--------------------------------------------

Starting Powell Minimization
Init Powel Params dof = 6
0 0
1 0
2 0
3 0
4 0
5 0
   7  0.113  0.000  0.000  0.000  0.000  0.000   0.1450895347
   8  0.110  0.000  0.000  0.000  0.000  0.000   0.1450858312
   9  0.104  0.000  0.000  0.000  0.000  0.000   0.1450844897
  11  0.106  0.000  0.000  0.000  0.000  0.000   0.1450841591
  20  0.106  0.071  0.000  0.000  0.000  0.000   0.1446850063
  21  0.106  0.061  0.000  0.000  0.000  0.000   0.1446593522
  22  0.106  0.057  0.000  0.000  0.000  0.000   0.1446579395
  31  0.106  0.057  0.106  0.000  0.000  0.000   0.1439143376
  32  0.106  0.057  0.091  0.000  0.000  0.000   0.1438930402
  34  0.106  0.057  0.093  0.000  0.000  0.000   0.1438928807
  43  0.106  0.057  0.093  0.036  0.000  0.000   0.1438125946
  44  0.106  0.057  0.093  0.024  0.000  0.000   0.1437849073
  53  0.106  0.057  0.093  0.024 -0.084  0.000   0.1427550857
  54  0.106  0.057  0.093  0.024 -0.103  0.000   0.1426795413
  55  0.106  0.057  0.093  0.024 -0.117  0.000   0.1426586904
  56  0.106  0.057  0.093  0.024 -0.121  0.000   0.1426579855
  57  0.106  0.057  0.093  0.024 -0.120  0.000   0.1426577427
  65  0.106  0.057  0.093  0.024 -0.120  0.055   0.1422166418
  67  0.106  0.057  0.093  0.024 -0.120  0.057   0.1422163921
  76  0.169  0.057  0.093  0.024 -0.120  0.057   0.1420836601
  77  0.151  0.057  0.093  0.024 -0.120  0.057   0.1420548893
  78  0.150  0.057  0.093  0.024 -0.120  0.057   0.1420547346
  87  0.150  0.071  0.093  0.024 -0.120  0.057   0.1420279277
  89  0.150  0.069  0.093  0.024 -0.120  0.057   0.1420276970
  98  0.150  0.069  0.089  0.024 -0.120  0.057   0.1420185163
  99  0.150  0.069  0.079  0.024 -0.120  0.057   0.1420076535
 100  0.150  0.069  0.078  0.024 -0.120  0.057   0.1420072887
 101  0.150  0.069  0.075  0.024 -0.120  0.057   0.1420072635
 104  0.150  0.069  0.076  0.024 -0.120  0.057   0.1420072037
 112  0.150  0.069  0.076  0.028 -0.120  0.057   0.1420046225
 122  0.150  0.069  0.076  0.028 -0.126  0.057   0.1419991231
 123  0.150  0.069  0.076  0.028 -0.130  0.057   0.1419963952
 126  0.150  0.069  0.076  0.028 -0.133  0.057   0.1419958969
 135  0.150  0.069  0.076  0.028 -0.133  0.079   0.1419321091
 138  0.193  0.082  0.060  0.031 -0.145  0.102   0.1418299848
 146  0.196  0.083  0.059  0.032 -0.146  0.103   0.1418299444
 148  0.194  0.083  0.060  0.031 -0.146  0.103   0.1418298225
 150  0.195  0.083  0.060  0.032 -0.146  0.103   0.1418298160
 151  0.195  0.083  0.059  0.032 -0.146  0.103   0.1418297682
 163  0.195  0.083  0.059  0.032 -0.146  0.102   0.1418293486
 172  0.195  0.073  0.059  0.032 -0.146  0.102   0.1418252952
 173  0.195  0.077  0.059  0.032 -0.146  0.102   0.1418238530
 183  0.195  0.077  0.070  0.032 -0.146  0.102   0.1418164144
 203  0.195  0.077  0.070  0.032 -0.140  0.102   0.1418147057
 204  0.195  0.077  0.070  0.032 -0.141  0.102   0.1418146831
 205  0.195  0.077  0.070  0.032 -0.142  0.102   0.1418146691
 213  0.201  0.078  0.068  0.032 -0.144  0.105   0.1418121060
 214  0.201  0.078  0.068  0.032 -0.144  0.105   0.1418121038
 215  0.201  0.078  0.068  0.032 -0.144  0.105   0.1418120734
 216  0.201  0.078  0.068  0.032 -0.144  0.105   0.1418120708
 225  0.201  0.078  0.068  0.032 -0.144  0.104   0.1418120083
 235  0.201  0.077  0.068  0.032 -0.144  0.104   0.1418116040
 244  0.201  0.077  0.070  0.032 -0.144  0.104   0.1418115243
 246  0.201  0.077  0.069  0.032 -0.144  0.104   0.1418114284
 264  0.201  0.077  0.069  0.032 -0.141  0.104   0.1418105057
 273  0.203  0.077  0.069  0.032 -0.142  0.105   0.1418098875
 274  0.204  0.077  0.068  0.032 -0.142  0.106   0.1418094200
 277  0.205  0.078  0.068  0.032 -0.142  0.106   0.1418093614
 278  0.205  0.078  0.068  0.032 -0.142  0.106   0.1418093170
 300  0.205  0.077  0.068  0.032 -0.142  0.106   0.1418092649
 311  0.205  0.077  0.069  0.032 -0.142  0.106   0.1418092468
 330  0.205  0.077  0.069  0.032 -0.141  0.106   0.1418091360
 339  0.205  0.077  0.069  0.032 -0.141  0.106   0.1418090722
 343  0.205  0.077  0.069  0.032 -0.141  0.106   0.1418090189
 405  0.205  0.077  0.069  0.032 -0.141  0.106   0.1418089950
 409  0.205  0.077  0.069  0.032 -0.141  0.106   0.1418089946
Powell done niters = 6
Computing relative cost
 0  -25.0 -25.0 -25.0   1.004926
 1  -25.0 -25.0  25.0   1.013640
 2  -25.0  25.0 -25.0   1.012322
 3  -25.0  25.0  25.0   1.009514
 4   25.0 -25.0 -25.0   1.021360
 5   25.0 -25.0  25.0   1.032719
 6   25.0  25.0 -25.0   1.018272
 7   25.0  25.0  25.0   1.018092
REL:  8  0.141809    8.130844  1.016356 rel = 0.139527 
Number of iterations     6
Min cost was 0.141809
Number of FunctionCalls   472
TolPowell 0.000000
nMaxItersPowell 36
OptimizationTime 57.287000 sec
Parameters at optimum (transmm)  0.20508  0.07676  0.06874
Parameters at optimum (rotdeg)  0.03240 -0.14135  0.10713 
Final costs ----------------
Number of surface hits 304307
WM  Intensity    55.5048 +/-   9.5055
Ctx Intensity    67.3034 +/-   9.4884
Pct Contrast     19.4056 +/-  14.3131
Cost   0.1418
RelCost   0.1439
Reg at min cost was 
 0.998   0.048   0.037   0.030;
-0.032  -0.090   0.995   0.710;
 0.051  -0.995  -0.089  -0.565;
 0.000   0.000   0.000   1.000;

Writing optimal reg to /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/T2raw.dat, type = 14 
Original Reg 
 0.998   0.046   0.038  -0.175;
-0.034  -0.091   0.995   0.633;
 0.049  -0.995  -0.089  -0.634;
 0.000   0.000   0.000   1.000;

Original Reg - Optimal Reg
 0.000  -0.003   0.002  -0.205;
-0.002  -0.001  -0.000  -0.077;
-0.002  -0.000  -0.001  -0.069;
 0.000   0.000   0.000   0.000;

Computing change in lh position
LH rmsDiffMean 0.133062
Computing change in rh position
Surface RMS Diff (mm) 0.190373 0.408394
mri_segreg done
tkregister2_cmdl --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/orig/T2raw.mgz --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/T2raw.dat --noedit --ltaout /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/T2raw.lta
tkregister_tcl /opt/freesurfer/5.3.0/tktools/tkregister2.tcl
INFO: no target volume specified, assuming FreeSurfer orig volume.
target  volume orig
movable volume /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/orig/T2raw.mgz
reg file       /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/T2raw.dat
LoadVol        0
ZeroCRAS       0
$Id: tkregister2.c,v 1.121.2.1 2011/03/28 20:25:16 greve Exp $
Diagnostic Level -1
---- Input registration matrix --------
 0.998   0.048   0.037   0.030;
-0.032  -0.090   0.995   0.710;
 0.051  -0.995  -0.089  -0.565;
 0.000   0.000   0.000   1.000;
float2int = 0
---------------------------------------
INFO: loading target /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/orig.mgz
Ttarg: --------------------
-1.000   0.000   0.000   128.000;
 0.000   0.000   1.000  -128.000;
 0.000  -1.000   0.000   128.000;
 0.000   0.000   0.000   1.000;
INFO: loading movable /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/orig/T2raw.mgz
Tmov: --------------------
-0.700   0.000   0.000   95.889;
 0.000   0.000   0.667  -128.000;
 0.000  -0.667   0.000   128.000;
 0.000   0.000   0.000   1.000;
mkheaderreg = 0, float2int = 0
---- Input registration matrix --------
 0.998   0.048   0.037   0.030;
-0.032  -0.090   0.995   0.710;
 0.051  -0.995  -0.089  -0.565;
 0.000   0.000   0.000   1.000;
Determinant 1
subject = sub007
RegMat ---------------------------
 0.998   0.048   0.037   0.030;
-0.032  -0.090   0.995   0.710;
 0.051  -0.995  -0.089  -0.565;
 0.000   0.000   0.000   1.000;
transformed matrix:
 1.000  -0.006  -0.011  -0.131;
 0.006   1.000   0.016  -0.013;
 0.011  -0.016   1.000  -0.292;
 0.000   0.000   0.000   1.000;
transformed matrix:
 0.699   0.034   0.022   21.553;
 0.026  -0.059  -0.664   263.990;
-0.034   0.663  -0.060   16.377;
 0.000   0.000   0.000   1.000;
Cleaning up
 
Started at Thu Aug 8 23:42:01 CEST 2013 
Ended   at Thu Aug  8 23:54:16 CEST 2013
BBR-Run-Time-Sec 735
 
bbregister Done
To check results, run:
tkregister2 --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/orig/T2raw.mgz --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub007/mri/transforms/T2raw.dat --surf